c0015	c0023	Y	Y	N	c5491	c0042
	c0015	2	30	0.184233	Hypothetical protein yaaH
	c0016	1	26	-1.173319	Hypothetical protein yaaW
	c0017	-1	22	-2.313863	Hypothetical protein yaaI precursor
	c0018	-1	20	-3.073264	Putative glutamate dehydrogenase
	c0019	-2	19	-3.429336	Chaperone protein dnaK
	c0020	-2	19	-4.400166	Chaperone protein dnaJ
	c0021	0	24	-6.049081	Putative conserved protein
	c0022	0	23	-5.237722	Hypothetical protein
	c0023	0	22	-4.555444	Hypothetical protein
	16#c0016	PF07201#Hypersensitivity response secretion protein HrpJ	30	0.006
		>PF07201#Hypersensitivity response secretion protein HrpJ
		          Length = 293
		
		 Score = 30.2 bits (68), Expect = 0.006
		 Identities = 9/51 (17%), Positives = 24/51 (47%)
		
		Query: 138 LHAVDARVNELEELLPLLMKDKLLAKGVSHLLSSQLTRILRTHAAMSVLGH 188
		           +  V+ +VN+    +P L + + +++ +S L +S    + +  A +     
		Sbjct: 80  VSDVEEQVNQYLSKVPELEQKQNVSELLSLLSNSPNISLSQLKAYLEGKSE 130
		
		
	19#c0019	SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein s...	142	7e-40
		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein
		           signature.
		          Length = 347
		
		 Score =  142 bits (361), Expect = 7e-40
		 Identities = 83/387 (21%), Positives = 149/387 (38%), Gaps = 84/387 (21%)
		
		Query: 5   IGIDLGTTNSCVAIMDGTTPRVLENAEGDRTTPSIIAYTQDGET------LVGQPAKRQA 58
		           + IDLGT N+ + +       + E        PS++A  QD          VG  AK+  
		Sbjct: 13  LSIDLGTANTLIYVKGQGIV-LNE--------PSVVAIRQDRAGSPKSVAAVGHDAKQML 63
		
		Query: 59  VTNPQNTLFAIKRLIGRRFQDEEVQRDVSIMPFKIIAADNGDAWVEVKGQKMAPPQISAE 118
		              P N + AI+ +           +D  I  F +                     +   
		Sbjct: 64  GRTPGN-IAAIRPM-----------KDGVIADFFVTEK------------------MLQH 93
		
		Query: 119 VLKKMKKTAEDYLGEPVTEAVITVPAYFNDAQRQATKDAGRIAGLEVKRIINEPTAAALA 178
		            +K++     +    P    ++ VP      +R+A +++ + AG     +I EP AAA+ 
		Sbjct: 94  FIKQVHS---NSFMRPSPRVLVCVPVGATQVERRAIRESAQGAGAREVFLIEEPMAAAIG 150
		
		Query: 179 YGL--DKGTGNRTIAVYDLGGGTFDISIIEIDEVDGEKTFEVLATNGDTHLGGEDFDSRL 236
		            GL   + TG+    V D+GGGT ++++I ++ V           +    +GG+ FD  +
		Sbjct: 151 AGLPVSEATGS---MVVDIGGGTTEVAVISLNGV---------VYSSSVRIGGDRFDEAI 198
		
		Query: 237 INYLVEEFKKDQGIDLRNDPLAMQRLKEAAEKAKIELSSA----QQTDVNLPYITADATG 292
		           INY+   +    G             +  AE+ K E+ SA    +  ++ +         
		Sbjct: 199 INYVRRNYGSLIG-------------EATAERIKHEIGSAYPGDEVREIEVRGRNLAEGV 245
		
		Query: 293 PKHMNIKVTRAKLESLVEDLVNRSIEPLKVALQD-AGLSVSDIDD--VILVGGQTRMPMV 349
		           P+   +  +   LE+L E  +   +  + VAL+       SDI +  ++L GG   +  +
		Sbjct: 246 PRGFTLN-SNEILEALQEP-LTGIVSAVMVALEQCPPELASDISERGMVLTGGGALLRNL 303
		
		Query: 350 QKKVAEFFGKEPRKDVNPDEAVAIGAA 376
		            + + E  G       +P   VA G  
		Sbjct: 304 DRLLMEETGIPVVVAEDPLTCVARGGG 330
		
		
c0069	c0083	Y	Y	N	c0054	c0092
	c0069	-2	19	3.259008	Ribosomal large subunit pseudouridine synthase
	c0070	-3	20	3.901451	RNA polymerase associated protein
	c0071	-3	17	3.724388	DNA polymerase II
	c0072	-4	17	3.398484	Transposase
	c0073	-2	17	3.311702	L-ribulose-5-phosphate 4-epimerase
	c0074	-2	13	0.748616	L-arabinose isomerase
	c0075	1	20	-2.708149	L-ribulokinase
	c0076	2	28	-6.562227	Arabinose operon Regulatory protein
	c0077	2	30	-6.017303	Hypothetical protein
	c0078	1	18	-1.377101	Hypothetical protein
	c0079	1	14	-0.288022	Hypothetical protein
	c0080	0	14	2.487318	Hypothetical protein
	c0081	1	15	3.397143	Hypothetical protein yabI
	c0082	1	16	3.104813	Thiamine transport ATP-binding protein thiQ
	c0083	2	16	2.782491	Thiamine transport system permease protein thiP
	76#c0080	SECYTRNLCASE#Preprotein translocase SecY subunit signature.	27	0.042
		>SECYTRNLCASE#Preprotein translocase SecY subunit signature.
		          Length = 437
		
		 Score = 26.6 bits (59), Expect = 0.042
		 Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
		
		Query: 2   SKYIYILLSF-LVLFFIFFYAYISLMSKE 29
		              IYI+  F L++FF FFY  IS   +E
		Sbjct: 314 DHPIYIVTYFLLIVFFAFFYVAISFNPEE 342
		
		
	79#c0083	PF06580#Sensor histidine kinase	31	0.014
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 30.6 bits (69), Expect = 0.014
		 Identities = 17/80 (21%), Positives = 27/80 (33%), Gaps = 5/80 (6%)
		
		Query: 4   RRQPLIPGWLIPGVSAATLVVAVALAAFLALWWNAPQGDWVAVWQDS-YLWHVVRFSFWQ 62
		           R      GWL   +    L V  A      +W+ A      ++W+   ++          
		Sbjct: 60  RSFIKRQGWLKLNMGQIILRVLPACVVIGMVWFVAN----TSIWRLLAFINTKPVAFTLP 115
		
		Query: 63  AFLSAQLSVVPAIFLARALY 82
		             LS   +VV   F+   LY
		Sbjct: 116 LALSIIFNVVVVTFMWSLLY 135
		
		
c0130	c0141	Y	Y	N	c0115	c0158
	c0130	1	18	-4.390923	AmpE protein
	c0131	3	21	-5.051009	Aromatic amino acid transport protein aroP
	c0133	2	25	-5.802544	Hypothetical protein
	c0134	0	19	-1.388651	Hypothetical protein
	c0136	1	18	-0.948544	Hypothetical protein
	c0137	4	25	0.920235	Hypothetical protein
	c0138	4	32	1.484912	Unknown protein of IS629 encoded within
	c0139	3	25	1.762771	Putative Transposase for IS629
	c0140	2	30	2.242634	Pyruvate dehydrogenase complex repressor
	c0141	2	31	2.076162	Hypothetical protein
	133#c0137	PF04605#Virulence-associated protein D (VapD)	26	0.019
		>PF04605#Virulence-associated protein D (VapD)
		          Length = 125
		
		 Score = 26.0 bits (57), Expect = 0.019
		 Identities = 13/34 (38%), Positives = 20/34 (58%)
		
		Query: 1   MYNFKDKIEDYTEREFIELLGEFTNPTGDNAQLK 34
		            Y+ K+ I+D   ++F + L EFT  T  N +LK
		Sbjct: 88  QYSLKETIQDLCAKDFHQKLKEFTEKTPKNQKLK 121
		
		
c0161	c0188	Y	Y	N	c0146	c0185
	c0161	0	20	-3.442137	Hypothetical protein
	c0162	0	20	-4.117505	Hypothetical protein yadD
	c0163	3	24	-5.101464	Hypothetical protein
	c0164	3	26	-5.636171	Pantoate--beta-alanine ligase
	c0165	3	28	-6.742750	3-methyl-2-oxobutanoate
	c0166	3	32	-7.991245	Hypothetical fimbrial-like protein yadC
	c0167	2	31	-7.660489	Protein yadK
	c0168	2	31	-7.994574	Hypothetical protein yadL precursor
	c0169	2	31	-8.164059	Hypothetical protein yadM precursor
	c0170	1	28	-7.384391	Outer membrane usher protein htrE precursor
	c0171	0	21	-3.133332	Chaperone protein ecpD precursor
	c0172	-1	16	-0.997921	Hypothetical fimbrial-like protein yadN
	c0173	-2	15	0.628156	Hypothetical protein
	c0174	-1	14	1.030314	Hypothetical protein
	c0175	0	14	2.098698	2-amino-4-hydroxy-6-
	c0176	0	14	3.534896	Poly(A) polymerase
	c0177	1	16	3.007265	Hypothetical protein yadB
	c0178	0	17	3.301794	DnaK suppressor protein
	c0179	0	17	3.061849	Sugar fermentation stimulation protein A
	c0180	0	14	2.483898	2'-5' RNA ligase
	c0181	-1	14	2.582955	ATP-dependent helicase hrpB
	c0182	-2	15	1.737249	Hypothetical protein
	c0183	-2	17	3.321866	Penicillin-binding protein 1B
	c0184	-2	15	3.456078	Hypothetical protein
	c0185	-1	14	3.530132	Ferrichrome-iron receptor precursor
	c0186	0	16	4.609017	Ferrichrome transport ATP-binding protein fhuC
	c0187	0	15	4.343782	Ferrichrome-binding periplasmic protein
	c0188	0	15	4.335000	Ferrichrome transport system permease protein
	159#c0165	FLGMRINGFLIF#Flagellar M-ring protein signature.	29	0.018
		>FLGMRINGFLIF#Flagellar M-ring protein signature.
		          Length = 559
		
		 Score = 29.2 bits (65), Expect = 0.018
		 Identities = 27/100 (27%), Positives = 40/100 (40%), Gaps = 22/100 (22%)
		
		Query: 110 MVKIEGGEWL----VETVQMLTERAVPVCGHLGLTPQSVNIFGGYKVQGRGDEAGDRLL- 164
		            V +E G  L    +  V  L   AV      GL P +V +          D++G  LL 
		Sbjct: 176 TVTLEPGRALDEGQISAVVHLVSSAVA-----GLPPGNVTLV---------DQSG-HLLT 220
		
		Query: 165 -SDALALEAAGAQLLVLECVPVELAKRITEALAIPVIGIG 203
		            S+    +   AQL     V   + +RI   L+ P++G G
		Sbjct: 221 QSNTSGRDLNDAQLKFANDVESRIQRRIEAILS-PIVGNG 259
		
		
	164#c0170	PF00577#Outer membrane usher protein FimD	807	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score =  807 bits (2085), Expect = 0.0
		 Identities = 263/869 (30%), Positives = 429/869 (49%), Gaps = 40/869 (4%)
		
		Query: 12  IATFCALLYSNSALCAELVEYDHTFLMGKDASNIDLSRYTEGNPTLPGIYDVSVYVNDQP 71
		           +   CA         AE + ++  FL     +  DLSR+  G    PG Y V +Y+N+  
		Sbjct: 30  LFVACAFAAQAPLSSAE-LYFNPRFLADDPQAVADLSRFENGQELPPGTYRVDIYLNNGY 88
		
		Query: 72  IMSQSIAFAVIEGKKNAQACITQKNLLQFHISSPDKNSEKAILLKRDDDLGDCLNLAEMI 131
		           + ++ + F   + ++    C+T+  L    +++   +    +          C+ L  MI
		Sbjct: 89  MATRDVTFNTGDSEQGIVPCLTRAQLASMGLNTASVSGMNLL------ADDACVPLTSMI 142
		
		Query: 132 PQSSIRYDVNDQRLDIDVPQAWIMKNYQNYVDPSLWENGINAAMLSYNLNGYHSESP-GR 190
		             ++ + DV  QRL++ +PQA++    + Y+ P LW+ GINA +L+YN +G   ++  G 
		Sbjct: 143 HDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLLNYNFSGNSVQNRIGG 202
		
		Query: 191 TNDSIYAAFNGGINLGAWRLRASGNYNWMTNVHS-----DYDFQNRYLQRDLASLRSQLV 245
		            +   Y     G+N+GAWRLR +  +++ ++  S      +   N +L+RD+  LRS+L 
		Sbjct: 203 NSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSKNKWQHINTWLERDIIPLRSRLT 262
		
		Query: 246 IGESYTTGETFDSVSIRGIRLYSDSRMLPPVLASFAPIIHGVANTNAKVTVMQNGYKIYE 305
		           +G+ YT G+ FD ++ RG +L SD  MLP     FAP+IHG+A   A+VT+ QNGY IY 
		Sbjct: 263 LGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIARGTAQVTIKQNGYDIYN 322
		
		Query: 306 TTVPPGAFAIDDLSPSGYGSDLIVTIEEADGTKRTFSQPFSSVVQMLRPGVGRWDISAGQ 365
		           +TVPPG F I+D+  +G   DL VTI+EADG+ + F+ P+SSV  + R G  R+ I+AG+
		Sbjct: 323 STVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSVPLLQREGHTRYSITAGE 382
		
		Query: 366 VLKD-SIQDEPNLFQASYYYGLNNYLTGYTGIQLTDNNYTAGLLGLGMNT-PVGAFSVDV 423
		                + Q++P  FQ++  +GL    T Y G QL D  Y A   G+G N   +GA SVD+
		Sbjct: 383 YRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLAD-RYRAFNFGIGKNMGALGALSVDM 441
		
		Query: 424 THSNVSIPDDKTYQGQSYRISWNKLFENTSTSLNIAAYRYSTQHYLGLNDALTLIDEVEH 483
		           T +N ++PDD  + GQS R  +NK    + T++ +  YRYST  Y    D         +
		Sbjct: 442 TQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSGYFNFADTTYSRMNGYN 501
		
		Query: 484 PE-----QDLEPKSMRNYSRM---KNQVTVSINQPLKFEKKDYGSFYLSGSWSDYWASGQ 535
		            E       ++PK    Y+     + ++ +++ Q L        + YLSGS   YW +  
		Sbjct: 502 IETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQL----GRTSTLYLSGSHQTYWGTSN 557
		
		Query: 536 NSTNYSIGYSNSASWGSYSISAQRSLNE-DGQTDDSIYLSFTIPIENLLGTEHRSS-GFQ 593
		               +  G + +    ++++S   + N      D  + L+  IP  + L ++ +S     
		Sbjct: 558 VDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNIPFSHWLRSDSKSQWRHA 617
		
		Query: 594 SIDTQLNSDFKGNNQLNISSSGYSDT-NRISYSVNTGYMMNKSSDDLSYIGGYASYESPW 652
		           S    ++ D  G         G     N +SYSV TGY      +  S      +Y   +
		Sbjct: 618 SASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGDGNSGSTGYATLNYRGGY 677
		
		Query: 653 GTLSGSASASSDNSRQFSLNTDGGFVLHSGGLTFSNDSFSDSDTLAVIQAPGAKGARINY 712
		           G  +   S S D  +Q      GG + H+ G+T        +DT+ +++APGAK A++  
		Sbjct: 678 GNANIGYSHSDDI-KQLYYGVSGGVLAHANGVTLGQPL---NDTVVLVKAPGAKDAKVEN 733
		
		Query: 713 GNST-VDRWGYGVTSALSPYHENRIALDINDLENDVELKSTSTVAVPRQGAVVFADFETV 771
		                 D  GY V    + Y ENR+ALD N L ++V+L +     VP +GA+V A+F+  
		Sbjct: 734 QTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVPTRGAIVRAEFKAR 793
		
		Query: 772 QGQSAIMNIVRSDGKNIPFAADIYDEQNNIIGNVGQGGQAFVRGIEQEGNIRITWIEEGK 831
		            G   +M  +  + K +PF A +  E +   G V   GQ ++ G+   G +++ W EE  
		Sbjct: 794 VGIKLLMT-LTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLAGKVQVKWGEEEN 852
		
		Query: 832 PVSCFAHYQQNTTSEKIAQSIILNGLRCQ 860
		              C A+YQ    S++  Q +      C+
		Sbjct: 853 A-HCVANYQLPPESQQ--QLLTQLSAECR 878
		
		
	181#c0187	FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature.	509	0.0
		>FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature.
		          Length = 296
		
		 Score =  509 bits (1312), Expect = 0.0
		 Identities = 293/296 (98%), Positives = 294/296 (99%)
		
		Query: 2   MSGLPLISRRRLLTAMALSPLLWQMNTAHAAVIDPNRIVALEWLPVELLLALGIVPYGVA 61
		           MSGLPLISRRRLLTAMALSPLLWQMNTAHAA IDPNRIVALEWLPVELLLALGIVPYGVA
		Sbjct: 1   MSGLPLISRRRLLTAMALSPLLWQMNTAHAAAIDPNRIVALEWLPVELLLALGIVPYGVA 60
		
		Query: 62  DTINYRLWVSEPPLPDSVIDVGLRTEPNLELLTEMKPSFMVWSAGYGPSPEMLARIAPGR 121
		           DTINYRLWVSEPPLPDSVIDVGLRTEPNLELLTEMKPSFMVWSAGYGPSPEMLARIAPGR
		Sbjct: 61  DTINYRLWVSEPPLPDSVIDVGLRTEPNLELLTEMKPSFMVWSAGYGPSPEMLARIAPGR 120
		
		Query: 122 GFNFSDGKQPLAMARKSLTEMADLLNLQSAAETHLAHYEDFIRSMKPRFVKRGARPLLLT 181
		           GFNFSDGKQPLAMARKSLTEMADLLNLQSAAETHLA YEDFIRSMKPRFVKRGARPLLLT
		Sbjct: 121 GFNFSDGKQPLAMARKSLTEMADLLNLQSAAETHLAQYEDFIRSMKPRFVKRGARPLLLT 180
		
		Query: 182 TLIDPRHMLVFGPNSLFQEILDEYGIPNAWQGETNFWGSTAVSIDRLAAYKDVDVLCFDH 241
		           TLIDPRHMLVFGPNSLFQEILDEYGIPNAWQGETNFWGSTAVSIDRLAAYKDVDVLCFDH
		Sbjct: 181 TLIDPRHMLVFGPNSLFQEILDEYGIPNAWQGETNFWGSTAVSIDRLAAYKDVDVLCFDH 240
		
		Query: 242 DNSKDMDALMATPLWQAMPFVRAGRFQRVPAVWFYGATLSAMHFVRILDNAIGGKA 297
		           DNSKDMDALMATPLWQAMPFVRAGRFQRVPAVWFYGATLSAMHFVR+LDNAIGGKA
		Sbjct: 241 DNSKDMDALMATPLWQAMPFVRAGRFQRVPAVWFYGATLSAMHFVRVLDNAIGGKA 296
		
		
c0249	c0365	Y	Y	Y	c0232	c0275
	c0249	-1	26	-3.794754	Probable hydroxyacylglutathione hydrolase
	c0250	-1	23	-1.759738	Hypothetical protein yafS
	c0251	0	25	-2.163845	Ribonuclease HI
	c0252	1	26	-1.388651	DNA polymerase III, epsilon chain
	c0253	4	21	-0.259833	*Hypothetical protein
	c0254	4	18	0.199482	Hypothetical protein
	c0255	4	18	0.802441	Hypothetical protein
	c0256	4	22	-0.740423	Hypothetical protein
	c0257	4	21	-0.005827	Unknown in ISEc8
	c0258	2	21	0.348289	Unknown in ISEc8
	c0259	1	20	-0.441345	Hypothetical protein
	c0260	2	24	-0.685948	Hypothetical protein
	c0261	2	24	-0.467677	Hypothetical protein
	c0262	3	26	1.982997	Hypothetical protein
	c0263	3	27	2.124675	Putative Transposase
	c0264	6	28	2.808750	Hypothetical protein
	c0265	6	26	3.231107	Hypothetical protein
	c0268	6	29	4.020409	Hypothetical protein
	c0269	8	29	4.841583	Hypothetical protein yeeV
	c0270	8	28	4.797535	Hypothetical protein yeeU
	c0271	9	28	4.986754	Hypothetical protein
	c0272	9	26	4.865144	Hypothetical protein yeeT
	c0273	8	26	5.082844	Putative radC-like protein yeeS
	c0274	7	26	4.661954	Hypothetical protein
	c0275	4	22	2.691045	Hypothetical protein yafX
	c0276	3	23	1.525834	Hypothetical protein
	c0277	2	20	-0.854952	Hypothetical protein
	c0278	3	20	-4.265736	Hypothetical protein yafZ
	c0279	3	18	-4.401834	Hypothetical protein ykfF
	c0280	2	20	-3.151222	Hypothetical protein
	c0281	3	19	-1.485102	Hypothetical protein
	c0282	4	20	-1.057400	Hypothetical protein
	c0283	5	22	0.225605	Hypothetical protein
	c0284	6	25	1.771522	Conserved hypothetical protein
	c0285	6	22	0.190975	Conserved hypothetical protein
	c0286	6	21	-1.480478	Conserved hypothetical protein
	c0287	7	27	-5.837158	Hypothetical protein
	c0288	6	31	-6.997625	Hypothetical protein
	c0289	1	19	-3.843699	Hypothetical protein
	c0290	-1	16	-3.164352	Hypothetical protein
	c0291	-2	17	-1.569043	Hypothetical protein
	c0292	-1	17	-0.118372	Hypothetical protein
	c0293	-1	16	1.409403	Hypothetical protein
	c0294	0	17	2.235289	Hypothetical protein
	c0295	1	20	2.093539	Hypothetical protein
	c0296	0	19	1.572432	Hypothetical protein
	c0297	0	24	-0.602024	Hypothetical protein
	c0298	7	32	-4.225530	Hypothetical protein
	c0299	6	33	-2.596380	Hypothetical protein
	c0300	9	24	0.821875	Hypothetical protein
	c0301	10	24	1.540642	Hypothetical protein
	c0302	6	21	-2.177747	Hypothetical protein
	c0303	5	20	-2.248250	Hypothetical protein
	c0304	5	21	-2.251396	Hypothetical protein
	c0305	5	24	-1.735493	Hypothetical protein
	c0306	4	26	-2.601484	Conserved hypothetical protein
	c0307	5	25	-3.163342	Hypothetical protein
	c0308	8	29	-2.761697	Haemolysin expression modulating protein
	c0309	8	29	-2.564134	Conserved hypothetical protein
	c0310	8	30	-1.989252	Hypothetical protein
	c0311	9	34	-3.416034	Hypothetical protein
	c0312	9	32	-3.902617	Hypothetical protein
	c0313	6	33	-6.495776	Hypothetical protein
	c0314	5	32	-8.870473	Hypothetical protein
	c0315	5	34	-9.635876	Hypothetical protein
	c0316	4	36	-11.332366	Hypothetical protein
	c0317	5	39	-12.650523	Conserved hypothetical protein
	c0318	5	43	-13.534001	Putative sugar-phosphate isomerase
	c0319	6	42	-13.693178	Putative oligogalacturonide lyase
	c0320	6	44	-14.587699	Hypothetical protein
	c0321	7	45	-15.033875	Gluconate 5-dehydrogenase
	c0322	8	45	-15.223186	Putative oligogalacturonide transporter
	c0323	7	45	-15.374588	Putative exopolygalacturonate lyase
	c0324	7	42	-15.143925	Hypothetical protein
	c0325	5	40	-12.714071	Hypothetical protein
	c0326	3	37	-10.520841	Hypothetical protein
	c0327	1	28	-8.161508	Conserved hypothetical protein
	c0328	0	26	-6.656589	Hypothetical protein
	c0329	-1	23	-5.714421	Hypothetical protein
	c0330	-1	22	-5.768017	Putative deoxyribose operon repressor
	c0331	-1	22	-5.691265	Putative ribokinase
	c0332	-1	20	-4.583718	Putative L-fucose permease
	c0333	-2	18	-3.824456	Putative cytoplasmic protein
	c0334	-2	19	-3.536261	Putative integral membrane protein
	c0335	-1	17	-2.846754	Hypothetical protein
	c0336	0	18	-3.227731	PTS system, mannitol (Cryptic)-specific IIA
	c0337	4	19	2.846773	Putative conserved protein
	c0338	5	20	3.308484	Hypothetical protein
	c0339	4	19	2.991184	Hypothetical protein
	c0340	4	21	1.902140	Conserved hypothetical protein
	c0341	4	20	1.698008	Hypothetical protein
	c0345	4	21	1.797624	Putative member of ShlA/HecA/FhaA exoprotein
	c0348	4	23	-1.906450	Hypothetical protein
	c0349	4	22	-1.533021	Putative Transposase within prophage
	c0350	6	25	-1.852878	Pic serine protease precursor
	c0351	3	26	-4.108091	Hypothetical protein
	c0352	4	27	-2.928805	Partial Transposase
	c0354	5	32	-4.344230	Unknown protein of IS629 encoded within
	c0355	5	32	-3.546771	Hypothetical protein
	c0357	7	32	-3.691166	Hypothetical protein
	c0358	7	30	-3.117230	Hypothetical protein
	c0359	6	31	-3.884195	Hypothetical protein
	c0360	6	32	-4.701044	Hypothetical protein
	c0361	7	31	-4.768164	Putative cytoplasmic membrane export protein
	c0362	7	31	-5.824186	Putative membrane spanning export protein
	c0363	7	31	-6.448175	Putative RTX family exoprotein A gene
	c0364	2	33	-11.006199	Hypothetical protein
	c0365	0	27	-6.994370	Hypothetical protein
	239#c0249	BINARYTOXINB#Binary toxin B family signature.	34	5e-04
		>BINARYTOXINB#Binary toxin B family signature.
		          Length = 764
		
		 Score = 34.3 bits (78), Expect = 5e-04
		 Identities = 12/55 (21%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
		
		Query: 186 NDYYRKVKELRAKNQITLPVILKNERQINVFLRT----EDIDLINVINEETLLQQ 236
		            +   ++ EL A N  T+   +K   ++N+ +R      D + I V  +E+++++
		Sbjct: 589 QNIKNQLAELNATNIYTVLDKIKLNAKMNILIRDKRFHYDRNNIAVGADESVVKE 643
		
		
	248#c0258	PF06580#Sensor histidine kinase	33	6e-04
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 33.3 bits (76), Expect = 6e-04
		 Identities = 9/74 (12%), Positives = 29/74 (39%), Gaps = 8/74 (10%)
		
		Query: 16  LRQKDQQLSLVEETKTFLRSALARAEEKIEEDEREIEHLRA--QIEKLRRMLFGTCSEKL 73
		           L    +   ++      +R +L  +  +      E+  + +  Q+  ++   F    ++L
		Sbjct: 187 LEDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQ---FE---DRL 240
		
		Query: 74  RREVEQAEALLKQR 87
		           + E +   A++  +
		Sbjct: 241 QFENQINPAIMDVQ 254
		
		
	256#c0268	HTHFIS#FIS bacterial regulatory protein HTH signature.	28	0.034
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 28.3 bits (63), Expect = 0.034
		 Identities = 8/39 (20%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
		
		Query: 84  NGAQFRQLCETTDWVDAGE-NVLLFGASGLGKSHLAAAI 121
		             A  +++      +   +  +++ G SG GK  +A A+
		Sbjct: 142 RSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180
		
		
	285#c0297	PF05272#Virulence-associated E family protein	33	0.002
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 32.7 bits (74), Expect = 0.002
		 Identities = 12/22 (54%), Positives = 13/22 (59%)
		
		Query: 32  VTVLLGPNGCGKSTLLRALAGL 53
		             VL G  G GKSTL+  L GL
		Sbjct: 598 SVVLEGTGGIGKSTLINTLVGL 619
		
		
	309#c0321	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	132	1e-39
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score =  132 bits (333), Expect = 1e-39
		 Identities = 77/262 (29%), Positives = 131/262 (50%), Gaps = 14/262 (5%)
		
		Query: 4   INMFSLKGKNALVTGASYGIGFEIAKALSNAGATIIFNDVIEENIKKGLAAYKENNINAH 63
		           +N   ++GK A +TGA+ GIG  +A+ L++ GA I   D   E ++K +++ K    +A 
		Sbjct: 1   MNAKGIEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAE 60
		
		Query: 64  GYLFDITDEQSVKENIKKIESDVGIIDILVNNAGIIQRKPMLETTAADYRKIIDIDLTGQ 123
		            +  D+ D  ++ E   +IE ++G IDILVN AG+++   +   +  ++     ++ TG 
		Sbjct: 61  AFPADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGV 120
		
		Query: 124 FIMAKAVLPSMIKKGHGKIINICSMMSELGRETVVGYASAKGGLKMLTKNICSEFGEKNI 183
		           F  +++V   M+ +  G I+ + S  + + R ++  YAS+K    M TK +  E  E NI
		Sbjct: 121 FNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNI 180
		
		Query: 184 QCNGIGPGYIAT--------PQTAPLREIQPDGSRHPFDQFIISKTPAGRWGKPDDLAGA 235
		           +CN + PG   T         +    + I+        + F     P  +  KP D+A A
		Sbjct: 181 RCNIVSPGSTETDMQWSLWADENGAEQVIKGSL-----ETFKTG-IPLKKLAKPSDIADA 234
		
		Query: 236 AIFLASDASNFINGHILYVDGG 257
		            +FL S  +  I  H L VDGG
		Sbjct: 235 VLFLVSGQAGHITMHNLCVDGG 256
		
		
	330#c0345	PF05860#haemagglutination activity domain.	74	2e-17
		>PF05860#haemagglutination activity domain.
		          Length = 117
		
		 Score = 74.1 bits (182), Expect = 2e-17
		 Identities = 25/139 (17%), Positives = 44/139 (31%), Gaps = 26/139 (18%)
		
		Query: 32  AVITPQNGA---GMDKAANGVPVVNIATPNGAGISHNRFTDYNVGKEGLILNNATGKLNP 88
		           A ITP                 ++   T  G+ + H+ F +++V   G    N       
		Sbjct: 1   AQITPDTTLPINSNITTEGNTRIIERGTQAGSNLFHS-FQEFSVPTSGTAFFNNPT---- 55
		
		Query: 89  TQLGGLIQNNPNLKAGGEAKGIINEVTGGKRSLLQGYTEVAGKAANVMVANPYGITCDGC 148
		                              + II+ VTGG  S + G       A N+ + NP GI     
		Sbjct: 56  -----------------NIQNIISRVTGGSVSNIDGLIRANATA-NLFLINPNGIIFGQN 97
		
		Query: 149 GFINTPHATLTTGKPVMNA 167
		             ++   + + +    +  
		Sbjct: 98  ARLDIGGSFVGSTANRLKF 116
		
		
	333#c0350	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	738	0.0
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score =  738 bits (1906), Expect = 0.0
		 Identities = 260/862 (30%), Positives = 401/862 (46%), Gaps = 116/862 (13%)
		
		Query: 53  SQAGIVRSDIAYQIYRDFAENKGLFVPGATDIPVYDKDGKLVGRL--DKAPMADFSSVSS 110
		           ++A +VR D+ YQI+RDFAENKG F  GAT++ V DK+ K +G    +  PM DFS V  
		Sbjct: 23  TEAALVRDDVDYQIFRDFAENKGKFSVGATNVLVKDKNNKDLGTALPNGIPMIDFSVVDV 82
		
		Query: 111 N-GVATLVSPQYIVSVKH-NGGYQSVSFGN------------------GKNTYSLVDRNN 150
		           +  +ATL++PQY+V VKH + G   + FGN                   +N Y  V++N 
		Sbjct: 83  DKRIATLINPQYVVGVKHVSNGVSELHFGNLNGNMNNGNAKAHRDVSSEENRYFSVEKNE 142
		
		Query: 151 HSSV-----------------DFHAPRLNKLVTEVIPSAITSEGTKANAYKDTERYTAFY 193
		           + +                  D++ PRL+K VTEV P   ++  + A  Y D  +Y AF 
		Sbjct: 143 YPTKLNGKTVTTEDQTQKRREDYYMPRLDKFVTEVAPIEASTASSDAGTYNDQNKYPAFV 202
		
		Query: 194 RVGSGTQYTKDKDGNLVKVAGGYAFKTGGTTGVPLISDATIVSNPGQTYNPVNG------ 247
		           R+GSG+Q+   K  N   +   +         V       I   P +  +  NG      
		Sbjct: 203 RLGSGSQFIYKKGDNYSLILNNHEVGGNNLKLVGDAYTYGIAGTPYKVNHENNGLIGFGN 262
		
		Query: 248 ---------------PLPDYGAPGDSGSPLFAYDEQQKKWVIVAVLRAYAGINGAT-NWW 291
		                          PL +Y   GDSGSPLF YD ++ KW+ +     +AG N  +   W
		Sbjct: 263 SKEEHSDPKGILSQDPLTNYAVLGDSGSPLFVYDREKGKWLFLGSYDFWAGYNKKSWQEW 322
		
		Query: 292 NVIPTDYLNQVMQDDFDAPVDFVSGLPPLNWTYDKTSGTGTLSQGSKNWTMHGQKDNDLN 351
		           N+  + +   V+  D  +    +      +W+ +  + T T  + S N  +   KD   N
		Sbjct: 323 NIYKSQFTKDVLNKD--SAGSLIGSKTDYSWSSNGKTSTITGGEKSLNVDLADGKDKP-N 379
		
		Query: 352 AGKNLVFSGQNGAIVLKDSVTQGAGYLEFKDSYTVSAES-GKTWTGAGIITDKGTNVTWK 410
		            GK++ F G +G + L +++ QGAG L F+  Y V   S   TW GAG+   +G  VTWK
		Sbjct: 380 HGKSVTFEG-SGTLTLNNNIDQGAGGLFFEGDYEVKGTSDNTTWKGAGVSVAEGKTVTWK 438
		
		Query: 411 VNGVAGDNLHKLGEGTLTINGTGVNPGGLKTGDGTVVLNQQADTAGNVQAFSSVNLASGR 470
		           V+    D L K+G+GTL + GTG N G LK GDGTV+L QQ + +G   AF+SV + SGR
		Sbjct: 439 VHNPQYDRLAKIGKGTLIVEGTGDNKGSLKVGDGTVILKQQTNGSGQ-HAFASVGIVSGR 497
		
		Query: 471 PTVVLGDARQVNPDNISWGYRGGKLDLNGNAVTFTRLQAADYGAVITN-NAQQKSRLLLD 529
		            T+VL D +QV+P++I +G+RGG+LDLNGN++TF  ++  D GA + N N    S + + 
		Sbjct: 498 STLVLNDDKQVDPNSIYFGFRGGRLDLNGNSLTFDHIRNIDDGARLVNHNMTNASNITIT 557
		
		Query: 530 LKAQDT--------NVSVP-IGSISPFGGTGTPGNLYSMILNGQTRFYILKSASYGNTLW 580
		            ++  T        N+  P   +   F      G LY + L   T + + K AS  + L 
		Sbjct: 558 GESLITDPNTITPYNIDAPDEDNPYAFRRIKDGGQLY-LNLENYTYYALRKGASTRSELP 616
		
		Query: 581 GNSLNDPAQWEFVGTDKNKAVQTVKDRILAGRAKQPVIF----HGQLTGNMDVTIPQLPG 636
		            NS      W ++G   ++A + V + I   R      +     G+  GN++VT      
		Sbjct: 617 KNSGESNENWLYMGKTSDEAKRNVMNHINNERMNGFNGYFGEEEGKNNGNLNVTFKGKSE 676
		
		Query: 637 GRKVILDGSVNLPEGTLSEDSGTLIFQGHPVIHA-SVSGSAPVSLN-----------QKD 684
		             + +L G  NL  G L+ + GTL   G P  HA  ++G +    +           + D
		Sbjct: 677 QNRFLLTGGTNL-NGDLTVEKGTLFLSGRPTPHARDIAGISSTKKDPHFAENNEVVVEDD 735
		
		Query: 685 WENRQFIMKTLSLK-DADFHLSRN-ASLNSDIKSDNS---HITLGSDRVFVDKNDGTGNY 739
		           W NR F   T+++  +A  +  RN A++ S+I + N    HI   +      ++D TG  
		Sbjct: 736 WINRNFKATTMNVTGNASLYSGRNVANITSNITASNKAQVHIGYKTGDTVCVRSDYTGY- 794
		
		Query: 740 VILEEGTSVPDTVNDR-------SQYEGNITLDHNSTLDIGSR--FTGGIEAYDSAVSIT 790
		                 T   D ++D+       +   GN+ L  ++   +G    F       +S V +T
		Sbjct: 795 -----VTCTTDKLSDKALNSFNPTNLRGNVNLTESANFVLGKANLFGTIQSRGNSQVRLT 849
		
		Query: 791 SPDVLLTAPGAFAGSSLTVHDG 812
		             +      G      L + +G
		Sbjct: 850 E-NSHWHLTGNSDVHQLDLANG 870
		
		
		
		 Score = 80.1 bits (197), Expect = 4e-17
		 Identities = 41/154 (26%), Positives = 65/154 (42%), Gaps = 18/154 (11%)
		
		Query: 864  DNATLEITRGAHASGDIHASAASTVTIGSDTPAELASAETTASAFAG--------SLLEG 915
		            + A + I      +  + +     VT  +D  ++ A      +   G        + + G
		Sbjct: 771  NKAQVHIGYKTGDTVCVRSDYTGYVTCTTDKLSDKALNSFNPTNLRGNVNLTESANFVLG 830
		
		Query: 916  YNAAFNGAITGGRADVSM-HNALWTLGGDSAIHTLTVRNSRI------SSEGDRTFRTLT 968
		                F    + G + V +  N+ W L G+S +H L + N  I      +S     + TLT
		Sbjct: 831  KANLFGTIQSRGNSQVRLTENSHWHLTGNSDVHQLDLANGHIHLNSADNSNNVTKYNTLT 890
		
		Query: 969  VNKLDATGSDFVLRTDLKN--ADKINVTEKATGS 1000
		            VN L   GS + L TDL N   DK+ VT+ ATG+
		Sbjct: 891  VNSLSGNGSFYYL-TDLSNKQGDKVVVTKSATGN 923
		
		
	343#c0362	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	234	2e-74
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score =  234 bits (598), Expect = 2e-74
		 Identities = 88/430 (20%), Positives = 179/430 (41%), Gaps = 64/430 (14%)
		
		Query: 45  LMVIFLLVLVVTFVIWAWNSPLDEVTRGQGSIIPGSREQVIQTLDPGILKTLEVREGDIV 104
		           L+  F++  +V   I +    ++ V    G +    R + I+ ++  I+K + V+EG+ V
		Sbjct: 59  LVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGESV 118
		
		Query: 105 EKGQVLLTLDDTRSSAMLRESEARVNNLEAVRARLRAEAYS------ESLTFPDD-VPAD 157
		            KG VLL L    + A   ++++ +      + R +  + S        L  PD+    +
		Sbjct: 119 RKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQN 178
		
		Query: 158 LRERESTVYR--------LRKTELAQS-----------------IAGLKQSKALLDKEIA 192
		           + E E               + +  Q                  I   +    +    + 
		Sbjct: 179 VSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLD 238
		
		Query: 193 MTRPIVREGAMSEVELLRMQRQSAEL---------------------QLQMDEKQNKYLT 231
		               ++ + A+++  +L  + +  E                      + +       +  
		Sbjct: 239 DFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKN 298
		
		Query: 232 EAGAELVKTEAELAQAKENMAGRADPVERSRIRAPLRGIVKNIRVNTLGGVVSAGQDIME 291
		           E   +L +T   +      +A   +  + S IRAP+   V+ ++V+T GGVV+  + +M 
		Sbjct: 299 EILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMV 358
		
		Query: 292 IIPLEDQLLIEAYINPRDVAYVRTGMPALVKLTAYDYAIYGGLDGVVTLVSPDTLRDQKR 351
		           I+P +D L + A +  +D+ ++  G  A++K+ A+ Y  YG L G V  ++ D + DQ+ 
		Sbjct: 359 IVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQR- 417
		
		Query: 352 PGDLKLDPNEAYYRVLVTTSNNYLTDRNGKILPVIPGMIASVDIKTGQKSVFQYLIKPIT 411
		                       + V+++   N L+    K +P+  GM  + +IKTG +SV  YL+ P+ 
		Sbjct: 418 --------LGLVFNVIISIEENCLS-TGNKNIPLSSGMAVTAEIKTGMRSVISYLLSPLE 468
		
		Query: 412 -RMKQALQER 420
		             + ++L+ER
		Sbjct: 469 ESVTESLRER 478
		
		
	344#c0363	CABNDNGRPT#NodO calcium binding signature.	48	3e-07
		>CABNDNGRPT#NodO calcium binding signature.
		          Length = 479
		
		 Score = 47.7 bits (113), Expect = 3e-07
		 Identities = 32/192 (16%), Positives = 58/192 (30%), Gaps = 25/192 (13%)
		
		Query: 1327 NNIDTATDVNTVTIYGSVSGEILGGYGSDNITVTKNLTGNISVGDNADTLTAGWIYGGST 1386
		             N+ T T  +      +   +      S    +      ++      DT           
		Sbjct: 260  ANMTTRTGDSVYGFNSNTDRDFYTATDSSKALI-----FSVWDAGGTDTFDFSGYSNNQR 314
		
		Query: 1387 VSMGDGNDT--------VTITDGAYNTTISLGAGDDVFDATSGVMGDSAYATVVNGEDGN 1438
		            +++ +G+ +        V+I  G        G+G+D+    S          ++ G  GN
		Sbjct: 315  INLNEGSFSDVGGLKGNVSIAHGVTIENAIGGSGNDILVGNSA-------DNILQGGAGN 367
		
		Query: 1439 DTFKLGTIAKNLTIDAGAGDDIVVLTKDYDSTSSGN---QGYINGGEGSDTLVLTGTISV 1495
		            D    G  A   T+  GAG D  V     DST +       +  G +  D         +
		Sbjct: 368  DVLYGG--AGADTLYGGAGRDTFVYGSGQDSTVAAYDWIADFQKGIDKIDLSAFRNEGQL 425
		
		Query: 1496 NLAAGKNEGIAG 1507
		            +    +  G   
		Sbjct: 426  SFVQDQFTGKGQ 437
		
		
c0390	c0435	Y	Y	Y	c0375	c0414
	c0390	3	20	-3.997810	Gamma-glutamyl phosphate reductase
	c0391	8	26	-5.769861	*CP4-like integrase
	c0392	7	25	-5.715843	Hypothetical protein
	c0393	7	25	-3.942815	Haemoglobin protease
	c0394	2	30	-7.956308	Hypothetical protein
	c0395	1	23	-3.680016	Hypothetical protein
	c0396	0	17	-1.291185	Insertion element IS1 1/2/3/5/6 protein insA
	c0397	0	18	0.992301	InsB protein
	c0398	0	19	1.444760	Hypothetical protein
	c0399	2	19	1.430513	Hypothetical protein yagU
	c0400	2	20	1.117945	Hypothetical protein yagV precursor
	c0401	1	21	0.865777	Hypothetical protein yagW
	c0402	2	20	0.690803	Hypothetical protein yagX precursor
	c0403	4	20	-3.163437	Hypothetical protein yagY precursor
	c0404	4	23	-6.454730	Hypothetical protein yagZ precursor
	c0405	2	31	-7.685674	Hypothetical protein ykgK
	c0406	1	35	-7.349299	Putative 50S ribosomal protein L36
	c0407	2	31	-5.978700	50S ribosomal protein L31 type B-1
	c0408	1	28	-4.905837	Hypothetical protein
	c0409	0	25	-4.172264	Putative oxidoreductase
	c0410	0	18	-1.583681	Hypothetical protein ycjY
	c0411	0	19	-1.807973	Putative LysR-like transcriptional regulator
	c0412	-1	17	-1.648891	Hypothetical transcriptional regulator ycjZ
	c0413	-1	17	-2.026045	Putative aldo/keto reductase
	c0414	-1	19	-2.746293	2,5-diketo-D-gluconic acid reductase A
	c0415	-2	22	-3.483369	Putative adhesin
	c0416	1	28	-6.664725	Hypothetical transcriptional regulator ykgA
	c0417	1	27	-5.467905	2,5-diketo-D-gluconic acid reductase A
	c0418	1	24	-3.916207	Hypothetical protein ykgB
	c0419	0	22	-3.004483	Hypothetical protein ykgI precursor
	c0420	-1	21	-3.692448	Probable pyridine nucleotide-disulfide
	c0421	-1	19	-3.786159	Hypothetical transcriptional regulator ykgD
	c0422	0	19	-4.103550	Hypothetical protein ykgE
	c0423	0	21	-4.339422	Putative electron transport protein ykgF
	c0424	2	24	-5.025347	Hypothetical protein ykgG
	c0425	4	27	-6.325505	Hypothetical protein ykgH
	c0426	0	16	-2.161806	Hypothetical protein
	c0427	-1	13	1.546011	Conserved hypothetical protein
	c0428	0	14	2.678244	Conserved hypothetical protein
	c0429	0	19	3.595418	Conserved hypothetical protein
	c0430	0	16	2.316528	Type 1 fimbriae Regulatory protein fimB
	c0431	0	19	2.746209	Choline dehydrogenase
	c0432	-1	17	1.983827	Betaine aldehyde dehydrogenase
	c0433	-2	15	0.136585	Regulatory protein betI
	c0434	0	15	-0.991165	High-affinity choline transport protein
	c0435	1	20	-3.971807	Hypothetical protein yahA
	374#c0393	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	614	0.0
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score =  614 bits (1585), Expect = 0.0
		 Identities = 267/886 (30%), Positives = 407/886 (45%), Gaps = 123/886 (13%)
		
		Query: 42  SLALSALLPTVAGASTVGGNNPYQTYRDFAENKGQFQAGATNIPIFNNKGELVGHL--DK 99
		           +L ++  L     A+ V  +  YQ +RDFAENKG+F  GATN+ + +   + +G    + 
		Sbjct: 12  ALTVAYALTPYTEAALVRDDVDYQIFRDFAENKGKFSVGATNVLVKDKNNKDLGTALPNG 71
		
		Query: 100 APMVDFSSVNVSSNPGVATLINPQYIASVKH-NKGYQSVSFG------------------ 140
		            PM+DFS V    +  +ATLINPQY+  VKH + G   + FG                  
		Sbjct: 72  IPMIDFSVV--DVDKRIATLINPQYVVGVKHVSNGVSELHFGNLNGNMNNGNAKAHRDVS 129
		
		Query: 141 DGQNSYHIVDRNEHSSS-----------------DLHTPRLDKLVTEVAPATVTSSST-- 181
		             +N Y  V++NE+ +                  D + PRLDK VTEVAP   +++S+  
		Sbjct: 130 SEENRYFSVEKNEYPTKLNGKTVTTEDQTQKRREDYYMPRLDKFVTEVAPIEASTASSDA 189
		
		Query: 182 ADILNPSKYSAFYRAGSGSQYIQDSQGKRHWVTGGYGYLTGGILPTSFFYH--------- 232
		               + +KY AF R GSGSQ+I         +   +      +      Y          
		Sbjct: 190 GTYNDQNKYPAFVRLGSGSQFIYKKGDNYSLILNNHEVGGNNLKLVGDAYTYGIAGTPYK 249
		
		Query: 233 --GSDGIQLYMGGNIHDHSI---------LPSFGEAGDSGSPLFGWNTAKGQWELVGVYS 281
		               +   +  G +  +HS          L ++   GDSGSPLF ++  KG+W  +G Y 
		Sbjct: 250 VNHENNGLIGFGNSKEEHSDPKGILSQDPLTNYAVLGDSGSPLFVYDREKGKWLFLGSYD 309
		
		Query: 282 ---GVGGGTNLIYSLIPQSFLSQIYSEDNDAPVFFNASSGAPLQWKFDSSTGTGSLKQGS 338
		              G    +   +++    F   + ++D+   +  +        + + S+  T ++  G 
		Sbjct: 310 FWAGYNKKSWQEWNIYKSQFTKDVLNKDSAGSLIGSK-----TDYSWSSNGKTSTITGGE 364
		
		Query: 339 DEYAMHGQKGSDL-NAGKNLTFLGHNGQIDLENSVTQGAGSLTFTDDYTVT-TSNGSTWT 396
		               +    G D  N GK++TF G +G + L N++ QGAG L F  DY V  TS+ +TW 
		Sbjct: 365 KSLNVDLADGKDKPNHGKSVTFEG-SGTLTLNNNIDQGAGGLFFEGDYEVKGTSDNTTWK 423
		
		Query: 397 GAGIIVDKDASVNWQVNGVKGDNLHKIGEGTLVVQGTGVNEGGLKVGDGTVVLNQQADSS 456
		           GAG+ V +  +V W+V+  + D L KIG+GTL+V+GTG N+G LKVGDGTV+L QQ + S
		Sbjct: 424 GAGVSVAEGKTVTWKVHNPQYDRLAKIGKGTLIVEGTGDNKGSLKVGDGTVILKQQTNGS 483
		
		Query: 457 GHVQAFSSVNIASGRPTVVLADNQQVNPDNISWGYRGGVLDVNGNDLTFHKLNAADYGAT 516
		           G   AF+SV I SGR T+VL D++QV+P++I +G+RGG LD+NGN LTF  +   D GA 
		Sbjct: 484 GQ-HAFASVGIVSGRSTLVLNDDKQVDPNSIYFGFRGGRLDLNGNSLTFDHIRNIDDGAR 542
		
		Query: 517 LGNS-SDKTANITLD---YQTRPADVKV---------NEWSSSNRGTVGSLYIYNNPYTH 563
		           L N      +NIT+      T P  +           N ++       G LY+    YT 
		Sbjct: 543 LVNHNMTNASNITITGESLITDPNTITPYNIDAPDEDNPYAFRRIKDGGQLYLNLENYT- 601
		
		Query: 564 TVDYFILK--TSSYGWFP-TGQVSNEHWEYVGHDQNSAQALLANRINNK------GYLY- 613
		              Y+ L+   S+    P     SNE+W Y+G   + A+  + N INN+      GY   
		Sbjct: 602 ---YYALRKGASTRSELPKNSGESNENWLYMGKTSDEAKRNVMNHINNERMNGFNGYFGE 658
		
		Query: 614 -HGKLLGNINFSNKATPGTTGALVMDGSANMSGTFTQENGRLTIQGHPVIHASTSQSIAN 672
		             GK  GN+N + K         ++ G  N++G  T E G L + G P  HA   + IA 
		Sbjct: 659 EEGKNNGNLNVTFKGKSE-QNRFLLTGGTNLNGDLTVEKGTLFLSGRPTPHA---RDIAG 714
		
		Query: 673 TVSSLGDNSVLTQPTSFTQDDWENRTFSFGSLVLK-DTDFGLGRN-ATLNTTIQADNSS- 729
		             S+  D           +DDW NR F   ++ +  +     GRN A + + I A N + 
		Sbjct: 715 ISSTKKDPHFAENNEVVVEDDWINRNFKATTMNVTGNASLYSGRNVANITSNITASNKAQ 774
		
		Query: 730 ----VTLGDSRVFIDKKDGQGTAFTLEEGTSVATKDADKSVFNGTVNLDNQS--VLNINE 783
		                  GD+        G  T  T ++ +  A    + +   G VNL   +  VL    
		Sbjct: 775 VHIGYKTGDTVCVRSDYTGYVTC-TTDKLSDKALNSFNPTNLRGNVNLTESANFVLGKAN 833
		
		Query: 784 IFNGGIQANNSTVNISSDS-------AVLENSTLTSTALNLNKGAN 822
		           +F       NS V ++ +S       + +    L +  ++LN   N
		Sbjct: 834 LFGTIQSRGNSQVRLTENSHWHLTGNSDVHQLDLANGHIHLNSADN 879
		
		
		
		 Score = 53.9 bits (129), Expect = 5e-09
		 Identities = 65/329 (19%), Positives = 121/329 (36%), Gaps = 54/329 (16%)
		
		Query: 760  KDADKSVFNGTVNLDNQSVLNINEIFNGGIQANNSTVNISSDSAVLENSTLTSTALNLNK 819
		            K +D++  N   +++N+ +   N  F      NN  +N++      +N  L +   NLN 
		Sbjct: 631  KTSDEAKRNVMNHINNERMNGFNGYFGEEEGKNNGNLNVTFKGKSEQNRFLLTGGTNLNG 690
		
		Query: 820  GANVLASQSFVSDGPVNISDATLSLNSRPDEVSHTLLPVYDYAGSW----------NLKG 869
		               V     F+S  P   +     ++S   +              W          N+ G
		Sbjct: 691  DLTVEKGTLFLSGRPTPHARDIAGISSTKKDPHFAENNEVVVEDDWINRNFKATTMNVTG 750
		
		Query: 870  DDARLNVGPYSMLSGNINVQDKGTVTLG--------------GEGELSPDLTLQNQMLYS 915
		            + +  +    + ++ NI   +K  V +G              G    + D  L ++ L S
		Sbjct: 751  NASLYSGRNVANITSNITASNKAQVHIGYKTGDTVCVRSDYTGYVTCTTD-KLSDKALNS 809
		
		Query: 916  LFN-----------------GYRNTWSGSLNAPDATVSMT-DTQWSMNGNSTAGNMKLNR 957
		                                G  N +    +  ++ V +T ++ W + GNS    + L  
		Sbjct: 810  FNPTNLRGNVNLTESANFVLGKANLFGTIQSRGNSQVRLTENSHWHLTGNSDVHQLDLAN 869
		
		Query: 958  TIVGFNGGTSS-----FTTLTTDNLDAVQSAFVMRTDL--NKADKLVINKSATGHDNSIW 1010
		              +  N   +S     + TLT ++L     +F   TDL   + DK+V+ KSATG+     
		Sbjct: 870  GHIHLNSADNSNNVTKYNTLTVNSLSG-NGSFYYLTDLSNKQGDKVVVTKSATGNFTLQV 928
		
		Query: 1011 VNFLKKPSDKDTLDIPLVSAPEATADNLF 1039
		             +   +P+     ++ L  A +A  D+L 
		Sbjct: 929  ADKTGEPNHN---ELTLFDASKAQRDHLN 954
		
		
	383#c0402	PF00577#Outer membrane usher protein FimD	63	5e-12
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score = 62.6 bits (152), Expect = 5e-12
		 Identities = 29/247 (11%), Positives = 73/247 (29%), Gaps = 23/247 (9%)
		
		Query: 487 TLNLNSLWSKLGTFSISYNDDRRYNSHYYTADYYQSVYSGTFGSLGLRAGIQRYNNGDSS 546
		            L +     +  T  +S    + Y       + +Q+  +  F  +          N    
		Sbjct: 530 QLTVTQQLGRTSTLYLSG-SHQTYWGTSNVDEQFQAGLNTAFEDINWTLSYSLTKNAWQK 588
		
		Query: 547 ANTGKYIALDLSLPLGNWFSAGMTHQNGYTMANLSARKQFDEGT------------IRTV 594
		               + +AL++++P  +W  +    Q  +  A+ S     +                  +
		Sbjct: 589 -GRDQMLALNVNIPFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNL 647
		
		Query: 595 GANLSRAISGDTGDDKTLSGGAYAQFDARYASGTLNVNSAADGYINTNLTANGSVGWQGK 654
		             ++    +G    +   +G A   +   Y +  +   S +D         +G V     
		Sbjct: 648 SYSVQTGYAGGGDGNSGSTGYATLNYRGGYGNANIGY-SHSDDIKQLYYGVSGGVLAHAN 706
		
		Query: 655 NIAASGRTDGNAGVIFDTGLEN---DGQISAKINGRIFPLNGKRNYLPLSPYGRYEVELQ 711
		            +      +    ++   G ++   + Q   + + R     G       + Y    V L 
		Sbjct: 707 GVTLGQPLNDTVVLVKAPGAKDAKVENQTGVRTDWR-----GYAVLPYATEYRENRVALD 761
		
		Query: 712 NSKNSLD 718
		            +  + +
		Sbjct: 762 TNTLADN 768
		
		
	396#c0415	INTIMIN#Intimin signature.	548	e-178
		>INTIMIN#Intimin signature.
		          Length = 939
		
		 Score =  548 bits (1413), Expect = e-178
		 Identities = 233/832 (28%), Positives = 355/832 (42%), Gaps = 78/832 (9%)
		
		Query: 41  PVMAARAQHAVQPRLSMENTTVTADNNVEKNVASLAANAGTFLSSQPDS-----DATRNF 95
		           P++AA        +L+  +  VT  N  +    + AA     L SQ  S     D  ++ 
		Sbjct: 131 PLVAAGGVAGHTNKLTKMSPDVTKSNMTDDKALNYAAQQAASLGSQLQSRSLNGDYAKDT 190
		
		Query: 96  ITGMATAKANQEIQEWLGKYGTARVKLNVDKKFSLKDSSLEMLYPIYDTPTNMLFTQGAI 155
		             G+A  +A+ ++Q WL  YGTA V L     F    SSL+ L P YD+   + F Q   
		Sbjct: 191 ALGIAGNQASSQLQAWLQHYGTAEVNLQSGNNFD--GSSLDFLLPFYDSEKMLAFGQVGA 248
		
		Query: 156 HRTDDRTQSNIGFGWRHFSENDWMAGVNTFIDHDLSRSHTRIGVGAEYWRDYLKLSANGY 215
		              D R  +N+G G R F   + M G N FID D S  +TR+G+G EYWRDY K S NGY
		Sbjct: 249 RYIDSRFTANLGAGQRFF-LPENMLGYNVFIDQDFSGDNTRLGIGGEYWRDYFKSSVNGY 307
		
		Query: 216 IRASGWKKSPDVEDYQERPANGWDIRAEGYLPAWPQLGASLMYEQYYGDEVGLFGKDKRQ 275
		            R SGW +S + +DY ERPANG+DIR  GYLP++P LGA LMYEQYYGD V LF  DK Q
		Sbjct: 308 FRMSGWHESYNKKDYDERPANGFDIRFNGYLPSYPALGAKLMYEQYYGDNVALFNSDKLQ 367
		
		Query: 276 KDPHAITAEVNYTPVPLLTLSAGHKQGKSGENDTRFGLEVNYRIGEPLEKQLDTDSIRER 335
		            +P A T  VNYTP+PL+T+   ++ G   END  + ++  Y+  +P  +Q++   + E 
		Sbjct: 368 SNPGAATVGVNYTPIPLVTMGIDYRHGTGNENDLLYSMQFRYQFDKPWSQQIEPQYVNEL 427
		
		Query: 336 RMLAGSRYDLVERNNNIVLEYRKSEVIRIALPERIEGKGGQTVSLGLVVSKATHGLKNVQ 395
		           R L+GSRYDLV+RNNNI+LEY+K +++ + +P  I G    T  + L+V K+ +GL  + 
		Sbjct: 428 RTLSGSRYDLVQRNNNIILEYKKQDILSLNIPHDINGTERSTQKIQLIV-KSKYGLDRIV 486
		
		Query: 396 WEAPSLLAAGGKITGQG----NQWQVTLPAYQAGKDNYYAISAIAYDNKGNASKRVQTEV 451
		           W+  +L + GG+I   G      +Q  LPAY  G  N Y ++A AYD  GN+S  V   +
		Sbjct: 487 WDDSALRSQGGQIQHSGSQSAQDYQAILPAYVQGGSNVYKVTARAYDRNGNSSNNVLLTI 546
		
		Query: 452 VISGAGMSADRTALTLDGQSRIQMLANGNEQKPLVLSLR----DAEGQPVTGMKDQIKTE 507
		            +   G   D+  +T     +    A+G E      +++         PV+         
		Sbjct: 547 TVLSNGQVVDQVGVTDFTADKTSAKADGTEAITYTATVKKNGVAQANVPVS--------- 597
		
		Query: 508 LTFKPAGNIVTRTLKATKSQAKPTLGEFTETEAGVYQSVFTTGTQSGEATITVSVDDMSK 567
		                  NIV+ T   + + A           +G       +    G+  ++    +M+ 
		Sbjct: 598 ------FNIVSGTAVLSANSAN-------TNGSGKATVTLKSDK-PGQVVVSAKTAEMTS 643
		
		Query: 568 TVTAELRATMMDVANSTLSANEPSGDVVADGQQAYTLTLTAVDSEGNPVTGEASRLRLVP 627
		            + A     +     S           VA+GQ A T T+  V     PV+ +        
		Sbjct: 644 ALNANAVIFVDQTKASITEIKADKTTAVANGQDAITYTVK-VMKGDKPVSNQEVTF---- 698
		
		Query: 628 QDTNGVTVGAIS--EIKPGVYSATVSSTRAGNVVVRAFSEQYQLGTLQQTLKFVAGP--- 682
		             T    +   +      G    T++ST  G  +V A      +      ++F       
		Sbjct: 699 -TTTLGKLSNSTEKTDTNGYAKVTLTSTTPGKSLVSARVSDVAVDVKAPEVEFFTTLTID 757
		
		Query: 683 ----------LDAAHSSITLNPDK---PVVGGTVTAIWTAKDANDNPVTGLNPDAPSLSG 729
		                     +     ++ L   +      GG     W + +     V   +    +L  
		Sbjct: 758 DGNIEIVGTGVKGKLPTVWLQYGQVNLKASGGNGKYTWRSANPAIASVDA-SSGQVTLKE 816
		
		Query: 730 AAAAGSTASGWTDNGDGTWTAQISLGTTAGELDVMPKLNGQDAAANAAKVTVVADALSSN 789
		                 +    +DN   T+T       T   L V                      L S+
		Sbjct: 817 KGTTTISVIS-SDNQTATYTIA-----TPNSLIVPNMSKRVTYNDAVNTCKNFGGKLPSS 870
		
		Query: 790 QSKV-------SVAEDHVKAGESTTVTLVAKDAHGNAISGLSLSASLTGTAS 834
		           Q+++         A  +     S T+    +    +A SG++ +  L     
		Sbjct: 871 QNELENVFKAWGAANKYEYYKSSQTIISWVQQTAQDAKSGVASTYDLVKQNP 922
		
		
		
		 Score = 74.0 bits (181), Expect = 4e-15
		 Identities = 74/345 (21%), Positives = 113/345 (32%), Gaps = 42/345 (12%)
		
		Query: 905  KTTTELTFTVK----DAYGNPVTGLKPDAPVFSGAASTGSERPSAGNWTEKGNGVYVSTL 960
		                  T TVK         PV+       + SG A       SA +    G+G    TL
		Sbjct: 575  TEAITYTATVKKNGVAQANVPVSFN-----IVSGTAV-----LSANSANTNGSGKATVTL 624
		
		Query: 961  TLGSAAGQLSVMPRVNGQNAVAQPLVLNVAGDASKAEIRDMTVKVNNQLANGQSANQITL 1020
		                    +         +A+    V+ V  D +KA I ++       +ANGQ A  IT 
		Sbjct: 625  KSDKPGQVVVSAKTAEMTSALNANAVIFV--DQTKASITEIKADKTTAVANGQDA--ITY 680
		
		Query: 1021 TV-VDSYGNPLQGQEVTLTLPQGVTSKTGNTVTTNAAGKVDIELMSTVAGELEIEASVKN 1079
		            TV V     P+  QEVT T   G  S +  T  T+  G   + L ST  G+  + A V +
		Sbjct: 681  TVKVMKGDKPVSNQEVTFTTTLGKLSNS--TEKTDTNGYAKVTLTSTTPGKSLVSARVSD 738
		
		Query: 1080 SQKTVKVKFKADFSTGQASLEVDAA-AQKVANGKDAFTLTATVK-DQYGNLLPGAVVVFN 1137
		                VK      F     +L +D    + V  G      T  ++  Q      G    + 
		Sbjct: 739  VAVDVKAPEVEFF----TTLTIDDGNIEIVGTGVKGKLPTVWLQYGQVNLKASGGNGKYT 794
		
		Query: 1138 LPRGVKPLADGNIMVNADKEGKAELKVVSVTAGTYEITASAGNDQPSNAQSVTFVADKTT 1197
		                    A+  I       G+  LK      GT  I+  + ++Q       T+      
		Sbjct: 795  W-----RSANPAIASVDASSGQVTLK----EKGTTTISVISSDNQT-----ATYTIATPN 840
		
		Query: 1198 ATISSIEVIGNRAVADGKTKQTYKVTVTDANNNLLKDSEVTLTAS 1242
		            + I    +       D             ++ N L++      A+
		Sbjct: 841  SLI-VPNMSKRVTYNDAVNTCKNFGGKLPSSQNELENVFKAWGAA 884
		
		
		
		 Score = 54.7 bits (131), Expect = 2e-09
		 Identities = 46/249 (18%), Positives = 82/249 (32%), Gaps = 24/249 (9%)
		
		Query: 1168 TAGTYEITASA----GNDQPSNAQSVTFVADKTTAT---ISSIEVIGNRAVADGKTKQTY 1220
		             +  Y++TA A    GN   +   ++T +++        ++        A ADG    TY
		Sbjct: 521  GSNVYKVTARAYDRNGNSSNNVLLTITVLSNGQVVDQVGVTDFTADKTSAKADGTEAITY 580
		
		Query: 1221 KVTVTDANNNLLKDSEVTLTASPENLVLTPNGTATTNEQGQAIFTATTTVAATYTLTAKV 1280
		              TV                 S     +    +A TN  G+A  T  +       ++AK 
		Sbjct: 581  TATVKKNGVAQANVPVSFNIVS--GTAVLSANSANTNGSGKATVTLKSDKPGQVVVSAK- 637
		
		Query: 1281 EQADGQESTKTAESKFVADDKNAVLAASPERVDSLVADGKTTATLTVTLMSGVNPVGGTM 1340
		              A+   +       FV   K ++     ++  + VA+G+   T TV +M G  PV    
		Sbjct: 638  -TAEMTSALNANAVIFVDQTKASITEIKADK-TTAVANGQDAITYTVKVMKGDKPVSNQE 695
		
		Query: 1341 WVDIEA--PEGVTEADYQFLPSKNDHFASGKITRTFSTNKPGTYTFTFNSLTYGGYEMKP 1398
		                        +         K D   +G    T ++  PG    +   ++    ++K 
		Sbjct: 696  VTFTTTLGKLSNSTE-------KTD--TNGYAKVTLTSTTPGKSLVS-ARVSDVAVDVKA 745
		
		Query: 1399 VTVTINAVP 1407
		              V      
		Sbjct: 746  PEVEFFTTL 754
		
		
		
		 Score = 47.0 bits (111), Expect = 5e-07
		 Identities = 56/368 (15%), Positives = 104/368 (28%), Gaps = 56/368 (15%)
		
		Query: 779  VTVVADALSSNQSKV---SVAEDHVKAGESTTVTLVA------KDAHGNAISGLSLSASL 829
		            +TV+++    +Q  V   +  +   KA  +  +T  A             +S   +S   
		Sbjct: 546  ITVLSNGQVVDQVGVTDFTADKTSAKADGTEAITYTATVKKNGVAQANVPVSFNIVSG-- 603
		
		Query: 830  TGTASEGATVSSWTEKGDGSYVAT--LTTGGKTGELRVMPLFNGQPAATEAAQLTVIAGE 887
		                   A +S+ +   +GS  AT  L +      +          A    A   +   +
		Sbjct: 604  ------TAVLSANSANTNGSGKATVTLKSDKPGQVVVSAKTAEMTSALN--ANAVIFVDQ 655
		
		Query: 888  MSSANSTLVADNKTPTVKTTTELTFTVKDAY-GNPVTGLKPDAPVFSGAASTGSERPSAG 946
		              ++ + + AD  T        +T+TVK      PV+  +          +T   + S  
		Sbjct: 656  TKASITEIKADKTTAVANGQDAITYTVKVMKGDKPVSNQEV-------TFTTTLGKLSNS 708
		
		Query: 947  NWTEKGNGVYVSTLTLGSAAGQLSVMPRVNGQN-AVAQPLVLNVAG---DASKAEIRDMT 1002
		                  NG    TLT  +  G+  V  RV+     V  P V        D    EI    
		Sbjct: 709  TEKTDTNGYAKVTLT-STTPGKSLVSARVSDVAVDVKAPEVEFFTTLTIDDGNIEI---- 763
		
		Query: 1003 VKVNNQLANGQSANQITLTV-VDSYGNPLQGQEVTLTLPQGVTSKTGNTVTTNAAGKVDI 1061
		                  +  G      T+ +          G     T     ++         ++G+V +
		Sbjct: 764  ------VGTGVKGKLPTVWLQYGQVNLKASGGNGKYTW---RSANPAIASVDASSGQVTL 814
		
		Query: 1062 ELMSTVAGELEIEASVKNSQKTVKVKFKADFSTGQASLEVDAAAQKVANGKDAFTLTATV 1121
		            +      G   I     ++Q      +            +        +  +        
		Sbjct: 815  K----EKGTTTISVISSDNQ---TATYTIATPNSLIVPNMSKRVT-YNDAVNTCKNFGGK 866
		
		Query: 1122 KDQYGNLL 1129
		                 N L
		Sbjct: 867  LPSSQNEL 874
		
		
	397#c0416	HTHTETR#TetR bacterial regulatory protein HTH signature.	28	0.027
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 28.4 bits (63), Expect = 0.027
		 Identities = 12/42 (28%), Positives = 19/42 (45%)
		
		Query: 14 RQKILQQLLEWIECNLEHPISIEDIAQKSGYSRRNIQLLFRN 55
		          RQ IL   L           S+ +IA+ +G +R  I   F++
		Sbjct: 13 RQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKD 54
		
		
	407#c0426	PRTACTNFAMLY#Pertactin virulence factor family signature.	122	1e-30
		>PRTACTNFAMLY#Pertactin virulence factor family signature.
		          Length = 910
		
		 Score =  122 bits (307), Expect = 1e-30
		 Identities = 112/509 (22%), Positives = 187/509 (36%), Gaps = 73/509 (14%)
		
		Query: 330 LDINLSDSSVWKGKVSGAGDASVSLQNGSVWNVTGSSTVDALAVKDSTVNITKATVNTGT 389
		           LD+ L+  + W G        S+S+ N   W +T +S V AL +        +     G 
		Sbjct: 413 LDVALASQARWTGATRAVD--SLSIDNA-TWVMTDNSNVGALRLASDGSVDFQQPAEAGR 469
		
		Query: 390 FA-------SQNGTLI----VDASSENTLDISGKASGDLRVY---------SAGSLDLIN 429
		           F        + +G        D    + L +   ASG  R++         SA +L L+ 
		Sbjct: 470 FKVLTVNTLAGSGLFRMNVFADLGLSDKLVVMQDASGQHRLWVRNSGSEPASANTLLLVQ 529
		
		Query: 430 EQ----TAFISTGKDSTLKATGTTEGGLYQYDLTQGADGNFYFVKNTHK----------- 474
		                   F    KD      G  + G Y+Y L    +G +  V                
		Sbjct: 530 TPLGSAATFTLANKD------GKVDIGTYRYRLAANGNGQWSLVGAKAPPAPKPAPQPGP 583
		
		Query: 475 -----------------------ASNASSVIQAMA-AAPANVANLQADTLSARQDAVRLS 510
		                                  ++ A++ +        + +   +++ LS R   +RL+
		Sbjct: 584 QPPQPPQPQPEAPAPQPPAGRELSAAANAAVNTGGVGLASTLWYAESNALSKRLGELRLN 643
		
		Query: 511 ENDKGGVWIQYFGGKQKHTTAGNASYDLDVNGVMLGGDTRFMTEDGSWLAGVAMSSAKGD 570
		             D GG W + F  +Q+        +D  V G  LG D       G W  G      +GD
		Sbjct: 644 P-DAGGAWGRGFAQRQQLDNRAGRRFDQKVAGFELGADHAVAVAGGRWHLGGLAGYTRGD 702
		
		Query: 571 MT-TMQSKGDTEGYSFHAYLSRQYNNGIFIDTAAQFGHYSNTADVRLMNGGGTIKADFNT 629
		              T    G T+      Y +   ++G ++D   +     N   V   +G   +K  + T
		Sbjct: 703 RGFTGDGGGHTDSVHVGGYATYIADSGFYLDATLRASRLENDFKVAGSDGY-AVKGKYRT 761
		
		Query: 630 NGFGAMVKGGYTWKDGNGLFIQPYAKLSALTLEGVDYQL-NGVDVHSDSYNSVLGEAGTR 688
		           +G GA ++ G  +   +G F++P A+L+     G  Y+  NG+ V  +  +SVLG  G  
		Sbjct: 762 HGVGASLEAGRRFTHADGWFLEPQAELAVFRAGGGAYRAANGLRVRDEGGSSVLGRLGLE 821
		
		Query: 689 VGYDFAVGNA-TVKPYLNLAALNEFSDGNKVRLGDESVNASIDGAAFRVGAGVQADITKN 747
		           VG    +     V+PY+  + L EF     V     +    + G    +G G+ A + + 
		Sbjct: 822 VGKRIELAGGRQVQPYIKASVLQEFDGAGTVHTNGIAHRTELRGTRAELGLGMAAALGRG 881
		
		Query: 748 MGAYASLDYTKGDDIENPLQGVVGINVTW 776
		              YAS +Y+KG  +  P     G   +W
		Sbjct: 882 HSLYASYEYSKGPKLAMPWTFHAGYRYSW 910
		
		
	414#c0433	HTHTETR#TetR bacterial regulatory protein HTH signature.	63	2e-14
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 62.7 bits (152), Expect = 2e-14
		 Identities = 31/172 (18%), Positives = 58/172 (33%), Gaps = 15/172 (8%)
		
		Query: 16  RRRQLIDATLEAINEVGMHDATIAQIARRAGVSTGIISHYFRDKNGLLEATMRDITSQLR 75
		            R+ ++D  L   ++ G+   ++ +IA+ AGV+ G I  +F+DK+ L         S + 
		Sbjct: 12  TRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESNIG 71
		
		Query: 76  DAVLNRLHALPQGSAERRLQAIVGGNFDETQVSSAAMKAWLAFWASSMHQP-------ML 128
		           +  L      P       L+ I+    + T V+    +  +                   
		Sbjct: 72  ELELEYQAKFPGDPLS-VLREILIHVLEST-VTEERRRLLMEIIFHKCEFVGEMAVVQQA 129
		
		Query: 129 YRLQQVSSRRLLSNLVSEFRRE---LPRQQAQEAGYGLAALIDGL---WLRA 174
		            R   + S   +   +               + A   +   I GL   WL A
		Sbjct: 130 QRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLFA 181
		
		
c0496	c0505	Y	Y	N	c0481	c0520
	c0496	-1	27	-3.859915	Hypothetical protein yaiA
	c0497	0	15	-2.415507	Hypothetical protein
	c0498	1	19	-0.805900	AroM protein
	c0499	2	19	-0.183083	Hypothetical protein yaiE
	c0500	3	17	0.994377	Hypothetical protein
	c0501	2	15	1.266160	Hypothetical protein ykiA
	c0502	2	15	1.291642	Recombination associated protein rdgC
	c0503	1	16	1.610681	Hypothetical protein yajF
	c0504	1	15	1.533511	Protein araJ precursor
	c0505	2	15	1.808628	Exonuclease sbcC
	481#c0503	ACETATEKNASE#Acetate kinase family signature.	29	0.020
		>ACETATEKNASE#Acetate kinase family signature.
		          Length = 400
		
		 Score = 29.4 bits (66), Expect = 0.020
		 Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 10/69 (14%)
		
		Query: 233 FISGTGFATDYRRLSGHALKGSEIIRLVEESDPVAELALRRYELRLAKSLAHVVNILDP- 291
		               +G ++D+R L   A          +  D  A+LAL  +  R+ K++      +   
		Sbjct: 273 VYGISGISSDFRDLEDAAF---------KNGDKRAQLALNVFAYRVKKTIGSYAAAMGGV 323
		
		Query: 292 DVIVLGGGM 300
		           DVIV   G+
		Sbjct: 324 DVIVFTAGI 332
		
		
	482#c0504	TCRTETA#Tetracycline resistance protein signature.	51	3e-09
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 51.4 bits (123), Expect = 3e-09
		 Identities = 73/356 (20%), Positives = 126/356 (35%), Gaps = 35/356 (9%)
		
		Query: 33  ILSLALGTFGLGMAEFGIMGVLTELAHNVGISIPAAGH---MISYYALGVVVGAPIIALF 89
		           + ++AL   G+G+    IM VL  L  ++  S     H   +++ YAL     AP++   
		Sbjct: 11  LSTVALDAVGIGL----IMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGAL 66
		
		Query: 90  SSRYSLKHILLFLVALCVIGNAMFTLSSSYLMLAIGRLVSGFPHGAFFGVGAIVLSKIIK 149
		           S R+  + +LL  +A   +  A+   +    +L IGR+V+G         GA +    I 
		Sbjct: 67  SDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVAGAYIAD--IT 124
		
		Query: 150 PGKVTAAVAGMVSGMTVANLLGIPLGTYLSQEFSWRYTFLLIAVFNIAVMASVYFWVPDI 209
		            G   A   G +S      ++  P+   L   FS    F   A  N     +  F +P+ 
		Sbjct: 125 DGDERARHFGFMSACFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGCFLLPES 184
		
		Query: 210 RDEAKGKLREQ----------FHFLRSPAPWLI--FAATMFGNAGVFAWFSYVKPYMMFI 257
		               +  LR +             +   A  +   F   + G      W  +        
		Sbjct: 185 HKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFG------E 238
		
		Query: 258 SGFSETAMTFIMMLVGLGM---VLGNVLSGRISGRYSPLRIAAVTDFIIVLALLMLFFFG 314
		             F   A T  + L   G+   +   +++G ++ R    R   +         ++L F  
		Sbjct: 239 DRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFAT 298
		
		Query: 315 GMKTTSLIFAFICCAGLFALSAPLQILLLQNAKGGELLGAAGGQIAF--NLGSAVG 368
		                  I   +   G+      LQ +L +     E  G   G +A   +L S VG
		Sbjct: 299 RGWMAFPIMVLLASGGIG--MPALQAMLSRQV-DEERQGQLQGSLAALTSLTSIVG 351
		
		
	483#c0505	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	40	4e-05
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 40.4 bits (94), Expect = 4e-05
		 Identities = 40/264 (15%), Positives = 81/264 (30%), Gaps = 11/264 (4%)
		
		Query: 162  LNAKPKERAELLEELTGTEIYGKISAMVFEQHKSARTELEKLQAQASGVALLTPEQVQSL 221
		              A P E  E + E +  E     S  V +  + A     + +  A           Q+ 
		Sbjct: 1029 APATPSETTETVAENSKQE-----SKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTN 1083
		
		Query: 222  TASLQVLTDEEKQLLTAQQQEQQSLNWLTRLD-ELQQEASRRQQALQQALAEEEKAQPQL 280
		              +      +E Q    ++          +++ E  QE  +    +     + E  QPQ 
		Sbjct: 1084 EVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQA 1143
		
		Query: 281  AALSLAQPARNLRPHWE---RIAEHSAALAHTRQQIEEVNTRLQSTMALRASIRHHAAKQ 337
		                   P  N++         A+       T   +E+  T   +     + + +     
		Sbjct: 1144 EPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTT 1203
		
		Query: 338  SAELQQQQQSLNAWLQEHDRFRQWNNELAGWRAQFSQQTSDREHLRQWQQQLTHAEQKLN 397
		             A  Q    S ++   ++   R   +         +  ++DR  +       T+    L+
		Sbjct: 1204 PATTQPTVNSESSNKPKNRHRRSVRSVPHNVEPA-TTSSNDRSTVALCDLTSTNTNAVLS 1262
		
		Query: 398  ALAAITLTLTADEVASALAQHAEQ 421
		               A    +  + V  A++QH  Q
		Sbjct: 1263 DARAKAQFVALN-VGKAVSQHISQ 1285
		
		
		
		 Score = 33.5 bits (76), Expect = 0.005
		 Identities = 27/139 (19%), Positives = 54/139 (38%), Gaps = 13/139 (9%)
		
		Query: 738  QQDVLAAQSLQKAQAQFDTALQASVFDDQQAFLAALMDEQTLTQLEQLKQNLENQRRQAQ 797
		            Q DV +  S  +  A+ D A              A   E T T  E  KQ  +   +  Q
		Sbjct: 1004 QADVPSVPSNNEEIARVDEAPVPPP-------APATPSETTETVAENSKQESKTVEKNEQ 1056
		
		Query: 798  TLVTQTAETLTQHQQHRPGGLSLTVTVEQIQQELAQTHQKLRENTTSQGEIRQQLKQDAD 857
		                 TA+     ++ +       V       E+AQ+  + +E  T++ +    ++++  
		Sbjct: 1057 DATETTAQNREVAKEAKS-----NVKANTQTNEVAQSGSETKETQTTETKETATVEKEEK 1111
		
		Query: 858  NRQQQQTLMQQIAQMTQQV 876
		             + + +   Q++ ++T QV
		Sbjct: 1112 AKVETEK-TQEVPKVTSQV 1129
		
		
c0546	c0552	Y	Y	N	c0531	c0570
	c0546	4	27	-1.990277	Hypothetical lipoprotein yajG precursor
	c0547	9	29	-1.550989	Hypothetical protein
	c0548	7	28	-1.269262	BolA protein
	c0549	6	27	-0.743111	Hypothetical protein
	c0550	6	26	0.014932	Hypothetical protein
	c0551	5	27	0.123966	Trigger factor
	c0552	3	23	0.302544	Hypothetical protein
	524#c0546	PF06291#Lambda prophage Bor protein	29	0.006
		>PF06291#Lambda prophage Bor protein
		          Length = 102
		
		 Score = 28.9 bits (64), Expect = 0.006
		 Identities = 12/37 (32%), Positives = 19/37 (51%)
		
		Query: 34 NMFKKILFPLVALFMLAGCAKPPTTIEVSPTITLPQQ 70
		          N  KK+LF      ++ GCA+   T+   PT   P++
		Sbjct: 4  NKMKKMLFSAALAMLITGCAQQTFTVGNKPTAVTPKE 40
		
		
c0573	c0591	Y	Y	N	c0558	c0597
	c0573	0	18	-3.338858	Hypothetical protein ybaZ
	c0574	1	18	-4.895217	Hypothetical protein ybaA
	c0575	-1	12	-1.584729	Hypothetical protein ylaB
	c0576	1	17	-0.396588	Hypothetical protein ylaC
	c0577	1	16	-0.564209	Maltose O-acetyltransferase
	c0578	1	18	-0.586789	Haemolysin expression modulating protein
	c0579	1	16	0.094945	Hypothetical protein ybaJ
	c0580	1	16	0.515455	Acriflavine resistance protein B
	c0581	2	12	0.366598	Acriflavine resistance protein A precursor
	c0582	2	15	-0.034723	Potential acrAB operon repressor
	c0583	2	18	0.898931	Hypothetical protein
	c0584	3	16	2.492824	Potassium efflux system kefA
	c0585	3	17	3.932634	Hypothetical protein ybaM
	c0586	3	17	3.902926	Primosomal replication protein N
	c0587	2	18	3.664353	Hypothetical protein ybaN
	c0588	4	24	3.156804	Adenine phosphoribosyltransferase
	c0589	4	25	2.848637	DNA polymerase III subunit tau
	c0590	3	26	1.690167	Conserved hypothetical protein
	c0591	2	22	1.581646	Hypothetical protein ybaB
	553#c0575	BCTERIALGSPF#Bacterial general secretion pathway protein F signa...	29	0.034
		>BCTERIALGSPF#Bacterial general secretion pathway protein F
		           signature.
		          Length = 408
		
		 Score = 29.4 bits (66), Expect = 0.034
		 Identities = 31/137 (22%), Positives = 54/137 (39%), Gaps = 24/137 (17%)
		
		Query: 247 IWLPLGLVIGLLAAMFVLRILRRIQSPHHRLQDAIENRDICVHYQPIVSLANGKIVGAEA 306
		            W+ L L+ G +A   +LR          R+          + + P++    G+I     
		Sbjct: 228 PWMLLALLAGFMAFRVMLR------QEKRRVS-----FHRRLLHLPLI----GRIARGLN 272
		
		Query: 307 LARWPQTDGSWLSPDSFIPLAQQTGLS-EPLTLLIIRSVFEDMGDWLRQHPQQHISINLE 365
		            AR+ +T     +  S +PL Q   +S + ++    R       D +R+    H +  LE
		Sbjct: 273 TARYARTLSILNA--SAVPLLQAMRISGDVMSNDYARHRLSLATDAVREGVSLHKA--LE 328
		
		Query: 366 STVLTSEKIPQLLREMI 382
		            T L     P ++R MI
		Sbjct: 329 QTAL----FPPMMRHMI 341
		
		
	558#c0580	ACRIFLAVINRP#Acriflavin resistance protein family signature.	1368	0.0
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score = 1368 bits (3543), Expect = 0.0
		 Identities = 802/1033 (77%), Positives = 916/1033 (88%), Gaps = 1/1033 (0%)
		
		Query: 1    MPNFFIDRPIFAWVIAIIIMLAGGLAILKLPVAQYPTIAPPAVTISASYPGADAKTVQDT 60
		            M NFFI RPIFAWV+AII+M+AG LAIL+LPVAQYPTIAPPAV++SA+YPGADA+TVQDT
		Sbjct: 1    MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60
		
		Query: 61   VTQVIEQNMNGIDNLMYMSSNSDSTGTVQITLTFESGTDADIAQVQVQNKLQLAMPLLPQ 120
		            VTQVIEQNMNGIDNLMYMSS SDS G+V ITLTF+SGTD DIAQVQVQNKLQLA PLLPQ
		Sbjct: 61   VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120
		
		Query: 121  EVQQQGVSVEKSSSSFLMVVGVINTDGTMTQEDISDYVAANMKDAISRTSGVGDVQLFGS 180
		            EVQQQG+SVEKSSSS+LMV G ++ +   TQ+DISDYVA+N+KD +SR +GVGDVQLFG+
		Sbjct: 121  EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA 180
		
		Query: 181  QYAMRIWMNPNELNKFQLTPVDVITAIKAQNAQVAAGQLGGTPPVKGQQLNASIIAQTRL 240
		            QYAMRIW++ + LNK++LTPVDVI  +K QN Q+AAGQLGGTP + GQQLNASIIAQTR 
		Sbjct: 181  QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRF 240
		
		Query: 241  TSTEEFGKILLKVNQDGSRVLLRDVAKIELGGENYDIIAEFNGQPASGLGIKLATGANAL 300
		             + EEFGK+ L+VN DGS V L+DVA++ELGGENY++IA  NG+PA+GLGIKLATGANAL
		Sbjct: 241  KNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANAL 300
		
		Query: 301  DTAAAIRAELAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQ 360
		            DTA AI+A+LA+++PFFP G+K++YPYDTTPFV++SIHEVVKTL EAI+LVFLVMYLFLQ
		Sbjct: 301  DTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQ 360
		
		Query: 361  NFRATLIPTIAVPVVLLGTFAVLAAFGFSINTLTMFGMVLAIGLLVDDAIVVVENVERVM 420
		            N RATLIPTIAVPVVLLGTFA+LAAFG+SINTLTMFGMVLAIGLLVDDAIVVVENVERVM
		Sbjct: 361  NMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVM 420
		
		Query: 421  AEEGLPPKEATRKSMGQIQGALVGIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMAL 480
		             E+ LPPKEAT KSM QIQGALVGIAMVLSAVF+PMAFFGGSTGAIYRQFSITIVSAMAL
		Sbjct: 421  MEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMAL 480
		
		Query: 481  SVLVALILTPALCATMLKPIAKGDHGEGKKGFFGWFNRMFEKSTHHYTDSVGGILRSTGR 540
		            SVLVALILTPALCAT+LKP++   H E K GFFGWFN  F+ S +HYT+SVG IL STGR
		Sbjct: 481  SVLVALILTPALCATLLKPVSAE-HHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGR 539
		
		Query: 541  YLVLYLIIVVGMAYLFVRLPSSFLPDEDQGVFMTMVQLPAGATQERTQKVLNEVTNYYLT 600
		            YL++Y +IV GM  LF+RLPSSFLP+EDQGVF+TM+QLPAGATQERTQKVL++VT+YYL 
		Sbjct: 540  YLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLK 599
		
		Query: 601  KEKNNVESVFAVNGFGFAGRGQNTGIAFVSLKDWADRPGEENKVEAITMRATRAFSQIKD 660
		             EK NVESVF VNGF F+G+ QN G+AFVSLK W +R G+EN  EA+  RA     +I+D
		Sbjct: 600  NEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIRD 659
		
		Query: 661  AMVFAFNLPAIVELGTATGFDFELIDQAGLGHEKLTQARNQLLAEAAKHPDMLTSVRPNG 720
		              V  FN+PAIVELGTATGFDFELIDQAGLGH+ LTQARNQLL  AA+HP  L SVRPNG
		Sbjct: 660  GFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPNG 719
		
		Query: 721  LEDTPQFKIDIDQEKAQALGVSINDINTTLGAAWGGSYVNDFIDRGRVKKVYVMSEAKYR 780
		            LEDT QFK+++DQEKAQALGVS++DIN T+  A GG+YVNDFIDRGRVKK+YV ++AK+R
		Sbjct: 720  LEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKFR 779
		
		Query: 781  MLPDDIGDWYVRAADGQMVPFSAFSSSRWEYGSPRLERYNGLPSMEILGQAAPGKSTGEA 840
		            MLP+D+   YVR+A+G+MVPFSAF++S W YGSPRLERYNGLPSMEI G+AAPG S+G+A
		Sbjct: 780  MLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGDA 839
		
		Query: 841  MELMEQLASKLPTGVGYDWTGMSYQERLSGNQAPSLYAISLIVVFLCLAALYESWSIPFS 900
		            M LME LASKLP G+GYDWTGMSYQERLSGNQAP+L AIS +VVFLCLAALYESWSIP S
		Sbjct: 840  MALMENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSIPVS 899
		
		Query: 901  VMLVVPLGVIGALLAATFRGLTNDVYFQVGLLTTIGLSAKNAILIVEFAKDLMDKEGKGL 960
		            VMLVVPLG++G LLAAT     NDVYF VGLLTTIGLSAKNAILIVEFAKDLM+KEGKG+
		Sbjct: 900  VMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGV 959
		
		Query: 961  IEATLDAVRMRLRPILMTSLAFILGVMPLVISTGAGSGAQNAVGTGVMGGMVTATVLAIF 1020
		            +EATL AVRMRLRPILMTSLAFILGV+PL IS GAGSGAQNAVG GVMGGMV+AT+LAIF
		Sbjct: 960  VEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIF 1019
		
		Query: 1021 FVPVFFVVVRRRF 1033
		            FVPVFFVV+RR F
		Sbjct: 1020 FVPVFFVVIRRCF 1032
		
		
	559#c0581	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	44	6e-07
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 44.4 bits (105), Expect = 6e-07
		 Identities = 33/212 (15%), Positives = 71/212 (33%), Gaps = 23/212 (10%)
		
		Query: 112 TYQAAYDSAKGDLAKAQAAANIAQLTVNRYQKLLGTQYISKQEYDQALADAQQANAAVTA 171
		             +  Y  A  +L      + + Q+           Q +++   ++ L   +Q    +  
		Sbjct: 256 EQENKYVEAVNELR--VYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGL 313
		
		Query: 172 AKAAVETARINLAYTKVTSPISGRIGKSNV-TEGALVQNGQATALATVQQLDPIYVDVTQ 230
		               +         + + +P+S ++ +  V TEG +V   + T +  V + D + V    
		Sbjct: 314 LTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAE-TLMVIVPEDDTLEVTALV 372
		
		Query: 231 SSNDFLRLKQELA----------NGTLKQENGKAKVSLITSDGIKFPQDGTLEFSDVTVD 280
		            + D   +                          KV  I  D I+  + G +    ++++
		Sbjct: 373 QNKDIGFINVGQNAIIKVEAFPYTRYGYLV---GKVKNINLDAIEDQRLGLVFNVIISIE 429
		
		Query: 281 QTTGSITLRAIFPNPDHTLLPGMFVRARLEEG 312
		           +   S   + I       L  GM V A ++ G
		Sbjct: 430 ENCLSTGNKNIP------LSSGMAVTAEIKTG 455
		
		
		
		 Score = 34.4 bits (79), Expect = 7e-04
		 Identities = 24/125 (19%), Positives = 43/125 (34%), Gaps = 13/125 (10%)
		
		Query: 61  PLQITTELPGR-TSAYRIAEVRPQVSGIILKRNFKEGSDIEAGVSLYQIDPATYQAAYDS 119
		            ++I     G+ T + R  E++P  + I+ +   KEG  +  G  L ++     +A    
		Sbjct: 79  QVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEA---- 134
		
		Query: 120 AKGDLAKAQAAANIAQLTVNRYQKLLGTQYISKQEYDQALADAQQANAAVTAAKAAVETA 179
		              D  K Q++   A+L   RYQ L         E ++                      
		Sbjct: 135 ---DTLKTQSSLLQARLEQTRYQILS-----RSIELNKLPELKLPDEPYFQNVSEEEVLR 186
		
		Query: 180 RINLA 184
		             +L 
		Sbjct: 187 LTSLI 191
		
		
	560#c0582	HTHTETR#TetR bacterial regulatory protein HTH signature.	222	5e-76
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score =  222 bits (567), Expect = 5e-76
		 Identities = 215/215 (100%), Positives = 215/215 (100%)
		
		Query: 1   MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60
		           MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS
		Sbjct: 1   MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60
		
		Query: 61  EIWELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFV 120
		           EIWELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFV
		Sbjct: 61  EIWELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFV 120
		
		Query: 121 GEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLF 180
		           GEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLF
		Sbjct: 121 GEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLF 180
		
		Query: 181 APQSFDLKKEARDYVAILLEMYLLCPTLRNPATNE 215
		           APQSFDLKKEARDYVAILLEMYLLCPTLRNPATNE
		Sbjct: 181 APQSFDLKKEARDYVAILLEMYLLCPTLRNPATNE 215
		
		
	562#c0584	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	32	0.017
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 31.7 bits (72), Expect = 0.017
		 Identities = 19/125 (15%), Positives = 40/125 (32%), Gaps = 6/125 (4%)
		
		Query: 28  QNTAFARASSNGDLPTKADLQAQLDSLNKQKDLSAQDKLVQQDLTDTLATLDKIDRVKEE 87
		            N    RA     L      +        +  L     L+ +      A L++ ++  E 
		Sbjct: 207 LNLDKKRAERLTVLARINRYENLSRVEKSR--LDDFSSLLHKQAIAKHAVLEQENKYVEA 264
		
		Query: 88  TVQLRQKVAEAPEKMRQATAALTALSDVDND--EETRKIL--STLSLRQLETRVAQALDD 143
		             +LR   ++  +   +  +A      V      E    L  +T ++  L   +A+  + 
		Sbjct: 265 VNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEER 324
		
		Query: 144 LQNAQ 148
		            Q + 
		Sbjct: 325 QQASV 329
		
		
	567#c0589	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	39	9e-05
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 38.5 bits (89), Expect = 9e-05
		 Identities = 40/251 (15%), Positives = 78/251 (31%), Gaps = 31/251 (12%)
		
		Query: 404  PLPETTSQVLAARQQLQRVQGATKAKKSEPAA----ATRARPVNNAALERLASVTDRVQA 459
		            P  E  +Q +        +      +   P+        AR  + A +   A  T     
		Sbjct: 983  PEVEKRNQTVDTTN----ITTPNNIQADVPSVPSNNEEIARV-DEAPVPPPAPATPSETT 1037
		
		Query: 460  RPVPSALEKAPAKKEAYRWKATTPVMQQKE--------VVATPKALKKA---LEHEKTPE 508
		              V    ++     E     AT    Q +E        V A  +  + A    E ++T  
		Sbjct: 1038 ETVAENSKQESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQT 1097
		
		Query: 509  LAAKLAA---------EAIERDPWAAQVSQLSLPKLVEQVALNAWKE-ESDNAVCLHLRS 558
		               K  A            E+     +V+    PK  +   +    E   +N   ++++ 
		Sbjct: 1098 TETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKE 1157
		
		Query: 559  SQRHLNNRGAQQKLAEALST-LKGSTVELTIVEDDNPAVRTPLEWRQAIYEEKLAQARES 617
		             Q   N     ++ A+  S+ ++    E T V   N  V  P     A  +  +     +
		Sbjct: 1158 PQSQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSN 1217
		
		Query: 618  IIADNNIQTLR 628
		               + + +++R
		Sbjct: 1218 KPKNRHRRSVR 1228
		
		
c0601	c0646	Y	Y	N	c0586	c0626
	c0601	-1	13	3.226976	Protein ybaK
	c0602	0	14	3.662337	Hypothetical protein ybaP
	c0603	-2	12	3.286964	Hypothetical protein ybaQ
	c0604	-2	14	4.020320	Copper-transporting P-type ATPase
	c0605	-3	15	2.307624	Probable glutaminase ybaS
	c0606	-2	16	1.250322	Hypothetical transport protein ybaT
	c0607	-1	14	1.329096	Transcriptional regulator cueR
	c0608	-1	13	1.290458	Hypothetical protein
	c0609	-1	16	1.487255	Hypothetical protein ybbJ
	c0610	-1	14	1.367594	Hypothetical protein ybbK
	c0611	1	16	3.569825	Hypothetical ABC transporter ATP-binding protein
	c0613	1	17	4.592657	Hypothetical protein ybbN
	c0614	0	16	4.234026	Hypothetical oxidoreductase ybbO
	c0615	1	17	4.036378	Acyl-CoA thioesterase I precursor
	c0616	-1	16	4.002570	Hypothetical ABC transporter ATP-binding protein
	c0617	-2	14	3.207897	Hypothetical protein ybbP
	c0618	-3	16	0.333714	Hypothetical protein ybbB
	c0619	-3	16	-0.415415	Hypothetical transcriptional regulator ybbS
	c0620	-1	17	-1.452325	Ureidoglycolate hydrolase
	c0621	-1	16	-1.200130	Negative regulator of allantoin and glyoxylate
	c0622	0	16	-1.355984	Glyoxylate carboligase
	c0623	1	17	-1.006421	Hydroxypyruvate isomerase
	c0624	1	16	-0.783638	2-hydroxy-3-oxopropionate reductase
	c0625	2	14	-0.616477	Putative allantoin permease
	c0626	2	13	0.347460	Allantoinase
	c0627	3	17	1.271366	Putative purine permease ybbY
	c0628	2	16	2.279410	Glycerate kinase 1
	c0629	2	14	2.473050	Hypothetical protein ylbA
	c0630	1	16	3.749942	Allantoate amidohydrolase
	c0631	1	16	4.634126	Ureidoglycolate dehydrogenase
	c0632	2	17	5.382182	Protein fdrA
	c0633	2	17	4.993902	Hypothetical protein ylbE
	c0634	1	15	4.428430	Hypothetical protein ylbF
	c0635	0	13	2.586343	Carbamate kinase
	c0636	2	15	0.929057	Phosphoribosylaminoimidazole carboxylase ATPase
	c0637	2	17	0.487251	Phosphoribosylaminoimidazole carboxylase
	c0638	2	15	-0.243049	Hypothetical protein
	c0639	3	17	0.466005	UDP-2,3-diacylglucosamine hydrolase
	c0640	3	19	0.741858	Conserved hypothetical protein
	c0641	3	23	1.320028	Peptidyl-prolyl cis-trans isomerase B
	c0642	1	18	1.686062	Cysteinyl-tRNA synthetase
	c0643	2	16	0.773511	Hypothetical protein ybcI
	c0644	1	17	-2.164795	Hypothetical protein ybcJ
	c0645	0	20	-4.292691	FolD bifunctional protein
	c0646	2	22	-5.179378	Hypothetical protein
	583#c0605	BLACTAMASEA#Beta-lactamase class A signature.	29	0.020
		>BLACTAMASEA#Beta-lactamase class A signature.
		          Length = 286
		
		 Score = 29.0 bits (65), Expect = 0.020
		 Identities = 11/43 (25%), Positives = 19/43 (44%)
		
		Query: 38 GQLAAVAIVTSDGNVYSAGDSDYRFALESISKVCTLALALEDV 80
		          G++  + +  + G   +A  +D RF + S  KV      L  V
		Sbjct: 38 GRVGMIEMDLASGRTLTAWRADERFPMMSTFKVVLCGAVLARV 80
		
		
	591#c0614	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	78	5e-19
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score = 77.8 bits (191), Expect = 5e-19
		 Identities = 49/212 (23%), Positives = 81/212 (38%), Gaps = 7/212 (3%)
		
		Query: 16  KSVLITGCSSGIGLESALELKRQGFHVLAGCRKPDDVERMNS----MGFT--GVLIDLDS 69
		           K   ITG + GIG   A  L  QG H+ A    P+ +E++ S              D+  
		Sbjct: 9   KIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRD 68
		
		Query: 70  PESVDRAADEVIALTDNCLYGIFNNAGFGMYGPLSTISRAQMEQQFSANFFGAHQLTMRL 129
		             ++D     +       +  + N AG    G + ++S  + E  FS N  G    +  +
		Sbjct: 69  SAAIDEITARIEREMGP-IDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRSV 127
		
		Query: 130 LPAMLPHGEGRIVMTSSVMGLISTPGRGAYAASKYALEAWSDALRMELRHSGIKVSLIEP 189
		              M+    G IV   S    +      AYA+SK A   ++  L +EL    I+ +++ P
		Sbjct: 128 SKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSP 187
		
		Query: 190 GPIRTRFTDNVNQTQSDKPVENPGIAARFTLG 221
		           G   T    ++   ++       G    F  G
		Sbjct: 188 GSTETDMQWSLWADENGAEQVIKGSLETFKTG 219
		
		
	593#c0616	PF05272#Virulence-associated E family protein	30	0.013
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 29.7 bits (66), Expect = 0.013
		 Identities = 12/20 (60%), Positives = 13/20 (65%)
		
		Query: 41  LVGESGSGKSTLLAILAGLD 60
		           L G  G GKSTL+  L GLD
		Sbjct: 601 LEGTGGIGKSTLINTLVGLD 620
		
		
	598#c0621	PF09025#YopR Core	28	0.020
		>PF09025#YopR Core
		          Length = 143
		
		 Score = 28.1 bits (62), Expect = 0.020
		 Identities = 17/61 (27%), Positives = 25/61 (40%), Gaps = 8/61 (13%)
		
		Query: 126 EAVLIGQLECKSMVRMCAPLGSR--------LPLHASGAGKALLYPLAEEELMSIILQTG 177
		           + +   +LE K+M+R   PLG +        L       G   L  LA  EL  +I   G
		Sbjct: 68  QGLEADRLELKAMLRAELPLGRQQQTFLLQLLGAVEHAPGGEYLAQLARRELQVLIPLNG 127
		
		Query: 178 L 178
		           +
		Sbjct: 128 M 128
		
		
	603#c0626	UREASE#Urea amidohydrolase (urease) protein signature.	56	1e-10
		>UREASE#Urea amidohydrolase (urease) protein signature.
		          Length = 570
		
		 Score = 56.3 bits (136), Expect = 1e-10
		 Identities = 39/163 (23%), Positives = 60/163 (36%), Gaps = 32/163 (19%)
		
		Query: 4   DLIIKNGTVILENEARVVDIAVKDGKIAAIG-------QD-----LGDAKDVMDASGLVV 51
		           D +I N  ++        DI +KDG+IAAIG       Q      +G   +V+   G +V
		Sbjct: 69  DTVITNALILDHWGIVKADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTEVIAGEGKIV 128
		
		Query: 52  SPGMVDAHTHISEPGRSHWEGYETGTRAAAKGGITTMIEMPLNQLPATVDRAS------- 104
		           + G +D+H H   P +            A   G+T M+       PA    A+       
		Sbjct: 129 TAGGMDSHIHFICPQQIE---------EALMSGLTCMLGGGTG--PAHGTLATTCTPGPW 177
		
		Query: 105 -IELKFDAAKGKLTIDAAQLGGLVSYNIDRLHELDEVGVVGFK 146
		            I    +AA     ++ A  G   +     L E+   G    K
		Sbjct: 178 HIARMIEAADA-FPMNLAFAGKGNASLPGALVEMVLGGATSLK 219
		
		
	612#c0635	CARBMTKINASE#Bacterial carbamate kinase signature.	386	e-138
		>CARBMTKINASE#Bacterial carbamate kinase signature.
		          Length = 314
		
		 Score =  386 bits (994), Expect = e-138
		 Identities = 126/310 (40%), Positives = 176/310 (56%), Gaps = 16/310 (5%)
		
		Query: 2   KTLVVALGGNALLQRGEALTAENQYRNIASAVPALARL-ARSYRLAIVHGNGPQVGLLAL 60
		           K +V+ALGGNAL QRG+  + E    N+      +A + AR Y + I HGNGPQVG L L
		Sbjct: 3   KRVVIALGGNALQQRGQKGSYEEMMDNVRKTARQIAEIIARGYEVVITHGNGPQVGSLLL 62
		
		Query: 61  QNLAWKE---VEPYPLDVLVAESQGMIGYMLAQSLSAQPQM----PHVTTVLTRIEVSPD 113
		              A +    +   P+DV  A SQG IGYM+ Q+L  + +       V T++T+  V  +
		Sbjct: 63  HMDAGQATYGIPAQPMDVAGAMSQGWIGYMIQQALKNELRKRGMEKKVVTIITQTIVDKN 122
		
		Query: 114 DPAFLQPEKFIGPVYQPEEQEALEATYGWQMKRD-GKYLRRVVASPQPRKILDSEAIELL 172
		           DPAF  P K +GP Y  E  + L    GW +K D G+  RRVV SP P+  +++E I+ L
		Sbjct: 123 DPAFQNPTKPVGPFYDEETAKRLAREKGWIVKEDSGRGWRRVVPSPDPKGHVEAETIKKL 182
		
		Query: 173 LKEGHVVICSGGGGVPVTEDG---AGSEAVIDKDLAAALLAEQINADGLVILTDADAVYE 229
		           ++ G +VI SGGGGVPV  +     G EAVIDKDLA   LAE++NAD  +ILTD +    
		Sbjct: 183 VERGVIVIASGGGGVPVILEDGEIKGVEAVIDKDLAGEKLAEEVNADIFMILTDVNGAAL 242
		
		Query: 230 NWGTPQQRAIRHATPDELAPFAKAD----GSMGPKVTAVSGYVRSRGKPAWIGALSRIEE 285
		            +GT +++ +R    +EL  + +      GSMGPKV A   ++   G+ A I  L +  E
		Sbjct: 243 YYGTEKEQWLREVKVEELRKYYEEGHFKAGSMGPKVLAAIRFIEWGGERAIIAHLEKAVE 302
		
		Query: 286 TLAGEAGTCI 295
		            L G+ GT +
		Sbjct: 303 ALEGKTGTQV 312
		
		
	619#c0642	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	29	0.030
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 29.4 bits (66), Expect = 0.030
		 Identities = 16/150 (10%), Positives = 44/150 (29%), Gaps = 8/150 (5%)
		
		Query: 299 RSQLNYSEENLKQARAALERLYTALRGTDKTVAPAGGEAFEARFIEAMDDDFNTP----- 353
		            +    ++ +L QAR    R     R  +    P      E  F    +++         
		Sbjct: 133 EADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIK 192
		
		Query: 354 EAYSVLFDMAREVNRLKAEDMAAANAMASHLRKLSAVLGLLEQEPEAFLQSGAQADDSEV 413
		           E +S   +   +      +  A    + + + +   +  + +   + F           +
		Sbjct: 193 EQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSS---LLHKQAI 249
		
		Query: 414 AEIEALIQQRLDARKAKDWAAADAARDRLN 443
		           A+   L Q+        +     +  +++ 
		Sbjct: 250 AKHAVLEQENKYVEAVNELRVYKSQLEQIE 279
		
		
c0668	c0703	Y	Y	N	c0653	c0692
	c0668	-2	13	3.094434	4'-phosphopantetheinyl transferase entD
	c0669	-2	12	2.291739	Ferrienterobactin receptor precursor
	c0670	-1	13	2.236890	Hypothetical protein
	c0671	-1	13	2.821939	Enterochelin esterase
	c0672	0	12	3.377681	Conserved hypothetical protein
	c0673	0	14	3.752666	Enterobactin synthetase component F
	c0674	0	12	3.313035	Ferric enterobactin transport protein fepE
	c0675	0	14	5.458022	Ferric enterobactin transport ATP-binding
	c0676	0	16	5.644269	Ferric enterobactin transport system permease
	c0677	-1	17	5.324514	Ferric enterobactin transport system permease
	c0678	-2	18	4.887816	Hypothetical membrane protein P43
	c0679	-2	19	4.732561	Ferrienterobactin-binding periplasmic protein
	c0680	-2	23	5.197138	Isochorismate synthase entC
	c0681	-2	25	5.251052	Enterobactin synthetase component E
	c0682	-1	22	5.059982	Isochorismatase
	c0683	-1	20	4.936808	2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
	c0684	-1	20	3.720316	Hypothetical protein ybdB
	c0685	-1	16	1.944682	Carbon starvation protein A
	c0686	-1	17	-2.591400	Hypothetical protein yjiX
	c0687	-2	15	-3.056173	Hypothetical oxidoreductase ybdH
	c0688	-3	17	-4.460323	Hypothetical aminotransferase ybdL
	c0689	-1	22	-6.081830	Hypothetical protein ybdM
	c0690	-1	19	-4.232883	Hypothetical protein ybdN
	c0691	0	21	-4.132304	Hypothetical transcriptional regulator ybdO
	c0692	0	23	-1.307801	Thiol:disulfide interchange protein dsbG
	c0693	0	26	0.022486	Hypothetical protein
	c0694	0	24	0.332235	Alkyl hydroperoxide reductase C22 protein
	c0695	0	16	0.361641	Alkyl hydroperoxide reductase subunit F
	c0696	0	13	0.792140	Unknown protein from 2D-page
	c0697	0	14	2.055424	Conserved hypothetical protein
	c0698	-1	16	2.827780	Regulator of nucleoside diphosphate kinase
	c0699	-2	17	3.259363	Ribonuclease I precursor
	c0700	-2	18	4.084420	Citrate carrier/transporter
	c0701	-2	23	5.372802	2-(5''-triphosphoribosyl)-3'-dephosphocoenzyme-A
	c0702	-1	25	4.734588	Apo-citrate lyase phosphoribosyl-dephospho-CoA
	c0703	-1	19	3.030442	Hypothetical protein
	643#c0668	ENTSNTHTASED#Enterobactin synthetase component D signature.	267	7e-93
		>ENTSNTHTASED#Enterobactin synthetase component D signature.
		          Length = 234
		
		 Score =  267 bits (684), Expect = 7e-93
		 Identities = 108/183 (59%), Positives = 132/183 (72%), Gaps = 1/183 (0%)
		
		Query: 51  MKTTHTSLPFAGHTLHFVEFDPASFREQDLLWLPHYAQLQHAGRKRKTEHLAGRIAAIYA 110
		           M T+H  LPFAGH LH V+FD +SFRE DLLWLPH+ +L+ AGRKRK EHLAGRIAA++A
		Sbjct: 1   MLTSHFPLPFAGHRLHIVDFDASSFREHDLLWLPHHDRLRSAGRKRKAEHLAGRIAAVHA 60
		
		Query: 111 LREYGYKCVPAIGELRQPVWPAGVYGSISHCGTTALAVVSRQPIGIDIEEIFSAQTAREL 170
		           LRE G + VP +G+ RQP+WP G++GSISHC TTALAV+SRQ IGIDIE+I S  TA EL
		Sbjct: 61  LREVGVRTVPGMGDKRQPLWPDGLFGSISHCATTALAVISRQRIGIDIEKIMSQHTATEL 120
		
		Query: 171 TDNIITPAEHKRLADCGLAFPLALTLAFSAKESAFKA-SEIQTDADFLDYQIISRNKQQV 229
		             +II   E + L    L FPLALTLAFSAKES +KA S+  T   F   ++ S     +
		Sbjct: 121 APSIIDSDERQILQASLLPFPLALTLAFSAKESVYKAFSDRVTLPGFNSAKVTSLTATHI 180
		
		Query: 230 IIH 232
		            +H
		Sbjct: 181 SLH 183
		
		
	653#c0678	TCRTETA#Tetracycline resistance protein signature.	36	2e-04
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 36.3 bits (84), Expect = 2e-04
		 Identities = 82/394 (20%), Positives = 146/394 (37%), Gaps = 38/394 (9%)
		
		Query: 27  FISIVSLGLLGVAVPVQIQMMTHSTWQV---GLSVTLTGGAMFVGLMVGGVLADRYERKK 83
		            +  V +GL+   +P  ++ + HS       G+ + L     F    V G L+DR+ R+ 
		Sbjct: 15  ALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGALSDRFGRRP 74
		
		Query: 84  VILLARGTCGIGFIGLCLNALL--PEPSLLAIYLLGLWDGFFASLGVTALLAATPALVGR 141
		           V+L       +   G  ++  +    P L  +Y+  +  G   + G  A  A    +   
		Sbjct: 75  VLL-------VSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVA-GAYIADITDG 126
		
		Query: 142 ENLMQAGAITMLTVRLGSVISPMIGGLLLATGGVAWNYGLAAAGTFITLLPLLSLPALPP 201
		           +   +           G V  P++GGL+   GG + +    AA     L  L     LP 
		Sbjct: 127 DERARHFGFMSACFGFGMVAGPVLGGLM---GGFSPHAPFFAAAALNGLNFLTGCFLLPE 183
		
		Query: 202 PPQPREHPLK----SLLAGFRFLLASPLVGGIALLGGLLTMAS----AVRVLYPALADNW 253
		             +    PL+    + LA FR+     +V  +  +  ++ +      A+ V++    D +
		Sbjct: 184 SHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFG--EDRF 241
		
		Query: 254 QMSAAQIGFLYAAIP-LGAAIGALTSGKLAHSVRPGLLMLLSTLG---AFLAIGLFGLMP 309
		              A  IG   AA   L +   A+ +G +A  +     ++L  +     ++ +       
		Sbjct: 242 HWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFATRGW 301
		
		Query: 310 MWILGVVCLALFGWLSAVSSLLQYTMLQTQTPEAMLGRINGLWTAQNVTGDAIGAALLGG 369
		           M    +V LA  G            ML  Q  E   G++ G   A       +G  L   
		Sbjct: 302 MAFPIMVLLASGGIGMPALQ----AMLSRQVDEERQGQLQGSLAALTSLTSIVGPLLFTA 357
		
		Query: 370 LGAMMTPVASASASGFGLLIIGVLLLLVLVELRR 403
		           + A     +  + +G+  +    L LL L  LRR
		Sbjct: 358 IYA----ASITTWNGWAWIAGAALYLLCLPALRR 387
		
		
	654#c0679	FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature.	63	2e-13
		>FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature.
		          Length = 296
		
		 Score = 62.7 bits (152), Expect = 2e-13
		 Identities = 60/280 (21%), Positives = 100/280 (35%), Gaps = 35/280 (12%)
		
		Query: 40  HTLESQPQRIVSTSVTLTGSLLAIDAPVIASGATTPNNRVADDQGFLRQWSKVAKERKLQ 99
		           H     P RIV+        LLA+               VAD   + R W     E  L 
		Sbjct: 29  HAAAIDPNRIVALEWLPVELLLALGIVPYG---------VADTINY-RLW---VSEPPLP 75
		
		Query: 100 RLYIG-----EPSAEAVAAQMPDLILISATGGDSALALYDQLSTIAPTLIINYDDKS--- 151
		              I      EP+ E +    P  ++ SA  G S     + L+ IAP    N+ D     
		Sbjct: 76  DSVIDVGLRTEPNLELLTEMKPSFMVWSAGYGPS----PEMLARIAPGRGFNFSDGKQPL 131
		
		Query: 152 --WQSLLTQLGEITGHEKQAAERIAQFDKQLAAAKEQIKLPPQPVTAIVYTAAAHSANLW 209
		              +  LT++ ++   +  A   +AQ++  + + K +          +          ++
		Sbjct: 132 AMARKSLTEMADLLNLQSAAETHLAQYEDFIRSMKPRFVKRGARPLLLTTLIDPRHMLVF 191
		
		Query: 210 TPESAQGQMLEQLGFTLAKLPAGLNASQSQGKRHDIIQLGGENLAAGLNGESLFLFAGDQ 269
		            P S   ++L++ G          NA Q +        +  + LAA  + + L     + 
		Sbjct: 192 GPNSLFQEILDEYGIP--------NAWQGETNFWGSTAVSIDRLAAYKDVDVLCFDHDNS 243
		
		Query: 270 KDADAIYANPLLAHLPAVQNKQVYALGTETFRLDYYSAMQ 309
		           KD DA+ A PL   +P V+  +   +    F     SAM 
		Sbjct: 244 KDMDALMATPLWQAMPFVRAGRFQRVPAVWFYGATLSAMH 283
		
		
	657#c0682	ISCHRISMTASE#Isochorismatase signature.	443	e-161
		>ISCHRISMTASE#Isochorismatase signature.
		          Length = 312
		
		 Score =  443 bits (1141), Expect = e-161
		 Identities = 146/299 (48%), Positives = 195/299 (65%), Gaps = 18/299 (6%)
		
		Query: 1   MAIPKLQAYALPESHDIPQNKVDWAFEPQRAALLIHDMQDYFVSFWGENCPMMEQVIANI 60
		           MAIP +Q Y +P + D+PQNKV W  +P RA LLIHDMQ+YFV  +      + ++ ANI
		Sbjct: 1   MAIPAIQPYQMPTASDMPQNKVSWVPDPNRAVLLIHDMQNYFVDAFTAGASPVTELSANI 60
		
		Query: 61  AALRDYCKQHNIPVYYTAQPKEQSDEDRALLNDMWGPGLTRSPEQQKVVDRLTPDADDTV 120
		             L++ C Q  IPV YTAQP  Q+ +DRALL D WGPGL   P ++K++  L P+ DD V
		Sbjct: 61  RKLKNQCVQLGIPVVYTAQPGSQNPDDRALLTDFWGPGLNSGPYEEKIITELAPEDDDLV 120
		
		Query: 121 LVKWRYSAFHRSPLEQMLKESGRNQLIITGVYAHIGCMTTATDAFMRDIKPFMVADALAD 180
		           L KWRYSAF R+ L +M+++ GR+QLIITG+YAHIGC+ TA +AFM DIK F V DA+AD
		Sbjct: 121 LTKWRYSAFKRTNLLEMMRKEGRDQLIITGIYAHIGCLVTACEAFMEDIKAFFVGDAVAD 180
		
		Query: 181 FSRDEHLMSLKYVAGRSGRVVMTEELL------PAPIPASKAE-----------LREVIL 223
		           FS ++H M+L+Y AGR    VMT+ LL      PA +  + A            +R+ I 
		Sbjct: 181 FSLEKHQMALEYAAGRCAFTVMTDSLLDQLQNAPADVQKTSANTGKKNVFTCENIRKQIA 240
		
		Query: 224 PLLDESDEPFDDD-NLIDYGLDSVRMMALAARWRKVHGDIDFVMLAKNPTIDAWWKLLS 281
		            LL E+ E   D  +L+D GLDSVR+M L  +WR+   ++ FV LA+ PTI+ W KLL+
		Sbjct: 241 ELLQETPEDITDQEDLLDRGLDSVRIMTLVEQWRREGAEVTFVELAERPTIEEWQKLLT 299
		
		
	658#c0683	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	362	e-130
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score =  362 bits (930), Expect = e-130
		 Identities = 110/258 (42%), Positives = 150/258 (58%), Gaps = 20/258 (7%)
		
		Query: 5   GKNVWVTGAGKGIGYATAMAFVEAGAKVTGFD---------------QAFTQEQYPFATE 49
		           GK  ++TGA +GIG A A      GA +   D               +A   E +P    
		Sbjct: 8   GKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFP---- 63
		
		Query: 50  VMDVADAAQVAQVCQRLLAETERLDVLVNAAGILRMGATDQLSKEDWQQTFAVNVGGAFN 109
		             DV D+A + ++  R+  E   +D+LVN AG+LR G    LS E+W+ TF+VN  G FN
		Sbjct: 64  -ADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFN 122
		
		Query: 110 LFQQTMNQFRHQRGGAIVTVASDAAHTPRIGMSAYGASKAALKSLALSVGLELAGSGVRC 169
		             +        +R G+IVTV S+ A  PR  M+AY +SKAA       +GLELA   +RC
		Sbjct: 123 ASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRC 182
		
		Query: 170 NVVSPGSTDTDMQRTLWVSDDAEEQRIRGFGEQFKLGIPLGKIARPQEIANTILFLASDL 229
		           N+VSPGST+TDMQ +LW  ++  EQ I+G  E FK GIPL K+A+P +IA+ +LFL S  
		Sbjct: 183 NIVSPGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQ 242
		
		Query: 230 ASHITLQDIVVDGGSTLG 247
		           A HIT+ ++ VDGG+TLG
		Sbjct: 243 AGHITMHNLCVDGGATLG 260
		
		
	667#c0692	BCTLIPOCALIN#Bacterial lipocalin signature.	29	0.017
		>BCTLIPOCALIN#Bacterial lipocalin signature.
		          Length = 171
		
		 Score = 28.8 bits (64), Expect = 0.017
		 Identities = 18/98 (18%), Positives = 39/98 (39%), Gaps = 13/98 (13%)
		
		Query: 50  QGITIIKTFDAPGGMKGYLGKYQDMGVTIYLTPDGKHAISG--YMYNEKGENLSNTLIEK 107
		           + +  +  F+       YLGK+ ++    +    G   ++    + N+ G ++ N     
		Sbjct: 21  ESVKPVSDFEL----NNYLGKWYEVARLDHSFERGLSQVTAEYRVRNDGGISVLN----- 71
		
		Query: 108 EIYAPAGREMWQRMEQSHWLLDGKKDAPVIVYVFADPF 145
		             Y+   +  W+  E   + ++G  D  + V  F  PF
		Sbjct: 72  RGYSEE-KGEWKEAEGKAYFVNGSTDGYLKVSFFG-PF 107
		
		
c0778	c0790	Y	Y	N	c0763	c0802
	c0778	-2	17	4.524093	Hypothetical protein
	c0779	-2	17	4.593605	KDP operon transcriptional Regulatory protein
	c0780	-2	16	4.373581	Sensor protein kdpD
	c0781	0	15	2.952124	Potassium-transporting ATPase C chain
	c0782	-1	15	2.825434	Potassium-transporting ATPase B chain
	c0783	-1	15	1.668118	Potassium-transporting ATPase A chain
	c0784	-1	16	1.064262	Hypothetical protein
	c0785	-2	16	1.849046	Hypothetical protein ybfA precursor
	c0786	-2	15	2.362437	Hypothetical protein ybgA
	c0787	-1	15	3.016709	Deoxyribodipyrimidine photolyase
	c0788	-1	15	2.906689	Hypothetical transporter ybgH
	c0789	0	16	3.911167	Hypothetical protein ybgI
	c0790	-1	15	3.193559	Hypothetical protein ybgJ
	752#c0779	HTHFIS#FIS bacterial regulatory protein HTH signature.	92	8e-24
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 92.2 bits (229), Expect = 8e-24
		 Identities = 35/125 (28%), Positives = 58/125 (46%), Gaps = 1/125 (0%)
		
		Query: 2   TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRKPDLIILDLGLPDGDGI 61
		             +L+ +D+ AIR  L  AL   G  V             A    DL++ D+ +PD +  
		Sbjct: 4   ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63
		
		Query: 62  EFIRDLRQWSA-VPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRRHS 120
		           + +  +++    +PV+V+SA++     I A + GA DYL KPF + EL   +  AL    
		Sbjct: 64  DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123
		
		Query: 121 ATTTP 125
		              + 
		Sbjct: 124 RRPSK 128
		
		
	753#c0780	PF06580#Sensor histidine kinase	33	0.007
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 32.5 bits (74), Expect = 0.007
		 Identities = 10/48 (20%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
		
		Query: 786 LLENAVKYAGAQAE----IGINAHVEGENLQLDVWDNGPGLPPGQEQT 829
		           L+EN +K+  AQ      I +    +   + L+V + G       +++
		Sbjct: 263 LVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTKES 310
		
		
c0799	c0819	Y	Y	N	c0784	c0823
	c0799	1	26	3.410503	Hypothetical protein
	c0800	1	29	3.299433	Succinate dehydrogenase hydrophobic membrane
	c0801	1	30	3.305608	Succinate dehydrogenase flavoprotein subunit
	c0802	1	26	1.882619	Succinate dehydrogenase iron-sulfur protein
	c0803	0	25	1.005868	2-oxoglutarate dehydrogenase E1 component
	c0804	-2	22	-1.196835	Dihydrolipoamide succinyltransferase component
	c0805	-2	21	-3.308010	Succinyl-CoA synthetase beta chain
	c0806	-1	20	-3.350896	Succinyl-CoA synthetase alpha chain
	c0807	0	19	-2.808577	Hypothetical protein
	c0808	2	23	-0.580026	Hypothetical protein
	c0809	2	25	0.933753	Hypothetical protein
	c0810	3	24	0.986189	Hypothetical protein
	c0811	1	23	1.025142	Cytochrome D ubiquinol oxidase subunit I
	c0812	1	22	0.929230	Cytochrome D ubiquinol oxidase subunit II
	c0813	2	21	0.526648	Hypothetical protein
	c0814	2	18	0.333913	Protein ybgE
	c0815	2	19	0.033854	Protein ybgC
	c0816	2	22	0.085272	TolQ protein
	c0817	3	22	0.020968	TolR protein
	c0818	4	22	-0.160123	TolA protein
	c0819	2	23	-0.989532	TolB protein precursor
	775#c0802	TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family ...	31	0.003
		>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family
		           signature.
		          Length = 639
		
		 Score = 31.4 bits (71), Expect = 0.003
		 Identities = 11/41 (26%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
		
		Query: 14  VDDAPRMQDYTLEAEEGRDM-MLLDALIQLKEKDPSLSFRR 53
		           +++   +   T+E  + +   MLLDAL+++ + DP L +  
		Sbjct: 339 IENPLPLLQTTVEPSKPQQREMLLDALLEISDSDPLLRYYV 379
		
		
	777#c0804	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	30	0.017
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 30.2 bits (68), Expect = 0.017
		 Identities = 27/196 (13%), Positives = 56/196 (28%), Gaps = 12/196 (6%)
		
		Query: 48  EVPASADGILDAVLEDEGTTVTSRQILGRLREGNSAGKETSAKSE-EKASTPAQRQQASL 106
		           E+    + I+  ++  EG +V    +L +L    +       +S   +A     R Q   
		Sbjct: 98  EIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILS 157
		
		Query: 107 EEQNNDAL----SPAIRRLLAEHNLDASAIKGTGVGGRLTRED----VEKHLAKAPAKES 158
		                + L     P           +   +         T ++     E +L K  A+  
		Sbjct: 158 RSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERL 217
		
		Query: 159 APAAAAPAAQPTLAARSEKRVPMTRLRKRVA---ERLLEAKNSTAMLTTFNEVNMKPIMD 215
		              A     +        +    + L  + A     +LE +N          V    +  
		Sbjct: 218 TVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQ 277
		
		Query: 216 LRKQYGEAFEKRHGIR 231
		           +  +   A E+   + 
		Sbjct: 278 IESEILSAKEEYQLVT 293
		
		
	780#c0807	SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD cha...	28	0.025
		>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD
		           chaperone signature.
		          Length = 168
		
		 Score = 28.4 bits (63), Expect = 0.025
		 Identities = 18/65 (27%), Positives = 26/65 (40%)
		
		Query: 255 AMQNSGDTQLARKYNREGEAVYKTGQLEQAIQLFQQATELDGNYGQAFSNLGLAYQKNGN 314
		           AM N   +    +        Y++G+ E A ++FQ    LD    + F  LG   Q  G 
		Sbjct: 26  AMLNEISSDTLEQLYSLAFNQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQ 85
		
		Query: 315 IAEAI 319
		              AI
		Sbjct: 86  YDLAI 90
		
		
	791#c0818	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	59	2e-11
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 58.9 bits (142), Expect = 2e-11
		 Identities = 33/199 (16%), Positives = 68/199 (34%), Gaps = 8/199 (4%)
		
		Query: 99   EQERLKQLEKERLAAQEQKKQAEEAAKQAELKQKQAEEAAAKAAADAKAKAEADAKAAEE 158
		            E E+  Q             QA+  +          E A    A          ++  E 
		Sbjct: 984  EVEKRNQTVDTTNITTPNNIQADVPSVP----SNNEEIARVDEAPVPPPAPATPSETTET 1039
		
		Query: 159  AAK--KAAADAKKKAEAEAAKAAVEAQKKAEAAAAALKKKAEAAEAA--AAEARKKAATE 214
		             A+  K  +   +K E +A +   + ++ A+ A + +K   +  E A   +E ++   TE
		Sbjct: 1040 VAENSKQESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTE 1099
		
		Query: 215  AAEKAKAEAEKKAAAEKAAADKKAAAEKAAADKKAAEKAAAEKAAADKKAAAEKAAADKK 274
		              E A  E E+KA  E     +        + K+   +    +A   ++        + +
		Sbjct: 1100 TKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQ 1159
		
		Query: 275  AAAAKAAAEKAAAAKAAAE 293
		            +     A  +  A + ++ 
		Sbjct: 1160 SQTNTTADTEQPAKETSSN 1178
		
		
		
		 Score = 56.6 bits (136), Expect = 1e-10
		 Identities = 30/236 (12%), Positives = 85/236 (36%), Gaps = 11/236 (4%)
		
		Query: 68   QSQESSAKRSDEQRKMKEQQAAEELREKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQA 127
		            Q+   S   ++E+    ++           +E         ++ +   +K   E+ A + 
		Sbjct: 1004 QADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKN--EQDATET 1061
		
		Query: 128  ELKQKQ-AEEAAAKAAAD------AKAKAEADAKAAEEAAKKAAADAKKKAEAEAAKAAV 180
		              + ++ A+EA +   A+      A++ +E       E  + A  + ++KA+ E  K   
		Sbjct: 1062 TAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQE 1121
		
		Query: 181  EAQKKAEAAAAALKKKAEAAEAAAAEARKKAATEAAEKAKAEAEKKAAAEKAAADKKAAA 240
		              +  ++ +    ++++E  +  A  AR+   T   ++ +++    A  E+ A +  +  
		Sbjct: 1122 VPKVTSQVSPK--QEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNV 1179
		
		Query: 241  EKAAADKKAAEKAAAEKAAADKKAAAEKAAADKKAAAAKAAAEKAAAAKAAAEADD 296
		            E+   +        +     +    A         ++ K       + ++     +
		Sbjct: 1180 EQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPHNVE 1235
		
		
		
		 Score = 56.2 bits (135), Expect = 2e-10
		 Identities = 30/229 (13%), Positives = 72/229 (31%), Gaps = 4/229 (1%)
		
		Query: 66   RMQSQESSAKRSDEQRKMKEQQAAEELREKQAAEQERLKQLEKERLAAQEQKKQAEEAAK 125
		            R  ++E+ +      +  +  Q+  E +E Q  E +    +EKE  A  E +K  E    
		Sbjct: 1066 REVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKV 1125
		
		Query: 126  QAELKQKQAEEAAAKAAADAKAKAEADAKAAEEAAKKAAADAKKKAEAEAAKAAVEAQKK 185
		             +++  KQ +    +  A+   + +      +E   +    A  +  A+   + VE    
		Sbjct: 1126 TSQVSPKQEQSETVQPQAEPARENDP-TVNIKEPQSQTNTTADTEQPAKETSSNVEQPVT 1184
		
		Query: 186  AEAAAAALKKKAEAAEAAAAEARKKAATEAAEKAKAEAEKKAAAEKAAADKKAAA---EK 242
		                        E  E       +      +        +++        + A     ++
		Sbjct: 1185 ESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPHNVEPATTSSNDR 1244
		
		Query: 243  AAADKKAAEKAAAEKAAADKKAAAEKAAADKKAAAAKAAAEKAAAAKAA 291
		            +                +D +A A+  A +   A ++  ++     +  
		Sbjct: 1245 STVALCDLTSTNTNAVLSDARAKAQFVALNVGKAVSQHISQLEMNNEGQ 1293
		
		
		
		 Score = 55.8 bits (134), Expect = 2e-10
		 Identities = 32/265 (12%), Positives = 86/265 (32%), Gaps = 14/265 (5%)
		
		Query: 51   DAVMVDSGAVVEQYKRMQSQESSAKRSDEQRKMKEQQAAE-ELREKQAAEQER------L 103
		            D   V   A     +  ++   ++K+  +  +  EQ A E   + ++ A++ +       
		Sbjct: 1021 DEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDATETTAQNREVAKEAKSNVKANT 1080
		
		Query: 104  KQLEKERLAAQEQKKQAEEAAKQAELKQKQAEEAAAKAAADAKAKAEADAKAAEEAAKKA 163
		            +  E  +  ++ ++ Q     K+    +K+      KA  + +   E     ++ + K+ 
		Sbjct: 1081 QTNEVAQSGSETKETQ-TTETKETATVEKE-----EKAKVETEKTQEVPKVTSQVSPKQE 1134
		
		Query: 164  AADA-KKKAEAEAAKAAVEAQKKAEAAAAALKKKAEAAEAAAAEARKKAATEAAEKAKAE 222
		             ++  + +AE           K+ ++         + A+  ++   +             
		Sbjct: 1135 QSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNS 1194
		
		Query: 223  AEKKAAAEKAAADKKAAAEKAAADKKAAEKAAAEKAAADKKAAAEKAAADKKAAAAKAAA 282
		              +       A  +     +++   K   + +      + + A   +      A     +
		Sbjct: 1195 VVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPHNVEPATTSSNDRSTVALCDLTS 1254
		
		Query: 283  EKAAAAKAAAEADDIFGELSSGKNA 307
		                A  + A A   F  L+ GK  
		Sbjct: 1255 TNTNAVLSDARAKAQFVALNVGKAV 1279
		
		
c0872	c0880	Y	Y	N	c0857	c0896
	c0872	-1	22	3.449052	Hypothetical protein ybhO
	c0873	-1	22	3.810051	Hypothetical protein ybhP
	c0874	-2	22	3.515243	Hypothetical protein ybhQ
	c0875	-1	21	3.840107	Hypothetical protein ybhR
	c0876	-1	21	4.243760	Hypothetical protein ybhS
	c0877	-1	17	3.912646	Hypothetical ABC transporter ATP-binding protein
	c0878	-1	15	3.404899	Hypothetical membrane protein ybhG
	c0879	0	13	2.971970	Hypothetical transcriptional regulator ybiH
	c0880	0	14	3.312630	Putative ATP-dependent RNA helicase rhlE
	848#c0875	ABC2TRNSPORT#ABC-2 type transport system membrane protein signat...	46	9e-08
		>ABC2TRNSPORT#ABC-2 type transport system membrane protein
		           signature.
		          Length = 262
		
		 Score = 46.1 bits (109), Expect = 9e-08
		 Identities = 35/146 (23%), Positives = 63/146 (43%), Gaps = 5/146 (3%)
		
		Query: 197 AREREQGTLDQLLVSPLTTWQIFIGKAVPALIVATFQATIVLAIGIWAYQIPFAGSLALF 256
		            R   Q T + +L + L    I +G+   A   A         IG+ A  + +   L+L 
		Sbjct: 92  GRMEGQRTWEAMLYTQLRLGDIVLGEMAWAATKAALAGA---GIGVVAAALGYTQWLSLL 148
		
		Query: 257 YFTMVV--YGLSLVGFGLLISSLCSTQQQAFIGVFVFMMPAILLSGYVSPVENMPMWLQN 314
		           Y   V+   GL+    G+++++L  +         + + P + LSG V PV+ +P+  Q 
		Sbjct: 149 YALPVIALTGLAFASLGMVVTALAPSYDYFIFYQTLVITPILFLSGAVFPVDQLPIVFQT 208
		
		Query: 315 LTWINPIRHFTDITKQIYLKDASLDI 340
		                P+ H  D+ + I L    +D+
		Sbjct: 209 AARFLPLSHSIDLIRPIMLGHPVVDV 234
		
		
	850#c0877	PF05272#Virulence-associated E family protein	31	0.012
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 31.2 bits (70), Expect = 0.012
		 Identities = 20/90 (22%), Positives = 28/90 (31%), Gaps = 21/90 (23%)
		
		Query: 298 TPRFEDAFIDLLGGAGTSESPLGAILHTVGGTPGETVIEAKELTKKFGDFAATDHVNFAV 357
		            PR E   + +LG       P               +   + + K         HV   +
		Sbjct: 547 VPRLEKWLVHVLGKTPDDYKP-------------RRLRYLQLVGKYI----LMGHVARVM 589
		
		Query: 358 KRGEIFG----LLGPNGAGKSTTFKMMCGL 383
		           + G  F     L G  G GKST    + GL
		Sbjct: 590 EPGCKFDYSVVLEGTGGIGKSTLINTLVGL 619
		
		
		
		 Score = 29.3 bits (65), Expect = 0.047
		 Identities = 11/23 (47%), Positives = 13/23 (56%)
		
		Query: 39  YVTGLVGPDGAGKTTLMRMLAGL 61
		           Y   L G  G GK+TL+  L GL
		Sbjct: 597 YSVVLEGTGGIGKSTLINTLVGL 619
		
		
	851#c0878	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	62	6e-13
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 62.2 bits (151), Expect = 6e-13
		 Identities = 42/259 (16%), Positives = 92/259 (35%), Gaps = 25/259 (9%)
		
		Query: 83  ALMQAKAGVSVAQAQYDLMLAGYRDEEIAQAAAAVKQAQAAYDYAQNFYNRQQGLWKSRT 142
		              Q +  +   +A+   +LA     E        +    +    +    +   L +   
		Sbjct: 201 QKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENK 260
		
		Query: 143 ISA--NDLENARSSRDQAQATLKSAQDKLRQYRSGNREQ---DIAQAKASLEQAQAQLAQ 197
		                N+L   +S  +Q ++ + SA+++ +      + +    + Q   ++     +LA+
		Sbjct: 261 YVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAK 320
		
		Query: 198 AELNLQDSTLVAPSDGTLLTRAV-EPGTVLNEGGTVFTVSLT-RPVWVRAYVDERNLDQA 255
		            E   Q S + AP    +    V   G V+    T+  +      + V A V  +++   
		Sbjct: 321 NEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFI 380
		
		Query: 256 QPGRKVLLYTDGRPNKPYH---GQIGFVSPTAEFTPKTVETPDLRTDLVYRLRIVVT--- 309
		             G+  ++  +  P   Y    G++  ++  A          D R  LV+ + I +    
		Sbjct: 381 NVGQNAIIKVEAFPYTRYGYLVGKVKNINLDA--------IEDQRLGLVFNVIISIEENC 432
		
		Query: 310 ----DADDALRQGMPVTVQ 324
		               + +  L  GM VT +
		Sbjct: 433 LSTGNKNIPLSSGMAVTAE 451
		
		
	852#c0879	HTHTETR#TetR bacterial regulatory protein HTH signature.	73	7e-18
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 72.7 bits (178), Expect = 7e-18
		 Identities = 33/214 (15%), Positives = 78/214 (36%), Gaps = 17/214 (7%)
		
		Query: 13  KGEQAKKQLIAAALAQFGEYGMNATT-REIAAQAGQNIAAITYYFGSKEDLYLACAQWIA 71
		           + ++ ++ ++  AL  F + G+++T+  EIA  AG    AI ++F  K DL+    +   
		Sbjct: 8   EAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSE 67
		
		Query: 72  DFIGEQFRPHAEEAERLFAQPQPDRAAIRELILRACKNMIKLLTQDDTVNLSKFISREQL 131
		             IGE      E   +    P    + +RE+++   ++ +    +   + +  F   E +
		Sbjct: 68  SNIGELEL---EYQAKFPGDP---LSVLREILIHVLESTVTEERRRLLMEII-FHKCEFV 120
		
		Query: 132 SPTAAYHLVHEQVISPLHSHLTRLIAAWTGCDANDTRMILHTHALIGEILAFRLGKETIL 191
		              A        +    +  + + +      +A      L T      +  +  G     
		Sbjct: 121 GEMAVVQQAQRNLCLESYDRIEQTLKH--CIEAKMLPADLMTRRAAIIMRGYISG----- 173
		
		Query: 192 LRTGWTAFDEEKTELINQTVTCHIDLILQGLSQR 225
		           L   W    +     + +    ++ ++L+     
		Sbjct: 174 LMENWLFAPQSFD--LKKEARDYVAILLEMYLLC 205
		
		
	853#c0880	SECA#SecA protein signature.	30	0.026
		>SECA#SecA protein signature.
		          Length = 901
		
		 Score = 29.8 bits (67), Expect = 0.026
		 Identities = 20/67 (29%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
		
		Query: 246 QQVLVFTRTKHGANHLAEQLNKDGIRSAAIHG-NKSQGARTRALADFKSGDIRVLVATDI 304
		           Q VLV T +   +  ++ +L K GI+   ++    +  A   A A + +    V +AT++
		Sbjct: 450 QPVLVGTISIEKSELVSNELTKAGIKHNVLNAKFHANEAAIVAQAGYPAA---VTIATNM 506
		
		Query: 305 AARGLDI 311
		           A RG DI
		Sbjct: 507 AGRGTDI 513
		
		
c0908	c0918	Y	N	N	c0893	c0932
	c0908	-2	13	3.301288	Putative formate acetyltransferase 3
	c0909	-1	12	3.285396	Putative pyruvate formate-lyase 3 activating
	c0910	-2	14	3.053043	Fructose-6-phosphate aldolase 1
	c0911	-2	14	3.183620	Molybdopterin biosynthesis protein moeB
	c0912	-1	15	2.876441	Molybdopterin biosynthesis protein moeA
	c0913	0	16	-0.936344	Putative L-asparaginase precursor
	c0914	0	15	-2.641949	Hypothetical ABC transporter ATP-binding protein
	c0915	0	13	-3.275665	Putative binding protein yliB precursor
	c0916	-1	11	-4.380104	Hypothetical ABC transporter permease protein
	c0917	0	10	-4.523300	Hypothetical ABC transporter permease protein
	c0918	0	10	-4.889348	Hypothetical protein yliE
c0928	c0975	Y	Y	N	c0913	c0952
	c0928	-2	19	-4.612827	Hypothetical protein ybjH precursor
	c0929	-1	23	-6.353761	Protein ybjI
	c0930	-1	27	-6.637048	Hypothetical protein ybjJ
	c0931	1	32	-8.601536	Hypothetical protein ybjK
	c0932	2	34	-9.392704	Integrase for prophage
	c0933	3	39	-11.036087	Hypothetical protein
	c0934	3	35	-7.251298	Hypothetical protein
	c0935	5	31	-2.372551	Putative regulator for prophage
	c0936	2	23	-2.620817	Hypothetical protein
	c0937	1	16	-0.211898	Hypothetical protein
	c0938	0	17	-0.527599	Hypothetical protein
	c0939	1	16	-0.538793	Hypothetical protein
	c0940	0	18	-2.403508	Hypothetical protein ybiI
	c0941	1	23	-5.463502	DNA adenine methylase
	c0942	1	20	-4.796586	Putative replication protein for prophage
	c0943	0	19	-4.360080	Hypothetical protein
	c0944	-1	18	-4.150108	Hypothetical protein
	c0945	-1	18	-2.618374	Hypothetical protein
	c0946	0	20	0.157080	Hypothetical protein
	c0947	2	29	3.955419	Probable capsid portal protein
	c0948	4	31	5.332776	Terminase, ATPase subunit
	c0949	5	26	5.666980	Hypothetical protein
	c0950	6	28	6.071026	Putative capsid scaffolding protein
	c0951	5	28	6.036063	Hypothetical protein
	c0952	4	30	6.261089	Major capsid protein
	c0953	3	25	5.701361	Terminase, endonuclease subunit
	c0954	3	26	5.494466	Putative capsid completion protein
	c0955	2	24	4.316047	Probable phage tail protein
	c0956	4	21	4.076780	Possible secretory protein
	c0957	5	19	4.533335	Fels-2 prophage: probable prophage lysozyme
	c0958	4	20	4.432555	Putative membrane protein
	c0959	5	23	5.405404	Putative Regulatory protein
	c0960	4	23	5.054180	Putative phage tail protein
	c0961	4	23	5.072754	Hypothetical protein
	c0962	3	22	4.855966	Putative phage tail protein
	c0963	1	21	2.856210	Putative Phage baseplate assembly protein
	c0964	2	23	0.508926	Phage baseplate assembly protein
	c0965	3	23	-4.301850	Phage baseplate assembly protein
	c0966	2	19	-3.912191	Putative phage tail protein
	c0967	2	19	-4.147272	Hypothetical protein
	c0968	1	19	-4.346721	Probable variable tail fibre protein
	c0969	1	19	-5.157618	Hypothetical protein yfdK
	c0970	1	20	-3.073768	Hypothetical protein
	c0971	3	17	4.592292	Probable major tail sheath protein
	c0972	2	18	4.295357	Putative tail fiber component of prophage
	c0973	1	18	4.057236	Hypothetical protein
	c0974	2	18	3.811643	Putative phage tail protein
	c0975	-1	15	3.028931	Hypothetical protein
	903#c0930	TCRTETB#Tetracycline resistance protein TetB signature.	34	0.001
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 33.7 bits (77), Expect = 0.001
		 Identities = 34/150 (22%), Positives = 65/150 (43%), Gaps = 6/150 (4%)
		
		Query: 239 LLIGVVVLAMAFAEGSANDWL-PLLMVDGHGFSP-TSGSLIYAGFTLGMTVGRFIGGWFI 296
		            +IGV+   + F   +    + P +M D H  S    GS+I    T+ + +  +IGG  +
		Sbjct: 258 FMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTMSVIIFGYIGGILV 317
		
		Query: 297 DHYSRVAVVR-ASALM--GALGIGLIIFVDSAWVA-GVSVVLWGLGASLGFPLTISAASD 352
		           D    + V+      +    L    ++   S ++   +  VL GL  +     TI ++S 
		Sbjct: 318 DRRGPLYVLNIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLGGLSFTKTVISTIVSSSL 377
		
		Query: 353 TGPDAPTRVSVVATTGYLAFLVGPPLLGYL 382
		              +A   +S++  T +L+   G  ++G L
		Sbjct: 378 KQQEAGAGMSLLNFTSFLSEGTGIAIVGGL 407
		
		
	904#c0931	HTHTETR#TetR bacterial regulatory protein HTH signature.	52	1e-10
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 52.3 bits (125), Expect = 1e-10
		 Identities = 14/81 (17%), Positives = 31/81 (38%)
		
		Query: 12 RRANDPQRREKIIQATLEAVKLYGIHAVTHRKIAALAGVPLGSMTYYFSGIDELLLEAFS 71
		           +    + R+ I+   L      G+ + +  +IA  AGV  G++ ++F    +L  E + 
		Sbjct: 5  TKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWE 64
		
		Query: 72 RFTEIMSRQYQAFFSDVSDAP 92
		               +      + +     P
		Sbjct: 65 LSESNIGELELEYQAKFPGDP 85
		
		
	915#c0942	DNABINDNGFIS#DNA-binding protein FIS signature.	30	0.012
		>DNABINDNGFIS#DNA-binding protein FIS signature.
		          Length = 98
		
		 Score = 29.6 bits (66), Expect = 0.012
		 Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 9/72 (12%)
		
		Query: 100 QQRFNPDMVILADVNAQPSHISKPLMQRIE-----YFSSL-GRP--KAYSRYLRETIKPC 151
		           +QR N D++ ++ VN+Q     KPL   ++     YF+ L G+     Y   L E  +P 
		Sbjct: 3   EQRVNSDVLTVSTVNSQDQVTQKPLRDSVKQALKNYFAQLNGQDVNDLYELVLAEVEQPL 62
		
		Query: 152 LER-LEHIRDSQ 162
		           L+  +++ R +Q
		Sbjct: 63  LDMVMQYTRGNQ 74
		
		
	932#c0959	60KDINNERMP#60kDa inner membrane protein signature.	27	0.033
		>60KDINNERMP#60kDa inner membrane protein signature.
		          Length = 548
		
		 Score = 26.8 bits (59), Expect = 0.033
		 Identities = 21/80 (26%), Positives = 32/80 (40%), Gaps = 14/80 (17%)
		
		Query: 3  RLLLVVLALLLAALGWQTWR-------LADASQTISTQSDELQSKSQALAKSNSQLIS-- 53
		          R LLV+  L ++ + WQ W         A  +   +T +    +     A    +LIS  
		Sbjct: 5  RNLLVIALLFVSFMIWQAWEQDKNPQPQAQQTTQTTTTAAGSAADQGVPASGQGKLISVK 64
		
		Query: 54 -----LSILTETNNREQARL 68
		               L+I T   + EQA L
		Sbjct: 65 TDVLDLTINTRGGDVEQALL 84
		
		
c1109	c1122	Y	N	Y	c1094	c1133
	c1109	-1	18	3.312204	Hypothetical protein
	c1110	-1	20	3.129291	Hypothetical protein yccA
	c1111	-1	21	4.144946	Hypothetical protein
	c1112	-1	20	4.264615	*Hypothetical protein
	c1113	-1	19	4.136563	Hydrogenase-1 small chain precursor
	c1114	-1	18	3.686027	Hydrogenase-1 large chain
	c1115	0	17	2.861588	Probable Ni/Fe-hydrogenase 1 B-type cytochrome
	c1116	-1	15	3.008077	Hydrogenase 1 maturation protease
	c1117	-2	15	2.243244	Hydrogenase-1 operon protein hyaE
	c1118	-2	15	1.711029	Hydrogenase-1 operon protein hyaF
	c1119	-2	14	0.807402	Cytochrome BD-II oxidase subunit I
	c1120	-2	16	-0.730363	Cytochrome BD-II oxidase subunit II
	c1121	0	19	-2.712737	Periplasmic appA protein precursor
	c1122	4	21	-5.555318	Cold shock-like protein cspH
c1138	c1147	Y	Y	N	c1123	c1162
	c1138	2	17	1.172677	Hypothetical protein
	c1139	1	16	2.452495	Hypothetical protein yccJ
	c1140	1	16	3.342062	Flavoprotein wrbA
	c1141	-1	18	4.230552	Hypothetical protein
	c1142	-1	18	4.389469	Hypothetical protein
	c1143	-1	17	4.589973	Putative purine permease ycdG
	c1144	-1	18	4.852583	Putative flavin:NADH reductase ycdH
	c1145	0	14	3.817546	Putative NADH dehydrogenase/NAD(P)H
	c1146	-2	11	3.996554	Hypothetical protein ycdJ
	c1147	-1	11	3.140410	Hypothetical protein ycdK
	1111#c1143	TCRTETB#Tetracycline resistance protein TetB signature.	29	0.049
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 28.7 bits (64), Expect = 0.049
		 Identities = 20/114 (17%), Positives = 34/114 (29%), Gaps = 11/114 (9%)
		
		Query: 50  PFAQTAVMGVQHAVAMFGATVLMPILMGLDPNLSIFMSGIGTLL--------FFFITGGR 101
		           PF    + G      + G   ++P +M     LS    G   +         F +I G  
		Sbjct: 257 PFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTMSVIIFGYIGGIL 316
		
		Query: 102 VPSYLGSSAAFVGVVIAATGFNGQGINPNISIALGGIIACGLVYTVIGLVVMKI 155
		           V          +GV   +  F         +      +   +V+ + GL   K 
		Sbjct: 317 VDRRGPLYVLNIGVTFLSVSFLTASFLLETTSW---FMTIIIVFVLGGLSFTKT 367
		
		
c1157	c1308	Y	Y	Y	c1142	c1187
	c1157	-2	19	-3.457617	Hypothetical protein ycdB precursor
	c1158	-2	24	-4.813119	Hypothetical protein
	c1159	-1	26	-6.145571	PhoH protein
	c1160	-1	29	-6.441034	Hypothetical protein ycdP
	c1161	-1	32	-8.600984	Hypothetical protein ycdQ
	c1162	-1	34	-9.206633	Hypothetical lipoprotein ycdR precursor
	c1163	0	33	-9.555184	Hypothetical protein ycdS precursor
	c1164	2	37	-11.794742	Hypothetical protein ycdT
	c1165	3	37	-10.586987	Putative P4-family integrase
	c1166	4	35	-12.179249	Conserved hypothetical protein
	c1167	3	28	-6.773266	Hypothetical protein
	c1168	3	25	-5.911105	Unknown in IS1N
	c1169	2	19	-4.176911	Prophage CP4-57 Regulatory protein alpA
	c1170	1	17	-2.513827	Hypothetical protein yfjI
	c1171	-1	19	0.229572	Conserved hypothetical protein
	c1172	-2	20	1.559906	Hypothetical protein
	c1173	-2	18	1.217410	Hypothetical protein
	c1174	-2	18	0.954462	Hypothetical protein
	c1175	-1	17	2.998586	Putative aminotransferase
	c1176	0	14	3.365536	Hypothetical protein
	c1183	0	16	4.072822	Hypothetical protein
	c1184	0	18	5.437654	Conserved hypothetical protein
	c1185	0	22	6.003452	Hypothetical protein
	c1186	1	22	6.445450	Putative beta-ketoacyl-ACP synthase
	c1187	1	25	6.613388	3-oxoacyl-[acyl-carrier protein] reductase
	c1188	1	25	6.509861	Conserved hypothetical protein
	c1189	2	24	6.339634	Putative 3-oxoacyl-[ACP] synthase
	c1190	2	25	5.892560	Conserved hypothetical protein
	c1191	1	22	5.427869	Conserved hypothetical protein
	c1192	-2	14	2.068796	Conserved hypothetical protein
	c1193	-2	15	1.762095	Hypothetical protein
	c1194	0	15	1.342830	Putative enzyme
	c1195	2	22	-1.710140	Hypothetical protein
	c1196	0	21	-1.797148	Conserved hypothetical protein
	c1197	1	20	-1.104068	Putative enzyme
	c1198	2	17	-1.455478	Conserved hypothetical protein
	c1199	2	18	-2.685887	Putative acyl carrier protein
	c1200	2	14	0.778763	Putative acyl carrier protein
	c1201	3	16	1.498713	Putative phospholipid biosynthesis
	c1202	4	18	1.507102	Conserved hypothetical protein
	c1203	6	21	1.469071	Putative O-methyltransferase
	c1204	6	23	2.262284	Conserved hypothetical protein
	c1205	6	22	2.894874	Hypothetical protein
	c1206	5	26	1.843811	Hypothetical protein
	c1207	5	29	0.555546	Hypothetical protein
	c1208	7	29	0.010840	Hypothetical protein
	c1209	5	25	-0.671497	Hypothetical protein
	c1210	5	29	-0.060149	Hypothetical protein
	c1213	4	30	-0.455721	Hypothetical protein
	c1214	4	30	-0.858453	Cea protein
	c1215	3	33	-3.983461	Entry exclusion protein 2
	c1216	4	34	-4.887001	Hypothetical protein
	c1217	4	35	-5.447201	Hypothetical protein
	c1218	3	32	-3.446622	Hypothetical protein
	c1219	2	30	-3.517317	Putative Transposase
	c1220	2	32	-4.758817	Phospho-2-dehydro-3-deoxyheptonate aldolase,
	c1221	4	31	-4.540109	Hypothetical protein
	c1222	5	32	-4.352266	Hypothetical protein
	c1224	5	29	-5.376785	Transposase insF for insertion sequence
	c1225	6	32	-6.758176	Transposase insE for insertion sequence
	c1227	7	36	-8.235710	MchB protein
	c1229	7	35	-9.080959	MchC protein
	c1230	6	35	-8.497828	MchD protein
	c1231	5	33	-7.558864	Microcin H47 secretion protein
	c1232	4	33	-7.152092	Probable microcin H47 secretion ATP-binding
	c1233	5	38	-8.596330	Hypothetical protein
	c1234	4	34	-5.780419	Conserved hypothetical protein
	c1235	4	31	-3.208471	Conserved hypothetical protein
	c1236	5	32	-4.465054	Conserved hypothetical protein
	c1237	7	31	-2.199248	Putative F1C and S fimbrial switch Regulatory
	c1238	8	32	-2.152658	Putative F1C and S fimbrial switch Regulatory
	c1239	9	31	-2.457144	F1C major fimbrial subunit precursor
	c1240	9	32	-2.204737	Putative minor F1C fimbrial subunit precursor
	c1241	9	32	-2.582027	F1C periplasmic chaperone
	c1242	9	31	-3.109349	F1C fimbrial usher
	c1243	7	29	-6.486959	F1C minor fimbrial subunit F precursor
	c1244	6	32	-7.587612	F1C minor fimbrial subunit protein G presursor
	c1245	5	23	-5.141932	F1C Putative fimbrial adhesin precursor
	c1246	3	18	-4.382822	Hypothetical protein
	c1247	2	15	-2.380521	Putative Regulatory protein
	c1248	0	14	1.739027	Hypothetical protein
	c1249	0	15	3.007883	Hypothetical protein
	c1250	0	14	3.403865	Siderophore receptor IroN
	c1251	0	16	4.225984	IroE protein
	c1252	1	18	4.340302	Ferric enterochelin esterase
	c1253	1	17	3.395443	ATP binding cassette (ABC) transporter homolog
	c1254	3	23	-1.851171	Putative glucosyltransferase
	c1255	5	30	-3.981244	Hypothetical protein
	c1256	5	29	-2.550510	Hypothetical protein
	c1257	4	24	-0.398036	Putative conserved protein
	c1258	2	22	0.036903	Hypothetical protein
	c1259	4	22	1.745984	Hypothetical protein
	c1260	5	24	0.620328	*Putative Transposase
	c1261	5	25	-0.845627	Hypothetical protein
	c1262	6	26	-3.174051	Putative Transposase for IS629
	c1263	6	26	-3.970528	Unknown protein of IS629 encoded within
	c1264	5	28	-5.302596	Hypothetical protein
	c1265	5	30	-6.831001	Outer membrane heme/hemoglobin receptor
	c1266	6	34	-9.182245	Hypothetical protein
	c1267	4	26	-6.183809	Hypothetical protein
	c1268	6	22	0.917578	Hypothetical protein
	c1269	6	22	0.825478	Hypothetical protein
	c1270	7	23	1.987353	Hypothetical protein
	c1271	8	24	3.046086	Hypothetical protein
	c1272	8	24	3.835630	Hypothetical protein yeeP
	c1273	8	25	3.621491	Antigen 43 precursor
	c1274	6	24	2.131635	Hypothetical protein yeeR
	c1275	7	26	3.216397	Hypothetical protein
	c1276	8	27	4.616975	Hypothetical protein
	c1277	8	28	5.080732	Hypothetical protein
	c1278	8	27	4.937569	Hypothetical protein yafZ
	c1279	8	27	4.982724	Hypothetical protein
	c1280	8	27	5.054479	Hypothetical protein yafX
	c1281	8	29	5.518256	Hypothetical protein
	c1282	7	32	5.301996	Putative radC-like protein yeeS
	c1284	6	30	4.548402	Hypothetical protein yeeT
	c1285	6	31	3.941788	Hypothetical protein
	c1286	3	29	0.933330	Hypothetical protein
	c1287	5	24	-1.233251	Hypothetical protein
	c1288	5	22	-1.818879	Hypothetical protein yeeV
	c1289	4	22	-3.308586	Unknown protein encoded within prophage
	c1290	3	21	-3.355525	Conserved hypothetical protein
	c1291	1	18	-3.133852	Hypothetical protein
	c1292	0	16	-1.948513	Conserved hypothetical protein
	c1293	-1	17	-0.653127	Hypothetical protein
	c1294	-2	16	-0.591203	*Hypothetical protein
	c1295	-2	15	-0.978509	Putative 2-hydroxyacid dehydrogenase ycdW
	c1296	-2	15	-2.108283	Hypothetical protein ycdX precursor
	c1297	-1	17	-3.440614	Hypothetical protein ycdY
	c1298	0	19	-4.937255	Hypothetical protein ycdZ
	c1299	1	23	-7.385536	Curli production assembly/transport component
	c1300	0	32	-10.026450	Curli production assembly/transport component
	c1301	1	31	-8.183693	Curli production assembly/transport component
	c1302	2	35	-8.155227	Probable csgAB operon transcriptional Regulatory
	c1303	5	36	-7.642006	Hypothetical protein
	c1304	3	32	-5.422339	Hypothetical protein
	c1305	-1	23	-3.345354	Minor curlin subunit precursor
	c1306	-1	19	-3.866444	Major curlin subunit precursor
	c1307	-1	22	-4.353577	Putative curli production protein csgC
	c1308	-1	15	-3.452694	Hypothetical protein ymdA precursor
	1131#c1163	ARGDEIMINASE#Bacterial arginine deiminase signature.	31	0.030
		>ARGDEIMINASE#Bacterial arginine deiminase signature.
		          Length = 409
		
		 Score = 30.6 bits (69), Expect = 0.030
		 Identities = 26/181 (14%), Positives = 59/181 (32%), Gaps = 22/181 (12%)
		
		Query: 451 HRAAENELKKAEVIEPRNINLEVEQAWTALTLQEWQQA--AVLTHDVVEREPQDPGVV-R 507
		             A +     A +++   + +E  +   +  L          ++  ++E E +    +  
		Sbjct: 49  EVARQEHEVFASILKNNLVEIEYIEDLISEVLVSSVALENKFISQFILEAEIKTDFTINL 108
		
		Query: 508 LK---RAVDVHNLAELRIAGSTGIDAEGPDSGKHDVDLTTIVYS---PPLKDNWRGFAGF 561
		           LK    ++ + N+    I+G      E  +      DL          P+ +    F   
		Sbjct: 109 LKDYFSSLTIDNMISKMISGVVT--EELKNYTSSLDDLVNGANLFIIDPMPNVL--FT-- 162
		
		Query: 562 GYADGQFSEGKGIVRDWLAGVEWRSRNIWLEAEYAERVFNHEHKPGARLSGWYDFNDNWR 621
		              D   S G G+    +  +  + R    E  +AE +F +       +  W +  +   
		Sbjct: 163 --RDPFASIGNGVT---INKMFTKVRQ--RETIFAEYIFKYHPVYKENVPIWLNRWEEAS 215
		
		Query: 622 I 622
		           +
		Sbjct: 216 L 216
		
		
	1137#c1169	HTHFIS#FIS bacterial regulatory protein HTH signature.	26	0.025
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 25.6 bits (56), Expect = 0.025
		 Identities = 6/15 (40%), Positives = 13/15 (86%)
		
		Query: 5   SQLLGISRSTIYEKM 19
		           + LLG++R+T+ +K+
		Sbjct: 456 ADLLGLNRNTLRKKI 470
		
		
	1149#c1187	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	92	2e-24
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score = 91.7 bits (227), Expect = 2e-24
		 Identities = 62/251 (24%), Positives = 119/251 (47%), Gaps = 15/251 (5%)
		
		Query: 3   RSVLVTGASKGIGRAIACQLAADGFNI-GVHYHRDAAGAQETLNAIVANGGNGRLLSFDV 61
		           +   +TGA++GIG A+A  LA+ G +I  V Y+ +      +  ++ A   +      DV
		Sbjct: 9   KIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVS--SLKAEARHAEAFPADV 66
		
		Query: 62  ANREQCREVLEHEIAQHGAWYGVVSNAGIARDAAFPALSNDDWDAVIHTNLDSFYNVIQP 121
		            +     E+      + G    +V+ AG+ R     +LS+++W+A    N    +N  + 
		Sbjct: 67  RDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRS 126
		
		Query: 122 CIMPMIGARQGGRIITLSSVSGVMGNRGQVNYSAAKAGIIGATKALAIELAKRKITVNCI 181
		            +   +  R+ G I+T+ S    +       Y+++KA  +  TK L +ELA+  I  N +
		Sbjct: 127 -VSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIV 185
		
		Query: 182 APGLIDTGMIEM-------EESALKEAMSM----IPMKRMGQAEEVAGLASYLMSDIAGY 230
		           +PG  +T M           E  +K ++      IP+K++ +  ++A    +L+S  AG+
		Sbjct: 186 SPGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGH 245
		
		Query: 231 VTRQVISINGG 241
		           +T   + ++GG
		Sbjct: 246 ITMHNLCVDGG 256
		
		
	1153#c1191	ACRIFLAVINRP#Acriflavin resistance protein family signature.	49	6e-08
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score = 49.1 bits (117), Expect = 6e-08
		 Identities = 37/167 (22%), Positives = 77/167 (46%), Gaps = 12/167 (7%)
		
		Query: 246 YSDYASQQAKQDISTLGVATLLGVILLIVAVFRSLRPLLLCVISIGIGALAGTVATLLIF 305
		            + +      + + TL  A +L V L++    +++R  L+  I++ +  L GT A L  F
		Sbjct: 329 TTPFVQLSIHEVVKTLFEAIML-VFLVMYLFLQNMRATLIPTIAVPV-VLLGTFAILAAF 386
		
		Query: 306 G-ELHLMTLVMSMSVIGISADYTLYYL--TERMVHGNDVSPWQ----SLAKVRNALLLAL 358
		           G  ++ +T+   +  IG+  D  +  +   ER++  + + P +    S+++++ AL+   
		Sbjct: 387 GYSINTLTMFGMVLAIGLLVDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIA 446
		
		Query: 359 LTTVAAYL-IMMLAPFPGI--RQMAIFAAIGLSASCLTVLFWHPWLC 402
		           +   A ++ +       G   RQ +I     ++ S L  L   P LC
		Sbjct: 447 MVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALC 493
		
		
		
		 Score = 37.9 bits (88), Expect = 2e-04
		 Identities = 34/199 (17%), Positives = 69/199 (34%), Gaps = 31/199 (15%)
		
		Query: 592 LVPVEGVKNSAALQEISSYYPCGIAWV---DRKNTFDELFALYRYVLTGLLLVALAVIAC 648
		           L   + +K  A L E+  ++P G+  +   D         +++  V T    + L  +  
		Sbjct: 300 LDTAKAIK--AKLAELQPFFPQGMKVLYPYDTTPFVQL--SIHEVVKTLFEAIMLVFLVM 355
		
		Query: 649 GAVARLGWRKGFISLVPSVLSLGCGLAVLAISGQAVNLFSLLALVLVLGIGI-------- 700
		               +   R   I  +   + L    A+LA  G ++N  ++  +VL +G+ +        
		Sbjct: 356 YLFLQ-NMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVE 414
		
		Query: 701 NYTLFFSNPRGTPLT-----------SLLAITLAMLTTLLTLGMLVFSATQAISSFGIVL 749
		           N        +  P             +L+ I + +    + +     S       F I +
		Sbjct: 415 NVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITI 474
		
		Query: 750 VSGI----FTAFLLSPLAM 764
		           VS +      A +L+P   
		Sbjct: 475 VSAMALSVLVALILTPALC 493
		
		
	1168#c1206	FLAGELLIN#Flagellin signature.	31	0.008
		>FLAGELLIN#Flagellin signature.
		          Length = 507
		
		 Score = 31.2 bits (70), Expect = 0.008
		 Identities = 30/281 (10%), Positives = 68/281 (24%), Gaps = 1/281 (0%)
		
		Query: 38  LTGTGGIGFTIGSSKTSHDRREAGTTQSQSASTIGSTAGNVSITAGKQAHISGSDVIANR 97
		           L+    +   +G++       +      +S    G                S  +V    
		Sbjct: 137 LSQDNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKEATVGDLKSSFKNVTGYD 196
		
		Query: 98  DISITGDSVVVDPGHDRRTVDEKFEQKKSGLTVALSGTVGSAINNAVTSAQETKESSDSR 157
		             ++  +   VD        D         + V  +    +  +    +A +  +++ S 
		Sbjct: 197 TYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFKTTKST 256
		
		Query: 158 LKALQATKTALSGVQAGQAATMASATGDPNATGVSLSLTTQKSKSQQHSESDTVSGSTLN 217
		               +A   A + ++ G+        G                 S   +           
		Sbjct: 257 AGTAEAKAIAGA-IKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLTVADI 315
		
		Query: 218 AGNNLSVVATGKNRGDNRGDIVIAGSQLKAGGNTSLDAANDILLSGAANTQKTTGRNSSS 277
		                +V A       N    V+ G         +  A    L +  A   ++    + +
		Sbjct: 316 TAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGESKITVNGA 375
		
		Query: 278 GGGVGVSIGAGKGAGISAFASVNAAKGREKGNGTEWTETTT 318
		                 +      AG + F    A+      N        +
		Sbjct: 376 EYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAAAAKKS 416
		
		
	1174#c1214	CHANLCOLICIN#Channel forming colicin signature.	132	1e-40
		>CHANLCOLICIN#Channel forming colicin signature.
		          Length = 522
		
		 Score =  132 bits (334), Expect = 1e-40
		 Identities = 67/72 (93%), Positives = 67/72 (93%)
		
		Query: 1  METAVAYYKDGVPYDDKGQVIITLLNDNPDGSGSGSGGGTGGSNSESSAAIHATAKWSTA 60
		          METAVAYYKDGVPYDDKGQVIITLLN  PDGSGSG GGG GGS SESSAAIHATAKWSTA
		Sbjct: 1  METAVAYYKDGVPYDDKGQVIITLLNGTPDGSGSGGGGGKGGSKSESSAAIHATAKWSTA 60
		
		Query: 61 QLKKTQAEQAAR 72
		          QLKKTQAEQAAR
		Sbjct: 61 QLKKTQAEQAAR 72
		
		
	1187#c1230	RTXTOXINC#Gram-negative bacterial RTX toxin-activating protein C...	52	4e-11
		>RTXTOXINC#Gram-negative bacterial RTX toxin-activating protein C
		           signature.
		          Length = 170
		
		 Score = 51.8 bits (124), Expect = 4e-11
		 Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 2/77 (2%)
		
		Query: 48  AIQHNQIKFLFDSRGFPLAYITWAYLEADTEARLLRDPEFRLHPSEWNEDGRIWILDFCC 107
		           AIQ NQ   L     +P+AY +WA L  + E + L D    L   +W    R W +D+  
		Sbjct: 38  AIQANQYVLLTRD-DYPVAYCSWANLSLENEIKYLNDVT-SLVAEDWTSGDRKWFIDWIA 95
		
		Query: 108 KPGFGRKVIDYLIQLQP 124
		             G    +  Y+ +  P
		Sbjct: 96  PFGDNGALYKYMRKKFP 112
		
		
	1188#c1231	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	128	6e-35
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score =  128 bits (324), Expect = 6e-35
		 Identities = 85/432 (19%), Positives = 163/432 (37%), Gaps = 59/432 (13%)
		
		Query: 27  WLIMLGSIVFITAFLMFIIVGTYSRRVNVSGEVTTWPRAVNIYSGVQGFVVRQFVHEGQL 86
		           + IM     F+    +  ++G        +G++T   R+  I       V    V EG+ 
		Sbjct: 62  YFIMG----FLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGES 117
		
		Query: 87  IKKGDPVYLIDISKST------------------RSGIVTDNHRRDIENQLVRVDKIISR 128
		           ++KGD +  +    +                   R  I++ +   +   +L   D+   +
		Sbjct: 118 VRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQ 177
		
		Query: 129 LEESKKIT---------LDTLEKQRLQYTDAFRRSS-------DIIQRAEEGIKIMKNNM 172
		               +++            T + Q+ Q      +           I R E   ++ K+ +
		Sbjct: 178 NVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRL 237
		
		Query: 173 ENYRNYQTKGLINKDQLTNQVALYYQQQNNLLSLSGQNEQNALQITTLESQIQTQAADFD 232
		           +++ +   K  I K  +  Q   Y +  N L     Q EQ   +I + + + Q     F 
		Sbjct: 238 DDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFK 297
		
		Query: 233 NRIY----QMELQRYELQKELV-NTDVEGEIIIRALTDGKVDSLSV-TVGQMVNPGDNLL 286
		           N I     Q       L  EL  N + +   +IRA    KV  L V T G +V   + L+
		Sbjct: 298 NEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLM 357
		
		Query: 287 QVIPENIENYYLILWVPNDAVPYISAGDKVNIRYEAFPAEKFGQFSATVKTISRTPASTQ 346
		            ++PE+ +   +   V N  + +I+ G    I+ EAFP  ++G     VK I+    + +
		Sbjct: 358 VIVPED-DTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNIN--LDAIE 414
		
		Query: 347 EMLTYKGAPQNTPGASVPWYKVIAMPEKQIIRYDEKNLPLENGMKAESTLFLEKRRIYQW 406
		           +            G  + +  +I++ E  +     KN+PL +GM   + +    R +  +
		Sbjct: 415 D---------QRLG--LVFNVIISIEENCLST-GNKNIPLSSGMAVTAEIKTGMRSVISY 462
		
		Query: 407 MLSPFYDMKHSA 418
		           +LSP  +    +
		Sbjct: 463 LLSPLEESVTES 474
		
		
	1195#c1238	FIMREGULATRY#Escherichia coli: P pili regulatory PapB protein si...	146	2e-49
		>FIMREGULATRY#Escherichia coli: P pili regulatory PapB protein
		           signature.
		          Length = 104
		
		 Score =  146 bits (370), Expect = 2e-49
		 Identities = 84/102 (82%), Positives = 88/102 (86%)
		
		Query: 1   MAQHEVITRGGDAFLLKLRESALSSGSMSEEQFFLLIGISSIHSDRVILAMKDYLVSGHS 60
		           MA HEVI+R G+AFLL +RES L  GSMSE  FFLLIGISSIHSDRVILAMKDYLV GHS
		Sbjct: 1   MAHHEVISRSGNAFLLNIRESVLLPGSMSEMHFFLLIGISSIHSDRVILAMKDYLVGGHS 60
		
		Query: 61  RKDVCEKYQMNNGYFSTTLGRLTRLNVLVARLAPYYTDSVSA 102
		           RK+VCEKYQMNNGYFSTTLGRL RLN L ARLAPYYTD  SA
		Sbjct: 61  RKEVCEKYQMNNGYFSTTLGRLIRLNALAARLAPYYTDESSA 102
		
		
	1197#c1240	FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein...	30	0.003
		>FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein
		           signature.
		          Length = 173
		
		 Score = 30.4 bits (68), Expect = 0.003
		 Identities = 39/160 (24%), Positives = 65/160 (40%), Gaps = 23/160 (14%)
		
		Query: 11  AALAGNHWHVMLPGGNMRFQGKIIAEACSLALSDRQMTVDMGQLSSNRFHAAGEYGDSVG 70
		           A L   H H      N+ F+GK+I  AC++    +   V+ G +       +G  G+   
		Sbjct: 15  AVLMSQHVHA---ADNLTFKGKLIIPACTV----QNAEVNWGDIEIQNLVQSG--GNQKD 65
		
		Query: 71  FDIHLQGCSTVVSQRVGISFYGVSDIHEPELLSVDEENDASDGIAIALFNES----GELV 126
		           F + +    ++ + +V I+  G +      +L  +    + DG+ I L+N +    G  V
		Sbjct: 66  FTVDMNCPYSLGTMKVTITSNGQTG---NSILVPNTSTASGDGLLIYLYNSNNSGIGNAV 122
		
		Query: 127 KLNQPPENWVHLTRGDMKLHMQARYKATHYPVTGGKANGQ 166
		            L         +T G +     AR K T Y   G K N Q
		Sbjct: 123 TLGSQ------VTPGKITGTAPAR-KITLYAKLGYKGNMQ 155
		
		
	1199#c1242	PF00577#Outer membrane usher protein FimD	963	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score =  963 bits (2490), Expect = 0.0
		 Identities = 546/861 (63%), Positives = 689/861 (80%), Gaps = 9/861 (1%)
		
		Query: 41  RMKFNILPLAFFIGIIVSPAR------AELYFNPRFLSDDPDAVADLSAFTQGQELPPGV 94
		             K  +      + +  + A       AELYFNPRFL+DDP AVADLS F  GQELPPG 
		Sbjct: 18  IRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQAVADLSRFENGQELPPGT 77
		
		Query: 95  YRVDIYLNDTYISTRDVQFQMSQDGKQLAPCLSPEHMSAMGVNRYAVPGMERLPADTCTS 154
		           YRVDIYLN+ Y++TRDV F      + + PCL+   +++MG+N  +V GM  L  D C  
		Sbjct: 78  YRVDIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLNTASVSGMNLLADDACVP 137
		
		Query: 155 LNSMIQGATFRFDVGQQRLYLTVPQLYMSNQARGYIAPEYWDNGITAALLNYDFSGNRVR 214
		           L SMI  AT + DVGQQRL LT+PQ +MSN+ARGYI PE WD GI A LLNY+FSGN V+
		Sbjct: 138 LTSMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLLNYNFSGNSVQ 197
		
		Query: 215 DSYGGTSDYAYLNLKTGLNIGSWRLRDNTSWSYSAGKGYS--QNNWQHINTWLERDIVSL 272
		           +  GG S YAYLNL++GLNIG+WRLRDNT+WSY++    S  +N WQHINTWLERDI+ L
		Sbjct: 198 NRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSKNKWQHINTWLERDIIPL 257
		
		Query: 273 RSRLTMGDSYTRGDIFDGVNFRGIQLASDDNMVPDSQRGYAPTIHGISRGTSRISIRQNG 332
		           RSRLT+GD YT+GDIFDG+NFRG QLASDDNM+PDSQRG+AP IHGI+RGT++++I+QNG
		Sbjct: 258 RSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIARGTAQVTIKQNG 317
		
		Query: 333 YEIYQSTLPPGPFEINDIYPAGSGGDLQVTLQEADGSVQRFNVPWSSVPVLQREGHLKYA 392
		           Y+IY ST+PPGPF INDIY AG+ GDLQVT++EADGS Q F VP+SSVP+LQREGH +Y+
		Sbjct: 318 YDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSVPLLQREGHTRYS 377
		
		Query: 393 LSAGEFRSGGHQQDNPRFAEGTLKYGLPAGWTVYGGAWIAERYRAFNLGVGKNMGWLGAV 452
		           ++AGE+RSG  QQ+ PRF + TL +GLPAGWT+YGG  +A+RYRAFN G+GKNMG LGA+
		Sbjct: 378 ITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRYRAFNFGIGKNMGALGAL 437
		
		Query: 453 SLDATRANARLPDESRHDGQSYRFLYNKSLTETGTNIQLIGYRYSTRGYFSFADTAWKKM 512
		           S+D T+AN+ LPD+S+HDGQS RFLYNKSL E+GTNIQL+GYRYST GYF+FADT + +M
		Sbjct: 438 SVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSGYFNFADTTYSRM 497
		
		Query: 513 SGYSVLTQDGVIQIQPKYTDYYNLAYNKRGRVQVSISQQTGESSTLYLSGSHQSYWGTDR 572
		           +GY++ TQDGVIQ++PK+TDYYNLAYNKRG++Q++++QQ G +STLYLSGSHQ+YWGT  
		Sbjct: 498 NGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRTSTLYLSGSHQTYWGTSN 557
		
		Query: 573 TDRQLNAGFNSSVNDISWSLNYSLSRNAWQHETDRILSFDVSIPFSHWMRSDSTSAWRNA 632
		            D Q  AG N++  DI+W+L+YSL++NAWQ   D++L+ +V+IPFSHW+RSDS S WR+A
		Sbjct: 558 VDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNIPFSHWLRSDSKSQWRHA 617
		
		Query: 633 SARYSQTLEAHGQAASTAGLYGTLLGDNNLGYSIQSGYTRGGYEGSSKTGYASLNYRGGY 692
		           SA YS + + +G+  + AG+YGTLL DNNL YS+Q+GY  GG   S  TGYA+LNYRGGY
		Sbjct: 618 SASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGDGNSGSTGYATLNYRGGY 677
		
		Query: 693 GNASAGYSHSGGYRQLYYGLSGGILAHANGLTLSQPLGDTLILVRAPGASDTRIENQTGV 752
		           GNA+ GYSHS   +QLYYG+SGG+LAHANG+TL QPL DT++LV+APGA D ++ENQTGV
		Sbjct: 678 GNANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVLVKAPGAKDAKVENQTGV 737
		
		Query: 753 STDWRGYAVLPYATDYRENRVALDTNTLADNVDIENTVVSVVPTHGAVVRADYKTRVGVK 812
		            TDWRGYAVLPYAT+YRENRVALDTNTLADNVD++N V +VVPT GA+VRA++K RVG+K
		Sbjct: 738 RTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVPTRGAIVRAEFKARVGIK 797
		
		Query: 813 VLMTLMRNGKAVPFGSVVTARNGGS-SIAGENGQVYLSGMPLSGQVSVKWGSQTTDQCTA 871
		           +LMTL  N K +PFG++VT+ +  S  I  +NGQVYLSGMPL+G+V VKWG +    C A
		Sbjct: 798 LLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLAGKVQVKWGEEENAHCVA 857
		
		Query: 872 DYKLPKESAGQILSHVTASCR 892
		           +Y+LP ES  Q+L+ ++A CR
		Sbjct: 858 NYQLPPESQQQLLTQLSAECR 878
		
		
	1230#c1273	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	44	3e-06
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 44.3 bits (104), Expect = 3e-06
		 Identities = 54/248 (21%), Positives = 93/248 (37%), Gaps = 25/248 (10%)
		
		Query: 501 AGTTTLNNGATFTLAGKTVNNDTLTIREGD-ALLQGGALTGNGRVEKS-GSGTLTVSNTT 558
		           A T  +   A+    G+ V N T  I   + A +  G  TG+    +S  +G +T +   
		Sbjct: 743 ATTMNVTGNASLYS-GRNVANITSNITASNKAQVHIGYKTGDTVCVRSDYTGYVTCTTDK 801
		
		Query: 559 LTQKAVNLNEGTLTLNDSTVTTDIIAHRGTALKLTGSTVLNGAIDPTN--VTLTSGATWN 616
		           L+ KA+N      + N + +  ++         L  + +        N  V LT  + W+
		Sbjct: 802 LSDKALN------SFNPTNLRGNVNLTESANFVLGKANLFGTIQSRGNSQVRLTENSHWH 855
		
		Query: 617 IPDNATVQSVVDDLSHAGQIHFTSARTGKFVPT--TLQVKNLNGQNGTISLRVRPDMAQN 674
		           +  N+ V  +     H   IH  SA     V    TL V +L+G     S     D++  
		Sbjct: 856 LTGNSDVHQLDLANGH---IHLNSADNSNNVTKYNTLTVNSLSGNG---SFYYLTDLSNK 909
		
		Query: 675 NADRLVIDGGRATGKTILNLVNAGNSGTGLATTGKGIQVVEAINGATTEEGAFVQGNMLQ 734
		             D++V+    ATG   L + +              + + +A           + GN + 
		Sbjct: 910 QGDKVVVT-KSATGNFTLQVAD-----KTGEPNHNELTLFDASKAQRDHLNVSLVGNTVD 963
		
		Query: 735 AGAFNYTL 742
		            GA+ Y L
		Sbjct: 964 LGAWKYKL 971
		
		
c1395	c1490	Y	Y	Y	c1379	c1419
	c1395	-2	16	-3.614813	CobB protein
	c1396	-2	18	-4.223418	Hypothetical protein ycfZ
	c1397	-1	18	-3.247688	Hypothetical protein ymfA
	c1398	-1	20	-3.427829	Spermidine/putrescine-binding periplasmic
	c1399	0	25	-4.268621	Spermidine/putrescine transport system permease
	c1400	2	29	-5.127639	Prophage lambda integrase
	c1401	2	26	-4.757717	Putative excisionase for prophage
	c1402	1	25	-4.758273	Exodeoxyribonuclease VIII
	c1403	1	33	-7.847378	Hypothetical protein
	c1404	1	34	-6.005239	Hypothetical protein ydfD
	c1405	1	30	-6.766073	Division inhibition protein dicB
	c1406	3	24	-4.488712	Hypothetical protein
	c1407	2	25	-1.489907	Hypothetical protein ydfC
	c1408	3	24	-1.182890	Hypothetical protein ydfB
	c1409	3	26	-1.662999	Hypothetical protein ydfA
	c1410	4	25	-1.832385	Hypothetical protein
	c1411	3	24	-1.349891	Unknown protein encoded by cryptic prophage
	c1412	2	26	-2.010702	Hypothetical protein
	c1413	1	27	-7.244507	Unknown protein encoded within prophage
	c1414	2	35	-10.137661	Hypothetical protein
	c1415	3	39	-12.714071	Hypothetical protein
	c1416	3	35	-10.069207	Hypothetical protein
	c1417	4	34	-7.872550	Hypothetical protein
	c1418	1	21	-2.278859	Hypothetical protein
	c1419	-1	20	-0.390647	Hypothetical protein
	c1420	-1	20	0.457802	Hypothetical protein
	c1421	-1	20	0.634896	Hypothetical protein
	c1422	-1	22	-0.388312	Hypothetical protein
	c1423	0	23	-0.440702	Hypothetical protein ydfU
	c1424	2	30	-4.566520	Hypothetical protein
	c1425	3	29	-6.444831	Hypothetical protein
	c1426	5	29	-6.153876	Antitermination protein Q homolog of cryptic
	c1427	6	33	-8.129094	Hypothetical protein
	c1428	9	37	-6.995410	***Hypothetical protein
	c1429	7	36	-6.570169	Enhancing lycopene biosynthesis protein 1
	c1430	6	35	-4.406484	Hypothetical protein
	c1431	3	30	-1.442940	Hypothetical protein
	c1432	1	24	-1.529894	Hypothetical protein
	c1433	3	23	-1.790542	Lysis protein S homolog from lambdoid prophage
	c1434	2	23	-2.174214	Hypothetical protein ydfR
	c1435	2	27	-5.124283	Hypothetical protein
	c1436	2	29	-4.878031	Probable lysozyme from lambdoid prophage Qin
	c1437	6	33	-6.645253	Putative Rz endopeptidase from lambdoid prophage
	c1438	6	33	-8.358348	Hypothetical protein
	c1439	5	30	-7.492288	Hypothetical protein
	c1440	4	20	-3.477540	Hypothetical protein ydfO
	c1441	4	20	-0.786623	Hypothetical protein
	c1442	3	24	1.166252	Unknown protein encoded within prophage
	c1443	2	24	3.491267	Hypothetical protein
	c1444	1	23	3.785454	Prophage Qin DNA packaging protein NU1 homolog
	c1445	1	23	4.698671	Putative DNA packaging protein of prophage;
	c1446	0	26	5.584643	Putative DNA packaging protein of prophage
	c1447	1	26	5.581046	Putative capsid protein of prophage
	c1448	3	25	6.171359	Putative capsid assembly protein of prophage
	c1449	3	25	3.906233	Hypothetical protein
	c1450	3	27	3.347851	Putative capsid protein of prophage
	c1451	2	24	2.477328	Putative capsid protein of prophage
	c1452	2	23	2.336461	Hypothetical protein
	c1453	1	22	1.918992	Putative head-tail joining protein of prophage
	c1454	2	24	1.730442	Putative tail component of prophage
	c1455	3	24	4.397585	Putative tail component of prophage
	c1456	2	25	4.763997	Putative tail fiber component V of prophage
	c1457	3	28	5.627858	Hypothetical protein
	c1458	3	26	6.405663	Putative tail component of prophage
	c1459	4	28	6.890216	Putative tail component of prophage
	c1460	3	28	7.343176	Putative tail component of prophage
	c1461	6	32	6.783864	Putative tail fiber component M of prophage
	c1462	6	30	6.389127	Putative tail component of prophage
	c1463	3	25	4.021378	Hypothetical protein
	c1464	2	26	3.741517	Putative tail fiber component K of prophage
	c1465	2	25	3.101640	Putative tail assembly protein of cryptic
	c1466	2	24	2.550743	Putative tail component of prophage
	c1467	0	27	-0.978272	Putative Lom-like outer membrane protein of
	c1468	0	30	-1.524891	Hypothetical protein
	c1469	2	33	-2.779727	Hypothetical protein
	c1470	3	32	-3.805193	Hypothetical protein
	c1471	1	20	-2.816120	Hypothetical protein
	c1472	-1	18	-2.451242	Hypothetical protein
	c1473	-1	17	-3.471984	Hypothetical protein
	c1474	-3	12	-3.026157	Hypothetical protein ybcY precursor
	c1475	-2	12	-0.870674	Hypothetical protein ylcE
	c1476	-2	13	-1.328265	Spermidine/putrescine transport system permease
	c1477	-1	12	-1.553668	Spermidine/putrescine transport ATP-binding
	c1478	-3	15	-1.709639	Hypothetical protein
	c1479	-3	14	-0.908946	Peptidase T
	c1480	-4	19	-1.508555	Hypothetical protein ycfD
	c1481	2	30	-3.954747	Hypothetical protein
	c1482	2	30	-2.834932	Hypothetical protein
	c1483	1	30	-2.673269	Putative integrase of prophage
	c1484	2	31	-3.503079	Unknown protein encoded by prophage
	c1485	2	28	-3.817886	Hypothetical protein
	c1486	1	28	-3.141976	Hypothetical protein
	c1487	0	30	-3.836203	Hypothetical protein
	c1488	1	30	-4.255696	Hypothetical protein
	c1489	3	30	-3.882568	Hypothetical protein
	c1490	2	24	-0.944426	Hypothetical protein
	1350#c1398	CHLAMIDIAOMP#Chlamydia major outer membrane protein signature.	28	0.043
		>CHLAMIDIAOMP#Chlamydia major outer membrane protein signature.
		          Length = 393
		
		 Score = 28.4 bits (63), Expect = 0.043
		 Identities = 19/67 (28%), Positives = 28/67 (41%), Gaps = 8/67 (11%)
		
		Query: 137 GVNGDAVDPKSVTSWADL------WKPEYKGSLLLTDDAREVFQMALRKLGYSGNTTDPK 190
		           G  GD  DP   T+W D       +  ++    +L  D  + FQM  +    +GN T P 
		Sbjct: 42  GFGGDPCDP--CTTWCDAISMRMGYYGDFVFDRVLKTDVNKEFQMGDKPTSTTGNATAPT 99
		
		Query: 191 EIEAAYN 197
		            + A  N
		Sbjct: 100 TLTAREN 106
		
		
	1357#c1405	STREPKINASE#Streptococcus streptokinase protein signature.	29	0.004
		>STREPKINASE#Streptococcus streptokinase protein signature.
		          Length = 440
		
		 Score = 28.5 bits (63), Expect = 0.004
		 Identities = 11/36 (30%), Positives = 21/36 (58%)
		
		Query: 17  TSPGGTRHRITKLIVEGAIMKTLLPNVNTSEGCFEI 52
		           T  G   H++ K  +  AI + L+ NV++++  FE+
		Sbjct: 91  TDSGAMSHKLEKADLLKAIQEQLIANVHSNDDYFEV 126
		
		
	1408#c1456	INTIMIN#Intimin signature.	31	0.006
		>INTIMIN#Intimin signature.
		          Length = 939
		
		 Score = 30.8 bits (69), Expect = 0.006
		 Identities = 26/120 (21%), Positives = 44/120 (36%), Gaps = 20/120 (16%)
		
		Query: 134 KEVITRTVKVTNVGKPSVAEERSKITPVTAIKVTPTGTVEKGKTT-----------TLTV 182
		           ++ IT TVKV    KP   +E +  T +  +  +   T   G               ++ 
		Sbjct: 675 QDAITYTVKVMKGDKPVSNQEVTFTTTLGKLSNSTEKTDTNGYAKVTLTSTTPGKSLVSA 734
		
		Query: 183 TVEPENATDK----TFRA-ISADPSKATI---SVKDMTITVTGVKDGKVSIPVISGNGQF 234
		            V       K     F   ++ D     I    VK    TV  ++ G+V++    GNG++
		Sbjct: 735 RVSDVAVDVKAPEVEFFTTLTIDDGNIEIVGTGVKGKLPTVW-LQYGQVNLKASGGNGKY 793
		
		
	1412#c1460	GPOSANCHOR#Gram-positive coccus surface protein anchor signature.	43	6e-06
		>GPOSANCHOR#Gram-positive coccus surface protein anchor signature.
		          Length = 539
		
		 Score = 42.7 bits (100), Expect = 6e-06
		 Identities = 55/377 (14%), Positives = 123/377 (32%), Gaps = 36/377 (9%)
		
		Query: 236 SGLIAMAKQFHNVTAEQIAYVAQLQRSGDETGALQAANEAATKGFDDQTRRLKENMGTLE 295
		           S      ++     +E+ + + +L+    +           +     + + L+     L 
		Sbjct: 95  SNAKEKLRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSAKIKTLEAEKAALA 154
		
		Query: 296 TWADRTARAFKSMWDAVLDI-GRPDTAQEMLIKAEAAFKKADDIWNLRKDDYFVNDEARA 354
		                  +A +   +       +  T +      EA   + +       +    +     
		Sbjct: 155 ARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIK 214
		
		Query: 355 RYWDDREKARLALEAARK-KAEQQTQQDKNAQQQSDTEASRLKYTEEAQRAYERLQTPLE 413
		               ++           K           ++ +    EA +           + L+  + 
		Sbjct: 215 TLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMN 274
		
		Query: 414 KYTARQEELNKALKDGKILQADYNTLMAAAKKDYEATLKKPKQSGVKVSAGDRQEDSAHA 473
		             TA   ++     +   L+A+   L     +   A  +  +          R  D++  
		Sbjct: 275 FSTADSAKIKTLEAEKAALEAEKADLEHQ-SQVLNANRQSLR----------RDLDASRE 323
		
		Query: 474 ALLTLQAELRTLEKHAGANEKISQQ-RRDL-------WKAESQFAVLEEAAQRRQLSAQE 525
		           A   L+AE + LE+    +E   Q  RRDL        + E++   LEE  +  + S Q 
		Sbjct: 324 AKKQLEAEHQKLEEQNKISEASRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEASRQS 383
		
		Query: 526 KS--LLAHKDETLEYKRQLAALGDKVTYQERLNALAQQADKFAQQQRAKRAAIDAKSRGL 583
		               L A ++   + ++ L     K+   E+LN   +++ K  ++++A            
		Sbjct: 384 LRRDLDASREAKKQVEKALEEANSKLAALEKLNKELEESKKLTEKEKA------------ 431
		
		Query: 584 TDRQAEREATEQRLKEQ 600
		            + QA+ EA  + LKE+
		Sbjct: 432 -ELQAKLEAEAKALKEK 447
		
		
	1419#c1467	ENTEROVIROMP#Enterobacterial virulence outer membrane protein si...	148	8e-48
		>ENTEROVIROMP#Enterobacterial virulence outer membrane protein
		           signature.
		          Length = 171
		
		 Score =  148 bits (375), Expect = 8e-48
		 Identities = 66/200 (33%), Positives = 100/200 (50%), Gaps = 30/200 (15%)
		
		Query: 1   MRKLCAVILSAVVWLVAAGTPASAAEHQSTLSAGYLQTHTDMPGSDNLNGINVKYRYEFT 60
		           M+K+  +   A V    AGT  +A    ST++ GY Q+      +  + G N+KYRYE  
		Sbjct: 1   MKKIACLSALAAVLAFTAGTSVAA---TSTVTGGYAQSDAQGQMNK-MGGFNLKYRYEED 56
		
		Query: 61  DA-LGLITSFSYANAEDEQKTHYSDTRWHEDSVRNRWFSVMAGPSVRVNEWFSAYAMAGV 119
		           ++ LG+I SF+Y        T  S T    D  +N+++ + AGP+ R+N+W S Y + GV
		Sbjct: 57  NSPLGVIGSFTY--------TEKSRTASSGDYNKNQYYGITAGPAYRINDWASIYGVVGV 108
		
		Query: 120 AYSRVSTFSGDYLRVTDNKGKTHDVLTGSDDDRHSNTSLAWGAGVQFNPTESVTIDIAYE 179
		            Y +  T        T+     HD          S+   ++GAG+QFNP E+V +D +YE
		Sbjct: 109 GYGKFQT--------TEYPTYKHD---------TSDYGFSYGAGLQFNPMENVALDFSYE 151
		
		Query: 180 GSGSGDWRTDAFIVGIGYRF 199
		            S         +I G+GYRF
		Sbjct: 152 QSRIRSVDVGTWIAGVGYRF 171
		
		
	1426#c1474	LUXSPROTEIN#Bacterial autoinducer-2 (AI-2) production protein Lu...	31	0.002
		>LUXSPROTEIN#Bacterial autoinducer-2 (AI-2) production protein LuxS
		           signature.
		          Length = 171
		
		 Score = 31.4 bits (71), Expect = 0.002
		 Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
		
		Query: 40  TKEHLLPHFL-EHLGNNHLDI------GVGTGFYLTHVPESSLISLMDLNEASLNAASTR 92
		           T EHL   F+  HL  + ++I      G  TGFY++ +   S   + D   A++      
		Sbjct: 54  TLEHLYAGFMRNHLNGDSVEIIDISPMGCRTGFYMSLIGTPSEQQVADAWIAAMEDVLKV 113
		
		Query: 93  AGESKI 98
		             ++KI
		Sbjct: 114 ENQNKI 119
		
		
	1429#c1477	PF05272#Virulence-associated E family protein	30	0.017
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 30.0 bits (67), Expect = 0.017
		 Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
		
		Query: 46  LTLLGPSGCGKTTVLRLIAGLE-TVDSGRIMLDNED 80
		           + L G  G GK+T++  + GL+   D+   +   +D
		Sbjct: 599 VVLEGTGGIGKSTLINTLVGLDFFSDTHFDIGTGKD 634
		
		
c1514	c1626	Y	Y	Y	c1499	c1538
	c1514	-1	22	-3.198175	Hypothetical protein
	c1515	0	21	-3.331097	Hypothetical protein
	c1516	0	18	-1.975933	Hypothetical protein
	c1517	0	18	-2.689952	Isocitrate dehydrogenase (NADP)
	c1518	1	24	-3.508112	Hypothetical protein
	c1519	0	21	-2.695576	Prophage lambda integrase
	c1520	1	19	-0.608509	Unknown protein of IS629 encoded within
	c1521	2	23	-1.028468	Putative Transposase for IS629
	c1522	0	25	-3.049168	Hypothetical protein
	c1523	1	27	-3.029616	Unknown protein encoded by bacteriophage
	c1524	3	25	-1.525825	Hypothetical protein
	c1525	6	27	0.175975	Hypothetical protein
	c1526	6	26	-0.049135	Hypothetical protein
	c1527	6	27	-0.042551	Hypothetical protein
	c1528	6	28	0.317834	Hypothetical protein
	c1529	4	27	0.822365	Hypothetical protein
	c1530	2	27	0.261948	Hypothetical protein
	c1531	0	24	-0.816484	Hypothetical protein
	c1532	0	25	-0.387473	Unknown protein encoded within prophage
	c1533	2	26	-0.726947	Hypothetical protein
	c1534	2	25	-1.451862	Putative exonuclease encoded by prophage
	c1535	3	27	-2.707983	Putative conserved protein
	c1536	6	27	-4.889173	Putative recombination protein Bet of prophage
	c1537	7	34	-9.101217	Putative host-nuclease inhibitor protein Gam of
	c1538	6	39	-10.868205	Hypothetical protein
	c1539	5	42	-10.918913	Hypothetical protein
	c1540	7	41	-11.167951	Lambda Regulatory protein CIII
	c1541	8	39	-10.397660	Putative single-stranded DNA binding protein of
	c1542	7	39	-9.808251	Lambda ant-restriction protein
	c1543	6	37	-9.371283	Putative superinfection exclusion protein B of
	c1544	6	33	-7.759424	Hypothetical protein
	c1545	4	26	-4.991840	Hypothetical protein
	c1546	2	27	-3.092058	Repressor protein
	c1547	0	23	-2.354835	Hypothetical protein
	c1548	1	22	-0.302970	Putative Regulatory protein CII of
	c1549	1	22	0.047160	Putative replication protein O of bacteriophage
	c1550	0	25	1.290477	Putative replication protein P of bacteriophage
	c1551	0	25	-0.300932	Putative exclusion protein ren of prophage
	c1552	1	24	0.048721	Unknown protein of IS629 encoded within
	c1553	1	26	-0.474908	Putative Transposase for IS629
	c1554	2	30	-3.260309	Unknown protein encoded within prophage
	c1555	1	25	-5.665637	Putative DNA N-6-adenine-methyltransferase of
	c1556	1	26	-6.841800	Hypothetical protein
	c1557	1	27	-5.881405	Crossover junction endodeoxyribonuclease rusA
	c1558	2	27	-5.864443	Hypothetical protein
	c1559	2	28	-6.531880	Antitermination protein Q homolog from lambdoid
	c1560	2	27	-6.103779	Outer membrane porin protein nmpC precursor
	c1561	1	28	-4.731674	Lysis protein S homolog from lambdoid prophage
	c1562	1	27	-4.712137	Probable lysozyme from lambdoid prophage DLP12
	c1563	1	26	-3.982311	Putative Rz endopeptidase from lambdoid prophage
	c1564	2	20	-1.711594	Bor protein homolog from lambdoid prophage DLP12
	c1565	1	21	-0.367051	Partial tonB-like membrane protein encoded
	c1566	1	21	1.737697	Hypothetical protein
	c1567	1	21	3.693973	Hypothetical protein
	c1568	0	21	3.934974	Prophage Qin DNA packaging protein NU1 homolog
	c1569	0	22	4.557159	Putative DNA packaging protein of prophage;
	c1570	1	23	4.872477	Putative DNA packaging protein of prophage
	c1571	1	24	4.691789	Putative capsid protein of prophage
	c1572	3	22	4.717937	Putative capsid assembly protein of prophage
	c1573	2	23	2.706039	Hypothetical protein
	c1574	1	24	2.389127	Putative capsid protein of prophage
	c1575	2	24	1.762680	Putative capsid protein of prophage
	c1576	2	25	3.505864	Hypothetical protein
	c1577	2	27	3.590252	Putative head-tail joining protein of prophage
	c1578	1	28	3.549621	Putative tail fiber component Z of prophage
	c1579	3	27	5.284814	Putative tail component of prophage
	c1580	3	27	5.466533	Tail protein
	c1581	3	26	5.435647	Hypothetical protein
	c1583	3	26	5.793068	Putative tail component of prophage
	c1584	3	25	6.193459	Putative tail component of prophage
	c1585	3	25	5.531094	Putative tail component of prophage
	c1586	2	23	3.485683	Hypothetical protein
	c1587	1	24	3.436262	Putative tail component of prophage
	c1588	1	24	2.781550	Putative tail component of prophage
	c1589	1	23	1.645091	Putative tail component of prophage
	c1590	1	24	1.067489	Putative tail component of prophage
	c1591	1	31	-2.503893	Hypothetical protein
	c1592	1	24	-2.463920	Hypothetical protein
	c1593	2	16	-2.166539	Hypothetical protein
	c1594	1	16	-1.023277	Hypothetical protein
	c1595	0	17	-0.868951	Hypothetical protein
	c1596	0	19	-3.772700	Hypothetical protein
	c1597	0	19	-4.208808	SitD protein
	c1598	-1	22	-5.739284	SitC protein
	c1599	-1	27	-6.659534	SitB protein
	c1600	0	31	-8.094380	SitA protein
	c1601	0	33	-9.522213	Hypothetical protein
	c1602	0	32	-7.482927	Hypothetical protein
	c1603	0	33	-8.092095	Hypothetical protein ycgX
	c1604	1	34	-8.030782	Hypothetical transcriptional regulator ycgE
	c1605	0	32	-9.040854	Hypothetical protein
	c1606	1	33	-9.372391	Hypothetical protein ycgF
	c1607	0	27	-8.284457	Hypothetical protein ycgZ
	c1608	-1	23	-8.022150	Hypothetical protein
	c1609	-1	25	-6.440916	Hypothetical protein ymgB
	c1610	-1	23	-6.248089	Conserved hypothetical protein
	c1611	0	26	-4.925547	Hypothetical protein
	c1615	1	27	-4.553208	Putative conserved protein
	c1616	1	27	-5.945226	Hypothetical protein ymgD precursor
	c1617	0	24	-4.087515	Conserved hypothetical protein
	c1618	0	21	-3.567828	Hypothetical protein
	c1619	0	21	-3.205397	Putative conserved protein
	c1620	0	24	-4.457804	Hypothetical protein
	c1621	-1	22	-4.829511	Cell division topological specificity factor
	c1622	0	21	-4.862335	Septum site-determining protein minD
	c1623	-2	23	-4.336371	Septum site-determining protein minC
	c1624	-3	18	-5.387839	Hypothetical protein
	c1625	-2	19	-5.699338	Hypothetical protein ycgJ precursor
	c1626	-2	18	-4.737561	Protein ycgK precursor
	1467#c1515	CHANNELTSX#Nucleoside-specific channel-forming protein Tsx signa...	27	0.001
		>CHANNELTSX#Nucleoside-specific channel-forming protein Tsx
		           signature.
		          Length = 294
		
		 Score = 27.3 bits (60), Expect = 0.001
		 Identities = 10/24 (41%), Positives = 15/24 (62%)
		
		Query: 17  HGIFRDYELPHYSLITRIFHDGKQ 40
		           H +  +Y   HYS++ R FH+G Q
		Sbjct: 240 HILALNYAHWHYSIVARYFHNGGQ 263
		
		
	1481#c1529	HTHFIS#FIS bacterial regulatory protein HTH signature.	28	0.034
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 28.3 bits (63), Expect = 0.034
		 Identities = 8/39 (20%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
		
		Query: 84  NGAQFRQLCETTDWVDAGE-NVLLFGASGLGKSHLAAAI 121
		             A  +++      +   +  +++ G SG GK  +A A+
		Sbjct: 142 RSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180
		
		
	1493#c1541	UREASE#Urea amidohydrolase (urease) protein signature.	29	0.007
		>UREASE#Urea amidohydrolase (urease) protein signature.
		          Length = 570
		
		 Score = 28.6 bits (64), Expect = 0.007
		 Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 7/66 (10%)
		
		Query: 57  IMLAQHALLIAISSDLNAYGVVCEFDWN----DGNGQEGWPPMDGSEGIRITD---IDTS 109
		           + LA   L I +  D   +G   +F       DG GQ       G+    IT+   +D  
		Sbjct: 22  VRLADTELFIEVEKDFTTHGEEVKFGGGKVIRDGMGQSQVTREGGAVDTVITNALILDHW 81
		
		Query: 110 GIFDSD 115
		           GI  +D
		Sbjct: 82  GIVKAD 87
		
		
	1498#c1546	FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein...	27	0.030
		>FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein
		          signature.
		          Length = 167
		
		 Score = 26.6 bits (58), Expect = 0.030
		 Identities = 11/42 (26%), Positives = 22/42 (52%)
		
		Query: 13 VQAGMFSPELRTFTKGDAERLVSTTKKASDSAFWLEVEGNSM 54
		          V  G  +PE    ++G+  + +S +      + W++V GN+M
		Sbjct: 44 VDFGNINPEHVDNSRGEVTKNISISCPYKSGSLWIKVTGNTM 85
		
		
	1502#c1550	FLGMOTORFLIG#Flagellar motor switch protein FliG signature.	27	0.043
		>FLGMOTORFLIG#Flagellar motor switch protein FliG signature.
		          Length = 344
		
		 Score = 27.5 bits (61), Expect = 0.043
		 Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 11/77 (14%)
		
		Query: 2   KNIAAQMVNFDREQM-----------RRIANNMPEQYDEKPQVQQVAQIINGVFSQLLAT 50
		            N+A ++   DR              +++A+   E Y     V  V +IIN    +    
		Sbjct: 165 TNVARRIALMDRTSPEVVREVERVLEKKLASLSSEDYTSAGGVDNVVEIINMADRKTEKF 224
		
		Query: 51  FPASLANRDQNELNEIR 67
		              SL   D     EI+
		Sbjct: 225 IIESLEEEDPELAEEIK 241
		
		
	1512#c1560	ECOLIPORIN#E.coli/Salmonella-type porin signature.	509	0.0
		>ECOLIPORIN#E.coli/Salmonella-type porin signature.
		          Length = 383
		
		 Score =  509 bits (1312), Expect = 0.0
		 Identities = 241/388 (62%), Positives = 280/388 (72%), Gaps = 33/388 (8%)
		
		Query: 21  MKKLTVAISAVAASVLMAMSAQAAEIYNKDSNKLDLYGKVNAKHYFSSNDADDGDTTYAR 80
		           MK+  +A+  V  ++L A +A AAEIYNKD NKLDLYGKV+  HYFS + + DGD TY R
		Sbjct: 1   MKRKVLAL--VIPALLAAGAAHAAEIYNKDGNKLDLYGKVDGLHYFSDDSSKDGDQTYMR 58
		
		Query: 81  LGFKGETQINDQLTGFGQWEYEFKGNRAESQGSSKDKTRLAFAGLKFGDYGSIDYGRNYG 140
		           +GFKGETQINDQLTG+GQWEY  + N  E +G++   TRLAFAGLKFGDYGS DYGRNYG
		Sbjct: 59  VGFKGETQINDQLTGYGQWEYNVQANTTEGEGANS-WTRLAFAGLKFGDYGSFDYGRNYG 117
		
		Query: 141 VAYDIGAWTDVLPEFGGDTWTQTDVFMTGRTTGVATYRNNDFFGLVDGLNFAAQYQGKND 200
		           V YD+  WTD+LPEFGGD++T  D +MTGR  GVATYRN DFFGLVDGLNFA QYQGKN+
		Sbjct: 118 VLYDVEGWTDMLPEFGGDSYTYADNYMTGRANGVATYRNTDFFGLVDGLNFALQYQGKNE 177
		
		Query: 201 R----------------TDVTEANGDGFGFSTTYEY-EGFGVGATYAKSDRTDGQVAYGK 243
		                             D+   NGDGFG STTY+   GF  GA Y  SDRT+ QV  G 
		Sbjct: 178 SQSADDVNIGTNNRNNGDDIRYDNGDGFGISTTYDIGMGFSAGAAYTTSDRTNEQVNAGG 237
		
		Query: 244 SKFNASGKNAEVWAAGLKYDANNIYLATTYSETQNMTVFG------NNHIANKAQNFEAV 297
		           +   A G  A+ W AGLKYDANNIYLAT YSET+NMT +G      +  +ANK QNFE  
		Sbjct: 238 T--IAGGDKADAWTAGLKYDANNIYLATMYSETRNMTPYGKTDKGYDGGVANKTQNFEVT 295
		
		Query: 298 AQYQFDFGLRPSVAYLQSKGKDLGVH----GDRDLVKYVDVGATYYFNKNMSTFVDYKIN 353
		           AQYQFDFGLRP+V++L SKGKDL  +     D+DLVKY DVGATYYFNKN ST+VDYKIN
		Sbjct: 296 AQYQFDFGLRPAVSFLMSKGKDLTYNNVNGDDKDLVKYADVGATYYFNKNFSTYVDYKIN 355
		
		Query: 354 LID-DSKFTKTAGIDTDDIVAVGLVYQF 380
		           L+D D  F K AGI TDDIVA+G+VYQF
		Sbjct: 356 LLDDDDPFYKDAGISTDDIVALGMVYQF 383
		
		
	1516#c1564	PF06291#Lambda prophage Bor protein	189	2e-66
		>PF06291#Lambda prophage Bor protein
		          Length = 102
		
		 Score =  189 bits (482), Expect = 2e-66
		 Identities = 102/102 (100%), Positives = 102/102 (100%)
		
		Query: 12  MQDNKMKKMLFSAALAMLITGCAQQTFTVGNKPTAVTPKETITHHFFVSGIGQKKTVDAA 71
		           MQDNKMKKMLFSAALAMLITGCAQQTFTVGNKPTAVTPKETITHHFFVSGIGQKKTVDAA
		Sbjct: 1   MQDNKMKKMLFSAALAMLITGCAQQTFTVGNKPTAVTPKETITHHFFVSGIGQKKTVDAA 60
		
		Query: 72  KICGGAENVVKTETQQTFVNGLLGFITLGIYTPLEARVYCSQ 113
		           KICGGAENVVKTETQQTFVNGLLGFITLGIYTPLEARVYCSQ
		Sbjct: 61  KICGGAENVVKTETQQTFVNGLLGFITLGIYTPLEARVYCSQ 102
		
		
	1517#c1565	TONBPROTEIN#Gram-negative bacterial tonB protein signature.	69	2e-17
		>TONBPROTEIN#Gram-negative bacterial tonB protein signature.
		          Length = 239
		
		 Score = 68.9 bits (168), Expect = 2e-17
		 Identities = 33/82 (40%), Positives = 46/82 (56%)
		
		Query: 41  ADEPRQLVTVYPRYPEYAAANYIKGLVEVKFDIGADGTVTRIVFLRSEPHNLFRDEVVKA 100
		           A  PR L    P+YP  A A  I+G V+VKFD+  DG V  +  L ++P N+F  EV  A
		Sbjct: 150 ASGPRALSRNQPQYPARAQALRIEGQVKVKFDVTPDGRVDNVQILSAKPANMFEREVKNA 209
		
		Query: 101 MAKWRFEKNRPCQGVKRQFIFT 122
		           M +WR+E  +P  G+    +F 
		Sbjct: 210 MRRWRYEPGKPGSGIVVNILFK 231
		
		
	1521#c1569	2FE2SRDCTASE#Ferric iron reductase signature.	31	0.010
		>2FE2SRDCTASE#Ferric iron reductase signature.
		          Length = 262
		
		 Score = 31.2 bits (70), Expect = 0.010
		 Identities = 10/41 (24%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
		
		Query: 310 TRDGLMFFSARGDEIPPPRSITFHIWTAYSPFTTWVQIVYD 350
		            R+ L+ F  R DE  P  ++T   W++ +  ++ + +  D
		Sbjct: 36  HREHLLEF-IRLDEPAPLNAMTLAQWSSPNVLSSLLAVYSD 75
		
		
	1533#c1581	LIPPROTEIN48#Mycoplasma P48 major surface lipoprotein signature.	31	0.002
		>LIPPROTEIN48#Mycoplasma P48 major surface lipoprotein signature.
		          Length = 428
		
		 Score = 30.7 bits (69), Expect = 0.002
		 Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
		
		Query: 2   TVISATAASSP-LPDTTGMLTLPAATPFTVMVIPLTDTVAFVLSADTARKLL 52
		           TVI+   +S+P        + L  A P T   + L +   +V+  D+ + ++
		Sbjct: 250 TVINNVLSSTPADVKYNPHVILSVAGPATFETVRLANKGQYVIGVDSDQGMI 301
		
		
	1536#c1585	GPOSANCHOR#Gram-positive coccus surface protein anchor signature.	41	2e-05
		>GPOSANCHOR#Gram-positive coccus surface protein anchor signature.
		          Length = 539
		
		 Score = 41.2 bits (96), Expect = 2e-05
		 Identities = 56/377 (14%), Positives = 125/377 (33%), Gaps = 36/377 (9%)
		
		Query: 236 SGLTAMARQFHNVTAEQIAYVAQLQRSGDESGALQAANEAATKGFDDQTRRLKENMGTLE 295
		           S      R+     +E+ + + +L+    +           +     + + L+     L 
		Sbjct: 95  SNAKEKLRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSAKIKTLEAEKAALA 154
		
		Query: 296 TWADRTARAFKSMWDAVLDI-GRPDTAQEMLIKAEAAFKKADDIWNLRKDDYFVNDEARA 354
		                  +A +   +       +  T +      EA   + +       +    +     
		Sbjct: 155 ARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIK 214
		
		Query: 355 RYWDDREKARLALEAARK-KAEQQSQQDKNAQQQSDTEASRLKYTEEAQKAYERLQTPLE 413
		               ++           K      +    ++ +    EA +        +  + L+  + 
		Sbjct: 215 TLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMN 274
		
		Query: 414 KYTARQEELNKALKDGKILQADYNTLMAAAKKDYEATLKKPKQSGVKVSAGDRQEDSAHA 473
		             TA   ++     +   L+A+   L     +   A  +  +          R  D++  
		Sbjct: 275 FSTADSAKIKTLEAEKAALEAEKADLEHQ-SQVLNANRQSLR----------RDLDASRE 323
		
		Query: 474 ALLTLQAELRTLEKHAGANEKISQQ-RRDL-------WKAESQFAVLEEAAQRRQLSAQE 525
		           A   L+AE + LE+    +E   Q  RRDL        + E++   LEE  +  + S Q 
		Sbjct: 324 AKKQLEAEHQKLEEQNKISEASRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEASRQS 383
		
		Query: 526 KS--LLAHKDETLEYKRQLAALGDKVTYQERLNALAQQADKFAQQQRAKRAAIDAKSRGL 583
		               L A ++   + ++ L     K+   E+LN   +++ K  ++++A            
		Sbjct: 384 LRRDLDASREAKKQVEKALEEANSKLAALEKLNKELEESKKLTEKEKA------------ 431
		
		Query: 584 TDRQAEREATEQRLKEQ 600
		            + QA+ EA  + LKE+
		Sbjct: 432 -ELQAKLEAEAKALKEK 447
		
		
	1540#c1589	PF06291#Lambda prophage Bor protein	28	0.012
		>PF06291#Lambda prophage Bor protein
		          Length = 102
		
		 Score = 27.7 bits (61), Expect = 0.012
		 Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 5/40 (12%)
		
		Query: 122 MTGILFSLGASMVLGGVAQML-----APKARTPRTQTTDN 156
		           M  +LFS   +M++ G AQ        P A TP+   T +
		Sbjct: 6   MKKMLFSAALAMLITGCAQQTFTVGNKPTAVTPKETITHH 45
		
		
	1542#c1591	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	41	1e-05
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 40.8 bits (95), Expect = 1e-05
		 Identities = 27/132 (20%), Positives = 56/132 (42%), Gaps = 15/132 (11%)
		
		Query: 123  SQSAAAAKKSETAAASSRNA--AKTSETNAGNSAKAAASSKTAAQNAATAAERSETNARA 180
		            S +   A+  E        A  ++T+ET A NS + + + +   Q+A     +   N   
		Sbjct: 1012 SNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDATETTAQ---NREV 1068
		
		Query: 181  SEEASADSEEASRRN--AESAAENAGVATTKAREAAADATKAGQKKDEALSAATRAEKAA 238
		            ++EA ++ +  ++ N  A+S +E         +E     TK     ++   A    EK  
		Sbjct: 1069 AKEAKSNVKANTQTNEVAQSGSE--------TKETQTTETKETATVEKEEKAKVETEKTQ 1120
		
		Query: 239  DRAEVAAEVTAE 250
		            +  +V ++V+ +
		Sbjct: 1121 EVPKVTSQVSPK 1132
		
		
	1551#c1600	adhesinb#Adhesin B signature.	297	e-103
		>adhesinb#Adhesin B signature.
		          Length = 310
		
		 Score =  297 bits (762), Expect = e-103
		 Identities = 85/262 (32%), Positives = 147/262 (56%), Gaps = 7/262 (2%)
		
		Query: 9   MLLGGLALTCSIAFQASATEKFKVITTFTIIADMAKNVAGDAAEVSSITKPGAEIHEYQP 68
		             +G  A +   +   + + K  V+ T +IIAD+ KN+AGD   + SI   G + HEY+P
		Sbjct: 13  AFVGLAACSSQKSSTETGSSKLNVVATNSIIADITKNIAGDKINLHSIVPVGQDPHEYEP 72
		
		Query: 69  TPGDIKRAQGAQLILANGMNLEL----WFQRFYQHLNGVPE---VIVSSGVTPVGITEGP 121
		            P D+K+   A LI  NG+NLE     WF +  ++           VS GV  + +    
		Sbjct: 73  LPEDVKKTSQADLIFYNGINLETGGNAWFTKLVENAKKKENKDYYAVSEGVDVIYLEGQS 132
		
		Query: 122 YEGKPNPHAWMSPDNALIYVDNIRDALIKYDPANAQTYQRNADTYKAKITQTLAPLRKQI 181
		            +GK +PHAW++ +N +IY  NI   L + DPAN +TY++N   Y  K++      +++ 
		Sbjct: 133 EKGKEDPHAWLNLENGIIYAQNIAKRLSEKDPANKETYEKNLKAYVEKLSALDKEAKEKF 192
		
		Query: 182 TELPENQRWMVTSEGAFSYLARDLGLKELYLWPINADQQGTPQQVRKVVDIVKKNHIPAV 241
		             +P  ++ +VTSEG F Y ++   +   Y+W IN +++GTP Q++ +V+ ++K  +P++
		Sbjct: 193 NNIPGEKKMIVTSEGCFKYFSKAYNVPSAYIWEINTEEEGTPDQIKTLVEKLRKTKVPSL 252
		
		Query: 242 FSESTISDKPARQVARETGAHY 263
		           F ES++ D+P + V+++T    
		Sbjct: 253 FVESSVDDRPMKTVSKDTNIPI 274
		
		
	1567#c1619	PRTACTNFAMLY#Pertactin virulence factor family signature.	43	5e-08
		>PRTACTNFAMLY#Pertactin virulence factor family signature.
		          Length = 910
		
		 Score = 42.7 bits (100), Expect = 5e-08
		 Identities = 26/101 (25%), Positives = 45/101 (44%), Gaps = 1/101 (0%)
		
		Query: 8   TRSIYRELGATLSYNMRLGNGMEIEPWLKAAVRKEFVDDNRVKVNSDGNFVNDLSGRRGI 67
		             S+   LG  +   + L  G +++P++KA+V +EF     V  N   +   +L G R  
		Sbjct: 811 GSSVLGRLGLEVGKRIELAGGRQVQPYIKASVLQEFDGAGTVHTNGIAH-RTELRGTRAE 869
		
		Query: 68  YQAGIKASFSSTLSGHLGVGYSRGAGVESPWNAVVGVNWSF 108
		              G+ A+     S +    YS+G  +  PW    G  +S+
		Sbjct: 870 LGLGMAAALGRGHSLYASYEYSKGPKLAMPWTFHAGYRYSW 910
		
		
c1714	c1725	Y	Y	N	c1699	c1739
	c1714	-1	21	-3.455258	Hypothetical protein
	c1715	-1	20	-3.738015	Putative potassium channel protein
	c1716	0	16	-1.259201	Protein yciI
	c1717	1	16	-1.154322	TonB protein
	c1718	0	19	-3.339174	Hypothetical protein
	c1719	-1	21	-4.804072	Putative acyl-CoA thioester hydrolase yciA
	c1720	-2	15	-3.234684	Probable intracellular septation protein
	c1721	-2	11	-1.332760	Hypothetical protein yciC
	c1722	-1	12	0.555011	Outer membrane protein W precursor
	c1723	0	13	1.390477	Protein yciE
	c1724	0	14	2.403607	Protein yciF
	c1725	0	15	3.318101	Tryptophan synthase alpha chain
	1664#c1716	adhesinmafb#Neisseria meningitidis: adhesin MafB signature.	32	5e-04
		>adhesinmafb#Neisseria meningitidis: adhesin MafB signature.
		          Length = 467
		
		 Score = 32.0 bits (72), Expect = 5e-04
		 Identities = 16/57 (28%), Positives = 20/57 (35%), Gaps = 2/57 (3%)
		
		Query: 73  GPMPAVDSNDPGAAGFTGSTVIAEFESLEAAQAWADADPYVAAGVYEHVSVKPFKKV 129
		            P+PA         G  GS    E  + EA   W   +P  A  V    +V    KV
		Sbjct: 268 APLPA--EGKFAVIGGLGSVAGFEKNTREAVDRWIQENPNAAETVEAVFNVAAAAKV 322
		
		
	1665#c1717	TONBPROTEIN#Gram-negative bacterial tonB protein signature.	259	1e-89
		>TONBPROTEIN#Gram-negative bacterial tonB protein signature.
		          Length = 239
		
		 Score =  259 bits (663), Expect = 1e-89
		 Identities = 234/239 (97%), Positives = 236/239 (98%), Gaps = 1/239 (0%)
		
		Query: 18  MTLDLPRRFPWPTLLSVCIHGAVVAGLLYTSVHQVIELPAPAQPISVTMVAPADLEPPQA 77
		           MTLDLPRRFPWPTLLSVCIHGAVVAGLLYTSVHQVIELPAPAQPISVTMV PADLEPPQA
		Sbjct: 1   MTLDLPRRFPWPTLLSVCIHGAVVAGLLYTSVHQVIELPAPAQPISVTMVTPADLEPPQA 60
		
		Query: 78  VQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVEQ-PKRDVKPVESR 136
		           VQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKV++ PKRDVKPVESR
		Sbjct: 61  VQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESR 120
		
		Query: 137 PASPFENTAPARPTSSTATAATSKPVTSVASGPRALSRNQPQYPARAQALRIEGQVKVKF 196
		           PASPFENTAPAR TSSTATAATSKPVTSVASGPRALSRNQPQYPARAQALRIEGQVKVKF
		Sbjct: 121 PASPFENTAPARLTSSTATAATSKPVTSVASGPRALSRNQPQYPARAQALRIEGQVKVKF 180
		
		Query: 197 DVTPDGRVDNVQILSAKPANMFEREVKNAMRRWRYEPGKPGSGIVVNILFKINGTTEIQ 255
		           DVTPDGRVDNVQILSAKPANMFEREVKNAMRRWRYEPGKPGSGIVVNILFKINGTTEIQ
		Sbjct: 181 DVTPDGRVDNVQILSAKPANMFEREVKNAMRRWRYEPGKPGSGIVVNILFKINGTTEIQ 239
		
		
c1772	c1777	Y	Y	N	c1757	c1796
	c1772	3	16	-1.697630	Hypothetical protein ymjA
	c1773	3	15	-1.040283	Psp operon transcriptional activator
	c1774	3	15	-1.657075	Phage shock protein A
	c1775	-1	21	-4.741421	Phage shock protein B
	c1776	0	21	-5.453294	Hypothetical protein
	c1777	-1	16	-3.755659	Phage shock protein C
	1720#c1773	HTHFIS#FIS bacterial regulatory protein HTH signature.	342	e-118
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score =  342 bits (880), Expect = e-118
		 Identities = 125/341 (36%), Positives = 182/341 (53%), Gaps = 23/341 (6%)
		
		Query: 11  DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNC 70
		             L+G + +  E+   ++ L   D  ++I GE GTGKEL+A  LH    R  GPF+++N 
		Sbjct: 137 MPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAINM 196
		
		Query: 71  AALNENLLDSELFGHEAGAFTGAQKRHPGRFERADGGTLFFDELATAPMMVQEKLLRVIE 130
		           AA+  +L++SELFGHE GAFTGAQ R  GRFE+A+GGTLF DE+   PM  Q +LLRV++
		Sbjct: 197 AAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMPMDAQTRLLRVLQ 256
		
		Query: 131 YGELERVGGSQPLQVNVRLVCATNADLPAMVNEGTFRADLLDRLAFDVVQLPPLRERESD 190
		            GE   VGG  P++ +VR+V ATN DL   +N+G FR DL  RL    ++LPPLR+R  D
		Sbjct: 257 QGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVPLRLPPLRDRAED 316
		
		Query: 191 IMLMAEHFAIQMCREIKLPLFPGFTEHARETLLNYRWPGNIRELKNVVERSVYRHGTSDY 250
		           I  +  HF  Q  +E        F + A E +  + WPGN+REL+N+V R    +     
		Sbjct: 317 IPDLVRHFVQQAEKEGLDVK--RFDQEALELMKAHPWPGNVRELENLVRRLTALYPQDVI 374
		
		Query: 251 PLDDIIID---PFKRRPSEEAIAVSENTSLPTLPLD------------------LREFQM 289
		             + I  +        P E+A A S + S+     +                        
		Sbjct: 375 TREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFASFGDALPPSGLYDRVLA 434
		
		Query: 290 QQEKELLQLSLQQGKYNQKRAAELLGLTYHQFRALLKKHQI 330
		           + E  L+  +L   + NQ +AA+LLGL  +  R  +++  +
		Sbjct: 435 EMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGV 475
		
		
	1722#c1775	MPTASEINHBTR#Metalloprotease inhibitor signature.	25	0.030
		>MPTASEINHBTR#Metalloprotease inhibitor signature.
		          Length = 122
		
		 Score = 24.6 bits (53), Expect = 0.030
		 Identities = 7/43 (16%), Positives = 17/43 (39%)
		
		Query: 30 SGRSELSQSEQQRLAQLADEAKRMRERIQALESILDAEHPNWR 72
		          +G+  +  +     A  A++A  +   +   E  L  +  +W 
		Sbjct: 37 AGQLGIEATGSGVCAGPAEQANALAGDVACAEQWLGDKPVSWS 79
		
		
c1797	c1817	Y	Y	N	c1782	c1823
	c1797	-1	18	-3.641783	Hypothetical protein ycjG
	c1800	-1	19	-4.973976	Conserved hypothetical protein
	c1801	-1	16	-3.849677	Hypothetical protein ycjY
	c1802	-1	14	-3.733800	Hypothetical transcriptional regulator ycjZ
	c1803	-1	12	-3.080308	Periplasmic murein peptide-binding protein
	c1804	-2	16	-3.503575	Hypothetical protein ynaI
	c1805	-2	16	-2.644649	Hypothetical protein ynaJ
	c1806	-2	17	-2.891155	Protein ydaA
	c1807	0	24	-4.544470	Fumarate and nitrate reduction Regulatory
	c1808	2	32	-5.857097	Methylated-DNA--protein-cysteine
	c1809	1	28	-5.477485	Hypothetical protein
	c1810	-2	26	-4.835944	Hypothetical protein
	c1811	-1	23	-3.400614	Hypothetical protein
	c1812	1	20	-1.989537	Hypothetical protein
	c1813	0	16	-1.388651	Hypothetical protein
	c1814	0	16	-1.095611	Hypothetical protein ydaL
	c1815	-1	16	-2.366809	Hypothetical protein ydaM
	c1816	-1	16	-2.024954	Hypothetical protein ydaN
	c1817	-2	16	-3.149290	ATP-independent RNA helicase dbpA
	1756#c1811	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	55	2e-12
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 55.2 bits (133), Expect = 2e-12
		 Identities = 18/89 (20%), Positives = 37/89 (41%), Gaps = 16/89 (17%)
		
		Query: 12  VVAIGILLAGVVFFIW-WVSK--------GRFIQTTDDAYIGGNITTVASKVSGYISAIE 62
		           +VA  I+   V+ FI   + +        G+           G    +    +  +  I 
		Sbjct: 59  LVAYFIMGFLVIAFILSVLGQVEIVATANGKLT-------HSGRSKEIKPIENSIVKEII 111
		
		Query: 63  VRDNQSVKKGDIILRLDDRDYRANVARLE 91
		           V++ +SV+KGD++L+L      A+  + +
		Sbjct: 112 VKEGESVRKGDVLLKLTALGAEADTLKTQ 140
		
		
c1879	c1892	Y	Y	N	c1861	c5623
	c1879	4	29	0.917774	Hypothetical protein
	c1880	4	25	-2.611795	Putative conserved protein
	c1881	5	24	-3.318476	Hypothetical protein
	c1882	5	25	-2.703966	Hypothetical protein
	c1883	5	32	-0.482641	Conserved hypothetical protein
	c1884	5	27	-4.056901	Hypothetical protein
	c1885	5	30	-4.914452	Hypothetical protein
	c1886	5	33	-4.635159	Hypothetical protein
	c1887	4	36	-5.835919	Hypothetical protein
	c1888	5	38	-6.725914	Conserved hypothetical protein
	c1889	4	44	-15.687376	Hypothetical protein
	c1890	3	37	-11.562680	Hypothetical protein
	c1891	1	29	-7.119185	Hypothetical protein
	c1892	0	22	-3.539636	Hypothetical protein
	1833#c1892	PF07299#Fibronectin-binding protein (FBP)	28	0.010
		>PF07299#Fibronectin-binding protein (FBP)
		          Length = 219
		
		 Score = 28.3 bits (63), Expect = 0.010
		 Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 13/51 (25%)
		
		Query: 61 LNDMYAFIPGDNYYFIKS------SGYKFVND-------KWFTLKSINNIF 98
		          +  M AFI  D Y FIKS      +G+   ND       K   ++ I ++F
		Sbjct: 4  VIKMEAFIRSDQYNFIKSQAYILANGHATANDRGVIQALKSLAIEKIIHVF 54
		
		
c1913	c1936	Y	Y	N	c1897	c1938
	c1913	0	18	-3.153357	30S ribosomal protein S22
	c1914	-1	14	-1.522627	Bdm protein
	c1915	-1	11	-1.699335	Hypothetical protein
	c1916	-2	11	-0.708056	Osmotically inducible protein C
	c1918	-3	12	-1.941519	Putative sensor kinase
	c1919	-2	12	-2.953403	Putative conserved protein
	c1920	-2	11	-3.664834	Hypothetical lipoprotein yddW precursor
	c1921	-2	13	-5.149753	Amino acid antiporter
	c1922	-2	15	-5.838446	Glutamate decarboxylase beta
	c1923	-2	19	-7.251967	Probable zinc protease pqqL
	c1924	-2	20	-8.305697	Hypothetical protein yddB
	c1925	-2	23	-7.332349	Hypothetical ABC transporter ATP-binding protein
	c1926	-1	26	-7.109832	Hypothetical protein ydeM
	c1927	0	26	-6.227867	Putative sulfatase ydeN precursor
	c1928	0	26	-5.878054	Hypothetical transcriptional regulator ydeO
	c1929	2	28	-5.640063	Conserved hypothetical protein
	c1930	2	28	-5.477944	Hypothetical protein ydeP
	c1931	4	33	-7.067976	Hypothetical fimbrial-like protein ydeQ
	c1932	2	32	-6.731306	Hypothetical fimbrial-like protein ydeR
	c1933	1	30	-5.966172	Hypothetical fimbrial-like protein ydeS
	c1934	1	29	-5.634470	Outer membrane usher protein fimD precursor
	c1935	-1	26	-4.454018	Chaperone protein fimC precursor
	c1936	-1	26	-4.277540	Type-1 fimbrial protein, A chain precursor
	1855#c1915	60KDINNERMP#60kDa inner membrane protein signature.	23	0.050
		>60KDINNERMP#60kDa inner membrane protein signature.
		          Length = 548
		
		 Score = 23.0 bits (49), Expect = 0.050
		 Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
		
		Query: 8   SLELYISGYLLWKFNLSAGIIFSPDFIRIILLILVLFLT 46
		           S+EL  + + LW  +LSA     P +I  IL+ + +F  
		Sbjct: 443 SVELRQAPFALWIHDLSAQ---DPYYILPILMGVTMFFI 478
		
		
	1871#c1932	FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein...	32	7e-04
		>FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein
		           signature.
		          Length = 167
		
		 Score = 31.6 bits (71), Expect = 7e-04
		 Identities = 28/93 (30%), Positives = 46/93 (49%), Gaps = 7/93 (7%)
		
		Query: 16  LFTATLQAADVTITVNGRVVAKPCTIQT-KEANVNLGDLYTRNLQQPGSASGWHNITLSL 74
		           L T+    ADV I + G V   PCTI   +   V+ G++   N +   ++ G     +S+
		Sbjct: 11  LLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNI---NPEHVDNSRGEVTKNISI 67
		
		Query: 75  TDCPIETSAVTAIVTGSTDNTGYYKNEGTAENI 107
		           + CP ++ ++   VTG+T   G  +N   A NI
		Sbjct: 68  S-CPYKSGSLWIKVTGNTMGVG--QNNVLATNI 97
		
		
	1873#c1934	PF00577#Outer membrane usher protein FimD	945	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score =  945 bits (2443), Expect = 0.0
		 Identities = 498/869 (57%), Positives = 652/869 (75%), Gaps = 10/869 (1%)
		
		Query: 15  QVLILPRFARLTFALGLATAVFPVDAEYYFNPRFLSNDLAESVDLSAFTKGREAPPGTYR 74
		           +  +   F RL  A   A       AE YFNPRFL++D     DLS F  G+E PPGTYR
		Sbjct: 20  KHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQAVADLSRFENGQELPPGTYR 79
		
		Query: 75  VDIYLNDEFMASRDITFIADDNNADLIPCLSTDLLVSLGIKKSALLDNKEHSADKHVPDN 134
		           VDIYLN+ +MA+RD+TF   D+   ++PCL+   L S+G+  +++       +  ++  +
		Sbjct: 80  VDIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLNTASV-------SGMNLLAD 132
		
		Query: 135 SACTPLQDRLADASSEFDVGQQHLSLSVPQIYVGRMARGYVSPDLWEEGINAGLLNYSFN 194
		            AC PL   + DA+++ DVGQQ L+L++PQ ++   ARGY+ P+LW+ GINAGLLNY+F+
		Sbjct: 133 DACVPLTSMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLLNYNFS 192
		
		Query: 195 GNSINNRSNHNAGKSNYAYLNLQSGINIGSWRLRDNSTWSYNSGSSNSSDSNKWQHINTS 254
		           GNS     N   G S+YAYLNLQSG+NIG+WRLRDN+TWSYNS  S+S   NKWQHINT 
		Sbjct: 193 GNS---VQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSKNKWQHINTW 249
		
		Query: 255 AERDIIPLRSRLTVGDSYTDGDIFDSVNFRGLKINSTEAMLPDSQHGFAPVIHGIARGTA 314
		            ERDIIPLRSRLT+GD YT GDIFD +NFRG ++ S + MLPDSQ GFAPVIHGIARGTA
		Sbjct: 250 LERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIARGTA 309
		
		Query: 315 QVSVKQNGYDVYQTTVPPGPFTIDDINSAANGGDLQVTIKEADGSIQTLYVPYSSVPVLQ 374
		           QV++KQNGYD+Y +TVPPGPFTI+DI +A N GDLQVTIKEADGS Q   VPYSSVP+LQ
		Sbjct: 310 QVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSVPLLQ 369
		
		Query: 375 RAGYTRYALAMGEYRSGNNLQSTPKFVQASLMHGLKGNWTPYGGMQIAEDYQAFNLGIGK 434
		           R G+TRY++  GEYRSGN  Q  P+F Q++L+HGL   WT YGG Q+A+ Y+AFN GIGK
		Sbjct: 370 REGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRYRAFNFGIGK 429
		
		Query: 435 DLGLFGAFSFDITQANTTLADDTRHSGQSVKSVYSKSFYQTGTNIQVAGYRYSTQGFYNL 494
		           ++G  GA S D+TQAN+TL DD++H GQSV+ +Y+KS  ++GTNIQ+ GYRYST G++N 
		Sbjct: 430 NMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSGYFNF 489
		
		Query: 495 SDSAYSRMSGYTVKPPTGDTSEQTLFIDYFNLFYSKRGQEQISISQQLGNYGTTFFSASR 554
		           +D+ YSRM+GY ++   G    +  F DY+NL Y+KRG+ Q++++QQLG   T + S S 
		Sbjct: 490 ADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRTSTLYLSGSH 549
		
		Query: 555 QSYWNTSRSDQQISFGLNVPFGDITTSLNYSYSNNIWQNDRDHLLAFTLNVPFSHWMRTD 614
		           Q+YW TS  D+Q   GLN  F DI  +L+YS + N WQ  RD +LA  +N+PFSHW+R+D
		Sbjct: 550 QTYWGTSNVDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNIPFSHWLRSD 609
		
		Query: 615 SQSAFHNSNASYSMSNDLKGGMTNLSGVYGTLLPDNNLNYSVQVGNTHGGNTSSGTSGYS 674
		           S+S + +++ASYSMS+DL G MTNL+GVYGTLL DNNL+YSVQ G   GG+ +SG++GY+
		Sbjct: 610 SKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGDGNSGSTGYA 669
		
		Query: 675 SLNYRGAYGNTNVGYSRSGDSSQIYYGMSGGIIAHADGITFGQPLGDTMVLVKAPGADNV 734
		           +LNYRG YGN N+GYS S D  Q+YYG+SGG++AHA+G+T GQPL DT+VLVKAPGA + 
		Sbjct: 670 TLNYRGGYGNANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVLVKAPGAKDA 729
		
		Query: 735 KIENQTGIHTDWRGYAILPFATEYRENRVALNANSLADNVELDETVVTVIPTHGAIARAT 794
		           K+ENQTG+ TDWRGYA+LP+ATEYRENRVAL+ N+LADNV+LD  V  V+PT GAI RA 
		Sbjct: 730 KVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVPTRGAIVRAE 789
		
		Query: 795 FNVQIGGKVLMTLKYGNKSVPFGAIVTHGENKNGSIVAENGQVYLTGLPQSGKLQVSWGK 854
		           F  ++G K+LMTL + NK +PFGA+VT   +++  IVA+NGQVYL+G+P +GK+QV WG+
		Sbjct: 790 FKARVGIKLLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLAGKVQVKWGE 849
		
		Query: 855 DKNSNCIVEYKLPEVSPGTLLNQQTAICR 883
		           ++N++C+  Y+LP  S   LL Q +A CR
		Sbjct: 850 EENAHCVANYQLPPESQQQLLTQLSAECR 878
		
		
c1950	c1970	Y	Y	N	c1934	c1974
	c1950	-1	15	-3.585568	Sugar efflux transporter
	c1951	0	19	-6.109148	Multiple antibiotic resistance protein marC
	c1952	0	22	-6.959091	Multiple antibiotic resistance protein marR
	c1953	2	25	-7.714955	Multiple antibiotic resistance protein marA
	c1954	1	27	-7.920183	Multiple antibiotic resistance protein marB
	c1955	1	26	-8.413444	6-phospho-beta-glucosidase bglA
	c1956	0	25	-7.644566	Putative outer membrane protein yieC precursor
	c1957	1	20	-5.755964	PTS system, cellobiose-specific IIA component
	c1958	1	20	-5.803970	Putative conserved protein
	c1959	-1	17	-3.599452	PTS system, cellobiose-specific IIB component
	c1960	-1	15	-2.977038	Putative conserved protein
	c1961	-2	14	-1.944460	Probable amino acid metabolite efflux pump
	c1962	-2	15	-1.884377	Hypothetical protein ydeE
	c1963	-2	16	-1.968432	Hypothetical protein ydeH
	c1964	-1	17	-1.964932	Peptidyl-dipeptidase dcp
	c1965	-2	17	-3.053508	Probable oxidoreductase ydfG
	c1966	-3	17	-2.819123	Hypothetical transcriptional regulator ydfH
	c1967	-2	18	-2.898985	Hypothetical protein ydfZ
	c1968	-2	17	-2.914776	Hypothetical oxidoreductase ydfI
	c1969	-2	13	-3.378853	Hypothetical metabolite transport protein ydfJ
	c1970	-3	16	-3.562564	Starvation sensing protein rspB
	1888#c1950	TCRTETB#Tetracycline resistance protein TetB signature.	55	3e-10
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 54.5 bits (131), Expect = 3e-10
		 Identities = 41/192 (21%), Positives = 84/192 (43%), Gaps = 8/192 (4%)
		
		Query: 36  LSDIAHSFHMQTAQVGIMLTIYAWVVALMSLPFMLMTSQVERRKLLICLFVVFIASHVLS 95
		           L DIA+ F+   A    + T +    ++ +  +  ++ Q+  ++LL+   ++     V+ 
		Sbjct: 37  LPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIG 96
		
		Query: 96  FLSWS-FTVLVISRIGVAFAHAIFWSITASLAIRMAPAGKRAQALSLIATGTALAMVLGL 154
		           F+  S F++L+++R       A F ++   +  R  P   R +A  LI +  A+   +G 
		Sbjct: 97  FVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKENRGKAFGLIGSIVAMGEGVGP 156
		
		Query: 155 PLGRIVGQYFGWRMTFFAIGIGALITLLCLIKLLPLLPSEHSGSLKSLPLLFRRPALMSI 214
		            +G ++  Y  W      I +  +IT+  L+KLL                  +   LMS+
		Sbjct: 157 AIGGMIAHYIHWSY-LLLIPMITIITVPFLMKLLK------KEVRIKGHFDIKGIILMSV 209
		
		Query: 215 YLLTVVVVTAHY 226
		            ++  ++ T  Y
		Sbjct: 210 GIVFFMLFTTSY 221
		
		
	1900#c1962	TCRTETA#Tetracycline resistance protein signature.	42	3e-06
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 41.7 bits (98), Expect = 3e-06
		 Identities = 42/239 (17%), Positives = 82/239 (34%), Gaps = 18/239 (7%)
		
		Query: 7   RSTSALLASSLLLTIGRGATLPFMTIYLSRQYSLSVDLI---GYAMTIALTIGVVFSLGF 63
		           R    +L++  L  +G G  +P +   L R    S D+    G  + +   +    +   
		Sbjct: 5   RPLIVILSTVALDAVGIGLIMPVLPGLL-RDLVHSNDVTAHYGILLALYALMQFACAPVL 63
		
		Query: 64  GILADKFDKKRYMLMAITAFASGFIAIPLVNNVTLVVLFFALINCAYSVFATVLKAWFAD 123
		           G L+D+F ++  +L+++   A  +  +     + ++ +   +     +  A    A+ AD
		Sbjct: 64  GALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVAG-AYIAD 122
		
		Query: 124 NLSSTSKTKIFSINYTMLNIGWTIGPPLGTLLVMQSINLPFWLAAICSAFPMLFIQIWVK 183
		                 + + F         G   GP LG L+   S + PF+ AA  +    L     + 
		Sbjct: 123 ITDGDERARHFGFMSACFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGCFLLP 182
		
		Query: 184 RSEK---------IIATETGSVWSPKVLLQDKALLWFTCSGFLASFVSGAFASCISQYV 233
		            S K          +       W     +   A L      F+   V    A+    + 
		Sbjct: 183 ESHKGERRPLRREALNPLASFRW--ARGMTVVAALMAV--FFIMQLVGQVPAALWVIFG 237
		
		
		
		 Score = 32.5 bits (74), Expect = 0.002
		 Identities = 21/155 (13%), Positives = 60/155 (38%), Gaps = 2/155 (1%)
		
		Query: 7   RSTSALLASSLLLTIGRGATLPFMTIYLSRQYSLSVDLIGYAMTIALTIGVVF-SLGFGI 65
		              +AL+A   ++ +          I+   ++      IG ++     +  +  ++  G 
		Sbjct: 210 TVVAALMAVFFIMQLVGQVPAALWVIFGEDRFHWDATTIGISLAAFGILHSLAQAMITGP 269
		
		Query: 66  LADKFDKKRYMLMAITAFASGFIAIPLVNNVTLVVLFFALINCAYSVFATVLKAWFADNL 125
		           +A +  ++R +++ + A  +G+I +       +      L+     +    L+A  +  +
		Sbjct: 270 VAARLGERRALMLGMIADGTGYILLAFATRGWMAFPIMVLLASG-GIGMPALQAMLSRQV 328
		
		Query: 126 SSTSKTKIFSINYTMLNIGWTIGPPLGTLLVMQSI 160
		               + ++      + ++   +GP L T +   SI
		Sbjct: 329 DEERQGQLQGSLAALTSLTSIVGPLLFTAIYAASI 363
		
		
	1903#c1965	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	100	9e-28
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score =  100 bits (251), Expect = 9e-28
		 Identities = 70/244 (28%), Positives = 114/244 (46%), Gaps = 16/244 (6%)
		
		Query: 7   IVLVTGATAGFGECITRRFIQQGHKVIATGRRQERLQELKDELGDNLYIAQ---LDVRNR 63
		           I  +TGA  G GE + R    QG  + A     E+L+++   L      A+    DVR+ 
		Sbjct: 10  IAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRDS 69
		
		Query: 64  AAIEEMLASLPAEWSNIDILVNNAGLALGMEPAHKASIEDWETMIDTNNKGLVYMTRAVL 123
		           AAI+E+ A +  E   IDILVN AG+ L     H  S E+WE     N+ G+   +R+V 
		Sbjct: 70  AAIDEITARIEREMGPIDILVNVAGV-LRPGLIHSLSDEEWEATFSVNSTGVFNASRSVS 128
		
		Query: 124 PGMVERNHGHIINIGSTAGSWPYAGGNVYGATKAFVRQFSLNLRTDLHGTAVRVTDIEPG 183
		             M++R  G I+ +GS     P      Y ++KA    F+  L  +L    +R   + PG
		Sbjct: 129 KYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPG 188
		
		Query: 184 LVGGTEFSNVRFKGDDGKAE------KTYQNTVALT----PEDVSEAV-WWVSTLPAHVN 232
		               T+     +  ++G  +      +T++  + L     P D+++AV + VS    H+ 
		Sbjct: 189 ST-ETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHIT 247
		
		Query: 233 INTL 236
		           ++ L
		Sbjct: 248 MHNL 251
		
		
	1907#c1969	TCRTETB#Tetracycline resistance protein TetB signature.	49	3e-08
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 48.7 bits (116), Expect = 3e-08
		 Identities = 33/118 (27%), Positives = 55/118 (46%), Gaps = 16/118 (13%)
		
		Query: 72  VGAFIFGKMGDRIGRKKVLFITITMMGICTTLIGVLPTYAQIGVFAPILLVTLRIIQGLG 131
		           +G  ++GK+ D++G K++L   I +    + +  V  ++  + + A       R IQG G
		Sbjct: 64  IGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMA-------RFIQGAG 116
		
		Query: 132 AGAEISGAGTMLAEYAPKGKR----GIISSFVAMGTNCGTLSATAI-----WAFMFFI 180
		           A A  +    ++A Y PK  R    G+I S VAMG   G      I     W+++  I
		Sbjct: 117 AAAFPALVMVVVARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHWSYLLLI 174
		
		
c2083	c2088	Y	Y	N	c2068	c2107
	c2083	2	15	-3.331610	Hypothetical protein ydiK
	c2084	0	18	-4.580839	Hypothetical protein ydiL
	c2085	0	15	-3.637386	Hypothetical transport protein ydiM
	c2086	-1	16	-3.914362	Hypothetical transport protein ydiN
	c2087	-1	17	-3.554683	Hypothetical shikimate 5-dehydrogenase-like
	c2088	-2	16	-3.117864	3-dehydroquinate dehydratase
	2023#c2085	TCRTETA#Tetracycline resistance protein signature.	29	0.027
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 29.4 bits (66), Expect = 0.027
		 Identities = 54/312 (17%), Positives = 105/312 (33%), Gaps = 18/312 (5%)
		
		Query: 61  FAGLLSDRFGRRPFIMLGMCCYMAFFFGILHTNNIIIAYVFGFLAGMANSFLDAGTYPSL 120
		             G LSDRFGRRP +++ +      +  +     + + Y+   +AG+  +   A     +
		Sbjct: 62  VLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATG-AVAGAYI 120
		
		Query: 121 MEAFPRSPGTANI-LIKAFVSSGQFLLPLIISLLVWAELWFGWSFMIAAGIMFINALFLY 179
		            +         +   + A    G    P++  L+          F  AA +  +N L   
		Sbjct: 121 ADITDGDERARHFGFMSACFGFGMVAGPVLGGLM--GGFSPHAPFFAAAALNGLNFLTGC 178
		
		Query: 180 RCTFPPHPGRHLPV---IKKTTSSTEHRCSIIDLASYSLYGYISMATFYLVSQWLAQYGQ 236
		                 H G   P+        +S      +  +A+     +I      + +     +G+
		Sbjct: 179 FLLPESHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFGE 238
		
		Query: 237 FVAGMSYTM-SIKLLSIYTVGSLLCVFITAPLIRNTVRPTTLL--MLYTFISFIALLTVC 293
		                  T   I L +   + SL    IT P+         L+  M+     +I L    
		Sbjct: 239 DRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFAT 298
		
		Query: 294 LHPTFYVVIIFAFVIGFTSAGGVVQIGLTLMAERF--PYAKGKATGIYYSAGSIATFTIP 351
		                + +++        ++GG+    L  M  R      +G+  G   +  S+ +   P
		Sbjct: 299 RGWMAFPIMV------LLASGGIGMPALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGP 352
		
		Query: 352 LITAHLSQRSIA 363
		           L+   +   SI 
		Sbjct: 353 LLFTAIYAASIT 364
		
		
	2024#c2086	TCRTETB#Tetracycline resistance protein TetB signature.	31	0.008
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 31.4 bits (71), Expect = 0.008
		 Identities = 38/177 (21%), Positives = 75/177 (42%), Gaps = 9/177 (5%)
		
		Query: 14  ILAVLCIYFSYFLHGISVITLAQNMTSLAEKFSTDNAGIAYLISGIGLGRLISILFFGVI 73
		           IL  LCI    F   ++ + L  ++  +A  F+   A   ++ +   L   I    +G +
		Sbjct: 15  ILIWLCIL--SFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKL 72
		
		Query: 74  SDKFGRRAVILMAVIMY----LLFFFGIPACPNLTLAYCLAVCVGIANSALDTGGYPALM 129
		           SD+ G + ++L  +I+     ++ F G      L +A  +      A  AL         
		Sbjct: 73  SDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARY- 131
		
		Query: 130 ECFPKASGSAVILVKAMVSFGQMFYPMLVSYMLLNNIWYGYGLIIPGILFVLITLML 186
		               +  G A  L+ ++V+ G+   P  +  M+ + I + Y L+IP I  + +  ++
		Sbjct: 132 -IPKENRGKAFGLIGSIVAMGEGVGP-AIGGMIAHYIHWSYLLLIPMITIITVPFLM 186
		
		
c2108	c2118	Y	Y	N	c2093	c2133
	c2108	5	24	-0.917146	Hypothetical protein
	c2109	7	24	-1.297576	Integration host factor alpha-subunit
	c2112	4	24	-1.594412	Phenylalanyl-tRNA synthetase alpha chain
	c5495	3	21	-4.246557	Phenylalanyl-tRNA synthetase operon leader
	c2113	2	19	-4.816724	50S ribosomal protein L20
	c2114	1	17	-5.730825	Hypothetical protein
	c2115	-1	17	-5.207835	Translation initiation factor IF-3
	c2116	-3	16	-3.670993	Threonyl-tRNA synthetase
	c2117	-1	26	-5.164161	Putative conserved protein
	c2118	-1	23	-4.023904	Putative conserved protein
	2047#c2109	DNABINDINGHU#Prokaryotic integration host factor signature.	119	3e-39
		>DNABINDINGHU#Prokaryotic integration host factor signature.
		          Length = 91
		
		 Score =  119 bits (301), Expect = 3e-39
		 Identities = 34/89 (38%), Positives = 55/89 (61%)
		
		Query: 4  TKAEMSEYLFDKLGLSKRDAKELVELFFEEIRRALENGEQVKLSGFGNFDLRDKNQRPGR 63
		           K ++   + +   L+K+D+   V+  F  +   L  GE+V+L GFGNF++R++  R GR
		Sbjct: 3  NKQDLIAKVAEATELTKKDSAAAVDAVFSAVSSYLAKGEKVQLIGFGNFEVRERAARKGR 62
		
		Query: 64 NPKTGEDIPITARRVVTFRPGQKLKSRVE 92
		          NP+TGE+I I A +V  F+ G+ LK  V+
		Sbjct: 63 NPQTGEEIKIKASKVPAFKAGKALKDAVK 91
		
		
c2130	c2145	Y	N	N	c2115	c2154
	c2130	-1	15	-3.040614	Hypothetical protein
	c2131	-1	13	-3.143414	Catalase HPII
	c2132	0	18	-4.702143	Hypothetical protein ydjC
	c2133	0	17	-5.111595	6-phospho-beta-glucosidase
	c2134	-1	16	-4.494318	Cel operon repressor
	c2135	0	18	-2.514446	PTS system, cellobiose-specific IIA component
	c2136	1	16	-2.234559	PTS system, cellobiose-specific IIC component
	c2137	0	16	-1.702578	PTS system, cellobiose-specific IIB component
	c2138	0	14	-1.020703	Osmotically inducible lipoprotein E precursor
	c2139	0	13	-0.213959	NH(3)-dependent NAD(+) synthetase
	c2140	0	13	1.113945	Hypothetical protein ydjQ
	c2141	0	13	3.013865	Hypothetical protein ydjR
	c2142	1	14	3.484490	Hypothetical protein
	c2143	0	13	3.830831	Spheroplast protein Y precursor
	c2144	0	14	3.829875	Succinylglutamate desuccinylase
	c2145	0	14	3.877146	Succinylarginine dihydrolase
c2154	c2202	Y	Y	N	c2139	c2178
	c2154	1	15	3.304398	Hypothetical protein ynjA
	c2155	1	15	3.115854	Protein ynjB
	c2156	1	16	2.813891	Hypothetical ABC transporter permease protein
	c2157	-2	13	1.871752	Hypothetical ABC transporter ATP-binding protein
	c2158	-1	15	-1.160572	Putative thiosulfate sulfurtransferase ynjE
	c2159	-2	21	-3.191097	Hypothetical protein ynjF
	c2160	-2	25	-5.537932	CTP pyrophosphohydrolase
	c2161	-3	18	-3.911274	Hypothetical protein ynjH precursor
	c2162	-2	14	-3.050795	NADP-specific glutamate dehydrogenase
	c2163	-2	17	-3.458044	Hypothetical protein
	c2164	-2	13	-2.096011	Chaperone protein hscC
	c2165	-1	9	-0.264097	Hypothetical protein
	c2166	-2	10	1.605496	DNA topoisomerase III
	c2167	-2	11	1.102419	Selenide,water dikinase
	c2168	-2	13	-1.134131	Protein ydjA
	c2169	-3	14	-2.594903	Hypothetical protein
	c2170	-3	13	-2.642008	Protease IV
	c2171	-1	20	-4.312628	L-asparaginase I
	c2172	-1	21	-5.169269	Pyrazinamidase/nicotinamidase
	c2173	0	22	-5.792107	Hypothetical metabolite transport protein ydjE
	c2174	-1	22	-5.023492	Hypothetical transcriptional regulator ydjF
	c2175	0	23	-4.371500	Hypothetical oxidoreductase ydjG
	c2176	0	21	-3.989384	Hypothetical sugar kinase ydjH
	c2177	0	20	-3.686426	Hypothetical protein ydjI
	c2178	-1	18	-3.132310	Hypothetical zinc-type alcohol
	c2179	-2	18	-2.382482	Hypothetical metabolite transport protein ydjK
	c2180	1	25	-2.349450	Hypothetical protein
	c2181	-1	20	-2.162845	Hypothetical zinc-type alcohol
	c2182	0	24	-1.944207	Hypothetical protein yeaC
	c2183	1	19	-1.548664	Peptide methionine sulfoxide reductase msrB
	c2184	1	17	-1.528831	Glyceraldehyde 3-phosphate dehydrogenase A
	c2185	-1	10	-3.775516	Unknown protein from 2D-page
	c2186	-1	11	-4.352585	Hypothetical protein yeaE
	c2187	-1	12	-4.441034	MltA-interacting protein precursor
	c2188	-1	14	-4.969742	Hypothetical protein yeaG
	c2189	-2	18	-5.390458	Hypothetical protein yeaH
	c2190	-2	22	-5.557782	Hypothetical protein yeaI
	c2191	-2	20	-1.608362	Hypothetical protein yeaJ
	c2192	-1	20	0.552678	Hypothetical protein yeaK
	c2193	0	20	0.748895	Conserved hypothetical protein
	c2194	-2	20	-0.608509	Hypothetical protein yeaL
	c2195	-1	20	-1.438254	Hypothetical transcriptional regulator yeaM
	c2196	-1	20	-1.673680	Hypothetical transport protein yeaN
	c2197	0	21	-3.659431	Hypothetical protein yeaO
	c2198	-1	19	-4.054504	Hypothetical protein yoaF
	c2199	0	21	-4.394115	Hypothetical protein yeaP
	c2200	-1	22	-4.516706	Hypothetical protein yeaQ
	c2201	0	23	-4.158604	Hypothetical protein
	c2202	2	22	-3.867990	Hypothetical protein yoaG
	2101#c2164	SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein s...	104	1e-26
		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein
		           signature.
		          Length = 347
		
		 Score =  104 bits (261), Expect = 1e-26
		 Identities = 80/373 (21%), Positives = 138/373 (36%), Gaps = 89/373 (23%)
		
		Query: 3   IGIDLGTTNSLAAVWRNGQSELIPNALGKFLTPSVVCVDEDG------MVLTGEAARDLQ 56
		           + IDLGT N+L  V   G   ++ N       PSVV + +D       +   G  A    
		Sbjct: 13  LSIDLGTANTLIYVKGQG---IVLN------EPSVVAIRQDRAGSPKSVAAVGHDA---- 59
		
		Query: 57  LIKPQNCASNFKRMMGTS-------KTLKLG--GREFRAEELSSLILRQLKEDAENYLGE 107
		                      K+M+G +       + +K G     F  E++    ++Q+  ++      
		Sbjct: 60  -----------KQMLGRTPGNIAAIRPMKDGVIADFFVTEKMLQHFIKQVHSNS---FMR 105
		
		Query: 108 EVTEAVISVPAYFGDMQRKATKAAATMAGLNVERLINEPTAAALAYGLHNKDDEHQFLVF 167
		                ++ VP     ++R+A + +A  AG     LI EP AAA+  GL   +     +V 
		Sbjct: 106 PSPRVLVCVPVGATQVERRAIRESAQGAGAREVFLIEEPMAAAIGAGLPVSEATGS-MVV 164
		
		Query: 168 DLGGGTFDVSILELFDNIMEVRAS-AGDNFLGGEDIVDILIDAYCSRRDLPENIEWREPT 226
		           D+GGGT +V+++ L   +        GD F   E I++ +   Y             E T
		Sbjct: 165 DIGGGTTEVAVISLNGVVYSSSVRIGGDRF--DEAIINYVRRNY--------GSLIGEAT 214
		
		Query: 227 LQRHLRIEAERVKRVLS--VRDEATFSVEIEGRRYYWHL-------TTEKFEFL---LQT 274
		                   AER+K  +      +    +E+ GR     +       + E  E L   L  
		Sbjct: 215 --------AERIKHEIGSAYPGDEVREIEVRGRNLAEGVPRGFTLNSNEILEALQEPLTG 266
		
		Query: 275 FFERIHMPLER-------AIRDAKINFSQLDQVVLVGGTTRMPLIRKLVTRLFGRIPAMH 327
		               + + LE+        I +  +        VL GG   +  + +L+    G    + 
		Sbjct: 267 IVSAVMVALEQCPPELASDISERGM--------VLTGGGALLRNLDRLLMEETGIPVVVA 318
		
		Query: 328 LNPDEVIAQGAAI 340
		            +P   +A+G   
		Sbjct: 319 EDPLTCVARGGGK 331
		
		
	2109#c2172	ISCHRISMTASE#Isochorismatase signature.	37	3e-05
		>ISCHRISMTASE#Isochorismatase signature.
		          Length = 312
		
		 Score = 36.9 bits (85), Expect = 3e-05
		 Identities = 35/192 (18%), Positives = 55/192 (28%), Gaps = 58/192 (30%)
		
		Query: 8   PPRALLLV-DLQNDFCAGGALAVPEGDSTVDVANRLIDWCQSRGEAVI-----ASQD--- 58
		           P RA+LL+ D+QN F                   +L + C   G  V+      SQ+   
		Sbjct: 28  PNRAVLLIHDMQNYFVDAFTAGASPVTELSANIRKLKNQCVQLGIPVVYTAQPGSQNPDD 87
		
		Query: 59  -------WHPANHGSFASQHGVEPYTPGQLDGLPQTFWPDHCVQNSEGAQLHPLLKQKAI 111
		                  W P  +     +  +    P   D +  T W                      
		Sbjct: 88  RALLTDFWGPGLNSGPYEEKIITELAPEDDDLV-LTKW---------------------- 124
		
		Query: 112 AAVFHKGENPLVDSYSAFFDNGRRQKTALDDWLRAHVINELIVMGLATDYCVKFTVLDAL 171
		                         YSAF       +T L + +R    ++LI+ G+        T  +A 
		Sbjct: 125 -------------RYSAFK------RTNLLEMMRKEGRDQLIITGIYAHIGCLVTACEAF 165
		
		Query: 172 QLGYKVNVITDG 183
		               K   + D 
		Sbjct: 166 MEDIKAFFVGDA 177
		
		
	2110#c2173	TCRTETB#Tetracycline resistance protein TetB signature.	39	4e-05
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 38.7 bits (90), Expect = 4e-05
		 Identities = 32/130 (24%), Positives = 51/130 (39%), Gaps = 3/130 (2%)
		
		Query: 88  ALMFGYFIGSLTGGFIGDYFGRRRAFRINLLIVGIAATGAAFVPDMH--WLIFFRFLMGT 145
		           A M  + IG+   G + D  G +R     ++I    +    FV       LI  RF+ G 
		Sbjct: 57  AFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSV-IGFVGHSFFSLLIMARFIQGA 115
		
		Query: 146 GMGALIMVGYASFTEFIPATVRGKWSARLSFVGNWSPMLSAAIGVVVIAFFSWRIMFLLG 205
		           G  A   +       +IP   RGK    +  +      +  AIG ++  +  W  + L+ 
		Sbjct: 116 GAAAFPALVMVVVARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHWSYLLLIP 175
		
		Query: 206 GIGILLAWFL 215
		            I I+   FL
		Sbjct: 176 MITIITVPFL 185
		
		
	2116#c2179	TCRTETB#Tetracycline resistance protein TetB signature.	31	0.011
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 31.0 bits (70), Expect = 0.011
		 Identities = 33/142 (23%), Positives = 48/142 (33%), Gaps = 23/142 (16%)
		
		Query: 71  MFLGALVGGIIGDKTGRRNAFILYEAIHIASMVVGAFSPNMDF-LIACRFVMGVGLGALL 129
		             +G  V G + D+ G +   +    I+    V+G    +    LI  RF+ G G  A  
		Sbjct: 62  FSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFP 121
		
		Query: 130 VTLFAGFTEYMPGRNR----GTWSSRVSFIGNWSYPLCSLIAMGLTPLISA----EWNWR 181
		             +      Y+P  NR    G   S V+            +  G+ P I        +W 
		Sbjct: 122 ALVMVVVARYIPKENRGKAFGLIGSIVA------------MGEGVGPAIGGMIAHYIHWS 169
		
		Query: 182 VQLLIPAILSLIATALAWRYFP 203
		             LLIP I   I T        
		Sbjct: 170 YLLLIPMI--TIITVPFLMKLL 189
		
		
	2122#c2185	INVEPROTEIN#Salmonella/Shigella invasion protein E (InvE) signat...	29	0.021
		>INVEPROTEIN#Salmonella/Shigella invasion protein E (InvE)
		           signature.
		          Length = 372
		
		 Score = 28.9 bits (64), Expect = 0.021
		 Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 13/81 (16%)
		
		Query: 165 ETTSALHTYFNVGDIAKVSVSGLGDRFIDKVNDAKED-----------VLTDGIQTFPDR 213
		           E ++AL  + N  D  K S S L + F ++V + +             V    ++ F  +
		Sbjct: 57  EMSAALAQFRNRRDYEKKS-SNLSNSF-ERVLEDEALPKAKQILKLISVHGGALEDFLRQ 114
		
		Query: 214 TDRVYLNPQDCSVINDEALNR 234
		              ++ +P D  ++  E L R
		Sbjct: 115 ARSLFPDPSDLVLVLRELLRR 135
		
		
	2131#c2194	PRTACTNFAMLY#Pertactin virulence factor family signature.	28	0.022
		>PRTACTNFAMLY#Pertactin virulence factor family signature.
		          Length = 910
		
		 Score = 27.7 bits (61), Expect = 0.022
		 Identities = 18/61 (29%), Positives = 26/61 (42%)
		
		Query: 49  QGLSIGIIILTIGVMAPIASGTLPPSTLIHSFLNWKSLVAIAVGVIVSWLGGRGVTLMGS 108
		           Q  +I    L IG +  +    LPPS ++    N  ++ A      VS LG   +TL G 
		Sbjct: 174 QRSAIVDGGLHIGALQSLQPEDLPPSRVVLRDTNVTAVPASGAPAAVSVLGASELTLDGG 233
		
		Query: 109 Q 109
		            
		Sbjct: 234 H 234
		
		
	2137#c2200	HTHTETR#TetR bacterial regulatory protein HTH signature.	30	6e-04
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 30.0 bits (67), Expect = 6e-04
		 Identities = 9/37 (24%), Positives = 17/37 (45%), Gaps = 5/37 (13%)
		
		Query: 4   LSWIIFGLIAGILAKWIMPG-----KDGGGFFMTILL 35
		            + I+ G I+G++  W+        K     ++ ILL
		Sbjct: 163 AAIIMRGYISGLMENWLFAPQSFDLKKEARDYVAILL 199
		
		
c2344	c2510	Y	Y	Y	c2329	c2368
	c2344	-2	20	-4.279807	Hypothetical protein yedE
	c2345	2	34	-7.556630	Hypothetical protein yedF
	c2346	2	35	-7.868458	Hypothetical protein yedK
	c2347	7	40	-9.579669	Hypothetical protein
	c2348	5	36	-8.114841	Outer membrane porin protein nmpC precursor
	c2349	-2	22	-3.544039	Hypothetical transcriptional regulator ybcM
	c2350	-2	12	0.473813	Protein ybcL precursor
	c2351	1	15	2.444025	Hypothetical protein
	c2352	1	15	3.163863	EmrE protein
	c2353	1	18	4.915408	Flagellar hook-basal body complex protein fliE
	c2354	2	18	4.772370	Flagellar M-ring protein
	c2355	2	16	4.847908	Flagellar motor switch protein fliG
	c2356	0	14	4.563023	Hypothetical protein
	c2357	-2	16	3.960546	Flagellar assembly protein fliH
	c2358	-2	18	3.708785	Flagellum-specific ATP synthase
	c2359	-2	16	2.642357	Flagellar fliJ protein
	c2360	-2	16	2.790023	Flagellar hook-length control protein
	c2361	-2	22	2.331857	Flagellar fliL protein
	c2362	0	18	0.968669	Flagellar motor switch protein fliM
	c2363	3	17	0.593876	Flagellar motor switch protein fliN
	c2364	2	17	-2.549982	Flagellar protein fliO
	c2365	1	17	-3.284859	Flagellar biosynthetic protein fliP precursor
	c2366	1	19	-4.785175	Flagellar biosynthetic protein fliQ
	c2367	2	19	-5.081266	Flagellar biosynthetic protein fliR
	c2368	0	20	-3.499105	Hypothetical protein
	c2369	-2	16	-2.116680	Colanic acid capsular biosynthesis activation
	c2370	-2	16	-0.230633	DsrB protein
	c2371	-2	16	-0.169855	Hypothetical protein
	c2372	-2	14	0.397503	Hypothetical protein yodD
	c2373	-2	15	1.028491	Hypothetical protein yedP
	c2374	-1	18	1.571276	Hypothetical protein yedQ
	c2375	1	18	1.622810	Hypothetical protein
	c2376	2	17	1.966469	Hypothetical protein yodC
	c2377	2	17	1.690038	Hypothetical protein yedI
	c2378	-1	11	-0.658797	Hypothetical transport protein yedA
	c2379	-2	14	-1.748697	Very short patch repair protein
	c2380	-2	14	-2.669061	DNA-cytosine methyltransferase
	c2381	-3	22	-6.295698	Hypothetical protein yedJ
	c2382	-1	29	-7.909471	Hypothetical protein yedR
	c2383	-1	30	-8.477498	Outer membrane protein N precursor
	c2384	-2	27	-6.477051	Hypothetical protein
	c2385	-1	26	-6.033135	Protein yedU
	c2386	0	30	-7.413496	Putative sensor-like histidine kinase yedV
	c2387	0	24	-4.905275	Probable transcriptional Regulatory protein
	c2388	0	32	-8.997726	Transthyretin-like protein precursor
	c2389	0	34	-8.615790	Hypothetical protein yedY
	c2390	1	39	-9.923311	Hypothetical protein yedZ
	c2391	2	43	-10.952856	Hypothetical protein yodA
	c2392	3	43	-10.179700	Putative P4-family integrase
	c2393	3	46	-12.846510	Hypothetical protein
	c2394	4	43	-11.134574	PilV-like protein
	c2395	4	46	-14.267928	Putative type IV pilin protein precursor
	c2396	6	44	-13.939562	Hypothetical protein
	c2397	5	43	-13.910933	Hypothetical protein
	c2398	7	46	-16.558484	Hypothetical protein
	c2399	7	45	-15.666610	Hypothetical protein
	c2400	5	47	-16.075696	Hypothetical protein
	c2401	6	40	-12.101934	Hypothetical protein
	c2402	6	44	-14.294961	Hypothetical protein
	c2403	7	44	-14.844821	Hypothetical protein
	c2404	8	48	-15.911527	Hypothetical protein
	c2405	7	47	-15.782590	Hypothetical protein
	c2406	9	41	-13.681260	Hypothetical protein
	c2407	8	48	-14.945182	Hypothetical protein
	c2408	8	46	-14.229600	Hypothetical protein
	c2409	6	44	-13.366586	Hypothetical protein
	c2410	4	37	-11.606764	Hypothetical protein
	c2411	6	30	-9.573352	DNA-binding protein H-NS
	c2412	5	32	-9.222830	Hypothetical protein
	c2413	2	23	-6.667811	Hypothetical protein
	c2414	0	20	-3.311728	Hypothetical protein
	c2415	-1	18	0.106079	Hypothetical protein
	c2416	0	16	2.590020	Hypothetical protein
	c2417	0	18	4.442554	*Hypothetical protein yeeI
	c2418	1	21	5.548804	*Prophage P4 integrase
	c2419	-1	21	7.050550	Putative anthranilate synthase
	c2420	0	22	7.001052	Putative cytoplasmic transmembrane protein
	c2421	-1	21	6.632457	Putative ABC transporter protein
	c2422	-1	22	7.055453	Putative inner membrane ABC-transporter
	c2423	-1	24	7.881866	Putataive AraC type regulator
	c2424	-1	24	8.336335	Putative peptide synthetase
	c2425	-1	24	8.307166	Hypothetical protein
	c2426	-1	24	8.702465	Putative peptide synthetase
	c2427	0	24	9.105493	Putative peptide/polyketide synthetase protein
	c2428	0	24	8.914633	Hypothetical protein
	c2429	1	25	8.456482	Hypothetical protein
	c2430	0	24	7.810483	Hypothetical protein
	c2431	-2	25	6.289495	Hypothetical protein
	c2432	-3	21	4.066066	Putative thioesterase
	c2433	-3	22	3.597816	Enterobactin synthetase component E
	c2434	0	20	1.009359	Putative salicyl-AMP ligase
	c2435	0	19	0.173549	Hypothetical protein
	c2436	0	20	-1.244973	Putative pesticin receptor precursor
	c2437	1	30	-6.197999	Hypothetical protein
	c2438	-2	27	-4.372258	Hypothetical protein
	c2439	-2	25	-3.957230	Hypothetical protein
	c2440	-3	30	-5.664592	Hypothetical protein
	c2441	-2	30	-5.234805	Hypothetical protein
	c2442	-3	26	-4.431699	Hypothetical protein
	c2443	-2	25	-3.288442	Shikimate transporter
	c2444	-2	23	-3.153357	AMP nucleosidase
	c2445	-1	26	-4.102984	Hypothetical protein yeeN
	c2446	-1	24	-3.306640	*Nitrogen assimilation Regulatory protein nac
	c2447	-1	23	-2.923043	Transcriptional regulator cbl
	c2448	-1	20	-1.807164	*Hypothetical protein yeeO
	c2449	-1	18	-0.724090	*Prophage P4 integrase
	c2450	0	20	0.179976	Hypothetical protein
	c2451	1	20	0.801233	Putative thioesterase
	c2452	1	21	1.739095	Hypothetical protein
	c2453	2	20	3.289282	Putative polyketide synthase
	c2454	2	18	4.057282	Hypothetical protein
	c2455	2	17	4.264108	Putative peptide synthetase
	c2456	2	17	4.498286	Hypothetical protein
	c2457	2	17	4.712281	Putative amidase
	c2458	2	16	4.689145	Putative peptide synthetase
	c2459	2	16	4.333810	Putative peptide synthetase
	c2460	2	15	3.781787	Putative polyketide synthase
	c2461	2	16	2.597563	Hypothetical protein
	c2462	1	23	-1.482059	Hypothetical protein
	c2463	0	19	0.675606	Putative transacylase
	c2464	1	20	1.811571	Putative acyl-coa dehydrogenase
	c2465	2	19	1.226304	Hypothetical protein
	c2466	1	19	0.452208	Hypothetical protein
	c2467	1	19	0.576908	Putative 3-hydroxyacyl-CoA dehydrogenase
	c2468	1	18	0.937352	Putative polyketide synthase
	c2469	1	19	0.186325	Putative polyketide synthase
	c2470	0	21	-2.831206	Putative peptide/polyketide synthase
	c2471	2	30	-8.224589	Hypothetical protein
	c2472	-1	27	-3.744519	Transposase
	c2473	0	25	-2.686361	Transposase
	c2474	1	28	-2.314577	Transposase
	c2475	1	29	-2.301013	Hypothetical protein
	c2476	2	28	-1.223362	Protein erfK/srfK precursor
	c2477	1	25	-3.164777	Nicotinate-nucleotide--dimethylbenzimidazole
	c2478	0	24	-4.151437	Cobalamin [5'-phosphate] synthase
	c2479	4	26	-4.743284	Cobalamin biosynthesis protein cobU
	c2480	6	26	-4.499762	Hypothetical protein
	c2481	6	28	-6.066324	Hypothetical protein
	c2482	5	27	-5.904070	Putative outer membrane receptor for iron
	c2483	4	25	-5.294522	Hypothetical protein
	c2484	2	26	-6.304166	Hypothetical protein ybdM
	c2485	2	29	-7.758437	Hypothetical protein ybdN
	c2486	1	33	-8.571524	Hypothetical protein
	c2489	0	29	-6.555881	Putative transferase
	c2490	1	30	-6.480403	Hypothetical protein yaiO
	c2492	2	32	-6.023286	Putative carbohydrate kinase
	c2493	3	26	-4.192278	Hypothetical protein
	c2494	2	24	-2.092876	Hypothetical protein
	c2495	4	21	-0.035744	Putative phosphotriesterase-related protein
	c2496	6	25	1.478321	Hypothetical protein
	c2497	6	26	1.274488	Transposase
	c2498	4	26	3.746825	Hypothetical protein
	c2499	4	29	4.247337	Hypothetical protein
	c2500	2	27	4.478880	Hypothetical protein
	c2501	4	30	3.627933	Hypothetical protein
	c2502	4	28	3.647581	Hypothetical protein
	c2503	4	23	3.890456	Transposase
	c2504	5	25	1.665450	Hypothetical protein
	c2505	5	25	0.637226	Hypothetical protein
	c2506	6	25	0.716755	Hypothetical protein
	c2508	6	25	0.693046	Hypothetical protein
	c2509	5	21	0.100044	Insertion sequence ATP-binding protein
	c2510	3	21	0.609563	Hypothetical protein
	2279#c2344	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	30	0.018
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 30.2 bits (68), Expect = 0.018
		 Identities = 10/57 (17%), Positives = 17/57 (29%), Gaps = 2/57 (3%)
		
		Query: 175 RFTLLPIFRIPVKMQKVSAASPLTQKPDQARRRF--RLGMLVFFGMLGWALLTAMNQ 229
		           R  L    R   + + + A   L + P   R R      M         ++L  +  
		Sbjct: 26  RKQLDTPVREKDENEFLPAHLELIETPVSRRPRLVAYFIMGFLVIAFILSVLGQVEI 82
		
		
	2280#c2345	PF01206#SirA family protein	93	6e-29
		>PF01206#SirA family protein
		          Length = 76
		
		 Score = 92.5 bits (230), Expect = 6e-29
		 Identities = 16/71 (22%), Positives = 37/71 (52%)
		
		Query: 7  DYRLDMVGEPCPYPAVATLEAMPQLKKGEILEVVSDCPQSINNIPLDARNHGYTVLDIQQ 66
		          D  LD  G  CP P +   + +  +  GE+L V++  P S+ +    ++  G+ +L+ ++
		Sbjct: 5  DQSLDATGLNCPLPILKAKKTLATMNAGEVLYVMATDPGSVKDFESFSKQTGHELLEQKE 64
		
		Query: 67 DGPTIRYLIQK 77
		          +  T  + +++
		Sbjct: 65 EDGTYHFRLKR 75
		
		
	2283#c2348	ECOLIPORIN#E.coli/Salmonella-type porin signature.	495	e-179
		>ECOLIPORIN#E.coli/Salmonella-type porin signature.
		          Length = 383
		
		 Score =  495 bits (1277), Expect = e-179
		 Identities = 234/370 (63%), Positives = 271/370 (73%), Gaps = 31/370 (8%)
		
		Query: 1   MSAQAAEIYNKDSNKLDLYGKVNAKHYFSSNDADDGDTTYVRLGFKGETQINDQLTGFGQ 60
		            +A AAEIYNKD NKLDLYGKV+  HYFS + + DGD TY+R+GFKGETQINDQLTG+GQ
		Sbjct: 17  GAAHAAEIYNKDGNKLDLYGKVDGLHYFSDDSSKDGDQTYMRVGFKGETQINDQLTGYGQ 76
		
		Query: 61  WEYEFKGNRAESQGSSKDKTRLAFAGLKFGDYGSIDYGRNYGVAYDIGAWTDVLPEFGGD 120
		           WEY  + N  E +G++   TRLAFAGLKFGDYGS DYGRNYGV YD+  WTD+LPEFGGD
		Sbjct: 77  WEYNVQANTTEGEGANS-WTRLAFAGLKFGDYGSFDYGRNYGVLYDVEGWTDMLPEFGGD 135
		
		Query: 121 TWTQTDVFMTGRTTGVATYRNNDFFGLVDGLNFAAQYQGKNDR----------------T 164
		           ++T  D +MTGR  GVATYRN DFFGLVDGLNFA QYQGKN+                  
		Sbjct: 136 SYTYADNYMTGRANGVATYRNTDFFGLVDGLNFALQYQGKNESQSADDVNIGTNNRNNGD 195
		
		Query: 165 DVTEANGDGFGFSTTYEY-EGFGVGATYAKSDRTNDQVIYGNNSLNASGQNAEVWAAGLK 223
		           D+   NGDGFG STTY+   GF  GA Y  SDRTN+QV  G     A G  A+ W AGLK
		Sbjct: 196 DIRYDNGDGFGISTTYDIGMGFSAGAAYTTSDRTNEQVNAGGT--IAGGDKADAWTAGLK 253
		
		Query: 224 YDANNIYLATTYSETQNMTVFG------NNHIANKAQNFEVVAQYQFDFGLRPSVAYLQS 277
		           YDANNIYLAT YSET+NMT +G      +  +ANK QNFEV AQYQFDFGLRP+V++L S
		Sbjct: 254 YDANNIYLATMYSETRNMTPYGKTDKGYDGGVANKTQNFEVTAQYQFDFGLRPAVSFLMS 313
		
		Query: 278 KGKDLG----AWGDQDLVEYIDVGATYYFNKNMSTFVDYKINLIDKSD-FTKASGVATDD 332
		           KGKDL        D+DLV+Y DVGATYYFNKN ST+VDYKINL+D  D F K +G++TDD
		Sbjct: 314 KGKDLTYNNVNGDDKDLVKYADVGATYYFNKNFSTYVDYKINLLDDDDPFYKDAGISTDD 373
		
		Query: 333 IVAVGLVYQF 342
		           IVA+G+VYQF
		Sbjct: 374 IVALGMVYQF 383
		
		
	2288#c2353	FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE signa...	120	6e-39
		>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE
		           signature.
		          Length = 103
		
		 Score =  120 bits (301), Expect = 6e-39
		 Identities = 102/103 (99%), Positives = 102/103 (99%)
		
		Query: 12  SAIQGIEGVISQLQATAMSARAQESLPQPTISFAGQLHAALDRISDTQTVARTQAEKFTL 71
		           SAIQGIEGVISQLQATAMSARAQESLPQPTISFAGQLHAALDRISDTQT ARTQAEKFTL
		Sbjct: 1   SAIQGIEGVISQLQATAMSARAQESLPQPTISFAGQLHAALDRISDTQTAARTQAEKFTL 60
		
		Query: 72  GEPGVALNDVMTDMQKASVSMQMGIQVRNKLVAAYQEVMSMQV 114
		           GEPGVALNDVMTDMQKASVSMQMGIQVRNKLVAAYQEVMSMQV
		Sbjct: 61  GEPGVALNDVMTDMQKASVSMQMGIQVRNKLVAAYQEVMSMQV 103
		
		
	2289#c2354	FLGMRINGFLIF#Flagellar M-ring protein signature.	751	0.0
		>FLGMRINGFLIF#Flagellar M-ring protein signature.
		          Length = 559
		
		 Score =  751 bits (1940), Expect = 0.0
		 Identities = 476/555 (85%), Positives = 512/555 (92%), Gaps = 5/555 (0%)
		
		Query: 3   ATAAQTKSLEWLNRLRANPKIPLIVAGSAAVAVMVALILWAKAPDYRTLFSNLSDQDGGA 62
		           +TA Q K LEWLNRLRANP+IPLIVAGSAAVA++VA++LWAK PDYRTLFSNLSDQDGGA
		Sbjct: 5   STATQPKPLEWLNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGA 64
		
		Query: 63  IVSQLTQMNIPYRFSEASGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQ 122
		           IV+QLTQMNIPYRF+  SGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQ
		Sbjct: 65  IVAQLTQMNIPYRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQ 124
		
		Query: 123 FSEQVNYQRALEGELSRTIETIGPVKGARVHLAMPKPSLFVREQKSPSASVTVNLLPGRA 182
		           FSEQVNYQRALEGEL+RTIET+GPVK ARVHLAMPKPSLFVREQKSPSASVTV L PGRA
		Sbjct: 125 FSEQVNYQRALEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRA 184
		
		Query: 183 LDEGQISAIVHLVSSAVAGLPPGNVTLVDQGGHLLTQSNTSGRDLNDAQLKYASDVEGRI 242
		           LDEGQISA+VHLVSSAVAGLPPGNVTLVDQ GHLLTQSNTSGRDLNDAQLK+A+DVE RI
		Sbjct: 185 LDEGQISAVVHLVSSAVAGLPPGNVTLVDQSGHLLTQSNTSGRDLNDAQLKFANDVESRI 244
		
		Query: 243 QRRIEAILSPIVGNGNIHAQVTAQLDFASKEQTEEQYRPNGDESHAALRSRQLNESEQSG 302
		           QRRIEAILSPIVGNGN+HAQVTAQLDFA+KEQTEE Y PNGD S A LRSRQLN SEQ G
		Sbjct: 245 QRRIEAILSPIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVG 304
		
		Query: 303 SGYPGGVPGALSNQPAPANNAPISTPPANQNNRQQ--QASTTSNS---GPRSTQRNETSN 357
		           +GYPGGVPGALSNQPAP N API+TPP NQ N Q   Q ST++NS   GPRSTQRNETSN
		Sbjct: 305 AGYPGGVPGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNETSN 364
		
		Query: 358 YEVDRTIRHTKMNVGDVQRLSVAVVVNYKTLPDGKPLPLSNEQMKQIEALTREAMGFSEK 417
		           YEVDRTIRHTKMNVGD++RLSVAVVVNYKTL DGKPLPL+ +QMKQIE LTREAMGFS+K
		Sbjct: 365 YEVDRTIRHTKMNVGDIERLSVAVVVNYKTLADGKPLPLTADQMKQIEDLTREAMGFSDK 424
		
		Query: 418 RGDSLNVVNSPFNSSDESGGALPFWQQQAFIDQLLAAGRWLLVLLVAWLLWRKAVRPQLT 477
		           RGD+LNVVNSPF++ D +GG LPFWQQQ+FIDQLLAAGRWLLVL+VAW+LWRKAVRPQLT
		Sbjct: 425 RGDTLNVVNSPFSAVDNTGGELPFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVRPQLT 484
		
		Query: 478 RRAEAVKTVQQQAQAREEVEDAVEVRLSKDEQLQQRRANQRLGAEVMSQRIREMSDNDPR 537
		           RR E  K  Q+QAQ R+E E+AVEVRLSKDEQLQQRRANQRLGAEVMSQRIREMSDNDPR
		Sbjct: 485 RRVEEAKAAQEQAQVRQETEEAVEVRLSKDEQLQQRRANQRLGAEVMSQRIREMSDNDPR 544
		
		Query: 538 VVALVIRQWINNDHE 552
		           VVALVIRQW++NDHE
		Sbjct: 545 VVALVIRQWMSNDHE 559
		
		
	2290#c2355	FLGMOTORFLIG#Flagellar motor switch protein FliG signature.	341	e-119
		>FLGMOTORFLIG#Flagellar motor switch protein FliG signature.
		          Length = 344
		
		 Score =  341 bits (876), Expect = e-119
		 Identities = 117/329 (35%), Positives = 197/329 (59%), Gaps = 2/329 (0%)
		
		Query: 1   MSNLTGTDKSVILLMTIGEDRAAEVFKHLSQREVQTLSAAMANVTQISNKQLTDVLAEFE 60
		           +S LTG  K+ ILL++IG + +++VFK+LSQ E+++L+  +A +  I+++   +VL EF+
		Sbjct: 12  VSALTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNVLLEFK 71
		
		Query: 61  QEAEQFAALNINANDYLRSVLVKALGEERAASLLEDILETRDTASGIETLNFMEPQSAAD 120
		           +       +     DY R +L K+LG ++A  ++ + L +   +   E +   +P +  +
		Sbjct: 72  ELMMAQEFIQKGGIDYARELLEKSLGTQKAVDIINN-LGSALQSRPFEFVRRADPANILN 130
		
		Query: 121 LIRDEHPQIIATILVHLKRAQAADILALFDERLRHDVMLRIATFGGVQPAALAELTEVLN 180
		            I+ EHPQ IA IL +L   +A+ IL+     ++ +V  RIA      P  + E+  VL 
		Sbjct: 131 FIQQEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREVERVLE 190
		
		Query: 181 GLLDGQ-NLKRSKMGGVRTAAEIINLMKTQQEEAVITAVREFDGELAQKIIDEMFLFENL 239
		             L    +   +  GGV    EIIN+   + E+ +I ++ E D ELA++I  +MF+FE++
		Sbjct: 191 KKLASLSSEDYTSAGGVDNVVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMFVFEDI 250
		
		Query: 240 VDVDDRSIQRLLQEVDSESLLIALKGAEQPLREKFLRNMSQRAADILRDDLANRGPVRLS 299
		           V +DDRSIQR+L+E+D + L  ALK  + P++EK  +NMS+RAA +L++D+   GP R  
		Sbjct: 251 VLLDDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEFLGPTRRK 310
		
		Query: 300 QVENEQKAILLIVRRLAETGEMVIGSGED 328
		            VE  Q+ I+ ++R+L E GE+VI  G +
		Sbjct: 311 DVEESQQKIVSLIRKLEEQGEIVISRGGE 339
		
		
	2292#c2357	FLGFLIH#Flagellar assembly protein FliH signature.	371	e-134
		>FLGFLIH#Flagellar assembly protein FliH signature.
		          Length = 228
		
		 Score =  371 bits (954), Expect = e-134
		 Identities = 221/228 (96%), Positives = 224/228 (98%)
		
		Query: 8   MSDNLPWKTWTPDDLAPPPAEFVPMAESEETIIEEVEPSLEQQLAQLQMQAHEQGYQAGI 67
		           MSDNLPWKTWTPDDLAPP AEFVP+ E EETIIEE EPSLEQQLAQLQMQAHEQGYQAGI
		Sbjct: 1   MSDNLPWKTWTPDDLAPPQAEFVPIVEPEETIIEEAEPSLEQQLAQLQMQAHEQGYQAGI 60
		
		Query: 68  AEGRQQGHEQGYQEGLAQGLEQGLAEAKAQQAPIHARMQQLVSEFQTTLDALDSVIASRL 127
		           AEGRQQGH+QGYQEGLAQGLEQGLAEAK+QQAPIHARMQQLVSEFQTTLDALDSVIASRL
		Sbjct: 61  AEGRQQGHKQGYQEGLAQGLEQGLAEAKSQQAPIHARMQQLVSEFQTTLDALDSVIASRL 120
		
		Query: 128 MQMALEAARQVIGQTPTVDNSALIKQIQQLLQQEPLFSGKPQLRVHPDDLQRVDDMLGAT 187
		           MQMALEAARQVIGQTPTVDNSALIKQIQQLLQQEPLFSGKPQLRVHPDDLQRVDDMLGAT
		Sbjct: 121 MQMALEAARQVIGQTPTVDNSALIKQIQQLLQQEPLFSGKPQLRVHPDDLQRVDDMLGAT 180
		
		Query: 188 LSLHGWRLRGDPTLHPGGCKVSADEGDLDASVATRWQELCRLAAPGVV 235
		           LSLHGWRLRGDPTLHPGGCKVSADEGDLDASVATRWQELCRLAAPGVV
		Sbjct: 181 LSLHGWRLRGDPTLHPGGCKVSADEGDLDASVATRWQELCRLAAPGVV 228
		
		
	2294#c2359	FLGFLIJ#Flagellar FliJ protein signature.	202	2e-70
		>FLGFLIJ#Flagellar FliJ protein signature.
		          Length = 147
		
		 Score =  202 bits (515), Expect = 2e-70
		 Identities = 146/147 (99%), Positives = 147/147 (100%)
		
		Query: 1   MAEHGALATLKDLAEKEVEDAARLLGEMRRGCQQAEEQLKMLIDYQNEYRNNLNSDMSAG 60
		           MAEHGALATLKDLAEKEVEDAARLLGEMRRGCQQAEEQLKMLIDYQNEYRNNLNSDMSAG
		Sbjct: 1   MAEHGALATLKDLAEKEVEDAARLLGEMRRGCQQAEEQLKMLIDYQNEYRNNLNSDMSAG 60
		
		Query: 61  MTSNRWINYQQFIQTLEKAITQHRQQLNQWTQKVDIALNSWREKKQRLQAWQTLQERQST 120
		           +TSNRWINYQQFIQTLEKAITQHRQQLNQWTQKVDIALNSWREKKQRLQAWQTLQERQST
		Sbjct: 61  ITSNRWINYQQFIQTLEKAITQHRQQLNQWTQKVDIALNSWREKKQRLQAWQTLQERQST 120
		
		Query: 121 AALLAENRLDQKKMDEFAQRAAMRKPE 147
		           AALLAENRLDQKKMDEFAQRAAMRKPE
		Sbjct: 121 AALLAENRLDQKKMDEFAQRAAMRKPE 147
		
		
	2295#c2360	FLGHOOKFLIK#Flagellar hook-length control protein signature.	469	e-168
		>FLGHOOKFLIK#Flagellar hook-length control protein signature.
		          Length = 375
		
		 Score =  469 bits (1207), Expect = e-168
		 Identities = 365/375 (97%), Positives = 369/375 (98%)
		
		Query: 1   MIRLAPLITADVDTTTLPGGKASDAAQDFLALLSEALAGETTTDKAAPQLLVATDKPTAK 60
		           MIRLAPLITADVDTTTLPGGKASDAAQDFLALLSEALAGETTTDKAAPQLLVATDKPT K
		Sbjct: 1   MIRLAPLITADVDTTTLPGGKASDAAQDFLALLSEALAGETTTDKAAPQLLVATDKPTTK 60
		
		Query: 61  GEPLVSDILSDAQQADLLIPVDETPPVINDEQSTLTPLTTAQTMTLAAVADKNTTKDEKA 120
		           GEPL+SDI+SDAQQA+LLIPVDETPPVINDEQST TPLTTAQTM LAAVADKNTTKDEKA
		Sbjct: 61  GEPLISDIVSDAQQANLLIPVDETPPVINDEQSTSTPLTTAQTMALAAVADKNTTKDEKA 120
		
		Query: 121 DDLNEDVTASLSALFAMLPGFDNTPKVTDAPSTVLPAEKPTLFTKLTSAQLTTAQPDDAP 180
		           DDLNEDVTASLSALFAMLPGFDNTPKVTDAPSTVLP EKPTLFTKLTS QLTTAQPDDAP
		Sbjct: 121 DDLNEDVTASLSALFAMLPGFDNTPKVTDAPSTVLPTEKPTLFTKLTSEQLTTAQPDDAP 180
		
		Query: 181 GTPAQPLTPLVAEAQSKAEVISTPSPVTADASPLITPHQTQPLPTVAAPVLSAPLGSHEW 240
		           GTPAQPLTPLVAEAQSKAEVISTPSPVTA ASPLITPHQTQPLPTVAAPVLSAPLGSHEW
		Sbjct: 181 GTPAQPLTPLVAEAQSKAEVISTPSPVTAAASPLITPHQTQPLPTVAAPVLSAPLGSHEW 240
		
		Query: 241 QQSLSQHISLFTRQGQQSAELRLHPQDLGEVQISLKVDDNQAQIQMISPHQHVRAALEAA 300
		           QQSLSQHISLFTRQGQQSAELRLHPQDLGEVQISLKVDDNQAQIQM+SPHQHVRAALEAA
		Sbjct: 241 QQSLSQHISLFTRQGQQSAELRLHPQDLGEVQISLKVDDNQAQIQMVSPHQHVRAALEAA 300
		
		Query: 301 LPVLRTQLAESGIQLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVS 360
		           LPVLRTQLAESGIQLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVS
		Sbjct: 301 LPVLRTQLAESGIQLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVS 360
		
		Query: 361 LQGRVTGNSGVDIFA 375
		           LQGRVTGNSGVDIFA
		Sbjct: 361 LQGRVTGNSGVDIFA 375
		
		
	2297#c2362	FLGMOTORFLIM#Flagellar motor switch protein FliM signature.	385	e-136
		>FLGMOTORFLIM#Flagellar motor switch protein FliM signature.
		          Length = 344
		
		 Score =  385 bits (989), Expect = e-136
		 Identities = 85/324 (26%), Positives = 148/324 (45%), Gaps = 10/324 (3%)
		
		Query: 20  ILSQAEIDALLNGDS--EVKDEPTASVSGESDIRPYDPNTQRRVVRERLQALEIINERFA 77
		           +LSQ EID LL   S  +   E    +S    I  YD     +  +E+++ L +++E FA
		Sbjct: 4   VLSQDEIDQLLTAISSGDASIEDARPISDTRKITLYDFRRPDKFSKEQMRTLSLMHETFA 63
		
		Query: 78  RHFRMGLFNLLRRSPDITVGAIRIQPYHEFARNLPVPTNLNLIHLKPLRGTGLVVFSPSL 137
		           R     L   LR    + V ++    Y EF R++P P+ L +I + PL+G  ++   PS+
		Sbjct: 64  RLTTTSLSAQLRSMVHVHVASVDQLTYEEFIRSIPTPSTLAVITMDPLKGNAVLEVDPSI 123
		
		Query: 138 VFIAVDNLFGGDGRFPTKVEGREFTHTEQRVINRMLKLALEGYSDAWKAINPLEVEYVRS 197
		            F  +D LFGG G+   KV+ R+ T  E  V+  ++   L    ++W  +  L     + 
		Sbjct: 124 TFSIIDRLFGGTGQ-AAKVQ-RDLTDIENSVMEGVIVRILANVRESWTQVIDLRPRLGQI 181
		
		Query: 198 EMQVKFTNITTSPNDIVVNTPFHVEIGNLTGEFNICLPFSMIEPLRELLVNPPLENS--R 255
		           E   +F  I   P+++VV      ++G   G  N C+P+  IEP+   L +    +S  R
		Sbjct: 182 ETNPQFAQI-VPPSEMVVLVTLETKVGEEEGMMNFCIPYITIEPIISKLSSQFWFSSVRR 240
		
		Query: 256 NEDQNWRDNLVRQVQHSQLELVANFADISLRLSQILKLKPGDVLPIEKP---DRIIAHVD 312
		           +    +   L  ++    +++VA    + L +  IL L+ GD++ +      D  +  + 
		Sbjct: 241 SSTTQYMGVLRDKLSTVDMDVVAEVGSLRLSVRDILGLRVGDIIRLHDTHVGDPFVLSIG 300
		
		Query: 313 GVPVLTSQYGTLNGQYALRIEHLI 336
		                  Q G +  + A +I   I
		Sbjct: 301 NRKKFLCQPGVVGKKIAAQILERI 324
		
		
	2298#c2363	FLGMOTORFLIN#Flagellar motor switch protein FliN signature.	209	2e-73
		>FLGMOTORFLIN#Flagellar motor switch protein FliN signature.
		          Length = 137
		
		 Score =  209 bits (534), Expect = 2e-73
		 Identities = 124/137 (90%), Positives = 132/137 (96%)
		
		Query: 1   MSDMNNPADDNNGAMDDLWAEALSEQKSTSGKSATDAVFQQFGGGDVSGTLQDIDLIMDI 60
		           MSDMNNP+D+N GA+DDLWA+AL+EQK+T+ KSA DAVFQQ GGGDVSG +QDIDLIMDI
		Sbjct: 1   MSDMNNPSDENTGALDDLWADALNEQKATTTKSAADAVFQQLGGGDVSGAMQDIDLIMDI 60
		
		Query: 61  PVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGV 120
		           PVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGV
		Sbjct: 61  PVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGV 120
		
		Query: 121 RITDIITPSERMRRLSR 137
		           RITDIITPSERMRRLSR
		Sbjct: 121 RITDIITPSERMRRLSR 137
		
		
	2300#c2365	FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein Fl...	333	e-119
		>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP
		           signature.
		          Length = 245
		
		 Score =  333 bits (856), Expect = e-119
		 Identities = 244/245 (99%), Positives = 244/245 (99%)
		
		Query: 1   MRRLFSVAPVLLWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLM 60
		           MRRL SVAPVLLWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLM
		Sbjct: 1   MRRLLSVAPVLLWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLM 60
		
		Query: 61  MTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEK 120
		           MTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEK
		Sbjct: 61  MTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEK 120
		
		Query: 121 ISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTSELK 180
		           ISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTSELK
		Sbjct: 121 ISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTSELK 180
		
		Query: 181 TAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSLA 240
		           TAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSLA
		Sbjct: 181 TAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSLA 240
		
		Query: 241 QSFYS 245
		           QSFYS
		Sbjct: 241 QSFYS 245
		
		
	2301#c2366	TYPE3IMQPROT#Type III secretion system inner membrane Q protein ...	67	1e-18
		>TYPE3IMQPROT#Type III secretion system inner membrane Q protein
		          family signature.
		          Length = 86
		
		 Score = 67.1 bits (164), Expect = 1e-18
		 Identities = 22/78 (28%), Positives = 42/78 (53%)
		
		Query: 4  ESVMMMGTEAMKVALALAAPLLLVALVTGLIISILQAATQINEMTLSFIPKIIAVFIAII 63
		          + ++  G +A+ + L L+    +VA + GL++ + Q  TQ+ E TL F  K++ V + + 
		Sbjct: 2  DDLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLF 61
		
		Query: 64 IAGPWMLNLLLDYVRTLF 81
		          +   W   +LL Y R + 
		Sbjct: 62 LLSGWYGEVLLSYGRQVI 79
		
		
	2302#c2367	TYPE3IMRPROT#Type III secretion system inner membrane R protein ...	202	6e-67
		>TYPE3IMRPROT#Type III secretion system inner membrane R protein
		           family signature.
		          Length = 261
		
		 Score =  202 bits (516), Expect = 6e-67
		 Identities = 256/261 (98%), Positives = 259/261 (99%)
		
		Query: 1   MMQVTSDQWLSWLSLYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPA 60
		           M+QVTS+QWLSWL+LYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPA
		Sbjct: 1   MLQVTSEQWLSWLNLYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPA 60
		
		Query: 61  NDVPVFSFFALWLAVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPGSHL 120
		           NDVPVFSFFALWLAVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDP SHL
		Sbjct: 61  NDVPVFSFFALWLAVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPASHL 120
		
		Query: 121 NMPVLARIMDMLALLLFLTFNGHLWLISLLVDTFHTLPIGSEPLNSNAFLALTKAGSLIF 180
		           NMPVLARIMDMLALLLFLTFNGHLWLISLLVDTFHTLPIG EPLNSNAFLALTKAGSLIF
		Sbjct: 121 NMPVLARIMDMLALLLFLTFNGHLWLISLLVDTFHTLPIGGEPLNSNAFLALTKAGSLIF 180
		
		Query: 181 LNGLMLALPLITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFC 240
		           LNGLMLALPLITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFC
		Sbjct: 181 LNGLMLALPLITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFC 240
		
		Query: 241 EHLFSEIFNLLADIISELPLI 261
		           EHLFSEIFNLLADIISELPLI
		Sbjct: 241 EHLFSEIFNLLADIISELPLI 261
		
		
	2315#c2380	PF05272#Virulence-associated E family protein	29	0.045
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 29.3 bits (65), Expect = 0.045
		 Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 15/62 (24%)
		
		Query: 320 AKYILTPVLWKYLYRYAKKHQARGNGFGYGMVYPNNPQSVTRTLSARYYKDGAEILIDRG 379
		           A+Y + PVLW Y+ R+ K   + G+      VY            +R  +DG+E    RG
		Sbjct: 166 ARYQVGPVLWGYVVRFIK---SDGDKLTLPYVY------------SRSQRDGSEAWKWRG 210
		
		Query: 380 WD 381
		           WD
		Sbjct: 211 WD 212
		
		
	2316#c2381	CARBMTKINASE#Bacterial carbamate kinase signature.	35	2e-04
		>CARBMTKINASE#Bacterial carbamate kinase signature.
		          Length = 314
		
		 Score = 34.8 bits (80), Expect = 2e-04
		 Identities = 22/92 (23%), Positives = 36/92 (39%), Gaps = 9/92 (9%)
		
		Query: 46  AQKLAADDDVDMLVILTACYFHDIVSLAKNHPQRQRSSILAAEETRRLLREEFVQFPA-- 103
		            +KLA + + D+ +ILT     +  +L     + Q    +  EE R+   E    F A  
		Sbjct: 219 GEKLAEEVNADIFMILTDV---NGAALYYGTEKEQWLREVKVEELRKYYEEG--HFKAGS 273
		
		Query: 104 --EKIEAVCHAIAAHSFSAQIAPLTTEAKIVQ 133
		              K+ A    I      A IA L    + ++
		Sbjct: 274 MGPKVLAAIRFIEWGGERAIIAHLEKAVEALE 305
		
		
	2318#c2383	ECOLIPORIN#E.coli/Salmonella-type porin signature.	418	e-148
		>ECOLIPORIN#E.coli/Salmonella-type porin signature.
		          Length = 383
		
		 Score =  418 bits (1075), Expect = e-148
		 Identities = 199/388 (51%), Positives = 249/388 (64%), Gaps = 41/388 (10%)
		
		Query: 24  MKRKVLAMLVPALLVAGAANAAEIYNKNGNKVELYGKMVGERILTDRENGEKGDNSQDTS 83
		           MKRKVLA+++PALL AGAA+AAEIYNK+GNK++LYGK+ G    +D ++ + GD     +
		Sbjct: 1   MKRKVLALVIPALLAAGAAHAAEIYNKDGNKLDLYGKVDGLHYFSD-DSSKDGD----QT 55
		
		Query: 84  YARVGVKGETQINPELTGYGQFELDLEASNRHNPDQ---TRLAYAGLSYKDFGSFDYGRN 140
		           Y RVG KGETQIN +LTGYGQ+E +++A+          TRLA+AGL + D+GSFDYGRN
		Sbjct: 56  YMRVGFKGETQINDQLTGYGQWEYNVQANTTEGEGANSWTRLAFAGLKFGDYGSFDYGRN 115
		
		Query: 141 VGVAYDAEAFTDMFVEWGGDSWAGTDLFMTNRTNGVATYRNTDFFGMVEGLNFALQYQGK 200
		            GV YD E +TDM  E+GGDS+   D +MT R NGVATYRNTDFFG+V+GLNFALQYQGK
		Sbjct: 116 YGVLYDVEGWTDMLPEFGGDSYTYADNYMTGRANGVATYRNTDFFGLVDGLNFALQYQGK 175
		
		Query: 201 NEGTGNY----------------KANGDGHGLSATYTID-GFSFAGAYANSDRTDWQSGD 243
		           NE                       NGDG G+S TY I  GFS   AY  SDRT+ Q   
		Sbjct: 176 NESQSADDVNIGTNNRNNGDDIRYDNGDGFGISTTYDIGMGFSAGAAYTTSDRTNEQVNA 235
		
		Query: 244 GK----GERAEVWALSTKYDANNVYAAVMYGESHNM-------NSDDGDVVNKTQNFEAV 292
		           G     G++A+ W    KYDANN+Y A MY E+ NM          DG V NKTQNFE  
		Sbjct: 236 GGTIAGGDKADAWTAGLKYDANNIYLATMYSETRNMTPYGKTDKGYDGGVANKTQNFEVT 295
		
		Query: 293 LQYQFDFGLRPSIGYSYSKALDVA----GYKDSDRLNYIEIGTWYYFNKNMNVYTAYQIN 348
		            QYQFDFGLRP++ +  SK  D+        D D + Y ++G  YYFNKN + Y  Y+IN
		Sbjct: 296 AQYQFDFGLRPAVSFLMSKGKDLTYNNVNGDDKDLVKYADVGATYYFNKNFSTYVDYKIN 355
		
		Query: 349 LLDKSD-YVLAHGLNTDDQLAVGIVYQF 375
		           LLD  D +    G++TDD +A+G+VYQF
		Sbjct: 356 LLDDDDPFYKDAGISTDDIVALGMVYQF 383
		
		
	2321#c2386	PF06580#Sensor histidine kinase	39	4e-05
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 38.7 bits (90), Expect = 4e-05
		 Identities = 38/195 (19%), Positives = 74/195 (37%), Gaps = 34/195 (17%)
		
		Query: 261 TLSQIRSIAEYQKTIAGN-IEELENISRLTENILFLARADKNNVLVKLDALSLNKEVENL 319
		            L+ IR++     T A   +  L  + R +     L  ++   V       SL  E+  +
		Sbjct: 178 ALNNIRALILEDPTKAREMLTSLSELMRYS-----LRYSNARQV-------SLADELTVV 225
		
		Query: 320 LDYL--EYLSDEKEIRFKVECNQQIFADKI---LLQRMLSNLIVNAIRYSPEKSRIHITS 374
		             YL    +  E  ++F+ + N  I   ++   L+Q ++ N I + I   P+  +I +  
		Sbjct: 226 DSYLQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKG 285
		
		Query: 375 FLDANGSLNIDIASPGTKINEPEKLFRRFWRGDNSRHSVGQGLGLSLVKA-IAELHGGSA 433
		             D NG++ +++ + G+   +  K                 G GL  V+  +  L+G  A
		Sbjct: 286 TKD-NGTVTLEVENTGSLALKNTKE--------------STGTGLQNVRERLQMLYGTEA 330
		
		Query: 434 TYHYLSKHNVFRITL 448
		                 K       +
		Sbjct: 331 QIKLSEKQGKVNAMV 345
		
		
	2322#c2387	HTHFIS#FIS bacterial regulatory protein HTH signature.	84	9e-21
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 84.5 bits (209), Expect = 9e-21
		 Identities = 30/117 (25%), Positives = 60/117 (51%), Gaps = 1/117 (0%)
		
		Query: 39  KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQ 98
		            IL+ +D+   +  + Q LS AGY +   S+           D  L++ D+++P  + + 
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 99  ILQTLRTA-KQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ 154
		           +L  ++ A    PV+ ++A+++    ++  + GA DYL KPF  +EL+  +   L +
		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121
		
		
	2329#c2394	BCTERIALGSPH#Bacterial general secretion pathway protein H signa...	33	0.002
		>BCTERIALGSPH#Bacterial general secretion pathway protein H
		          signature.
		          Length = 170
		
		 Score = 32.6 bits (74), Expect = 0.002
		 Identities = 19/86 (22%), Positives = 38/86 (44%), Gaps = 8/86 (9%)
		
		Query: 2  IKKKGFTLLEVTIVL---GIGTLIAFMKFQDMRNDQEAVLADNVGTQIKQLGE--AVNRY 56
		          ++++GFTLLE+ ++L   G+   +  + F   R+D  A        Q++ + +       
		Sbjct: 1  MRQRGFTLLEMMLILLLMGVSAGMVLLAFPASRDDSAAQTLARFEAQLRFVQQRGLQTGQ 60
		
		Query: 57 ---ISIRYDKISTLSSSNNQSSDPGP 79
		             +S+  D+   L       +DP P
		Sbjct: 61 FFGVSVHPDRWQFLVLEARDGADPAP 86
		
		
	2330#c2395	PilS_PF08805#PilS N terminal	73	8e-19
		>PilS_PF08805#PilS N terminal
		          Length = 185
		
		 Score = 73.4 bits (180), Expect = 8e-19
		 Identities = 47/179 (26%), Positives = 84/179 (46%), Gaps = 17/179 (9%)
		
		Query: 7   KRKSKKGFSLLELLLVLGIIAALVVAAFIVYPKVQASQRAQAESNNIATIQAGVKALYTS 66
		           K++  KG +L+E+LLV+G+I  L  +A+ +Y  VQ++ ++  E NN+ T+ A +K+L   
		Sbjct: 21  KKEQDKGATLMEVLLVVGVIVVLAASAYKLYSMVQSNIQSSNEQNNVLTVIANMKSLKFQ 80
		
		Query: 67  AS-SFTGLTNTVAVQAKIFPDNMLSGSGTAAKPINAFKGNVTLAATATGPSSATGSSFTI 125
		              + +    T+     + P +M+    T A   N + G+VT+        S+   SF +
		Sbjct: 81  GRYTDSNYIKTL-YAQGLLPSDMI-ADTTGASAKNPWGGSVTITT------SSDKYSFNV 132
		
		Query: 126 TYDNVPAAECVKIATAAAGNFYITTVGTKVVKAAGGTLDVAATAAACTNATSNTLVFTS 184
		              NVP   C+ +  A           +  +     T     +AA    + SNTL F++
		Sbjct: 133 VEANVPQKNCMAMVNA--------LRSSSAISKINNTSTSTVSAATVCASDSNTLTFST 183
		
		
	2336#c2401	PF06291#Lambda prophage Bor protein	27	0.025
		>PF06291#Lambda prophage Bor protein
		          Length = 102
		
		 Score = 26.9 bits (59), Expect = 0.025
		 Identities = 9/23 (39%), Positives = 15/23 (65%)
		
		Query: 13 DKQMKKILLVAGAALALAGCGEK 35
		          D +MKK+L  A  A+ + GC ++
		Sbjct: 3  DNKMKKMLFSAALAMLITGCAQQ 25
		
		
	2347#c2412	TACYTOLYSIN#Bacterial thiol-activated pore-forming cytolysin sig...	30	0.002
		>TACYTOLYSIN#Bacterial thiol-activated pore-forming cytolysin
		           signature.
		          Length = 574
		
		 Score = 30.3 bits (68), Expect = 0.002
		 Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 12/53 (22%)
		
		Query: 77  WFFTWKD------TGIQ-PGTAFVSSVVAGICFGVLMAAYHWWRKVVN--NLP 120
		           W   W        T I     +    ++A  C G+   A+ WWRKV++  ++ 
		Sbjct: 502 WDNNWYSKTSPFSTVIPLGANSRNIRIMARECTGL---AWEWWRKVIDERDVK 551
		
		
	2348#c2413	SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein s...	25	0.034
		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein
		           signature.
		          Length = 347
		
		 Score = 25.1 bits (55), Expect = 0.034
		 Identities = 8/25 (32%), Positives = 14/25 (56%)
		
		Query: 35  SVVNERREEYYQEIGEKKAHKLKMK 59
		           +++N  R  Y   IGE  A ++K +
		Sbjct: 197 AIINYVRRNYGSLIGEATAERIKHE 221
		
		
	2359#c2424	ISCHRISMTASE#Isochorismatase signature.	52	1e-08
		>ISCHRISMTASE#Isochorismatase signature.
		          Length = 312
		
		 Score = 51.6 bits (123), Expect = 1e-08
		 Identities = 22/70 (31%), Positives = 44/70 (62%)
		
		Query: 28  QQLRERLIQELNLTPQQLHEESNLIQAGLDSIRLMRWLHWFRKNGYRLTLRELYAAPTLA 87
		           + +R+++ + L  TP+ + ++ +L+  GLDS+R+M  +  +R+ G  +T  EL   PT+ 
		Sbjct: 233 ENIRKQIAELLQETPEDITDQEDLLDRGLDSVRIMTLVEQWRREGAEVTFVELAERPTIE 292
		
		Query: 88  AWNQLMLSRS 97
		            W +L+ +RS
		Sbjct: 293 EWQKLLTTRS 302
		
		
	2372#c2437	INTIMIN#Intimin signature.	75	2e-17
		>INTIMIN#Intimin signature.
		          Length = 939
		
		 Score = 75.5 bits (185), Expect = 2e-17
		 Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
		
		Query: 181 QQIASTSQLIGSLLAEDMNSEQAANIARGWASSQASGVMTDWLSRFGTARITLGVDEDFS 240
		           QQ AS    + S     +N + A + A G A +QAS  +  WL  +GTA + L    +F 
		Sbjct: 168 QQAASLGSQLQS---RSLNGDYAKDTALGIAGNQASSQLQAWLQHYGTAEVNLQSGNNFD 224
		
		
	2374#c2439	INTIMIN#Intimin signature.	55	3e-10
		>INTIMIN#Intimin signature.
		          Length = 939
		
		 Score = 55.5 bits (133), Expect = 3e-10
		 Identities = 62/263 (23%), Positives = 91/263 (34%), Gaps = 20/263 (7%)
		
		Query: 175 IAVKAHVNDQFGNPVTHQPATFSAAPSSQMIISQNTVSTNTQGVAEVTMTPERNGSYTVK 234
		           I   A V    G    + P +F+   S   ++S N+ +TN  G A VT+  ++ G   V 
		Sbjct: 578 ITYTATVKKN-GVAQANVPVSFNIV-SGTAVLSANSANTNGSGKATVTLKSDKPGQVVVS 635
		
		Query: 235 ASLANGASLEKQLEAI---DEKLTLTSSPLIGVNAPKGATLTATLT---SANGTPVEGQV 288
		           A  A   S       I     K ++T        A        T T        PV  Q 
		Sbjct: 636 AKTAEMTSALNANAVIFVDQTKASITEIKADKTTAVANGQDAITYTVKVMKGDKPVSNQE 695
		
		Query: 289 INFSVTLEGATLSGGKVRTNSSGQAPVVLTSNKVGTYTVTASFHNGVTIQTQTTVKVTGN 348
		           + F+ TL    LS    +T+++G A V LTS   G   V+A   +         V+    
		Sbjct: 696 VTFTTTL--GKLSNSTEKTDTNGYAKVTLTSTTPGKSLVSARVSDVAVDVKAPEVEFFTT 753
		
		Query: 349 PSTAHVASFIADPSTIAATNSDLSTLKATVEDGSGNL-IEGPTVYFALKSGSTTLTSLTA 407
		            +             I  T          ++ G  NL   G    +  +S +  + S   
		Sbjct: 754 LTID------DGNIEIVGTGVKGKLPTVWLQYGQVNLKASGGNGKYTWRSANPAIAS--- 804
		
		Query: 408 VTDQNGIATTSVKGEITGSVTVS 430
		           V   +G  T   KG  T SV  S
		Sbjct: 805 VDASSGQVTLKEKGTTTISVISS 827
		
		
		
		 Score = 52.8 bits (126), Expect = 2e-09
		 Identities = 46/170 (27%), Positives = 65/170 (38%), Gaps = 7/170 (4%)
		
		Query: 271 TLTATLTSANGTPVEGQVINFSVTLEGATLSGGKVRTNSSGQAPVVLTSNKVGTYTVTAS 330
		           T TAT+   NG       ++F++    A LS     TN SG+A V L S+K G   V+A 
		Sbjct: 579 TYTATVKK-NGVAQANVPVSFNIVSGTAVLSANSANTNGSGKATVTLKSDKPGQVVVSAK 637
		
		Query: 331 FHNGV-TIQTQTTVKVTGNPSTAHVASFIADPSTIAATNSDLSTLKATVEDGSGNLIEGP 389
		                  +     + V    + A +    AD +T  A   D  T    V  G    +   
		Sbjct: 638 TAEMTSALNANAVIFVDQ--TKASITEIKADKTTAVANGQDAITYTVKVMKG-DKPVSNQ 694
		
		Query: 390 TVYFALKSGSTTLTSLTAVTDQNGIATTSVKGEITGSVTVSAVTSAGGMQ 439
		            V F    G  + +  T  TD NG A  ++     G   VSA  S   + 
		Sbjct: 695 EVTFTTTLGKLSNS--TEKTDTNGYAKVTLTSTTPGKSLVSARVSDVAVD 742
		
		
		
		 Score = 51.2 bits (122), Expect = 7e-09
		 Identities = 51/233 (21%), Positives = 89/233 (38%), Gaps = 16/233 (6%)
		
		Query: 13  AVTDADGKAKVTLKGTKAGAHTVTASMVGGKS--EQLVVNFTADTLTAQVNLNVTEDNFI 70
		           A T+  GKA VTLK  K G   V+A      S      V F   T  +   +   +   +
		Sbjct: 612 ANTNGSGKATVTLKSDKPGQVVVSAKTAEMTSALNANAVIFVDQTKASITEIKADKTTAV 671
		
		Query: 71  ANNIGMTRLQATVTDGNGNPVEGIKVNFRGTSVTLSSTSVETDDQVFAEILVTSTEVGLK 130
		           AN          V      PV   +V F  T   LS+++ +TD   +A++ +TST  G  
		Sbjct: 672 ANGQDAITYTVKVMK-GDKPVSNQEVTFTTTLGKLSNSTEKTDTNGYAKVTLTSTTPGKS 730
		
		Query: 131 TVSASLADKPTEVISRLLN----AKVDVNSATI----TSQEIPEGQVMVAQDIAVKAHVN 182
		            VSA ++D   +V +  +       +D  +  I       ++P   +   Q     +  N
		Sbjct: 731 LVSARVSDVAVDVKAPEVEFFTTLTIDDGNIEIVGTGVKGKLPTVWLQYGQVNLKASGGN 790
		
		Query: 183 DQFGNPVTHQPATFSAAPSSQMIISQNTVSTNTQGVAEVTMTPERNGSYTVKA 235
		            ++     +       A S Q+ + +   +T +     V  +  +  +YT+  
		Sbjct: 791 GKYTWRSANPAIASVDASSGQVTLKEKGTTTIS-----VISSDNQTATYTIAT 838
		
		
		
		 Score = 40.1 bits (93), Expect = 2e-05
		 Identities = 35/213 (16%), Positives = 63/213 (29%), Gaps = 18/213 (8%)
		
		Query: 4   NFTLSDGDKAVTDADGKAKVTLKGTKAGAHTVTASMVGGKSE--QLVVNFTADTLTAQVN 61
		                      TD +G AKVTL  T  G   V+A +     +     V F         N
		Sbjct: 701 TLGKLSNSTEKTDTNGYAKVTLTSTTPGKSLVSARVSDVAVDVKAPEVEFFTTLTIDDGN 760
		
		Query: 62  LNVTEDNFIANNIGMTRLQATVTDGNGN-PVEGIKVNFRGTSVTLSSTSVETDDQVFAEI 120
		           + +     +   +        +  G  N    G    +   S   +  SV+         
		Sbjct: 761 IEI-----VGTGVKGKLPTVWLQYGQVNLKASGGNGKYTWRSANPAIASVDASSGQ---- 811
		
		Query: 121 LVTSTEVGLKTVSASLADKPTEVISRLLNAKVDVNSATITSQEIPEGQVMVAQDIAVKAH 180
		            VT  E G  T+S   +D  T   +  +     +    ++ +      V   ++      
		Sbjct: 812 -VTLKEKGTTTISVISSDNQT--ATYTIATPNSLIVPNMSKRVTYNDAVNTCKNFGG--- 865
		
		Query: 181 VNDQFGNPVTHQPATFSAAPSSQMIISQNTVST 213
		                 N + +    + AA   +   S  T+ +
		Sbjct: 866 KLPSSQNELENVFKAWGAANKYEYYKSSQTIIS 898
		
		
	2375#c2440	INTIMIN#Intimin signature.	28	0.022
		>INTIMIN#Intimin signature.
		          Length = 939
		
		 Score = 27.7 bits (61), Expect = 0.022
		 Identities = 22/129 (17%), Positives = 46/129 (35%), Gaps = 6/129 (4%)
		
		Query: 11  KISAIDYSQNINGDYKATVTGGGEGIATLIPVLNGVHQAGLSTTIEFISAETRPMTGTVS 70
		           K+S      + NG  K T+T    G + +   ++ V     +  +EF         G + 
		Sbjct: 704 KLSNSTEKTDTNGYAKVTLTSTTPGKSLVSARVSDVAVDVKAPEVEFF-TTLTIDDGNIE 762
		
		Query: 71  VNSANLPTASFPSQGFTGAYYQLNNDNFAPGKTAADYSFSSSASWVGVDATGKVTFKNDG 130
		           +    +     P+         L     + G     +  ++ A      ++G+VT K  G
		Sbjct: 763 IVGTGV-KGKLPTVWLQYGQVNL---KASGGNGKYTWRSANPAIASVDASSGQVTLKEKG 818
		
		Query: 131 DSNTVIITA 139
		            + T+ + +
		Sbjct: 819 -TTTISVIS 826
		
		
	2378#c2443	TCRTETB#Tetracycline resistance protein TetB signature.	33	0.002
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 33.3 bits (76), Expect = 0.002
		 Identities = 39/259 (15%), Positives = 96/259 (37%), Gaps = 18/259 (6%)
		
		Query: 79  LGGVIFGHFGDRLGRKRMLMLTVWMMGIATALIGILPSFSTIGWWAPILLVTLRAIQGFA 138
		           +G  ++G   D+LG KR+L+  + +    + +  +  SF ++     I+   ++     A
		Sbjct: 64  IGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSL----LIMARFIQGAGAAA 119
		
		Query: 139 VGGEWGGAALLSVESAPKNKK-AFYSSGVQVGYGVGLLLSTGLVSLISMMTTDEQFLSWG 197
		                       +    + K      S V +G GVG  +   +   I             
		Sbjct: 120 FPALVMVVVARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYI------------H 167
		
		Query: 198 WRIPFLFSIVLVLGALWVRNGMEESAEFEQQQHNQAAAKKRIPVIEALLRHPGAFLKIIA 257
		           W    L  ++ ++   ++   +++    +     +      + ++  +L      +  + 
		Sbjct: 168 WSYLLLIPMITIITVPFLMKLLKKEVRIKGHFDIKGIILMSVGIVFFMLFTTSYSISFLI 227
		
		Query: 258 LRLCELLTMYIVTAFALNYSTQNMGLPRELFLNIGLLVGGLSCLTIPCFAWLADRFGRRR 317
		           + +   L +++     +     + GL + +   IG+L GG+   T+  F  +     +  
		Sbjct: 228 VSVLSFL-IFVKHIRKVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDV 286
		
		Query: 318 VYITGALIGTLSAFPFFMA 336
		             ++ A IG++  FP  M+
		Sbjct: 287 HQLSTAEIGSVIIFPGTMS 305
		
		
	2387#c2452	BICOMPNTOXIN#Staphylococcal bi-component toxin signature.	33	0.002
		>BICOMPNTOXIN#Staphylococcal bi-component toxin signature.
		          Length = 315
		
		 Score = 33.3 bits (76), Expect = 0.002
		 Identities = 6/41 (14%), Positives = 16/41 (39%)
		
		Query: 303 LAADNRILYASGWFIDQNQGPYISHGGQNPNFSSCIALRPD 343
		           +           +F+  ++ P +   G NP+F + ++    
		Sbjct: 210 VGYKPHSKDPRDYFVPDSELPPLVQSGFNPSFIATVSHEKG 250
		
		
	2390#c2455	ISCHRISMTASE#Isochorismatase signature.	42	6e-06
		>ISCHRISMTASE#Isochorismatase signature.
		          Length = 312
		
		 Score = 42.3 bits (99), Expect = 6e-06
		 Identities = 20/87 (22%), Positives = 40/87 (45%), Gaps = 3/87 (3%)
		
		Query: 956  DVRQMVATVRNTAPASGSER-LGDAAIRHSVRVCVEGALEQTEFDDNENLYVLGLDSIKS 1014
		             ++   A V+ T+  +G +       IR  +   ++   E  +  D E+L   GLDS++ 
		Sbjct: 209  QLQNAPADVQKTSANTGKKNVFTCENIRKQIAELLQETPE--DITDQEDLLDRGLDSVRI 266
		
		Query: 1015 IQIAAQLRHHGWTMSAVQVMECGTVNA 1041
		            + +  Q R  G  ++ V++ E  T+  
		Sbjct: 267  MTLVEQWRREGAEVTFVELAERPTIEE 293
		
		
	2404#c2469	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	51	1e-08
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score = 51.2 bits (122), Expect = 1e-08
		 Identities = 32/167 (19%), Positives = 58/167 (34%), Gaps = 7/167 (4%)
		
		Query: 334 IPGNVLWIIGGEKGIGRMIGEALAQREGVRVVLSSRTGYHHEAVQQDAL------DVIHC 387
		           I G + +I G  +GIG  +   LA  +G  +          E V           +    
		Sbjct: 6   IEGKIAFITGAAQGIGEAVARTLAS-QGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPA 64
		
		Query: 388 DVTQAEAVRACLATLLERYGRLDGVIFAADATTTLTLHQLSESALRDTLTVKERGTANVL 447
		           DV  + A+    A +    G +D ++  A       +H LS+     T +V   G  N  
		Sbjct: 65  DVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNAS 124
		
		Query: 448 HALAQRNLLDERLLLLFCNSLAAVNAEIGQTGYATASAYLDALAQQL 494
		            ++++  +      ++   S  A         YA++ A      + L
		Sbjct: 125 RSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCL 171
		
		
	2422#c2489	FLGPRINGFLGI#Flagellar P-ring protein signature.	27	0.043
		>FLGPRINGFLGI#Flagellar P-ring protein signature.
		          Length = 373
		
		 Score = 26.8 bits (59), Expect = 0.043
		 Identities = 12/30 (40%), Positives = 19/30 (63%)
		
		Query: 1   MIIDESAGEVVIGANTRICHGAVIQGPVVI 30
		           ++I+E  G +VIGA+ RI   AV  G + +
		Sbjct: 263 VVINERTGTIVIGADVRISRVAVSYGTLTV 292
		
		
	2440#c2509	HTHFIS#FIS bacterial regulatory protein HTH signature.	28	0.034
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 28.3 bits (63), Expect = 0.034
		 Identities = 8/39 (20%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
		
		Query: 84  NGAQFRQLCETTDWVDAGE-NVLLFGASGLGKSHLAAAI 121
		             A  +++      +   +  +++ G SG GK  +A A+
		Sbjct: 142 RSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180
		
		
c2520	c2529	Y	N	N	c2503	c2544
	c2520	3	22	-0.185722	Conserved hypothetical protein
	c2521	2	22	0.492490	Hypothetical protein
	c2522	3	21	0.730938	Conserved hypothetical protein
	c2523	3	23	0.749347	Conserved hypothetical protein
	c2524	4	23	0.730478	Hypothetical protein
	c2525	6	25	2.436486	Hypothetical protein
	c2526	9	27	4.536505	Hypothetical protein yafZ
	c2527	8	27	4.084904	Hypothetical protein yafX
	c2528	7	26	3.825502	Hypothetical protein
	c2529	4	26	2.104363	Putative radC-like protein yeeS
c2545	c2575	Y	Y	N	c2530	c2568
	c2545	-1	22	3.391545	Hypothetical protein yefM
	c5496	-1	24	3.973494	His operon leader peptide
	c2546	-1	24	4.149324	ATP phosphoribosyltransferase
	c2547	-1	24	3.957261	Histidinol dehydrogenase
	c2548	-1	27	3.063333	Histidinol-phosphate aminotransferase
	c2549	-2	19	1.066613	Histidine biosynthesis bifunctional protein
	c2550	-2	18	-1.205052	Imidazole glycerol phosphate synthase subunit
	c2551	-2	17	-1.773401	1-(5-phosphoribosyl)-5-[(5-
	c2552	-2	16	-1.372898	Imidazole glycerol phosphate synthase subunit
	c2553	-2	15	-4.143884	Histidine biosynthesis bifunctional protein
	c2554	-1	22	-7.280773	Chain length determinant protein
	c2555	1	25	-8.641676	UDP-glucose 6-dehydrogenase
	c2556	2	32	-11.081984	6-phosphogluconate dehydrogenase,
	c2557	3	41	-14.055875	Phosphomannomutase
	c2558	7	56	-18.444831	Mannose-1-phosphate guanylyltransferase
	c2559	7	58	-19.968757	Hypothetical protein
	c2560	8	58	-19.754173	UDP-glucose 4-epimerase
	c2561	7	60	-20.503529	Hypothetical protein
	c2562	5	49	-16.609147	Glycosyl transferase
	c2563	3	39	-13.607491	Glycosyl transferase
	c2564	2	28	-9.514449	Hypothetical protein
	c2565	-1	19	-4.566720	Hypothetical protein
	c2566	-1	15	-2.827834	Hypothetical protein
	c2567	-1	19	1.001606	UTP--glucose-1-phosphate uridylyltransferase
	c2568	-1	22	1.553962	Colanic acid biosynthesis protein wcaM
	c2569	0	25	2.853512	Putative colanic acid biosynthesis glycosyl
	c2570	0	25	3.116230	Colanic acid biosynthesis protein wcaK
	c2571	0	25	3.384300	Lipopolysaccharide biosynthesis protein wzxC
	c2572	0	23	3.605627	Putative colanic biosynthesis UDP-glucose lipid
	c2573	0	24	3.973515	Phosphomannomutase
	c2574	-1	24	3.907212	Hypothetical protein
	c2575	-1	22	3.307768	Mannose-1-phosphate guanylyltransferase
	2491#c2560	NUCEPIMERASE#Nucleotide sugar epimerase signature.	174	3e-54
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score =  174 bits (444), Expect = 3e-54
		 Identities = 74/351 (21%), Positives = 143/351 (40%), Gaps = 40/351 (11%)
		
		Query: 1   MNILVTGGAGYIGSHTAIELLNAGHEIIVLDNFSNASYKCIEK---IKEITRRDFITITG 57
		           M  LVTG AG+IG H +  LL AGH+++ +DN  N  Y    K   ++ + +  F     
		Sbjct: 1   MKYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNL-NDYYDVSLKQARLELLAQPGFQFHKI 59
		
		Query: 58  DAGCRKTLSAIFEKHAIDIVIHFAGFKSVSESKSEPLKYYQNNVGVTITLLQVMEEYRIK 117
		           D   R+ ++ +F     + V       +V  S   P  Y  +N+   + +L+     +I+
		Sbjct: 60  DLADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ 119
		
		Query: 118 KFIFSSSATVYGEPEIIPIPETAKIGGTTNPYGTSKYFVEKILEDVSSTGKLDIICLRYF 177
		             +++SS++VYG    +P      +    + Y  +K   E +    S    L    LR+F
		Sbjct: 120 HLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRFF 179
		
		Query: 178 NPVGAHSSGKIGEAPSGIPNNLVPYLL--DVASGKRDKLFIYGNDYPTNDGTGVRDFIHV 235
		              G          P G P ++  +     +  GK   ++        N G   RDF ++
		Sbjct: 180 TVYG----------PWGRP-DMALFKFTKAMLEGKSIDVY--------NYGKMKRDFTYI 220
		
		Query: 236 VDLAKGHLAAMNYL---------------SINSGYNIFNLGTGKGYSVLELITTFEKLTN 280
		            D+A+  +   + +               +  + Y ++N+G      +++ I   E    
		Sbjct: 221 DDIAEAIIRLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALG 280
		
		Query: 281 IKVNKSFIERRAGDVASCWADADKANSLLDWQAEQTLEQMLLDSWRWKKNY 331
		           I+  K+ +  + GDV    AD      ++ +  E T++  + +   W +++
		Sbjct: 281 IEAKKNMLPLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYRDF 331
		
		
c2597	c2636	Y	Y	N	c2582	c2621
	c2597	-3	12	3.088008	Hypothetical protein yegI
	c2598	-3	16	3.805905	Hypothetical protein yegK
	c2599	-3	16	3.811782	Hypothetical protein yegL
	c2600	-2	17	3.894588	Hypothetical protein yegM precursor
	c2601	-2	18	3.860459	Hypothetical protein yegN
	c2602	-2	15	2.620287	Hypothetical protein yegO
	c2603	-2	13	-2.841182	Hypothetical transport protein yegB
	c2604	-1	21	-5.561590	Sensor protein baeS
	c2605	-1	31	-9.057045	Transcriptional Regulatory protein baeR
	c2606	-1	24	-7.804890	Hypothetical protein yegP
	c2607	-1	26	-8.031105	Hypothetical protein
	c2608	0	28	-8.449365	Hypothetical protein
	c2609	-2	21	-6.008158	Hypothetical protein
	c2610	-1	18	-5.090005	Hypothetical protein
	c2611	1	12	-2.091330	Putative protease yegQ
	c2612	3	19	-2.949777	Hypothetical protein
	c2613	3	20	-3.060642	Hypothetical protein yegR
	c2614	3	20	-2.956668	Hypothetical protein yegS
	c2615	3	20	-2.972274	Hypothetical protein
	c2616	2	20	-2.101714	Galactitol-1-phosphate 5-dehydrogenase
	c2617	1	18	-2.446181	PTS system, galactitol-specific IIC component
	c2618	-1	16	-2.533859	PTS system, galactitol-specific IIB component
	c2619	-1	17	-2.478350	PTS system, galactitol-specific IIA component
	c2620	-1	11	-1.523682	Putative tagatose 6-phosphate kinase gatZ
	c2621	-1	13	-0.251826	Tagatose-bisphosphate aldolase gatY
	c2622	0	12	0.608964	Transposase
	c2623	1	13	1.173991	Fructose-bisphosphate aldolase class I
	c2624	2	14	0.512375	Hypothetical protein
	c2625	1	13	1.233571	Putative nucleoside transporter yegT
	c2626	1	15	2.135492	Hypothetical protein yegU
	c2627	-1	16	1.540504	Hypothetical sugar kinase yegV
	c2628	-1	15	0.476233	Hypothetical transcriptional regulator yegW
	c2629	-2	16	-0.285801	Hypothetical protein yegX
	c2630	2	21	-2.590914	Phosphomethylpyrimidine kinase
	c2631	2	24	-4.883682	Hydroxyethylthiazole kinase
	c2632	2	25	-6.961380	Hypothetical protein yohL
	c2633	2	26	-7.387338	Hypothetical protein yohM
	c2634	2	29	-8.294155	Hypothetical protein yohN precursor
	c2635	2	30	-8.580494	Hypothetical protein yehA precursor
	c2636	0	22	-5.692583	Hypothetical outer membrane usher protein yehB
	2531#c2600	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	52	4e-09
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 51.8 bits (124), Expect = 4e-09
		 Identities = 48/369 (13%), Positives = 106/369 (28%), Gaps = 87/369 (23%)
		
		Query: 53  SYKSRWVIVIVVVIAAIAAFWFWQGRNDSQSAAPG-----ATKQAQQSPAGG-------R 100
		           S + R V   ++    IA      G+ +  + A G        +  +            +
		Sbjct: 54  SRRPRLVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVK 113
		
		Query: 101 RGMRA---DPLA---PVQAATAVEQAVPRYLTGLGTITAANTVTVRSRVDG--QLMALHF 152
		            G      D L     + A     +     L      T    ++    ++   +L     
		Sbjct: 114 EGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDE 173
		
		Query: 153 QEGQQVKAGDLLAEI------------DPSQFKVALAQAQGQLA-------KDKATLANA 193
		              Q V   ++L                  Q ++ L + + +         + +      
		Sbjct: 174 PYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVE 233
		
		Query: 194 RRDLARYQQLAKTNLVSRQELDAQQALVSETEGTIKADEASVA----------------- 236
		           +  L  +  L     +++  +  Q+    E    ++  ++ +                  
		Sbjct: 234 KSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVT 293
		
		Query: 237 --------------------------SAQLQLDWSRITAPVDGRV-GLKQVDVGNQISSG 269
		                                       + +   S I APV  +V  LK    G  +++ 
		Sbjct: 294 QLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTA 353
		
		Query: 270 DTTGIVVITQTHPIDLVFTLPESDIATVVQAQKAGKPLVVEAWDRTNSKKL-SEGTLLSL 328
		           +T  +V++ +   +++   +   DI  +   Q A   + VEA+  T    L  +   ++L
		Sbjct: 354 ETL-MVIVPEDDTLEVTALVQNKDIGFINVGQNA--IIKVEAFPYTRYGYLVGKVKNINL 410
		
		Query: 329 DNQIDATTG 337
		           D   D   G
		Sbjct: 411 DAIEDQRLG 419
		
		
	2532#c2601	ACRIFLAVINRP#Acriflavin resistance protein family signature.	920	0.0
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score =  920 bits (2379), Expect = 0.0
		 Identities = 300/1036 (28%), Positives = 513/1036 (49%), Gaps = 29/1036 (2%)
		
		Query: 13   SRLFIMRPVATTLLMVAILLAGIIGYRALPVSALPEVDYPTIQVVTLYPGASPDVMTSAV 72
		            +  FI RP+   +L + +++AG +    LPV+  P +  P + V   YPGA    +   V
		Sbjct: 2    ANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTV 61
		
		Query: 73   TAPLERQFGQMSGLKQMSSQS-SGGASVITLQFQLTLPLDVAEQEVQAAINAATNLLPSD 131
		            T  +E+    +  L  MSS S S G+  ITL FQ     D+A+ +VQ  +  AT LLP +
		Sbjct: 62   TQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQE 121
		
		Query: 132  LPNPPVYSKVNPADPPIMTLAVTSTAMPMTQVE--DMVETRVAQKISQISGVGLVTLSGG 189
		            +    + S    +   +M     S     TQ +  D V + V   +S+++GVG V L G 
		Sbjct: 122  VQQQGI-SVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA 180
		
		Query: 190  QRPAVRVKLNAQAIAALGLTSETVRTAITGANVNSAKGSLDGP------SRAVTLSANDQ 243
		            Q  A+R+ L+A  +    LT   V   +   N   A G L G           ++ A  +
		Sbjct: 181  QY-AMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 239
		
		Query: 244  MQSAEEYRQLII-AYQNGAPIRLGDVATVEQGAENSWLGAWANKEQAIVMNVQRQPGANI 302
		             ++ EE+ ++ +    +G+ +RL DVA VE G EN  + A  N + A  + ++   GAN 
		Sbjct: 240  FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANA 299
		
		Query: 303  ISTADSIRQMLPQLTESLPKSVKVTVLSDRTTNIRASVDDTQFELMMAIALVVMIIYLFL 362
		            + TA +I+  L +L    P+ +KV    D T  ++ S+ +    L  AI LV +++YLFL
		Sbjct: 300  LDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFL 359
		
		Query: 363  RNIPATIIPGVAVPLSLIGTFAVMVFLDFSINNLTLMALTIATGFVVDDAIVVIENISRY 422
		            +N+ AT+IP +AVP+ L+GTFA++    +SIN LT+  + +A G +VDDAIVV+EN+ R 
		Sbjct: 360  QNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERV 419
		
		Query: 423  I-EKGEKPLAAALKGAGEIGFTIISLTFSLIAVLIPLLFMGDIVGRLFREFAITLAVAIL 481
		            + E    P  A  K   +I   ++ +   L AV IP+ F G   G ++R+F+IT+  A+ 
		Sbjct: 420  MMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMA 479
		
		Query: 482  ISAVVSLTLTPMMCARML---SQESLRKQNRFSRASEKMFDRIIAAYGRGLAKVLNHPWL 538
		            +S +V+L LTP +CA +L   S E    +  F       FD  +  Y   + K+L     
		Sbjct: 480  LSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGR 539
		
		Query: 539  TLSVALSTLLLSVLLWVFIPKGFFPVQDNGIIQGTLQAPQSSSFANMAQRQRQVADVILQ 598
		             L +    +   V+L++ +P  F P +D G+    +Q P  ++     +   QV D  L+
		Sbjct: 540  YLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLK 599
		
		Query: 599  DPA--VQSLTSFVGVDGTNPSLNSARLQINLKPLDERDDR---VQKVIARLQTAVDKVPG 653
		            +    V+S+ +  G   +  + N+    ++LKP +ER+      + VI R +  + K+  
		Sbjct: 600  NEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIR- 658
		
		Query: 654  VDLFLQPTQDLTIDTQVSRTQYQFTLQ---ATSLDALSTWVPQLMEKLQQLP-QLSDVSS 709
		             D F+ P     I    + T + F L        DAL+    QL+    Q P  L  V  
		Sbjct: 659  -DGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRP 717
		
		Query: 710  DWQDKGLVAYVNVDRDSASRLGISMADVDNALYNAFGQRLISTIYTQANQYRVVLEHNTE 769
		            +  +      + VD++ A  LG+S++D++  +  A G   ++    +    ++ ++ + +
		Sbjct: 718  NGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAK 777
		
		Query: 770  NTPGLAALDTIRLTSSDGGVVPLSSIAKIEQRFAPLSINHLDQFPVTTISFNVPDNYSLG 829
		                   +D + + S++G +VP S+       +    +   +  P   I        S G
		Sbjct: 778  FRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSG 837
		
		Query: 830  DAVQAIMDTEKTLNLPVDITTQFQGSTLAFQSALGSTVWLIVAAVVAMYIVLGILYESFI 889
		            DA  A+M+   +  LP  I   + G +   + +      L+  + V +++ L  LYES+ 
		Sbjct: 838  DA-MALMENLAS-KLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWS 895
		
		Query: 890  HPITILSTLPTAGVGALLALMIAGSELDVIAIIGIILLIGIVKKNAIMMIDFALAAEREQ 949
		             P++++  +P   VG LLA  +   + DV  ++G++  IG+  KNAI++++FA     ++
		Sbjct: 896  IPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKE 955
		
		Query: 950  GMSPREAIYQACLLRFRPILMTTLAALLGALPLMLSTGVGAELRRPLGIGMVGGLIVSQV 1009
		            G    EA   A  +R RPILMT+LA +LG LPL +S G G+  +  +GIG++GG++ + +
		Sbjct: 956  GKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATL 1015
		
		Query: 1010 LTLFTTPVIYLLFDRL 1025
		            L +F  PV +++  R 
		Sbjct: 1016 LAIFFVPVFFVVIRRC 1031
		
		
	2533#c2602	ACRIFLAVINRP#Acriflavin resistance protein family signature.	915	0.0
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score =  915 bits (2367), Expect = 0.0
		 Identities = 288/1035 (27%), Positives = 503/1035 (48%), Gaps = 36/1035 (3%)
		
		Query: 6    LFIYRPVATILLSVAITLCGILGFRMLPVAPLPQVDFPVIMVSASLPGASPETMASSVAT 65
		             FI RP+   +L++ + + G L    LPVA  P +  P + VSA+ PGA  +T+  +V  
		Sbjct: 4    FFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTVTQ 63
		
		Query: 66   PLERSLGRIAGVSEMTSSS-SLGSTRIILQFDFDRDINGAARDVQAAINAAQSLLPSGMP 124
		             +E+++  I  +  M+S+S S GS  I L F    D + A   VQ  +  A  LLP  + 
		Sbjct: 64   VIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQEVQ 123
		
		Query: 125  SRPTYRKANPSDAPIMILTLTSDT--YSQGELYDFASTQLAPTISQIDGVGDVDVGGSSL 182
		             +        S + +M+    SD    +Q ++ D+ ++ +  T+S+++GVGDV + G+  
		Sbjct: 124  -QQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGAQY 182
		
		Query: 183  PAVRVGLNPQALFNQGVSLDDVRTAISNANVRKPQG------ALEDGTHRWQIQTNDELK 236
		             A+R+ L+   L    ++  DV   +   N +   G      AL        I      K
		Sbjct: 183  -AMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRFK 241
		
		Query: 237  TAAEYQPLIIHYN-NGGAVRLGDVATVTDSVQDVRNAGMTNAKPAILLMIRKLPEANIIQ 295
		               E+  + +  N +G  VRL DVA V    ++       N KPA  L I+    AN + 
		Sbjct: 242  NPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANALD 301
		
		Query: 296  TVDSIRARLPELQSTIPAAIDLQIAQDRSPTIRASLEEVEQTLIISVALVILVVFLFLRS 355
		            T  +I+A+L ELQ   P  + +    D +P ++ S+ EV +TL  ++ LV LV++LFL++
		Sbjct: 302  TAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQN 361
		
		Query: 356  GRATIIPAVAVPVSLIGTFAAMYLCGFSLNNLSLMALTIATGFVVDDAIVVLENIARHL- 414
		             RAT+IP +AVPV L+GTFA +   G+S+N L++  + +A G +VDDAIVV+EN+ R + 
		Sbjct: 362  MRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVMM 421
		
		Query: 415  EAGMKPLQAALQGTREVGFTVLSMSLSLVAVFLPLLLMGGLPGRLLREFAVTLSVAIGIS 474
		            E  + P +A  +   ++   ++ +++ L AVF+P+   GG  G + R+F++T+  A+ +S
		Sbjct: 422  EDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALS 481
		
		Query: 475  LLVSLTLTPMMCGWMLKASKPREQKRLRGFG----RMLVALQQGYGKSLKWVLNHTRLVG 530
		            +LV+L LTP +C  +LK       +   GF              Y  S+  +L  T    
		Sbjct: 482  VLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGRYL 541
		
		Query: 531  AVLLGTIALNIWLYISIPKTFFPEQDTGVLMGGIQADQSISFQ----AMRGKLQDFMKII 586
		             +    +A  + L++ +P +F PE+D GV +  IQ     + +     +      ++K  
		Sbjct: 542  LIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLKNE 601
		
		Query: 587  RD-DPAVDNVTGFT-GGSRVNSGMMFITLKPRGERS---ETAQQIIDRLRKKLAKEPGAN 641
		            +    +V  V GF+  G   N+GM F++LKP  ER+    +A+ +I R + +L K     
		Sbjct: 602  KANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIRDGF 661
		
		Query: 642  LFLMAVQDIRVGGRQANASYQYTLLSDDLAALREWEPKIRKKLATL-----PELADVNSD 696
		            +    +  I   G      ++   L D      +   + R +L  +       L  V  +
		Sbjct: 662  VIPFNMPAIVELGTATGFDFE---LIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPN 718
		
		Query: 697  QEDNGAEMNLIYDRDTMARLGIDVQAANSLLNNAFGQRQISTIYQPMNQYKVVMEVDPRY 756
		              ++ A+  L  D++    LG+ +   N  ++ A G   ++         K+ ++ D ++
		Sbjct: 719  GLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKF 778
		
		Query: 757  TQDISALEKMFVINNEGKAIPLSYFAKWQPANAPLSVNHQGLSAASTISFNLPTGKSLSD 816
		                  ++K++V +  G+ +P S F           +       +  I      G S  D
		Sbjct: 779  RMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGD 838
		
		Query: 817  ASAAIDRAMTQLGVPSTVRGSFAGTAQVFQETMNSQVILIIAAIATVYIVLGILYESYVH 876
		            A A ++   ++L  P+ +   + G +   + + N    L+  +   V++ L  LYES+  
		Sbjct: 839  AMALMENLASKL--PAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSI 896
		
		Query: 877  PLTILSTLPSAGVGALLALELFNAPFSLIALIGIMLLIGIVKKNAIMMVDFALEAQRHGN 936
		            P++++  +P   VG LLA  LFN    +  ++G++  IG+  KNAI++V+FA +      
		Sbjct: 897  PVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEG 956
		
		Query: 937  LTPQEAIFQACLLRFRPIMMTTLAALFGALPLVLSGGDGSELRQPLGITIVGGLVMSQLL 996
		                EA   A  +R RPI+MT+LA + G LPL +S G GS  +  +GI ++GG+V + LL
		Sbjct: 957  KGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLL 1016
		
		Query: 997  TLYTTPVVYLFFDRL 1011
		             ++  PV ++   R 
		Sbjct: 1017 AIFFVPVFFVVIRRC 1031
		
		
		
		 Score = 80.7 bits (199), Expect = 2e-17
		 Identities = 76/448 (16%), Positives = 161/448 (35%), Gaps = 26/448 (5%)
		
		Query: 592  VDNVTGFTGGS-RVNSGMMFITLKPRGERSETAQQIIDRLRKKLAKEPGANLFLMAVQDI 650
		            +DN+   +  S    S  + +T +   +      Q+ ++L+      P      +  Q I
		Sbjct: 72   IDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQE----VQQQGI 127
		
		Query: 651  RVGGRQANASYQYTLLSDDLAALREW-----EPKIRKKLATLPELADVNSDQEDNGAE-- 703
		             V    ++       +SD+    ++         ++  L+ L  + DV       GA+  
		Sbjct: 128  SVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQL----FGAQYA 183
		
		Query: 704  MNLIYDRDTMARLGID----VQAANSLLNNAFGQRQISTIYQPMNQYKVVMEVDPRYTQD 759
		            M +  D D + +  +     +       +     +   T   P  Q    +    R+   
		Sbjct: 184  MRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRFKNP 243
		
		Query: 760  ISALEKMFVINNEGKAIPLSYFAK--WQPANAPLSVNHQGLSAASTISFNLPTGKSLSDA 817
		                +    +N++G  + L   A+      N  +     G  AA           +L D 
		Sbjct: 244  EEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANAL-DT 302
		
		Query: 818  SAAIDRAMTQL--GVPSTVRGSFA-GTAQVFQETMNSQVILIIAAIATVYIVLGILYESY 874
		            + AI   + +L    P  ++  +   T    Q +++  V  +  AI  V++V+ +  ++ 
		Sbjct: 303  AKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQNM 362
		
		Query: 875  VHPLTILSTLPSAGVGALLALELFNAPFSLIALIGIMLLIGIVKKNAIMMVDFALEAQRH 934
		               L     +P   +G    L  F    + + + G++L IG++  +AI++V+        
		Sbjct: 363  RATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVMME 422
		
		Query: 935  GNLTPQEAIFQACLLRFRPIMMTTLAALFGALPLVLSGGDGSELRQPLGITIVGGLVMSQ 994
		              L P+EA  ++       ++   +      +P+   GG    + +   ITIV  + +S 
		Sbjct: 423  DKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALSV 482
		
		Query: 995  LLTLYTTPVVYLFFDRLRLRFSRKPKQA 1022
		            L+ L  TP +     +       + K  
		Sbjct: 483  LVALILTPALCATLLKPVSAEHHENKGG 510
		
		
	2534#c2603	TCRTETB#Tetracycline resistance protein TetB signature.	126	9e-34
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score =  126 bits (317), Expect = 9e-34
		 Identities = 98/435 (22%), Positives = 191/435 (43%), Gaps = 25/435 (5%)
		
		Query: 20  FMQSLDTTIVNTALPSMAQSLGESPLHMHMVIVSYVLTVAVMLPASGWLADKVGVRNIFF 79
		           F   L+  ++N +LP +A    + P   + V  +++LT ++     G L+D++G++ +  
		Sbjct: 24  FFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLL 83
		
		Query: 80  TAIVLFTLGSLFCALSGTLNELL-LARALQGVGGAMMVPVGRLTVMKIVPREQYMAAMTF 138
		             I++   GS+   +  +   LL +AR +QG G A    +  + V + +P+E    A   
		Sbjct: 84  FGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKENRGKAFGL 143
		
		Query: 139 VTLPGQIGPLLGPALGGLLVEYASWHWIFLINIPVGIIGAITTLM-LMPNYTMQTRRFDL 197
		           +     +G  +GPA+GG++  Y   HW +L+ IP+  I  +  LM L+         FD+
		Sbjct: 144 IGSIVAMGEGVGPAIGGMIAHY--IHWSYLLLIPMITIITVPFLMKLLKKEVRIKGHFDI 201
		
		Query: 198 SGFLLLAVGMAVLTLALDGSKGTGFSPLAIAGLVAVGVVALVLYLLHAQNNNRALFSLKL 257
		            G +L++VG+    L         F+       + V V++ ++++ H +          L
		Sbjct: 202 KGIILMSVGIVFFML---------FTTSYSISFLIVSVLSFLIFVKHIRKVTDPFVDPGL 252
		
		Query: 258 FRTRTFSLGLAGSFAGRIGSGMLPFMTPVFLQIGFGFSPFHAG-LMMIPMVLGSMGMKRI 316
		            +   F +G+               M P  ++     S    G +++ P  +  +    I
		Sbjct: 253 GKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTMSVIIFGYI 312
		
		Query: 317 VVQVVNRFGYRRVLVATTLGLSLVTLLFMTTALL----GWYYVLPFVLFLQGMVNSTRFS 372
		              +V+R G   VL    +G++ +++ F+T + L     W+  +  V  L G+  S   +
		Sbjct: 313 GGILVDRRGPLYVL---NIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLGGL--SFTKT 367
		
		Query: 373 SMNTLTLKDLPDNLASSGNSLLSMIMQLSMSIGVTIAGLLLGLFGSQHVSVDSGTTQTVF 432
		            ++T+    L    A +G SLL+    LS   G+ I G LL +       +     Q+ +
		Sbjct: 368 VISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAIVGGLLSIPLLDQRLLPMEVDQSTY 427
		
		Query: 433 MYT--WLSMASIIAL 445
		           +Y+   L  + II +
		Sbjct: 428 LYSNLLLLFSGIIVI 442
		
		
	2535#c2604	BCTERIALGSPF#Bacterial general secretion pathway protein F signa...	34	0.001
		>BCTERIALGSPF#Bacterial general secretion pathway protein F
		           signature.
		          Length = 408
		
		 Score = 34.0 bits (78), Expect = 0.001
		 Identities = 28/95 (29%), Positives = 36/95 (37%), Gaps = 20/95 (21%)
		
		Query: 164 RQTSWLIVALSTLLAALATF------PLARGLLAPVKRLVDGTHKLAAGDFTTRVAPTSE 217
		           RQ + L+ A   L  AL         P    L+A V+  V   H LA      +  P S 
		Sbjct: 75  RQLATLVAASMPLEEALDAVAKQSEKPHLSQLMAAVRSKVMEGHSLAD---AMKCFPGSF 131
		
		Query: 218 DEL-----------GRLAEDFNQLASTLEKNQQMR 241
		           + L           G L    N+LA   E+ QQMR
		Sbjct: 132 ERLYCAMVAAGETSGHLDAVLNRLADYTEQRQQMR 166
		
		
	2536#c2605	HTHFIS#FIS bacterial regulatory protein HTH signature.	76	6e-18
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 75.6 bits (186), Expect = 6e-18
		 Identities = 28/136 (20%), Positives = 65/136 (47%), Gaps = 1/136 (0%)
		
		Query: 11  PRILIVEDEPKLGQLLIDYLRAASYAPTLISHGDQVLPYVRQTPPDLILLDLMLPGTDGL 70
		             IL+ +D+  +  +L   L  A Y   + S+   +  ++     DL++ D+++P  +  
		Sbjct: 4   ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63
		
		Query: 71  TLCREIR-RFSDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILRRCK 129
		            L   I+    D+P+++++A+   +  +   E GA DY+ KP+   E++  +   L   K
		Sbjct: 64  DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123
		
		Query: 130 PQRELQQQDAESPLII 145
		            +    + D++  + +
		Sbjct: 124 RRPSKLEDDSQDGMPL 139
		
		
	2544#c2613	LIPOLPP20#LPP20 lipoprotein precursor signature.	25	0.046
		>LIPOLPP20#LPP20 lipoprotein precursor signature.
		          Length = 175
		
		 Score = 25.5 bits (55), Expect = 0.046
		 Identities = 13/38 (34%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
		
		Query: 3  EGKVKKIAAISLISVFLMSGCAVHNDETSIGKFGLAYK 40
		          + +VKKI  +S+++  ++ GC+ H  ++ I K   AYK
		Sbjct: 2  KNQVKKILGMSVVAAMVIVGCS-HAPKSGISKSNKAYK 38
		
		
	2547#c2616	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	33	0.001
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score = 33.5 bits (76), Expect = 0.001
		 Identities = 22/92 (23%), Positives = 35/92 (38%), Gaps = 2/92 (2%)
		
		Query: 156 AQGCENKNVIIIGAGT-IGLLAIQCAVALGAKSVTAIDISSEKLALAKSFGAMQTFNSRE 214
		           A+G E K   I GA   IG    +   + GA  + A+D + EKL    S    +  ++  
		Sbjct: 3   AKGIEGKIAFITGAAQGIGEAVARTLASQGAH-IAAVDYNPEKLEKVVSSLKAEARHAEA 61
		
		Query: 215 MSAPQIQGVLRDLRFNQLILETAGVPQTVELA 246
		             A        D    ++  E   +   V +A
		Sbjct: 62  FPADVRDSAAIDEITARIEREMGPIDILVNVA 93
		
		
	2556#c2625	TCRTETA#Tetracycline resistance protein signature.	35	6e-04
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 34.8 bits (80), Expect = 6e-04
		 Identities = 53/268 (19%), Positives = 89/268 (33%), Gaps = 17/268 (6%)
		
		Query: 29  LSKSGFSAGEIGWSYACTAIAAILSPILVGSITDRFFSAQKVLAVLMFAGAVLMYFAAQQ 88
		           L  S       G   A  A+       ++G+++DRF   ++ + ++  AGA + Y     
		Sbjct: 35  LVHSNDVTAHYGILLALYALMQFACAPVLGALSDRF--GRRPVLLVSLAGAAVDYAI--- 89
		
		Query: 89  TTFAGFFPLLLAYSLTYMPTIALTNSIAFANVPDVERDFPRIRVMGTIG-WIASGLACGF 147
		              A F  +L    +    T A T ++A A + D+     R R  G +      G+  G 
		Sbjct: 90  MATAPFLWVLYIGRIVAGITGA-TGAVAGAYIADITDGDERARHFGFMSACFGFGMVAG- 147
		
		Query: 148 LPQMLGY-ADISPTNIPLLITAGSSALLGVFAFFLPDTPPKSTGKMDIKVMLGLDALILL 206
		            P + G     SP + P    A  + L  +   FL     K   +   +  L   A    
		Sbjct: 148 -PVLGGLMGGFSP-HAPFFAAAALNGLNFLTGCFLLPESHKGERRPLRREALNPLASFRW 205
		
		Query: 207 RDKD------FLVFFFCSFLFAMPLAFYYIFANGYLTEVGMKNATGWMTLGQFSEIFFML 260
		                       VFF    +  +P A + IF                   G    +   +
		Sbjct: 206 ARGMTVVAALMAVFFIMQLVGQVPAALWVIFGEDRFHWDATTIGISLAAFGILHSLAQAM 265
		
		Query: 261 ALPFFTKRFGIKKVLLLGLVTAAIRYGF 288
		                  R G ++ L+LG++     Y  
		Sbjct: 266 ITGPVAARLGERRALMLGMIADGTGYIL 293
		
		
		
		 Score = 34.0 bits (78), Expect = 0.001
		 Identities = 32/153 (20%), Positives = 53/153 (34%), Gaps = 20/153 (13%)
		
		Query: 253 FSEIFFMLALPFFTKRFGIKKVLLLGLVTAAIRYGFFIYGSADEYFTYALLFLGILLHGV 312
		             +      L   + RFG + VLL+ L  AA+ Y               +L++G ++ G+
		Sbjct: 54  LMQFACAPVLGALSDRFGRRPVLLVSLAGAAVDYAIMATAP-----FLWVLYIGRIVAGI 108
		
		Query: 313 SYDFYYVTAYIYVDKKAPVHMRTAAQGLITLCCQGFGSLLGYRLGGVMMEKMFAYQEPVN 372
		           +     V      D       R    G ++  C GFG + G  LGG+M    F+   P  
		Sbjct: 109 TGATGAVAGAYIAD-ITDGDERARHFGFMS-ACFGFGMVAGPVLGGLMGG--FSPHAP-- 162
		
		Query: 373 GLTFNWAGMWTFGAVMIAIIAVLFMIFFRESDN 405
		                    +   A +  +  +       ES  
		Sbjct: 163 ---------FFAAAALNGLNFLTGCFLLPESHK 186
		
		
		
		 Score = 28.6 bits (64), Expect = 0.048
		 Identities = 22/114 (19%), Positives = 43/114 (37%), Gaps = 4/114 (3%)
		
		Query: 7   LSFMMFVEWFIWGAWFVPLWLWL----SKSGFSAGEIGWSYACTAIAAILSPILVGSITD 62
		           ++ +M V + +     VP  LW+     +  + A  IG S A   I   L+  ++     
		Sbjct: 212 VAALMAVFFIMQLVGQVPAALWVIFGEDRFHWDATTIGISLAAFGILHSLAQAMITGPVA 271
		
		Query: 63  RFFSAQKVLAVLMFAGAVLMYFAAQQTTFAGFFPLLLAYSLTYMPTIALTNSIA 116
		                ++ L + M A        A  T     FP+++  +   +   AL   ++
		Sbjct: 272 ARLGERRALMLGMIADGTGYILLAFATRGWMAFPIMVLLASGGIGMPALQAMLS 325
		
		
	2565#c2634	TYPE3OMGPROT#Type III secretion system outer membrane G protein ...	28	0.024
		>TYPE3OMGPROT#Type III secretion system outer membrane G protein
		           family signature.
		          Length = 607
		
		 Score = 27.9 bits (62), Expect = 0.024
		 Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
		
		Query: 66  KMLLGALLLVTSAAWAAPATAGSTNTSGISKYE-LSSFIADF 106
		           ++L G LLL++S +WA            ++K E L   + DF
		Sbjct: 11  RVLTGTLLLLSSYSWAQELDWLPIPYVYVAKGESLRDLLTDF 52
		
		
	2566#c2635	BINARYTOXINB#Binary toxin B family signature.	29	0.037
		>BINARYTOXINB#Binary toxin B family signature.
		          Length = 764
		
		 Score = 28.9 bits (64), Expect = 0.037
		 Identities = 18/79 (22%), Positives = 34/79 (43%), Gaps = 8/79 (10%)
		
		Query: 93  NITLSNNQ---TSFTSGYSVTVTPAASNAKVNVSAGGGGSVMINGVATLSSA-----SSS 144
		           NI LS N+   T  T   + T++   S ++ + S   G + +      +  +     S+S
		Sbjct: 297 NIILSKNEDQSTQNTDSQTRTISKNTSTSRTHTSEVHGNAEVHASFFDIGGSVSAGFSNS 356
		
		Query: 145 TRGSAAVQFLLCLLGGKSW 163
		              + A+   L L G ++W
		Sbjct: 357 NSSTVAIDHSLSLAGERTW 375
		
		
	2567#c2636	PF00577#Outer membrane usher protein FimD	601	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score =  601 bits (1551), Expect = 0.0
		 Identities = 222/843 (26%), Positives = 361/843 (42%), Gaps = 93/843 (11%)
		
		Query: 7   LRMTPLASAI---VALLIGIEAYAAEETFDTHFMIGGMKDQQVSNIRL--EDNQPLPGPY 61
		            R+      +    A        +AE  F+  F+      Q V+++       +  PG Y
		Sbjct: 21  HRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADD--PQAVADLSRFENGQELPPGTY 78
		
		Query: 62  DIDIYVNKQWRGKYEIIVKDNPQET----CLSREMIKRLGINTDS-----FASGKQCLTF 112
		            +DIY+N  +    ++       E     CL+R  +  +G+NT S       +   C+  
		Sbjct: 79  RVDIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLNTASVSGMNLLADDACVPL 138
		
		Query: 113 KQLIQGGSYTWDIGVFRLDFSVPQAWVEDLESGYVPPENWERGINAFYTSYYVSQYYSDY 172
		             +I   +   D+G  RL+ ++PQA++ +   GY+PPE W+ GINA   +Y  S      
		Sbjct: 139 TSMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLLNYNFSGNSVQN 198
		
		Query: 173 KASGNSKSTYVRFNSGLNLQGWQLHSDASFSKTNNNPGV-----WKSNTLYLERGFAQLL 227
		           +  GNS   Y+   SGLN+  W+L  + ++S  +++        W+    +LER    L 
		Sbjct: 199 RIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSKNKWQHINTWLERDIIPLR 258
		
		Query: 228 GTLRVGDMYTSSDIFDSVRFSGVRLFRDMQMLPNSKQNFTPRVQGIAQSNALVTIEQNGF 287
		             L +GD YT  DIFD + F G +L  D  MLP+S++ F P + GIA+  A VTI+QNG+
		Sbjct: 259 SRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIARGTAQVTIKQNGY 318
		
		Query: 288 VVYQKEVPPGPFAITDLQLAGGGADLDVSVKEADGSVTTYLVPYAAVPNMLQPGVSKYDF 347
		            +Y   VPPGPF I D+  AG   DL V++KEADGS   + VPY++VP + + G ++Y  
		Sbjct: 319 DIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSVPLLQREGHTRYSI 378
		
		Query: 348 AAGRSHIEGASKQSD-FVQAGYQYGFNNLLTLYGGSMVANNYYAFTLGTGWNT-RIGAIS 405
		            AG      A ++   F Q+   +G     T+YGG+ +A+ Y AF  G G N   +GA+S
		Sbjct: 379 TAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRYRAFNFGIGKNMGALGALS 438
		
		Query: 406 VDATKSHSIQDNGDVFDGQSYQIAYNKFVSQTSTRFGLAAWRYSSRDYRTFNDHVWANNK 465
		           VD T+++S   +    DGQS +  YNK ++++ T   L  +RYS+  Y  F D  ++   
		Sbjct: 439 VDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSGYFNFADTTYSRMN 498
		
		Query: 466 DNYRRDENDIYDI----ADYYQNDFGRKNSFSANMSQSLPEGWGSVS--------WGDDV 513
		                 ++ +  +     DYY   + ++      ++Q L     ++         WG   
		Sbjct: 499 GYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGR-TSTLYLSGSHQTYWGTSN 557
		
		Query: 514 TTPRRQIYMSNSTT----------FDDQGVASNNTGLS-------GTVGSRDQFNYGVNL 556
		              + Q  ++ +              +      +  L+             D  +   + 
		Sbjct: 558 VDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNIPFSHWLRSDSKSQWRHA 617
		
		Query: 557 SYQYQGNETTAGA---------------NLTWNAPVATVNG------------------- 582
		           S  Y  +    G                NL+++       G                   
		Sbjct: 618 SASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGDGNSGSTGYATLNYRGGY 677
		
		Query: 583 -----SYSQSSAYRQAGASVSGGIVAWSGGVNLANRLSETFAVMNAPGIKDAYVNGQKYR 637
		                 YS S   +Q    VSGG++A + GV L   L++T  ++ APG KDA V  Q   
		Sbjct: 678 GNANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVLVKAPGAKDAKVENQTGV 737
		
		Query: 638 TTNRNGVVVYDGMTPYRENYLMLDVSQSDSEAELRGNRKIAAPYRGAVVLVNFDTDQRKP 697
		            T+  G  V    T YREN + LD +      +L        P RGA+V   F   +   
		Sbjct: 738 RTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVPTRGAIVRAEFKA-RVGI 796
		
		Query: 698 WFIKALRADGQPLTFGYEVNDIHGHNIGVVGQGSQLFIRTNEVPPSVNVAIDKQQGLSCT 757
		             +  L  + +PL FG  V      + G+V    Q+++    +   V V   +++   C 
		Sbjct: 797 KLLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLAGKVQVKWGEEENAHCV 856
		
		Query: 758 ITF 760
		             +
		Sbjct: 857 ANY 859
		
		
c2728	c2744	Y	Y	N	c2713	c2752
	c2728	0	18	3.325154	Hypothetical protein
	c2729	-1	19	3.245878	Hypothetical protein
	c2730	0	21	3.638771	Nitrate/nitrite response regulator protein narP
	c2731	0	23	4.093674	Cytochrome c-type biogenesis protein ccmH
	c2732	0	22	4.513450	Thiol:disulfide interchange protein dsbE
	c2733	0	20	4.579745	Cytochrome c-type biogenesis protein ccmF
	c2734	-2	17	3.398901	Cytochrome c-type biogenesis protein ccmE
	c2735	-1	14	2.893756	Heme exporter protein D
	c2736	-2	13	3.010058	Heme exporter protein C
	c2737	-2	14	3.271155	Heme exporter protein B
	c2738	-2	14	3.247737	Heme exporter protein A
	c2739	-1	17	3.981277	Cytochrome c-type protein napC
	c2740	-1	20	4.473418	Hypothetical protein
	c2741	-1	22	4.911818	Diheme cytochrome c napB precursor
	c2742	-1	21	4.790074	Hypothetical protein
	c2743	-1	22	4.173598	Ferredoxin-type protein napH
	c2744	0	22	3.263881	Ferredoxin-type protein napG
	2658#c2729	PERTACTIN#Pertactin signature.	27	0.024
		>PERTACTIN#Pertactin signature.
		          Length = 922
		
		 Score = 27.0 bits (59), Expect = 0.024
		 Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 2/43 (4%)
		
		Query: 40  VFAVIEKGGLLEV--KATGDFKIFVTDTGARPAAGDNLTLVTT 80
		           VFA +     L V   A+G  +++V ++G+ PA+G+ + LV T
		Sbjct: 484 VFADLGLSDKLVVMRDASGQHRLWVRNSGSEPASGNTMLLVQT 526
		
		
	2659#c2730	HTHFIS#FIS bacterial regulatory protein HTH signature.	65	2e-14
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 64.9 bits (158), Expect = 2e-14
		 Identities = 22/113 (19%), Positives = 48/113 (42%), Gaps = 2/113 (1%)
		
		Query: 19  VMIVDDHPLMRRGVRQLLELDSGFEVVAEAGDGASAIDLANRLDIDVILLDLNMKGMSGL 78
		           +++ DD   +R  + Q L   +G++V     + A+        D D+++ D+ M   +  
		Sbjct: 6   ILVADDDAAIRTVLNQALS-RAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63
		
		Query: 79  DTLNALRRDGVTAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIR 131
		           D L  +++      +++++  +         + GA  YL K  D   L+  I 
		Sbjct: 64  DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIG 116
		
		
c2799	c2824	Y	Y	N	c2784	c2823
	c2799	2	13	2.365615	Hypothetical protein yfbI
	c2800	1	15	3.690608	Conserved hypothetical protein
	c2801	-1	13	3.644502	Hypothetical protein yfbJ
	c2802	-1	15	4.186640	Polymyxin B resistance protein pmrD
	c2803	-1	13	4.855693	O-succinylbenzoic acid--CoA ligase
	c2804	-1	12	4.227787	O-succinylbenzoate-CoA synthase
	c2805	-1	11	3.405870	Naphthoate synthase
	c2806	-1	12	2.879973	Hypothetical protein
	c2807	-1	11	2.316045	Hypothetical protein yfbB
	c2808	-2	11	0.213475	Menaquinone biosynthesis protein menD
	c2809	-1	15	-2.007463	Menaquinone-specific isochorismate synthase
	c2810	0	19	-3.527750	ElaB protein
	c2811	0	19	-3.938443	Protein elaA
	c2812	-1	11	-1.559361	Protein elaC
	c2813	-2	11	-0.409211	Hypothetical protein yfbK
	c2814	-1	21	2.546977	Hypothetical protein
	c2815	0	22	2.917421	Hypothetical protein yfbL
	c2816	0	27	3.779308	Hypothetical protein yfbM
	c2817	0	30	4.412986	NADH dehydrogenase I chain N
	c2818	0	32	3.906080	NADH dehydrogenase I chain M
	c2819	-1	32	4.392195	NADH dehydrogenase I chain L
	c2820	-1	31	4.146233	NADH dehydrogenase I chain K
	c2821	-1	31	4.207017	NADH dehydrogenase I chain J
	c2822	0	31	4.323102	NADH dehydrogenase I chain I
	c2823	0	30	4.150271	NADH dehydrogenase I chain H
	c2824	0	29	4.157994	NADH dehydrogenase I chain G
	2729#c2800	BCTERIALGSPC#Bacterial general secretion pathway protein C signa...	28	0.007
		>BCTERIALGSPC#Bacterial general secretion pathway protein C
		          signature.
		          Length = 272
		
		 Score = 28.0 bits (62), Expect = 0.007
		 Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
		
		Query: 34 KHIVLWLGLALACLGLAMVLWLLVL-QNVPV 63
		          + I+ +L + L C  LAM+ W + L  N PV
		Sbjct: 15 RRILFYLLMLLFCQQLAMIFWRIGLPDNAPV 45
		
		
	2732#c2803	ALARACEMASE#Alanine racemase signature.	31	0.013
		>ALARACEMASE#Alanine racemase signature.
		          Length = 356
		
		 Score = 30.5 bits (69), Expect = 0.013
		 Identities = 32/193 (16%), Positives = 59/193 (30%), Gaps = 37/193 (19%)
		
		Query: 268 GYGLTEFASTVCAKEADGLADVGSPL----PGREVKIVNDEVWLRAASMAEGYWRNGQRV 323
		           G+G+    S + A +   L ++   +     G +  I+  E +  A  +      +  R+
		Sbjct: 40  GHGIERIWSAIGATDGFALLNLEEAITLRERGWKGPILMLEGFFHAQDLEIY---DQHRL 96
		
		Query: 324 PLVNDEGWYATRDRGEMYNGKLTI-------VGRLDNLFFSGGEGIQPEEVERVIAAHPA 376
		                  W     +       L I       + RL         G QP+ V  V     A
		Sbjct: 97  TTCVHSNWQLKALQNARLKAPLDIYLKVNSGMNRL---------GFQPDRVLTVWQQLRA 147
		
		Query: 377 VLQVFIVPVADKEFGHRPVAVVEYDQQSVDLDEWVKDKLARFQQPVRWLTLPPELKNGGI 436
		           +  V  + +      H   A         +  + +   +AR +Q    L     L N   
		Sbjct: 148 MANVGEMTL----MSHFAEA---------EHPDGISGAMARIEQAAEGLECRRSLSNSAA 194
		
		Query: 437 KISRQALK-EWVK 448
		            +       +WV+
		Sbjct: 195 TLWHPEAHFDWVR 207
		
		
	2740#c2811	AUTOINDCRSYN#Autoinducer synthesis protein signature.	32	5e-04
		>AUTOINDCRSYN#Autoinducer synthesis protein signature.
		          Length = 216
		
		 Score = 32.1 bits (73), Expect = 5e-04
		 Identities = 13/74 (17%), Positives = 29/74 (39%), Gaps = 12/74 (16%)
		
		Query: 1  MIDWQDLHHSDLSVSQLYALLQLRCAVFV--------VEQNCPYQDIDGDDLEGENRHIL 52
		          M++  D++H+ LS ++   L  LR   F               +   D ++      ++ 
		Sbjct: 1  MLEIFDVNHTLLSETKSGELFTLRKETFKDRLNWAVQCTDGMEFDQYDNNN----TTYLF 56
		
		Query: 53 GWHNGTLVAYARIL 66
		          G  + T++   R +
		Sbjct: 57 GIKDNTVICSLRFI 70
		
		
c2888	c2910	Y	Y	Y	c2873	c2912
	c2888	-1	18	-3.921391	Hypothetical protein yfcZ
	c2889	1	16	-4.227836	Long-chain fatty acid transport protein
	c2890	4	23	-3.004028	VacJ lipoprotein precursor
	c2891	4	24	-3.855628	Hypothetical protein
	c2892	4	25	-4.591812	Hypothetical protein yfdC
	c2893	5	29	-5.516827	*Hypothetical protein
	c2894	5	27	-5.017870	Hypothetical protein ydeU
	c2895	4	26	-4.727305	yapH homolog
	c2896	1	27	-6.680823	Hypothetical protein
	c2897	1	28	-6.671670	Type 1 fimbriae Regulatory protein fimB
	c2898	1	26	-5.779819	Type 1 fimbriae Regulatory protein fimB
	c2899	0	26	-5.448384	D-serine deaminase activator
	c2900	-1	27	-6.258986	DsdX permease
	c2901	-2	32	-8.754618	D-serine dehydratase
	c2902	-1	35	-9.721984	Multidrug resistance protein Y
	c2903	-1	35	-9.358557	Hypothetical protein
	c2904	-1	34	-8.401045	Multidrug resistance protein K
	c2905	-1	31	-7.597590	Positive transcription regulator evgA
	c2906	-1	31	-7.209354	Sensor protein evgS precursor
	c2907	1	30	-5.440447	Hypothetical protein yfdE
	c2908	1	30	-5.135107	Hypothetical protein yfdV
	c2909	1	28	-4.811692	Probable oxalyl-CoA decarboxylase
	c2910	-2	21	-3.911327	Hypothetical protein yfdW
	2815#c2890	VACJLIPOPROT#VacJ lipoprotein signature.	407	e-148
		>VACJLIPOPROT#VacJ lipoprotein signature.
		          Length = 251
		
		 Score =  407 bits (1048), Expect = e-148
		 Identities = 250/251 (99%), Positives = 251/251 (100%)
		
		Query: 1   MKLRLSALALGTTLLVGCASSGTDQQGRSDPLEGFNRTMYNFNFNVLDPYIVRPVAVAWR 60
		           MKLRLSALALGTTLLVGCASSGTDQQGRSDPLEGFNRTMYNFNFNVLDPYIVRPVAVAWR
		Sbjct: 1   MKLRLSALALGTTLLVGCASSGTDQQGRSDPLEGFNRTMYNFNFNVLDPYIVRPVAVAWR 60
		
		Query: 61  DYVPQPARNGLSNFTGNLEEPAVMVNYFLQGDPYQGMVHFTRFFLNTILGMGGFIDVAGM 120
		           DYVPQPARNGLSNFTGNLEEPAVMVNYFLQGDPYQGMVHFTRFFLNTILGMGGFIDVAGM
		Sbjct: 61  DYVPQPARNGLSNFTGNLEEPAVMVNYFLQGDPYQGMVHFTRFFLNTILGMGGFIDVAGM 120
		
		Query: 121 ANPKLQRTEPHRFGSTLGHYGVGYGPYVQLPFYGSFTLRDDGGDMADSLYPVLSWLTWPM 180
		           ANPKLQRTEPHRFGSTLGHYGVGYGPYVQLPFYGSFTLRDDGGDMAD+LYPVLSWLTWPM
		Sbjct: 121 ANPKLQRTEPHRFGSTLGHYGVGYGPYVQLPFYGSFTLRDDGGDMADALYPVLSWLTWPM 180
		
		Query: 181 SVGKWTLEGIETRAQLLDSDGLLRQSSDPYIMVREAYFQRHDFIANGGELKPQENPNAQA 240
		           SVGKWTLEGIETRAQLLDSDGLLRQSSDPYIMVREAYFQRHDFIANGGELKPQENPNAQA
		Sbjct: 181 SVGKWTLEGIETRAQLLDSDGLLRQSSDPYIMVREAYFQRHDFIANGGELKPQENPNAQA 240
		
		Query: 241 IQDDLKDIDSE 251
		           IQDDLKDIDSE
		Sbjct: 241 IQDDLKDIDSE 251
		
		
	2819#c2894	PRTACTNFAMLY#Pertactin virulence factor family signature.	54	4e-10
		>PRTACTNFAMLY#Pertactin virulence factor family signature.
		          Length = 910
		
		 Score = 53.5 bits (128), Expect = 4e-10
		 Identities = 49/235 (20%), Positives = 86/235 (36%), Gaps = 27/235 (11%)
		
		Query: 47  WTDGQDRLQQGIMAGYGNEKSSTTSSLSGYKSKGAINGYSTGLYGTWQQNDGNDNGAYVD 106
		                 R   G +AGY       T    G+     + GY+T +          D+G Y+D
		Sbjct: 683 VAVAGGRWHLGGLAGYTRGDRGFTGDGGGHTDSVHVGGYATYI---------ADSGFYLD 733
		
		Query: 107 TWIQYGWFNN--TVNGEKLAAESWKSR--GFTGSVEAGYTFKAGEFTGSQGSHYDWYIQP 162
		             ++     N   V G    A   K R  G   S+EAG  F              W+++P
		Sbjct: 734 ATLRASRLENDFKVAGSDGYAVKGKYRTHGVGASLEAGRRFTH---------ADGWFLEP 784
		
		Query: 163 QSQITWMNVRASEHTEKNGTKVQLSGDGNIQSRLGVRTYLKGKSASDDNKAHQFEPFVEV 222
		           Q+++         +   NG +V+  G  ++  RLG+     GK   +     Q +P+++ 
		Sbjct: 785 QAELAVFRAGGGAYRAANGLRVRDEGGSSVLGRLGLEV---GKRI-ELAGGRQVQPYIKA 840
		
		Query: 223 NWIHNTRSWG-VKMDNTALSQDGATNIAEVKTGVQGKLSDNLNVWGNVGVQAGDK 276
		           + +      G V  +  A   +     AE+  G+   L    +++ +     G K
		Sbjct: 841 SVLQEFDGAGTVHTNGIAHRTELRGTRAELGLGMAAALGRGHSLYASYEYSKGPK 895
		
		
	2820#c2895	PRTACTNFAMLY#Pertactin virulence factor family signature.	55	5e-09
		>PRTACTNFAMLY#Pertactin virulence factor family signature.
		          Length = 910
		
		 Score = 54.7 bits (131), Expect = 5e-09
		 Identities = 44/129 (34%), Positives = 59/129 (45%), Gaps = 12/129 (9%)
		
		Query: 2182 TLTVNGDYTGGGTLIINTVLGDDTSTTDKLIVTGNTSGDTGVVVNNVRGQGAQTADGIEI 2241
		             LTVN    G G   +N     D   +DKL+V  + SG   + V N  G    +A+ + +
		Sbjct: 472  VLTVN-TLAGSGLFRMNVFA--DLGLSDKLVVMQDASGQHRLWVRNS-GSEPASANTLLL 527
		
		Query: 2242 VHVGGQSDGNFRLQN---RAVAGAWEYFLHKGNAGGTDGNWYLR-SELPPEPQPQPQPQP 2297
		            V     S   F L N   +   G + Y L    A   +G W L  ++ PP P+P PQP P
		Sbjct: 528  VQTPLGSAATFTLANKDGKVDIGTYRYRL----AANGNGQWSLVGAKAPPAPKPAPQPGP 583
		
		Query: 2298 QPQPQPQPQ 2306
		            QP   PQPQ
		Sbjct: 584  QPPQPPQPQ 592
		
		
	2827#c2902	TCRTETB#Tetracycline resistance protein TetB signature.	122	2e-32
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score =  122 bits (308), Expect = 2e-32
		 Identities = 92/404 (22%), Positives = 167/404 (41%), Gaps = 17/404 (4%)
		
		Query: 19  VTIALSLATFMQMLDSTISNVAIPTISGFLGASTDEGTWVITSFGVANAIAIPVTGRLAQ 78
		           + I L + +F  +L+  + NV++P I+           WV T+F +  +I   V G+L+ 
		Sbjct: 15  ILIWLCILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSD 74
		
		Query: 79  RIGELRLFLLSVTFFSLSSLMCSLS-TNLDVLIFFRVVQGLMAGPLIPLSQSLLLRNYPP 137
		           ++G  RL L  +      S++  +  +   +LI  R +QG  A     L   ++ R  P 
		Sbjct: 75  QLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPK 134
		
		Query: 138 EKRTFALALWSMTVIIAPICGPILGGYICDNFSWGWIFLINVPMGIIVLTLCLTLLKGRE 197
		           E R  A  L    V +    GP +GG I     W   +L+ +PM  I+    L  L  +E
		Sbjct: 135 ENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHWS--YLLLIPMITIITVPFLMKLLKKE 192
		
		Query: 198 TETSPVKMNLPGLTLLVLGVGGLQIMLDKGRDLDWFNSSTIILLTVVSVISLISLVIWES 257
		                   ++ G+ L+ +G+  +  ML        F +S  I   +VSV+S +  V    
		Sbjct: 193 VRIKG-HFDIKGIILMSVGI--VFFML--------FTTSYSISFLIVSVLSFLIFVKHIR 241
		
		Query: 258 TSENPILDLSLFKSRNFTIGIVSITCAYLFYSGAIVLMPQLLQETMGYNAIWAGLAYAPI 317
		              +P +D  L K+  F IG++     +   +G + ++P ++++    +    G      
		Sbjct: 242 KVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFP 301
		
		Query: 318 GIMPLLIS-PLIGRYGNKIDMRLLVTFSFLMYAVCYYWRSVTFMPTIDFTGIILPQFFQG 376
		           G M ++I   + G   ++     ++       +V +   S     T  F  II+     G
		Sbjct: 302 GTMSVIIFGYIGGILVDRRGPLYVLNIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLGG 361
		
		Query: 377 FAVACFFLPLTTISFSGLPDNKFANASSMSNFFRTLSGSVGTSL 420
		            +       ++TI  S L   +     S+ NF   LS   G ++
		Sbjct: 362 LSFTK--TVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAI 403
		
		
	2829#c2904	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	78	6e-18
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 78.3 bits (193), Expect = 6e-18
		 Identities = 62/413 (15%), Positives = 123/413 (29%), Gaps = 98/413 (23%)
		
		Query: 13  RRKYFALLAVVLFIAFSGAYAYWSMELKDMISTDDAYVTGNADPISAQVSGSVTVVNHKD 72
		           RR       ++ F+  +   +          +      +G +  I    +  V  +  K+
		Sbjct: 55  RRPRLVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKE 114
		
		Query: 73  TNYVRQGDILVSLDKTDATIALNKA----------------------------------- 97
		              VR+GD+L+ L    A     K                                    
		Sbjct: 115 GESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEP 174
		
		Query: 98  -----------------KNNLANIVRQTNKLYLQDKQYSAEVASARIQ---YQQSLEDYN 137
		                            K   +    Q  +  L   +  AE  +   +   Y+       
		Sbjct: 175 YFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEK 234
		
		Query: 138 RRV----PLAKQGVISKEALEHTKDTLI----------SSKAALNAAIQAYKANKALVMN 183
		            R+     L  +  I+K A+   ++  +          S    + + I + K      + 
		Sbjct: 235 SRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEE--YQLV 292
		
		Query: 184 TPLNRQPQVIEAADATKE----------AWLALKRTDIKSPVTGYIAQRSVQ-VGETVSP 232
		           T L +   + +    T                 + + I++PV+  + Q  V   G  V+ 
		Sbjct: 293 TQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTT 352
		
		Query: 233 GQSLMAVVPARQ-MWVNANFKETQLTDVRIGQSVNIISDLYGENVVFHGRVTGINMGTGN 291
		            ++LM +VP    + V A  +   +  + +GQ+  I  +       F     G  +G   
		Sbjct: 353 AETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVE------AFPYTRYGYLVGK-- 404
		
		Query: 292 AFSLLPAQNATGNWIKIVQRVPVEVSLDPKELMEH----PLRIGLSMTATIDT 340
		               +         + +V  V   +S++   L       PL  G+++TA I T
		Sbjct: 405 -VKNINLDAIEDQRLGLVFNVI--ISIEENCLSTGNKNIPLSSGMAVTAEIKT 454
		
		
	2830#c2905	HTHFIS#FIS bacterial regulatory protein HTH signature.	49	3e-09
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 49.1 bits (117), Expect = 3e-09
		 Identities = 22/148 (14%), Positives = 53/148 (35%), Gaps = 31/148 (20%)
		
		Query: 4   IIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQV 63
		           ++ DD       +   L +   ++    +   +  + +     D+V+ DV +P  N   +
		Sbjct: 7   LVADDDAAIRTVLNQALSRAGYDVRIT-SNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65
		
		Query: 64  LETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYF 123
		           L  ++K +    ++++SA+N                          + AI+A++ G   +
		Sbjct: 66  LPRIKKARPDLPVLVMSAQNT------------------------FMTAIKASEKGAYDY 101
		
		Query: 124 ---PFSLNRFVGSLTSDQQKLDSLSKQE 148
		              PF L      +    + L    ++ 
		Sbjct: 102 LPKPFDLTE---LIGIIGRALAEPKRRP 126
		
		
	2831#c2906	HTHFIS#FIS bacterial regulatory protein HTH signature.	79	2e-17
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 79.5 bits (196), Expect = 2e-17
		 Identities = 30/105 (28%), Positives = 51/105 (48%)
		
		Query: 960  SILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSMQHYDLLITDVNMPNMDGFE 1019
		            +IL+ADD    R +L + L+  GYDV   ++       ++    DL++TDV MP+ + F+
		Sbjct: 5    TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 1020 LTRKLREQNSSLPIWGLTANAQANEREKGLNCGMNLCLFKPLTLD 1064
		            L  ++++    LP+  ++A        K    G    L KP  L 
		Sbjct: 65   LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLT 109
		
		
c2952	c2960	Y	Y	N	c2937	c2976
	c2952	-2	21	3.040632	PTS system, glucose-specific IIA component
	c2953	-1	25	4.106188	Pyridoxine kinase
	c2954	-1	26	4.193018	Hypothetical protein yfeK precursor
	c2955	-1	25	4.161041	Cysteine synthase B
	c2956	-1	24	3.814171	Sulfate transport ATP-binding protein cysA
	c2957	-1	22	3.605513	Putative conserved protein
	c2958	0	19	3.027303	Sulfate transport system permease protein cysT
	c2959	-2	17	2.754686	Thiosulfate-binding protein precursor
	c2960	-2	17	3.072245	Oxidoreductase ucpA
	2881#c2956	PF05272#Virulence-associated E family protein	34	8e-04
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 34.3 bits (78), Expect = 8e-04
		 Identities = 11/33 (33%), Positives = 16/33 (48%)
		
		Query: 30  MVALLGPSGSGKTTLLRIIAGLEHQTSGHIRFH 62
		            V L G  G GK+TL+  + GL+  +  H    
		Sbjct: 598 SVVLEGTGGIGKSTLINTLVGLDFFSDTHFDIG 630
		
		
	2885#c2960	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	156	4e-48
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score =  156 bits (395), Expect = 4e-48
		 Identities = 95/255 (37%), Positives = 137/255 (53%), Gaps = 4/255 (1%)
		
		Query: 56  LTGKTALITGALQGIGEGIARTFARHGANLILLDISPE-IEKLADELCGRGHRCTAVVAD 114
		           + GK A ITGA QGIGE +ART A  GA++  +D +PE +EK+   L        A  AD
		Sbjct: 6   IEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPAD 65
		
		Query: 115 VRDPASVAAAIKRAKEKEGRIDILVNNAGVCRLGSFLDMSDEDRDFHIDINIKGVWNVTK 174
		           VRD A++     R + + G IDILVN AGV R G    +SDE+ +    +N  GV+N ++
		Sbjct: 66  VRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASR 125
		
		Query: 175 AVLPEMIARKDGRIVMMSSVTGDMVADPGETAYALTKAAIVGLTKSLAVEYAQSGIRVNA 234
		           +V   M+ R+ G IV + S     V      AYA +KAA V  TK L +E A+  IR N 
		Sbjct: 126 SVSKYMMDRRSGSIVTVGSNPAG-VPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNI 184
		
		Query: 235 ICPGYVRTPMAESIARQSNPEDP--ESVLTEMAKAIPMRRLADPLEVGELAAFLASDESS 292
		           + PG   T M  S+    N  +   +  L      IP+++LA P ++ +   FL S ++ 
		Sbjct: 185 VSPGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAG 244
		
		Query: 293 YLTGTQNVIDGGSTL 307
		           ++T     +DGG+TL
		Sbjct: 245 HITMHNLCVDGGATL 259
		
		
c2969	c2983	Y	Y	N	c2954	c2993
	c2969	0	15	3.149354	Probable N-acetylmuramoyl-L-alanine amidase amiA
	c2970	-2	18	3.924954	Coproporphyrinogen III oxidase, aerobic
	c2971	-2	19	4.961366	Ethanolamine operon Regulatory protein
	c2972	-2	23	5.357381	Ethanolamine utilization protein eutK precursor
	c2973	-2	22	5.582930	Ethanolamine utilization protein eutL
	c2974	-1	22	5.873717	Ethanolamine ammonia-lyase light chain
	c2975	0	22	6.001603	Ethanolamine ammonia-lyase heavy chain
	c2976	1	21	6.289780	Ethanolamine utilization protein eutA
	c2977	1	20	5.799968	Ethanolamine utilization protein eutH
	c2978	3	20	6.311957	Ethanolamine utilization protein eutG
	c2979	2	19	6.165766	Ethanolamine utilization protein eutJ
	c2980	2	21	5.477972	Ethanolamine utilization protein eutE
	c2981	0	18	4.277189	Ethanolamine utilization protein eutN
	c2982	1	18	3.642040	Ethanolamine utilization protein eutM precursor
	c2983	2	18	3.259038	Ethanolamine utilization protein eutD
	2904#c2979	SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein s...	51	2e-09
		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein
		           signature.
		          Length = 347
		
		 Score = 50.5 bits (121), Expect = 2e-09
		 Identities = 33/116 (28%), Positives = 50/116 (43%), Gaps = 9/116 (7%)
		
		Query: 63  VRDGIVWDFFGAVTIVRRHLD-TLEQQFGRRFSHAATSFPPGTDP---RISINVLESAGL 118
		           ++DG++ DFF    +++  +       F R         P G      R      + AG 
		Sbjct: 76  MKDGVIADFFVTEKMLQHFIKQVHSNSFMRPSPRVLVCVPVGATQVERRAIRESAQGAGA 135
		
		Query: 119 EVSHVLDEPTAVA---DLLQLDNAG--VVDIGGGTTGIAIVKKGKVTYSADEATGG 169
		               +++EP A A    L   +  G  VVDIGGGTT +A++    V YS+    GG
		Sbjct: 136 REVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLNGVVYSSSVRIGG 191
		
		
c3047	c3053	Y	Y	N	c3032	c3071
	c3047	1	18	3.006735	Protein sseB
	c3048	0	21	4.123160	Peptidase B
	c3049	3	19	2.973587	Hypothetical protein yfhJ
	c3050	3	19	2.692724	Ferredoxin, 2Fe-2S
	c3051	3	22	2.459086	Chaperone protein hscA
	c3052	4	26	0.382545	Chaperone protein hscB
	c3053	2	25	0.805407	Protein yfhF
	2972#c3047	STREPKINASE#Streptococcus streptokinase protein signature.	29	0.022
		>STREPKINASE#Streptococcus streptokinase protein signature.
		          Length = 440
		
		 Score = 28.9 bits (64), Expect = 0.022
		 Identities = 27/120 (22%), Positives = 52/120 (43%), Gaps = 21/120 (17%)
		
		Query: 130 GNSLSSQEVLEGGESLILSE-----VAEPPVQMIDSLTTLFKTIKPVKRAFICLIKESEE 184
		           G++++SQE+L   +S++        + E    ++     +F+TI P+ + F   +K  E+
		Sbjct: 217 GDTITSQELLAQAQSILNKNHPGYTIYERDSSIVTHDNDIFRTILPMDQEFTYRVKNREQ 276
		
		Query: 185 A-QPNLLIGIEADGDIEEIIQAAGSVATDTLPGDEPIDICQVKKGEKGISHFITEHIAPF 243
		           A + N   G+  + +  ++I     V               +KKGEK    F   H+  F
		Sbjct: 277 AYRINKKSGLNEEINNTDLISEKYYV---------------LKKGEKPYDPFDRSHLKLF 321
		
		
	2976#c3051	SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein s...	115	3e-30
		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein
		           signature.
		          Length = 347
		
		 Score =  115 bits (289), Expect = 3e-30
		 Identities = 81/371 (21%), Positives = 144/371 (38%), Gaps = 74/371 (19%)
		
		Query: 41  GIDLGTTNSLVATVRSGQAETLADHEGRHLLPSVVHYQQQGHS-------VGYDARTNAA 93
		            IDLGT N+L+     G    +  +E     PSVV  +Q           VG+DA+    
		Sbjct: 14  SIDLGTANTLIYVKGQG----IVLNE-----PSVVAIRQDRAGSPKSVAAVGHDAK-QML 63
		
		Query: 94  LDTANTISSVKRLMGRSLADIQQRYPHLPYQFQASENGLPMIETAAGLLNPVRVSADILK 153
		             T   I++++ +    +AD                                 V+  +L+
		Sbjct: 64  GRTPGNIAAIRPMKDGVIADF-------------------------------FVTEKMLQ 92
		
		Query: 154 ALAARATEALAGE-LDGVVITVPAYFDDAQRQGTKDAARLAGLHVLRLLNEPTAAAIAYG 212
		               +            V++ VP      +R+  +++A+ AG   + L+ EP AAAI  G
		Sbjct: 93  HFIKQVHSNSFMRPSPRVLVCVPVGATQVERRAIRESAQGAGAREVFLIEEPMAAAIGAG 152
		
		Query: 213 LDSGQEGVIAVYDLGGGTFDISILRLSRGVFEVLATGGDSALGGDDFDHLLADYIREQAG 272
		           L   +     V D+GGGT +++++ L+  V           +GGD FD  + +Y+R   G
		Sbjct: 153 LPVSEATGSMVVDIGGGTTEVAVISLNGVV-----YSSSVRIGGDRFDEAIINYVRRNYG 207
		
		Query: 273 --IPDRSDNRVQRELLDAAIAAKIALSDADSVTVNVAG---WQG-----EISREQFNELI 322
		             I + +  R++ E+         A    +   + V G    +G      ++  +  E +
		Sbjct: 208 SLIGEATAERIKHEI-------GSAYPGDEVREIEVRGRNLAEGVPRGFTLNSNEILEAL 260
		
		Query: 323 APLVKRTLLACRRALKDAGVE-ADEVLE--VVVVGGSTRVPLVRERVGEFFGRPPLTSID 379
		              +   + A   AL+    E A ++ E  +V+ GG   +  +   + E  G P + + D
		Sbjct: 261 QEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGALLRNLDRLLMEETGIPVVVAED 320
		
		Query: 380 PDKVVAIGAAI 390
		           P   VA G   
		Sbjct: 321 PLTCVARGGGK 331
		
		
c3134	c3225	Y	Y	N	c5497	c3158
	c3134	2	15	-0.987045	Hypothetical protein
	c3135	2	16	-0.769533	GrpE protein
	c3136	3	18	-1.324892	Hypothetical protein
	c3137	2	15	-0.858786	Probable inorganic polyphosphate/ATP-NAD kinase
	c3138	2	20	-3.391512	DNA repair protein recN
	c3139	2	26	-5.970615	Small protein A
	c3140	2	28	-7.544807	Protein yfjF
	c3141	2	30	-8.007796	Hypothetical protein yfjG
	c3142	1	31	-7.306132	SsrA-binding protein
	c3143	2	36	-8.299220	Hypothetical protein
	c3144	0	31	-6.944207	DNA-damage-inducible protein I
	c3145	-1	30	-6.047163	Hypothetical protein ydfK
	c3146	0	29	-4.666855	Putative DNA-invertase from lambdoid prophage
	c3147	0	26	-4.469883	Hypothetical protein
	c3148	-1	24	-4.122437	Hypothetical protein
	c3149	-2	18	0.296742	Hypothetical protein
	c3150	-2	18	1.144089	Hypothetical protein
	c3151	1	23	4.115225	Hypothetical protein
	c3152	2	24	4.142452	Hypothetical protein
	c3153	3	24	4.856888	Putative outer membrane protein of prophage
	c3154	2	25	5.166657	Putative tail component of prophage
	c3155	1	25	6.235554	Putative tail component of prophage
	c3156	1	26	6.094887	Putative tail fiber component K of prophage
	c3157	1	25	5.669949	Hypothetical protein
	c3158	2	27	5.986828	Putative tail component of prophage
	c3159	2	27	5.943055	Putative tail component of prophage
	c3160	1	26	5.734849	Putative tail component of prophage
	c3161	2	26	4.662735	Putative tail component of prophage
	c3162	3	25	4.831768	Putative tail component of prophage
	c3163	2	23	5.112332	Putative tail component of prophage
	c3164	2	26	5.051106	Putative tail component of prophage
	c3165	2	25	6.806693	Putative tail fiber component Z of prophage
	c3166	4	25	7.127727	Putative head-tail joining protein of prophage
	c3167	4	26	6.969469	Putative DNA packaging protein of prophage
	c3168	1	24	5.835102	Putative capsid protein of prophage
	c3169	1	24	5.548911	Putative head-DNA stabilization protein of
	c3170	1	24	4.982252	Putative capsid protein of prophage
	c3171	0	23	2.443896	Putative capsid structural protein of prophage
	c3172	2	21	-0.308154	Putative head-tail joining protein of prophage
	c3173	3	19	-1.279182	Putative DNA packaging protein of prophage
	c3174	4	26	-5.746243	Prophage QSR' DNA packaging protein NU1 homolog
	c3175	2	26	-5.769861	Hypothetical protein
	c3176	2	29	-7.018380	GnsB protein
	c3177	2	29	-5.532549	Cold shock-like protein cspI
	c3178	1	31	-5.934106	Hypothetical protein
	c3179	1	31	-6.114331	Hypothetical protein ydfP precursor
	c3180	2	31	-6.059564	Probable lysozyme from lambdoid prophage Qin
	c3181	3	32	-6.616030	Unknown protein encoded by prophage
	c3182	2	29	-2.757978	Lysis protein S homolog from lambdoid prophage
	c3183	1	23	-2.089734	Hypothetical protein
	c3184	2	23	-0.505259	Cold shock-like protein cspB
	c3185	2	22	0.955982	Cold shock-like protein cspF
	c3186	3	23	1.463259	Antitermination protein Q homolog from lambdoid
	c3187	1	21	2.391806	Hypothetical protein ydfU
	c3188	0	22	1.481631	Hypothetical protein
	c3189	1	22	1.881641	Hypothetical protein
	c3190	2	22	0.443050	Hypothetical protein
	c3191	2	21	-0.734302	Hypothetical protein yfdN
	c3192	1	22	-3.110263	Unknown protein encoded by cryptic prophage
	c3193	4	32	-6.060533	Hypothetical protein
	c3194	4	32	-4.530291	Hypothetical protein
	c3195	4	32	-3.089946	Hypothetical protein ymfL
	c3196	4	28	-3.721136	Hypothetical protein
	c3197	3	25	-3.703466	Putative repressor protein of prophage
	c3198	1	28	-7.217167	Hypothetical protein
	c3199	0	28	-7.249000	Hypothetical protein
	c3200	0	31	-8.670634	Hypothetical protein
	c3201	2	34	-10.910923	Hypothetical protein yfdQ
	c3202	0	26	-8.930318	Hypothetical protein yfdR
	c3203	-1	19	-5.839663	Hypothetical protein
	c3204	-1	11	-0.712865	Hypothetical protein
	c3205	1	17	2.312388	Hypothetical protein
	c3206	1	18	2.575055	Hypothetical protein
	c3207	1	22	4.171538	Hypothetical protein ygaT
	c3208	1	20	3.756864	Hypothetical protein ygaF
	c3209	1	18	3.151860	Succinate-semialdehyde dehydrogenase (NADP+)
	c3210	0	18	2.313738	4-aminobutyrate aminotransferase
	c3211	1	19	0.061966	GABA permease
	c3212	-1	21	-1.410381	Hypothetical transcriptional regulator ygaE
	c3213	0	20	-2.894824	Unknown protein from 2D-page
	c3214	1	27	-3.468323	Hypothetical protein
	c3215	3	27	-5.328045	Hypothetical protein yqaE
	c3216	0	25	-5.123839	Hypothetical transcriptional regulator ygaV
	c3217	2	27	-5.970726	Hypothetical protein ygaP
	c3218	2	23	-4.355928	DNA-binding protein stpA
	c3219	-1	23	-2.028973	Hypothetical protein
	c3220	-1	20	-1.210484	Hypothetical protein
	c3221	-1	18	-0.015368	Hypothetical protein ygaW
	c3222	0	17	0.996815	Hypothetical protein ygaC
	c3223	0	10	1.320312	Hypothetical protein ygaM
	c3224	-1	11	0.501014	Conserved hypothetical protein
	c3225	2	12	-0.132001	Conserved hypothetical protein
	3064#c3139	BLACTAMASEA#Beta-lactamase class A signature.	26	0.032
		>BLACTAMASEA#Beta-lactamase class A signature.
		          Length = 286
		
		 Score = 26.3 bits (58), Expect = 0.032
		 Identities = 23/87 (26%), Positives = 36/87 (41%), Gaps = 11/87 (12%)
		
		Query: 4   KTLTAAAAVLLMLTAGCSTLERVVYRPDINQGNYLTANDVSKIRV--GMTQQQVAYALGT 61
		           K +    AVL  + AG   LER ++     Q + +  + VS+  +  GMT  ++  A   
		Sbjct: 69  KVV-LCGAVLARVDAGDEQLERKIH---YRQQDLVDYSPVSEKHLADGMTVGELCAA--A 122
		
		Query: 62  PLMSDPFGTNTWFYVFRQQPGHEGVTQ 88
		             MSD    N    +     G  G+T 
		Sbjct: 123 ITMSDNSAANL---LLATVGGPAGLTA 146
		
		
	3075#c3150	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	46	5e-07
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 46.2 bits (109), Expect = 5e-07
		 Identities = 33/165 (20%), Positives = 54/165 (32%), Gaps = 15/165 (9%)
		
		Query: 219  ETAAKNSQVAAAQSESAAAGSA--TSATGSATAAANSQKAAKTSETNAKSSQTAAKTSET 276
		            E   +N  V      +     A   S   +    A   +A       A  S+T    +E 
		Sbjct: 984  EVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAEN 1043
		
		Query: 277  NAKASETAAKNSQDA------------AAQSESAAAGSASAAASSASASANSQKAAKTSE 324
		            + + S+T  KN QDA             A+S   A    +  A S S +  +Q       
		Sbjct: 1044 SKQESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKET 1103
		
		Query: 325  TNAKASETAAANSAKASAASQTAAKASEDAAREYASQ-AAEPYKQ 368
		               +  E A   + K     +  ++ S    +    Q  AEP ++
		Sbjct: 1104 ATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARE 1148
		
		
		
		 Score = 44.7 bits (105), Expect = 2e-06
		 Identities = 32/194 (16%), Positives = 65/194 (33%), Gaps = 11/194 (5%)
		
		Query: 111  PEALRRFEEMVEEAARNAEAASQSAAAAKKSETAAASSKNAAKTSETNAANSAQAAATSQ 170
		               + + E+   E  +  E    ++  + K E +      A    E +   + +   +  
		Sbjct: 1103 TATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQT 1162
		
		Query: 171  TASENSATAAKKSETNAKNSETAAKTSETNAK-----SSQTAAKTSETNAKASETAAKNS 225
		              + ++   AK++ +N +   T + T  T         + T A T  T    S    KN 
		Sbjct: 1163 NTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNR 1222
		
		Query: 226  QVAAAQSESAAAGSATSATGSATAAANSQKAAKTSETNAKSSQTAAKTS----ETNAKAS 281
		               + +S       AT+++   +  A       ++ TNA  S   AK            S
		Sbjct: 1223 HRRSVRSVPHNVEPATTSSNDRSTVA--LCDLTSTNTNAVLSDARAKAQFVALNVGKAVS 1280
		
		Query: 282  ETAAKNSQDAAAQS 295
		            +  ++   +   Q 
		Sbjct: 1281 QHISQLEMNNEGQY 1294
		
		
	3078#c3153	ENTEROVIROMP#Enterobacterial virulence outer membrane protein si...	147	2e-47
		>ENTEROVIROMP#Enterobacterial virulence outer membrane protein
		           signature.
		          Length = 171
		
		 Score =  147 bits (372), Expect = 2e-47
		 Identities = 65/200 (32%), Positives = 101/200 (50%), Gaps = 30/200 (15%)
		
		Query: 1   MRKLCAVILSAVVWLVAAGTPASAAEHQSTLSAGYLQTHTDMPGSDDLKGINVKYRYEFT 60
		           M+K+  +   A V    AGT  +A    ST++ GY Q+      +  + G N+KYRYE  
		Sbjct: 1   MKKIACLSALAAVLAFTAGTSVAA---TSTVTGGYAQSDAQGQMNK-MGGFNLKYRYEED 56
		
		Query: 61  DT-LGLVTSFSYANAKDEQKTHYSDTRWHEDSVRNRWFSMMAGPSVRVNEWFSAYAMAGM 119
		           ++ LG++ SF+Y        T  S T    D  +N+++ + AGP+ R+N+W S Y + G+
		Sbjct: 57  NSPLGVIGSFTY--------TEKSRTASSGDYNKNQYYGITAGPAYRINDWASIYGVVGV 108
		
		Query: 120 AYSRVSTFSGDYLRVTDNKGKTHDVLTGSDDGRHSNTSLAWGAGVQFNPTESVAIDLAYE 179
		            Y +  T        T+     HD          S+   ++GAG+QFNP E+VA+D +YE
		Sbjct: 109 GYGKFQT--------TEYPTYKHD---------TSDYGFSYGAGLQFNPMENVALDFSYE 151
		
		Query: 180 GSGSGDWRTDGFIVGVGYKF 199
		            S         +I GVGY+F
		Sbjct: 152 QSRIRSVDVGTWIAGVGYRF 171
		
		
	3080#c3155	PF06291#Lambda prophage Bor protein	28	0.012
		>PF06291#Lambda prophage Bor protein
		          Length = 102
		
		 Score = 28.1 bits (62), Expect = 0.012
		 Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 5/40 (12%)
		
		Query: 122 MTGILFSLGASMVLGGVAQML-----APKARTPRTQTTDN 156
		           M  +LFS   +M++ G AQ        P A TP+   T +
		Sbjct: 6   MKKMLFSAALAMLITGCAQQTFTVGNKPTAVTPKETITHH 45
		
		
	3085#c3160	GPOSANCHOR#Gram-positive coccus surface protein anchor signature.	41	2e-05
		>GPOSANCHOR#Gram-positive coccus surface protein anchor signature.
		          Length = 539
		
		 Score = 40.8 bits (95), Expect = 2e-05
		 Identities = 57/377 (15%), Positives = 125/377 (33%), Gaps = 36/377 (9%)
		
		Query: 236 SGLTAMARQFHNVTAEQIAYVAQLQRSGDEAGALQAANEAATKGFDDQTRRLKENMGTLE 295
		           S      R+     +E+ + + +L+    +           +     + + L+     L 
		Sbjct: 95  SNAKEKLRKNDKSLSEKASKIQELEARKADLEKALEGAMNFSTADSAKIKTLEAEKAALA 154
		
		Query: 296 TWADRTARAFKSMWDAVLDI-GRPDTAQEMLIKAEAAFKKADDIWNLRKDDYFVNDEARA 354
		                  +A +   +       +  T +      EA   + +       +    +     
		Sbjct: 155 ARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMNFSTADSAKIK 214
		
		Query: 355 RYWDDREKARLALKAARK-KAEQQSQQDKNAQQQSDTEASRLKYTEEAQKAYKRLQTPLE 413
		               ++           K      +    ++ +    EA +        +  K L+  + 
		Sbjct: 215 TLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMN 274
		
		Query: 414 KYTARQEELNKALKDGKILQADYNTLMAAAKKDYEATLKKPKQSGVKVSAGDRQEDSAHA 473
		             TA   ++     +   L+A+   L     +   A  +  +          R  D++  
		Sbjct: 275 FSTADSAKIKTLEAEKAALEAEKADLEHQ-SQVLNANRQSLR----------RDLDASRE 323
		
		Query: 474 ALLTLQAELRTLEKHAGANEKISQQ-RRDL-------WKAESQFAVLEEAAQRRQLSAQE 525
		           A   L+AE + LE+    +E   Q  RRDL        + E++   LEE  +  + S Q 
		Sbjct: 324 AKKQLEAEHQKLEEQNKISEASRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEASRQS 383
		
		Query: 526 KS--LLAHKDETLEYKRQLAALGDKVTYQERLNALAQQADKFAQQQRAKRAAIEAKSRGL 583
		               L A ++   + ++ L     K+   E+LN   +++ K  ++++A            
		Sbjct: 384 LRRDLDASREAKKQVEKALEEANSKLAALEKLNKELEESKKLTEKEKA------------ 431
		
		Query: 584 TDRQAEREATEQRLKEQ 600
		            + QA+ EA  + LKE+
		Sbjct: 432 -ELQAKLEAEAKALKEK 447
		
		
	3088#c3163	INTIMIN#Intimin signature.	30	0.011
		>INTIMIN#Intimin signature.
		          Length = 939
		
		 Score = 30.0 bits (67), Expect = 0.011
		 Identities = 32/202 (15%), Positives = 61/202 (30%), Gaps = 29/202 (14%)
		
		Query: 76  DWTATGQGQKSAGDTSFT----LAWMPGEQGQQALLAWFNEGDTRAYKIRFPNGTVDVFR 131
		                G G+ +    S      +      +   AL       +  A  I        +  
		Sbjct: 611 SANTNGSGKATVTLKSDKPGQVVVSAKTAEMTSAL-------NANAV-IFVDQTKASITE 662
		
		Query: 132 GWVSSIGKAVTAKEVITRTVKVTNVGRPSMAEDRSTVTAATGMTVTPASTSVVKGQSTTL 191
		                       ++ IT TVKV    +P   ++ +  T    ++ +   T        TL
		Sbjct: 663 IKADKTTAVANGQDAITYTVKVMKGDKPVSNQEVTFTTTLGKLSNSTEKTDTNGYAKVTL 722
		
		Query: 192 T---------------VAFQPEGATDKSFRAVSADKTKATVSVSGMTITVKG--VAAGKV 234
		           T               VA   +    + F  ++ D     +  +G+   +    +  G+V
		Sbjct: 723 TSTTPGKSLVSARVSDVAVDVKAPEVEFFTTLTIDDGNIEIVGTGVKGKLPTVWLQYGQV 782
		
		Query: 235 NIPVVSGNGEFAAVAEINVTAS 256
		           N+    GNG++   +     AS
		Sbjct: 783 NLKASGGNGKYTWRSANPAIAS 804
		
		
	3099#c3174	PF04183#IucA / IucC family	29	0.007
		>PF04183#IucA / IucC family
		          Length = 580
		
		 Score = 29.5 bits (66), Expect = 0.007
		 Identities = 15/91 (16%), Positives = 33/91 (36%), Gaps = 17/91 (18%)
		
		Query: 76  DLHPGTLEFERHRLTRAQATAQELKN--AKESAEVVETAFCTFVLSRIAREISSILD--G 131
		           D   G +   +       +  QE+++  ++ SA+ +     T     + R IS ++   G
		Sbjct: 442 DFQ-GDMRLVKEEFPEMDSLPQEVRDVTSRLSADYLIHDLQTGHFVTVLRFISPLMVRLG 500
		
		Query: 132 IP------------LSVQRRFPELDNRHIDF 150
		           +P                ++ P++  R   F
		Sbjct: 501 VPERRFYQLLAAVLSDYMKKHPQMSERFALF 531
		
		
c3261	c3285	Y	Y	N	c3245	c3287
	c3261	0	13	3.430703	Glucitol operon repressor
	c3262	1	13	3.873122	GutQ protein
	c3263	1	13	3.390006	Hypothetical sigma-54-dependent transcriptional
	c3264	0	13	2.259114	Hypothetical protein
	c3267	1	15	2.796464	FlRd-NAD(+) reductase
	c3268	0	14	1.974466	Hydrogenase maturation protein hypF
	c3269	0	21	-5.059286	Electron transport protein hydN
	c3270	2	29	-7.604867	Hypothetical protein
	c3271	0	24	-5.938141	Hypothetical protein
	c3272	-2	20	-3.545514	Hypothetical protein
	c3273	-3	15	-2.667721	Hypothetical protein ygjM
	c3274	-1	16	-0.022531	Hypothetical protein
	c3275	-1	18	1.634458	Hypothetical protein
	c3276	-1	24	3.390053	Hypothetical protein
	c3277	-1	30	4.961049	Hydrogenase 3 maturation protease
	c3278	-1	28	5.525468	Formate hydrogenlyase maturation protein hycH
	c3279	-1	28	5.644557	Formate hydrogenlyase subunit 7
	c3280	0	27	5.011481	Formate hydrogenlyase subunit 6
	c3281	0	25	4.867707	Formate hydrogenlyase subunit 5 precursor
	c3282	1	23	4.706982	Formate hydrogenlyase subunit 4
	c3283	2	22	4.144229	Formate hydrogenlyase subunit 3
	c3284	2	20	2.889352	Formate hydrogenlyase subunit 2
	c3285	1	20	3.411544	Formate hydrogenlyase Regulatory protein hycA
	3185#c3261	ARGREPRESSOR#Bacterial arginine repressor signature.	28	0.024
		>ARGREPRESSOR#Bacterial arginine repressor signature.
		          Length = 149
		
		 Score = 27.9 bits (62), Expect = 0.024
		 Identities = 10/45 (22%), Positives = 18/45 (40%), Gaps = 5/45 (11%)
		
		Query: 1  MKPRQRQAAILEYLQKQGKCSVEEL-----AQYFDTTGTTIRKDL 40
		          M   QR   I E +      + +EL        ++ T  T+ +D+
		Sbjct: 1  MNKGQRHIKIREIITANEIETQDELVDILKKDGYNVTQATVSRDI 45
		
		
	3187#c3263	HTHFIS#FIS bacterial regulatory protein HTH signature.	377	e-128
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score =  377 bits (969), Expect = e-128
		 Identities = 125/388 (32%), Positives = 194/388 (50%), Gaps = 33/388 (8%)
		
		Query: 174 IAALAAGALS----------NALLIEQLESQNMLPGEAAPFEAVKQTQMIGLSPGMTQLK 223
		           I A   GA               +I +  ++          ++     ++G S  M ++ 
		Sbjct: 91  IKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIY 150
		
		Query: 224 KEIEIVAASDLNVLISGETGTGKELVAKAIHEASPRAVNPLVYLNCAALPESVAESELFG 283
		           + +  +  +DL ++I+GE+GTGKELVA+A+H+   R   P V +N AA+P  + ESELFG
		Sbjct: 151 RVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFG 210
		
		Query: 284 HVKGAFTGAISNRSGKFEMADNGTLFLDEIGELSLALQAKLLRVLQYGDIQRVGDDRSLR 343
		           H KGAFTGA +  +G+FE A+ GTLFLDEIG++ +  Q +LLRVLQ G+   VG    +R
		Sbjct: 211 HEKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIR 270
		
		Query: 344 VDVRVLAATNRDLREEVLAGRFRADLFHRLSVFPLSVPPLRERGDDVILLAGYFCEQCRL 403
		            DVR++AATN+DL++ +  G FR DL++RL+V PL +PPLR+R +D+  L  +F +Q   
		Sbjct: 271 SDVRIVAATNKDLKQSINQGLFREDLYYRLNVVPLRLPPLRDRAEDIPDLVRHFVQQAE- 329
		
		Query: 404 RLGLSRVVLSAGARNLLQHYNFPGNVRELEHAIHRAVVLARATRSGDEVIL-----EAQH 458
		           + GL        A  L++ + +PGNVRELE+ + R   L        E+I      E   
		Sbjct: 330 KEGLDVKRFDQEALELMKAHPWPGNVRELENLVRRLTALYPQDVITREIIENELRSEIPD 389
		
		Query: 459 FAFPEVTLPPPEVAAVPVVKQNLR-----------------EATEAFQRETIRQALAQNH 501
		               +       ++    V++N+R                       +   I  AL    
		Sbjct: 390 SPIEKAAARSGSLSISQAVEENMRQYFASFGDALPPSGLYDRVLAEMEYPLILAALTATR 449
		
		Query: 502 HNWAACARMLETDVANLHRLAKRLGLKD 529
		            N    A +L  +   L +  + LG+  
		Sbjct: 450 GNQIKAADLLGLNRNTLRKKIRELGVSV 477
		
		
c3299	c3310	Y	Y	N	c3284	c3323
	c3299	0	20	-3.510667	Hypothetical aldolase class II protein ygbL
	c3300	-2	20	-3.627126	Hypothetical protein ygbM
	c3301	-3	18	-3.856916	Hypothetical permease ygbN
	c3302	-2	19	-5.058928	Hypothetical protein
	c3303	-3	16	-0.716136	Hypothetical protein
	c3304	-2	16	0.398620	Hypothetical protein
	c3305	-2	16	1.085752	Hypothetical protein
	c3306	-1	16	1.533427	Hypothetical protein
	c3307	0	15	1.296468	Putative conserved protein
	c3308	1	15	1.631012	Lipoprotein nlpD precursor
	c3309	2	18	2.319390	Hypothetical protein
	c3310	2	17	2.160383	Protein-L-isoaspartate O-methyltransferase
	3230#c3308	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	30	0.019
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 29.8 bits (67), Expect = 0.019
		 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 12/84 (14%)
		
		Query: 292 IIATADGRVVYAGNALRGYGNLIIIKHNDDYLSAYAHNDTMLVREQQEVKAGQKIATMGS 351
		           I+ATA+G++ ++G +         IK      ++      ++V+E + V+ G  +  + +
		Sbjct: 82  IVATANGKLTHSGRSK-------EIKP---IENSIV--KEIIVKEGESVRKGDVLLKLTA 129
		
		Query: 352 TGTSSTRLHFEIRYKGKSVNPLRY 375
		            G  +  L  +       +   RY
		Sbjct: 130 LGAEADTLKTQSSLLQARLEQTRY 153
		
		
c3321	c3339	Y	Y	N	c3306	c3346
	c3321	-1	17	3.462866	Phosphoadenosine phosphosulfate reductase
	c3322	-1	15	3.893257	Sulfite reductase [NADPH] hemoprotein
	c3323	0	13	3.823075	Sulfite reductase [NADPH] flavoprotein
	c3324	0	16	2.933779	Putative 6-pyruvoyl tetrahydrobiopterin
	c3325	-1	13	2.592785	Probable electron transfer flavoprotein-quinone
	c3326	-1	10	0.856963	Ferredoxin-like protein ygcO
	c3328	0	10	0.085679	Putative electron transfer flavoprotein subunit
	c3329	0	11	-0.796854	Putative electron transfer flavoprotein subunit
	c3330	-1	11	-1.367687	Hypothetical metabolite transport protein ygcS
	c3331	-1	11	-2.504304	Putative conserved protein
	c3332	1	15	-3.988771	Hypothetical oxidoreductase ygcW
	c3333	1	16	-3.651540	Hypothetical protein yqcE
	c3334	-1	19	-4.038224	Hypothetical sugar kinase ygcE
	c3335	-1	26	-5.220526	Hypothetical protein ygcF
	c3336	-1	29	-6.025933	Hypothetical protein
	c3337	0	28	-6.008621	Hypothetical protein
	c3338	0	26	-4.085836	Hypothetical protein
	c3339	2	25	-3.158739	Hypothetical protein
	3244#c3322	PF07675#Cleaved Adhesin	30	0.021
		>PF07675#Cleaved Adhesin
		          Length = 1358
		
		 Score = 30.4 bits (68), Expect = 0.021
		 Identities = 20/92 (21%), Positives = 39/92 (42%), Gaps = 12/92 (13%)
		
		Query: 206 ILGQTYLPRKFKTTVVIP---PQND--IDLHANDMNFVAIAENGKLVGFNLLVGGGLSIE 260
		           ++    +P+    T  +P   PQN     + A+  ++VAI+++G L G  +    G++  
		Sbjct: 240 VMPYRAMPKT--NTYTLPASLPQNQASYSIQASAGSYVAISKDGVLYGTGVANASGVATV 297
		
		Query: 261 HGNK-----KTYARTASEFGYLPLEHTLAVAE 287
		           +  K       Y    +   YLP+   +   E
		Sbjct: 298 NMTKQITENGNYDVVITRSNYLPVIKQIQAGE 329
		
		
	3251#c3330	TCRTETB#Tetracycline resistance protein TetB signature.	36	3e-04
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 36.0 bits (83), Expect = 3e-04
		 Identities = 53/338 (15%), Positives = 123/338 (36%), Gaps = 34/338 (10%)
		
		Query: 93  LGSLVLGWISDHIGRQKIFTFSFMLITLASFLQFFATTP-EHLIGLRILIGIGLGGDYSV 151
		           +G+ V G +SD +G +++  F  ++    S + F   +    LI  R + G G     ++
		Sbjct: 64  IGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPAL 123
		
		Query: 152 GHTLLAEFSPRRHRGILLGAFSVVWT----VGYVLASIAGHHFISESPEAWRWLLASAAL 207
		              ++A + P+ +RG   G    +      VG  +  +  H+        W +LL    +
		Sbjct: 124 VMVVVARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYI------HWSYLLLIPMI 177
		
		Query: 208 PALLITLLRWGTPESPRWLLRQGRFAEAHAIVHRYFGPHVLLGDEVATATHKHIKTLF-- 265
		             + +  L     +  R    +G F     I+        +L     + +   +  L   
		Sbjct: 178 TIITVPFLMKLLKKEVR---IKGHFDIKGIILMSVGIVFFMLFTTSYSISFLIVSVLSFL 234
		
		Query: 266 -SSRYWRRTA--------FNSVFFVCLVIPWFVIYT----WLPTIAQTIGLEDALTASLM 312
		              ++ R+            ++ F+  V+   +I+     ++  +   +     L+ + +
		Sbjct: 235 IFVKHIRKVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEI 294
		
		Query: 313 LNALLIVGALLGLVLTHLLAHRRFLLGSFLLLTATLVVMACLPSGSSLTLLLFVLFSTTI 372
		            + ++  G +  ++  ++        G   +L   +  ++      S     F+L +T+ 
		Sbjct: 295 GSVIIFPGTMSVIIFGYIGGILVDRRGPLYVLNIGVTFLS-----VSFLTASFLLETTSW 349
		
		Query: 373 SAVSNLVGILPAESFPTDIRSLGVGFATAMSRLGAAVS 410
		                +V +L   SF   + S  V  +      GA +S
		Sbjct: 350 FMTIIIVFVLGGLSFTKTVISTIVSSSLKQQEAGAGMS 387
		
		
	3253#c3332	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	107	1e-29
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score =  107 bits (267), Expect = 1e-29
		 Identities = 73/257 (28%), Positives = 117/257 (45%), Gaps = 11/257 (4%)
		
		Query: 36  MDFFSLKGKTAIVTGGNSGLGQAFAMALAKAGANVFIPSFVKDNGETKEMIEK-QGVEVD 94
		           M+   ++GK A +TG   G+G+A A  LA  GA++    +  +  E      K +    +
		Sbjct: 1   MNAKGIEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAE 60
		
		Query: 95  FMQVDITAEGAPQKIIAACCERFGTVDILVNNAGICKLNKVLDFGRADWDPMIDVNLTAA 154
		               D+    A  +I A      G +DILVN AG+ +   +      +W+    VN T  
		Sbjct: 61  AFPADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGV 120
		
		Query: 155 FELSYEAAKIMIPQKSGKIINICSLFSYLGGQWSPAYSATKHALAGFTKAYCDELGQYNI 214
		           F  S   +K M+ ++SG I+ + S  + +      AY+++K A   FTK    EL +YNI
		Sbjct: 121 FNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNI 180
		
		Query: 215 QVNGIAPGYYATDI--TLATRSNPETNQRVLDH-------IPANRWGDTQDLMGAAVFLA 265
		           + N ++PG   TD+  +L    N    Q +          IP  +     D+  A +FL 
		Sbjct: 181 RCNIVSPGSTETDMQWSLWADENGAE-QVIKGSLETFKTGIPLKKLAKPSDIADAVLFLV 239
		
		Query: 266 SPASNYVNGHLLVVDGG 282
		           S  + ++  H L VDGG
		Sbjct: 240 SGQAGHITMHNLCVDGG 256
		
		
	3254#c3333	TCRTETA#Tetracycline resistance protein signature.	29	0.036
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 29.0 bits (65), Expect = 0.036
		 Identities = 22/103 (21%), Positives = 45/103 (43%), Gaps = 8/103 (7%)
		
		Query: 48  GLIMSTFGIAAIILYAPSGVIADKFSHRKMITSAMIITGLLGLIMATYPPLWVMLCIQVA 107
		           G++++ + +         G ++D+F  R ++  ++    +   IMAT P LWV+   ++ 
		Sbjct: 46  GILLALYALMQFACAPVLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIV 105
		
		Query: 108 FAITTILMLWSVSIKAASLLGD---HSEQGKIMGWMEGLRGVG 147
		             IT      +    A + + D     E+ +  G+M    G G
		Sbjct: 106 AGITG-----ATGAVAGAYIADITDGDERARHFGFMSACFGFG 143
		
		
	3258#c3337	56KDTSANTIGN#Rickettsia 56kDa type-specific antigen protein sign...	28	0.041
		>56KDTSANTIGN#Rickettsia 56kDa type-specific antigen protein
		           signature.
		          Length = 533
		
		 Score = 27.6 bits (61), Expect = 0.041
		 Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 12/74 (16%)
		
		Query: 30  NASWSEVLNQYQRRTDLIPNLVASIKGYSSHEQEVLEAVTLARSQANRASSDLQKTPGDE 89
		           +AS  ++ ++ Q   D +  L  S  GY            +  +  N+   +    P  +
		Sbjct: 294 SASIEQIQSKIQELGDTLEELRDSFDGY------------INNAFVNQIHLNFVMPPQAQ 341
		
		Query: 90  QKLQAWQQAQAQVT 103
		           Q+    QQ QAQ T
		Sbjct: 342 QQQGQGQQQQAQAT 355
		
		
c3384	c3407	Y	Y	Y	c3367	c3408
	c3384	-3	18	4.045828	Membrane-bound lytic murein transglycosylase A
	c3385	-1	20	4.530426	***Hypothetical protein
	c3386	0	23	5.098565	Conserved hypothetical protein
	c3387	2	26	7.523245	Hypothetical protein
	c3388	0	25	6.551767	Hypothetical protein
	c3389	-1	23	5.352857	Hypothetical protein
	c3390	-1	17	3.079103	Hypothetical protein
	c3391	-1	18	3.168326	Secreted protein Hcp
	c3392	0	16	2.888451	ClpB protein
	c3393	1	16	3.149758	Hypothetical protein
	c3394	0	18	4.240698	Hypothetical protein
	c3395	-1	19	5.466399	Hypothetical protein
	c3396	-1	22	6.421044	Hypothetical protein
	c3397	-1	22	6.458530	Hypothetical protein
	c3398	-1	24	6.961966	Hypothetical protein
	c3399	-2	23	6.112430	Hypothetical protein
	c3400	-2	18	2.877888	Hypothetical protein
	c3401	0	20	-1.635565	Hypothetical protein
	c3402	2	25	-4.790229	Hypothetical protein
	c3403	1	26	-5.882744	Hypothetical protein
	c3404	1	32	-10.198976	Hypothetical protein
	c3405	1	32	-10.778849	2-hydroxyacid dehydrogenase
	c3406	-1	24	-8.583837	Phosphosugar isomerase
	c3407	-1	19	-6.576897	Beta-cystathionase
	3307#c3389	OMPADOMAIN#OMPA domain signature.	81	1e-18
		>OMPADOMAIN#OMPA domain signature.
		          Length = 346
		
		 Score = 80.7 bits (199), Expect = 1e-18
		 Identities = 44/142 (30%), Positives = 63/142 (44%), Gaps = 14/142 (9%)
		
		Query: 415 PEQKMEVTASLQVQTVRLDSMSLFDVGQARLKDGSTKVL---VDALVNIRAKPGWLILVA 471
		                     +Q +   L S  LF+  +A LK      L      L N+  K G  ++V 
		Sbjct: 200 VAPAPAPAPEVQTKHFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDPKDG-SVVVL 258
		
		Query: 472 GYTDATGDEKSNQQLSLRRAEAVRNWMLQTSDIPATCFAVQGLGESQPAATNDTPQGR-- 529
		           GYTD  G +  NQ LS RRA++V ++ L +  IPA   + +G+GES P   N     +  
		Sbjct: 259 GYTDRIGSDAYNQGLSERRAQSVVDY-LISKGIPADKISARGMGESNPVTGNTCDNVKQR 317
		
		Query: 530 -------AVNRRVEISLVPRSD 544
		                  A +RRVEI +    D
		Sbjct: 318 AALIDCLAPDRRVEIEVKGIKD 339
		
		
	3310#c3392	HTHFIS#FIS bacterial regulatory protein HTH signature.	36	7e-04
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 36.0 bits (83), Expect = 7e-04
		 Identities = 36/190 (18%), Positives = 66/190 (34%), Gaps = 36/190 (18%)
		
		Query: 512 IMTLRQEGTDSTELQQQLRTHQGFAPLLALDVDARAVATVVADWTGIPLSSLLK------ 565
		           +  +     ++ +L  +++  +   P+L +      +  + A   G     L K      
		Sbjct: 52  VTDVVMPDENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGA-YDYLPKPFDLTE 110
		
		Query: 566 --DEQSDLLSMEQSLENR----------VVGQSPALCAIAQRL-RAAKTGLTPENGPQGV 612
		                   L+  +   ++          +VG+S A+  I + L R  +T LT        
		Sbjct: 111 LIGIIGRALAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLT-------- 162
		
		Query: 613 FLLTGPSGTGKTETALTLADTLFGGEKSLITINLSEYQEPHTVSQLKGSPPGYVGYGQGG 672
		            ++TG SGTGK   A  L D         + IN++        S+L G         + G
		Sbjct: 163 LMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGH--------EKG 214
		
		Query: 673 VLTEAVRKRP 682
		             T A  +  
		Sbjct: 215 AFTGAQTRST 224
		
		
	3319#c3401	ANTHRAXTOXNA#Anthrax toxin LF subunit signature.	29	0.010
		>ANTHRAXTOXNA#Anthrax toxin LF subunit signature.
		          Length = 800
		
		 Score = 29.3 bits (65), Expect = 0.010
		 Identities = 13/83 (15%), Positives = 35/83 (42%), Gaps = 9/83 (10%)
		
		Query: 33  ESKSVASAVFYKQIKILHLDFFSR---------SALNTDAEDTPLSTMVHVWQLKTREDF 83
		            +   +  V+Y+  K + LD  S+         + + + ++D+  S ++   + K + + 
		Sbjct: 161 INSEQSKEVYYEIGKGISLDIISKDKSLDPEFLNLIKSLSDDSDSSDLLFSQKFKEKLEL 220
		
		Query: 84  DKADYDTLFMQEEKTLEKDVLAK 106
		           +    D  F++E  T  +   + 
		Sbjct: 221 NNKSIDINFIKENLTEFQHAFSL 243
		
		
c3554	c3696	Y	Y	Y	c3539	c3578
	c3554	2	21	-3.122691	Hypothetical protein
	c3555	3	22	-3.123000	Hypothetical protein yqgA
	c3556	4	25	-2.991215	*Prophage P4 integrase
	c3557	4	22	-1.844491	ShiA homolog
	c3558	3	24	2.586244	Hypothetical protein
	c3559	4	24	1.018871	Hypothetical protein
	c3560	3	25	0.867828	Unknown protein encoded by ISEc8 within
	c3561	4	24	0.480612	Unknown protein encoded by ISEc8
	c3562	4	26	-1.509716	Hypothetical protein
	c3563	5	25	-2.881033	Unknown protein encoded by ISEc8 within
	c3564	7	33	-8.025412	Hypothetical protein
	c3565	6	36	-10.154830	Putative response regulator
	c3566	6	36	-10.842081	Hypothetical protein
	c3567	7	39	-11.434840	Hypothetical protein
	c3568	6	40	-11.653960	Hypothetical protein
	c3569	6	41	-11.633538	Hemolysin C
	c3570	5	38	-10.051226	Hemolysin A
	c3571	4	35	-9.499168	Hypothetical protein
	c3572	4	34	-8.768794	Hypothetical protein
	c3573	4	31	-7.416628	Hemolysin B
	c3574	4	31	-3.610873	Hemolysin D
	c3575	5	30	2.010472	Transposase insF for insertion sequence
	c3576	5	31	3.279951	Unknown in IS
	c3577	4	30	0.424821	Unknown protein encoded by ISEc8 within
	c3578	4	30	-2.568138	Unknown protein encoded by ISEc8 within
	c3579	5	36	-4.348754	Hypothetical protein
	c3580	7	38	-7.227493	Hypothetical protein
	c3581	7	39	-7.074572	Hypothetical protein
	c3582	7	38	-5.967696	PapX protein
	c3583	7	39	-3.470348	PapG protein
	c3584	7	39	-2.560297	PapF protein
	c3585	5	33	-0.463753	PapE protein
	c3586	5	31	0.518206	PapK protein
	c3587	5	30	-0.808310	Hypothetical protein
	c3588	5	30	-1.398392	PapJ protein
	c3589	4	26	-1.723957	PapD protein
	c3590	4	25	-0.756002	PapC protein
	c3591	3	29	-2.245794	PapH protein
	c3592	2	24	-1.388651	PapA protein
	c3593	0	24	0.803130	PapI protein
	c3594	1	24	0.212612	Putative Transposase
	c3595	1	29	-2.517469	Transposase
	c3596	3	31	-5.518257	Hypothetical protein in IS
	c3597	4	32	-5.877540	Transposase
	c3598	5	33	-6.748416	Hypothetical protein
	c3599	6	32	-5.484139	Hypothetical protein
	c3600	5	29	-4.505182	Hypothetical protein
	c3601	6	25	-3.516311	Hypothetical protein
	c3602	6	28	0.982825	Hypothetical protein
	c3603	6	27	1.241447	Hypothetical protein
	c3604	7	27	1.379311	Hypothetical protein
	c3605	8	25	0.843404	Hypothetical protein
	c3606	6	25	1.275601	Hypothetical protein
	c3607	6	25	1.524385	Hypothetical protein
	c3608	5	26	1.115782	Hypothetical protein
	c3609	6	26	0.995925	Hypothetical protein
	c3610	5	23	1.660012	Putative receptor
	c3611	4	20	2.441936	Transposase insD for insertion element
	c3612	4	19	1.369624	Transposase insC for insertion element
	c3613	3	20	-0.166932	Hypothetical protein
	c3614	3	26	-5.526973	Hypothetical protein
	c3615	3	26	-5.810420	Unknown in ISEc8
	c3616	5	32	-8.471547	Unknown in ISEc8
	c3617	4	33	-8.964409	Unknown in putative ISEc8
	c3618	3	24	-6.169013	Hypothetical protein
	c3619	4	23	-5.780543	secreted auto transpoter toxin
	c3620	3	16	-0.317528	Hypothetical protein
	c3621	2	17	0.665313	Hypothetical protein
	c3622	2	16	1.262726	Hypothetical protein
	c3623	3	18	1.910240	IutA protein
	c3624	3	17	2.269886	IucD protein
	c3625	4	19	2.030152	IucC protein
	c3626	5	22	1.145911	IucB protein
	c3627	6	22	-0.272986	IucA protein
	c3628	10	38	-5.100195	shiF protein
	c3629	13	48	-10.788882	Hypothetical protein
	c3630	13	49	-12.303972	Hypothetical protein yjhS precursor
	c3631	14	51	-12.858185	Hypothetical protein
	c3632	11	51	-11.883889	Hypothetical protein
	c3633	11	52	-11.598861	Hypothetical protein
	c3634	10	52	-11.492451	Hypothetical protein yjhT precursor
	c3635	9	52	-10.752270	Hypothetical protein yjhA precursor
	c3636	8	49	-9.147093	Hypothetical protein
	c3637	6	44	-7.991127	Putative sialic acid transporter
	c3638	4	32	-4.170644	Hypothetical protein yhcI
	c3639	5	24	-1.928275	N-acetylneuraminate lyase subunit
	c3640	5	25	4.744889	Unknown in ISEc8
	c3641	5	26	5.158968	Unknown in ISEc8
	c3642	4	27	5.464809	Hypothetical protein
	c3643	4	28	6.013237	Unknown in ISEc8
	c3644	2	29	6.230397	Hypothetical protein
	c3645	2	29	5.912643	Unknown protein encoded by ISEc8 within
	c3646	5	26	2.794271	Hypothetical protein
	c3647	3	25	-0.656809	Hypothetical protein
	c3648	4	25	-2.200579	Hypothetical protein
	c3649	5	26	-1.253150	Haemolysin expression modulating protein
	c3650	7	23	2.630154	Hypothetical protein
	c3651	7	23	2.656074	Hypothetical protein
	c3652	7	23	2.886442	Hypothetical protein yfjI
	c3653	7	23	4.925290	Hypothetical protein
	c3654	6	24	5.270847	Hypothetical protein yeeP
	c3655	6	24	4.890419	Antigen 43 precursor
	c3656	3	25	3.252880	Hypothetical protein
	c3657	2	25	4.026554	Unknown in ISEc8
	c3658	3	26	4.018339	Hypothetical protein
	c3659	4	23	2.893756	Unknown protein encoded by ISEc8
	c3660	5	23	2.377375	Unknown protein encoded by ISEc8
	c3661	5	23	2.342386	Hypothetical protein
	c3662	4	22	2.263897	Unknown protein encoded by ISEc8
	c3663	5	22	1.892531	Hypothetical protein
	c3664	5	23	2.042409	Hypothetical protein yeeR
	c3665	6	27	3.843907	Hypothetical protein
	c3666	6	28	5.348258	Hypothetical protein ykfF
	c3667	7	30	4.718324	Hypothetical protein
	c3668	7	29	4.458344	Hypothetical protein yafZ
	c3669	8	29	4.463328	Hypothetical protein yfjX
	c3670	7	30	4.615838	Hypothetical protein
	c3671	7	29	4.430670	Putative radC-like protein yeeS
	c3672	6	28	3.869999	Hypothetical protein
	c3673	5	29	4.117135	Hypothetical protein yeeT
	c3674	5	31	3.827922	Hypothetical protein
	c3675	6	26	1.377455	Hypothetical protein
	c3676	6	27	-0.160972	Hypothetical protein yeeU
	c3677	5	23	-4.101829	Hypothetical protein yeeV
	c3678	6	24	-5.408259	Conserved hypothetical protein
	c3679	6	25	-6.614174	Conserved hypothetical protein
	c3680	6	27	-7.655018	Conserved hypothetical protein
	c3681	1	27	-7.201788	Hypothetical protein
	c3682	0	19	-5.694207	Hypothetical protein
	c3683	-1	11	-2.191035	Hypothetical protein
	c3684	-2	12	-1.061453	Hypothetical protein
	c3685	-2	9	-0.560494	Hypothetical protein
	c3686	-3	10	-1.000462	Hypothetical protein yrbH
	c3687	-2	12	-3.246177	KpsE protein
	c3688	1	20	-6.062578	KpsD protein
	c3689	3	39	-12.574333	3-deoxy-manno-octulosonate cytidylyltransferase
	c3690	4	44	-14.724889	KpsC protein
	c3691	7	53	-18.445718	KpsS protein
	c3692	8	57	-19.934463	Hypothetical protein
	c3693	6	52	-18.560177	Hypothetical protein
	c3694	5	47	-16.400090	Hypothetical protein
	c3695	0	35	-11.452944	Hypothetical protein
	c3696	1	22	-4.130354	Putative glycerol-3-phosphate
	3482#c3564	PF06580#Sensor histidine kinase	42	3e-06
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 42.2 bits (99), Expect = 3e-06
		 Identities = 24/137 (17%), Positives = 54/137 (39%), Gaps = 24/137 (17%)
		
		Query: 360 LSIETRRLQLRIMMSHSLPLIRADISMIERVITNLLDNAVRH----TPPEGSIRLKVWQE 415
		           L + + + + R+   + +     D+ +   ++  L++N ++H     P  G I LK  ++
		Sbjct: 229 LQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKD 288
		
		Query: 416 DNRLHVEVADSGPGLTEDMRTHLFRRASVLCHEPSEEPRGGLGLLIVRRMLVLHGGD--- 472
		           +  + +EV ++G    +                 + +   G GL  VR  L +  G    
		Sbjct: 289 NGTVTLEVENTGSLALK-----------------NTKESTGTGLQNVRERLQMLYGTEAQ 331
		
		Query: 473 IRLTDSTTGACFRFFLP 489
		           I+L++          +P
		Sbjct: 332 IKLSEKQGKVNAMVLIP 348
		
		
	3483#c3565	HTHFIS#FIS bacterial regulatory protein HTH signature.	90	1e-22
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 89.5 bits (222), Expect = 1e-22
		 Identities = 35/129 (27%), Positives = 60/129 (46%)
		
		Query: 7   KILLMEDDYDIAALLRLNLQDEGYQIVHEADGARARLLLDKQTWDAVILDLMLPNVNGLE 66
		            IL+ +DD  I  +L   L   GY +   ++ A     +     D V+ D+++P+ N  +
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 67  ICRYIRQMTRYLPVIIISARTSETHRVLGLEMGADDYLPKPFSIPELIARIKALFRRQEA 126
		           +   I++    LPV+++SA+ +    +   E GA DYLPKPF + ELI  I       + 
		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124
		
		Query: 127 MGQNILLAG 135
		               +    
		Sbjct: 125 RPSKLEDDS 133
		
		
	3487#c3569	RTXTOXINC#Gram-negative bacterial RTX toxin-activating protein C...	317	e-114
		>RTXTOXINC#Gram-negative bacterial RTX toxin-activating protein C
		           signature.
		          Length = 170
		
		 Score =  317 bits (815), Expect = e-114
		 Identities = 161/170 (94%), Positives = 167/170 (98%)
		
		Query: 55  MNMNNPLEVLGHVSWLWASSPLHRNWPVSLFAINVLPAIRANQYALLTRDNYPVAYCSWA 114
		           MN+N PLE+LGHVSWLWASSPLHRNWPVSLFAINVLPAI+ANQY LLTRD+YPVAYCSWA
		Sbjct: 1   MNINKPLEILGHVSWLWASSPLHRNWPVSLFAINVLPAIQANQYVLLTRDDYPVAYCSWA 60
		
		Query: 115 NLSLENEIKYLNDVTSLVAEDWTSGDRKWFIDWIAPFGDNGALYKYMRKKFPDELFRAIR 174
		           NLSLENEIKYLNDVTSLVAEDWTSGDRKWFIDWIAPFGDNGALYKYMRKKFPDELFRAIR
		Sbjct: 61  NLSLENEIKYLNDVTSLVAEDWTSGDRKWFIDWIAPFGDNGALYKYMRKKFPDELFRAIR 120
		
		Query: 175 VDPKTHVGKVSEFHGGKIDKQLANKIFKQYYHELITEVKNKTDFNFSLTG 224
		           VDPKTHVGKVSEFHGGKIDKQLANKIFKQY+HELITEVK K+DFNFSLTG
		Sbjct: 121 VDPKTHVGKVSEFHGGKIDKQLANKIFKQYHHELITEVKRKSDFNFSLTG 170
		
		
	3488#c3570	RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family...	1484	0.0
		>RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family
		            signature.
		          Length = 1024
		
		 Score = 1484 bits (3843), Expect = 0.0
		 Identities = 988/1024 (96%), Positives = 1001/1024 (97%)
		
		Query: 1    MPTITTAQIKSTLQSAKQSSANKLHSAGQSTKDALKKAAEQTRNAGNRLILLIPKDYKGQ 60
		            M TITTAQIKSTLQSAKQS+ANKLHSAGQSTKDALKKAAEQTRNAGNRLILLIPKDYKGQ
		Sbjct: 1    MTTITTAQIKSTLQSAKQSAANKLHSAGQSTKDALKKAAEQTRNAGNRLILLIPKDYKGQ 60
		
		Query: 61   GSSLNDLVRTADELGIEVQYDEKNGTAITKQVFGTAEKLIGLTERGVTIFAPQLDKLLQK 120
		            GSSLNDLVRTADELGIEVQYDEKNGTAITKQVFGTAEKLIGLTERGVTIFAPQLDKLLQK
		Sbjct: 61   GSSLNDLVRTADELGIEVQYDEKNGTAITKQVFGTAEKLIGLTERGVTIFAPQLDKLLQK 120
		
		Query: 121  YQKAGNKLGGSAENIGDNLGKAGSVLSTFQNFLGTALSSMKIDELIKRQKSGSNVSSSEL 180
		            YQKAGN LGG AENIGDNLGKAG +LSTFQNFLGTALSSMKIDELIK+QKSG NVSSSEL
		Sbjct: 121  YQKAGNILGGGAENIGDNLGKAGGILSTFQNFLGTALSSMKIDELIKKQKSGGNVSSSEL 180
		
		Query: 181  AKASIELINQLVDTAASINNNVNSFSQQLNKLGSVLSNTKHLTGVGNKLQNLPNLDNIGA 240
		            AKASIELINQLVDT AS+NNNVNSFSQQLN LGSVLSNTKHL GVGNKLQNLPNLDNIGA
		Sbjct: 181  AKASIELINQLVDTVASLNNNVNSFSQQLNTLGSVLSNTKHLNGVGNKLQNLPNLDNIGA 240
		
		Query: 241  GLDTVSGILSAISASFILSNADADTGTKAAAGVELTTKVLGNVGKGISQYIIAQRAAQGL 300
		            GLDTVSGILSAISASFILSNADADT TKAAAGVELTTKVLGNVGKGISQYIIAQRAAQGL
		Sbjct: 241  GLDTVSGILSAISASFILSNADADTRTKAAAGVELTTKVLGNVGKGISQYIIAQRAAQGL 300
		
		Query: 301  STSAAAAGLIASVVTLAISPLSFLSIADKFKRANKIEEYSQRFKKLGYDGDSLLAAFHKE 360
		            STSAAAAGLIAS VTLAISPLSFLSIADKFKRANKIEEYSQRFKKLGYDGDSLLAAFHKE
		Sbjct: 301  STSAAAAGLIASAVTLAISPLSFLSIADKFKRANKIEEYSQRFKKLGYDGDSLLAAFHKE 360
		
		Query: 361  TGAIDASLTTISTVLASVSSGISAAATTSLVGAPVSALVGAVTGIISGILEASKQAMFEH 420
		            TGAIDASLTTISTVLASVSSGISAAATTSLVGAPVSALVGAVTGIISGILEASKQAMFEH
		Sbjct: 361  TGAIDASLTTISTVLASVSSGISAAATTSLVGAPVSALVGAVTGIISGILEASKQAMFEH 420
		
		Query: 421  VASKMADVIAEWEKKHGKNYFENGYDARHAAFLEDNFKILSQYNKEYSVERSVLITQQHW 480
		            VASKMADVIAEWEKKHGKNYFENGYDARHAAFLEDNFKILSQYNKEYSVERSVLITQQHW
		Sbjct: 421  VASKMADVIAEWEKKHGKNYFENGYDARHAAFLEDNFKILSQYNKEYSVERSVLITQQHW 480
		
		Query: 481  DTLIGELAGVTRNGDKTLSGKSYIDYYEEGKRLEKKPDEFQKQVFDPLKGNIDLSDSKSS 540
		            DTLIGELAGVTRNGDKTLSGKSYIDYYEEGKRLEKK DEFQKQVFDPLKGNIDLSDSKSS
		Sbjct: 481  DTLIGELAGVTRNGDKTLSGKSYIDYYEEGKRLEKKXDEFQKQVFDPLKGNIDLSDSKSS 540
		
		Query: 541  TLLKFVTPLLTPGEEIRERRQSGKYEYITELLVKGVDKWTVKGVQDKGSVYDYSNLIQHA 600
		            TLLKFVTPLLTPGEEIRERRQSGKYEYITELLVKGVDKWTVKGVQDKG+VYDYSNLIQHA
		Sbjct: 541  TLLKFVTPLLTPGEEIRERRQSGKYEYITELLVKGVDKWTVKGVQDKGAVYDYSNLIQHA 600
		
		Query: 601  SVGNNQYREIRIESHLGDGDDKVFLSAGSANIYAGKGHDVVYYDKTDTGYLTIDGTKATE 660
		            SVGNNQYREIRIESHLGDGDDKVFLSAGSANIYAGKGHDVVYYDKTDTGYLTIDGTKATE
		Sbjct: 601  SVGNNQYREIRIESHLGDGDDKVFLSAGSANIYAGKGHDVVYYDKTDTGYLTIDGTKATE 660
		
		Query: 661  AGNYTVTRVLGGDVKILQEVVKEQEVSVGKRTEKTQYRSYEFTHINGKNLTETDNLYSVE 720
		            AGNYTVTRVLGGDVK+LQEVVKEQEVSVGKRTEKTQYRSYEFTHINGKNLTETDNLYSVE
		Sbjct: 661  AGNYTVTRVLGGDVKVLQEVVKEQEVSVGKRTEKTQYRSYEFTHINGKNLTETDNLYSVE 720
		
		Query: 721  ELIGTTRADKFFGSKFTDIFHGADGDDHIEGNDGNDRLYGDKGNDTLRGGNGDDQLYGGD 780
		            ELIGTTRADKFFGSKFTDIFHGADGDD IEGNDGNDRLYGDKGNDTL GGNGDDQLYGGD
		Sbjct: 721  ELIGTTRADKFFGSKFTDIFHGADGDDLIEGNDGNDRLYGDKGNDTLSGGNGDDQLYGGD 780
		
		Query: 781  GNDKLIGGTGNNYLNGGDGDDELQVQGNSLAKNVLSGGKGNDKLYGSEGADLLDGGEGND 840
		            GNDKLIG  GNNYLNGGDGDDE QVQGNSLAKNVL GGKGNDKLYGSEGADLLDGGEG+D
		Sbjct: 781  GNDKLIGVAGNNYLNGGDGDDEFQVQGNSLAKNVLFGGKGNDKLYGSEGADLLDGGEGDD 840
		
		Query: 841  LLKGGYGNDIYRYLSGYGHHIIDDDGGKDDKLSLADIDFRDVAFRREGNDLIMYKAEGNV 900
		            LLKGGYGNDIYRYLSGYGHHIIDDDGGK+DKLSLADIDFRDVAF+REGNDLIMYK EGNV
		Sbjct: 841  LLKGGYGNDIYRYLSGYGHHIIDDDGGKEDKLSLADIDFRDVAFKREGNDLIMYKGEGNV 900
		
		Query: 901  LSIGHKNGITFRNWFEKESGDISNHQIEQIFDKDGRVITPDSLKKALEYQQSNNKASYVY 960
		            LSIGHKNGITFRNWFEKESGDISNH+IEQIFDK GR+ITPDSLKKALEYQQ NNKASYVY
		Sbjct: 901  LSIGHKNGITFRNWFEKESGDISNHEIEQIFDKSGRIITPDSLKKALEYQQRNNKASYVY 960
		
		Query: 961  GNDALAYGSQDNLNPLINEISKIISAAGNFDVKEERAAASLLQLSGNASDFSYGRNSITL 1020
		            GNDALAYGSQ +LNPLINEISKIISAAG+FDVKEER AASLLQLSGNASDFSYGRNSITL
		Sbjct: 961  GNDALAYGSQGDLNPLINEISKIISAAGSFDVKEERTAASLLQLSGNASDFSYGRNSITL 1020
		
		Query: 1021 TASA 1024
		            T SA
		Sbjct: 1021 TTSA 1024
		
		
	3492#c3574	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	599	0.0
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score =  599 bits (1547), Expect = 0.0
		 Identities = 463/478 (96%), Positives = 468/478 (97%)
		
		Query: 1   MKTWLMGFSEFLLRYKLVWSETWKIRKQLDTPVREKDENEFLPAHLELIETPVSRRPRLV 60
		           MKTWLMGFSEFLLRYKLVWSETWKIRKQLDTPVREKDENEFLPAHLELIETPVSRRPRLV
		Sbjct: 1   MKTWLMGFSEFLLRYKLVWSETWKIRKQLDTPVREKDENEFLPAHLELIETPVSRRPRLV 60
		
		Query: 61  AYFIMGFLVIAVILSVLGQVEIVATANGKLTLSGRSKEIKPIENSIVKEIIVKEGESVRK 120
		           AYFIMGFLVIA ILSVLGQVEIVATANGKLT SGRSKEIKPIENSIVKEIIVKEGESVRK
		Sbjct: 61  AYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGESVRK 120
		
		Query: 121 GDVLLKLTALGAEADTLKTQSSLLQTRLEQTRYQILSRSIELNKLPELKLPDEPYFQNVS 180
		           GDVLLKLTALGAEADTLKTQSSLLQ RLEQTRYQILSRSIELNKLPELKLPDEPYFQNVS
		Sbjct: 121 GDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVS 180
		
		Query: 181 EEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTILARINRYENLSRVEKSRLDDF 240
		           EEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLT+LARINRYENLSRVEKSRLDDF
		Sbjct: 181 EEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLDDF 240
		
		Query: 241 RSLLHKQAIAKHAVLEQENKYVEAANELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEI 300
		            SLLHKQAIAKHAVLEQENKYVEA NELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEI
		Sbjct: 241 SSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEI 300
		
		Query: 301 LDKLRQTTDNIELLTLELEKNEERQQASVIRAPVSGKVQQLKVHTEGGVVTTAETLMVIV 360
		           LDKLRQTTDNI LLTLEL KNEERQQASVIRAPVS KVQQLKVHTEGGVVTTAETLMVIV
		Sbjct: 301 LDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIV 360
		
		Query: 361 PEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQKLGL 420
		           PEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQ+LGL
		Sbjct: 361 PEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQRLGL 420
		
		Query: 421 VFNVIVSVEENDLSTGNKHIPLSSGMAVTAEIKTGMRSVISYLLSPLEESVTESLHER 478
		           VFNVI+S+EEN LSTGNK+IPLSSGMAVTAEIKTGMRSVISYLLSPLEESVTESL ER
		Sbjct: 421 VFNVIISIEENCLSTGNKNIPLSSGMAVTAEIKTGMRSVISYLLSPLEESVTESLRER 478
		
		
	3501#c3583	PF03627#PapG	603	0.0
		>PF03627#PapG
		          Length = 336
		
		 Score =  603 bits (1555), Expect = 0.0
		 Identities = 333/336 (99%), Positives = 335/336 (99%)
		
		Query: 1   MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT 60
		           MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT
		Sbjct: 1   MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT 60
		
		Query: 61  WNQCNGPEFADGSWAYYREYIAWVVFPKKVMTKNGYPLFIEVHNKGSWSEENTGDNDSYF 120
		           WNQCNGP FADGSWAYYREYIAWVVFPKKVMTKNGYPLFIEVHNKGSWSEENTGDNDSYF
		Sbjct: 61  WNQCNGPGFADGSWAYYREYIAWVVFPKKVMTKNGYPLFIEVHNKGSWSEENTGDNDSYF 120
		
		Query: 121 FLKGYKWDERAFDAGNLCQKPGETTRLTEKFNDIIFKVALPADLPLGDYSVTIPYTSGIQ 180
		           FLKGYKWDERAFDAGNLCQKPGETTRLTEKF+DIIFKVALPADLPLGDYSVTIPYTSG+Q
		Sbjct: 121 FLKGYKWDERAFDAGNLCQKPGETTRLTEKFDDIIFKVALPADLPLGDYSVTIPYTSGMQ 180
		
		Query: 181 RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY 240
		           RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY
		Sbjct: 181 RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY 240
		
		Query: 241 AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY 300
		           AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY
		Sbjct: 241 AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY 300
		
		Query: 301 KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP 336
		           KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP
		Sbjct: 301 KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP 336
		
		
	3502#c3584	FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein...	267	5e-95
		>FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein
		           signature.
		          Length = 167
		
		 Score =  267 bits (683), Expect = 5e-95
		 Identities = 155/167 (92%), Positives = 156/167 (93%), Gaps = 1/167 (0%)
		
		Query: 11  MARLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE 70
		           M RLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE
		Sbjct: 1   MIRLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE 60
		
		Query: 71  VTKTISISCTYKSGSPWIKVTGNAMA-GQTNVLATNIANFGIALYQGKGMSTPLTLGNGS 129
		           VTK ISISC YKSGS WIKVTGN M  GQ NVLATNI +FGIALYQGKGMSTPLTLGNGS
		Sbjct: 61  VTKNISISCPYKSGSLWIKVTGNTMGVGQNNVLATNITHFGIALYQGKGMSTPLTLGNGS 120
		
		Query: 130 GNGYRVTAGLDTARSTFTFTSVPFRNGSRTLNGGDFRTTASMSMIYN 176
		           GNGYRVTAGLDTARSTFTFTSVPFRNGS  LNGGDFRTTASMSMIYN
		Sbjct: 121 GNGYRVTAGLDTARSTFTFTSVPFRNGSGILNGGDFRTTASMSMIYN 167
		
		
	3503#c3585	FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein...	306	e-110
		>FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein
		           signature.
		          Length = 173
		
		 Score =  306 bits (784), Expect = e-110
		 Identities = 128/173 (73%), Positives = 145/173 (83%)
		
		Query: 7   MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVTKAEVDWGNVEIQTLSQNG 66
		           MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTV  AEV+WG++EIQ L Q+G
		Sbjct: 1   MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVQNAEVNWGDIEIQNLVQSG 60
		
		Query: 67  NHEKEFTVNMQCPYHLGTMKVTITATNTYNNAILVQNTSNTSSDGVLVYLYNSNAGNIGT 126
		            ++K+FTV+M CPY LGTMKVTIT+     N+ILV NTS  S DG+L+YLYNSN   IG 
		Sbjct: 61  GNQKDFTVDMNCPYSLGTMKVTITSNGQTGNSILVPNTSTASGDGLLIYLYNSNNSGIGN 120
		
		Query: 127 AITLGTPFTPGKITGNNADRTISLHAKLGYKGNMQSLKAGDFSATATLVASYS 179
		           A+TLG+  TPGKITG    R I+L+AKLGYKGNMQSL+AG FSATATLVASYS
		Sbjct: 121 AVTLGSQVTPGKITGTAPARKITLYAKLGYKGNMQSLQAGTFSATATLVASYS 173
		
		
	3508#c3590	PF00577#Outer membrane usher protein FimD	742	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score =  742 bits (1917), Expect = 0.0
		 Identities = 243/882 (27%), Positives = 362/882 (41%), Gaps = 67/882 (7%)
		
		Query: 2   MRGMKDRI-PFAVNNITCVILLSLFCNAASAVEFNTDVLDAADKKNIDFTRFSEAGYVLP 60
		           +   K R+  F V         +    +++ + FN   L    +   D +RF     + P
		Sbjct: 16  LHIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQAVADLSRFENGQELPP 75
		
		Query: 61  GQYLLDVIVNGQSISPASLQISFVEPQSSGDKAEKKLPQACLTSDMVRLMGLTAESLDKV 120
		           G Y +D+ +N   +  A+  ++F    S            CLT   +  MGL   S+  +
		Sbjct: 76  GTYRVDIYLNNGYM--ATRDVTFNTGDSEQGI------VPCLTRAQLASMGLNTASVSGM 127
		
		Query: 121 VYWHDGQCADF-HGLPGVDIRPDTGAGVLRINMPQAWLEYSDATWLPPSRWDDGIPGLML 179
		               D  C      +     + D G   L + +PQA++      ++PP  WD GI   +L
		Sbjct: 128 NLLADDACVPLTSMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLL 187
		
		Query: 180 DYNLNGTVSRNYQGGDSHQFSYNGTVGGNLGPWRLRADYQGSQEQSRYNGEKTTNRNFTW 239
		           +YN +G   +N  GG+SH    N   G N+G WRLR +   S   S  +    +   +  
		Sbjct: 188 NYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSS--DSSSGSKNKWQH 245
		
		Query: 240 SRFYLFRAIPRWRANLTLGENNINSDIFRSWSYTGASLESDDRMLPPRLRGYAPQITGIA 299
		              +L R I   R+ LTLG+     DIF   ++ GA L SDD MLP   RG+AP I GIA
		Sbjct: 246 INTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIA 305
		
		Query: 300 ETNARVVVSQQGRVLYDSMVPAGPFSIQDLD-SSVRGRLDVEVIEQNGRKKTFQVDTASV 358
		              A+V + Q G  +Y+S VP GPF+I D+  +   G L V + E +G  + F V  +SV
		Sbjct: 306 RGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSV 365
		
		Query: 359 PYLTRPGQVRYKLVSGRSRGYGHETEGPVFATGEASWGLSNQWSLYGGAVLAGDYNALAA 418
		           P L R G  RY + +G  R    + E P F       GL   W++YGG  LA  Y A   
		Sbjct: 366 PLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRYRAFNF 425
		
		Query: 419 GAGWDLGVPGTLSADITQSVARIEGERTFQGKSWRLSYSKRFDNADADITFAGYRFSERN 478
		           G G ++G  G LS D+TQ+ + +  +    G+S R  Y+K  + +  +I   GYR+S   
		Sbjct: 426 GIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSG 485
		
		Query: 479 YMTMEQYLNARYR--------------------NDYSSREKEMYTVTLNKNVADWNTSFN 518
		           Y        +R                       + +  ++    +T+ + +   + +  
		Sbjct: 486 YFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRTS-TLY 544
		
		Query: 519 LQYSRQTYWDIRKTD-YYTVSVNRYFNVFGLQGVAVGLSASRSKYLGRD--NDSAYLRIS 575
		           L  S QTYW     D  +   +N  F       +   LS S +K   +   +    L ++
		Sbjct: 545 LSGSHQTYWGTSNVDEQFQAGLNTAFE-----DINWTLSYSLTKNAWQKGRDQMLALNVN 599
		
		Query: 576 VPLGT------------GTASYSGSMSND-RYVNMAGYTDM-FNDGLDSYSLNAGLNSGG 621
		           +P                +ASYS S   + R  N+AG       D   SYS+  G   GG
		Sbjct: 600 IPFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGG 659
		
		Query: 622 GLTSQRQINAYYSHRSPLANLSANIASLQKGYTSFGVSASGGATITGKGAALHAGGMSGG 681
		              S     A  ++R    N +    S            SGG      G  L  G     
		Sbjct: 660 DGNSGSTGYATLNYRGGYGNANIG-YSHSDDIKQLYYGVSGGVLAHANGVTL--GQPLND 716
		
		Query: 682 TRLLVDTDGVGGVPVDGGQVV-TNRWGTGVVTDISSYYRNTTSVDLKRLPDDVEATRSVV 740
		           T +LV   G     V+    V T+  G  V+   + Y  N  ++D   L D+V+   +V 
		Sbjct: 717 TVVLVKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVA 776
		
		Query: 741 ESALTEGAIGYRKFSVLKGKRLFAILRLADGSQPPFGASVTSEKGRELGMVADEGLAWLS 800
		               T GAI   +F    G +L   L   +    PFGA VTSE  +  G+VAD G  +LS
		Sbjct: 777 NVVPTRGAIVRAEFKARVGIKLLMTLT-HNNKPLPFGAMVTSESSQSSGIVADNGQVYLS 835
		
		Query: 801 GVTPGETLSVNW--DGKIQCQVNVPETAISDQQLL----LPC 836
		           G+     + V W  +    C  N      S QQLL      C
		Sbjct: 836 GMPLAGKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAEC 877
		
		
	3509#c3591	FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein...	32	0.001
		>FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein
		           signature.
		          Length = 173
		
		 Score = 31.5 bits (71), Expect = 0.001
		 Identities = 41/173 (23%), Positives = 75/173 (43%), Gaps = 29/173 (16%)
		
		Query: 29  GMSLPEYWG----EEHVWWDGRAAFHGEVVRPACTLAMEDAWQIIDMGETPVRDL-QNGF 83
		           G+ LP   G     +HV       F G+++ PACT+   +    ++ G+  +++L Q+G 
		Sbjct: 6   GLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVQNAE----VNWGDIEIQNLVQSG- 60
		
		Query: 84  SGPERKFSLRLRNCEFNSQGGNLFSDSRIRVTFDGVRGET---PDKFNLSGQAKGINLQI 140
		            G ++ F++ + NC ++          ++ +T +G  G +   P+    SG    I L  
		Sbjct: 61  -GNQKDFTVDM-NCPYS------LGTMKVTITSNGQTGNSILVPNTSTASGDGLLIYLYN 112
		
		Query: 141 ADARGNIARAGKV-MPAIP--LTGNEEALDYTLRIVR----NGKKLEAGNYFA 186
		           ++    I  A  +     P  +TG   A   TL        N + L+AG + A
		Sbjct: 113 SNN-SGIGNAVTLGSQVTPGKITGTAPARKITLYAKLGYKGNMQSLQAGTFSA 164
		
		
	3518#c3600	HTHTETR#TetR bacterial regulatory protein HTH signature.	65	2e-15
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 65.0 bits (158), Expect = 2e-15
		 Identities = 34/197 (17%), Positives = 66/197 (33%), Gaps = 13/197 (6%)
		
		Query: 1   MSTYENILRITDTLIQQRGFLGFSYADLEKEIGIRKASIHHHFPRKTDLGIAYCQYKTEV 60
		             T ++IL +   L  Q+G    S  ++ K  G+ + +I+ HF  K+DL     +     
		Sbjct: 10  QETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESN 69
		
		Query: 61  FDRLNITLHN--VSSGVQRLRTYLDA-FAGCAERGEMCGIYAMLSDSHQFSPELQ--EAV 115
		              L +          +  LR  L               +  ++    +F  E+   +  
		Sbjct: 70  IGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQQA 129
		
		Query: 116 SQLAHQEI-QMIKDIITSGQNSGEFKTVLLPDELAVIVCSTLKGALMLNRLPPHDTYSGT 174
		            +    E    I+  +     +      L+    A+I+   + G LM N L    ++   
		Sbjct: 130 QRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISG-LMENWLFAPQSFDLK 188
		
		Query: 175 ------VNALIKMLDTR 185
		                 V  L++M    
		Sbjct: 189 KEARDYVAILLEMYLLC 205
		
		
	3521#c3603	ALARACEMASE#Alanine racemase signature.	30	0.003
		>ALARACEMASE#Alanine racemase signature.
		          Length = 356
		
		 Score = 29.7 bits (67), Expect = 0.003
		 Identities = 10/51 (19%), Positives = 20/51 (39%), Gaps = 2/51 (3%)
		
		Query: 34  TEDIAVTDAWLRAHPDDVEVIPLCRIQPRQYSHEQHIEELRAALARMLHMH 84
		              I + + +   H  D+E+    R+    +S+ Q      A L   L ++
		Sbjct: 73  KGPILMLEGFF--HAQDLEIYDQHRLTTCVHSNWQLKALQNARLKAPLDIY 121
		
		
	3526#c3608	HTHFIS#FIS bacterial regulatory protein HTH signature.	28	0.034
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 28.3 bits (63), Expect = 0.034
		 Identities = 8/39 (20%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
		
		Query: 84  NGAQFRQLCETTDWVDAGE-NVLLFGASGLGKSHLAAAI 121
		             A  +++      +   +  +++ G SG GK  +A A+
		Sbjct: 142 RSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180
		
		
	3533#c3615	PF06580#Sensor histidine kinase	33	0.002
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 32.9 bits (75), Expect = 0.002
		 Identities = 10/78 (12%), Positives = 31/78 (39%), Gaps = 8/78 (10%)
		
		Query: 19  QAEALRQKDQQLSLVEETEAFLRSALARAEEKIEEDEREIEHLRA--QIEKLRRMLFGTR 76
		           +A  L    +   ++      +R +L  +  +      E+  + +  Q+  ++   F   
		Sbjct: 183 RALILEDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQ---FE-- 237
		
		Query: 77  SEKLRREVEQAEALLKQR 94
		            ++L+ E +   A++  +
		Sbjct: 238 -DRLQFENQINPAIMDVQ 254
		
		
	3537#c3619	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	286	5e-81
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score =  286 bits (733), Expect = 5e-81
		 Identities = 192/900 (21%), Positives = 322/900 (35%), Gaps = 215/900 (23%)
		
		Query: 35  NRKLVATMLSLAVAGTVNA---ANIDISNVWARDYLDLAQNKGIFQPGATDVTITLKNGD 91
		           N+K     ++L VA  +     A +   +V  + + D A+NKG F  GAT+V +  KN  
		Sbjct: 3   NKKFKLNFIALTVAYALTPYTEAALVRDDVDYQIFRDFAENKGKFSVGATNVLVKDKNNK 62
		
		Query: 92  KF--SFHN-LSIPDFSGAAAS-GAATAIGGSYSVTVAH-----------------NKKNP 130
		               +  N + + DFS        AT I   Y V V H                 N  N 
		Sbjct: 63  DLGTALPNGIPMIDFSVVDVDKRIATLINPQYVVGVKHVSNGVSELHFGNLNGNMNNGNA 122
		
		Query: 131 QAAETQVYAQSSYRVVDRRNSN-------------------DFEIQRLNKFVVETVGATP 171
		           +A       ++ Y  V++                       D+ + RL+KFV E      
		Sbjct: 123 KAHRDVSSEENRYFSVEKNEYPTKLNGKTVTTEDQTQKRREDYYMPRLDKFVTEVAPIEA 182
		
		Query: 172 AETNPTTYSDALERYGIVTSDGSKKIIGFRAGSGGTSFI----NGESKISTNSAYS---- 223
		           +  +               +D +K     R GSG + FI    +  S I  N        
		Sbjct: 183 STAS---------SDAGTYNDQNKYPAFVRLGSG-SQFIYKKGDNYSLILNNHEVGGNNL 232
		
		Query: 224 -------HDLLSASLFEVTQWDSYGMMIYKNDKT-------------FRNLEIFGDSGSG 263
		                     ++ + ++V   ++ G++ + N K                N  + GDSGS 
		Sbjct: 233 KLVGDAYTYGIAGTPYKVN-HENNGLIGFGNSKEEHSDPKGILSQDPLTNYAVLGDSGSP 291
		
		Query: 264 AYLYDNKLEKWVLVGTTHGIASVNGDQLTWITKYNDKLVSELKDTYS----------HKI 313
		            ++YD +  KW+ +G+    A  N         Y  +   ++ +  S          +  
		Sbjct: 292 LFVYDREKGKWLFLGSYDFWAGYNKKSWQEWNIYKSQFTKDVLNKDSAGSLIGSKTDYSW 351
		
		Query: 314 NLNGNNVTIKNTDITLHQNNADTTGTQEKITKDKDIVFTNGGDVLFKDNLDFGSGGIIFD 373
		           + NG   TI   + +L   N D    ++K    K + F   G +   +N+D G+GG+ F+
		Sbjct: 352 SSNGKTSTITGGEKSL---NVDLADGKDKPNHGKSVTFEGSGTLTLNNNIDQGAGGLFFE 408
		
		Query: 374 EGHEYNINGQGFTFKGAGIDIGKESIVNWNALYSSDDVLHKIGPGTLNVQKKQG--ANIK 431
		             +E        T+KGAG+ + +   V W       D L KIG GTL V+       ++K
		Sbjct: 409 GDYEVKGTSDNTTWKGAGVSVAEGKTVTWKVHNPQYDRLAKIGKGTLIVEGTGDNKGSLK 468
		
		Query: 432 IGEGNVILNEEG------TFNNIYLASGNGKVILNKDNSLGNDQYAGIFFTKRGGTLDLN 485
		           +G+G VIL ++        F ++ + SG   ++LN D  +  +    I+F  RGG LDLN
		Sbjct: 469 VGDGTVILKQQTNGSGQHAFASVGIVSGRSTLVLNDDKQVDPN---SIYFGFRGGRLDLN 525
		
		Query: 486 GHNQTFTRIAATDDGTTITNSDTTKEAVLAINNEDSYIYHGNINGNIKLTHNINSQD--- 542
		           G++ TF  I   DDG  + N + T  + + I  E         + N    +NI++ D   
		Sbjct: 526 GNSLTFDHIRNIDDGARLVNHNMTNASNITITGESLI-----TDPNTITPYNIDAPDEDN 580
		
		Query: 543 ------KKTNAKL----------ILDGSVNTKNDVEV----SNASLTMQGHATEHAI--- 579
		                  K   +L           L    +T++++      SN +    G  ++ A    
		Sbjct: 581 PYAFRRIKDGGQLYLNLENYTYYALRKGASTRSELPKNSGESNENWLYMGKTSDEAKRNV 640
		
		Query: 580 ------------------------------FRSSANHCSLVFLCGTD------------- 596
		                                         F+  +     +   GT+             
		Sbjct: 641 MNHINNERMNGFNGYFGEEEGKNNGNLNVTFKGKSEQNRFLLTGGTNLNGDLTVEKGTLF 700
		
		Query: 597 ----WVTVLKETESSYNKKFNSDYKSNNQQTSFDQPDWKTGVFKFDTLHLN-NADFSISR 651
		                    ++     + K +  +  NN      + DW    FK  T+++  NA     R
		Sbjct: 701 LSGRPTPHARDIAGISSTKKDPHFAENN--EVVVEDDWINRNFKATTMNVTGNASLYSGR 758
		
		Query: 652 N-ANVEGNISA-NKSAITIGDKN-------------VYIDNLAGKNITNNGFDFKQ---- 692
		           N AN+  NI+A NK+ + IG K              V        +   N F+       
		Sbjct: 759 NVANITSNITASNKAQVHIGYKTGDTVCVRSDYTGYVTCTTDKLSDKALNSFNPTNLRGN 818
		
		Query: 693 ---TISTNLSIGETKFTGGI-TAHNSQIAIGDQAVVTLNGATF-----LDNTPISIDKGA 743
		              T S N  +G+    G I +  NSQ+ + + +   L G +      L N  I ++   
		Sbjct: 819 VNLTESANFVLGKANLFGTIQSRGNSQVRLTENSHWHLTGNSDVHQLDLANGHIHLNSAD 878
		
		
		
		 Score = 40.0 bits (93), Expect = 6e-05
		 Identities = 52/204 (25%), Positives = 89/204 (43%), Gaps = 42/204 (20%)
		
		Query: 792 GNANFI-ARNMASVTGNIYADDAATITLGQPETETPTISSAYQAW--------AETLLYG 842
		           GNA+    RN+A++T NI A + A + +G    +T  + S Y  +        ++  L  
		Sbjct: 750 GNASLYSGRNVANITSNITASNKAQVHIGYKTGDTVCVRSDYTGYVTCTTDKLSDKALNS 809
		
		Query: 843 FD-TAYRGAITAPK--------------------ATVSMN-NAIWHLNSQSSINRLETKD 880
		           F+ T  RG +   +                    + V +  N+ WHL   S +++L+  +
		Sbjct: 810 FNPTNLRGNVNLTESANFVLGKANLFGTIQSRGNSQVRLTENSHWHLTGNSDVHQLDLAN 869
		
		Query: 881 SMVRFTGDNG-----KFTTLTVNNLTIDDSAFVLRANLA--QADQLVVNKSLSGKNNLLL 933
		             +     +      K+ TLTVN+L+ + S + L  +L+  Q D++VV KS +G   L +
		Sbjct: 870 GHIHLNSADNSNNVTKYNTLTVNSLSGNGSFYYL-TDLSNKQGDKVVVTKSATGNFTLQV 928
		
		Query: 934 VDFIEKNGNSNGLNIDLVSAPKGT 957
		            D   K G  N   + L  A K  
		Sbjct: 929 AD---KTGEPNHNELTLFDASKAQ 949
		
		
	3543#c3625	PF04183#IucA / IucC family	816	0.0
		>PF04183#IucA / IucC family
		          Length = 580
		
		 Score =  816 bits (2109), Expect = 0.0
		 Identities = 566/580 (97%), Positives = 571/580 (98%)
		
		Query: 1   MNHKDWDFVNRRLVAKMLSEMEYEQVFHAESQGDDHYCINLPGAQWRFIAERGIWGWLWI 60
		           MNHKDWD VNRRLVAKMLSE+EYEQVFHAESQGDD YCINLPGAQWRFIAERGIWGWLWI
		Sbjct: 1   MNHKDWDLVNRRLVAKMLSELEYEQVFHAESQGDDRYCINLPGAQWRFIAERGIWGWLWI 60
		
		Query: 61  DAQTLRCTDEPVLAQTLLMQLKPVLSMSDATVAEHMQDLYATLLGDLQLLKARRGLSASD 120
		           DAQTLRC DEPVLAQTLLMQLK VLSMSDATVAEHMQDLYATLLGDLQLLKARRGLSASD
		Sbjct: 61  DAQTLRCADEPVLAQTLLMQLKQVLSMSDATVAEHMQDLYATLLGDLQLLKARRGLSASD 120
		
		Query: 121 LINLDADRLQCLLSGHPKFVFNKGRRGWGKEALERYAPEYANTFRLHWLAVKREHMIWRC 180
		           LINL+ADRLQCLLSGHPKFVFNKGRRGWGKEALERYAPEYANTFRLHWLAVKREHMIWRC
		Sbjct: 121 LINLNADRLQCLLSGHPKFVFNKGRRGWGKEALERYAPEYANTFRLHWLAVKREHMIWRC 180
		
		Query: 181 DNDLDIQQLLTAAMDPQEFTRFSQVWQENGLDHNWLPLPVHPWQWQQKIATDFIADFAEG 240
		           DN++DI QLLTAAMDPQEF RFSQVWQENGLDHNWLPLPVHPWQWQQKIATDFIADFAEG
		Sbjct: 181 DNEMDIHQLLTAAMDPQEFARFSQVWQENGLDHNWLPLPVHPWQWQQKIATDFIADFAEG 240
		
		Query: 241 RMVSLGEFGDQWLAQQSLRTLTNASRRGGLDIKLPLTIYNTSCYRGIPGRYIAAGPLASR 300
		           RMVSLGEFGDQWLAQQSLRTLTNASRRGGLDIKLPLTIYNTSCYRGIPGRYIAAGPLASR
		Sbjct: 241 RMVSLGEFGDQWLAQQSLRTLTNASRRGGLDIKLPLTIYNTSCYRGIPGRYIAAGPLASR 300
		
		Query: 301 WLQQVFATDATLVQSGAVILGEPAAGYVSHEGYAALARAPYRYQEMLGVIWRENPCRWLK 360
		           WLQQVFATDATLVQSGAVILGEPAAGYVSHEGYAALARAPYRYQEMLGVIWRENPCRWLK
		Sbjct: 301 WLQQVFATDATLVQSGAVILGEPAAGYVSHEGYAALARAPYRYQEMLGVIWRENPCRWLK 360
		
		Query: 361 PDESPVLMATLMECDENNQPLAGAYIDRSGLDAETWLTQLFRVVVVPLYHLLCRYGVALI 420
		           PDESPVLMATLMECDENNQPLAGAYIDRSGLDAETWLTQLFRVVVVPLYHLLCRYGVALI
		Sbjct: 361 PDESPVLMATLMECDENNQPLAGAYIDRSGLDAETWLTQLFRVVVVPLYHLLCRYGVALI 420
		
		Query: 421 AHGQNITLAMKEGVPQRVLLKDFQGDMRLVKEAFPEMDSLPQEVRDVTSRLSADYLIHDL 480
		           AHGQNITLAMKEGVPQRVLLKDFQGDMRLVKE FPEMDSLPQEVRDVTSRLSADYLIHDL
		Sbjct: 421 AHGQNITLAMKEGVPQRVLLKDFQGDMRLVKEEFPEMDSLPQEVRDVTSRLSADYLIHDL 480
		
		Query: 481 QTGHFVTVLRFISPLMVRLGVPERRFYQLLAAVLSDYMNKHPQMSERFALFSLFRPQIIR 540
		           QTGHFVTVLRFISPLMVRLGVPERRFYQLLAAVLSDYM KHPQMSERFALFSLFRPQIIR
		Sbjct: 481 QTGHFVTVLRFISPLMVRLGVPERRFYQLLAAVLSDYMKKHPQMSERFALFSLFRPQIIR 540
		
		Query: 541 VVLNPVKLTWPDQDGGSRMLPNYLENLQNPLWLVTQEYES 580
		           VVLNPVKLTWPD DGGSRMLPNYLE+LQNPLWLVTQEYES
		Sbjct: 541 VVLNPVKLTWPDLDGGSRMLPNYLEDLQNPLWLVTQEYES 580
		
		
	3545#c3627	PF04183#IucA / IucC family	340	e-112
		>PF04183#IucA / IucC family
		          Length = 580
		
		 Score =  340 bits (874), Expect = e-112
		 Identities = 104/480 (21%), Positives = 177/480 (36%), Gaps = 46/480 (9%)
		
		Query: 58  ELIIPLDEQKSLHFRVAYFSPTQHHRF-----AFPARLVTASGSYPVDFTTLSRLIIDKL 112
		           E +   + Q    + +    P    RF      +    + A      D   L++ ++ +L
		Sbjct: 24  EQVFHAESQGDDRYCIN--LPGAQWRFIAERGIWGWLWIDAQTLRCADEPVLAQTLLMQL 81
		
		Query: 113 RHQLFLPVPLCETFHQRVLESHAHTQQAIDARHDWTALREKALNFGEAEQALLTGHAFHP 172
		           +  L +         Q +  +     Q + AR   +A     LN  +  Q LL+GH    
		Sbjct: 82  KQVLSMSDATVAEHMQDLYATLLGDLQLLKARRGLSASDLINLNA-DRLQCLLSGHPKFV 140
		
		Query: 173 APKSHEPFNRREAERYLPDMAPHFPLRWFSVDKTQIAGES-LHLNLQQRLTRFAAENAPQ 231
		             K    + +   ERY P+ A  F L W +V +  +       +++ Q LT   A   PQ
		Sbjct: 141 FNKGRRGWGKEALERYAPEYANTFRLHWLAVKREHMIWRCDNEMDIHQLLT---AAMDPQ 197
		
		Query: 232 LLNELS--------DNQWLF-PLHPWQGEYLLQQGWCQALVAKGLIKDLGEAGTSWLPTT 282
		                S        D+ WL  P+HPWQ +  +   +     A+G +  LGE G  WL   
		Sbjct: 198 EFARFSQVWQENGLDHNWLPLPVHPWQWQQKIATDFIADF-AEGRMVSLGEFGDQWLAQQ 256
		
		Query: 283 SSRSLYCATSRD--MIKFSLSVRLTNSIRTLSVKEVKRGMRLARLAQ----TDGWQMLQ- 335
		           S R+L  A+ R    IK  L++  T+  R +  + +  G   +R  Q    TD   +   
		Sbjct: 257 SLRTLTNASRRGGLDIKLPLTIYNTSCYRGIPGRYIAAGPLASRWLQQVFATDATLVQSG 316
		
		Query: 336 ---VRFPTFRVMQEDGWAGLLDLNGNIMQESLFALRENLLVDQPKSQTNVLVSLTQAAPD 392
		              +  P    +  +G+A L        +      REN        ++ VL++      +
		Sbjct: 317 AVILGEPAAGYVSHEGYAALARAPYRYQEMLGVIWRENPCRWLKPDESPVLMATLMECDE 376
		
		Query: 393 GGDSLLVSAVKRLSDRLGITVQQAAHAWVDAYCQQVLKPLFTAEADYGLVLLAHQQNILV 452
		               L  + +    DR G+     A  W+    + V+ PL+     YG+ L+AH QNI +
		Sbjct: 377 NNQPLAGAYI----DRSGLD----AETWLTQLFRVVVVPLYHLLCRYGVALIAHGQNITL 428
		
		Query: 453 QMLGDLPVGFIYRDCQGSAFMPHATDWLDSIGEAQAENIFTHEQLLRYFPYYLLVNSTFA 512
		            M   +P   + +D QG   M    +    +     E       +        L++    
		Sbjct: 429 AMKEGVPQRVLLKDFQGD--MRLVKEEFPEMDSLPQE----VRDVTSRLSADYLIHDLQT 482
		
		
	3546#c3628	TCRTETA#Tetracycline resistance protein signature.	48	5e-08
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 47.5 bits (113), Expect = 5e-08
		 Identities = 81/375 (21%), Positives = 135/375 (36%), Gaps = 41/375 (10%)
		
		Query: 20  FSAGLLGIGQNGLLVVLPVLVIQTNLSLSV---WAALLMLGSMLFLPSSPWWGKQISRTG 76
		            +  L  +G   ++ VLP L+     S  V   +  LL L +++    +P  G    R G
		Sbjct: 12  STVALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGALSDRFG 71
		
		Query: 77  SKPVVLWALGGYGISFTLLGLGSVLMATSAITTAVGLGILIIARIAYGLTVSAMVPACQV 136
		            +PV+L +L G  + + ++     L             +L I RI  G+T +    A   
		Sbjct: 72  RRPVLLVSLAGAAVDYAIMATAPFLW------------VLYIGRIVAGITGATGAVAGAY 119
		
		Query: 137 WALQRAGEGNRMAALATISSGLSCGRLFGPLCAAAMLAIHPLAPLGLLMAAPVLALLMLL 196
		            A        R      +S+    G + GP+    M    P AP     A   L  L   
		Sbjct: 120 IA-DITDGDERARHFGFMSACFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGC 178
		
		Query: 197 RL------PGTPPQPTPEYKSVSLKRDCLPYLLCAILLAAAVSMMQLGLSPAL------T 244
		            L          P        ++  R      + A L+A    M  +G  PA        
		Sbjct: 179 FLLPESHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFGE 238
		
		Query: 245 RQFATDTTAISQQVAWLLGLSAVAALIAQFGVLRPQRLTPVALLLSAGVLMSGGLAIMLS 304
		            +F  D T I   +A    L ++A  +   G +  +     AL+L      +G + +  +
		Sbjct: 239 DRFHWDATTIGISLAAFGILHSLAQAMI-TGPVAARLGERRALMLGMIADGTGYILLAFA 297
		
		Query: 305 EQLWLFYPGCAVLSFGAALATPAYQLLLNDKLADGAGAGWLATSHTLGYGLCALLVPLVS 364
		            + W+ +P   +L+ G  +  PA Q +L+ +  D    G L             L  L S
		Sbjct: 298 TRGWMAFPIMVLLASG-GIGMPALQAMLS-RQVDEERQGQLQ----------GSLAALTS 345
		
		Query: 365 KTGVAIALIMAALFA 379
		            T +   L+  A++A
		Sbjct: 346 LTSIVGPLLFTAIYA 360
		
		
	3553#c3635	OUTRMMBRANEA#Outer membrane protein A signature.	30	0.012
		>OUTRMMBRANEA#Outer membrane protein A signature.
		          Length = 346
		
		 Score = 29.5 bits (66), Expect = 0.012
		 Identities = 24/135 (17%), Positives = 46/135 (34%), Gaps = 24/135 (17%)
		
		Query: 125 YQATPDLNLALRYRYDWKAFRQTDLDGNRARNDQHQFDGYVTYKINDSWLFAWQTTVYTK 184
		           YQ  P +   + Y +  +   +  ++    +    Q    + Y I D         +YT+
		Sbjct: 64  YQVNPYVGFEMGYDWLGRMPYKGSVENGAYKAQGVQLTAKLGYPITDDL------DIYTR 117
		
		Query: 185 V---------NNFKYGNHKKTATENAFVL--QYKMSPVFTPYIEYDYLDKQGVYKGKDNK 233
		           +          +  YG +  T     F    +Y ++P     +EY + +  G       +
		Sbjct: 118 LGGMVWRADTKSNVYGKNHDTGVSPVFAGGVEYAITPEIATRLEYQWTNNIGDAHTIGTR 177
		
		Query: 234 HEN-------SYRVG 241
		            +N       SYR G
		Sbjct: 178 PDNGMLSLGVSYRFG 192
		
		
	3555#c3637	TCRTETB#Tetracycline resistance protein TetB signature.	64	5e-13
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 63.7 bits (155), Expect = 5e-13
		 Identities = 64/401 (15%), Positives = 145/401 (36%), Gaps = 34/401 (8%)
		
		Query: 43  LLDGFDFVLISLVLTEVQHEFGLTTIEAASLISAAFISRWFGGLAIGALSDKMGRRMAMV 102
		                + +++++ L ++ ++F         + +A  ++   G    G LSD++G +  ++
		Sbjct: 24  FFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLL 83
		
		Query: 103 LSIVLFSLGTLACGLAPGYAVMFI-ARIVIGLGMAGEYGSSVTYVIESWPVHLRNKASGF 161
		             I++   G++   +   +  + I AR + G G A      +  V    P   R KA G 
		Sbjct: 84  FGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKENRGKAFGL 143
		
		Query: 162 LISGFSIGGGLAAQVYSIVVPLWGWRSLFFVGMLPILFAFYLRKNLPESDDWQKRQQENK 221
		           + S  ++G G+   +  ++     W  L  + M+ I+   +L K L +            
		Sbjct: 144 IGSIVAMGEGVGPAIGGMIAHYIHWSYLLLIPMITIITVPFLMKLLKKE----------- 192
		
		Query: 222 PVRTMVDILYREKNKYINILLSCIAFACLYVCFSGVTANAALITVMALCCAAVFIS---- 277
		            VR       +       I+L  +      +     T+ +    ++++    +F+     
		Sbjct: 193 -VRI------KGHFDIKGIILMSVGIVFFML---FTTSYSISFLIVSVLSFLIFVKHIRK 242
		
		Query: 278 ----FIYQGMGKRWPTGIMLMLVVMFCFLYGWPLQAFLPTWLKVDMQYSPETVALIFMLA 333
		               F+  G+GK  P  ++ +L     F       + +P  +K   Q S   +  + +  
		Sbjct: 243 VTDPFVDPGLGKNIPF-MIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFP 301
		
		Query: 334 G-FGSAAGSCIGGFMGDWLGTRK-AYVISLLIGQLVIIPVFLVDRDYVWLLGLLIFTQQV 391
		           G         IGG + D  G      +    +    +   FL++    ++  +++F    
		Sbjct: 302 GTMSVIIFGYIGGILVDRRGPLYVLNIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLG- 360
		
		Query: 392 FGQGIGALVPKIISGYFNVEQRAAGLGFIYNVGSLGGACAP 432
		                  ++  I+S     ++  AG+  +     L      
		Sbjct: 361 GLSFTKTVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGI 401
		
		
	3556#c3638	PF03309#Bvg accessory factor	32	0.002
		>PF03309#Bvg accessory factor
		          Length = 271
		
		 Score = 32.0 bits (73), Expect = 0.002
		 Identities = 16/67 (23%), Positives = 27/67 (40%), Gaps = 4/67 (5%)
		
		Query: 1  MITLAVDIGGTKISAALISDD---GSFLLKKQISTPHERCPDEMTGALRLLVSEMKGTAE 57
		          M+ LA+D+  T     LIS        + + +I T  E   DE+   +  L+ +      
		Sbjct: 1  ML-LAIDVRNTHTVVGLISGSGDHAKVVQQWRIRTEPEVTADELALTIDGLIGDDAERLT 59
		
		Query: 58 RFAVAST 64
		            +  ST
		Sbjct: 60 GASGLST 66
		
		
	3561#c3643	PF02370#M protein repeat	32	0.002
		>PF02370#M protein repeat
		          Length = 168
		
		 Score = 31.6 bits (71), Expect = 0.002
		 Identities = 20/103 (19%), Positives = 47/103 (45%), Gaps = 3/103 (2%)
		
		Query: 18  EQAEALRQRDLQLSLVEETEAFLRSALARAEEKIEEEEREIEYLRAQIEKLRRMLFGTRS 77
		           + +++ R+ D Q   +      LR    + ++KIEE E+E +  + + E+  +     + 
		Sbjct: 38  DSSDSKRENDPQYRALMGENQDLRKREGQYQDKIEELEKERKEKQERPERREKFERQHQD 97
		
		Query: 78  EKLQREVEQAEAQLKQREQESDRYSGREDDPQVPRQLRQSRHR 120
		           +  Q + ++ + + +Q E E  +      + Q+    RQ  +R
		Sbjct: 98  KHYQEQQKKHQQEQQQLEAEKQKL---AKEKQISDASRQGLNR 137
		
		
	3573#c3655	PRTACTNFAMLY#Pertactin virulence factor family signature.	42	2e-05
		>PRTACTNFAMLY#Pertactin virulence factor family signature.
		          Length = 910
		
		 Score = 41.6 bits (97), Expect = 2e-05
		 Identities = 87/417 (20%), Positives = 139/417 (33%), Gaps = 46/417 (11%)
		
		Query: 311 QNTGGALVTSTAATVTGTNRLGAFSVVAGKADNVVLENGGRLDVLSGHTATNTRVDDGGT 370
		           ++   + V      VT     GA + V+    + +  +GG   +  G  A    +     
		Sbjct: 194 EDLPPSRVVLRDTNVTAVPASGAPAAVSVLGASELTLDGGH--ITGGRAAGVAAMQGAVV 251
		
		Query: 371 ----LDIRNGGAATTVSMGNGGVLLADSGAAVSGTRSDGKAFSIGGGQA----DALMLEK 422
		                 IR G A    ++  G V     G AV G    G    +  G          +E 
		Sbjct: 252 HLQRATIRRGDAPAGGAVPGGAVP----GGAVPGGFGPGGFGPVLDGWYGVDVSGSSVEL 307
		
		Query: 423 GSSFTLNAGDTATDTTVNGGLFTARGGTLAGTTTLNNGAILTLSGKTV---NNDTLTIR- 478
		             S        A      G   T  GG+L+       G ++   G          L+I  
		Sbjct: 308 AQSIVEAPELGAAIRVGRGARVTVSGGSLSAPH----GNVIETGGARRFAPQAAPLSITL 363
		
		Query: 479 EGDALLQGGSLTGNGSVEKSGSGTLTVSNTTLTQKAVNLNEGTLTLNDSTVTTDVIAQRG 538
		           +  A  QG +L      E      LT++     Q  +   E       S    DV     
		Sbjct: 364 QAGAHAQGKALLYRVLPEPV---KLTLTGGADAQGDIVATELPSIPGTSIGPLDVALASQ 420
		
		Query: 539 TALKLTGSTVLNGAIDPTNVTLASDATWNIPDNATVQSVVDDLSHAGQIHF-TSSRTGTF 597
		                       GA    +     +ATW + DN+ V ++   L+  G + F   +  G F
		Sbjct: 421 ARWT--------GATRAVDSLSIDNATWVMTDNSNVGAL--RLASDGSVDFQQPAEAGRF 470
		
		Query: 598 VPATLKVKNLNGQNGTISLRVRPDMAQNNADRLVIDGGRATGKTILNLVNAGNSASGLAT 657
		               L V  L G +G   + V  D+  +  D+LV+    A+G+  L + N+G+  +   T
		Sbjct: 471 --KVLTVNTLAG-SGLFRMNVFADLGLS--DKLVVMQD-ASGQHRLWVRNSGSEPASANT 524
		
		Query: 658 SGKGIQVVEAINGATTEEGAFVQGNRLQAGAFNYSLNRDSDESWYLRSENAYRAEVP 714
		               + V   +  A T   A     ++  G + Y L  + +  W L    A  A  P
		Sbjct: 525 L---LLVQTPLGSAATFTLANK-DGKVDIGTYRYRLAANGNGQWSLVGAKAPPAPKP 577
		
		
	3580#c3662	CHANLCOLICIN#Channel forming colicin signature.	32	0.004
		>CHANLCOLICIN#Channel forming colicin signature.
		          Length = 522
		
		 Score = 32.0 bits (72), Expect = 0.004
		 Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 5/91 (5%)
		
		Query: 4   SLAHENARLRALLQTQQDTIRQMAEYNRLLSQRVAAYASEINRLKALVAKLQRMQFGKSS 63
		           + A   A   AL Q  +D + +   +N   +      A   N   A+ A+ +R++  K+ 
		Sbjct: 79  AQAKAKANRDALTQRLKDIVNEALRHNASRTPSATELAHANN--AAMQAEDERLRLAKAE 136
		
		Query: 64  EKLR---AKTERQIQEAQERISALQEEMAET 91
		           EK R      E+  QEA++R   ++ E AET
		Sbjct: 137 EKARKEAEAAEKAFQEAEQRRKEIEREKAET 167
		
		
	3612#c3694	SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD cha...	45	5e-07
		>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD
		           chaperone signature.
		          Length = 168
		
		 Score = 44.5 bits (105), Expect = 5e-07
		 Identities = 17/90 (18%), Positives = 33/90 (36%), Gaps = 7/90 (7%)
		
		Query: 238 AFHQY-KGRWAKAIDAYEKHTSINPLCAELYYRLGLSYDRCYQWDKAAENYRKALSLDEN 296
		           AF+QY  G++  A   ++    ++   +  +  LG       Q+D A  +Y     +D  
		Sbjct: 43  AFNQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAIMDIK 102
		
		Query: 297 HPYWHYRLGFVL------ERSQKYLDAAVA 320
		            P + +     L        ++  L  A  
		Sbjct: 103 EPRFPFHAAECLLQKGELAEAESGLFLAQE 132
		
		
		
		 Score = 33.0 bits (75), Expect = 0.004
		 Identities = 14/83 (16%), Positives = 32/83 (38%), Gaps = 1/83 (1%)
		
		Query: 265 ELYYRLGLSYDRCYQWDKAAENYRKALSLDENHPYWHYRLGFVLERSQKYLDAAVAYQFA 324
		           E  Y L  +  +  +++ A + ++    LD     +   LG   +   +Y  A  +Y + 
		Sbjct: 37  EQLYSLAFNQYQSGKYEDAHKVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYG 96
		
		Query: 325 AQSNIKHISIWYYRSGYAYAKAN 347
		           A  +IK    + + +     +  
		Sbjct: 97  AIMDIK-EPRFPFHAAECLLQKG 118
		
		
		
		 Score = 29.9 bits (67), Expect = 0.044
		 Identities = 16/84 (19%), Positives = 31/84 (36%), Gaps = 2/84 (2%)
		
		Query: 15  EYINGIS--LYKKKEWEKALLFFEKSIIKKTKHAESYFKAGICNLKLHRYEEAFKYISKA 72
		            +  G+        +++ A+  +    I   K     F A  C L+     EA   +  A
		Sbjct: 71  RFFLGLGACRQAMGQYDLAIHSYSYGAIMDIKEPRFPFHAAECLLQKGELAEAESGLFLA 130
		
		Query: 73  LELEPSNIQWKEQLEQCARHLDKL 96
		            EL     ++KE   + +  L+ +
		Sbjct: 131 QELIADKTEFKELSTRVSSMLEAI 154
		
		
	3614#c3696	LPSBIOSNTHSS#Lipopolysaccharide core biosynthesis protein signat...	46	6e-09
		>LPSBIOSNTHSS#Lipopolysaccharide core biosynthesis protein
		          signature.
		          Length = 166
		
		 Score = 45.6 bits (108), Expect = 6e-09
		 Identities = 23/92 (25%), Positives = 46/92 (50%), Gaps = 7/92 (7%)
		
		Query: 7  KVITFGTFDVLHIGHINILKRAKKMGDYLIVGVSSDYLNFSKKQRYPVYPETERLEIIR- 65
		            I  G+FD +  GH++I++R  ++ D + V V     N +K+   P++   ERLE I  
		Sbjct: 2  NAIYPGSFDPITFGHLDIIERGCRLFDQVYVAVLR---NPNKQ---PMFSVQERLEQIAK 55
		
		Query: 66 SLKFVDEVFIEESLELKGEYIKKFKADILVMG 97
		          ++  +    ++    L   Y ++ +A  ++ G
		Sbjct: 56 AIAHLPNAQVDSFEGLTVNYARQRQAGAILRG 87
		
		
c3750	c3767	Y	Y	N	c3735	c3774
	c3750	0	23	-5.959384	Putative regulator
	c3751	1	23	-5.742296	Hypothetical oxidoreductase ydfI
	c3752	0	19	-3.890649	Hypothetical zinc-type alcohol
	c3753	-1	18	-3.630954	Ureidoglycolate dehydrogenase
	c3754	-1	18	-3.624542	Putative c4-dicarboxylate transport system
	c3755	-2	11	-0.262947	Hypothetical protein
	c3756	-2	11	0.707868	c4-dicarboxylate permease
	c3757	-2	13	2.004206	Protein sufI precursor
	c3758	-2	12	0.999746	1-acyl-sn-glycerol-3-phosphate acyltransferase
	c3759	-2	13	1.331898	Hypothetical protein
	c3760	-2	12	1.455813	Topoisomerase IV subunit A
	c3761	-2	16	-1.874451	Putative binding protein ygiS precursor
	c3762	0	21	-4.765243	Hypothetical protein ygiV
	c3763	0	20	-5.050623	Protein ygiW precursor
	c3764	0	20	-4.988651	Transcriptional Regulatory protein qseB
	c3765	-1	20	-4.800091	Sensor protein qseC
	c3766	-1	26	-6.271561	Hypothetical protein
	c3767	-2	22	-3.284166	Conserved hypothetical protein
	3675#c3761	PF07675#Cleaved Adhesin	30	0.043
		>PF07675#Cleaved Adhesin
		          Length = 1358
		
		 Score = 29.7 bits (66), Expect = 0.043
		 Identities = 24/112 (21%), Positives = 47/112 (41%), Gaps = 16/112 (14%)
		
		Query: 35  SAAPLYAADVPANTPLAPQQVFRYNNHSDPGTLDPQKVEENTAAQIVL------------ 82
		           +  PL+     +N   A  + +    ++DP  +  Q +      ++V+            
		Sbjct: 421 ATGPLFTGTASSNLYSANFE-YLTPANADP-VVTTQNIIVTGQGEVVIPGGVYDYCITNP 478
		
		Query: 83  DLFEGLVWMDGEGQVQPAQAERWEILDGGKRYIFHLRSGLQWSDGQPLTAED 134
		           +   G +W+ G+G  QPA+ + +   + GK+Y F +R      DG  +  ED
		Sbjct: 479 EPASGKMWIAGDGGNQPARYDDF-AFEAGKKYTFTMRR-AGMGDGTDMEVED 528
		
		
	3678#c3764	HTHFIS#FIS bacterial regulatory protein HTH signature.	90	5e-23
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 89.9 bits (223), Expect = 5e-23
		 Identities = 30/129 (23%), Positives = 56/129 (43%)
		
		Query: 2   RILLIEDDMLIGDGIKTGLSKMGFRVDWFTQGRQGKEALYSAPYDAVILDLTLPGMDGRD 61
		            IL+ +DD  I   +   LS+ G+ V   +        + +   D V+ D+ +P  +  D
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 62  ILREWREKGQREPVLILTARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMRRTNG 121
		           +L   ++     PVL+++A++     ++    GA DYL KPF L E+   +   +     
		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124
		
		Query: 122 QASNELRHG 130
		           + S      
		Sbjct: 125 RPSKLEDDS 133
		
		
	3679#c3765	PF06580#Sensor histidine kinase	40	1e-05
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 40.2 bits (94), Expect = 1e-05
		 Identities = 38/176 (21%), Positives = 62/176 (35%), Gaps = 29/176 (16%)
		
		Query: 284 DRATRLVDQLLTLSRLDSLDNLQDVAEIPLEDLLQSSVMDIYHTAQQAKIDVRLTLKANG 343
		            +A  ++  L  L R  SL       ++ L D L  +V+D Y      + + RL  +   
		Sbjct: 191 TKAREMLTSLSELMRY-SLRYSNA-RQVSLADEL--TVVDSYLQLASIQFEDRLQFENQI 246
		
		Query: 344 IKRTGQ----PLLLSLLVRNLLDNAVRYSPQGSVVDVTLNADN----FIVRDNGPGVTPE 395
		                     P+L+  LV N + + +   PQG  + +    DN      V + G      
		Sbjct: 247 NPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKN 306
		
		Query: 396 ALARIGERFYRPPGQTATGSGLGLSIV-QRIAKLHGMNVDFG-NAEQGGFEAKVSW 449
		                          T   +G GL  V +R+  L+G       + +QG   A V  
		Sbjct: 307 ---------------TKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMVLI 347
		
		
c3787	c3794	Y	Y	N	c3772	c3811
	c3787	0	14	-3.118972	Putative disulfide isomerase
	c3788	0	13	-3.218890	Hypothetical protein ygiD
	c3789	0	17	-5.200843	Zinc transporter zupT
	c3790	0	17	-5.378524	Conserved hypothetical protein
	c3791	0	17	-4.938897	Hypothetical fimbrial-like protein ygiL
	c3792	-1	17	-4.851854	Hypothetical outer membrane usher protein yqiG
	c3793	-3	25	-5.592979	Hypothetical fimbrial chaperone yqiH precursor
	c3794	-3	23	-4.270527	Hypothetical protein
	3706#c3792	PF00577#Outer membrane usher protein FimD	689	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score =  689 bits (1780), Expect = 0.0
		 Identities = 234/878 (26%), Positives = 401/878 (45%), Gaps = 70/878 (7%)
		
		Query: 14  HAIKNALSG------VVCSLLFVLPVH--AVEFNVDMIDAEDRENIDISRFEKKGYIPPG 65
		           H  K+ L+G      V C+     P+    + FN   +  + +   D+SRFE    +PPG
		Sbjct: 17  HIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQAVADLSRFENGQELPPG 76
		
		Query: 66  RYLVRVQINKNMLPQTLILEWVKADNESGSLLCLTKENLTNFGLNTEFIESLQNIAGSEC 125
		            Y V + +N   +    +  +   D+E G + CLT+  L + GLNT  +  +  +A   C
		Sbjct: 77  TYRVDIYLNNGYMATRDV-TFNTGDSEQGIVPCLTRAQLASMGLNTASVSGMNLLADDAC 135
		
		Query: 126 LDLSQR-QELTTRLDKATMILSLSVPQAWLKYQATNWTPPEFWDTGITGFILDYNVYASQ 184
		           + L+    + T +LD     L+L++PQA++  +A  + PPE WD GI   +L+YN   + 
		Sbjct: 136 VPLTSMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLLNYNFSGNS 195
		
		Query: 185 YAPHHGDSTQNVSSYGTLGFNLGAWRLRSDYQYNQNFADGRSVNRDS-EFARTYLFRPIP 243
		                G ++         G N+GAWRLR +  ++ N +D  S +++  +   T+L R I 
		Sbjct: 196 VQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSKNKWQHINTWLERDII 255
		
		Query: 244 SWSSKFTMGQYDLSSNLYDTFHFTGASLESDESMLPPDLQGYAPQITGIAQTNAKVTVAQ 303
		              S+ T+G      +++D  +F GA L SD++MLP   +G+AP I GIA+  A+VT+ Q
		Sbjct: 256 PLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIARGTAQVTIKQ 315
		
		Query: 304 NGRVLYQTTVAPGPFTISDL-GQSFQGQLDVTVEEEDGRTSTFQVGSASIPYLTRKGQVR 362
		           NG  +Y +TV PGPFTI+D+      G L VT++E DG T  F V  +S+P L R+G  R
		Sbjct: 316 NGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSVPLLQREGHTR 375
		
		Query: 363 YKTSLGKPTSVGHNDINNPFFWTAEASWGWLNNVSLYGGGMFTADDYQAITTGIGFNLNQ 422
		           Y  + G+  S        P F+ +    G     ++YGG    AD Y+A   GIG N+  
		Sbjct: 376 YSITAGEYRSGNAQQE-KPRFFQSTLLHGLPAGWTIYGGTQL-ADRYRAFNFGIGKNMGA 433
		
		Query: 423 FGSLSFDVTGADASLQQQNSGNLRGYSYRFNYAKHFESTGSQITFAGYRFSDKDYVSMSE 482
		            G+LS D+T A+++L         G S RF Y K    +G+ I   GYR+S   Y + ++
		Sbjct: 434 LGALSVDMTQANSTLPDD--SQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSGYFNFAD 491
		
		Query: 483 YLSSRNGDESID--------------------NEKESYVISLNQYFETLELNSYLNVTRN 522
		              SR    +I+                    N++    +++ Q         YL+ +  
		Sbjct: 492 TTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRT-STLYLSGSHQ 550
		
		Query: 523 TYWDS-ASNTNYSVSVSKNFDIGDFKGISASLAVSRIR--WDDDEENQYYFSFSLPL--- 576
		           TYW +   +  +   ++       F+ I+ +L+ S  +  W    +     + ++P    
		Sbjct: 551 TYWGTSNVDEQFQAGLNTA-----FEDINWTLSYSLTKNAWQKGRDQMLALNVNIPFSHW 605
		
		Query: 577 --------QQNRNISYSMQRTGSSNTSQMISWYDS--SDRNNIWNISASATDDNIRDGEP 626
		                    ++ + SYSM    +   + +   Y +   D N  +++          +   
		Sbjct: 606 LRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGDGNSGS 665
		
		Query: 627 TLRGSYQHYSPWGRLNINGSVQPNQYNSVTAGWYGSLTATRHGVALHDYSYGDNARMMVD 686
		           T   +  +   +G  NI  S   +    +  G  G + A  +GV L      ++  ++V 
		Sbjct: 666 TGYATLNYRGGYGNANIGYSHS-DDIKQLYYGVSGGVLAHANGVTLGQPL--NDTVVLVK 722
		
		Query: 687 TDGISGIEINSNRTV-TNGLGIAVIPSLSNYTTSMLRVNNNDLPEGVDVENSVIRTTLTQ 745
		             G    ++ +   V T+  G AV+P  + Y  + + ++ N L + VD++N+V     T+
		Sbjct: 723 APGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVPTR 782
		
		Query: 746 GAIGYAKLNATTGYQIVGVIRQENGRFPPLGVNVTDKATGKDVGLVAEDGFVYLSGIQEN 805
		           GAI  A+  A  G +++  +   N +  P G  VT   + +  G+VA++G VYLSG+   
		Sbjct: 783 GAIVRAEFKARVGIKLLMTLTH-NNKPLPFGAMVTS-ESSQSSGIVADNGQVYLSGMPLA 840
		
		Query: 806 SILHLTWGD---NTCEVT---PPNQSNISESAIILPCK 837
		             + + WG+     C      PP       + +   C+
		Sbjct: 841 GKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAECR 878
		
		
c3854	c3876	Y	Y	N	c3839	c3882
	c3854	2	21	0.717576	Hypothetical protein yqjB
	c3855	0	22	0.163860	Protein yqjC precursor
	c3856	-3	20	2.255448	Hypothetical protein yqjD
	c3857	-2	18	1.983405	Hypothetical protein yqjE
	c3858	-1	17	1.675465	Hypothetical protein yqjK
	c3859	0	18	1.209716	Hypothetical protein yqjF
	c3862	0	19	3.083571	Hypothetical protein yhaH
	c3863	-1	17	3.009952	Hypothetical transcriptional regulator yhaJ
	c3864	-1	15	2.345939	Hypothetical protein yhaK
	c3865	0	16	2.049394	Hypothetical protein
	c3866	0	16	1.791745	Hypothetical protein yhaL
	c3867	-1	16	1.033619	Conserved hypothetical protein
	c3870	0	15	-0.645551	L-serine dehydratase 1
	c3871	-1	14	-2.459732	TdcF protein
	c3872	-1	13	-3.746053	Keto-acid formate acetyltransferase
	c3873	0	19	-7.106600	Putative conserved protein
	c3874	-1	15	-4.726005	Threonine/serine transporter
	c3875	-1	18	-4.140743	Threonine dehydratase catabolic
	c3876	-2	15	-3.019463	Tdc operon transcriptional activator
	3783#c3873	ACETATEKNASE#Acetate kinase family signature.	49	3e-11
		>ACETATEKNASE#Acetate kinase family signature.
		          Length = 400
		
		 Score = 49.0 bits (117), Expect = 3e-11
		 Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
		
		Query: 1   MNNRSNSFGERIVSSENARVICAVIPTNEEKMIALDAIHLGK 42
		            N       E I+S+ +++V   V+PTNEE MIA D   + +
		Sbjct: 358 KNKVRGE--EAIISTADSKVNVMVVPTNEEYMIAKDTEKIVE 397
		
		
c3904	c3924	Y	Y	N	c3889	c3928
	c3904	0	20	3.822374	Hypothetical protein yraP precursor
	c3905	0	21	3.356719	Hypothetical protein yraQ
	c3906	0	18	3.061611	Hypothetical protein yraR
	c3907	0	19	3.355875	Hypothetical protein yhbP
	c3908	-2	18	3.700051	Hypothetical protein yhbQ
	c3909	-2	19	3.318582	Hypothetical acetyltransferase yhbS
	c3910	-2	19	2.808880	Hypothetical protein yhbT
	c3911	-1	18	3.390350	Putative protease yhbU precursor
	c3912	0	20	2.914514	Hypothetical protein yhbV
	c3913	-1	18	1.681280	Hypothetical protein yhbW
	c3914	1	22	1.411833	Tryptophan-specific transport protein
	c3915	3	29	1.406708	Hypothetical protein
	c3916	4	30	1.631048	Cold-shock DEAD-box protein A
	c3917	3	26	0.990171	Hypothetical protein
	c3918	3	26	1.051774	Lipoprotein nlpI precursor
	c3919	4	32	1.695653	Hypothetical protein
	c3920	5	34	1.592226	Polyribonucleotide nucleotidyltransferase
	c3921	5	30	1.487760	30S ribosomal protein S15
	c3922	4	29	1.312059	tRNA pseudouridine synthase B
	c3923	5	28	0.842778	Ribosome-binding factor A
	c3924	3	26	0.886115	Translation initiation factor IF-2
	3816#c3906	NUCEPIMERASE#Nucleotide sugar epimerase signature.	29	0.014
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score = 29.0 bits (65), Expect = 0.014
		 Identities = 8/22 (36%), Positives = 13/22 (59%)
		
		Query: 4  VLITGATGLVGGHLLRMLINEP 25
		           L+TGA G +G H+ + L+   
		Sbjct: 3  YLVTGAAGFIGFHVSKRLLEAG 24
		
		
	3834#c3924	TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family ...	73	2e-15
		>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family
		           signature.
		          Length = 639
		
		 Score = 73.4 bits (180), Expect = 2e-15
		 Identities = 70/313 (22%), Positives = 110/313 (35%), Gaps = 77/313 (24%)
		
		Query: 396 IMGHVDHGKTSLLDYI-----RSTKVASGEAG-------------GITQHIGAYHVETEN 437
		           ++ HVD GKT+L + +       T++ S + G             GIT   G    + EN
		Sbjct: 8   VLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWEN 67
		
		Query: 438 GMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAGVPVVVAV 497
		             +  +DTPGH  F +   R     D  +L+++A DGV  QT       +  G+P +  +
		Sbjct: 68  TKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPTIFFI 127
		
		Query: 498 NKIDKPEADPDRV----KNELSQYGI-----------------LPEEWG----------- 525
		           NKID+   D   V    K +LS   +                   E+W            
		Sbjct: 128 NKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDTVIEGNDDLLE 187
		
		Query: 526 ---------------GESQFV---------HVSAKAGTGIDELLDAILLQAEVLELKAVR 561
		                           ES            H SAK   GID L++ I    +        
		Sbjct: 188 KYMSGKSLEALELEQEESIRFHNCSLFPVYHGSAKNNIGIDNLIEVIT--NKFYSSTHRG 245
		
		Query: 562 KGMASGAVIESFLDKGRGPVATVLVREGTLHKGDIVL-CGFEYGRVRAMRNELGQEVLEA 620
		           +    G V +    + R  +A + +  G LH  D V     E  ++  M   +  E+ + 
		Sbjct: 246 QSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRISEKEKIKITEMYTSINGELCKI 305
		
		Query: 621 GPSIPVEILGLSG 633
		             +   EI+ L  
		Sbjct: 306 DKAYSGEIVILQN 318
		
		
c3960	c3983	Y	Y	N	c3945	c3984
	c3960	2	16	0.407620	Protein yhbN precursor
	c3961	3	17	0.639697	Probable ABC transporter ATP-binding protein
	c3962	3	15	0.099221	RNA polymerase sigma-54 factor
	c3963	0	17	-0.386830	Probable sigma(54) modulation protein
	c3964	-1	15	0.332660	Nitrogen regulatory IIA protein
	c3965	0	13	-0.157124	Hypothetical protein yhbJ
	c3966	-2	13	0.641205	Phosphocarrier protein NPr
	c3967	-2	13	0.365735	Hypothetical protein yrbL
	c3968	-1	17	3.022797	Monofunctional biosynthetic peptidoglycan
	c3969	-1	20	3.388993	Enhancing lycopene biosynthesis protein 2
	c3970	-1	20	3.139169	Aerobic respiration control sensor protein arcB
	c3971	-1	21	4.617086	Hypothetical protein yhcC
	c3972	-1	21	4.721650	Hypothetical protein
	c3973	-2	21	4.919201	Glutamate synthase [NADPH] large chain
	c3974	-2	14	3.813369	Glutamate synthase [NADPH] small chain
	c3975	-2	13	3.420308	Hypothetical protein yhcH
	c3976	-2	14	4.223021	Hypothetical protein yhcI
	c3977	-1	18	3.556187	Hypothetical protein yhcJ
	c3978	-1	18	2.520001	Putative sialic acid transporter
	c3979	3	22	1.588582	N-acetylneuraminate lyase subunit
	c3980	3	27	0.884076	Hypothetical transcriptional regulator yhcK
	c3981	1	19	0.301740	Stringent starvation protein B
	c3982	1	19	0.059961	Stringent starvation protein A
	c3983	2	20	0.052082	Hypothetical protein
	3879#c3970	HTHFIS#FIS bacterial regulatory protein HTH signature.	64	7e-13
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 64.5 bits (157), Expect = 7e-13
		 Identities = 26/115 (22%), Positives = 45/115 (39%), Gaps = 4/115 (3%)
		
		Query: 528 VLLVEDIELNVIVARSVLEKLGNSVDVAMTGKAALEMFKPGEYDLVLLDIQLPDMTGLDI 587
		           +L+ +D      V    L + G  V +             G+ DLV+ D+ +PD    D+
		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65
		
		Query: 588 SRALTKRYPREDLPPLVALTA-NVLKDKQEYLNAGMDDVLSKPLSVPALTAMIKK 641
		              + K  P     P++ ++A N      +    G  D L KP  +  L  +I +
		Sbjct: 66  LPRIKKARPD---LPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGR 117
		
		
	3887#c3978	TCRTETB#Tetracycline resistance protein TetB signature.	57	1e-10
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 56.8 bits (137), Expect = 1e-10
		 Identities = 65/408 (15%), Positives = 139/408 (34%), Gaps = 33/408 (8%)
		
		Query: 40  LLDGFDFVLIALVLTEVQGEFGLTTVQAASLISAAFISRWFGGLMLGAMGDRYGRRLAMV 99
		                + +++ + L ++  +F         + +A  ++   G  + G + D+ G +  ++
		Sbjct: 24  FFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLL 83
		
		Query: 100 TSIVLFSAGTLACGFAPGYITMFI-ARLVIGMGMAGEYGSSATYVIESWPKHLRNKASGF 158
		             I++   G++       + ++ I AR + G G A         V    PK  R KA G 
		Sbjct: 84  FGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKENRGKAFGL 143
		
		Query: 159 LISGFSVGAVVAAQVYSLVVPVWGWRALFFIGILPIIFALWLRKNIPEAEDWKEKHGGKA 218
		           + S  ++G  V   +  ++     W  L  I ++ II   +L K + +            
		Sbjct: 144 IGSIVAMGEGVGPAIGGMIAHYIHWSYLLLIPMITIITVPFLMKLLKKEVR--------- 194
		
		Query: 219 PVRTMVDILYRGEHRIANIVMTLAAATALWFCFAGNLQNAAIVAVLGLLCAAIFISFMVQ 278
		                     +G   I  I++                 +  IV+VL  L   IF+  + +
		Sbjct: 195 ---------IKGHFDIKGIILMSVGIVFFMLFTTSYSISFLIVSVLSFL---IFVKHIRK 242
		
		Query: 279 STGK----RWPTGVMLMVVVLFAFLYSWPIQA---LLPTYLKTDLAYDPHTVANVLFFSG 331
		            T           +  M+ VL   +    +     ++P  +K         + +V+ F G
		Sbjct: 243 VTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPG 302
		
		Query: 332 -FGAAVGCCVGGFLGEWLGTRK-AYVCSLLASQLLIIPVFAIGGANVWVLGLLLFFQQML 389
		                +   +GG L +  G      +     S   +   F +     W + +++ F    
		Sbjct: 303 TMSVIIFGYIGGILVDRRGPLYVLNIGVTFLSVSFLTASFLLET-TSWFMTIIIVFVLGG 361
		
		Query: 390 GQGISGILPKLIGGYFDTDQRAAGLGFTYNVGALGGALAP-ILGALIA 436
		                 ++  ++       +  AG+        L       I+G L++
		Sbjct: 362 LSFTKTVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAIVGGLLS 409
		
		
c4011	c4025	Y	Y	N	c3996	c4035
	c4011	0	13	-3.228325	Biotin carboxyl carrier protein of acetyl-CoA
	c4012	0	14	-4.052676	Biotin carboxylase
	c4013	0	22	-5.234805	Hypothetical protein
	c4014	0	24	-6.285126	Hypothetical protein
	c4015	-1	25	-6.389607	Ribose transport system permease protein rbsC
	c4016	-1	21	-4.969603	Ribose transport ATP-binding protein rbsA
	c4017	-1	20	-3.948892	Putative ribose ABC transporter
	c4018	-2	12	-0.893601	Tagatose-bisphosphate aldolase gatY
	c4019	-2	12	0.295513	Hypothetical protein
	c4020	-2	13	0.557981	Hypothetical protein
	c4021	-3	11	1.256346	Hypothetical protein
	c4022	-4	13	1.729305	Hypothetical protein yhdT
	c4023	-4	13	0.633845	Sodium/pantothenate symporter
	c4024	-1	19	-1.181059	Ribosomal protein L11 methyltransferase
	c4025	-2	19	-3.751480	Hypothetical protein
	3920#c4011	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	27	0.026
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 27.5 bits (61), Expect = 0.026
		 Identities = 8/27 (29%), Positives = 16/27 (59%)
		
		Query: 127 IEADKSGTVKAILVESGQPVEFDEPLV 153
		           I+  ++  VK I+V+ G+ V   + L+
		Sbjct: 99  IKPIENSIVKEIIVKEGESVRKGDVLL 125
		
		
c4100	c4123	Y	Y	N	c4085	c4124
	c4100	2	21	-1.781385	Putative general secretion pathway protein H
	c4101	1	22	-2.355176	Probable general secretion pathway protein I
	c4102	2	22	-3.062291	Probable general secretion pathway protein J
	c4103	0	23	-3.396837	Probable general secretion pathway protein K
	c4104	-2	19	-2.720582	Probable general secretion pathway protein L
	c4105	-2	21	-3.432074	Putative general secretion pathway protein M
	c4106	-2	24	-2.105299	Type 4 prepilin-like proteins leader peptide
	c4107	1	35	-1.744807	Bacterioferritin
	c4108	2	37	-1.322833	Bacterioferritin-associated ferredoxin
	c4109	3	39	-1.255093	Probable bifunctional chitinase/lysozyme
	c4110	7	48	-1.265498	Hypothetical protein
	c4111	8	51	-0.397975	Elongation factor Tu
	c4112	6	44	-1.079569	Elongation factor G
	c4113	7	32	-1.449851	Hypothetical protein
	c4114	7	29	-0.577165	30S ribosomal protein S7
	c4115	4	23	-1.557380	Hypothetical protein
	c4116	3	23	-1.852534	30S ribosomal protein S12
	c4117	3	18	-1.781228	Hypothetical protein yheL
	c4118	3	24	-0.792838	Hypothetical protein yheM
	c4119	2	24	-1.015263	Hypothetical protein yheN
	c4120	0	17	0.226469	Hypothetical protein yheO
	c4121	0	17	1.777418	FKBP-type peptidyl-prolyl cis-trans isomerase
	c4122	-1	15	3.321905	SlyX protein
	c4123	-2	14	3.143369	FKBP-type peptidyl-prolyl cis-trans isomerase
	4007#c4100	BCTERIALGSPH#Bacterial general secretion pathway protein H signa...	141	2e-45
		>BCTERIALGSPH#Bacterial general secretion pathway protein H
		           signature.
		          Length = 170
		
		 Score =  141 bits (356), Expect = 2e-45
		 Identities = 49/153 (32%), Positives = 76/153 (49%), Gaps = 18/153 (11%)
		
		Query: 3   QQRGFTLLEMMLVLALVAITASVVLFTYGREDAANTRARETAARFTAALELAIDRATLSG 62
		           +QRGFTLLEMML+L L+ ++A +VL  +    + +  A +T ARF A L     R   +G
		Sbjct: 2   RQRGFTLLEMMLILLLMGVSAGMVLLAFP--ASRDDSAAQTLARFEAQLRFVQQRGLQTG 59
		
		Query: 63  QPVGIHFSDSAWRIMV----PGKTP-------SAWRWVPLQEDAADESKNDWGEELSIQL 111
		           Q  G+      W+ +V     G  P       S +RW+PL+      S +  G +L++  
		Sbjct: 60  QFFGVSVHPDRWQFLVLEARDGADPAPADDGWSGYRWLPLRAGRVATSGSIAGGKLNLAF 119
		
		Query: 112 ---QPFKPDDSNQPQVVILADGQITPFSLLMAN 141
		              + + P D   P V+I   G++TPF L +  
		Sbjct: 120 AQGEAWTPGD--NPDVLIFPGGEMTPFRLTLGE 150
		
		
	4008#c4101	BCTERIALGSPG#Bacterial general secretion pathway protein G signa...	30	0.002
		>BCTERIALGSPG#Bacterial general secretion pathway protein G
		          signature.
		          Length = 145
		
		 Score = 29.9 bits (67), Expect = 0.002
		 Identities = 17/90 (18%), Positives = 41/90 (45%), Gaps = 8/90 (8%)
		
		Query: 14 MNKQSGMTLLEVLLAMSIFTAVALTLMSSMQGQ--RNAIERMRNETLALWIADNQLQSQD 71
		           +KQ G TLLE+++ + I   +A  ++ ++ G   +   ++  ++ +AL  A +  +  D
		Sbjct: 4  TDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYK-LD 62
		
		Query: 72 SFGEENTSSSGKELING-----EEWNWRSD 96
		          +     T+   + L+          N+  +
		Sbjct: 63 NHHYPTTNQGLESLVEAPTLPPLAANYNKE 92
		
		
	4009#c4102	BCTERIALGSPG#Bacterial general secretion pathway protein G signa...	34	1e-04
		>BCTERIALGSPG#Bacterial general secretion pathway protein G
		          signature.
		          Length = 145
		
		 Score = 34.1 bits (78), Expect = 1e-04
		 Identities = 14/45 (31%), Positives = 27/45 (60%), Gaps = 5/45 (11%)
		
		Query: 3  NRQQGFTLLEVMAALAIFSMLSVLAFMIFSQVSELHQRSQKEIQK 47
		          ++Q+GFTLLE+M  + I   + VLA ++   +  +  + + + QK
		Sbjct: 5  DKQRGFTLLEIMVVIVI---IGVLASLVVPNL--MGNKEKADKQK 44
		
		
	4013#c4106	PREPILNPTASE#Type IV prepilin cysteine protease (C20) family sig...	151	4e-47
		>PREPILNPTASE#Type IV prepilin cysteine protease (C20) family
		           signature.
		          Length = 290
		
		 Score =  151 bits (383), Expect = 4e-47
		 Identities = 88/262 (33%), Positives = 118/262 (45%), Gaps = 47/262 (17%)
		
		Query: 5   LPLFILVGFIAGYFVNVMAYHL---------------SPLEDKTALTFRQVLVH------ 43
		             L  L   + G F+NV+ + L                  +D+        L+       
		Sbjct: 16  FSLVFLFSLMIGSFLNVVIHRLPIMLEREWQAEYRSYFNPDDEGVDEPPYNLMVPRSCCP 75
		
		Query: 44  FWQKKYAWHDTVPLI-------------------------LCVAAAIACALAPFTPIVTG 78
		                    + +PL+                         L    ++A A+       T 
		Sbjct: 76  HCNHPITALENIPLLSWLWLRGRCRGCQAPISARYPLVELLTALLSVAVAMTLAPGWGTL 135
		
		Query: 79  ALFLYFCFALTLSVIDFRTQLLPDKLTLPLLWLGLVFNAQSGLIDLHDAVYGAVAGYGVL 138
		           A  L     + L+ ID    LLPD+LTLPLLW GL+FN   G + L DAV GA+AGY VL
		Sbjct: 136 AALLLTWVLVALTFIDLDKMLLPDQLTLPLLWGGLLFNLLGGFVSLGDAVIGAMAGYLVL 195
		
		Query: 139 WCVYWGVWLVCHKEGLGYGDFKLLAAAGAWCGWQTLPMILLIASLGGIGYAIVSQLLQRR 198
		           W +YW   L+  KEG+GYGDFKLLAA GAW GWQ LP++LL++SL G    I   LL+  
		Sbjct: 196 WSLYWAFKLLTGKEGMGYGDFKLLAALGAWLGWQALPIVLLLSSLVGAFMGIGLILLRNH 255
		
		Query: 199 TIPT-IAFGPWLALGSMINLGY 219
		                I FGP+LA+   I L +
		Sbjct: 256 HQSKPIPFGPYLAIAGWIALLW 277
		
		
	4014#c4107	HELNAPAPROT#Helicobacter neutrophil-activating protein A family ...	35	3e-05
		>HELNAPAPROT#Helicobacter neutrophil-activating protein A family
		           signature.
		          Length = 153
		
		 Score = 35.2 bits (81), Expect = 3e-05
		 Identities = 28/150 (18%), Positives = 59/150 (39%), Gaps = 24/150 (16%)
		
		Query: 5   TKVINYLNKLLGNE---LVAINQYFLHARMFKNWGLKRLNDVEYHESIDEM-----KHAD 56
		           T V N LN  L N       ++++        +W +K  +    HE  +E+     +  D
		Sbjct: 11  TLVENSLNTQLSNWFLLYSKLHRF--------HWYVKGPHFFTLHEKFEELYDHAAETVD 62
		
		Query: 57  RYIERILFLEGLPN--LQDLGKL------NIGEDVEEMLRSDLALELDGAKNLREAIGYA 108
		              ER+L + G P   +++  +              EM+++ +      +   +  IG A
		Sbjct: 63  TIAERLLAIGGQPVATVKEYTEHASITDGGNETSASEMVQALVNDYKQISSESKFVIGLA 122
		
		Query: 109 DSVHDYVSRDMMIEILRDEEGHIDWLETEL 138
		           +   D  + D+ + ++ + E  +  L + L
		Sbjct: 123 EENQDNATADLFVGLIEEVEKQVWMLSSYL 152
		
		
	4018#c4111	TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family ...	80	4e-18
		>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family
		           signature.
		          Length = 639
		
		 Score = 79.5 bits (196), Expect = 4e-18
		 Identities = 57/198 (28%), Positives = 87/198 (43%), Gaps = 13/198 (6%)
		
		Query: 28  VNVGTIGHVDHGKTTLTAAI------TTVLAKTYGGAARAFDQIDNAPEEKARGITINTS 81
		           +N+G + HVD GKTTLT ++       T L     G  R     DN   E+ RGITI T 
		Sbjct: 4   INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRT----DNTLLERQRGITIQTG 59
		
		Query: 82  HVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQV 141
		              +         +D PGH D++  +    + +DGAIL+++A DG   QTR      R++
		Sbjct: 60  ITSFQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKM 119
		
		Query: 142 GVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWE 201
		           G+P  I F+NK D    +  L  V  +++E LS          +     +       +W+
		Sbjct: 120 GIP-TIFFINKIDQNGID--LSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWD 176
		
		Query: 202 AKILELAGFLDSYIPEPE 219
		             I      L+ Y+    
		Sbjct: 177 TVIEGNDDLLEKYMSGKS 194
		
		
	4019#c4112	TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family ...	613	0.0
		>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family
		           signature.
		          Length = 639
		
		 Score =  613 bits (1583), Expect = 0.0
		 Identities = 178/698 (25%), Positives = 304/698 (43%), Gaps = 81/698 (11%)
		
		Query: 9   RYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAAT 68
		           +  NIG+ AH+DAGKTT TE +L+ +G   ++G V  G    D    E++RGITI +  T
		Sbjct: 2   KIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGIT 61
		
		Query: 69  TAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWR 128
		           +  W          ++NIIDTPGH+DF  EV RS+ VLDGA+++  A  GVQ Q+  ++ 
		Sbjct: 62  SFQWEN-------TKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFH 114
		
		Query: 129 QANKYKVPRIAFVNKMDRMGANFLKVVNQIKTRLGANPVPLQLAIGAEEHFTGVVDLVKM 188
		              K  +P I F+NK+D+ G +   V   IK +L A  V  Q           V     M
		Sbjct: 115 ALRKMGIPTIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQ----------KVELYPNM 164
		
		Query: 189 KAINWNDADQGVTFEYEDIPADMVELANEWHQNLIESAAEASEELMEKYLGGEELTEAEI 248
		              N+ +++Q                         ++  E +++L+EKY+ G+ L   E+
		Sbjct: 165 CVTNFTESEQ------------------------WDTVIEGNDDLLEKYMSGKSLEALEL 200
		
		Query: 249 KGALRQRVLNNEIILVTCGSAFKNKGVQAMLDAVIDYLPSPVDVPAINGILDDGKDTPAE 308
		           +     R  N  +  V  GSA  N G+  +++ + +   S                    
		Sbjct: 201 EQEESIRFHNCSLFPVYHGSAKNNIGIDNLIEVITNKFYSSTH----------------- 243
		
		Query: 309 RHASDDEPFSALAFKIATDPFVGNLTFFRVYSGVVNSGDTVLNSVKAARERFGRIVQMHA 368
		                        FKI        L + R+YSGV++  D+V  S K  + +   +     
		Sbjct: 244 ---RGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRISEK-EKIKITEMYTSIN 299
		
		Query: 369 NKREEIKEVRAGDIAAAIG----LKDVTTGDTLCDPDAPIILERMEFPEPVISIAVEPKT 424
		            +  +I +  +G+I         L  V  GDT   P      ER+E P P++   VEP  
		Sbjct: 300 GELCKIDKAYSGEIVILQNEFLKLNSV-LGDTKLLPQR----ERIENPLPLLQTTVEPSK 354
		
		Query: 425 KADQEKMGLALGRLAKEDPSFRVWTDEESNQTIIAGMGELHLDIIVDRMKREFNVEANVG 484
		              +E +  AL  ++  DP  R + D  +++ I++ +G++ +++    ++ +++VE  + 
		Sbjct: 355 PQQREMLLDALLEISDSDPLLRYYVDSATHEIILSFLGKVQMEVTCALLQEKYHVEIEIK 414
		
		Query: 485 KPQVAYRETIRQKVTDVEGKHAKQSGGRGQYGHVVIDMYPLEPGSNPKGYEFINDIKGGV 544
		           +P V Y E   +K    E     +      +  + + + PL  GS   G ++ + +  G 
		Sbjct: 415 EPTVIYMERPLKK---AEYTIHIEVPPNPFWASIGLSVSPLPLGS---GMQYESSVSLGY 468
		
		Query: 545 IPGEYIPAVDKGIQEQLKAGPLAGYPVVDMGIRLHFGSYHDVDSSELAFKLAASIAFKEG 604
		           +   +  AV +GI+   + G L G+ V D  I   +G Y+   S+   F++ A I  ++ 
		Sbjct: 469 LNQSFQNAVMEGIRYGCEQG-LYGWNVTDCKICFKYGLYYSPVSTPADFRMLAPIVLEQV 527
		
		Query: 605 FKKAKPVLLEPIMKVEVETPEENTGDVIGDLSRRRGMLKGQESEVTGVKIHAEVPLSEMF 664
		            KKA   LLEP +  ++  P+E       D  +    +   + +   V +  E+P   + 
		Sbjct: 528 LKKAGTELLEPYLSFKIYAPQEYLSRAYTDAPKYCANIVDTQLKNNEVILSGEIPARCIQ 587
		
		Query: 665 GYATQLRSLTKGRASYTMEFLKYDEAPSNVAQAVIEAR 702
		            Y + L   T GR+    E   Y        + V + R
		Sbjct: 588 EYRSDLTFFTNGRSVCLTELKGYHVT---TGEPVCQPR 622
		
		
	4027#c4120	ACRIFLAVINRP#Acriflavin resistance protein family signature.	29	0.023
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score = 28.7 bits (64), Expect = 0.023
		 Identities = 14/62 (22%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
		
		Query: 164 ASSVEDLVTQTLEFTIEEVNADRNV-SNNAKNRQIVLNLYEKGIFDIKDAINQVADRLNI 222
		           A +V+D VTQ +E  +  ++    + S +     + + L  +   D   A  QV ++L +
		Sbjct: 54  AQTVQDTVTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQL 113
		
		Query: 223 SK 224
		           + 
		Sbjct: 114 AT 115
		
		
	4028#c4121	INFPOTNTIATR#Macrophage infectivity potentiator signature.	132	5e-40
		>INFPOTNTIATR#Macrophage infectivity potentiator signature.
		          Length = 233
		
		 Score =  132 bits (334), Expect = 5e-40
		 Identities = 79/226 (34%), Positives = 124/226 (54%), Gaps = 9/226 (3%)
		
		Query: 28  AAKPATTADSKAAFKNDDQKSAYALGASLGRYMENSLKEQEKLGIKLDKDQLIAGVQDAF 87
		           A   A  A    +   D  K +Y++GA LG       K  +  GI ++ D L  G+QD  
		Sbjct: 14  AMSTAMAATDATSLTTDKDKLSYSIGADLG-------KNFKNQGIDINPDVLAKGMQDGM 66
		
		Query: 88  A-DKSKLSDQEIEQTLQAFEARVKSSAQAKMEKDAADNEAKGKEYREKFAKEKGVKTSST 146
		           +  +  L++++++  L  F+  + +   A+  K A +N+AKG  +      + G+    +
		Sbjct: 67  SGAQLILTEEQMKDVLSKFQKDLMAKRSAEFNKKAEENKAKGDAFLSANKSKPGIVVLPS 126
		
		Query: 147 GLVYQVVEAGKGEAPKDSDTVVVNYKGTLIDGKEFDNSYTRGEPLSFRLDGVIPGWTEGL 206
		           GL Y++++AG G  P  SDTV V Y GTLIDG  FD++   G+P +F++  VIPGWTE L
		Sbjct: 127 GLQYKIIDAGTGAKPGKSDTVTVEYTGTLIDGTVFDSTEKAGKPATFQVSQVIPGWTEAL 186
		
		Query: 207 KNIKKGGKIKLVIPPELAYGKAGVPG-IPPNSTLVFDVELLDVKPA 251
		           + +  G   ++ +P +LAYG   V G I PN TL+F + L+ VK A
		Sbjct: 187 QLMPAGSTWEVFVPADLAYGPRSVGGPIGPNETLIFKIHLISVKKA 232
		
		
c4202	c4212	Y	Y	N	c4187	c4226
	c4202	1	17	-4.106042	Thiosulfate sulfurtransferase glpE
	c4203	1	23	-5.737681	Aerobic glycerol-3-phosphate dehydrogenase
	c4204	3	39	-10.238606	Conserved hypothetical protein
	c4205	3	42	-10.495420	Hypothetical protein
	c4206	3	45	-11.719006	Hypothetical protein
	c4207	3	47	-11.474719	Putative fimbrial adhesin precursor
	c4208	2	45	-11.452250	Putative fimbrial chaperone precursor
	c4209	2	42	-10.250254	Putative minor fimbrial subunit precursor
	c4210	0	22	-6.281553	Putative minor fimbrial subunit precursor
	c4211	0	17	-4.281315	Hypothetical protein
	c4212	0	14	-3.314625	Hypothetical outer membrane usher protein ycbS
	4119#c4212	PF00577#Outer membrane usher protein FimD	884	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score =  884 bits (2287), Expect = 0.0
		 Identities = 398/866 (45%), Positives = 568/866 (65%), Gaps = 28/866 (3%)
		
		Query: 19  KRVVPLLLVIMPACSIA--------GMRFNPAFLSGDTEAVADLSRFEKGMTYLPGSYEV 70
		            R+    + +  AC+ A         + FNP FL+ D +AVADLSRFE G    PG+Y V
		Sbjct: 21  HRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQAVADLSRFENGQELPPGTYRV 80
		
		Query: 71  EVWVNDSPLLSRTVTFKADD-ENQLIPCLSLADLLSLGINKNALPEQALASSENSCLDLR 129
		           ++++N+  + +R VTF   D E  ++PCL+ A L S+G+N  ++    L + +++C+ L 
		Sbjct: 81  DIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLNTASVSGMNLLA-DDACVPLT 139
		
		Query: 130 IWFPDVHYMPELDAQRLKLTFPQAIIKRDARGYIPPEQWDNGITAFLLNYDFSGN--NDR 187
		               D     ++  QRL LT PQA +   ARGYIPPE WD GI A LLNY+FSGN   +R
		Sbjct: 140 SMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLLNYNFSGNSVQNR 199
		
		Query: 188 GDYSSNNYYLNLRAGINIGAWRFRDYSTWSR-----GSNSAGKLEHISSTLQRVIIPFRS 242
		              +S+  YLNL++G+NIGAWR RD +TWS       S S  K +HI++ L+R IIP RS
		Sbjct: 200 IGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSKNKWQHINTWLERDIIPLRS 259
		
		Query: 243 ELTLGDTWSSSDVFDSVSIRGIKLESDENMLPDSQSGFAPTVRGIAKSRAQVTIKQNGYV 302
		            LTLGD ++  D+FD ++ RG +L SD+NMLPDSQ GFAP + GIA+  AQVTIKQNGY 
		Sbjct: 260 RLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIARGTAQVTIKQNGYD 319
		
		Query: 303 IYQTYMPPGPFEISDLNPTSSAGDLEVTIKESDNSETVYTVPYAAVPILQREGHLKYSTT 362
		           IY + +PPGPF I+D+    ++GDL+VTIKE+D S  ++TVPY++VP+LQREGH +YS T
		Sbjct: 320 IYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSVPLLQREGHTRYSIT 379
		
		Query: 363 VGQYRSNSYNQKSPYVFQGELIWGLPWDITAYGGAQFSEDYRALALGLGLNLGVFGATSF 422
		            G+YRS +  Q+ P  FQ  L+ GLP   T YGG Q ++ YRA   G+G N+G  GA S 
		Sbjct: 380 AGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRYRAFNFGIGKNMGALGALSV 439
		
		Query: 423 DVTQANSSLVDGSKHQGQSYRFLYSKSLVQTGTAFHIIGYRYSTQGFYTLSDTTYQQMSG 482
		           D+TQANS+L D S+H GQS RFLY+KSL ++GT   ++GYRYST G++  +DTTY +M+G
		Sbjct: 440 DMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSGYFNFADTTYSRMNG 499
		
		Query: 483 TVVDPKTLDDKDYVYNWNDFYNLRYSKRGKFQASVSQPFGNYGSMYLSASQQTYWNTDKK 542
		             ++ +    +     + D+YNL Y+KRGK Q +V+Q  G   ++YLS S QTYW T   
		Sbjct: 500 YNIETQDGVIQVKPK-FTDYYNLAYNKRGKLQLTVTQQLGRTSTLYLSGSHQTYWGTSNV 558
		
		Query: 543 DSLYQVGYNTSIKGIYLNVAWNYSKSPGTN-ADKIVSLNVSLPISNWLSSTNDGRSSSNA 601
		           D  +Q G NT+ + I   ++++ +K+      D++++LNV++P S+WL S  D +S    
		Sbjct: 559 DEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNIPFSHWLRS--DSKSQWRH 616
		
		Query: 602 MTATYGYSQDNHGQVNQYTGVSGSLLEQHNLSYNIQHGFANQDNSSSGSVG---VNYRGA 658
		            +A+Y  S D +G++    GV G+LLE +NLSY++Q G+A   + +SGS G   +NYRG 
		Sbjct: 617 ASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGDGNSGSTGYATLNYRGG 676
		
		Query: 659 YGSLNSAYSYDNEGNQQINYGISGALVVHENGLTLSQPLGETNVLIKAPGANNVDVQRGT 718
		           YG+ N  YS+ +   +Q+ YG+SG ++ H NG+TL QPL +T VL+KAPGA +  V+  T
		Sbjct: 677 YGNANIGYSHSD-DIKQLYYGVSGGVLAHANGVTLGQPLNDTVVLVKAPGAKDAKVENQT 735
		
		Query: 719 GISTDWRGYAVVPYATEYRRNNISLDPMSMNMHTELDITSTEVIPGKGALVRAEFAAHIG 778
		           G+ TDWRGYAV+PYATEYR N ++LD  ++  + +LD     V+P +GA+VRAEF A +G
		Sbjct: 736 GVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVPTRGAIVRAEFKARVG 795
		
		Query: 779 IRGLFTVRYRNKSVPFGATASAQIKNSSQITGIVGDNGQLYLSGLPLEGVINIQWGDGVQ 838
		           I+ L T+ + NK +PFGA  +++   SSQ +GIV DNGQ+YLSG+PL G + ++WG+   
		Sbjct: 796 IKLLMTLTHNNKPLPFGAMVTSE---SSQSSGIVADNGQVYLSGMPLAGKVQVKWGEEEN 852
		
		Query: 839 QKCQANYKLPETELDNPVSYATLECR 864
		             C ANY+LP       ++  + ECR
		Sbjct: 853 AHCVANYQLPPESQQQLLTQLSAECR 878
		
		
c4226	c4244	Y	Y	N	c4211	c4252
	c4226	-1	16	-4.100840	Hypothetical protein
	c4227	1	19	-6.308660	Gluconate utilization system GNT-I
	c4228	2	23	-8.683563	Protein yhhW
	c4229	2	19	-6.112577	Putative oxidoreductase yhhX
	c4230	3	22	-6.851032	Hypothetical protein
	c4233	2	19	-5.119688	Hypothetical protein yhhZ
	c4234	0	14	0.285294	Hypothetical protein yrhA
	c4235	-2	16	2.681116	Hypothetical protein yrhB
	c4236	-2	19	3.305085	Gamma-glutamyltranspeptidase precursor
	c4237	-2	22	3.156804	Hypothetical protein yhhA precursor
	c4238	-2	22	3.068367	Glycerophosphoryl diester phosphodiesterase
	c4239	-2	25	3.124200	SN-glycerol-3-phosphate transport ATP-binding
	c4240	-1	24	2.363754	SN-glycerol-3-phosphate transport system
	c4241	-1	25	3.338301	SN-glycerol-3-phosphate transport system
	c4242	-2	26	3.564729	Glycerol-3-phosphate-binding periplasmic protein
	c4243	-3	23	3.666404	Hypothetical protein
	c4244	-3	23	3.321928	High-affinity branched-chain amino acid
	4141#c4236	NAFLGMOTY#Sodium-type flagellar protein MotY precursor signature.	32	0.005
		>NAFLGMOTY#Sodium-type flagellar protein MotY precursor signature.
		          Length = 293
		
		 Score = 32.0 bits (72), Expect = 0.005
		 Identities = 27/80 (33%), Positives = 36/80 (45%), Gaps = 13/80 (16%)
		
		Query: 272 RTPISGDYRGYQVYSMPPPSSGGIHIVQILNILENFDMQKYGF-GSADAMQIMAEAEKYA 330
		           R P+ G+ R   + SMPPP   G H  +I N+   F  Q  G+ G   A  I++E EK  
		Sbjct: 77  RRPM-GETRNVSLISMPPPWRPGEHADRITNL--KFFKQFDGYVGGQTAWGILSELEKGR 133
		
		Query: 331 YADRSEYLGDPDFVKVPWQA 350
		           Y         P F    WQ+
		Sbjct: 134 Y---------PTFSYQDWQS 144
		
		
	4143#c4238	PF04619#Dr-family adhesin	29	0.014
		>PF04619#Dr-family adhesin
		          Length = 160
		
		 Score = 28.7 bits (64), Expect = 0.014
		 Identities = 12/60 (20%), Positives = 23/60 (38%), Gaps = 4/60 (6%)
		
		Query: 29  VGAKYGHKMIEFDAKLSKDGEIFLLHDDNLERTSNGWGVAGDLNWQD----LLRVDAGSW 84
		           +G       ++ D    + G+ FL+ D+N ++         +  W        + D GSW
		Sbjct: 70  LGCDARQVALKADTDNFEQGKFFLISDNNRDKLYVNIRPTDNSAWTTDNGVFYKNDVGSW 129
		
		
	4144#c4239	PF05272#Virulence-associated E family protein	28	0.046
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 28.5 bits (63), Expect = 0.046
		 Identities = 10/29 (34%), Positives = 16/29 (55%)
		
		Query: 46  IVMVGPSGCGKSTLLRMVAGLERVTTGDI 74
		           +V+ G  G GKSTL+  + GL+  +    
		Sbjct: 599 VVLEGTGGIGKSTLINTLVGLDFFSDTHF 627
		
		
	4147#c4242	MALTOSEBP#Maltose binding protein signature.	39	2e-05
		>MALTOSEBP#Maltose binding protein signature.
		          Length = 396
		
		 Score = 39.3 bits (91), Expect = 2e-05
		 Identities = 39/160 (24%), Positives = 66/160 (41%), Gaps = 14/160 (8%)
		
		Query: 134 GHLLSQPFNSSTPVLYYNKDAFKKAGLDPEQPPKTWQDLADYAAKLKASGMKCGYASGWQ 193
		           G L++ P       L YNKD           PPKTW+++     +LKA G      +  +
		Sbjct: 127 GKLIAYPIAVEALSLIYNKDLLP-------NPPKTWEEIPALDKELKAKGKSALMFNLQE 179
		
		Query: 194 GWIQLENFSAWNGLPFASKNNGFDGTDAVLEF--NKPEQVKHIAMLEEMNKKGDFSYVGR 251
		            +      +A  G  F  +N  +D  D  ++    K      + +++  +   D  Y   
		Sbjct: 180 PYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDY--- 236
		
		Query: 252 KDESTEKFYNGDCAMTTASSGSLANIREYAKFNYGVGMMP 291
		              +   F  G+ AMT     + +NI + +K NYGV ++P
		Sbjct: 237 -SIAEAAFNKGETAMTINGPWAWSNI-DTSKVNYGVTVLP 274
		
		
c4255	c4283	Y	Y	N	c4240	c4279
	c4255	2	14	1.712643	Cell division protein ftsX
	c4256	3	14	2.078911	Cell division ATP-binding protein ftsE
	c4257	2	13	3.500598	Cell division protein ftsY
	c4258	0	17	3.911210	Putative methylase yhhF
	c4259	0	16	3.518693	Hypothetical protein yhhL
	c4260	-1	16	3.494576	Hypothetical protein yhhM
	c4261	-1	15	3.691563	Hypothetical protein yhhN
	c4262	0	14	2.700325	Lead, cadmium, zinc and mercury transporting
	c4263	0	14	1.242928	SirA protein
	c4264	-1	15	1.663475	Hypothetical protein yhhQ
	c4265	0	16	2.514147	DcrB protein precursor
	c4266	-1	18	3.687932	Hypothetical protein yhhS
	c4267	-1	20	4.332486	Hypothetical protein yhhT
	c4268	-1	25	5.647983	4'-phosphopantetheinyl transferase acpT
	c4269	-1	25	5.480718	Nickel-binding periplasmic protein precursor
	c4270	3	28	6.680847	Nickel transport system permease protein nikB
	c4271	-1	22	3.752042	Nickel transport system permease protein nikC
	c4272	0	20	1.389127	Nickel transport ATP-binding protein nikD
	c4273	1	24	-0.987255	Nickel transport ATP-binding protein nikE
	c4274	2	20	-2.650618	Nickel responsive regulator
	c4275	2	17	-1.277392	Hypothetical protein
	c4276	3	17	-1.682892	Putative regulator
	c4277	2	17	-0.687151	Putative phosphotransferase system enzyme
	c4278	3	15	-0.597431	Putative phosphotransferase system enzyme
	c4279	2	14	-0.452822	PTS system, galactitol-specific IIC component
	c4280	0	15	0.700485	Putative xylulose kinase
	c4281	1	18	2.194906	Hypothetical protein
	c4282	0	17	3.342480	Hypothetical protein
	c4283	0	17	3.470133	Putative phosphocarrier protein
	4162#c4257	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	50	1e-08
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 50.4 bits (120), Expect = 1e-08
		 Identities = 44/208 (21%), Positives = 73/208 (35%), Gaps = 21/208 (10%)
		
		Query: 20   QTPEK-ETEVQNEQPVVEEIVQAQE----------PVKASEHAVEEQPQ-AHTEAKAETF 67
		             TP   + +V +     EEI +  E          P + +E   E   Q + T  K E  
		Sbjct: 998  TTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQD 1057
		
		Query: 68   AADVVEVTEQVAESEK----AQPEAEVVAQPEPVVEETPEPVAIEREELPLSEDVNAEAV 123
		            A +      +VA+  K    A  +   VAQ     +ET      E   +   E    E  
		Sbjct: 1058 ATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVET- 1116
		
		Query: 124  SPEEWQAEAETVEIVEAAEEEAAKEEITDEEPEAQALAAEVAEEA-VMVVSPAEEDQPVE 182
		               E   E   V    + ++E ++      EP  +       +E      + A+ +QP +
		Sbjct: 1117 ---EKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAK 1173
		
		Query: 183  EIAQEQEKPTKEGFFARLKRSLLKTKEN 210
		            E +   E+P  E        S+++  EN
		Sbjct: 1174 ETSSNVEQPVTESTTVNTGNSVVENPEN 1201
		
		
		
		 Score = 50.1 bits (119), Expect = 2e-08
		 Identities = 38/180 (21%), Positives = 61/180 (33%), Gaps = 11/180 (6%)
		
		Query: 19   EQTPEKETEVQNEQPVVEEIVQAQEPVKASEHAVEEQPQAHTEAKAET-FAADVVEVTEQ 77
		              TP + TE   E    E     +    A+E    +  +   EAK+         EV + 
		Sbjct: 1030 PATPSETTETVAENSKQESKTVEKNEQDATE-TTAQNREVAKEAKSNVKANTQTNEVAQS 1088
		
		Query: 78   VAESEKAQPEAEVVAQPEPVVEETPEPVAIEREELPLSEDVNAEAVSPEEWQAEAETVEI 137
		             +E+++ Q         E    E  E   +E E+      V ++ VSP++ Q+E    + 
		Sbjct: 1089 GSETKETQTT----ETKETATVEKEEKAKVETEKTQEVPKVTSQ-VSPKQEQSETVQPQ- 1142
		
		Query: 138  VEAAEEEAAKEEITDEEPEAQALAAEVA---EEAVMVVSPAEEDQPVEEIAQEQEKPTKE 194
		             E A E      I + + +    A       E +  V  P  E   V       E P   
		Sbjct: 1143 AEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENT 1202
		
		
		
		 Score = 42.0 bits (98), Expect = 5e-06
		 Identities = 27/161 (16%), Positives = 56/161 (34%), Gaps = 14/161 (8%)
		
		Query: 17   QKEQTPEKETEVQNEQPVVEEIVQA-QEPVKASEHAVEEQPQAHTEAKAETFAADVVEVT 75
		             +E   E ++ V+       E+ Q+  E  +      +E      E KA+       EV 
		Sbjct: 1065 NREVAKEAKSNVKAN-TQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVP 1123
		
		Query: 76   EQVAE-------SEKAQPEAEVVAQPEPVV--EETPEPVAIEREELPLSEDVNAEAVSPE 126
		            +  ++       SE  QP+AE   + +P V  +E         +    +++ ++    P 
		Sbjct: 1124 KVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPV 1183
		
		Query: 127  EWQAEAETVEIVEAAEEEAAKEEITDEEPEAQALAAEVAEE 167
		                E+ TV    +  E          +P   + ++   + 
		Sbjct: 1184 T---ESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKN 1221
		
		
		
		 Score = 30.4 bits (68), Expect = 0.019
		 Identities = 21/117 (17%), Positives = 38/117 (32%), Gaps = 3/117 (2%)
		
		Query: 17   QKEQTPEKETEVQNEQPVVEEIVQAQEPVKASEHAVEEQPQAHTEAKAETFAADVVEVTE 76
		            ++ +T + + E   E      I + Q     +  A  EQP   T +  E    +   V  
		Sbjct: 1134 EQSETVQPQAEPARENDPTVNIKEPQSQ--TNTTADTEQPAKETSSNVEQPVTESTTVNT 1191
		
		Query: 77   QVAESEKAQPEAEVVAQPEPVVEETPEPVAIEREEL-PLSEDVNAEAVSPEEWQAEA 132
		              +  E  +       QP    E + +P    R  +  +  +V     S  +    A
		Sbjct: 1192 GNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPHNVEPATTSSNDRSTVA 1248
		
		
	4168#c4263	PF01206#SirA family protein	105	3e-34
		>PF01206#SirA family protein
		          Length = 76
		
		 Score =  105 bits (265), Expect = 3e-34
		 Identities = 24/72 (33%), Positives = 41/72 (56%)
		
		Query: 9  DHTLDALGLRCPEPVMMVRKTVRNMQPGETLLIIADDPATTRDIPGFCTFMEHELVAKET 68
		          D +LDA GL CP P++  +KT+  M  GE L ++A DP + +D   F     HEL+ ++ 
		Sbjct: 5  DQSLDATGLNCPLPILKAKKTLATMNAGEVLYVMATDPGSVKDFESFSKQTGHELLEQKE 64
		
		Query: 69 DGLPYRYLIRKG 80
		          +   Y + +++ 
		Sbjct: 65 EDGTYHFRLKRA 76
		
		
	4171#c4266	TCRTETA#Tetracycline resistance protein signature.	55	3e-10
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 54.8 bits (132), Expect = 3e-10
		 Identities = 80/398 (20%), Positives = 147/398 (36%), Gaps = 32/398 (8%)
		
		Query: 27  LRLNLRIVSIVMFNFASYLTIGLPLAVLPGYVHDVM--GFSAFWAGLVISLQYFATLLSR 84
		           ++ N  ++ I+       + IGL + VLPG + D++         G++++L         
		Sbjct: 1   MKPNRPLIVILSTVALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACA 60
		
		Query: 85  PHAGRYADLLGPKKIVVFGLCGCFLSGLGYLTAGLTASLPVISLLLLCLGRVILGI-GQS 143
		           P  G  +D  G + +++  L G   + + Y        L V     L +GR++ GI G +
		Sbjct: 61  PVLGALSDRFGRRPVLLVSLAG---AAVDYAIMATAPFLWV-----LYIGRIVAGITGAT 112
		
		Query: 144 FAGTGSTLWGVGVVGSL--HIGRVISWNGIVTYGAMAMGAPLGVVFYHWGGLQALALIIM 201
		            A  G+ +  +        H G + +  G        +G  +G    H     A AL  +
		Sbjct: 113 GAVAGAYIADITDGDERARHFGFMSACFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGL 172
		
		Query: 202 GVALVAILLAIPRPTVK--ASKGKPLPFRAVLGRVWLYGMALALA-----SAGFGVIATF 254
		                  LL       +    +    P  +      +  +A  +A          V A  
		Sbjct: 173 NFLTGCFLLPESHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAAL 232
		
		Query: 255 ITLFYDAK-GWDGAAFALTLFSCAFVGT---RLLFPNGINRIGGLNVAMICFSVEIIGLL 310
		             +F + +  WD     ++L +   + +    ++      R+G     M+    +  G +
		Sbjct: 233 WVIFGEDRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYI 292
		
		Query: 311 LVGVATMPWMAKIG-VLLAGAGFSLVFPALGVVAVKAVPQQNQGAALATYTVFMDLSLGV 369
		           L+  AT  WMA    VLLA  G  +  PAL  +  + V ++ QG    +      L+  +
		Sbjct: 293 LLAFATRGWMAFPIMVLLASGGIGM--PALQAMLSRQVDEERQGQLQGSLAALTSLT-SI 349
		
		Query: 370 TGPLAGLVMSWAGVPV----IYLAAAGLVAIALLLTWR 403
		            GPL    +  A +       ++A A L  + L    R
		Sbjct: 350 VGPLLFTAIYAASITTWNGWAWIAGAALYLLCLPALRR 387
		
		
	4175#c4270	BORPETOXINB#Bordetella pertussis toxin B subunit signature.	28	0.046
		>BORPETOXINB#Bordetella pertussis toxin B subunit signature.
		          Length = 226
		
		 Score = 28.1 bits (62), Expect = 0.046
		 Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 10/77 (12%)
		
		Query: 204 GQRHVTWARLRGLSDKQTERRHILRNASLPMITAVGMHIGELIGGTMIIENIFAWPGVG- 262
		             R +T A LRG  D Q   RH+ R  S+  +   G ++G   GG  +I++    PG   
		Sbjct: 53  KTRALTVAELRGSGDLQEYLRHVTRGWSIFALYD-GTYLGGEYGG--VIKD--GTPGGAF 107
		
		Query: 263 ----RYAVSAIFNRDYP 275
		                + +    N   P
		Sbjct: 108 DLKTTFCIMTTRNTGQP 124
		
		
	4178#c4273	HTHFIS#FIS bacterial regulatory protein HTH signature.	30	0.008
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 30.2 bits (68), Expect = 0.008
		 Identities = 10/34 (29%), Positives = 19/34 (55%)
		
		Query: 25  QAVLNNVSLALKSGETVALLGRSGCGKSTLARLL 58
		           Q +   ++  +++  T+ + G SG GK  +AR L
		Sbjct: 147 QEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180
		
		
c4295	c4306	Y	N	N	c4280	c4319
	c4295	-3	21	3.097676	Hypothetical transporter yhiP
	c4296	-2	23	3.566776	Hypothetical protein yhiQ
	c4297	-2	23	2.556122	Oligopeptidase A
	c4298	0	19	0.888389	Hypothetical protein yhiR
	c4299	1	17	-1.632724	Glutathione reductase
	c4300	3	21	-6.213991	Hypothetical protein
	c4301	3	20	-7.910390	Arsenate reductase
	c4302	1	20	-6.570095	Conserved hypothetical protein
	c4303	-1	13	-4.093477	Putative conserved protein
	c4304	-2	14	-4.023786	Outer membrane protein slp precursor
	c4305	-2	15	-4.046376	Hypothetical protein
	c4306	-3	14	-3.605891	Hypothetical transcriptional regulator yhiF
c4371	c4386	Y	Y	N	c4356	c4395
	c4371	-2	24	-3.135376	Hypothetical protein
	c4372	-2	20	-2.923043	2-ketogluconate reductase
	c4373	2	20	-0.163536	Hypothetical protein yiaF
	c4374	2	26	1.224502	Hypothetical protein
	c4375	1	26	1.322846	Hypothetical protein yiaG
	c4376	-1	23	0.486091	Hypothetical protein
	c4377	-1	22	0.213133	Cold shock protein cspA
	c4378	-2	18	-0.399037	Glycyl-tRNA synthetase beta chain
	c4379	0	15	-1.388651	Glycyl-tRNA synthetase alpha chain
	c4380	0	17	-2.457680	Conserved hypothetical protein
	c4381	0	16	-3.465385	Hypothetical protein yiaH
	c4382	-2	16	-3.400145	Hypothetical protein yiaA
	c4383	-2	15	-2.009636	Hypothetical protein yiaB
	c4384	-2	15	-1.773266	Xylulose kinase
	c4385	-2	14	-2.894927	Xylose isomerase
	c4386	-2	18	-3.244201	D-xylose-binding periplasmic protein precursor
	4285#c4380	VACJLIPOPROT#VacJ lipoprotein signature.	26	0.003
		>VACJLIPOPROT#VacJ lipoprotein signature.
		          Length = 251
		
		 Score = 26.4 bits (58), Expect = 0.003
		 Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
		
		Query: 9  AMALIVLVGCSTPPPVQKAQRVKGDPLRSLN 39
		          A+   +LVGC++    Q+ +    DPL   N
		Sbjct: 9  ALGTTLLVGCASSGTDQQGRS---DPLEGFN 36
		
		
	4287#c4382	FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein Fl...	27	0.027
		>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP
		           signature.
		          Length = 245
		
		 Score = 27.1 bits (60), Expect = 0.027
		 Identities = 19/66 (28%), Positives = 26/66 (39%), Gaps = 1/66 (1%)
		
		Query: 78  MTCLTVFIISVALLLVGLWNATLLLSEKGFYGLAFFLSLFGAVAVQKNIRDAGINPPKET 137
		           MT  T  II   LL   L   +     +   GLA FL+ F    V   I      P  E 
		Sbjct: 61  MTSFTRIIIVFGLLRNALGTPSAP-PNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEE 119
		
		Query: 138 QVTQEE 143
		           +++ +E
		Sbjct: 120 KISMQE 125
		
		
c4396	c4453	Y	Y	N	c4381	c4420
	c4396	2	19	-2.187899	Hypothetical oxidoreductase yiaK
	c4397	1	16	-2.520193	Hypothetical protein yiaL
	c4398	-2	18	-0.042424	Hypothetical protein
	c4399	-1	20	1.362545	Hypothetical protein yiaM
	c4400	-2	18	2.415098	Hypothetical protein yiaN
	c4401	-2	20	3.940567	Hypothetical protein
	c4402	-3	19	4.574819	Putative ABC transporter Periplasmic binding
	c4403	-3	19	4.978849	Cryptic L-xylulose kinase
	c4404	-2	16	3.614730	Probable hexulose-6-phosphate synthase
	c4405	-2	12	2.210100	Putative hexulose-6-phosphate isomerase
	c4406	-1	11	2.825596	Probable sugar isomerase sgbE
	c4407	-1	11	2.858741	Hypothetical protein
	c4408	0	12	2.429347	Aldehyde dehydrogenase B
	c4409	-1	12	2.197677	Hypothetical protein
	c4410	-1	11	2.704916	Probable alcohol dehydrogenase
	c4411	-3	14	3.294545	Selenocysteine-specific elongation factor
	c4412	-3	13	2.422144	L-seryl-tRNA(Sec) selenium transferase
	c4413	-3	14	1.540642	Hypothetical GST-like protein yibF
	c4414	-2	16	1.327465	Hypothetical protein yibH
	c4415	-2	18	0.947798	Hypothetical protein yibI
	c4416	-1	20	0.843955	PTS system, mannitol-specific IIABC component
	c4417	0	14	-1.013936	Mannitol-1-phosphate 5-dehydrogenase
	c4418	1	14	-5.472809	Mannitol operon repressor
	c4419	4	23	-0.782210	Hypothetical protein
	c4420	4	21	0.196997	Hypothetical protein
	c4421	3	21	0.434872	Hypothetical protein yibL
	c4422	2	18	0.890768	Hypothetical protein
	c4423	2	18	1.265214	Conserved hypothetical protein
	c4424	2	18	2.152591	Putative adhesin
	c4425	-2	14	3.531028	L-lactate permease
	c4426	0	13	3.031412	Putative L-lactate dehydrogenase operon
	c4427	-2	15	2.714424	L-lactate dehydrogenase
	c4428	-1	14	2.017267	Hypothetical tRNA/rRNA methyltransferase yibK
	c4429	-1	15	1.399012	Serine acetyltransferase
	c4430	0	18	1.398355	Glycerol-3-phosphate dehydrogenase (NAD(P)+)
	c4431	2	27	-1.224563	Hypothetical protein
	c4432	4	20	-2.066158	Protein-export protein secB
	c4433	1	24	-0.263694	Glutaredoxin 3
	c4434	3	19	1.735552	Hypothetical protein
	c4435	2	18	1.719428	Hypothetical protein
	c4436	0	14	0.240695	Hypothetical protein yibN
	c4437	-1	11	0.463201	Hypothetical protein
	c4438	-1	12	0.748101	2,3-bisphosphoglycerate-independent
	c4439	-1	11	0.970418	Hypothetical protein yibP
	c4440	1	11	-0.279698	Hypothetical protein yibQ precursor
	c4441	2	13	0.080059	Putative glycosyl transferase yibD
	c4442	0	13	1.091220	Hypothetical protein
	c4443	-2	14	-2.460412	Threonine 3-dehydrogenase
	c4444	0	19	-5.516231	2-amino-3-ketobutyrate coenzyme A ligase
	c4445	1	26	-8.581971	ADP-L-glycero-D-manno-heptose-6-epimerase
	c4446	2	31	-10.556988	ADP-heptose--LPS heptosyltransferase II
	c4447	2	39	-13.777063	Lipopolysaccharide heptosyltransferase-1
	c4448	3	41	-15.979309	Lipid A-core, surface polymer ligase
	c4449	2	34	-13.856983	Putative beta1,3-glucosyltransferase
	c4450	2	28	-10.891033	UDP-galactose:(galactosyl) LPS
	c4451	2	26	-9.138344	Lipopolysaccharide core biosynthesis protein
	c4452	2	22	-6.100526	Lipopolysaccharide 1,2-glucosyltransferase
	c4453	2	18	-3.747305	Lipopolysaccharide 1,3-galactosyltransferase
	4316#c4411	TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family ...	58	5e-11
		>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family
		           signature.
		          Length = 639
		
		 Score = 58.3 bits (141), Expect = 5e-11
		 Identities = 44/147 (29%), Positives = 69/147 (46%), Gaps = 18/147 (12%)
		
		Query: 3   IATAGHVDHGKTTLLQAI---TGV------------NADRLPEEKKRGMTIDLGYAYWPQ 47
		           I    HVD GKTTL +++   +G               D    E++RG+TI  G   +  
		Sbjct: 6   IGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQW 65
		
		Query: 48  PDGRVPGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHLAILQLTGNPML 107
		            + +V   ID PGH  FL+ +   +  +D A+L+++  DGV AQTR     L+  G P +
		Sbjct: 66  ENTKV-NIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIPTI 124
		
		Query: 108 TVALTKADRVDEARVDEVERQVKEVLR 134
		              + K D+     +  V + +KE L 
		Sbjct: 125 -FFINKIDQNG-IDLSTVYQDIKEKLS 149
		
		
	4319#c4414	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	64	2e-13
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 64.5 bits (157), Expect = 2e-13
		 Identities = 56/314 (17%), Positives = 103/314 (32%), Gaps = 82/314 (26%)
		
		Query: 66  ITPQVTGIVTEVTDKNNQLIQKGEVLFKLDPVR------------YQARVD--RLQA--- 108
		           I P    IV E+  K  + ++KG+VL KL  +              QAR++  R Q    
		Sbjct: 99  IKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSR 158
		
		Query: 109 ------------------------DLMTATHNIK----TLRAQLTEAQANTTQVSAERDR 140
		                                   +++  T  IK    T + Q  + + N  +  AER  
		Sbjct: 159 SIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLT 218
		
		Query: 141 LFKNYQRY----------LKGSQAAVNPFS---------ERDIDDARQNF---LAQDALV 178
		           +     RY          L    + ++  +         E    +A        +Q   +
		Sbjct: 219 VLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQI 278
		
		Query: 179 KGSVAE----QAQIQSQLDSMVNGE----QSQIVSLRAQLTEAKYNLEQTVIRAPSNGYV 230
		           +  +         +     + +  +       I  L  +L + +   + +VIRAP +  V
		Sbjct: 279 ESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKV 338
		
		Query: 231 TQVLIR-PGTYAAALPLRPVMVFIPEQKRQIV-AQFRQNSLLRLKPGDDAEVVFNALPGQ 288
		            Q+ +   G          +MV +PE     V A  +   +  +  G +A +   A P  
		Sbjct: 339 QQLKVHTEGGVVT--TAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYT 396
		
		Query: 289 VFH---GKLTSILP 299
		            +    GK+ +I  
		Sbjct: 397 RYGYLVGKVKNINL 410
		
		
	4329#c4424	PF03895#Serum resistance protein DsrA.	63	3e-14
		>PF03895#Serum resistance protein DsrA.
		          Length = 79
		
		 Score = 63.3 bits (154), Expect = 3e-14
		 Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 2/79 (2%)
		
		Query: 1701 ESKLSGGIASAMAMTGLPQAYTPGASMASIGGGTYNGESAVALGV-SMVSANGRWVYKLQ 1759
		              +L  G+A+  A++ L Q    G +  S   G Y  ++A+A+GV S ++        + 
		Sbjct: 2    SKELQTGLANQSALSMLVQPNGVGKTSVSAAVGGYRDKTALAIGVGSRITDRFTAKAGVA 61
		
		Query: 1760 GSTNSQGEYSAALGAGIQW 1778
		             +T + G  S     G ++
		Sbjct: 62   FNTYN-GGMSYGASVGYEF 79
		
		
	4335#c4430	NUCEPIMERASE#Nucleotide sugar epimerase signature.	29	0.020
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score = 29.4 bits (66), Expect = 0.020
		 Identities = 20/87 (22%), Positives = 30/87 (34%), Gaps = 13/87 (14%)
		
		Query: 8  MTVI---GAGSYGTALAITLARNGHEVVLWGHD---PEHIATLERDRCNAAFLPDVPFPD 61
		          M  +    AG  G  ++  L   GH+VV  G D     +  +L++ R      P   F  
		Sbjct: 1  MKYLVTGAAGFIGFHVSKRLLEAGHQVV--GIDNLNDYYDVSLKQARLELLAQPGFQF-- 56
		
		Query: 62 TLHLESDLATALAASRNILVVVPSHVF 88
		              + DLA     +          VF
		Sbjct: 57 ---HKIDLADREGMTDLFASGHFERVF 80
		
		
	4337#c4432	SECBCHAPRONE#Bacterial protein-transport SecB chaperone protein ...	240	2e-84
		>SECBCHAPRONE#Bacterial protein-transport SecB chaperone protein
		           signature.
		          Length = 170
		
		 Score =  240 bits (613), Expect = 2e-84
		 Identities = 87/153 (56%), Positives = 117/153 (76%), Gaps = 4/153 (2%)
		
		Query: 23  EQNNTEMTFQIQRIYTKDISFEAPNAPHVFQKDWQPEVKLDLDTASSQLADDVYEVVLRV 82
		            Q   +   QIQRIY KD+SFEAPN PH+FQ+DW+P++  DL T + Q+ DD+YEV L +
		Sbjct: 12  TQATQQPVLQIQRIYVKDVSFEAPNLPHIFQQDWEPKLSFDLSTEAKQVGDDLYEVCLNI 71
		
		Query: 83  TVTASLGEE--TAFLCEVQQGGIFSIAGIEGTQMAHCLGAYCPNILFPYARECITSMVSR 140
		           +V  ++      AF+CEV+Q G+F+I+G+E  QMAHCL + CPN+LFPYARE ++S+V+R
		Sbjct: 72  SVETTMESSGDVAFICEVKQAGVFTISGLEEMQMAHCLTSQCPNMLFPYARELVSSLVNR 131
		
		Query: 141 GTFPQLNLAPVNFDALFMNYL--QQQAGEGTEE 171
		           GTFP LNL+PVNFDALFM+YL  Q+QA + TEE
		Sbjct: 132 GTFPALNLSPVNFDALFMDYLQRQEQAEQTTEE 164
		
		
	4344#c4439	CHANLCOLICIN#Channel forming colicin signature.	36	2e-04
		>CHANLCOLICIN#Channel forming colicin signature.
		          Length = 522
		
		 Score = 36.2 bits (83), Expect = 2e-04
		 Identities = 51/223 (22%), Positives = 74/223 (33%), Gaps = 22/223 (9%)
		
		Query: 60  RAVRQKQQQRASLLAQLKKQEEAISEATRKLRETQNTLNQLNKQIDEMNASIAKLEQQKA 119
		           R  + +++ R    A  K  +EA        RE   T  QL     E     A  E+ KA
		Sbjct: 131 RLAKAEEKARKEAEAAEKAFQEAEQRRKEIEREKAETERQLKLAEAEEKRLAALSEEAKA 190
		
		Query: 120 ---AQERSLAAQLDAAFRQGEHTGIQLILSGEESQRGQRLQAYFGYLNQARQETIAQLKQ 176
		              AQ++  AAQ +     GE   +   LS                   AR   +  L  
		Sbjct: 191 VEIAQKKLSAAQSEVVKMDGEIKTLNSRLSS---------------SIHARDAEMKTLAG 235
		
		Query: 177 TREEVAMQRAELEEKQSEQQTLLYEQRAQQAKLTQALSERKKTLAGLESSIQQGQQQLSE 236
		            R E+A   A+ +E     + L               + R++  AG     +Q Q   SE
		Sbjct: 236 KRNELAQASAKYKELDELVKKLSPRANDPLQNRPFFEATRRRVGAGKIREEKQKQVTASE 295
		
		Query: 237 LRANESRLRNSIARAEAAAKARAEREAREAQAVRDRQKEATRK 279
		            R N  R+   I + + A         R A   R  + E   K
		Sbjct: 296 TRIN--RINADITQIQKAIS--QVSNNRNAGIARVHEAEENLK 334
		
		
	4350#c4445	NUCEPIMERASE#Nucleotide sugar epimerase signature.	104	7e-28
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score =  104 bits (260), Expect = 7e-28
		 Identities = 77/348 (22%), Positives = 127/348 (36%), Gaps = 67/348 (19%)
		
		Query: 2   IIVTGGAGFIGSNIVKALNDKGITDILVVDNLKD--------------GTKFVNLVDLDI 47
		            +VTG AGFIG ++ K L + G   ++ +DNL D                       +D+
		Sbjct: 3   YLVTGAAGFIGFHVSKRLLEAG-HQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDL 61
		
		Query: 48  ADYMDKEDFLIQIMAGEEFGDVEAIFHEGACSSTTEWDGKYMMDNNYQYSK-------EL 100
		           AD     + +  + A   F   E +F      +      +Y ++N + Y+         +
		Sbjct: 62  ADR----EGMTDLFASGHF---ERVFISPHRLAV-----RYSLENPHAYADSNLTGFLNI 109
		
		Query: 101 LHYCLEREIP-FLYASSAATYGGRTSD-FIESREYEKPLNVYGYSKFLFDEYVRQILPEA 158
		           L  C   +I   LYASS++ YG      F      + P+++Y  +K   +          
		Sbjct: 110 LEGCRHNKIQHLLYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLY 169
		
		Query: 159 NSQIVGFRYFNVYGPREGHKGSMASVAFHLNTQLNNGESPKLFEGSENFKRDFVYVGDVA 218
		                G R+F VYGP    +  MA   F     +  G+S  ++      KRDF Y+ D+A
		Sbjct: 170 GLPATGLRFFTVYGPWG--RPDMA--LFKFTKAMLEGKSIDVY-NYGKMKRDFTYIDDIA 224
		
		Query: 219 DVNL------------WFLENGVSG-------IFNLGTGRAESFQAVADATLAY-HKKGQ 258
		           +  +            W +E G          ++N+G            A       + +
		Sbjct: 225 EAIIRLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAK 284
		
		Query: 259 IEYIPFPDKLKGRYQAFTQADLTNLRAA-GYDKPFKTVAEGVTEYMAW 305
		              +P      G     T AD   L    G+  P  TV +GV  ++ W
		Sbjct: 285 KNMLPLQ---PGDVL-ETSADTKALYEVIGF-TPETTVKDGVKNFVNW 327
		
		
c4474	c4519	Y	Y	Y	c4459	c4498
	c4474	-2	16	3.619686	DNA-directed RNA polymerase omega chain
	c4475	-2	14	3.468183	Guanosine-3',5'-bis(Diphosphate)
	c4476	-1	15	3.327850	tRNA (Guanosine-2'-O-)-methyltransferase
	c4477	-1	14	3.032867	ATP-dependent DNA helicase recG
	c4478	-1	13	1.994044	Sodium/glutamate symport carrier protein
	c4479	-2	12	2.131398	Putative purine permease yicE
	c4480	-2	13	1.623397	Hypothetical protein yicH
	c4481	-2	13	0.546430	Conserved hypothetical protein
	c4482	-1	15	-0.039079	Hypothetical protein yajF
	c4483	0	19	-3.450308	Putative aldolase
	c4484	-2	15	-2.712357	Putative aldolase
	c4485	-1	13	-3.364881	Putative PTS enzyme-ii fructose
	c4486	-2	14	-4.410891	PTS system, fructose-like-2 IIB component 1
	c4487	-2	14	-4.255367	Putative phosphotransferase system (PTS),
	c4488	-2	14	-4.279416	Putative transcriptional Antiterminator
	c4489	-2	14	-3.562564	Putative family 31 glucosidase yicI
	c4490	1	27	-6.220253	Hypothetical symporter yicJ
	c4491	3	35	-7.620691	*Putative prophage integrase
	c4492	3	37	-8.068288	ShiA homolog
	c4493	2	39	-7.893612	Hypothetical protein
	c4494	2	38	-7.491158	Putative transcriptional regulator
	c4495	3	31	-6.200797	Hexuronate transporter
	c4496	2	18	-3.406195	Putative glucosidase
	c4497	2	15	-2.760124	Putative glucosidase
	c4498	1	16	-1.242167	IS1 protein InsB
	c4499	1	15	-1.437148	Hypothetical protein
	c4500	2	15	-1.333542	Putative amino acid antiporter
	c4501	1	15	-1.746805	Putative conserved protein
	c4502	1	19	-2.535750	Putative antiporter
	c4503	2	25	-2.147664	Insertion element IS1 1/2/3/5/6 protein insA
	c4504	4	26	-2.977082	Insertion element IS1 1/5/6 protein insB
	c4505	4	26	-4.162670	Hypothetical protein
	c4506	4	29	-5.131855	Transposase insI for insertion sequence element
	c4507	5	32	-5.913904	Transposase insF for insertion sequence
	c4508	6	37	-6.562475	Conserved hypothetical protein
	c4509	7	38	-7.175367	Hypothetical protein
	c4510	6	39	-7.082121	Hypothetical protein
	c4511	6	41	-6.360058	Hypothetical protein
	c4512	6	38	-6.011371	Hypothetical protein
	c4513	5	34	-4.987136	Hypothetical protein
	c4514	6	29	-4.801935	Hypothetical protein
	c4517	4	24	-0.266856	Hypothetical protein
	c4518	4	23	0.184682	Conserved hypothetical protein
	c4519	2	16	0.880520	Hypothetical protein
	4382#c4477	SECA#SecA protein signature.	40	3e-05
		>SECA#SecA protein signature.
		          Length = 901
		
		 Score = 40.2 bits (94), Expect = 3e-05
		 Identities = 38/129 (29%), Positives = 56/129 (43%), Gaps = 18/129 (13%)
		
		Query: 244 NLSMLALRAGAQRFHAQPLSANDALKNKLLAALPFKPTGAQARVVAEIERDM-ALDVPMM 302
		            LS   L+     F A+ L   + L+N +  A       A  R  ++    M   DV ++
		Sbjct: 37  KLSDEELKGKTAEFRAR-LEKGEVLENLIPEAF------AVVREASKRVFGMRHFDVQLL 89
		
		Query: 303 ---RLVQGDV-----GSGKTLVAALAA-LRAIAHGKQVALMAPTELLAEQHANNFRNWFA 353
		               L +  +     G GKTL A L A L A+  GK V ++   + LA++ A N R  F 
		Sbjct: 90  GGMVLNERCIAEMRTGEGKTLTATLPAYLNALT-GKGVHVVTVNDYLAQRDAENNRPLFE 148
		
		Query: 354 PLGIEVGWL 362
		            LG+ VG  
		Sbjct: 149 FLGLTVGIN 157
		
		
	4393#c4488	PF08280#M protein trans-acting positive regulator	33	0.004
		>PF08280#M protein trans-acting positive regulator
		          Length = 530
		
		 Score = 32.9 bits (75), Expect = 0.004
		 Identities = 23/164 (14%), Positives = 58/164 (35%), Gaps = 20/164 (12%)
		
		Query: 22  RQNRLLRFLLPRREYTTIVTIAGYLNVSEKTIQRDLRLLEQWL-GQWRINVEKRAGAGVM 80
		            + +L+     +     I  +A    ++   +      L  +      + ++KR     M
		Sbjct: 45  SKCQLVVLFF-KTSSLPITEVAEKTGLTFLQLNHYCEELNAFFPDSLSMTIQKR-----M 98
		
		Query: 81  LSAENIADLLHLDHLLVAECEEIDCVMNNARRVKIASQLLSETPNETSISKLSERYFISG 140
		           +            H   ++   +  +  ++  +++ + L+    +   ++  +  +F+S 
		Sbjct: 99  I-------SCQFTHP--SKETYLYQLYASSNVLQLLAFLIKNGSHSRPLTDFARSHFLSN 149
		
		Query: 141 ASIVNDLRVIESWLAPLGLSLIRSPSGTHIEGSEGQVRQAMALL 184
		           +S       +   L    L L    S   I G E ++R  +ALL
		Sbjct: 150 SSAYRMREALIPLLRNFELKL----SKNKIVGEEYRIRYLIALL 189
		
		
	4400#c4495	TCRTETB#Tetracycline resistance protein TetB signature.	46	3e-07
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 45.6 bits (108), Expect = 3e-07
		 Identities = 37/176 (21%), Positives = 68/176 (38%), Gaps = 5/176 (2%)
		
		Query: 39  QLRWWMLILFLMGVTVNYITRNSLGILAPELKDSLGITTEQYSWIVGGFQLAYTLFQPLC 98
		           Q+  W+ IL    V    +    L +  P++ +         +W+   F L +++   + 
		Sbjct: 14  QILIWLCILSFFSV----LNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVY 69
		
		Query: 99  GWLIDVIGLKIGFMICASLWGIACLLHAGAGSWIQLALLRFFMGGAEASATPA-NAKIIG 157
		           G L D +G+K   +    +     ++     S+  L ++  F+ GA A+A PA    ++ 
		Sbjct: 70  GKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVA 129
		
		Query: 158 EWFPKSERPVAAGWAGVGFSIGAMLAPPIIYFAHASFGWQGAFMFTGALAILWVFL 213
		            + PK  R  A G  G   ++G  + P I         W    +      I   FL
		Sbjct: 130 RYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHWSYLLLIPMITIITVPFL 185
		
		
c4539	c4581	Y	Y	N	c4524	c4563
	c4539	2	30	2.993285	Hypothetical protein
	c4540	2	23	-1.826361	Putative maturase-related protein
	c4541	0	16	-5.347343	Putative maturase-related protein
	c4542	-2	15	-4.522762	Hypothetical protein
	c4543	-2	14	-4.172063	Hypothetical protein
	c4544	-2	14	-4.956913	Hypothetical protein
	c4545	-1	16	-5.690715	Hypothetical protein
	c4546	-1	17	-4.721984	Hypothetical protein
	c4547	0	22	-3.212550	S-adenosylmethionine synthetase
	c4548	2	30	-4.854654	Hypothetical protein
	c4549	4	32	-5.379782	Hypothetical protein
	c4550	5	30	-3.829536	Hypothetical protein
	c4551	7	27	-1.651118	Hypothetical protein
	c4552	9	26	1.380735	Transposase insC for insertion element
	c4553	7	25	0.836370	Hypothetical protein
	c4554	6	24	0.772239	Hypothetical protein
	c4555	5	26	-0.302197	Conserved hypothetical protein
	c4556	5	27	-6.376025	Conserved hypothetical protein
	c4557	5	29	-7.573547	Hypothetical protein
	c4558	6	37	-11.001710	Hypothetical protein
	c4559	6	33	-9.703002	Hypothetical protein
	c4560	5	34	-10.980024	Hypothetical protein
	c4561	4	32	-8.924196	Hypothetical protein
	c4562	4	28	-4.251070	Hypothetical protein
	c4563	4	28	-2.687121	Hypothetical protein
	c4564	4	28	-1.615053	Conserved hypothetical protein
	c4565	3	24	-0.443909	Hypothetical protein
	c4566	5	24	1.083438	Hypothetical transcriptional regulator yfjR
	c4567	5	26	2.006730	Hypothetical protein
	c4568	6	27	2.840205	Hypothetical protein
	c4569	6	28	4.204569	Hypothetical protein ykfF
	c4570	7	28	4.494735	Hypothetical protein yafZ
	c4571	7	26	4.097633	Hypothetical protein yfjX
	c4572	6	25	3.711648	Hypothetical protein
	c4573	6	25	1.842455	Putative radC-like protein yeeS
	c4574	6	23	0.334105	Hypothetical protein yeeT
	c4575	5	24	-1.068138	Hypothetical protein yeeU
	c4576	3	21	-5.282732	Hypothetical protein yeeV
	c4577	0	19	-5.681580	Conserved hypothetical protein
	c4578	-1	21	-6.074397	Conserved hypothetical protein
	c4579	-1	24	-7.723730	Hypothetical protein
	c4580	0	25	-7.903201	Hypothetical protein
	c4581	0	20	-4.803754	Hypothetical protein
	4448#c4545	PF06580#Sensor histidine kinase	203	4e-64
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score =  203 bits (519), Expect = 4e-64
		 Identities = 56/214 (26%), Positives = 101/214 (47%), Gaps = 14/214 (6%)
		
		Query: 203 RKRVEIERSLHEAEFKALSYQINPHFLFNVLNTIGRLAFLEDAQRTETMVHDFSDMMRYL 262
		             + ++     EA+  AL  QINPHF+FN LN I  L  LED  +   M+   S++MRY 
		Sbjct: 149 IDQWKMASMAQEAQLMALKAQINPHFMFNALNNIRALI-LEDPTKAREMLTSLSELMRYS 207
		
		Query: 263 LRKNSHGLITLRNEINYVNNYMSIQKVRMRDRFDYLCDIPEKYLDVVCPFLILQPLVENF 322
		           LR ++   ++L +E+  V++Y+ +  ++  DR  +   I    +DV  P +++Q LVEN 
		Sbjct: 208 LRYSNARQVSLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENG 267
		
		Query: 323 FNYVVEPRDSNSHLLIRATDDGLNVIIEVTDNGDGIAPDTINRILSGDQKLQKGSIGINN 382
		             + +        +L++ T D   V +EV + G     +T           +    G+ N
		Sbjct: 268 IKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTK----------ESTGTGLQN 317
		
		Query: 383 IKNRLKLLFGESYGLEIMSPNKPRMGTTIKLRFP 416
		           ++ RL++L+G    +++             +  P
		Sbjct: 318 VRERLQMLYGTEAQIKLSEKQG---KVNAMVLIP 348
		
		
	4449#c4546	HTHFIS#FIS bacterial regulatory protein HTH signature.	59	6e-12
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 59.5 bits (144), Expect = 6e-12
		 Identities = 29/139 (20%), Positives = 53/139 (38%), Gaps = 3/139 (2%)
		
		Query: 3   TIVIVEDEPIELESLRQIISQCVENAAIHEASTGKKAIHLIDQLSQIDMILVDINIPLPN 62
		           TI++ +D+      L Q +S+      +   S        I      D+++ D+ +P  N
		Sbjct: 5   TILVADDDAAIRTVLNQALSR--AGYDVRITSNAATLWRWIAA-GDGDLVVTDVVMPDEN 61
		
		Query: 63  GKQVIEYLKKKNSDTKIIVITANDDFDIVRSMYNLKVDDYLLKPVKKCILTDTIKKTLAF 122
		              ++  +KK   D  ++V++A + F            DYL KP     L   I + LA 
		Sbjct: 62  AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121
		
		Query: 123 DEGENEKSRALKQKVFAMI 141
		            +    K     Q    ++
		Sbjct: 122 PKRRPSKLEDDSQDGMPLV 140
		
		
	4453#c4550	HTHTETR#TetR bacterial regulatory protein HTH signature.	72	4e-18
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 72.4 bits (177), Expect = 4e-18
		 Identities = 33/63 (52%), Positives = 41/63 (65%)
		
		Query: 10 RHTKFAAEETRKQILDVAEFCFCETGFSKTTLEMIAARAGCTRGAIYWYFNEKKDLLRQV 69
		          R TK  A+ETR+ ILDVA   F + G S T+L  IA  AG TRGAIYW+F +K DL  ++
		Sbjct: 3  RKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEI 62
		
		Query: 70 IER 72
		           E 
		Sbjct: 63 WEL 65
		
		
	4454#c4551	ACRIFLAVINRP#Acriflavin resistance protein family signature.	411	e-137
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score =  411 bits (1057), Expect = e-137
		 Identities = 202/339 (59%), Positives = 270/339 (79%), Gaps = 1/339 (0%)
		
		Query: 1    MIQARNQLLAEAAKSPA-LNMVRPNGMNDEPQFQILIDDEKVQAFKLSMSDVDNIMSAAW 59
		            + QARNQLL  AA+ PA L  VRPNG+ D  QF++ +D EK QA  +S+SD++  +S A 
		Sbjct: 694  LTQARNQLLGMAAQHPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTAL 753
		
		Query: 60   GSMYVNDFNDRGRVKKVYIQGEPGSRISPQDFDKWYVRNSDGDMVSFASFATGKWIYGSP 119
		            G  YVNDF DRGRVKK+Y+Q +   R+ P+D DK YVR+++G+MV F++F T  W+YGSP
		Sbjct: 754  GGTYVNDFIDRGRVKKLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSP 813
		
		Query: 120  KLEQYNGISAVEILGEPAPGYSSGDAMKAIEDIAARLPEGFHISWTGLSFEERLSGSQAP 179
		            +LE+YNG+ ++EI GE APG SSGDAM  +E++A++LP G    WTG+S++ERLSG+QAP
		Sbjct: 814  RLERYNGLPSMEIQGEAAPGTSSGDAMALMENLASKLPAGIGYDWTGMSYQERLSGNQAP 873
		
		Query: 180  ALYALSLLIVFLCLAALYESWSIPFSVMLVVPLGVLGAVCATLLRGLGNDVFFQVGLLTT 239
		            AL A+S ++VFLCLAALYESWSIP SVMLVVPLG++G + A  L    NDV+F VGLLTT
		Sbjct: 874  ALVAISFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTT 933
		
		Query: 240  IGLSAKNAILIVEFARELHEKEGLSIKEAAVEAARVRLRPIIMTSLAFVMGVIPLAVSTG 299
		            IGLSAKNAILIVEFA++L EKEG  + EA + A R+RLRPI+MTSLAF++GV+PLA+S G
		Sbjct: 934  IGLSAKNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNG 993
		
		Query: 300  ASSGSKHAIGTGVVGGMITATILAIFYIPLFYMLIAGFF 338
		            A SG+++A+G GV+GGM++AT+LAIF++P+F+++I   F
		Sbjct: 994  AGSGAQNAVGIGVMGGMVSATLLAIFFVPVFFVVIRRCF 1032
		
		
		
		 Score = 77.2 bits (190), Expect = 1e-17
		 Identities = 64/322 (19%), Positives = 125/322 (38%), Gaps = 21/322 (6%)
		
		Query: 29  EPQFQILIDDEKVQAFKLSMSDVDNIMSAA----WGSMYVNDFNDRGRVKKVYIQGEPGS 84
		           +   +I +D + +  +KL+  DV N +                   G+     I  +   
		Sbjct: 181 QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQ-TR 239
		
		Query: 85  RISPQDFDKWYVR-NSDGDMVSFASFAT---GKWIYGSPKLEQYNGISAVEILGEPAPGY 140
		             +P++F K  +R NSDG +V     A    G   Y    + + NG  A  +  + A G 
		Sbjct: 240 FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNV--IARINGKPAAGLGIKLATGA 297
		
		Query: 141 SSGDAMKAI----EDIAARLPEGFHISW---TGLSFEERLSGSQAPALYALSLLIVFLCL 193
		           ++ D  KAI     ++    P+G  + +   T    +  +         A+  ++VFL +
		Sbjct: 298 NALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAI--MLVFLVM 355
		
		Query: 194 AALYESWSIPFSVMLVVPLGVLGAVCATLLRGLGNDVFFQVGLLTTIGLSAKNAILIVEF 253
		               ++        + VP+ +LG        G   +     G++  IGL   +AI++VE 
		Sbjct: 356 YLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVEN 415
		
		Query: 254 ARELHEKEGLSIKEAAVEAARVRLRPIIMTSLAFVMGVIPLAVSTGASSGSKHAIGTGVV 313
		              +  ++ L  KEA  ++       ++  ++      IP+A   G++          +V
		Sbjct: 416 VERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIV 475
		
		Query: 314 GGMITATILAIFYIP-LFYMLI 334
		             M  + ++A+   P L   L+
		Sbjct: 476 SAMALSVLVALILTPALCATLL 497
		
		
	4455#c4552	PF06704#DspF/AvrF protein	25	0.047
		>PF06704#DspF/AvrF protein
		          Length = 129
		
		 Score = 25.2 bits (55), Expect = 0.047
		 Identities = 20/85 (23%), Positives = 39/85 (45%), Gaps = 6/85 (7%)
		
		Query: 28  RTTQEKIAIVQQSFEPGMTVSLVARQHGVAASQLFLWRKQYQEGSLTAVAA-GEQVVPAS 86
		             +    + + +S    +  SL A Q+GV A    L+  Q  E ++  +    E V+   
		Sbjct: 2   NNSPTDFSRLIKSLGAQLGTSLTA-QNGVCA----LYDSQDNEAAVIEMPDHSEMVIFHC 56
		
		Query: 87  ELAAAMKQIKELQRLLNKTPDVSRL 111
		            +  +  +  +LQ+LL+   DV+R+
		Sbjct: 57  RVGRSPDRAADLQKLLSLNFDVARM 81
		
		
c4637	c4643	Y	N	N	c4621	c4661
	c4637	-1	13	-3.041200	Hypothetical protein yieG
	c4638	0	12	-4.218529	Hypothetical protein yieH
	c4639	0	14	-3.860805	Hypothetical protein yieI
	c4640	1	13	-3.643595	Hypothetical protein yieK
	c4641	0	14	-4.311771	Hypothetical protein yieL
	c4642	0	16	-4.978268	Putative outer membrane protein yieC precursor
	c4643	-1	14	-3.555893	6-phospho-beta-glucosidase bglB
c4653	c4662	Y	Y	N	c4638	c4677
	c4653	2	31	2.014411	Phosphate-binding periplasmic protein precursor
	c4654	2	28	2.287361	Glucosamine--fructose-6-phosphate
	c4655	4	35	2.280625	GlmU protein
	c4656	5	34	2.267614	Hypothetical protein
	c4657	5	34	2.184446	ATP synthase epsilon chain
	c4658	5	32	2.090061	ATP synthase beta chain
	c4659	4	28	1.725091	ATP synthase gamma chain
	c4660	5	31	1.694922	ATP synthase alpha chain
	c4661	3	30	1.078418	Hypothetical protein
	c4662	3	23	0.679018	ATP synthase delta chain
	4556#c4655	RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family...	29	0.049
		>RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family
		           signature.
		          Length = 1024
		
		 Score = 29.2 bits (65), Expect = 0.049
		 Identities = 23/80 (28%), Positives = 31/80 (38%), Gaps = 10/80 (12%)
		
		Query: 367 LGDAEIGDNVNIGAGTITCNYDGANKFKTIIGDDVFVGSDTQLVAPVTVGKGATIAAGTT 426
		           LGD +  D V + AG+   N           G DV     T        G  AT A   T
		Sbjct: 616 LGDGD--DKVFLSAGSA--NIYAGK------GHDVVYYDKTDTGYLTIDGTKATEAGNYT 665
		
		Query: 427 VTRNVGENALAISRVPQTQK 446
		           VTR +G +   +  V + Q+
		Sbjct: 666 VTRVLGGDVKVLQEVVKEQE 685
		
		
c4689	c4693	Y	N	N	c4673	c4711
	c4689	-1	21	3.162283	Hypothetical protein
	c5500	-1	22	4.424569	IlvGMEDA operon leader peptide
	c4690	-1	21	4.397905	Acetohydroxy acid synthase II
	c4691	-1	25	3.893529	Acetolactate synthase isozyme II small subunit
	c4692	-1	26	3.935808	Branched-chain amino acid aminotransferase
	c4693	0	22	3.705280	Dihydroxy-acid dehydratase
c4729	c4738	Y	N	N	c4714	c4753
	c4729	-2	21	4.669507	Conserved hypothetical protein
	c4730	-2	18	3.571477	Diaminopimelate epimerase
	c4731	-3	17	2.550450	Hypothetical protein yigA
	c4732	-2	17	2.238573	Integrase/recombinase xerC
	c4733	-2	14	0.556618	Hypothetical protein yigB
	c4734	-1	10	-2.582585	DNA helicase II
	c4735	-2	13	-6.088979	Conserved hypothetical protein
	c4736	-1	13	-5.821872	Conserved hypothetical protein
	c4737	-1	11	-4.853563	Magnesium and cobalt transport protein corA
	c4738	0	16	-6.447224	Conserved hypothetical protein
c4790	c4822	Y	Y	Y	c4775	c4818
	c4790	-1	17	3.057099	3-octaprenyl-4-hydroxybenzoate carboxy-lyase
	c4791	-2	18	2.937199	NAD(P)H-flavin reductase
	c4792	-2	18	2.892448	3-ketoacyl-CoA thiolase
	c4793	-2	17	1.776838	Fatty oxidation complex alpha subunit
	c4794	-2	13	0.952783	Xaa-Pro dipeptidase
	c4795	-1	13	0.162602	Hypothetical protein yigZ
	c4796	-1	13	-1.047587	Trk system potassium uptake protein trkH
	c4797	-2	14	-2.438189	Protoporphyrinogen oxidase
	c4800	-1	19	-3.661378	**Molybdopterin-guanine dinucleotide biosynthesis
	c4801	-2	21	-6.020307	Molybdopterin-guanine dinucleotide biosynthesis
	c4802	-2	21	-6.728673	Protein yihD
	c4803	-2	22	-7.305544	Hypothetical protein yihE
	c4804	0	21	-8.392271	Thiol:disulfide interchange protein dsbA
	c4805	0	20	-7.477315	Hypothetical protein
	c4806	0	20	-6.972265	Hypothetical protein yihF
	c4807	0	18	-5.499464	Hypothetical protein yihG
	c4808	3	20	-3.314949	Hypothetical protein
	c4811	3	18	0.182387	Hypothetical protein
	c4812	2	17	1.907018	Probable GTP-binding protein engB
	c4813	0	15	2.272481	Hypothetical protein
	c4814	-1	17	2.356950	Hypothetical protein
	c4815	2	24	2.575242	Hypothetical protein yihI
	c4816	1	22	2.186875	Oxygen-independent coproporphyrinogen III
	c4817	1	19	0.881024	Nitrogen regulation protein NR(I)
	c4818	0	19	-1.057251	Nitrogen regulation protein NR(II)
	c4819	1	18	-1.839876	Glutamine synthetase
	c4820	0	14	-2.531464	GTP-binding protein typA/BipA
	c4821	-1	21	-4.115924	Hypothetical transcriptional regulator yihL
	c4822	-1	21	-3.505586	Hypothetical protein yihM
	4713#c4815	SECA#SecA protein signature.	31	0.002
		>SECA#SecA protein signature.
		          Length = 901
		
		 Score = 31.0 bits (70), Expect = 0.002
		 Identities = 11/71 (15%), Positives = 30/71 (42%)
		
		Query: 14  AKARRKTREELDQEARDRKRQKKRRGHAPGSRAAGGNTTSGSKGQNAPKDPRIGSKTPIP 73
		           +K + +  EE+++  + R+ + +R            ++ + +       + ++G   P P
		Sbjct: 827 SKVQVRMPEEVEELEQQRRMEAERLAQMQQLSHQDDDSAAAAALAAQTGERKVGRNDPCP 886
		
		Query: 74  LGVAEKVTKQH 84
		            G  +K  + H
		Sbjct: 887 CGSGKKYKQCH 897
		
		
	4715#c4817	HTHFIS#FIS bacterial regulatory protein HTH signature.	601	0.0
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score =  601 bits (1550), Expect = 0.0
		 Identities = 206/478 (43%), Positives = 299/478 (62%), Gaps = 11/478 (2%)
		
		Query: 21  MQRGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGAEVLEALASKTPDVLLSDIRMPGM 80
		           M    + V DDD++IR VL +AL+ AG       N A +   +A+   D++++D+ MP  
		Sbjct: 1   MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60
		
		Query: 81  DGLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAIS 140
		           +   LL +IK+  P LPV++M+A +    A+ A ++GA+DYLPKPFD+ E + ++ RA++
		Sbjct: 61  NAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120
		
		Query: 141 HYQEQQQPRNVQLNGPTTDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHA 200
		             + +              ++G + AMQ+++R++ RL ++ ++++I GESGTGKELVA A
		Sbjct: 121 EPKRRPSKLEDDSQDGM-PLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARA 179
		
		Query: 201 LHRHSPRAKAPFIALNMAAIPKDLIESELFGHEKGAFTGANTIRQGRFEQADGGTLFLDE 260
		           LH +  R   PF+A+NMAAIP+DLIESELFGHEKGAFTGA T   GRFEQA+GGTLFLDE
		Sbjct: 180 LHDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDE 239
		
		Query: 261 IGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVLEGKFREDLFHR 320
		           IGDMP+D QTRLLRVL  G++  VGG  P++ DVRI+AAT+++L+Q + +G FREDL++R
		Sbjct: 240 IGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYR 299
		
		Query: 321 LNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQL 380
		           LNV+ + LPPLR+R EDIP L RHF+Q A +E G++ K    E    +    WPGNVR+L
		Sbjct: 300 LNVVPLRLPPLRDRAEDIPDLVRHFVQQAEKE-GLDVKRFDQEALELMKAHPWPGNVREL 358
		
		Query: 381 ENTCRWLTVMAAGQEVLIQDLPGELFESNVPESTSHMQPDSWATLLAQWADRALRS---- 436
		           EN  R LT +     +  + +  EL               S +  ++Q  +  +R     
		Sbjct: 359 ENLVRRLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFAS 418
		
		Query: 437 -----GHQNLLSEAQPELERTLLTTALRHTQGHKQEAARLLGWGRNTLTRKLKELGME 489
		                    L      E+E  L+  AL  T+G++ +AA LLG  RNTL +K++ELG+ 
		Sbjct: 419 FGDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGVS 476
		
		
	4718#c4820	TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family ...	180	4e-51
		>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family
		           signature.
		          Length = 639
		
		 Score =  180 bits (458), Expect = 4e-51
		 Identities = 97/445 (21%), Positives = 170/445 (38%), Gaps = 81/445 (18%)
		
		Query: 4   KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQE--RVMDSNDLEKERGITILAKNT 61
		           K+ NI ++AHVD GKTTL + LL  SG         +     D+  LE++RGITI    T
		Sbjct: 2   KIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGIT 61
		
		Query: 62  AIKWNDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGL 121
		           + +W + ++NI+DTPGH DF  EV R +S++D  +L++ A DG   QTR +       G+
		Sbjct: 62  SFQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGI 121
		
		Query: 122 KPIVVINKVDRPGARPDWVVDQVFD-------------LFVNLDATDEQLD--------- 159
		             I  INK+D+ G     V   + +             L+ N+  T+             
		Sbjct: 122 PTIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDTVIEG 181
		
		Query: 160 --------------------------------FPIVYASALNGIAGLDHEDMAEDMTPLY 187
		                                           FP+ + SA N I G+D+         L 
		Sbjct: 182 NDDLLEKYMSGKSLEALELEQEESIRFHNCSLFPVYHGSAKNNI-GIDN---------LI 231
		
		Query: 188 QAIVDHVPAPDVDLDGPFQMQISQLDYNSYVGVIGIGRIKRGKVKPNQQVTIIDSEGKTR 247
		           + I +   +           ++ +++Y+     +   R+  G +     V I + E    
		Sbjct: 232 EVITNKFYSSTHRGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRISEKEKI-- 289
		
		Query: 248 NAKVGKVLGHLGLERIETDLAEAGDIVAITGLGELNISDTVCDTQNVEALPALSVDEPTV 307
		             K+ ++   +  E  + D A +G+IV +     L ++  + DT+ +     +    P +
		Sbjct: 290 --KITEMYTSINGELCKIDKAYSGEIVILQNEF-LKLNSVLGDTKLLPQRERIENPLPLL 346
		
		Query: 308 SMFFCVNTSPFCGKEGKFVTSRQILDRLNKELVHNVALRVEETEDADAFRVSGRGELHLS 367
		                 +           +      D L         LR           +S  G++ + 
		Sbjct: 347 QTTVEPSKPQQREMLLDALLEISDSDPL---------LRYYVDSATHEIILSFLGKVQME 397
		
		Query: 368 VLIENMRRE-GFELAVSRPKVIFRE 391
		           V    ++ +   E+ +  P VI+ E
		Sbjct: 398 VTCALLQEKYHVEIEIKEPTVIYME 422
		
		
		
		 Score = 32.5 bits (74), Expect = 0.005
		 Identities = 13/75 (17%), Positives = 29/75 (38%), Gaps = 1/75 (1%)
		
		Query: 398 EPYENVTLDVEEQHQGSVMQALGERKGDLKNMNPDGKGRVRLDYVIPSRGLIGFRSEFMT 457
		           EPY +  +   +++         +   ++ +        V L   IP+R +  +RS+   
		Sbjct: 537 EPYLSFKIYAPQEYLSRAYTDAPKYCANIVDTQLKN-NEVILSGEIPARCIQEYRSDLTF 595
		
		Query: 458 MTSGTGLLYSTFSHY 472
		            T+G  +  +    Y
		Sbjct: 596 FTNGRSVCLTELKGY 610
		
		
c4883	c4895	Y	Y	N	c4868	c4907
	c4883	0	13	3.137486	1,4-dihydroxy-2-naphthoate
	c4884	1	14	3.107436	ATP-dependent hsl protease ATP-binding subunit
	c4885	2	13	3.360356	ATP-dependent protease hslV
	c4886	1	13	3.141827	Cell division protein ftsN
	c4887	-1	12	2.470816	Transcriptional repressor cytR
	c4888	0	15	4.199380	Primosomal protein N'
	c4889	-2	12	1.338622	Hypothetical protein
	c4890	-3	10	-0.465786	Hypothetical protein yiiX precursor
	c4891	-2	11	-2.430699	Met repressor
	c4892	-2	12	-2.707109	Cystathionine gamma-synthase
	c4893	-1	12	-3.610509	AKII-HDII protein
	c4894	-1	18	-6.331542	Nucleoside-specific channel-forming protein tsx
	c4895	-2	11	-3.115478	Hypothetical protein
	4781#c4884	HTHFIS#FIS bacterial regulatory protein HTH signature.	30	0.018
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 30.2 bits (68), Expect = 0.018
		 Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 3/36 (8%)
		
		Query: 49  TPKNILMIGPTGVGKTEIAR---RLAKLANAPFIKV 81
		           T   +++ G +G GK  +AR      K  N PF+ +
		Sbjct: 159 TDLTLMITGESGTGKELVARALHDYGKRRNGPFVAI 194
		
		
	4783#c4886	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	41	5e-06
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 41.2 bits (96), Expect = 5e-06
		 Identities = 32/155 (20%), Positives = 64/155 (41%), Gaps = 5/155 (3%)
		
		Query: 114  LTPEQRQLLEQMQADMRQQPTQLVEVPWNEQTPEQRQQTLQRQRQAQQLAEQQRLVQQSR 173
		            +          +QAD+   P+   E+   ++ P             + +AE  +  Q+S+
		Sbjct: 992  VDTTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENSK--QESK 1049
		
		Query: 174  TTEQSWQQQT-RTSQAAPVQAQPRQSKPASTQQPYQDLLQTPAHTTAQSKPQQAAPVARV 232
		            T E++ Q  T  T+Q   V  + + +  A+TQ        +    T  ++ ++ A V + 
		Sbjct: 1050 TVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKE 1109
		
		Query: 233  ADAPKPTAEKKDERRWMVQCGSFRGAEQAETVRAQ 267
		              A   T + ++  +   Q    +  EQ+ETV+ Q
		Sbjct: 1110 EKAKVETEKTQEVPKVTSQVSPKQ--EQSETVQPQ 1142
		
		
	4791#c4894	CHANNELTSX#Nucleoside-specific channel-forming protein Tsx signa...	357	e-127
		>CHANNELTSX#Nucleoside-specific channel-forming protein Tsx
		           signature.
		          Length = 294
		
		 Score =  357 bits (916), Expect = e-127
		 Identities = 171/262 (65%), Positives = 204/262 (77%), Gaps = 6/262 (2%)
		
		Query: 30  WLHQSLNVIGRTDSRFGPRLTNDLYPEYTVAGRKDWFDFYGYVDLPKFFGVGSHYDVGIW 89
		           W HQS+NV+G   +RFGP++ ND Y EY    +KDWFDFYGY+D P FFG G+    GIW
		Sbjct: 34  WWHQSVNVVGSYHTRFGPQIRNDTYLEYEAFAKKDWFDFYGYIDAPVFFG-GNSTAKGIW 92
		
		Query: 90  DEGSPLFTEIEPRFSIDKLTGLNLAFGPFKEWFIANNYVYDMGDNQSSRQSTWYMGLGTD 149
		           ++GSPLF EIEPRFSIDKLT  +L+FGPFKEW+ ANNY+YDMG N S  QSTWYMGLGTD
		Sbjct: 93  NKGSPLFMEIEPRFSIDKLTNTDLSFGPFKEWYFANNYIYDMGRNDSQEQSTWYMGLGTD 152
		
		Query: 150 IDTGLPIKLSANIYAKYQWQNYGAANENEWDGYRFKIKYSIPLTNLFGGRLVYNSFTNFD 209
		           IDTGLP+ LS N+YAKYQWQNYGA+NENEWDGYRFK+KY +PLT+L+GG L Y  FTNFD
		Sbjct: 153 IDTGLPMSLSLNVYAKYQWQNYGASNENEWDGYRFKVKYFVPLTDLWGGSLSYIGFTNFD 212
		
		Query: 210 FGSDLADKSHNN-----KRTSNAIASSHILSLLYEHWKFAFTLRYFHNGGQWNAGEKVNF 264
		           +GSDL D +  +      RTSN+IASSHIL+L Y HW ++   RYFHNGGQW    K+NF
		Sbjct: 213 WGSDLGDDNFYDLNGKHARTSNSIASSHILALNYAHWHYSIVARYFHNGGQWADDAKLNF 272
		
		Query: 265 GDGPFELKNTGWGTYTTIGYQF 286
		           GDGPF +++TGWG Y  +GY F
		Sbjct: 273 GDGPFSVRSTGWGGYFVVGYNF 294
		
		
c5036	c5050	Y	Y	N	c5021	c5060
	c5036	1	20	-3.614700	Succinyl-CoA synthetase beta chain
	c5037	2	22	-4.519162	Succinyl-CoA synthetase alpha chain
	c5038	2	24	-5.505911	Putative membrane-bound protein
	c5039	1	30	-7.396280	Putative lactate dehydrogenase
	c5040	-1	31	-8.617427	Putative c4-dicarboxylate transport
	c5041	1	28	-8.206161	Putative transport sensor protein
	c5042	1	22	-4.075140	Hypothetical protein
	c5043	1	18	1.271501	Hypothetical protein
	c5044	0	18	2.420587	Hypothetical protein
	c5045	0	17	2.828216	Class B acid phosphatase precursor
	c5046	0	20	3.105973	Hypothetical protein yjbQ
	c5047	-1	14	0.491956	Protein yjbR
	c5048	-1	14	0.476697	Excinuclease ABC subunit A
	c5049	-1	19	-2.666184	Single-strand binding protein
	c5050	0	22	-4.155704	Hypothetical protein yjcB
	4935#c5040	HTHFIS#FIS bacterial regulatory protein HTH signature.	443	e-155
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score =  443 bits (1142), Expect = e-155
		 Identities = 158/485 (32%), Positives = 230/485 (47%), Gaps = 48/485 (9%)
		
		Query: 6   SEITIVYIEDSDDVRFACEQTLTLAGYRVISCCDAEHSIPLIQSQANIIILTDVRLPGIS 65
		           +  TI+  +D   +R    Q L+ AGY V    +A      I +    +++TDV +P  +
		Sbjct: 2   TGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDEN 61
		
		Query: 66  GLELLSYINEMDSKIPVILITGHGDVEMAVDAMRNGAFDFIEKPSSSDKLLSIIARAVEK 125
		             +LL  I +    +PV++++       A+ A   GA+D++ KP    +L+ II RA+ +
		Sbjct: 62  AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121
		
		Query: 126 RRLVLENQQLLANLQQENGPVLIGRSPQMQQLRKMILNVADTGADVLIYGETGCGKEVVA 185
		            +      +  +    ++G  L+GRS  MQ++ +++  +  T   ++I GE+G GKE+VA
		Sbjct: 122 PKRRPSKLEDDS----QDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVA 177
		
		Query: 186 RMLHHWSTRRQGQFVALNCAGLPETLFESEIFGHEAGAFTGAVKKRIGKIEHANGGTLFL 245
		           R LH +  RR G FVA+N A +P  L ESE+FGHE GAFTGA  +  G+ E A GGTLFL
		Sbjct: 178 RALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFL 237
		
		Query: 246 DEIEGMPSGMQVKLLRVLQERTIERLGANQLIPVNCRVIAATKEDLLRRSEEHLFRLDLY 305
		           DEI  MP   Q +LLRVLQ+     +G    I  + R++AAT +DL +   + LFR DLY
		Sbjct: 238 DEIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLY 297
		
		Query: 306 YRLNVVSLNIPPLRQRREDIPELFYWFASQAAQKYNRPLPDISPMLLAWLQSQSWPGNVR 365
		           YRLNVV L +PPLR R EDIP+L   F  QA  K    +       L  +++  WPGNVR
		Sbjct: 298 YRLNVVPLRLPPLRDRAEDIPDLVRHFVQQAE-KEGLDVKRFDQEALELMKAHPWPGNVR 356
		
		Query: 366 ELKHNAERFVL----------------GLLTHHQPVPMTQQEESGLTAC----------- 398
		           EL++   R                          P+         L+             
		Sbjct: 357 ELENLVRRLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYF 416
		
		Query: 399 ----------------IDAFEKKLIEDMLRQTEGQVSLTARLLQLPRKTLYDKLNKHQIQ 442
		                           +   E  LI   L  T G     A LL L R TL  K+ +  + 
		Sbjct: 417 ASFGDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGVS 476
		
		Query: 443 PQVYR 447
		                
		Sbjct: 477 VYRSS 481
		
		
	4944#c5049	PERTACTIN#Pertactin signature.	27	0.048
		>PERTACTIN#Pertactin signature.
		          Length = 922
		
		 Score = 27.0 bits (59), Expect = 0.048
		 Identities = 15/50 (30%), Positives = 19/50 (38%), Gaps = 4/50 (8%)
		
		Query: 119 GGAPAGGNIGGGQPQGGWGQPQQPQGGNQFSG----GAQSRPQQSAPAAP 164
		           G APAGG + GG   GG          + + G     +     QS   AP
		Sbjct: 261 GDAPAGGAVPGGAVPGGAVPGGFGPLLDGWYGVDVSDSTVDLAQSIVEAP 310
		
		
c5059	c5069	Y	Y	N	c5044	c5083
	c5059	-1	21	3.435655	Hypothetical protein
	c5060	-2	20	3.132422	Hypothetical protein
	c5061	-3	21	2.849993	Hypothetical protein
	c5062	-2	23	2.938977	Putative symporter yjcG
	c5063	-1	22	3.274913	Hypothetical protein yjcH
	c5064	-2	23	3.994372	Acetyl-coenzyme A synthetase
	c5065	-1	17	3.955552	Hypothetical protein
	c5066	-2	17	4.166905	Cytochrome c552 precursor
	c5067	-1	19	4.612171	Cytochrome c-type protein nrfB precursor
	c5068	-1	19	4.362761	NrfC protein
	c5069	-1	18	3.476161	NrfD protein
	4958#c5063	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	27	0.019
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		          signature.
		          Length = 478
		
		 Score = 26.7 bits (59), Expect = 0.019
		 Identities = 5/33 (15%), Positives = 13/33 (39%), Gaps = 1/33 (3%)
		
		Query: 18 ELVEKR-QRFATILSIIMLAVYIGFILLIAFAP 49
		          EL+E    R   +++  ++   +   +L     
		Sbjct: 47 ELIETPVSRRPRLVAYFIMGFLVIAFILSVLGQ 79
		
		
	4963#c5068	VACJLIPOPROT#VacJ lipoprotein signature.	30	0.007
		>VACJLIPOPROT#VacJ lipoprotein signature.
		          Length = 251
		
		 Score = 29.9 bits (67), Expect = 0.007
		 Identities = 6/21 (28%), Positives = 12/21 (57%)
		
		Query: 179 FGNLDDPSSEISQLLRQKPTY 199
		            GNL++P+  ++  L+  P  
		Sbjct: 75  TGNLEEPAVMVNYFLQGDPYQ 95
		
		
c5095	c5108	Y	Y	N	c5079	c5120
	c5095	0	21	4.076033	Protein rpiR
	c5096	1	27	6.522741	Ribose 5-phosphate isomerase B
	c5097	0	31	7.555914	Conserved hypothetical protein
	c5098	0	34	7.562945	PhnP protein
	c5099	0	35	7.841966	PhnO protein
	c5101	-1	35	8.133783	PhnM protein
	c5102	-1	34	8.225454	Phosphonates transport ATP-binding protein phnL
	c5103	-1	35	8.637647	Phosphonates transport ATP-binding protein phnK
	c5104	-1	37	8.823608	PhnJ protein
	c5105	0	36	7.986349	PhnI protein
	c5106	0	37	7.430888	PhnH protein
	c5107	1	36	6.448303	PhnG protein
	c5108	1	33	4.723620	Probable transcriptional regulator phnF
	4993#c5099	SACTRNSFRASE#Streptothricin acetyltransferase signature.	33	3e-04
		>SACTRNSFRASE#Streptothricin acetyltransferase signature.
		          Length = 173
		
		 Score = 32.6 bits (74), Expect = 3e-04
		 Identities = 20/84 (23%), Positives = 32/84 (38%), Gaps = 5/84 (5%)
		
		Query: 50  HLALLDGEVVGMIGLHLQFHLHHVNWIGEIQELVVMPQARGLNVGSKLLAWAEEEARQAG 109
		            L  L+   +G I +   +     N    I+++ V    R   VG+ LL  A E A++  
		Sbjct: 68  FLYYLENNCIGRIKIRSNW-----NGYALIEDIAVAKDYRKKGVGTALLHKAIEWAKENH 122
		
		Query: 110 AEMTELSTNVKRHDAHRFYLREGY 133
		                L T      A  FY +  +
		Sbjct: 123 FCGLMLETQDINISACHFYAKHHF 146
		
		
	4995#c5102	PF05272#Virulence-associated E family protein	29	0.013
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 29.3 bits (65), Expect = 0.013
		 Identities = 17/70 (24%), Positives = 25/70 (35%), Gaps = 8/70 (11%)
		
		Query: 36  CVVLHGHSGSGKSTLLRSLYANYLPDEGQIQIKHGDEWVDLVTAPARKVVEI------RK 89
		            VVL G  G GKSTL+ +L       +    I  G +  + +        E+      R+
		Sbjct: 598 SVVLEGTGGIGKSTLINTLVGLDFFSDTHFDIGTGKDSYEQIAGIV--AYELSEMTAFRR 655
		
		Query: 90  TTVGWVSQFL 99
		                V  F 
		Sbjct: 656 ADAEAVKAFF 665
		
		
c5129	c5217	Y	Y	Y	c5112	c5153
	c5129	0	16	-3.102937	Hypothetical protein
	c5130	0	17	-3.508279	Transcriptional Regulatory protein dcuR
	c5131	1	18	-4.701280	Sensor protein dcuS
	c5132	3	31	-8.622694	Hypothetical protein
	c5133	2	21	-6.069502	Hypothetical protein yjdI
	c5134	-2	16	-3.847262	Hypothetical protein yjdJ
	c5135	-2	17	-3.598503	Hypothetical protein
	c5136	-1	23	-3.018607	Hypothetical protein ydcX
	c5137	-1	19	-3.877948	Hypothetical protein
	c5138	0	19	-3.926722	Lysyl-tRNA synthetase, heat inducible
	c5139	2	17	-2.743615	Hypothetical transporter yjdL
	c5140	3	22	-2.830128	Lysine decarboxylase, inducible
	c5141	4	20	-2.355080	Probable cadaverine/lysine antiporter
	c5142	4	19	-2.407345	Transcriptional activator cadC
	c5143	7	27	0.969204	Hypothetical protein
	c5144	6	25	1.497464	Hypothetical protein
	c5145	3	26	1.548286	Hypothetical protein
	c5146	6	25	1.355660	Conserved hypothetical protein
	c5147	6	27	3.422111	Conserved hypothetical protein
	c5148	5	25	4.668356	Unknown protein encoded within prophage
	c5149	7	27	4.972058	Hypothetical protein yeeV
	c5150	8	27	4.822769	Hypothetical protein yeeU
	c5151	7	27	4.714635	Hypothetical protein yeeT
	c5152	7	28	4.456372	Putative radC-like protein yeeS
	c5153	6	27	2.550743	Hypothetical protein
	c5154	6	26	1.524138	Hypothetical protein
	c5155	6	25	0.668765	Hypothetical protein yfjX
	c5156	4	25	-0.729114	Hypothetical protein yafZ
	c5157	4	27	-1.406067	Hypothetical protein ykfF
	c5158	4	23	-3.268350	Hypothetical protein
	c5159	4	25	-6.220356	Hypothetical protein
	c5160	4	25	-6.569374	Hypothetical transcriptional regulator yfjR
	c5161	4	25	-7.239552	Hypothetical protein
	c5162	2	22	-4.721984	Putative conserved protein
	c5163	2	23	-5.914446	Hypothetical protein
	c5164	1	23	-5.991826	Hypothetical protein
	c5165	1	18	-2.260283	Hypothetical protein
	c5166	2	18	-2.223249	Partial Transposase
	c5167	2	19	-1.528707	Putative Transposase for IS629
	c5168	5	23	-3.594533	Unknown protein of IS629 encoded within
	c5169	5	27	-6.704972	Hypothetical protein
	c5170	5	26	-6.105632	Hypothetical protein
	c5171	4	23	-4.955819	Hypothetical protein
	c5172	4	21	-4.293850	Hypothetical protein
	c5173	4	22	-3.639674	Hypothetical protein
	c5174	4	24	-4.471503	Putative iron-regulated outer membrane virulence
	c5175	4	23	-2.586908	Hypothetical protein
	c5176	4	27	-3.717082	Putative Transposase within prophage
	c5177	5	32	-3.486644	Hypothetical protein in IS
	c5178	6	33	-2.976530	Putative Transposase for IS629
	c5179	7	38	-3.417978	PapG protein
	c5180	6	39	-2.531750	PapF protein
	c5181	5	33	-0.450700	PapE protein
	c5182	4	31	0.489031	PapK protein
	c5183	5	31	-0.866435	Hypothetical protein
	c5184	4	31	-1.407677	PapJ protein
	c5185	4	30	-2.180318	PapD protein
	c5186	4	28	-1.344325	PapC protein
	c5187	6	32	-4.008344	PapH protein
	c5188	5	24	-2.476999	PapA protein
	c5189	5	22	0.270117	PapI protein
	c5190	4	21	-0.640148	Hypothetical protein
	c5191	4	23	-0.305202	Hypothetical protein
	c5192	4	21	0.003754	Conserved hypothetical protein
	c5193	3	22	-0.326666	Hypothetical protein
	c5194	2	27	-4.742310	Hypothetical protein
	c5195	3	27	-6.463355	Hypothetical protein
	c5196	0	21	-5.769316	Transposase insC for insertion element
	c5197	-1	22	-4.817079	Transposase insD for insertion element
	c5198	-1	21	-4.804105	Hypothetical protein
	c5199	0	22	-4.399203	Hypothetical protein
	c5200	0	22	-4.063364	Hypothetical protein
	c5201	0	22	-3.390392	Transporter protein
	c5202	2	23	-2.699117	Regulatory protein
	c5203	5	24	-2.390472	Regulatory protein
	c5204	6	25	-1.772897	Transport activator
	c5205	7	30	-4.267056	Conserved hypothetical protein
	c5206	7	35	-6.380655	Hypothetical protein
	c5207	7	37	-6.999096	Hypothetical protein
	c5208	5	32	-5.660612	Hypothetical protein ybdM
	c5209	3	32	-6.010677	Hypothetical protein ybdN
	c5210	3	33	-6.407590	Hypothetical protein
	c5211	2	29	-4.385764	Hypothetical protein
	c5212	1	19	-1.189765	Hypothetical protein
	c5213	-1	15	-0.143045	Putative Transposase for IS629
	c5214	0	15	-0.629938	Unknown protein of IS629 encoded within
	c5215	0	14	-0.499380	Conserved hypothetical protein
	c5216	1	18	-0.052315	Prophage P4 integrase
	c5217	2	22	-0.160275	*Protein yjdC
	5021#c5130	HTHFIS#FIS bacterial regulatory protein HTH signature.	68	2e-15
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 68.3 bits (167), Expect = 2e-15
		 Identities = 31/109 (28%), Positives = 51/109 (46%), Gaps = 4/109 (3%)
		
		Query: 4   VLIIDDDAMVAELNRRYVAQIPGFQCCGTASTLEKAKEIIFNSDTPIDLILLDIYMQKEN 63
		           +L+ DDDA +  +  + +++  G+      S        I  +    DL++ D+ M  EN
		Sbjct: 6   ILVADDDAAIRTVLNQALSRA-GYDVR-ITSNAATLWRWI--AAGDGDLVVTDVVMPDEN 61
		
		Query: 64  GLDLLPVLHNARCKSDVIVISSAADAVTIKDSLHYGVVDYLIKPFQASR 112
		             DLLP +  AR    V+V+S+    +T   +   G  DYL KPF  + 
		Sbjct: 62  AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTE 110
		
		
	5022#c5131	PF06580#Sensor histidine kinase	41	8e-06
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 41.0 bits (96), Expect = 8e-06
		 Identities = 21/99 (21%), Positives = 38/99 (38%), Gaps = 18/99 (18%)
		
		Query: 442 LIENALE-ALGP-EPGGEISVTLHYRHGWLHCEVNDDGPGIAPDKIDHIFDKGVSTKGSE 499
		           L+EN ++  +     GG+I +     +G +  EV + G     +                
		Sbjct: 263 LVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKN------------TKES 310
		
		Query: 500 RGVGLALVKQQVENLGG---SIAVESEPGIFTQFFVQIP 535
		            G GL  V+++++ L G    I +  + G      V IP
		Sbjct: 311 TGTGLQNVRERLQMLYGTEAQIKLSEKQGKVN-AMVLIP 348
		
		
	5025#c5134	SACTRNSFRASE#Streptothricin acetyltransferase signature.	26	0.012
		>SACTRNSFRASE#Streptothricin acetyltransferase signature.
		          Length = 173
		
		 Score = 26.4 bits (58), Expect = 0.012
		 Identities = 9/28 (32%), Positives = 16/28 (57%)
		
		Query: 32  LAIIEHTDVDESLKGQGIGKQLVAKVVE 59
		            A+IE   V +  + +G+G  L+ K +E
		Sbjct: 89  YALIEDIAVAKDYRKKGVGTALLHKAIE 116
		
		
	5030#c5139	TCRTETA#Tetracycline resistance protein signature.	30	0.028
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 29.8 bits (67), Expect = 0.028
		 Identities = 36/190 (18%), Positives = 66/190 (34%), Gaps = 14/190 (7%)
		
		Query: 44  NHAISLFSAYA-SLVYVTPILGGWLADRLLGNRTAVIAGALLMTLGHVVLGIDTNSTFSL 102
		            H   L + YA       P+LG   +DR  G R  ++       + + ++       + L
		Sbjct: 43  AHYGILLALYALMQFACAPVLGAL-SDRF-GRRPVLLVSLAGAAVDYAIMAT-APFLWVL 99
		
		Query: 103 YLALAIIICGYGLFKSNISCLLGELYDEND-HRRDGGFSLLYAAGNIGSIAAPIACGLAA 161
		           Y+   +     G+  +  +     + D  D   R   F  + A    G +A P+  GL  
		Sbjct: 100 YIGRIV----AGITGATGAVAGAYIADITDGDERARHFGFMSACFGFGMVAGPVLGGLMG 155
		
		Query: 162 QWYGWHVGFALAGGGMFIGLLIFLSGHRHFQSTRSMDKKALTSVKF-ALPVWSWLVVMLC 220
		             +  H  F  A     +  L FL+G      +   +++ L       L  + W   M  
		Sbjct: 156 G-FSPHAPFFAAA---ALNGLNFLTGCFLLPESHKGERRPLRREALNPLASFRWARGMTV 211
		
		Query: 221 LAPVFFTLLL 230
		           +A +     +
		Sbjct: 212 VAALMAVFFI 221
		
		
	5033#c5142	SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD cha...	37	8e-05
		>SYCDCHAPRONE#Gram-negative bacterial type III secretion SycD
		           chaperone signature.
		          Length = 168
		
		 Score = 36.8 bits (85), Expect = 8e-05
		 Identities = 16/97 (16%), Positives = 36/97 (37%), Gaps = 7/97 (7%)
		
		Query: 391 PLDEKQLAALNTEIDNIVTLPELNNLS-----IIYQIKAVSALVKGKTDESYQAINTGID 445
		              ++   A+ + +    T+  LN +S      +Y + A +    GK +++++       
		Sbjct: 6   TDTQEYQLAMESFLKGGGTIAMLNEISSDTLEQLYSL-AFNQYQSGKYEDAHKVFQALCV 64
		
		Query: 446 LEMSWLNYVL-LGKVYEMKGMNREAADAYLTAFNLRP 481
		           L+     + L LG   +  G    A  +Y     +  
		Sbjct: 65  LDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAIMDI 101
		
		
	5036#c5145	HTHFIS#FIS bacterial regulatory protein HTH signature.	28	0.034
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 28.3 bits (63), Expect = 0.034
		 Identities = 8/39 (20%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
		
		Query: 84  NGAQFRQLCETTDWVDAGE-NVLLFGASGLGKSHLAAAI 121
		             A  +++      +   +  +++ G SG GK  +A A+
		Sbjct: 142 RSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARAL 180
		
		
	5070#c5179	PF03627#PapG	601	0.0
		>PF03627#PapG
		          Length = 336
		
		 Score =  601 bits (1550), Expect = 0.0
		 Identities = 333/336 (99%), Positives = 334/336 (99%)
		
		Query: 1   MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT 60
		           MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT
		Sbjct: 1   MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT 60
		
		Query: 61  WNQCNGPEFADGSWAYYREYIAWVVFPKKVMTQNGYPLFIEVHNKGSWSEENTGDNDSYF 120
		           WNQCNGP FADGSWAYYREYIAWVVFPKKVMT+NGYPLFIEVHNKGSWSEENTGDNDSYF
		Sbjct: 61  WNQCNGPGFADGSWAYYREYIAWVVFPKKVMTKNGYPLFIEVHNKGSWSEENTGDNDSYF 120
		
		Query: 121 FLKGYKWDERAFDAGNLCQKPGETTRLTEKFDDIIFKVALPADLPLGDYSVKIPYTSGMQ 180
		           FLKGYKWDERAFDAGNLCQKPGETTRLTEKFDDIIFKVALPADLPLGDYSV IPYTSGMQ
		Sbjct: 121 FLKGYKWDERAFDAGNLCQKPGETTRLTEKFDDIIFKVALPADLPLGDYSVTIPYTSGMQ 180
		
		Query: 181 RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY 240
		           RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY
		Sbjct: 181 RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY 240
		
		Query: 241 AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY 300
		           AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY
		Sbjct: 241 AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY 300
		
		Query: 301 KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP 336
		           KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP
		Sbjct: 301 KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP 336
		
		
	5071#c5180	FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein...	267	5e-95
		>FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein
		           signature.
		          Length = 167
		
		 Score =  267 bits (683), Expect = 5e-95
		 Identities = 155/167 (92%), Positives = 156/167 (93%), Gaps = 1/167 (0%)
		
		Query: 11  MARLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE 70
		           M RLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE
		Sbjct: 1   MIRLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE 60
		
		Query: 71  VTKTISISCTYKSGSPWIKVTGNAMA-GQTNVLATNIANFGIALYQGKGMSTPLTLGNGS 129
		           VTK ISISC YKSGS WIKVTGN M  GQ NVLATNI +FGIALYQGKGMSTPLTLGNGS
		Sbjct: 61  VTKNISISCPYKSGSLWIKVTGNTMGVGQNNVLATNITHFGIALYQGKGMSTPLTLGNGS 120
		
		Query: 130 GNGYRVTAGLDTARSTFTFTSVPFRNGSRTLNGGDFRTTASMSMIYN 176
		           GNGYRVTAGLDTARSTFTFTSVPFRNGS  LNGGDFRTTASMSMIYN
		Sbjct: 121 GNGYRVTAGLDTARSTFTFTSVPFRNGSGILNGGDFRTTASMSMIYN 167
		
		
	5072#c5181	FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein...	306	e-110
		>FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein
		           signature.
		          Length = 173
		
		 Score =  306 bits (784), Expect = e-110
		 Identities = 128/173 (73%), Positives = 145/173 (83%)
		
		Query: 7   MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVTKAEVDWGNVEIQTLSQNG 66
		           MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTV  AEV+WG++EIQ L Q+G
		Sbjct: 1   MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVQNAEVNWGDIEIQNLVQSG 60
		
		Query: 67  NHEKEFTVNMQCPYHLGTMKVTITATNTYNNAILVQNTSNTSSDGVLVYLYNSNAGNIGT 126
		            ++K+FTV+M CPY LGTMKVTIT+     N+ILV NTS  S DG+L+YLYNSN   IG 
		Sbjct: 61  GNQKDFTVDMNCPYSLGTMKVTITSNGQTGNSILVPNTSTASGDGLLIYLYNSNNSGIGN 120
		
		Query: 127 AITLGTPFTPGKITGNNADRTISLHAKLGYKGNMQSLKAGDFSATATLVASYS 179
		           A+TLG+  TPGKITG    R I+L+AKLGYKGNMQSL+AG FSATATLVASYS
		Sbjct: 121 AVTLGSQVTPGKITGTAPARKITLYAKLGYKGNMQSLQAGTFSATATLVASYS 173
		
		
	5077#c5186	PF00577#Outer membrane usher protein FimD	742	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score =  742 bits (1918), Expect = 0.0
		 Identities = 243/882 (27%), Positives = 362/882 (41%), Gaps = 67/882 (7%)
		
		Query: 5   MRGMKDRI-PFAVNNITCVILLSLFCNAASAVEFNTDVLDAADKKNIDFTRFSEAGYVLP 63
		           +   K R+  F V         +    +++ + FN   L    +   D +RF     + P
		Sbjct: 16  LHIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQAVADLSRFENGQELPP 75
		
		Query: 64  GQYLLDVIVNGQSISPASLQISFVEPQSSGDKAEKKLPQACLTSDMVRLMGLTAESLDKV 123
		           G Y +D+ +N   +  A+  ++F    S            CLT   +  MGL   S+  +
		Sbjct: 76  GTYRVDIYLNNGYM--ATRDVTFNTGDSEQGI------VPCLTRAQLASMGLNTASVSGM 127
		
		Query: 124 VYWHDGQCADF-HGLPGVDIRPDTGAGVLRINMPQAWLEYSDATWLPPSRWDDGIPGLML 182
		               D  C      +     + D G   L + +PQA++      ++PP  WD GI   +L
		Sbjct: 128 NLLADDACVPLTSMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLL 187
		
		Query: 183 DYNLNGTVSRNYQGGDSHQFSYNGTVGGNLGPWRLRADYQGSQEQSRYNGEKTTNRNFTW 242
		           +YN +G   +N  GG+SH    N   G N+G WRLR +   S   S  +    +   +  
		Sbjct: 188 NYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSS--DSSSGSKNKWQH 245
		
		Query: 243 SRFYLFRAIPRWRANLTLGENNINSDIFRSWSYTGASLESDDRMLPPRLRGYAPQITGIA 302
		              +L R I   R+ LTLG+     DIF   ++ GA L SDD MLP   RG+AP I GIA
		Sbjct: 246 INTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIA 305
		
		Query: 303 ETNARVVVSQQGRVLYDSMVPAGPFSIQDLD-SSVRGRLDVEVIEQNGRKKTFQVDTASV 361
		              A+V + Q G  +Y+S VP GPF+I D+  +   G L V + E +G  + F V  +SV
		Sbjct: 306 RGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSV 365
		
		Query: 362 PYLTRPGQVRYKLVSGRSRGYGHETEGPVFATGEASWGLSNQWSLYGGAVLAGDYNALAA 421
		           P L R G  RY + +G  R    + E P F       GL   W++YGG  LA  Y A   
		Sbjct: 366 PLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRYRAFNF 425
		
		Query: 422 GAGWDLGVPGTLSADITQSVARIEGERTFQGKSWRLSYSKRFDNADADITFAGYRFSERN 481
		           G G ++G  G LS D+TQ+ + +  +    G+S R  Y+K  + +  +I   GYR+S   
		Sbjct: 426 GIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSG 485
		
		Query: 482 YMTMEQYLNARYR--------------------NDYSSREKEMYTVTLNKNVADWNTSFN 521
		           Y        +R                       + +  ++    +T+ + +   + +  
		Sbjct: 486 YFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRTS-TLY 544
		
		Query: 522 LQYSRQTYWDIRKTD-YYTVSVNRYFNVFGLQGVAVGLSASRSKYLGRD--NDSAYLRIS 578
		           L  S QTYW     D  +   +N  F       +   LS S +K   +   +    L ++
		Sbjct: 545 LSGSHQTYWGTSNVDEQFQAGLNTAFE-----DINWTLSYSLTKNAWQKGRDQMLALNVN 599
		
		Query: 579 VPLGT------------GTASYSGSMSND-RYVNMAGYTDM-FNDGLDSYSLNAGLNSGG 624
		           +P                +ASYS S   + R  N+AG       D   SYS+  G   GG
		Sbjct: 600 IPFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGG 659
		
		Query: 625 GLTSQRQINAYYSHRSPLANLSANIASLQKGYTSFGVSASGGATITGKGAALHAGGMSGG 684
		              S     A  ++R    N +    S            SGG      G  L  G     
		Sbjct: 660 DGNSGSTGYATLNYRGGYGNANIG-YSHSDDIKQLYYGVSGGVLAHANGVTL--GQPLND 716
		
		Query: 685 TRLLVDTDGVGGVPVDGGQVV-TNRWGTGVVTDISSYYRNTTSVDLKRLPDDVEATRSVV 743
		           T +LV   G     V+    V T+  G  V+   + Y  N  ++D   L D+V+   +V 
		Sbjct: 717 TVVLVKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVA 776
		
		Query: 744 ESALTEGAIGYRKFSVLKGKRLFAILRLADGSQPPFGASVTSEKGRELGMVADEGLAWLS 803
		               T GAI   +F    G +L   L   +    PFGA VTSE  +  G+VAD G  +LS
		Sbjct: 777 NVVPTRGAIVRAEFKARVGIKLLMTLT-HNNKPLPFGAMVTSESSQSSGIVADNGQVYLS 835
		
		Query: 804 GVTPGETLSVNW--DGKIQCQVNVPETAISDQQLL----LPC 839
		           G+     + V W  +    C  N      S QQLL      C
		Sbjct: 836 GMPLAGKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAEC 877
		
		
	5078#c5187	FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein...	32	0.001
		>FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein
		           signature.
		          Length = 173
		
		 Score = 31.5 bits (71), Expect = 0.001
		 Identities = 41/173 (23%), Positives = 75/173 (43%), Gaps = 29/173 (16%)
		
		Query: 29  GMSLPEYWG----EEHVWWDGRAAFHGEVVRPACTLAMEDAWQIIDMGETPVRDL-QNGF 83
		           G+ LP   G     +HV       F G+++ PACT+   +    ++ G+  +++L Q+G 
		Sbjct: 6   GLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVQNAE----VNWGDIEIQNLVQSG- 60
		
		Query: 84  SGPERKFSLRLRNCEFNSQGGNLFSDSRIRVTFDGVRGET---PDKFNLSGQAKGINLQI 140
		            G ++ F++ + NC ++          ++ +T +G  G +   P+    SG    I L  
		Sbjct: 61  -GNQKDFTVDM-NCPYS------LGTMKVTITSNGQTGNSILVPNTSTASGDGLLIYLYN 112
		
		Query: 141 ADARGNIARAGKV-MPAIP--LTGNEEALDYTLRIVR----NGKKLEAGNYFA 186
		           ++    I  A  +     P  +TG   A   TL        N + L+AG + A
		Sbjct: 113 SNN-SGIGNAVTLGSQVTPGKITGTAPARKITLYAKLGYKGNMQSLQAGTFSA 164
		
		
	5092#c5201	TCRTETA#Tetracycline resistance protein signature.	39	3e-05
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 39.0 bits (91), Expect = 3e-05
		 Identities = 66/387 (17%), Positives = 130/387 (33%), Gaps = 39/387 (10%)
		
		Query: 52  TPYLKEQLDLSATQI---GVLSSCMLIAYGISKGVMSSLADKASPKVFMACGLVLCAIVN 108
		            P L   L  S       G+L +   +       V+ +L+D+   +  +   L   A+  
		Sbjct: 28  LPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGALSDRFGRRPVLLVSLAGAAVDY 87
		
		Query: 109 VGLGFSTAFWIFAALVILNGLFQGMGVGPSFITIANWFPRRERGRVGAFWNISHNIGGGI 168
		             +  +   W+     I+ G+    G       IA+     ER R   F  +S   G G+
		Sbjct: 88  AIMATAPFLWVLYIGRIVAGITGATGAVAG-AYIADITDGDERAR--HFGFMSACFGFGM 144
		
		Query: 169 VA-PIVGAAFALLGSEHWQSASYIVPACVAIVFAVIVLILGKGSPHQEGLPSLEEMMPEE 227
		           VA P++G             A +   A +  +  +    L                +PE 
		Sbjct: 145 VAGPVLGGLMGGFSPH----APFFAAAALNGLNFLTGCFL----------------LPE- 183
		
		Query: 228 KVVLNTRQTVKAPENMSAFQIFCTYVLRNKNAWYVSLVDVFVYMVRFGMISWLPIYLLTV 287
		                + +  + P    A     ++          +L+ VF  M   G +      +   
		Sbjct: 184 -----SHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFGE 238
		
		Query: 288 KHFSKEQMSVAFLFFEWA---AIPSTLLAGWLSDKLFKGRRMPLAMICMALIFICLIGYW 344
		             F  +  ++      +    ++   ++ G ++ +L + R + L MI     +I L    
		Sbjct: 239 DRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFAT 298
		
		Query: 345 KSESLFMVTIFAAIVGCLIYVPQFLASVQTMEIVPSFAVGSAVGLRGFMSYIFGASLGTS 404
		           +    F + +  A  G  +   Q + S Q  E       GS   L   ++ I G  L T+
		Sbjct: 299 RGWMAFPIMVLLASGGIGMPALQAMLSRQVDEERQGQLQGSLAALTS-LTSIVGPLLFTA 357
		
		Query: 405 LFGIMVDHIGWHGGFYLLGCGIICCII 431
		           ++   +    W+G  ++ G  +    +
		Sbjct: 358 IYAASITT--WNGWAWIAGAALYLLCL 382
		
		
	5095#c5204	HTHFIS#FIS bacterial regulatory protein HTH signature.	240	7e-77
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score =  240 bits (615), Expect = 7e-77
		 Identities = 113/479 (23%), Positives = 191/479 (39%), Gaps = 83/479 (17%)
		
		Query: 10  SILLIDDDADVLDAYTQLLEQSGYRVFACNNPFEAQAWIQPDWPGIVLSDVCMPGCSGID 69
		           +IL+ DDDA +     Q L ++GY V   +N      WI      +V++DV MP  +  D
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 70  LMMLFHQDDQQLPILLITGHGDVPMAVDAVKKGAWDFLQKPVDPGKLLSLVEEALRQRQS 129
		           L+    +    LP+L+++       A+ A +KGA+D+L KP D  +L+ ++  AL + + 
		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124
		
		Query: 130 IIARRQYCQQTLQVELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQF 189
		             ++ +   Q     L+GRS  + +  R L +L +TD+ + + G  GTG+   AR LH +
		Sbjct: 125 RPSKLEDDSQDGM-PLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDY 183
		
		Query: 190 GRNAQGEFVYRELTPDNAPQLND------------------------FIALAQGGTLVLS 225
		           G+   G FV       N   +                              A+GGTL L 
		Sbjct: 184 GKRRNGPFV-----AINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLD 238
		
		Query: 226 HPEHLTREQQYHLVQ-LQSQEHRP----------FRLIGIGDTSLVELAASNHIIAELYY 274
		               +  + Q  L++ LQ  E+             R++   +  L +         +LYY
		Sbjct: 239 EIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYY 298
		
		Query: 275 CFAMTQIACLPLTQRPDDIEPLFRHYLCKACQRLNHPVPEVGKEMLKEMMRRMWPNNVRE 334
		              +  +   PL  R +DI  L RH++ +A  +    V    +E L+ M    WP NVRE
		Sbjct: 299 RLNVVPLRLPPLRDRAEDIPDLVRHFVQQAE-KEGLDVKRFDQEALELMKAHPWPGNVRE 357
		
		Query: 335 LANAAE--------------------------------LFTVGVLPLAE---------TA 353
		           L N                                       G L +++          A
		Sbjct: 358 LENLVRRLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFA 417
		
		Query: 354 NPLMHVGTPTPLDRRVEDAERQIITEALNIHQGRINEVAEYLQIPRKKLYLRMKKYGLS 412
		           +    +      DR + + E  +I  AL   +G   + A+ L + R  L  ++++ G+S
		Sbjct: 418 SFGDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRELGVS 476
		
		
	5108#c5217	HTHTETR#TetR bacterial regulatory protein HTH signature.	47	1e-08
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 46.9 bits (111), Expect = 1e-08
		 Identities = 30/199 (15%), Positives = 57/199 (28%), Gaps = 14/199 (7%)
		
		Query: 1   MGKTEENSVQ-REDVLGEALKLLELQGIANTTLEMVAERVDYPLDELRRFWPDKEAILYD 59
		             KT++ + + R+ +L  AL+L   QG+++T+L  +A+        +   + DK  +  +
		Sbjct: 2   ARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSE 61
		
		Query: 60  ALRYLSQQIDVWRRQLMLDETQTAEQKLLARYQALSECVKNNRYPGCLFIAACTFYPDPG 119
		                   I     +            L      + E            +    F+    
		Sbjct: 62  IWELSESNIGELELEYQAKFPGDPLSVLREILIHVLEST--VTEERRRLLMEIIFHKCEF 119
		
		Query: 120 H----PIHQLADQQKSAAYDFTHELLTT-------LEVDDPAMVAKQMELVLEGCLSRML 168
		                 + Q        +YD   + L                  A  M   + G +   L
		Sbjct: 120 VGEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWL 179
		
		Query: 169 VNRSQADVDTAHRLAEDIL 187
		                 D+    R    IL
		Sbjct: 180 FAPQSFDLKKEARDYVAIL 198
		
		
c5249	c5269	Y	Y	Y	c5234	c5274
	c5249	-2	13	3.168365	Oligoribonuclease
	c5250	-2	12	3.234567	***Putative electron transport protein yjeS
	c5251	-2	12	3.350138	Hypothetical protein yjeF
	c5252	-1	14	2.586514	Hypothetical protein yjeE
	c5253	0	13	3.119136	N-acetylmuramoyl-L-alanine amidase amiB
	c5254	1	15	2.870024	DNA mismatch repair protein mutL
	c5255	2	19	2.028615	tRNA delta(2)-isopentenylpyrophosphate
	c5256	4	25	2.198793	Hfq protein
	c5257	4	23	2.094618	GTP-binding protein hflX
	c5258	4	24	2.628136	HflK protein
	c5259	4	24	2.468771	HflC protein
	c5260	2	20	1.616222	Hypothetical protein yjeT
	c5261	3	19	1.524292	Adenylosuccinate synthetase
	c5262	4	14	0.693526	Hypothetical protein yjeB
	c5263	4	14	0.521168	Ribonuclease R
	c5264	2	15	-2.355547	Hypothetical tRNA/rRNA methyltransferase yjfH
	c5265	2	20	-4.987364	Hypothetical protein yjfI
	c5266	3	20	-3.488740	Hypothetical protein yjfJ precursor
	c5267	6	22	-4.089381	Hypothetical protein yjfK
	c5268	3	22	-2.338565	Hypothetical protein yjfL
	c5269	2	20	0.628156	Hypothetical protein
	5148#c5257	SECA#SecA protein signature.	32	0.005
		>SECA#SecA protein signature.
		          Length = 901
		
		 Score = 31.8 bits (72), Expect = 0.005
		 Identities = 26/144 (18%), Positives = 54/144 (37%), Gaps = 6/144 (4%)
		
		Query: 282 HVIDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFEPRIDRDEENK-PIRV 340
		            ++D +DV    N    +     IDA+  P  L   ++  +   + R+  D +   PI  
		Sbjct: 665 ELLDVSDVSETINSIREDVFKATIDAYIPPQSL--EEMWDIPGLQERLKNDFDLDLPIAE 722
		
		Query: 341 WLSAQTGAGIPQLFQALTERLSGEVAQHTLRLPPQEGRLRSRFYQLQAIEKEWMEEDGSV 400
		           WL  +       L + +  +      +    +  +  R   +   LQ ++  W E   ++
		Sbjct: 723 WLDKEPELHEETLRERILAQSIEVYQRKEEVVGAEMMRHFEKGVMLQTLDSLWKEHLAAM 782
		
		Query: 401 SLQVRMPIVDWRRLCKQEPALIDY 424
		              +R  I   R   +++P   +Y
		Sbjct: 783 D-YLRQGIH-LRGYAQKDP-KQEY 803
		
		
	5149#c5258	cloacin#Cloacin signature.	32	0.006
		>cloacin#Cloacin signature.
		          Length = 551
		
		 Score = 31.6 bits (71), Expect = 0.006
		 Identities = 25/81 (30%), Positives = 30/81 (37%), Gaps = 10/81 (12%)
		
		Query: 17  GSSKPGGNSEGNGNKGGRDQGPPDLDDIFRKLSKKLGGLGGGKGTGSGGGSSSQGP---- 72
		            S   G +SE N   GG   G               G  GGG GTG G  S+   P    
		Sbjct: 33  ASDGSGWSSENNPWGGGSGSGIHWGGGSGHGNGGGNGNSGGGSGTG-GNLSAVAAPVAFG 91
		
		Query: 73  -----RPQLGGRVVTIAAAAI 88
		                 P  GG  V+I+A A+
		Sbjct: 92  FPALSTPGAGGLAVSISAGAL 112
		
		
	5154#c5263	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	31	0.027
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 30.6 bits (69), Expect = 0.027
		 Identities = 12/55 (21%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
		
		Query: 179 VVPDDSRLSFDILIPPDQIMGARMGFVVVVELTQRPTRRTKAV-GKIVEVLGDNM 232
		           +VP+D  L    L+    I    +G   ++++   P  R   + GK+  +  D +
		Sbjct: 359 IVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAI 413
		
		
	5157#c5266	PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase sign...	32	0.001
		>PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase
		           signature.
		          Length = 572
		
		 Score = 32.4 bits (74), Expect = 0.001
		 Identities = 22/122 (18%), Positives = 47/122 (38%), Gaps = 12/122 (9%)
		
		Query: 85  VNPSLINEVAEEIARLENLITAEEQVLSNLEVSRDGVEKAVTATAQRIAQFEQQMEVVKA 144
		           +  + I +V+ EI +L     A E+    L   +D  E ++ A    I  F   + V+  
		Sbjct: 29  IEKTSITDVSTEIEKLT---AALEKSKEELRAIKDQTEASMGADKAEI--FAAHLLVLDD 83
		
		Query: 145 TEAMQRAQQAVTTSTVGASSSVSTAAESLKRLQTRQAERQARLDAAAQLEKVADGRDLDE 204
		            E +   +  +    + A  ++   ++               +D     E+ AD RD+ +
		Sbjct: 84  PELVDGIKGKIENEQMNAEYALKEVSD-------MFVSMFESMDNEYMKERAADIRDVSK 136
		
		Query: 205 KL 206
		           ++
		Sbjct: 137 RV 138
		
		
c5283	c5294	Y	Y	N	c5267	c5307
	c5283	-1	26	3.871682	Unknown pentitol phosphotransferase enzyme II, B
	c5284	-2	23	3.733300	Unknown pentitol phosphotransferase enzyme II, A
	c5285	-2	24	3.806694	Probable hexulose-6-phosphate synthase
	c5286	-2	22	3.452978	Hypothetical protein
	c5287	-1	23	3.099867	Putative hexulose-6-phosphate isomerase
	c5288	1	28	1.043566	Probable sugar isomerase sgaE
	c5289	6	38	-0.916316	Hypothetical protein yjfY precursor
	c5290	5	34	-1.450152	Hypothetical protein
	c5291	4	32	-2.693986	30S ribosomal protein S6
	c5292	3	30	-4.344230	30S ribosomal protein S18
	c5293	1	27	-4.855011	Hypothetical protein
	c5294	-2	24	-3.109022	50S ribosomal protein L9
	5175#c5285	ECOLNEIPORIN#E.coli/Neisseria porin superfamily signature.	28	0.032
		>ECOLNEIPORIN#E.coli/Neisseria porin superfamily signature.
		          Length = 331
		
		 Score = 27.8 bits (62), Expect = 0.032
		 Identities = 6/19 (31%), Positives = 7/19 (36%), Gaps = 2/19 (10%)
		
		Query: 118 FNGDVQI--ELTGYWTWEQ 134
		           F G   +   L   W  EQ
		Sbjct: 62  FKGQEDLGNGLKAIWQVEQ 80
		
		
c5371	c5396	Y	Y	Y	c5356	c5395
	c5371	2	24	-2.036374	*Prophage P4 integrase
	c5372	3	28	-1.782469	Hypothetical protein
	c5373	5	32	-0.480347	Hypothetical protein
	c5374	6	35	1.725091	Hypothetical protein
	c5375	5	36	1.844145	Hypothetical protein
	c5376	5	35	1.459772	Hypothetical protein
	c5377	4	30	-0.416834	Hypothetical protein
	c5378	3	26	-1.307271	Hypothetical protein
	c5379	2	20	-4.151082	Hypothetical protein
	c5380	1	27	-8.733916	Hypothetical protein
	c5381	2	31	-10.542467	Hypothetical protein
	c5382	0	31	-8.868477	Hypothetical protein
	c5383	0	30	-7.499314	Hypothetical protein
	c5384	-1	33	-7.676710	Hypothetical protein
	c5385	0	32	-8.297934	Hypothetical protein
	c5386	0	30	-7.428011	Hypothetical protein
	c5387	0	30	-6.907415	Hypothetical protein yjhS precursor
	c5388	-1	30	-7.128723	Hypothetical protein yjhT precursor
	c5389	1	29	-6.187502	Hypothetical protein yjhA precursor
	c5390	0	30	-5.727731	Hypothetical protein
	c5391	1	26	-4.024839	Type 1 fimbriae Regulatory protein fimB
	c5392	0	25	-3.374467	Type 1 fimbriae Regulatory protein fimE
	c5393	1	24	-3.186795	Type-1 fimbrial protein, A chain precursor
	c5394	1	24	-2.927113	Fimbrin-like protein fimI precursor
	c5395	2	22	-2.785196	Chaperone protein fimC precursor
	c5396	3	15	-1.141126	Outer membrane usher protein fimD precursor
	5287#c5396	PF00577#Outer membrane usher protein FimD	1098	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score = 1098 bits (2842), Expect = 0.0
		 Identities = 877/878 (99%), Positives = 877/878 (99%)
		
		Query: 1   MSYLNLRLYQRNTQCLHIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQA 60
		           MSYLNLRLYQRNTQCLHIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQA
		Sbjct: 1   MSYLNLRLYQRNTQCLHIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQA 60
		
		Query: 61  VADLSRFENGQELPPGTYRVDIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLN 120
		           VADLSRFENGQELPPGTYRVDIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLN
		Sbjct: 61  VADLSRFENGQELPPGTYRVDIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLN 120
		
		Query: 121 TASVSGMNLLADDACVPLTSMIHDATAHLDVGQQRLNLTIPQAFMSNRARGYIPPELWDP 180
		           TASVSGMNLLADDACVPLTSMIHDATA LDVGQQRLNLTIPQAFMSNRARGYIPPELWDP
		Sbjct: 121 TASVSGMNLLADDACVPLTSMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDP 180
		
		Query: 181 GINAGLLNYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSK 240
		           GINAGLLNYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSK
		Sbjct: 181 GINAGLLNYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSK 240
		
		Query: 241 NKWQHINTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPV 300
		           NKWQHINTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPV
		Sbjct: 241 NKWQHINTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPV 300
		
		Query: 301 IHGIARGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTV 360
		           IHGIARGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTV
		Sbjct: 301 IHGIARGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTV 360
		
		Query: 361 PYSSVPLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRY 420
		           PYSSVPLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRY
		Sbjct: 361 PYSSVPLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRY 420
		
		Query: 421 RAFNFGIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYR 480
		           RAFNFGIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYR
		Sbjct: 421 RAFNFGIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYR 480
		
		Query: 481 YSTSGYFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRT 540
		           YSTSGYFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRT
		Sbjct: 481 YSTSGYFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRT 540
		
		Query: 541 STLYLSGSHQTYWGTSNVDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNI 600
		           STLYLSGSHQTYWGTSNVDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNI
		Sbjct: 541 STLYLSGSHQTYWGTSNVDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNI 600
		
		Query: 601 PFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGD 660
		           PFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGD
		Sbjct: 601 PFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGD 660
		
		Query: 661 GNSGSTGYATLNYRGGYGNANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVL 720
		           GNSGSTGYATLNYRGGYGNANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVL
		Sbjct: 661 GNSGSTGYATLNYRGGYGNANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVL 720
		
		Query: 721 VKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVP 780
		           VKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVP
		Sbjct: 721 VKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVP 780
		
		Query: 781 TRGAIVRAEFKARVGIKLLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLA 840
		           TRGAIVRAEFKARVGIKLLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLA
		Sbjct: 781 TRGAIVRAEFKARVGIKLLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLA 840
		
		Query: 841 GKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAECR 878
		           GKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAECR
		Sbjct: 841 GKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAECR 878
		
		
c5408	c5432	Y	Y	N	c5393	c5434
	c5408	2	19	-0.088261	Isoaspartyl dipeptidase
	c5409	3	21	-1.483271	Hypothetical protein yjiG
	c5410	1	20	-0.703036	Hypothetical protein yjiH
	c5411	1	19	-0.319132	Hypothetical protein
	c5414	2	18	0.312389	Hypothetical protein yjiJ
	c5415	2	16	-0.696130	Hypothetical protein yjiK
	c5416	2	15	-1.756353	Hypothetical protein
	c5417	1	14	-1.603561	Hypothetical protein yjiL
	c5418	0	17	-4.481767	Hypothetical protein yjiM
	c5419	0	16	-4.810939	Hypothetical protein yjiN
	c5420	-1	13	-4.895709	Hypothetical protein yfcI
	c5421	0	19	-7.295506	Hypothetical protein
	c5422	-1	15	-6.166085	Hypothetical protein yjiW
	c5423	-1	14	-6.440389	Putative restriction modification enzyme S
	c5424	-2	13	-2.761331	Putative restriction modification enzyme M
	c5425	-3	12	-1.968647	Putative restriction modification enzyme R
	c5426	-3	12	-1.771000	Conserved hypothetical protein
	c5427	-3	20	2.322431	Hypothetical protein yjiA
	c5428	-3	17	1.258899	Hypothetical protein yjiX
	c5429	-2	16	0.961776	Hypothetical protein yjiY
	c5430	-1	14	-1.685681	Methyl-accepting chemotaxis protein I
	c5431	0	19	-3.586350	Hypothetical protein
	c5432	0	20	-3.763948	Hypothetical protein
	5299#c5408	UREASE#Urea amidohydrolase (urease) protein signature.	35	4e-04
		>UREASE#Urea amidohydrolase (urease) protein signature.
		          Length = 570
		
		 Score = 35.5 bits (82), Expect = 4e-04
		 Identities = 30/129 (23%), Positives = 48/129 (37%), Gaps = 33/129 (25%)
		
		Query: 26  CDVLIANGKIIAVASNIPSDIVPDCT--------VVDLSGQILCPGFIDQHVHLIGG--- 74
		            D+ + +G+I A+      D+ P  T        V+   G+I+  G +D H+H I     
		Sbjct: 86  ADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTEVIAGEGKIVTAGGMDSHIHFICPQQI 145
		
		Query: 75  ------------GGEAGP------TTRTP-EVALSRLTEA--GITSVVGLLGTDSISRHP 113
		                       GG  GP      TT TP    ++R+ EA       +   G  + S  P
		Sbjct: 146 EEALMSGLTCMLGGGTGPAHGTLATTCTPGPWHIARMIEAADAFPMNLAFAGKGNAS-LP 204
		
		Query: 114 ESLLAKTRA 122
		            +L+     
		Sbjct: 205 GALVEMVLG 213
		
		
	5303#c5414	TCRTETA#Tetracycline resistance protein signature.	29	0.027
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 29.4 bits (66), Expect = 0.027
		 Identities = 58/312 (18%), Positives = 106/312 (33%), Gaps = 16/312 (5%)
		
		Query: 82  RPFLLASALASGLLILAMAWLPPFILVLLIRVLAGVASAGMLIFGSTLIMQHTRHPFVLA 141
		           RP LL S   + +    MA  P   ++ + R++AG+  A   + G+ +            
		Sbjct: 73  RPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVAGAYIADITDGDERARH 132
		
		Query: 142 ALFSGVGIGIALSNEYVLAGLHFDLSSQTLWQGAGALSGMMLIALTLLMP-SKKHAIAPM 200
		             F     G  +    VL GL    S    +  A AL+G+  +    L+P S K    P+
		Sbjct: 133 FGFMSACFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGCFLLPESHKGERRPL 192
		
		Query: 201 PLAKTEQQIMSWW---------LLAILYGLAGFGYIIVATYLPLMAKDAGSPLLTAHLWT 251
		                       W         L+A+ + +   G +  A ++            T  + +
		Sbjct: 193 RREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFGEDRFHWDATTIGI-S 251
		
		Query: 252 LVGLSIVPGCFGWLWA---AKRWGALPCLTANLLVQAIS-VLLTLASDSPLLLIISSLGF 307
		           L    I+      +     A R G    L   ++      +LL  A+   +   I  L  
		Sbjct: 252 LAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFATRGWMAFPIMVL-L 310
		
		Query: 308 GGTFMGTTSLVMTIARQLSVPGNLNLLGFVTLIYGIGQILGPALTSMLGNGTSALASATL 367
		               +G  +L   ++RQ+       L G +  +  +  I+GP L + +   +    +   
		Sbjct: 311 ASGGIGMPALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGPLLFTAIYAASITTWNGWA 370
		
		Query: 368 CGAAALFIAALI 379
		             A A      +
		Sbjct: 371 WIAGAALYLLCL 382
		
		
	5304#c5415	ADHESNFAMILY#Adhesin family signature.	29	0.026
		>ADHESNFAMILY#Adhesin family signature.
		          Length = 309
		
		 Score = 29.1 bits (65), Expect = 0.026
		 Identities = 10/45 (22%), Positives = 17/45 (37%)
		
		Query: 54 LFVIVAVCTFFVQSCARKSNHAASFQNYHATIDGKEIAGITNNIS 98
		            +++ +    + +CA       S Q          IA IT NI+
		Sbjct: 6  TLLVLFLSAIILVACASGKKDTTSGQKLKVVATNSIIADITKNIA 50
		
		
c5443	c5454	Y	Y	Y	c5428	c5467
	c5443	1	22	-3.215329	Hypothetical protein yjjP
	c5444	2	24	-4.190069	Hypothetical protein yjjQ
	c5445	1	17	-0.876815	Transcriptional activator protein bglJ
	c5446	2	15	1.394999	Ferric iron reductase protein fhuF
	c5447	2	16	2.245129	Hypothetical protein
	c5448	-1	19	3.217126	Hypothetical protein
	c5449	-1	17	3.410311	***Hypothetical protein
	c5450	0	17	3.428305	Ribosomal RNA small subunit methyltransferase C
	c5451	-1	17	2.941414	Hypothetical protein
	c5452	1	19	1.990068	DNA polymerase III, psi subunit
	c5453	2	20	1.049512	Ribosomal-protein-alanine acetyltransferase
	c5454	2	21	0.942176	Hypothetical protein yjjG
	5335#c5446	2FE2SRDCTASE#Ferric iron reductase signature.	482	e-177
		>2FE2SRDCTASE#Ferric iron reductase signature.
		          Length = 262
		
		 Score =  482 bits (1243), Expect = e-177
		 Identities = 250/262 (95%), Positives = 253/262 (96%)
		
		Query: 1   MAYRSAPLYEDVIWRTHLQPQDAGLAQAVRATIAEHREHLLEFIRLDEPAPLNAMTLAQW 60
		           MAYRSAPLYEDVIWRTHLQPQD  LAQAVRATIA+HREHLLEFIRLDEPAPLNAMTLAQW
		Sbjct: 1   MAYRSAPLYEDVIWRTHLQPQDPTLAQAVRATIAKHREHLLEFIRLDEPAPLNAMTLAQW 60
		
		Query: 61  SSPNALSSLLAVYSDHIYRNQPLMIRENKPLISLWAQWYIGLMVPPLMLALLTQEKALDV 120
		           SSPN LSSLLAVYSDHIYRNQP+MIRENKPLISLWAQWYIGLMVPPLMLALLTQEKALDV
		Sbjct: 61  SSPNVLSSLLAVYSDHIYRNQPMMIRENKPLISLWAQWYIGLMVPPLMLALLTQEKALDV 120
		
		Query: 121 SPEHVHVEFHETGRAACFWVDVCEDKNATLHSPQQRMETLISQALVPVVQALEATGEING 180
		           SPEH H EFHETGR ACFWVDVCEDKNAT HSPQ RMETLISQALVPVVQALEATGEING
		Sbjct: 121 SPEHFHAEFHETGRVACFWVDVCEDKNATPHSPQHRMETLISQALVPVVQALEATGEING 180
		
		Query: 181 KLIWSNTGYLINWYLTEMKQLLGEATVESLRYALFFEKTLTTGEDNPLWRTVVLRDGLLV 240
		           KLIWSNTGYLINWYLTEMKQLLGEATVESLR+ALFFEKTLT GEDNPLWRTVVLRDGLLV
		Sbjct: 181 KLIWSNTGYLINWYLTEMKQLLGEATVESLRHALFFEKTLTNGEDNPLWRTVVLRDGLLV 240
		
		Query: 241 RRTCCQRYRLPDVQQCGDCTLK 262
		           RRTCCQRYRLPDVQQCGDCTLK
		Sbjct: 241 RRTCCQRYRLPDVQQCGDCTLK 262
		
		
	5342#c5453	SACTRNSFRASE#Streptothricin acetyltransferase signature.	55	4e-12
		>SACTRNSFRASE#Streptothricin acetyltransferase signature.
		          Length = 173
		
		 Score = 54.6 bits (131), Expect = 4e-12
		 Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 1/80 (1%)
		
		Query: 62  DEATLFNIAVDPDYQRQGLGRALLEHLIDELEKRGVATLWLEVRASNAAAIALYESLGFN 121
		             A + +IAV  DY+++G+G ALL   I+  ++     L LE +  N +A   Y    F 
		Sbjct: 88  GYALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFI 147
		
		Query: 122 EATIRRNYYPTTDG-REDAI 140
		              +    Y       E AI
		Sbjct: 148 IGAVDTMLYSNFPTANEIAI 167
		
		
c0503	c0509	N	Y	N	c0488	c0527
	c0503	1	16	1.610681	Hypothetical protein yajF
	c0504	1	15	1.533511	Protein araJ precursor
	c0505	2	15	1.808628	Exonuclease sbcC
	c0506	-2	14	2.003125	Nuclease sbcCD subunit D
	c0507	-2	17	1.843977	Hypothetical protein
	c0508	-2	15	2.407771	Phosphate regulon transcriptional Regulatory
	c0509	-1	14	2.202258	Phosphate regulon sensor protein phoR
	481#c0503	ACETATEKNASE#Acetate kinase family signature.	29	0.020
		>ACETATEKNASE#Acetate kinase family signature.
		          Length = 400
		
		 Score = 29.4 bits (66), Expect = 0.020
		 Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 10/69 (14%)
		
		Query: 233 FISGTGFATDYRRLSGHALKGSEIIRLVEESDPVAELALRRYELRLAKSLAHVVNILDP- 291
		               +G ++D+R L   A          +  D  A+LAL  +  R+ K++      +   
		Sbjct: 273 VYGISGISSDFRDLEDAAF---------KNGDKRAQLALNVFAYRVKKTIGSYAAAMGGV 323
		
		Query: 292 DVIVLGGGM 300
		           DVIV   G+
		Sbjct: 324 DVIVFTAGI 332
		
		
	482#c0504	TCRTETA#Tetracycline resistance protein signature.	51	3e-09
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 51.4 bits (123), Expect = 3e-09
		 Identities = 73/356 (20%), Positives = 126/356 (35%), Gaps = 35/356 (9%)
		
		Query: 33  ILSLALGTFGLGMAEFGIMGVLTELAHNVGISIPAAGH---MISYYALGVVVGAPIIALF 89
		           + ++AL   G+G+    IM VL  L  ++  S     H   +++ YAL     AP++   
		Sbjct: 11  LSTVALDAVGIGL----IMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGAL 66
		
		Query: 90  SSRYSLKHILLFLVALCVIGNAMFTLSSSYLMLAIGRLVSGFPHGAFFGVGAIVLSKIIK 149
		           S R+  + +LL  +A   +  A+   +    +L IGR+V+G         GA +    I 
		Sbjct: 67  SDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVAGAYIAD--IT 124
		
		Query: 150 PGKVTAAVAGMVSGMTVANLLGIPLGTYLSQEFSWRYTFLLIAVFNIAVMASVYFWVPDI 209
		            G   A   G +S      ++  P+   L   FS    F   A  N     +  F +P+ 
		Sbjct: 125 DGDERARHFGFMSACFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGCFLLPES 184
		
		Query: 210 RDEAKGKLREQ----------FHFLRSPAPWLI--FAATMFGNAGVFAWFSYVKPYMMFI 257
		               +  LR +             +   A  +   F   + G      W  +        
		Sbjct: 185 HKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFG------E 238
		
		Query: 258 SGFSETAMTFIMMLVGLGM---VLGNVLSGRISGRYSPLRIAAVTDFIIVLALLMLFFFG 314
		             F   A T  + L   G+   +   +++G ++ R    R   +         ++L F  
		Sbjct: 239 DRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFAT 298
		
		Query: 315 GMKTTSLIFAFICCAGLFALSAPLQILLLQNAKGGELLGAAGGQIAF--NLGSAVG 368
		                  I   +   G+      LQ +L +     E  G   G +A   +L S VG
		Sbjct: 299 RGWMAFPIMVLLASGGIG--MPALQAMLSRQV-DEERQGQLQGSLAALTSLTSIVG 351
		
		
	483#c0505	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	40	4e-05
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 40.4 bits (94), Expect = 4e-05
		 Identities = 40/264 (15%), Positives = 81/264 (30%), Gaps = 11/264 (4%)
		
		Query: 162  LNAKPKERAELLEELTGTEIYGKISAMVFEQHKSARTELEKLQAQASGVALLTPEQVQSL 221
		              A P E  E + E +  E     S  V +  + A     + +  A           Q+ 
		Sbjct: 1029 APATPSETTETVAENSKQE-----SKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTN 1083
		
		Query: 222  TASLQVLTDEEKQLLTAQQQEQQSLNWLTRLD-ELQQEASRRQQALQQALAEEEKAQPQL 280
		              +      +E Q    ++          +++ E  QE  +    +     + E  QPQ 
		Sbjct: 1084 EVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQA 1143
		
		Query: 281  AALSLAQPARNLRPHWE---RIAEHSAALAHTRQQIEEVNTRLQSTMALRASIRHHAAKQ 337
		                   P  N++         A+       T   +E+  T   +     + + +     
		Sbjct: 1144 EPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTT 1203
		
		Query: 338  SAELQQQQQSLNAWLQEHDRFRQWNNELAGWRAQFSQQTSDREHLRQWQQQLTHAEQKLN 397
		             A  Q    S ++   ++   R   +         +  ++DR  +       T+    L+
		Sbjct: 1204 PATTQPTVNSESSNKPKNRHRRSVRSVPHNVEPA-TTSSNDRSTVALCDLTSTNTNAVLS 1262
		
		Query: 398  ALAAITLTLTADEVASALAQHAEQ 421
		               A    +  + V  A++QH  Q
		Sbjct: 1263 DARAKAQFVALN-VGKAVSQHISQ 1285
		
		
		
		 Score = 33.5 bits (76), Expect = 0.005
		 Identities = 27/139 (19%), Positives = 54/139 (38%), Gaps = 13/139 (9%)
		
		Query: 738  QQDVLAAQSLQKAQAQFDTALQASVFDDQQAFLAALMDEQTLTQLEQLKQNLENQRRQAQ 797
		            Q DV +  S  +  A+ D A              A   E T T  E  KQ  +   +  Q
		Sbjct: 1004 QADVPSVPSNNEEIARVDEAPVPPP-------APATPSETTETVAENSKQESKTVEKNEQ 1056
		
		Query: 798  TLVTQTAETLTQHQQHRPGGLSLTVTVEQIQQELAQTHQKLRENTTSQGEIRQQLKQDAD 857
		                 TA+     ++ +       V       E+AQ+  + +E  T++ +    ++++  
		Sbjct: 1057 DATETTAQNREVAKEAKS-----NVKANTQTNEVAQSGSETKETQTTETKETATVEKEEK 1111
		
		Query: 858  NRQQQQTLMQQIAQMTQQV 876
		             + + +   Q++ ++T QV
		Sbjct: 1112 AKVETEK-TQEVPKVTSQV 1129
		
		
	484#c0506	FRAGILYSIN#Fragilysin metallopeptidase (M10C) enterotoxin signat...	30	0.022
		>FRAGILYSIN#Fragilysin metallopeptidase (M10C) enterotoxin
		           signature.
		          Length = 405
		
		 Score = 29.7 bits (66), Expect = 0.022
		 Identities = 13/70 (18%), Positives = 23/70 (32%), Gaps = 4/70 (5%)
		
		Query: 149 KQQHLLAAITDYYQQHYADACKLRGDQPLPIIATGHLTTVGASKSDAVRDIYIGTLDAFP 208
		           K+  ++  I ++Y   +     +   +    I     T       D +  + I    A  
		Sbjct: 135 KEAQMMNEIAEFYAAPFKKTRAINEKEAFECI-YDSRTRSA--GKD-IVSVKINIDKAKK 190
		
		Query: 209 AQNFPPADYI 218
		             N P  DYI
		Sbjct: 191 ILNLPECDYI 200
		
		
	486#c0508	HTHFIS#FIS bacterial regulatory protein HTH signature.	95	1e-24
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 94.5 bits (235), Expect = 1e-24
		 Identities = 32/149 (21%), Positives = 61/149 (40%), Gaps = 9/149 (6%)
		
		Query: 4   RILVVEDEVPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWPDLILLDWMLPGGSGIQ 63
		            ILV +D+  IR ++   L + G+      +  +    +     DL++ D ++P  +   
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 64  FIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRRI 123
		            +  +K+     D+PV++++A+      ++  E GA DY+ KPF   EL+  I   +   
		Sbjct: 65  LLPRIKKARP--DLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA-- 120
		
		Query: 124 SPMAVEEVIEMQGLSLDPTSHRVMAGEEP 152
		                E       L  D      + G   
		Sbjct: 121 -----EPKRRPSKLEDDSQDGMPLVGRSA 144
		
		
	487#c0509	PF06580#Sensor histidine kinase	34	0.001
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 34.1 bits (78), Expect = 0.001
		 Identities = 19/105 (18%), Positives = 33/105 (31%), Gaps = 26/105 (24%)
		
		Query: 325 LVYNAVNH----TPEGTHITVRWQRVPHGAEFSVEDNGPGIAPEHIPRLTERFYRVDKAR 380
		           LV N + H     P+G  I ++  +        VE+ G                      
		Sbjct: 263 LVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKN---------------- 306
		
		Query: 381 SRQTGGSGLGLAIVKHAVNH---HESRLNIESTVGKGTRFSFVIP 422
		                 +G GL  V+  +      E+++ +    GK      +IP
		Sbjct: 307 --TKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAM-VLIP 348
		
		
c0554	c0562	N	Y	N	c0539	c0578
	c0554	1	22	0.333394	ATP-dependent Clp protease ATP-binding subunit
	c0555	0	20	0.324589	ATP-dependent protease La
	c0556	-1	14	0.450688	DNA-binding protein HU-beta
	c0557	-2	13	0.429222	Peptidyl-prolyl cis-trans isomerase D
	c0558	-2	19	-0.349747	Hypothetical protein ybaV precursor
	c0559	-3	17	-0.911855	Hypothetical protein ybaW
	c0560	-2	14	0.195134	Hypothetical protein ybaX
	c0561	0	13	1.333137	Hypothetical protein ybaE
	c0562	0	14	1.024780	Cof protein
	532#c0554	HTHFIS#FIS bacterial regulatory protein HTH signature.	29	0.043
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 29.0 bits (65), Expect = 0.043
		 Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 13/73 (17%)
		
		Query: 60  ERSALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIG 119
		           E    P+  E  +     ++G+  A +     +Y    RL   D           +++ G
		Sbjct: 121 EPKRRPSKLEDDSQDGMPLVGRSAAMQ----EIYRVLARLMQTD---------LTLMITG 167
		
		Query: 120 PTGSGKTLLAETL 132
		            +G+GK L+A  L
		Sbjct: 168 ESGTGKELVARAL 180
		
		
	533#c0555	GPOSANCHOR#Gram-positive coccus surface protein anchor signature.	34	0.002
		>GPOSANCHOR#Gram-positive coccus surface protein anchor signature.
		          Length = 539
		
		 Score = 34.3 bits (78), Expect = 0.002
		 Identities = 33/144 (22%), Positives = 67/144 (46%), Gaps = 12/144 (8%)
		
		Query: 195 KQSVLEMSDVNERLEYLMAMMESEIDLLQVEKRIRNRVKKQMEKSQREYYLNEQMKAIQK 254
		                ++  +      L A         QV    R  +++ ++ S+      +Q++A  +
		Sbjct: 277 TADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAK---KQLEAEHQ 333
		
		Query: 255 ELGEMDDAPD-ENEALKRKIDAAKMPKEAKEKAEAELQKLKMMSPMS-AEATVVRGYIDW 312
		           +L E +   +   ++L+R +DA++   EAK++ EAE QKL+  + +S A    +R  +D 
		Sbjct: 334 KLEEQNKISEASRQSLRRDLDASR---EAKKQLEAEHQKLEEQNKISEASRQSLRRDLDA 390
		
		Query: 313 MVQVPWNARSKVKKDLRQAQEILD 336
		             +    A+ +V+K L +A   L 
		Sbjct: 391 SRE----AKKQVEKALEEANSKLA 410
		
		
	534#c0556	DNABINDINGHU#Prokaryotic integration host factor signature.	117	3e-38
		>DNABINDINGHU#Prokaryotic integration host factor signature.
		          Length = 91
		
		 Score =  117 bits (294), Expect = 3e-38
		 Identities = 49/88 (55%), Positives = 67/88 (76%)
		
		Query: 2  NKSQLIDKIAAGADISKAAAGRALDAIIASVTESLKEGDDVALVGFGTFAVKERAARTGR 61
		          NK  LI K+A   +++K  +  A+DA+ ++V+  L +G+ V L+GFG F V+ERAAR GR
		Sbjct: 3  NKQDLIAKVAEATELTKKDSAAAVDAVFSAVSSYLAKGEKVQLIGFGNFEVRERAARKGR 62
		
		Query: 62 NPQTGKEITIAAAKVPSFRAGKALKDAV 89
		          NPQTG+EI I A+KVP+F+AGKALKDAV
		Sbjct: 63 NPQTGEEIKIKASKVPAFKAGKALKDAV 90
		
		
	537#c0559	PF08280#M protein trans-acting positive regulator	27	0.021
		>PF08280#M protein trans-acting positive regulator
		          Length = 530
		
		 Score = 27.1 bits (60), Expect = 0.021
		 Identities = 24/138 (17%), Positives = 41/138 (29%), Gaps = 20/138 (14%)
		
		Query: 1   MQTQIKVRGYHLDVYQHVNNARYL-------EFLEEARWHGLENSDSFHWMTAH------ 47
		           +Q  I      +  Y   N   Y        E++ +       N   FH    +      
		Sbjct: 361 LQHFIPETNLFVSPYYKGNQKLYTSLKLIVEEWMAKLPGKRYLNHKHFHLFCHYVEQILR 420
		
		Query: 48  ------NIAFVVVN-ININYRRPAVLSDLLTITSQLQQLNGKSGILSQVITLEPEGQVVA 100
		                  + FV  N IN +    +        +            + Q+  L+P+  +  
		Sbjct: 421 NIQPPLVVVFVASNFINAHLLTDSFPRYFSDKSIDFHSYYLLQDNVYQIPDLKPDLVITH 480
		
		Query: 101 DALITFVCIDLKTQKALA 118
		             LI FV  +L    A+A
		Sbjct: 481 SQLIPFVHHELTKGIAVA 498
		
		
	540#c0562	HTHFIS#FIS bacterial regulatory protein HTH signature.	29	0.019
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 29.0 bits (65), Expect = 0.019
		 Identities = 12/64 (18%), Positives = 24/64 (37%), Gaps = 10/64 (15%)
		
		Query: 197 LTVLTQHLGLSLRDCMAFGDAMNDREMLGSVGSGFIMGN----------AMPQLRAELPH 246
		            TVL Q L  +  D     +A      + +     ++ +           +P+++   P 
		Sbjct: 16  RTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDLLPRIKKARPD 75
		
		Query: 247 LPVI 250
		           LPV+
		Sbjct: 76  LPVL 79
		
		
c0575	c0584	N	Y	N	c0560	c0599
	c0575	-1	12	-1.584729	Hypothetical protein ylaB
	c0576	1	17	-0.396588	Hypothetical protein ylaC
	c0577	1	16	-0.564209	Maltose O-acetyltransferase
	c0578	1	18	-0.586789	Haemolysin expression modulating protein
	c0579	1	16	0.094945	Hypothetical protein ybaJ
	c0580	1	16	0.515455	Acriflavine resistance protein B
	c0581	2	12	0.366598	Acriflavine resistance protein A precursor
	c0582	2	15	-0.034723	Potential acrAB operon repressor
	c0583	2	18	0.898931	Hypothetical protein
	c0584	3	16	2.492824	Potassium efflux system kefA
	553#c0575	BCTERIALGSPF#Bacterial general secretion pathway protein F signa...	29	0.034
		>BCTERIALGSPF#Bacterial general secretion pathway protein F
		           signature.
		          Length = 408
		
		 Score = 29.4 bits (66), Expect = 0.034
		 Identities = 31/137 (22%), Positives = 54/137 (39%), Gaps = 24/137 (17%)
		
		Query: 247 IWLPLGLVIGLLAAMFVLRILRRIQSPHHRLQDAIENRDICVHYQPIVSLANGKIVGAEA 306
		            W+ L L+ G +A   +LR          R+          + + P++    G+I     
		Sbjct: 228 PWMLLALLAGFMAFRVMLR------QEKRRVS-----FHRRLLHLPLI----GRIARGLN 272
		
		Query: 307 LARWPQTDGSWLSPDSFIPLAQQTGLS-EPLTLLIIRSVFEDMGDWLRQHPQQHISINLE 365
		            AR+ +T     +  S +PL Q   +S + ++    R       D +R+    H +  LE
		Sbjct: 273 TARYARTLSILNA--SAVPLLQAMRISGDVMSNDYARHRLSLATDAVREGVSLHKA--LE 328
		
		Query: 366 STVLTSEKIPQLLREMI 382
		            T L     P ++R MI
		Sbjct: 329 QTAL----FPPMMRHMI 341
		
		
	558#c0580	ACRIFLAVINRP#Acriflavin resistance protein family signature.	1368	0.0
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score = 1368 bits (3543), Expect = 0.0
		 Identities = 802/1033 (77%), Positives = 916/1033 (88%), Gaps = 1/1033 (0%)
		
		Query: 1    MPNFFIDRPIFAWVIAIIIMLAGGLAILKLPVAQYPTIAPPAVTISASYPGADAKTVQDT 60
		            M NFFI RPIFAWV+AII+M+AG LAIL+LPVAQYPTIAPPAV++SA+YPGADA+TVQDT
		Sbjct: 1    MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60
		
		Query: 61   VTQVIEQNMNGIDNLMYMSSNSDSTGTVQITLTFESGTDADIAQVQVQNKLQLAMPLLPQ 120
		            VTQVIEQNMNGIDNLMYMSS SDS G+V ITLTF+SGTD DIAQVQVQNKLQLA PLLPQ
		Sbjct: 61   VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120
		
		Query: 121  EVQQQGVSVEKSSSSFLMVVGVINTDGTMTQEDISDYVAANMKDAISRTSGVGDVQLFGS 180
		            EVQQQG+SVEKSSSS+LMV G ++ +   TQ+DISDYVA+N+KD +SR +GVGDVQLFG+
		Sbjct: 121  EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA 180
		
		Query: 181  QYAMRIWMNPNELNKFQLTPVDVITAIKAQNAQVAAGQLGGTPPVKGQQLNASIIAQTRL 240
		            QYAMRIW++ + LNK++LTPVDVI  +K QN Q+AAGQLGGTP + GQQLNASIIAQTR 
		Sbjct: 181  QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRF 240
		
		Query: 241  TSTEEFGKILLKVNQDGSRVLLRDVAKIELGGENYDIIAEFNGQPASGLGIKLATGANAL 300
		             + EEFGK+ L+VN DGS V L+DVA++ELGGENY++IA  NG+PA+GLGIKLATGANAL
		Sbjct: 241  KNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANAL 300
		
		Query: 301  DTAAAIRAELAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQ 360
		            DTA AI+A+LA+++PFFP G+K++YPYDTTPFV++SIHEVVKTL EAI+LVFLVMYLFLQ
		Sbjct: 301  DTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQ 360
		
		Query: 361  NFRATLIPTIAVPVVLLGTFAVLAAFGFSINTLTMFGMVLAIGLLVDDAIVVVENVERVM 420
		            N RATLIPTIAVPVVLLGTFA+LAAFG+SINTLTMFGMVLAIGLLVDDAIVVVENVERVM
		Sbjct: 361  NMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVM 420
		
		Query: 421  AEEGLPPKEATRKSMGQIQGALVGIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMAL 480
		             E+ LPPKEAT KSM QIQGALVGIAMVLSAVF+PMAFFGGSTGAIYRQFSITIVSAMAL
		Sbjct: 421  MEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMAL 480
		
		Query: 481  SVLVALILTPALCATMLKPIAKGDHGEGKKGFFGWFNRMFEKSTHHYTDSVGGILRSTGR 540
		            SVLVALILTPALCAT+LKP++   H E K GFFGWFN  F+ S +HYT+SVG IL STGR
		Sbjct: 481  SVLVALILTPALCATLLKPVSAE-HHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGR 539
		
		Query: 541  YLVLYLIIVVGMAYLFVRLPSSFLPDEDQGVFMTMVQLPAGATQERTQKVLNEVTNYYLT 600
		            YL++Y +IV GM  LF+RLPSSFLP+EDQGVF+TM+QLPAGATQERTQKVL++VT+YYL 
		Sbjct: 540  YLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLK 599
		
		Query: 601  KEKNNVESVFAVNGFGFAGRGQNTGIAFVSLKDWADRPGEENKVEAITMRATRAFSQIKD 660
		             EK NVESVF VNGF F+G+ QN G+AFVSLK W +R G+EN  EA+  RA     +I+D
		Sbjct: 600  NEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIRD 659
		
		Query: 661  AMVFAFNLPAIVELGTATGFDFELIDQAGLGHEKLTQARNQLLAEAAKHPDMLTSVRPNG 720
		              V  FN+PAIVELGTATGFDFELIDQAGLGH+ LTQARNQLL  AA+HP  L SVRPNG
		Sbjct: 660  GFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPNG 719
		
		Query: 721  LEDTPQFKIDIDQEKAQALGVSINDINTTLGAAWGGSYVNDFIDRGRVKKVYVMSEAKYR 780
		            LEDT QFK+++DQEKAQALGVS++DIN T+  A GG+YVNDFIDRGRVKK+YV ++AK+R
		Sbjct: 720  LEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKFR 779
		
		Query: 781  MLPDDIGDWYVRAADGQMVPFSAFSSSRWEYGSPRLERYNGLPSMEILGQAAPGKSTGEA 840
		            MLP+D+   YVR+A+G+MVPFSAF++S W YGSPRLERYNGLPSMEI G+AAPG S+G+A
		Sbjct: 780  MLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGDA 839
		
		Query: 841  MELMEQLASKLPTGVGYDWTGMSYQERLSGNQAPSLYAISLIVVFLCLAALYESWSIPFS 900
		            M LME LASKLP G+GYDWTGMSYQERLSGNQAP+L AIS +VVFLCLAALYESWSIP S
		Sbjct: 840  MALMENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSIPVS 899
		
		Query: 901  VMLVVPLGVIGALLAATFRGLTNDVYFQVGLLTTIGLSAKNAILIVEFAKDLMDKEGKGL 960
		            VMLVVPLG++G LLAAT     NDVYF VGLLTTIGLSAKNAILIVEFAKDLM+KEGKG+
		Sbjct: 900  VMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGV 959
		
		Query: 961  IEATLDAVRMRLRPILMTSLAFILGVMPLVISTGAGSGAQNAVGTGVMGGMVTATVLAIF 1020
		            +EATL AVRMRLRPILMTSLAFILGV+PL IS GAGSGAQNAVG GVMGGMV+AT+LAIF
		Sbjct: 960  VEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIF 1019
		
		Query: 1021 FVPVFFVVVRRRF 1033
		            FVPVFFVV+RR F
		Sbjct: 1020 FVPVFFVVIRRCF 1032
		
		
	559#c0581	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	44	6e-07
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 44.4 bits (105), Expect = 6e-07
		 Identities = 33/212 (15%), Positives = 71/212 (33%), Gaps = 23/212 (10%)
		
		Query: 112 TYQAAYDSAKGDLAKAQAAANIAQLTVNRYQKLLGTQYISKQEYDQALADAQQANAAVTA 171
		             +  Y  A  +L      + + Q+           Q +++   ++ L   +Q    +  
		Sbjct: 256 EQENKYVEAVNELR--VYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGL 313
		
		Query: 172 AKAAVETARINLAYTKVTSPISGRIGKSNV-TEGALVQNGQATALATVQQLDPIYVDVTQ 230
		               +         + + +P+S ++ +  V TEG +V   + T +  V + D + V    
		Sbjct: 314 LTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAE-TLMVIVPEDDTLEVTALV 372
		
		Query: 231 SSNDFLRLKQELA----------NGTLKQENGKAKVSLITSDGIKFPQDGTLEFSDVTVD 280
		            + D   +                          KV  I  D I+  + G +    ++++
		Sbjct: 373 QNKDIGFINVGQNAIIKVEAFPYTRYGYLV---GKVKNINLDAIEDQRLGLVFNVIISIE 429
		
		Query: 281 QTTGSITLRAIFPNPDHTLLPGMFVRARLEEG 312
		           +   S   + I       L  GM V A ++ G
		Sbjct: 430 ENCLSTGNKNIP------LSSGMAVTAEIKTG 455
		
		
		
		 Score = 34.4 bits (79), Expect = 7e-04
		 Identities = 24/125 (19%), Positives = 43/125 (34%), Gaps = 13/125 (10%)
		
		Query: 61  PLQITTELPGR-TSAYRIAEVRPQVSGIILKRNFKEGSDIEAGVSLYQIDPATYQAAYDS 119
		            ++I     G+ T + R  E++P  + I+ +   KEG  +  G  L ++     +A    
		Sbjct: 79  QVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEA---- 134
		
		Query: 120 AKGDLAKAQAAANIAQLTVNRYQKLLGTQYISKQEYDQALADAQQANAAVTAAKAAVETA 179
		              D  K Q++   A+L   RYQ L         E ++                      
		Sbjct: 135 ---DTLKTQSSLLQARLEQTRYQILS-----RSIELNKLPELKLPDEPYFQNVSEEEVLR 186
		
		Query: 180 RINLA 184
		             +L 
		Sbjct: 187 LTSLI 191
		
		
	560#c0582	HTHTETR#TetR bacterial regulatory protein HTH signature.	222	5e-76
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score =  222 bits (567), Expect = 5e-76
		 Identities = 215/215 (100%), Positives = 215/215 (100%)
		
		Query: 1   MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60
		           MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS
		Sbjct: 1   MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60
		
		Query: 61  EIWELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFV 120
		           EIWELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFV
		Sbjct: 61  EIWELSESNIGELELEYQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEFV 120
		
		Query: 121 GEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLF 180
		           GEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLF
		Sbjct: 121 GEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWLF 180
		
		Query: 181 APQSFDLKKEARDYVAILLEMYLLCPTLRNPATNE 215
		           APQSFDLKKEARDYVAILLEMYLLCPTLRNPATNE
		Sbjct: 181 APQSFDLKKEARDYVAILLEMYLLCPTLRNPATNE 215
		
		
	562#c0584	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	32	0.017
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 31.7 bits (72), Expect = 0.017
		 Identities = 19/125 (15%), Positives = 40/125 (32%), Gaps = 6/125 (4%)
		
		Query: 28  QNTAFARASSNGDLPTKADLQAQLDSLNKQKDLSAQDKLVQQDLTDTLATLDKIDRVKEE 87
		            N    RA     L      +        +  L     L+ +      A L++ ++  E 
		Sbjct: 207 LNLDKKRAERLTVLARINRYENLSRVEKSR--LDDFSSLLHKQAIAKHAVLEQENKYVEA 264
		
		Query: 88  TVQLRQKVAEAPEKMRQATAALTALSDVDND--EETRKIL--STLSLRQLETRVAQALDD 143
		             +LR   ++  +   +  +A      V      E    L  +T ++  L   +A+  + 
		Sbjct: 265 VNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEER 324
		
		Query: 144 LQNAQ 148
		            Q + 
		Sbjct: 325 QQASV 329
		
		
c0651	c0661	N	Y	N	c0634	c0675
	c0651	-2	11	-0.011195	Hypothetical protein ybcY precursor
	c0652	-2	10	0.961004	Protease VII precursor
	c0653	0	10	1.771006	Hypothetical protein ybcH precursor
	c0654	-1	11	1.600238	Bacteriophage N4 adsorption protein A precursor
	c0655	0	14	1.266951	Bacteriophage N4 adsorption protein B
	c0656	0	21	2.441577	Sensor kinase cusS
	c0657	0	21	2.599379	Transcriptional Regulatory protein cusR
	c0658	-1	20	1.645288	Probable outer membrane lipoprotein cusC
	c0659	-1	20	1.777642	Hypothetical protein cusX precursor
	c0660	-1	20	1.900089	Putative copper efflux system protein cusB
	c0661	-2	19	1.302248	Putative cation efflux system protein cusA
	626#c0651	LUXSPROTEIN#Bacterial autoinducer-2 (AI-2) production protein Lu...	31	0.002
		>LUXSPROTEIN#Bacterial autoinducer-2 (AI-2) production protein LuxS
		           signature.
		          Length = 171
		
		 Score = 31.4 bits (71), Expect = 0.002
		 Identities = 18/66 (27%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
		
		Query: 40  TKEHLLPHFL-EHLGNNHLDI------GVGTGFYLTHVPESSLISLMDLNEASLNAASTR 92
		           T EHL   F+  HL  + ++I      G  TGFY++ +   S   + D   A++      
		Sbjct: 54  TLEHLYAGFMRNHLNGDSVEIIDISPMGCRTGFYMSLIGTPSEQQVADAWIAAMEDVLKV 113
		
		Query: 93  AGESKI 98
		             ++KI
		Sbjct: 114 ENQNKI 119
		
		
	627#c0652	OMPTIN#Omptin serine protease signature.	469	e-171
		>OMPTIN#Omptin serine protease signature.
		          Length = 317
		
		 Score =  469 bits (1207), Expect = e-171
		 Identities = 272/276 (98%), Positives = 275/276 (99%)
		
		Query: 1   MRAKLLGIVLTTPIAISSFASTETLSFTPDNINADISLGTLSGKTKERVYLAEEGGRKVS 60
		           MRAKLLGIVLTTPIAISSFASTETLSFTPDNINADISLGTLSGKTKERVYLAEEGGRKVS
		Sbjct: 1   MRAKLLGIVLTTPIAISSFASTETLSFTPDNINADISLGTLSGKTKERVYLAEEGGRKVS 60
		
		Query: 61  QLDWKFNNAAIIKGAINWDLMPQISIGAAGWTTLGSRGGNMVDRDWMDSSNPGTWTDESR 120
		           QLDWKFNNAAIIKGAINWDLMPQISIGAAGWTTLGSRGGNMVD+DWMDSSNPGTWTDESR
		Sbjct: 61  QLDWKFNNAAIIKGAINWDLMPQISIGAAGWTTLGSRGGNMVDQDWMDSSNPGTWTDESR 120
		
		Query: 121 HPDTQLNYANEFDLNIKGWLLNEPNYRLGLMAGYQESRYSFTARGGSYIYSSEEGFRDDI 180
		           HPDTQLNYANEFDLNIKGWLLNEPNYRLGLMAGYQESRYSFTARGGSYIYSSEEGFRDDI
		Sbjct: 121 HPDTQLNYANEFDLNIKGWLLNEPNYRLGLMAGYQESRYSFTARGGSYIYSSEEGFRDDI 180
		
		Query: 181 GSFPNGERAIGYKQRFKMPYIGLTGSYRYEDFELGGTFKYSGWVEAFDNDEHYDPGKRIT 240
		           GSFPNGERAIGYKQRFKMPYIGLTGSYRYEDFELGGTFKYSGWVE+ DNDEHYDPGKRIT
		Sbjct: 181 GSFPNGERAIGYKQRFKMPYIGLTGSYRYEDFELGGTFKYSGWVESSDNDEHYDPGKRIT 240
		
		Query: 241 YRSKVKDQNYYSVAVNAGYYVTPNAKVYIEGAWNRV 276
		           YRSKVKDQNYYSVAVNAGYYVTPNAKVY+EGAWNRV
		Sbjct: 241 YRSKVKDQNYYSVAVNAGYYVTPNAKVYVEGAWNRV 276
		
		
	631#c0656	PF06580#Sensor histidine kinase	31	0.007
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 31.4 bits (71), Expect = 0.007
		 Identities = 29/184 (15%), Positives = 67/184 (36%), Gaps = 34/184 (18%)
		
		Query: 306 EELTRMAKMVSDML-FLAQADNNQLIPEKKMLNLADEVGKVFDFFEALAEDR-GVELRFV 363
		            +   M   +S+++ +  +  N + +       LADE+  V  + + LA  +    L+F 
		Sbjct: 191 TKAREMLTSLSELMRYSLRYSNARQVS------LADELTVVDSYLQ-LASIQFEDRLQFE 243
		
		Query: 364 GDECQVAGDPLMLRRALSNLLSNALRY----TPTGETIVVRCQTVDHLVQVTVENPGTPI 419
		                   D  +    +  L+ N +++     P G  I+++    +  V + VEN G+  
		Sbjct: 244 NQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLA 303
		
		Query: 420 APEHLPRLFDRFYRVDPSRQRKGEGSGIGLAIVK---SIVVAHKGTVAVTSDVRGTRFVI 476
		                                  E +G GL  V+    ++   +  + ++        ++
		Sbjct: 304 LKN------------------TKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMV 345
		
		Query: 477 ILPA 480
		           ++P 
		Sbjct: 346 LIPG 349
		
		
	632#c0657	HTHFIS#FIS bacterial regulatory protein HTH signature.	86	2e-21
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 85.7 bits (212), Expect = 2e-21
		 Identities = 35/117 (29%), Positives = 62/117 (52%)
		
		Query: 2   KLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGWD 61
		            +L+ +D+      L + L+ AG+ V +  N    +     GD DL++ D+++PD N +D
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 62  IVRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRR 118
		           ++  ++ A   +P+L+++A  T    +K  E GA DYL KPF   EL+  +   L  
		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121
		
		
	633#c0658	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	39	3e-05
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 39.0 bits (91), Expect = 3e-05
		 Identities = 25/189 (13%), Positives = 60/189 (31%), Gaps = 13/189 (6%)
		
		Query: 254 QAQTVNSDSLQSVKLPA-GLPSQILLQRPDIMEAEHALM-----AANANIGAARAAFFPS 307
		             +  +S   + +K     +  +I+++  + +     L+      A A+    ++     
		Sbjct: 87  NGKLTHSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQS----- 141
		
		Query: 308 ISLTSGISTASSDLSSLFNASSGMWNFIPKIEIPIFNAGRNQANLDIAEIRQQQSVVNYE 367
		            SL       +       +        +   + P F     +  L +  + ++Q      
		Sbjct: 142 -SLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQN 200
		
		Query: 368 QKIQNAFKEVADALALRQSLNDQISAQQRYLASLQITLQRARTLYQHGAVSYLEVLDAER 427
		           QK Q     +    A R ++  +I+  +      +  L    +L    A++   VL+ E 
		Sbjct: 201 QKYQ-KELNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQEN 259
		
		Query: 428 SLFATRQTL 436
		                   L
		Sbjct: 260 KYVEAVNEL 268
		
		
	636#c0661	ACRIFLAVINRP#Acriflavin resistance protein family signature.	599	0.0
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score =  599 bits (1546), Expect = 0.0
		 Identities = 198/1048 (18%), Positives = 415/1048 (39%), Gaps = 90/1048 (8%)
		
		Query: 1    MIEWIIRRSVANRFLVLMGALFLSIWGTWTIINTPVDALPDLSDVQVIIKTSYPGQAPQI 60
		            M  + IRR         + A+ L + G   I+  PV   P ++   V +  +YPG   Q 
		Sbjct: 1    MANFFIRR----PIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQT 56
		
		Query: 61   VENQVTYPLTTTMLSVPGAKTVRGFSQ-FGDSYVYVIFEDGTDPYWARSRVLEYLNQVQG 119
		            V++ VT  +   M  +     +   S   G   + + F+ GTDP  A+ +V   L     
		Sbjct: 57   VQDTVTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATP 116
		
		Query: 120  KLPAGVSAELGP-DATGVGWIYEYALVDRSGKHDLADLRSLQDWFLKYELKTIPDVAEVA 178
		             LP  V  +    + +   ++     V  +      D+       +K  L  +  V +V 
		Sbjct: 117  LLPQEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQ 176
		
		Query: 179  SVGGVVKEYQVVIDPQRLAQYGISLAEVKSALDASNQEAGGSSIELA------EAEYMVR 232
		              G      ++ +D   L +Y ++  +V + L   N +     +         +    + 
		Sbjct: 177  LFGAQ-YAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASII 235
		
		Query: 233  ASGYLQTLDDFNHIVLKASENGVPVYLRDVAKVQVGPEMRRGIAELNGEGEVAGGVVILR 292
		            A    +  ++F  + L+ + +G  V L+DVA+V++G E    IA +NG+   AG  + L 
		Sbjct: 236  AQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGK-PAAGLGIKLA 294
		
		Query: 293  SGKNAREVIAAVKDKLETLKSSLPEGVEIVTTYDRSQLIDRAIDNLSGKLLEEFIVVAVV 352
		            +G NA +   A+K KL  L+   P+G++++  YD +  +  +I  +   L E  ++V +V
		Sbjct: 295  TGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLV 354
		
		Query: 353  CALFLWHVRSALVAIISLPLGLCIAFIVMHFQGLNANIMSLGGIAIAVGAMVDAAIVMIE 412
		              LFL ++R+ L+  I++P+ L   F ++   G + N +++ G+ +A+G +VD AIV++E
		Sbjct: 355  MYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVE 414
		
		Query: 413  NAHKRLEEWQHQHPDATLDNKTRWQVITDASVEVGPALFISL------------------ 454
		            N  + + E +    +AT  + ++ Q        V  A+FI +                  
		Sbjct: 415  NVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITI 474
		
		Query: 455  -------LIITLSFIPI-----------------------------FTLEGQEGRLFGPL 478
		                   +++ L   P                               ++      +   L
		Sbjct: 475  VSAMALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKIL 534
		
		Query: 479  AFTKTYAMAGA---ALLAIVVIPILMGYWIRGKEGDLLYMPSTLPGISAAEAASMLQKTD 535
		              T  Y +  A   A + ++ + +   +     +G  L M     G +      +L +  
		Sbjct: 535  GSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVT 594
		
		Query: 536  KLIM--SVPEVARVFGKTGKAETATDSAPLEMVETTIQLKPQDQW-RPGMTMDKIIEELD 592
		               +      V  VF   G + +             + LKP ++      + + +I    
		Sbjct: 595  DYYLKNEKANVESVFTVNGFSFSGQAQN---AGMAFVSLKPWEERNGDENSAEAVIHRAK 651
		
		Query: 593  NTVRLPGLANLWVPPIRNRIDMLSTGIKSPIGIKVSGTVLADI-DTMAEQIEEVARTVPG 651
		              +       +    +   +++ +        I  +G     +     + +   A+    
		Sbjct: 652  MELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPAS 711
		
		Query: 652  VASALAERLEGGRYINVEINREKAARYGMTVADVQLFVTSAVGGAMVGETVEGIARYPIN 711
		            + S     LE      +E+++EKA   G++++D+   +++A+GG  V + ++      + 
		Sbjct: 712  LVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLY 771
		
		Query: 712  LRYPQSWRDSPQALRQLPILTPMKQQITLADVADVKVSTGPSMLKTENARPTSWIYIDAR 771
		            ++    +R  P+ + +L + +   + +  +         G   L+  N  P+  I  +A 
		Sbjct: 772  VQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAA 831
		
		Query: 772  DRDMVSVVHDLQKAIAEKVQLKPGTSVAFSGQFELLERANHKLKLMVPMTLMIIFVLLYL 831
		                      L + +A K  L  G    ++G       + ++   +V ++ +++F+ L  
		Sbjct: 832  PGTSSGDAMALMENLASK--LPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAA 889
		
		Query: 832  AFRRVGEALLIISSVPFALVGGIWLLWWMGFHLSVATGTGFIALAGVAAEFGVVMLMYLR 891
		             +      + ++  VP  +VG +           V    G +   G++A+  ++++ + +
		Sbjct: 890  LYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAK 949
		
		Query: 892  HAIEAEPSLNNPQTFSEQKLDEALYHGAVLRVRPKAMTVAVIIAGLLPILWGTGAGSEVM 951
		              +E E           + + EA      +R+RP  MT    I G+LP+    GAGS   
		Sbjct: 950  DLMEKE----------GKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQ 999
		
		Query: 952  SRIAAPMIGGMITAPLLSLFIIPAAYKL 979
		            + +   ++GGM++A LL++F +P  + +
		Sbjct: 1000 NAVGIGVMGGMVSATLLAIFFVPVFFVV 1027
		
		
c0678	c0683	N	Y	N	c0663	c0702
	c0678	-2	18	4.887816	Hypothetical membrane protein P43
	c0679	-2	19	4.732561	Ferrienterobactin-binding periplasmic protein
	c0680	-2	23	5.197138	Isochorismate synthase entC
	c0681	-2	25	5.251052	Enterobactin synthetase component E
	c0682	-1	22	5.059982	Isochorismatase
	c0683	-1	20	4.936808	2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
	653#c0678	TCRTETA#Tetracycline resistance protein signature.	36	2e-04
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 36.3 bits (84), Expect = 2e-04
		 Identities = 82/394 (20%), Positives = 146/394 (37%), Gaps = 38/394 (9%)
		
		Query: 27  FISIVSLGLLGVAVPVQIQMMTHSTWQV---GLSVTLTGGAMFVGLMVGGVLADRYERKK 83
		            +  V +GL+   +P  ++ + HS       G+ + L     F    V G L+DR+ R+ 
		Sbjct: 15  ALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGALSDRFGRRP 74
		
		Query: 84  VILLARGTCGIGFIGLCLNALL--PEPSLLAIYLLGLWDGFFASLGVTALLAATPALVGR 141
		           V+L       +   G  ++  +    P L  +Y+  +  G   + G  A  A    +   
		Sbjct: 75  VLL-------VSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVA-GAYIADITDG 126
		
		Query: 142 ENLMQAGAITMLTVRLGSVISPMIGGLLLATGGVAWNYGLAAAGTFITLLPLLSLPALPP 201
		           +   +           G V  P++GGL+   GG + +    AA     L  L     LP 
		Sbjct: 127 DERARHFGFMSACFGFGMVAGPVLGGLM---GGFSPHAPFFAAAALNGLNFLTGCFLLPE 183
		
		Query: 202 PPQPREHPLK----SLLAGFRFLLASPLVGGIALLGGLLTMAS----AVRVLYPALADNW 253
		             +    PL+    + LA FR+     +V  +  +  ++ +      A+ V++    D +
		Sbjct: 184 SHKGERRPLRREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFG--EDRF 241
		
		Query: 254 QMSAAQIGFLYAAIP-LGAAIGALTSGKLAHSVRPGLLMLLSTLG---AFLAIGLFGLMP 309
		              A  IG   AA   L +   A+ +G +A  +     ++L  +     ++ +       
		Sbjct: 242 HWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFATRGW 301
		
		Query: 310 MWILGVVCLALFGWLSAVSSLLQYTMLQTQTPEAMLGRINGLWTAQNVTGDAIGAALLGG 369
		           M    +V LA  G            ML  Q  E   G++ G   A       +G  L   
		Sbjct: 302 MAFPIMVLLASGGIGMPALQ----AMLSRQVDEERQGQLQGSLAALTSLTSIVGPLLFTA 357
		
		Query: 370 LGAMMTPVASASASGFGLLIIGVLLLLVLVELRR 403
		           + A     +  + +G+  +    L LL L  LRR
		Sbjct: 358 IYA----ASITTWNGWAWIAGAALYLLCLPALRR 387
		
		
	654#c0679	FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature.	63	2e-13
		>FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature.
		          Length = 296
		
		 Score = 62.7 bits (152), Expect = 2e-13
		 Identities = 60/280 (21%), Positives = 100/280 (35%), Gaps = 35/280 (12%)
		
		Query: 40  HTLESQPQRIVSTSVTLTGSLLAIDAPVIASGATTPNNRVADDQGFLRQWSKVAKERKLQ 99
		           H     P RIV+        LLA+               VAD   + R W     E  L 
		Sbjct: 29  HAAAIDPNRIVALEWLPVELLLALGIVPYG---------VADTINY-RLW---VSEPPLP 75
		
		Query: 100 RLYIG-----EPSAEAVAAQMPDLILISATGGDSALALYDQLSTIAPTLIINYDDKS--- 151
		              I      EP+ E +    P  ++ SA  G S     + L+ IAP    N+ D     
		Sbjct: 76  DSVIDVGLRTEPNLELLTEMKPSFMVWSAGYGPS----PEMLARIAPGRGFNFSDGKQPL 131
		
		Query: 152 --WQSLLTQLGEITGHEKQAAERIAQFDKQLAAAKEQIKLPPQPVTAIVYTAAAHSANLW 209
		              +  LT++ ++   +  A   +AQ++  + + K +          +          ++
		Sbjct: 132 AMARKSLTEMADLLNLQSAAETHLAQYEDFIRSMKPRFVKRGARPLLLTTLIDPRHMLVF 191
		
		Query: 210 TPESAQGQMLEQLGFTLAKLPAGLNASQSQGKRHDIIQLGGENLAAGLNGESLFLFAGDQ 269
		            P S   ++L++ G          NA Q +        +  + LAA  + + L     + 
		Sbjct: 192 GPNSLFQEILDEYGIP--------NAWQGETNFWGSTAVSIDRLAAYKDVDVLCFDHDNS 243
		
		Query: 270 KDADAIYANPLLAHLPAVQNKQVYALGTETFRLDYYSAMQ 309
		           KD DA+ A PL   +P V+  +   +    F     SAM 
		Sbjct: 244 KDMDALMATPLWQAMPFVRAGRFQRVPAVWFYGATLSAMH 283
		
		
	657#c0682	ISCHRISMTASE#Isochorismatase signature.	443	e-161
		>ISCHRISMTASE#Isochorismatase signature.
		          Length = 312
		
		 Score =  443 bits (1141), Expect = e-161
		 Identities = 146/299 (48%), Positives = 195/299 (65%), Gaps = 18/299 (6%)
		
		Query: 1   MAIPKLQAYALPESHDIPQNKVDWAFEPQRAALLIHDMQDYFVSFWGENCPMMEQVIANI 60
		           MAIP +Q Y +P + D+PQNKV W  +P RA LLIHDMQ+YFV  +      + ++ ANI
		Sbjct: 1   MAIPAIQPYQMPTASDMPQNKVSWVPDPNRAVLLIHDMQNYFVDAFTAGASPVTELSANI 60
		
		Query: 61  AALRDYCKQHNIPVYYTAQPKEQSDEDRALLNDMWGPGLTRSPEQQKVVDRLTPDADDTV 120
		             L++ C Q  IPV YTAQP  Q+ +DRALL D WGPGL   P ++K++  L P+ DD V
		Sbjct: 61  RKLKNQCVQLGIPVVYTAQPGSQNPDDRALLTDFWGPGLNSGPYEEKIITELAPEDDDLV 120
		
		Query: 121 LVKWRYSAFHRSPLEQMLKESGRNQLIITGVYAHIGCMTTATDAFMRDIKPFMVADALAD 180
		           L KWRYSAF R+ L +M+++ GR+QLIITG+YAHIGC+ TA +AFM DIK F V DA+AD
		Sbjct: 121 LTKWRYSAFKRTNLLEMMRKEGRDQLIITGIYAHIGCLVTACEAFMEDIKAFFVGDAVAD 180
		
		Query: 181 FSRDEHLMSLKYVAGRSGRVVMTEELL------PAPIPASKAE-----------LREVIL 223
		           FS ++H M+L+Y AGR    VMT+ LL      PA +  + A            +R+ I 
		Sbjct: 181 FSLEKHQMALEYAAGRCAFTVMTDSLLDQLQNAPADVQKTSANTGKKNVFTCENIRKQIA 240
		
		Query: 224 PLLDESDEPFDDD-NLIDYGLDSVRMMALAARWRKVHGDIDFVMLAKNPTIDAWWKLLS 281
		            LL E+ E   D  +L+D GLDSVR+M L  +WR+   ++ FV LA+ PTI+ W KLL+
		Sbjct: 241 ELLQETPEDITDQEDLLDRGLDSVRIMTLVEQWRREGAEVTFVELAERPTIEEWQKLLT 299
		
		
	658#c0683	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	362	e-130
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score =  362 bits (930), Expect = e-130
		 Identities = 110/258 (42%), Positives = 150/258 (58%), Gaps = 20/258 (7%)
		
		Query: 5   GKNVWVTGAGKGIGYATAMAFVEAGAKVTGFD---------------QAFTQEQYPFATE 49
		           GK  ++TGA +GIG A A      GA +   D               +A   E +P    
		Sbjct: 8   GKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFP---- 63
		
		Query: 50  VMDVADAAQVAQVCQRLLAETERLDVLVNAAGILRMGATDQLSKEDWQQTFAVNVGGAFN 109
		             DV D+A + ++  R+  E   +D+LVN AG+LR G    LS E+W+ TF+VN  G FN
		Sbjct: 64  -ADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFN 122
		
		Query: 110 LFQQTMNQFRHQRGGAIVTVASDAAHTPRIGMSAYGASKAALKSLALSVGLELAGSGVRC 169
		             +        +R G+IVTV S+ A  PR  M+AY +SKAA       +GLELA   +RC
		Sbjct: 123 ASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRC 182
		
		Query: 170 NVVSPGSTDTDMQRTLWVSDDAEEQRIRGFGEQFKLGIPLGKIARPQEIANTILFLASDL 229
		           N+VSPGST+TDMQ +LW  ++  EQ I+G  E FK GIPL K+A+P +IA+ +LFL S  
		Sbjct: 183 NIVSPGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQ 242
		
		Query: 230 ASHITLQDIVVDGGSTLG 247
		           A HIT+ ++ VDGG+TLG
		Sbjct: 243 AGHITMHNLCVDGGATLG 260
		
		
c0875	c0880	N	Y	N	c0860	c0899
	c0875	-1	21	3.840107	Hypothetical protein ybhR
	c0876	-1	21	4.243760	Hypothetical protein ybhS
	c0877	-1	17	3.912646	Hypothetical ABC transporter ATP-binding protein
	c0878	-1	15	3.404899	Hypothetical membrane protein ybhG
	c0879	0	13	2.971970	Hypothetical transcriptional regulator ybiH
	c0880	0	14	3.312630	Putative ATP-dependent RNA helicase rhlE
	848#c0875	ABC2TRNSPORT#ABC-2 type transport system membrane protein signat...	46	9e-08
		>ABC2TRNSPORT#ABC-2 type transport system membrane protein
		           signature.
		          Length = 262
		
		 Score = 46.1 bits (109), Expect = 9e-08
		 Identities = 35/146 (23%), Positives = 63/146 (43%), Gaps = 5/146 (3%)
		
		Query: 197 AREREQGTLDQLLVSPLTTWQIFIGKAVPALIVATFQATIVLAIGIWAYQIPFAGSLALF 256
		            R   Q T + +L + L    I +G+   A   A         IG+ A  + +   L+L 
		Sbjct: 92  GRMEGQRTWEAMLYTQLRLGDIVLGEMAWAATKAALAGA---GIGVVAAALGYTQWLSLL 148
		
		Query: 257 YFTMVV--YGLSLVGFGLLISSLCSTQQQAFIGVFVFMMPAILLSGYVSPVENMPMWLQN 314
		           Y   V+   GL+    G+++++L  +         + + P + LSG V PV+ +P+  Q 
		Sbjct: 149 YALPVIALTGLAFASLGMVVTALAPSYDYFIFYQTLVITPILFLSGAVFPVDQLPIVFQT 208
		
		Query: 315 LTWINPIRHFTDITKQIYLKDASLDI 340
		                P+ H  D+ + I L    +D+
		Sbjct: 209 AARFLPLSHSIDLIRPIMLGHPVVDV 234
		
		
	850#c0877	PF05272#Virulence-associated E family protein	31	0.012
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 31.2 bits (70), Expect = 0.012
		 Identities = 20/90 (22%), Positives = 28/90 (31%), Gaps = 21/90 (23%)
		
		Query: 298 TPRFEDAFIDLLGGAGTSESPLGAILHTVGGTPGETVIEAKELTKKFGDFAATDHVNFAV 357
		            PR E   + +LG       P               +   + + K         HV   +
		Sbjct: 547 VPRLEKWLVHVLGKTPDDYKP-------------RRLRYLQLVGKYI----LMGHVARVM 589
		
		Query: 358 KRGEIFG----LLGPNGAGKSTTFKMMCGL 383
		           + G  F     L G  G GKST    + GL
		Sbjct: 590 EPGCKFDYSVVLEGTGGIGKSTLINTLVGL 619
		
		
		
		 Score = 29.3 bits (65), Expect = 0.047
		 Identities = 11/23 (47%), Positives = 13/23 (56%)
		
		Query: 39  YVTGLVGPDGAGKTTLMRMLAGL 61
		           Y   L G  G GK+TL+  L GL
		Sbjct: 597 YSVVLEGTGGIGKSTLINTLVGL 619
		
		
	851#c0878	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	62	6e-13
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 62.2 bits (151), Expect = 6e-13
		 Identities = 42/259 (16%), Positives = 92/259 (35%), Gaps = 25/259 (9%)
		
		Query: 83  ALMQAKAGVSVAQAQYDLMLAGYRDEEIAQAAAAVKQAQAAYDYAQNFYNRQQGLWKSRT 142
		              Q +  +   +A+   +LA     E        +    +    +    +   L +   
		Sbjct: 201 QKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENK 260
		
		Query: 143 ISA--NDLENARSSRDQAQATLKSAQDKLRQYRSGNREQ---DIAQAKASLEQAQAQLAQ 197
		                N+L   +S  +Q ++ + SA+++ +      + +    + Q   ++     +LA+
		Sbjct: 261 YVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAK 320
		
		Query: 198 AELNLQDSTLVAPSDGTLLTRAV-EPGTVLNEGGTVFTVSLT-RPVWVRAYVDERNLDQA 255
		            E   Q S + AP    +    V   G V+    T+  +      + V A V  +++   
		Sbjct: 321 NEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFI 380
		
		Query: 256 QPGRKVLLYTDGRPNKPYH---GQIGFVSPTAEFTPKTVETPDLRTDLVYRLRIVVT--- 309
		             G+  ++  +  P   Y    G++  ++  A          D R  LV+ + I +    
		Sbjct: 381 NVGQNAIIKVEAFPYTRYGYLVGKVKNINLDA--------IEDQRLGLVFNVIISIEENC 432
		
		Query: 310 ----DADDALRQGMPVTVQ 324
		               + +  L  GM VT +
		Sbjct: 433 LSTGNKNIPLSSGMAVTAE 451
		
		
	852#c0879	HTHTETR#TetR bacterial regulatory protein HTH signature.	73	7e-18
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 72.7 bits (178), Expect = 7e-18
		 Identities = 33/214 (15%), Positives = 78/214 (36%), Gaps = 17/214 (7%)
		
		Query: 13  KGEQAKKQLIAAALAQFGEYGMNATT-REIAAQAGQNIAAITYYFGSKEDLYLACAQWIA 71
		           + ++ ++ ++  AL  F + G+++T+  EIA  AG    AI ++F  K DL+    +   
		Sbjct: 8   EAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSE 67
		
		Query: 72  DFIGEQFRPHAEEAERLFAQPQPDRAAIRELILRACKNMIKLLTQDDTVNLSKFISREQL 131
		             IGE      E   +    P    + +RE+++   ++ +    +   + +  F   E +
		Sbjct: 68  SNIGELEL---EYQAKFPGDP---LSVLREILIHVLESTVTEERRRLLMEII-FHKCEFV 120
		
		Query: 132 SPTAAYHLVHEQVISPLHSHLTRLIAAWTGCDANDTRMILHTHALIGEILAFRLGKETIL 191
		              A        +    +  + + +      +A      L T      +  +  G     
		Sbjct: 121 GEMAVVQQAQRNLCLESYDRIEQTLKH--CIEAKMLPADLMTRRAAIIMRGYISG----- 173
		
		Query: 192 LRTGWTAFDEEKTELINQTVTCHIDLILQGLSQR 225
		           L   W    +     + +    ++ ++L+     
		Sbjct: 174 LMENWLFAPQSFD--LKKEARDYVAILLEMYLLC 205
		
		
	853#c0880	SECA#SecA protein signature.	30	0.026
		>SECA#SecA protein signature.
		          Length = 901
		
		 Score = 29.8 bits (67), Expect = 0.026
		 Identities = 20/67 (29%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
		
		Query: 246 QQVLVFTRTKHGANHLAEQLNKDGIRSAAIHG-NKSQGARTRALADFKSGDIRVLVATDI 304
		           Q VLV T +   +  ++ +L K GI+   ++    +  A   A A + +    V +AT++
		Sbjct: 450 QPVLVGTISIEKSELVSNELTKAGIKHNVLNAKFHANEAAIVAQAGYPAA---VTIATNM 506
		
		Query: 305 AARGLDI 311
		           A RG DI
		Sbjct: 507 AGRGTDI 513
		
		
c0924	c0931	N	Y	N	c0909	c0948
	c0924	0	15	-0.772116	Penicillin-binding protein 6 precursor
	c0925	1	15	-0.217480	Deoxyribose operon repressor
	c0926	0	14	-0.108201	Hypothetical protein ybjG
	c0927	-1	13	-0.930461	Multidrug translocase mdfA
	c0928	-2	19	-4.612827	Hypothetical protein ybjH precursor
	c0929	-1	23	-6.353761	Protein ybjI
	c0930	-1	27	-6.637048	Hypothetical protein ybjJ
	c0931	1	32	-8.601536	Hypothetical protein ybjK
	897#c0924	BLACTAMASEA#Beta-lactamase class A signature.	43	8e-07
		>BLACTAMASEA#Beta-lactamase class A signature.
		          Length = 286
		
		 Score = 43.2 bits (102), Expect = 8e-07
		 Identities = 41/201 (20%), Positives = 64/201 (31%), Gaps = 34/201 (16%)
		
		Query: 23  AFLFLFAPTAFAAEQTVEAPSVDARAW----------ILMDYASGKVLAEGNADEKLDPA 72
		             + L A    A       P    +            I MD ASG+ L    ADE+    
		Sbjct: 7   CIISLLATLPLAV-HASPQPLEQIKLSESQLSGRVGMIEMDLASGRTLTAWRADERFPMM 65
		
		Query: 73  SLTKIMTSYVVGQALKADKIKLTDMVTVGKDAWATGNPALRGSSVMFLKPGDQVSVADLN 132
		           S  K++    V   + A   +L   +   +      +P      V      D ++V +L 
		Sbjct: 66  STFKVVLCGAVLARVDAGDEQLERKIHYRQQDLVDYSP------VSEKHLADGMTVGELC 119
		
		Query: 133 KGVIIQSGNDACIALADYVAGSQESFIGLMNGYAKKLGLTNTT---FQTVHGLDAPGQF- 188
		              I  S N A   L   V G        +  + +++G   T    ++T      PG   
		Sbjct: 120 AAAITMSDNSAANLLLATVGGPAG-----LTAFLRQIGDNVTRLDRWETELNEALPGDAR 174
		
		Query: 189 --STARDMA------LLGKAL 201
		             +T   MA      L  + L
		Sbjct: 175 DTTTPASMAATLRKLLTSQRL 195
		
		
	900#c0927	TCRTETA#Tetracycline resistance protein signature.	41	6e-06
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 41.0 bits (96), Expect = 6e-06
		 Identities = 60/269 (22%), Positives = 109/269 (40%), Gaps = 23/269 (8%)
		
		Query: 81  LLGPLSDRIGRRPVMLAGVVWFIVTCLAILLAQNIEQFTLLRFLQGISLCFIGAVGYAAI 140
		           +LG LSDR GRRPV+L  +    V    +  A  +    + R + GI+    GAV  A I
		Sbjct: 62  VLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGA-TGAVAGAYI 120
		
		Query: 141 QESFEEAVCIKITALMANVALIAPLLGPLVG---AAWIHVLPWEGMFVLFAALAAISFFG 197
		            +  +     +    M+       + GP++G     +    P    F   AAL  ++F  
		Sbjct: 121 ADITDGDERARHFGFMSACFGFGMVAGPVLGGLMGGFSPHAP----FFAAAALNGLNFLT 176
		
		Query: 198 LQRAMPETATRIGEKLSLKELGRDYKLVLKNG-RFVAGALALGFVSLPLLAWIAQSP--I 254
		               +PE+       L  + L          G   VA  +A+ F    ++  + Q P  +
		Sbjct: 177 GCFLLPESHKGERRPLRREALNPLASFRWARGMTVVAALMAVFF----IMQLVGQVPAAL 232
		
		Query: 255 IIITGEQLSSYEYGLLQVPI--FGAL--IAGNLLLARLTSRRTVRSLIIMGGWPIMIGLL 310
		            +I GE    ++   + + +  FG L  +A  ++   + +R   R  +++G      G +
		Sbjct: 233 WVIFGEDRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYI 292
		
		Query: 311 VAAAATVISSHAYLWMTAGLSIYAFGIGL 339
		           + A AT      ++     + + + GIG+
		Sbjct: 293 LLAFAT----RGWMAFPIMVLLASGGIGM 317
		
		
	903#c0930	TCRTETB#Tetracycline resistance protein TetB signature.	34	0.001
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 33.7 bits (77), Expect = 0.001
		 Identities = 34/150 (22%), Positives = 65/150 (43%), Gaps = 6/150 (4%)
		
		Query: 239 LLIGVVVLAMAFAEGSANDWL-PLLMVDGHGFSP-TSGSLIYAGFTLGMTVGRFIGGWFI 296
		            +IGV+   + F   +    + P +M D H  S    GS+I    T+ + +  +IGG  +
		Sbjct: 258 FMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTMSVIIFGYIGGILV 317
		
		Query: 297 DHYSRVAVVR-ASALM--GALGIGLIIFVDSAWVA-GVSVVLWGLGASLGFPLTISAASD 352
		           D    + V+      +    L    ++   S ++   +  VL GL  +     TI ++S 
		Sbjct: 318 DRRGPLYVLNIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLGGLSFTKTVISTIVSSSL 377
		
		Query: 353 TGPDAPTRVSVVATTGYLAFLVGPPLLGYL 382
		              +A   +S++  T +L+   G  ++G L
		Sbjct: 378 KQQEAGAGMSLLNFTSFLSEGTGIAIVGGL 407
		
		
	904#c0931	HTHTETR#TetR bacterial regulatory protein HTH signature.	52	1e-10
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 52.3 bits (125), Expect = 1e-10
		 Identities = 14/81 (17%), Positives = 31/81 (38%)
		
		Query: 12 RRANDPQRREKIIQATLEAVKLYGIHAVTHRKIAALAGVPLGSMTYYFSGIDELLLEAFS 71
		           +    + R+ I+   L      G+ + +  +IA  AGV  G++ ++F    +L  E + 
		Sbjct: 5  TKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWE 64
		
		Query: 72 RFTEIMSRQYQAFFSDVSDAP 92
		               +      + +     P
		Sbjct: 65 LSESNIGELELEYQAKFPGDP 85
		
		
c0997	c1002	N	Y	N	c0982	c1022
	c0997	0	12	2.841666	Arginine transport ATP-binding protein artP
	c0998	0	12	3.781804	Putative lipoprotein ybjP precursor
	c0999	0	13	3.480524	Hypothetical protein ybjQ
	c1000	-1	12	3.590252	Probable N-acetylmuramoyl-L-alanine amidase
	c1001	-3	15	3.335461	Hypothetical protein ybjS
	c1002	-3	13	2.805396	Hypothetical protein ybjT
	970#c0997	PF05272#Virulence-associated E family protein	30	0.009
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 30.4 bits (68), Expect = 0.009
		 Identities = 9/18 (50%), Positives = 12/18 (66%)
		
		Query: 64  LVLLGPSGAGKSSLLRVL 81
		           +VL G  G GKS+L+  L
		Sbjct: 599 VVLEGTGGIGKSTLINTL 616
		
		
	973#c1000	ECOLIPORIN#E.coli/Salmonella-type porin signature.	29	0.023
		>ECOLIPORIN#E.coli/Salmonella-type porin signature.
		          Length = 383
		
		 Score = 28.7 bits (64), Expect = 0.023
		 Identities = 20/54 (37%), Positives = 26/54 (48%), Gaps = 9/54 (16%)
		
		Query: 2  RRVFWLVAAALLLAGCTGEKGIVEKEGYQLDTRRQAQAAYPRIKVLVIHYTADD 55
		          R+V  LV  ALL AG      I  K+G +LD        Y ++  L  HY +DD
		Sbjct: 3  RKVLALVIPALLAAGAAHAAEIYNKDGNKLDL-------YGKVDGL--HYFSDD 47
		
		
	974#c1001	NUCEPIMERASE#Nucleotide sugar epimerase signature.	75	2e-17
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score = 75.2 bits (185), Expect = 2e-17
		 Identities = 70/363 (19%), Positives = 123/363 (33%), Gaps = 65/363 (17%)
		
		Query: 22  MKVLVTGATSGLGRNAVEFLCQKGISVRA---------TGRNEAMGKLLEKMGAEFVPAD 72
		           MK LVTGA   +G +  + L + G  V               +A  +LL + G +F   D
		Sbjct: 1   MKYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKID 60
		
		Query: 73  LTELVSSQAKVMLAGIDTLWHCS-------SFTSPWGTQQAFDLANVRATRRLGEWAVAW 125
		           L +             + ++          S  +P     A+  +N+     + E     
		Sbjct: 61  LADREGMTDLFASGHFERVFISPHRLAVRYSLENPH----AYADSNLTGFLNILEGCRHN 116
		
		Query: 126 GVRNFIHISSPSLYFDYHHHRDIKEDFRPHRFANEFARSKAASEEVINMLSQANPQTRFT 185
		            +++ ++ SS S+Y   +       D       + +A +K A+E + +  S        T
		Sbjct: 117 KIQHLLYASSSSVYGL-NRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSH-LYGLPAT 174
		
		Query: 186 ILRPQSLFGPHDK--VFIPRLAHMMHHYGSILLPHGGSALVDMTYYENAVHAMWLASQEA 243
		            LR  +++GP  +  + + +    M    SI + + G    D TY ++   A+       
		Sbjct: 175 GLRFFTVYGPWGRPDMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAIIRLQDVI 234
		
		Query: 244 CDKLPS--------------GRVYNITNGEHRTLRSIVQKLIDELNIDCRIRSVPYPMLD 289
		                                RVYNI N     L   +Q L D L I+ +   +P    D
		Sbjct: 235 PHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAKKNMLPLQPGD 294
		
		Query: 290 MIARSMERLGRKSAKEPPLTHYGVSKLNFDFTLDITRAQEELGYQPVLTLDEGIEKTAAW 349
		           +                  T             D     E +G+ P  T+ +G++    W
		Sbjct: 295 V----------------LETS-----------ADTKALYEVIGFTPETTVKDGVKNFVNW 327
		
		Query: 350 LRD 352
		            RD
		Sbjct: 328 YRD 330
		
		
	975#c1002	NUCEPIMERASE#Nucleotide sugar epimerase signature.	56	1e-10
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score = 55.9 bits (135), Expect = 1e-10
		 Identities = 29/125 (23%), Positives = 52/125 (41%), Gaps = 17/125 (13%)
		
		Query: 29  RILVLGASGYIGQHLVRTLSQQGHQILA---------AARHVDRLAKLQLANVSCHKVDL 79
		           + LV GA+G+IG H+ + L + GHQ++           +    RL  L       HK+DL
		Sbjct: 2   KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDL 61
		
		Query: 80  SWPDNLPALLQD--IDTVYFLVH------SMGEGGDFIAQERQVALNVRDALREVPVKQL 131
		           +  + +  L      + V+   H      S+     +        LN+ +  R   ++ L
		Sbjct: 62  ADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQHL 121
		
		Query: 132 IFLSS 136
		           ++ SS
		Sbjct: 122 LYASS 126
		
		
c1345	c1353	N	Y	N	c1328	c1370
	c1345	0	14	2.624364	Flagellar hook protein flgE
	c1346	-1	13	2.564448	Flagellar basal-body rod protein flgF
	c1347	-2	10	1.432361	Flagellar basal-body rod protein flgG
	c1348	-1	14	2.432373	Flagellar L-ring protein precursor
	c1349	0	14	2.219221	Flagellar P-ring protein precursor
	c1350	1	14	1.892773	Peptidoglycan hydrolase flgJ
	c1351	1	14	1.446168	Flagellar hook-associated protein 1
	c1352	2	15	1.421240	Flagellar hook-associated protein 3
	c1353	3	16	1.440887	Ribonuclease E
	1299#c1345	FLGHOOKAP1#Flagellar hook-associated protein signature.	41	4e-06
		>FLGHOOKAP1#Flagellar hook-associated protein signature.
		          Length = 546
		
		 Score = 41.5 bits (97), Expect = 4e-06
		 Identities = 17/49 (34%), Positives = 29/49 (59%)
		
		Query: 353 TLTNGALEASNVDLSKELVNMIVAQRNYQSNAQTIKTQDQILNTLVNLR 401
		            L+N     S V+L +E  N+   Q+ Y +NAQ ++T + I + L+N+R
		Sbjct: 498 QLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINIR 546
		
		
		
		 Score = 37.2 bits (86), Expect = 1e-04
		 Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 4/56 (7%)
		
		Query: 6  AVSGLNAAATNLDVIGNNIANSATYGFKSGTASFAD----MFAGSKVGLGVKVAGI 57
		          A+SGLNAA   L+   NNI++    G+   T   A     + AG  VG GV V+G+
		Sbjct: 7  AMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVSGV 62
		
		
	1301#c1347	FLGHOOKAP1#Flagellar hook-associated protein signature.	44	4e-07
		>FLGHOOKAP1#Flagellar hook-associated protein signature.
		          Length = 546
		
		 Score = 43.8 bits (103), Expect = 4e-07
		 Identities = 18/81 (22%), Positives = 36/81 (44%), Gaps = 14/81 (17%)
		
		Query: 3  SSLWIAKTGLDAQQTNMDVIANNLANVSTNGFKRQRAVFEDLLYQTIRQPGAQSSEQTTL 62
		          S +  A +GL+A Q  ++  +NN+++ +  G+ RQ  +               +   +TL
		Sbjct: 2  SLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTI--------------MAQANSTL 47
		
		Query: 63 PSGLQIGTGVRPVATERLHSQ 83
		           +G  +G GV     +R +  
		Sbjct: 48 GAGGWVGNGVYVSGVQREYDA 68
		
		
		
		 Score = 41.1 bits (96), Expect = 3e-06
		 Identities = 11/41 (26%), Positives = 21/41 (51%)
		
		Query: 220 ETSNVNVAEELVNMIQVQRAYEINSKAVSTTDQMLQKLTQL 260
		             S VN+ EE  N+ + Q+ Y  N++ + T + +   L  +
		Sbjct: 505 SISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545
		
		
	1302#c1348	FLGLRINGFLGH#Flagellar L-ring protein signature.	350	e-126
		>FLGLRINGFLGH#Flagellar L-ring protein signature.
		          Length = 232
		
		 Score =  350 bits (898), Expect = e-126
		 Identities = 231/232 (99%), Positives = 232/232 (100%)
		
		Query: 6   MQKNAAHTYAISSLLVLSLTGCAWIPSTPLVQGATSAQPVPGPTPVANGSIFQSAQPINY 65
		           MQKNAAHTYAISSLLVLSLTGCAWIPSTPLVQGATSAQPVPGPTPVANGSIFQSAQPINY
		Sbjct: 1   MQKNAAHTYAISSLLVLSLTGCAWIPSTPLVQGATSAQPVPGPTPVANGSIFQSAQPINY 60
		
		Query: 66  GYQPLFEDRRPRNIGDTLTIVLQENVSASKSSSANASRDGKTNFGFDTVPRYLQGVFGNA 125
		           GYQPLFEDRRPRNIGDTLTIVLQENVSASKSSSANASRDGKTNFGFDTVPRYLQG+FGNA
		Sbjct: 61  GYQPLFEDRRPRNIGDTLTIVLQENVSASKSSSANASRDGKTNFGFDTVPRYLQGLFGNA 120
		
		Query: 126 RADVEASGGNTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHVVGEKQIAINQGTEFIRF 185
		           RADVEASGGNTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHVVGEKQIAINQGTEFIRF
		Sbjct: 121 RADVEASGGNTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHVVGEKQIAINQGTEFIRF 180
		
		Query: 186 SGVVNPRTISGSNTVPSTQVADARIEYVGNGYINEAQNMGWLQRFFLNLSPM 237
		           SGVVNPRTISGSNTVPSTQVADARIEYVGNGYINEAQNMGWLQRFFLNLSPM
		Sbjct: 181 SGVVNPRTISGSNTVPSTQVADARIEYVGNGYINEAQNMGWLQRFFLNLSPM 232
		
		
	1303#c1349	FLGPRINGFLGI#Flagellar P-ring protein signature.	425	e-151
		>FLGPRINGFLGI#Flagellar P-ring protein signature.
		          Length = 373
		
		 Score =  425 bits (1094), Expect = e-151
		 Identities = 156/363 (42%), Positives = 212/363 (58%), Gaps = 9/363 (2%)
		
		Query: 5   FLSALILLLVTTAVQAERIRDLTSVQGVRQNSLIGYGLVVGLDGTGDQTTQTPFTTQTLN 64
		           F +   L          RI+D+ S+Q  R N LIGYGLVVGL GTGD    +PFT Q++ 
		Sbjct: 13  FSALPFLSTPPAQADTSRIKDIASLQAGRDNQLIGYGLVVGLQGTGDSLRSSPFTEQSMR 72
		
		Query: 65  NMLSQLGITVPTGTNMQLKNVAAVMVTASLPPFGRQGQTIDVVVSSMGNAKSLRGGTLLM 124
		            ML  LGIT   G +   KN+AAVMVTA+LPPF   G  +DV VSS+G+A SLRGG L+M
		Sbjct: 73  AMLQNLGITTQGGQS-NAKNIAAVMVTANLPPFASPGSRVDVTVSSLGDATSLRGGNLIM 131
		
		Query: 125 TPLKGVDSQVYALAQGNILVGGAGASAGGSSVQVNQLNGGRITNGAVIERELPSQFGVGN 184
		           T L G D Q+YA+AQG ++V G  A    +++        R+ NGA+IERELPS+F    
		Sbjct: 132 TSLSGADGQIYAVAQGALIVNGFSAQGDAATLTQGVTTSARVPNGAIIERELPSKFKDSV 191
		
		Query: 185 TLNLQLNDEDFSMAQQIADTINRVR----GYGSATALDARTIQVRVPSGNSSQVRFLADI 240
		            L LQL + DFS A ++AD +N       G   A   D++ I V+ P   +   R +A+I
		Sbjct: 192 NLVLQLRNPDFSTAVRVADVVNAFARARYGDPIAEPRDSQEIAVQKPRV-ADLTRLMAEI 250
		
		Query: 241 QNMQVNVTPQDAKVVINSRTGSVVMNREVTLDSCAVAQGNLSVTVNRQANVSQPDTPFGG 300
		           +N+ V  T   AKVVIN RTG++V+  +V +   AV+ G L+V V     V QP  PF  
		Sbjct: 251 ENLTVE-TDTPAKVVINERTGTIVIGADVRISRVAVSYGTLTVQVTESPQVIQP-APFSR 308
		
		Query: 301 GQTVVTPQTQIDLRQSGGSLQSVRSSASLNNVVRALNALGATPMDLMSILQSMQSAGCLR 360
		           GQT V PQT I   Q G  + ++     L  +V  LN++G     +++ILQ ++SAG L+
		Sbjct: 309 GQTAVQPQTDIMAMQEGSKV-AIVEGPDLRTLVAGLNSIGLKADGIIAILQGIKSAGALQ 367
		
		Query: 361 AKL 363
		           A+L
		Sbjct: 368 AEL 370
		
		
	1304#c1350	FLGFLGJ#Flagellar protein FlgJ signature.	510	0.0
		>FLGFLGJ#Flagellar protein FlgJ signature.
		          Length = 313
		
		 Score =  510 bits (1315), Expect = 0.0
		 Identities = 311/313 (99%), Positives = 312/313 (99%)
		
		Query: 11  MISDSKLLASAAWDAQSLNELKAKAGEDPAANIRPVARQVEGMFVQMMLKSMRDALPKDG 70
		           MISDSKLLASAAWDAQSLNELKAKAGEDPAANIRPVARQVEGMFVQMMLKSMRDALPKDG
		Sbjct: 1   MISDSKLLASAAWDAQSLNELKAKAGEDPAANIRPVARQVEGMFVQMMLKSMRDALPKDG 60
		
		Query: 71  LFSSEHTRLYTSMYDQQIAQQMTAGKGLGLAEMMVKQMTPEQPLPEEPTPAAPMKFPLET 130
		           LFSSEHTRLYTSMYDQQIAQQMTAGKGLGLAEMMVKQMTPEQPLPEE TPAAPMKFPLET
		Sbjct: 61  LFSSEHTRLYTSMYDQQIAQQMTAGKGLGLAEMMVKQMTPEQPLPEESTPAAPMKFPLET 120
		
		Query: 131 VVRYQNQALSQLVQKAVPRNYDDSLPGNSKAFLAQLSLPAQLASQQSGVPHHLILAQAAL 190
		           VVRYQNQALSQLVQKAVPRNYDDSLPG+SKAFLAQLSLPAQLASQQSGVPHHLILAQAAL
		Sbjct: 121 VVRYQNQALSQLVQKAVPRNYDDSLPGDSKAFLAQLSLPAQLASQQSGVPHHLILAQAAL 180
		
		Query: 191 ESGWGQRQIRRENGEPSYNLFGVKASGNWKGPVTEITTTEYENGEAKKVKAKFRVYSSYL 250
		           ESGWGQRQIRRENGEPSYNLFGVKASGNWKGPVTEITTTEYENGEAKKVKAKFRVYSSYL
		Sbjct: 181 ESGWGQRQIRRENGEPSYNLFGVKASGNWKGPVTEITTTEYENGEAKKVKAKFRVYSSYL 240
		
		Query: 251 EALSDYVGLLTRNPRYAAVTTAASAEQGAQALQDAGYATDPHYARKLTNMIQQMKSISDK 310
		           EALSDYVGLLTRNPRYAAVTTAASAEQGAQALQDAGYATDPHYARKLTNMIQQMKSISDK
		Sbjct: 241 EALSDYVGLLTRNPRYAAVTTAASAEQGAQALQDAGYATDPHYARKLTNMIQQMKSISDK 300
		
		Query: 311 VSKTYSMNIDNLF 323
		           VSKTYSMNIDNLF
		Sbjct: 301 VSKTYSMNIDNLF 313
		
		
	1305#c1351	FLGHOOKAP1#Flagellar hook-associated protein signature.	683	0.0
		>FLGHOOKAP1#Flagellar hook-associated protein signature.
		          Length = 546
		
		 Score =  683 bits (1763), Expect = 0.0
		 Identities = 544/546 (99%), Positives = 546/546 (100%)
		
		Query: 2   SSLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVS 61
		           SSLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVS
		Sbjct: 1   SSLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVS 60
		
		Query: 62  GVQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLSTSTSSLATQMQDFFTSLQTLV 121
		           GVQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLSTSTSSLATQMQDFFTSLQTLV
		Sbjct: 61  GVQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLSTSTSSLATQMQDFFTSLQTLV 120
		
		Query: 122 SNAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASLND 181
		           SNAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASLND
		Sbjct: 121 SNAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASLND 180
		
		Query: 182 QISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGSTA 241
		           QISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGSTA
		Sbjct: 181 QISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGSTA 240
		
		Query: 242 RQLAAVPSTADPSRTTVAYIDGTAGNIEIPEKLLNTGSLGGILTFRSQDLDQTRNTLGQL 301
		           RQLAAVPS+ADPSRTTVAY+DGTAGNIEIPEKLLNTGSLGGILTFRSQDLDQTRNTLGQL
		Sbjct: 241 RQLAAVPSSADPSRTTVAYVDGTAGNIEIPEKLLNTGSLGGILTFRSQDLDQTRNTLGQL 300
		
		Query: 302 ALAFAEAFNTQHKAGFDANGDAGEDFFAIGKPAVLQNTKNKGDVAIGATVTDASAVLATD 361
		           ALAFAEAFNTQHKAGFDANGDAGEDFFAIGKPAVLQNTKNKGDVAIGATVTDASAVLATD
		Sbjct: 301 ALAFAEAFNTQHKAGFDANGDAGEDFFAIGKPAVLQNTKNKGDVAIGATVTDASAVLATD 360
		
		Query: 362 YKISFDNNQWQVTRLASNTTFTVTPDANGKVAFDGLELTFTGTPAVNDSFTLKPVSDAIV 421
		           YKISFDNNQWQVTRLASNTTFTVTPDANGKVAFDGLELTFTGTPAVNDSFTLKPVSDAIV
		Sbjct: 361 YKISFDNNQWQVTRLASNTTFTVTPDANGKVAFDGLELTFTGTPAVNDSFTLKPVSDAIV 420
		
		Query: 422 NMDVLITDEAKIAMASEEDAGDSDNRNGQALLDLQSNSKTVGGAKSFNDAYASLVSDIGN 481
		           NMDVLITDEAKIAMASEEDAGDSDNRNGQALLDLQSNSKTVGGAKSFNDAYASLVSDIGN
		Sbjct: 421 NMDVLITDEAKIAMASEEDAGDSDNRNGQALLDLQSNSKTVGGAKSFNDAYASLVSDIGN 480
		
		Query: 482 KTATLKTSSATQGNVVTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFD 541
		           KTATLKTSSATQGNVVTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFD
		Sbjct: 481 KTATLKTSSATQGNVVTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFD 540
		
		Query: 542 ALINIR 547
		           ALINIR
		Sbjct: 541 ALINIR 546
		
		
	1306#c1352	FLAGELLIN#Flagellin signature.	46	8e-08
		>FLAGELLIN#Flagellin signature.
		          Length = 507
		
		 Score = 46.2 bits (109), Expect = 8e-08
		 Identities = 42/226 (18%), Positives = 80/226 (35%), Gaps = 9/226 (3%)
		
		Query: 7   MMYQQNMRGITNSQAEWMKYGEQMSTGKRVVNPSDDPIAASQAVVLSQAQAQNSQYTLAR 66
		           ++ Q N+    +S +  +   E++S+G R+ +  DD    + A   +      +Q +   
		Sbjct: 11  LLTQNNLNKSQSSLSSAI---ERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQASRNA 67
		
		Query: 67  TFATQKVSLEESVLSQVTTAIQNAQEKIVYASNGTLSDDDRASLATDIQGLRDQLLNLAN 126
		                     E  L+++   +Q  +E  V A+NGT SD D  S+  +IQ   +++  ++N
		Sbjct: 68  NDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEIDRVSN 127
		
		Query: 127 TTDGNGRYIFAGYKTETAPFSEADGDYVGGTESIKQQVDASRSMVIGHTGDKIFDSITSN 186
		            T  NG  + +            DG      E+I   +       +G  G  +     + 
		Sbjct: 128 QTQFNGVKVLSQDNQMKIQVGANDG------ETITIDLQKIDVKSLGLDGFNVNGPKEAT 181
		
		Query: 187 AVAEPDGSASETNLFAMLDSAIAALKTPVADSEADKETAAAALDKT 232
		                    + T        A        + +     TA    DK 
		Sbjct: 182 VGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKV 227
		
		
	1307#c1353	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	68	2e-13
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 67.8 bits (165), Expect = 2e-13
		 Identities = 61/298 (20%), Positives = 93/298 (31%), Gaps = 54/298 (18%)
		
		Query: 513  PSEEEFAERKRPEQPALATFAMPDVPPAPTPAEPAAPVVAPAPKSAPATPAAPAQPGLLS 572
		            P  E+  +               DVP  P+  E  A         AP  P APA P    
		Sbjct: 983  PEVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIA-----RVDEAPVPPPAPATP---- 1033
		
		Query: 573  RFFGALKALFSGGEETKPSEQPTPKAEAKPERQQDRRKPRQNNRRDRNERRDPRSERTEG 632
		                              SE     AE   +  +   K  Q                   
		Sbjct: 1034 ------------------SETTETVAENSKQESKTVEKNEQ------------------- 1056
		
		Query: 633  SDNREENRRNRRQAQQQTAETRESRQQAEV------TEKARTTDEQQTPRRERSRRRNDD 686
		             D  E   +NR  A++  +  + + Q  EV      T++ +TT+ ++T   E+  +   +
		Sbjct: 1057 -DATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVE 1115
		
		Query: 687  KRQAQQEVKALNVEEQSVQETEQEERVRPVQPRRKQRQLNQKVRYEQSVAEEAVVAPVVE 746
		              +  QEV  +  +    QE  +  + +    R     +N K    Q+        P  E
		Sbjct: 1116 TEK-TQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKE 1174
		
		Query: 747  ETVAAEPIVQEAPAPRTELVKVPLPVVAQTAPEQPEENNADNRDNGGMPRRSRRSPRH 804
		             +   E  V E+    T    V  P     A  QP  N+  +       RRS RS  H
		Sbjct: 1175 TSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPH 1232
		
		
c1680	c1684	N	Y	N	c1665	c1704
	c1680	-2	14	1.739720	Hypothetical protein ychO
	c1681	-2	20	2.180501	Nitrate/nitrite response regulator protein narL
	c1682	-2	21	2.480397	Nitrate/nitrite sensor protein narX
	c1683	-2	27	2.755395	Hypothetical protein
	c1684	-2	23	2.846591	Nitrite extrusion protein 1
	1628#c1680	INTIMIN#Intimin signature.	254	8e-78
		>INTIMIN#Intimin signature.
		          Length = 939
		
		 Score =  254 bits (650), Expect = 8e-78
		 Identities = 118/378 (31%), Positives = 194/378 (51%), Gaps = 21/378 (5%)
		
		Query: 79  GEQAKAFALGKVRDALSQQVNQHVESWLSPWGNASVDVKVDNEGHFTGSRGSWFVPLQDN 138
		           G+ AK  ALG   +    Q +  +++WL  +G A V+++  N   F GS   + +P  D+
		Sbjct: 184 GDYAKDTALGIAGN----QASSQLQAWLQHYGTAEVNLQSGNN--FDGSSLDFLLPFYDS 237
		
		Query: 139 DRYLTWSQLSLTQQDDGLVSNVGVGQRWARGSWLVGYNTFYDNLLDENLQRAGFGAEAWG 198
		           ++ L + Q+     D    +N+G GQR+     ++GYN F D     +  R G G E W 
		Sbjct: 238 EKMLAFGQVGARYIDSRFTANLGAGQRFFLPENMLGYNVFIDQDFSGDNTRLGIGGEYWR 297
		
		Query: 199 EYLRLSANFYQPFAAWHE--QTATQEQRMARGYDLTARMRMPFYQHLNTSVSVEQYFGDR 256
		           +Y + S N Y   + WHE       ++R A G+D+     +P Y  L   +  EQY+GD 
		Sbjct: 298 DYFKSSVNGYFRMSGWHESYNKKDYDERPANGFDIRFNGYLPSYPALGAKLMYEQYYGDN 357
		
		Query: 257 VDLFNSGTGYHNPVALSLGLNYTPVPLVTVTAQHKQGESGENQNNLGLNLNYRFGVPLKK 316
		           V LFNS     NP A ++G+NYTP+PLVT+   ++ G   EN     +   Y+F  P  +
		Sbjct: 358 VALFNSDKLQSNPGAATVGVNYTPIPLVTMGIDYRHGTGNENDLLYSMQFRYQFDKPWSQ 417
		
		Query: 317 QLSAGEVAESQSLRGSRYDNPQRNNLPTLEYRQRKTLTVFLATPPWDLKPGETVPLKLQI 376
		           Q+    V E ++L GSRYD  QRNN   LEY+++  L++ +     +     T  ++L +
		Sbjct: 418 QIEPQYVNELRTLSGSRYDLVQRNNNIILEYKKQDILSLNI-PHDINGTERSTQKIQLIV 476
		
		Query: 377 RSRYGIRQLIWQGDTQILS-----LTPGAQANSEEGWTLIMPDWQNGEGASNHWRLSVVV 431
		           +S+YG+ +++W  D+ + S        G+Q  S + +  I+P +   +G SN ++++   
		Sbjct: 477 KSKYGLDRIVWD-DSALRSQGGQIQHSGSQ--SAQDYQAILPAYV--QGGSNVYKVTARA 531
		
		Query: 432 EDNQGQRVSSNEITLTLV 449
		            D  G   SSN + LT+ 
		Sbjct: 532 YDRNGN--SSNNVLLTIT 547
		
		
	1629#c1681	HTHFIS#FIS bacterial regulatory protein HTH signature.	75	8e-18
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 75.3 bits (185), Expect = 8e-18
		 Identities = 32/117 (27%), Positives = 56/117 (47%), Gaps = 2/117 (1%)
		
		Query: 29  ATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMN 88
		           ATIL+ DD   +RT + Q +S A     +   SN         + D DL++ D+ MP  N
		Sbjct: 4   ATILVADDDAAIRTVLNQALSRAGYDVRI--TSNAATLWRWIAAGDGDLVVTDVVMPDEN 61
		
		Query: 89  GLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQA 145
		             + L ++++      ++V S  N     + A ++GA  YL K  +  +L+  + +A
		Sbjct: 62  AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRA 118
		
		
	1630#c1682	PF06580#Sensor histidine kinase	53	2e-09
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 52.9 bits (127), Expect = 2e-09
		 Identities = 36/172 (20%), Positives = 73/172 (42%), Gaps = 23/172 (13%)
		
		Query: 424 PESSRELLSQIRNELNASWVQLRELLTTFRLQLTEPGLRPALEASCEEYSAKFGFPVKLD 483
		           P  +RE+L+ +   +  S         +   +LT       +++  +  S +F   ++ +
		Sbjct: 190 PTKAREMLTSLSELMRYSLRYSNARQVSLADELT------VVDSYLQLASIQFEDRLQFE 243
		
		Query: 484 YQLPPRL----VPSHQAIHLLQIAREALSNALKH-----SQASEVVVTVAQNDNQVKLTV 534
		            Q+ P +    VP      L+Q   E   N +KH      Q  ++++   +++  V L V
		Sbjct: 244 NQINPAIMDVQVPPM----LVQTLVE---NGIKHGIAQLPQGGKILLKGTKDNGTVTLEV 296
		
		Query: 535 QDNGCGVPENAIRSNHYGMIIMRDRAQSLRG-DCRVRRRESGGTEVVVTFIP 585
		           ++ G    +N   S   G+  +R+R Q L G + +++  E  G    +  IP
		Sbjct: 297 ENTGSLALKNTKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMVLIP 348
		
		
	1632#c1684	ACRIFLAVINRP#Acriflavin resistance protein family signature.	31	0.012
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score = 31.0 bits (70), Expect = 0.012
		 Identities = 35/166 (21%), Positives = 60/166 (36%), Gaps = 22/166 (13%)
		
		Query: 260 IMSLLYLATFGSFIGFSAGFAMLSKTQFPDVQILQYAFFGPFIGALARSA---GGALSDR 316
		           I+S + L+   + I   A  A L K    +    +  FFG F      S      ++   
		Sbjct: 474 IVSAMALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKI 533
		
		Query: 317 LGGTRVTLVNFILMAIFSGLLFLTLPTD----GQGGSFMAFFAVFLALFLTAGLGSGSTF 372
		           LG T   L+ + L+     +LFL LP+        G F+              L +G+T 
		Sbjct: 534 LGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTM----------IQLPAGATQ 583
		
		Query: 373 QMISVIFRKLTMDRVKAEGGSDER-----AMREAATDTAAALGFIS 413
		           +    +  ++T   +K E  + E          +     A + F+S
		Sbjct: 584 ERTQKVLDQVTDYYLKNEKANVESVFTVNGFSFSGQAQNAGMAFVS 629
		
		
c1756	c1768	N	Y	N	c1741	c1780
	c1756	-1	14	-0.748868	Hypothetical protein yciR
	c1757	-1	16	0.044767	Exoribonuclease II
	c1758	-3	17	-0.691659	Hypothetical protein yciW
	c1759	-3	11	-0.024475	Enoyl-[acyl-carrier-protein] reductase (NADH)
	c1760	-2	12	0.291892	Putative transcriptional repressor
	c1761	-1	13	0.458428	Acriflavine resistance protein A precursor
	c1762	-2	13	0.615568	Hypothetical protein
	c1763	-1	13	0.541877	Hypothetical protein
	c1764	-2	12	1.066787	Acriflavine resistance protein B
	c1765	-2	13	0.927733	Partial Putative outer membrane channel protein
	c1766	-2	14	0.908333	Putative membrane transport protein
	c1767	-2	13	1.324527	Peptide transport system ATP-binding protein
	c1768	-3	13	1.306273	Peptide transport system ATP-binding protein
	1703#c1756	PF08280#M protein trans-acting positive regulator	30	0.043
		>PF08280#M protein trans-acting positive regulator
		          Length = 530
		
		 Score = 29.8 bits (67), Expect = 0.043
		 Identities = 21/105 (20%), Positives = 36/105 (34%), Gaps = 2/105 (1%)
		
		Query: 526 PIDVELTESCLIENDELALSVIQQFSRLGAQVHLDDFGTGYSSLSQLARFPIDAIKLDQV 585
		           P+ V    S  I    L  S  + FS     +    +     ++ Q+     D +     
		Sbjct: 425 PLVVVFVASNFINAHLLTDSFPRYFS--DKSIDFHSYYLLQDNVYQIPDLKPDLVITHSQ 482
		
		Query: 586 FVRDIHKQPVSQSLVRAIVAVAQALNLQVIAEGVESAKEDAFLTK 630
		            +  +H +      V  I      L++Q +   V+  K  A LTK
		Sbjct: 483 LIPFVHHELTKGIAVAEISFDESILSIQELMYQVKEEKFQADLTK 527
		
		
	1706#c1759	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	49	4e-09
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score = 49.3 bits (117), Expect = 4e-09
		 Identities = 50/260 (19%), Positives = 97/260 (37%), Gaps = 22/260 (8%)
		
		Query: 4   LSGKRILVTGVASKLSIAYGIAQAMHREGAEL-AFTYQNDKLKGRVEEFAAQLGSDIVLQ 62
		           + GK   +TG A    I   +A+ +  +GA + A  Y  +KL+  V    A+        
		Sbjct: 6   IEGKIAFITGAAQ--GIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFP 63
		
		Query: 63  CDVAEDTSIDTMFAELGKVWPKFDGFVHSIGF---APGDQLDGDYVNAVTREGFKIAHDI 119
		            DV +  +ID + A + +     D  V+  G         L  +   A     F +    
		Sbjct: 64  ADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEAT----FSVN--- 116
		
		Query: 120 SSYSFVAMAKACRSMLNP-GSALLTLSYLGAERAIPNYNVMGLAKASLEANVRYMANAMG 178
		           S+  F A     + M++    +++T+    A     +      +KA+     + +   + 
		Sbjct: 117 STGVFNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELA 176
		
		Query: 179 PEGVRVNAISAGPIRTLAASGI--------KDFRKMLAHCEAVTPIRRTVTIEDVGNSAA 230
		              +R N +S G   T     +        +  +  L   +   P+++     D+ ++  
		Sbjct: 177 EYNIRCNIVSPGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVL 236
		
		Query: 231 FLCSDLSAGISGEVVHVDGG 250
		           FL S  +  I+   + VDGG
		Sbjct: 237 FLVSGQAGHITMHNLCVDGG 256
		
		
	1707#c1760	HTHTETR#TetR bacterial regulatory protein HTH signature.	57	4e-12
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 56.9 bits (137), Expect = 4e-12
		 Identities = 17/65 (26%), Positives = 33/65 (50%)
		
		Query: 34 MTSKLEIRHKQRQDEIINAARRCFRRCGFHAASMSQIASEAQLSVGQIYRYFANKDAIIE 93
		          M  K +   ++ +  I++ A R F + G  + S+ +IA  A ++ G IY +F +K  +  
		Sbjct: 1  MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60
		
		Query: 94 EMVRR 98
		          E+   
		Sbjct: 61 EIWEL 65
		
		
	1708#c1761	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	48	4e-08
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 47.9 bits (114), Expect = 4e-08
		 Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
		
		Query: 52  PVSVVSELTGR-TSAALSAEVRPQVGGIIQKRLFKEGDLVKAGQPLYQIDAASYQAAWNE 110
		            V +V+   G+ T +  S E++P    I+++ + KEG+ V+ G  L ++ A   +A   +
		Sbjct: 79  QVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLK 138
		
		Query: 111 ARAALQQAQA 120
		            +++L QA+ 
		Sbjct: 139 TQSSLLQARL 148
		
		
		
		 Score = 30.6 bits (69), Expect = 0.010
		 Identities = 15/116 (12%), Positives = 32/116 (27%), Gaps = 9/116 (7%)
		
		Query: 94  QPLYQIDAASYQAAWN--EARAALQQAQALVKADCQKAQRYTRLVKENGVSQQDADDAQS 151
		             L    A +  A                + K+  ++ +      KE    Q      ++
		Sbjct: 241 SSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEE--YQLVTQLFKN 298
		
		Query: 152 TCAQDKASVEAKKAALET----ARINLDWTTVTAPISGRI-GISSVTPGALVTASQ 202
		                          L             + + AP+S ++  +   T G +VT ++
		Sbjct: 299 EILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAE 354
		
		
	1711#c1764	ACRIFLAVINRP#Acriflavin resistance protein family signature.	1124	0.0
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score = 1124 bits (2908), Expect = 0.0
		 Identities = 565/1005 (56%), Positives = 736/1005 (73%), Gaps = 6/1005 (0%)
		
		Query: 1    MPVAQYPDVAPPTIKISATYTGASAETLENSVTQVIEQQLTGLDNLLYFSSTSSSDGSVS 60
		            +PVAQYP +APP + +SA Y GA A+T++++VTQVIEQ + G+DNL+Y SSTS S GSV+
		Sbjct: 30   LPVAQYPTIAPPAVSVSANYPGADAQTVQDTVTQVIEQNMNGIDNLMYMSSTSDSAGSVT 89
		
		Query: 61   INVTFEQGTDPDTAQVQVQNKIQQAESRLPSEVQQTGVTVEKSQSNFLLIAAVYDTTDKA 120
		            I +TF+ GTDPD AQVQVQNK+Q A   LP EVQQ G++VEKS S++L++A         
		Sbjct: 90   ITLTFQSGTDPDIAQVQVQNKLQLATPLLPQEVQQQGISVEKSSSSYLMVAGFVSDNPGT 149
		
		Query: 121  SSSDIADWLVSNVQDPLARVEGVGSLQVFGAEYAMRIWLDPAKLASYSLMPSDVQSAIEA 180
		            +  DI+D++ SNV+D L+R+ GVG +Q+FGA+YAMRIWLD   L  Y L P DV + ++ 
		Sbjct: 150  TQDDISDYVASNVKDTLSRLNGVGDVQLFGAQYAMRIWLDADLLNKYKLTPVDVINQLKV 209
		
		Query: 181  QNVQVTAGKIGALPSPNTQQLTATVRAQSRLQTVDQFKNIIVKSQSDGAVVRIKDVARVE 240
		            QN Q+ AG++G  P+   QQL A++ AQ+R +  ++F  + ++  SDG+VVR+KDVARVE
		Sbjct: 210  QNDQIAAGQLGGTPALPGQQLNASIIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVE 269
		
		Query: 241  MGSEDYTAIGKLNGHPSAGVAVMLSPGANALNTATLVKDKIAEFQRNMPQGYDIAYPKDS 300
		            +G E+Y  I ++NG P+AG+ + L+ GANAL+TA  +K K+AE Q   PQG  + YP D+
		Sbjct: 270  LGGENYNVIARINGKPAAGLGIKLATGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDT 329
		
		Query: 301  TEFIKISVEDVIQTLFEAIVLVVCVMYLFLQNLRATLIPALAVPVVLLGTFGVLALFGYS 360
		            T F+++S+ +V++TLFEAI+LV  VMYLFLQN+RATLIP +AVPVVLLGTF +LA FGYS
		Sbjct: 330  TPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYS 389
		
		Query: 361  INTLTLFAMVLAIGLLVDDAIVVVENVERIMRDEGLPAREATEKSMGEISGALVAIALVL 420
		            INTLT+F MVLAIGLLVDDAIVVVENVER+M ++ LP +EATEKSM +I GALV IA+VL
		Sbjct: 390  INTLTMFGMVLAIGLLVDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVL 449
		
		Query: 421  SAVFLPMAFFGGSTGVIYRQFSITIISAMLLSVVVALTLTPALCGSVL----QHVPPHKK 476
		            SAVF+PMAFFGGSTG IYRQFSITI+SAM LSV+VAL LTPALC ++L         +K 
		Sbjct: 450  SAVFIPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATLLKPVSAEHHENKG 509
		
		Query: 477  GFFGAFNRFYRRTEDKYQRGVIYVLRRAARTMGLYVVLGGGMALMMWKLPGSFLPTEDQG 536
		            GFFG FN  +  + + Y   V  +L    R + +Y ++  GM ++  +LP SFLP EDQG
		Sbjct: 510  GFFGWFNTTFDHSVNHYTNSVGKILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQG 569
		
		Query: 537  EIMVQYTLPAGATAARTAEVNRQIVDWFLINEKANTDVIFTVDGFSFSGSGQNTGMAFVS 596
		              +    LPAGAT  RT +V  Q+ D++L NEKAN + +FTV+GFSFSG  QN GMAFVS
		Sbjct: 570  VFLTMIQLPAGATQERTQKVLDQVTDYYLKNEKANVESVFTVNGFSFSGQAQNAGMAFVS 629
		
		Query: 597  LKNWSQRKGAENTAQAIALRATKELGTIRDATVFAMTPPAVDGLGQSNGFTFELLANGGT 656
		            LK W +R G EN+A+A+  RA  ELG IRD  V     PA+  LG + GF FEL+   G 
		Sbjct: 630  LKPWEERNGDENSAEAVIHRAKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGL 689
		
		Query: 657  DRETLLQMRNQLIEKANQSP-ELHSVRANDLPQMPQLQVDIDSNKAVSLGLSLNDVTDTL 715
		              + L Q RNQL+  A Q P  L SVR N L    Q ++++D  KA +LG+SL+D+  T+
		Sbjct: 690  GHDALTQARNQLLGMAAQHPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTI 749
		
		Query: 716  SSAWGGTYVNDFIDRGRVKKVYIQGDSEFRSAPSDLGKWFVRGSDNAMTPFSAFATTRWL 775
		            S+A GGTYVNDFIDRGRVKK+Y+Q D++FR  P D+ K +VR ++  M PFSAF T+ W+
		Sbjct: 750  STALGGTYVNDFIDRGRVKKLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWV 809
		
		Query: 776  YGPERLVRYNGSAAYEIQGENATGFSSGDAMTKMEELANSLPAGTTWAWSGLSLQEKLAS 835
		            YG  RL RYNG  + EIQGE A G SSGDAM  ME LA+ LPAG  + W+G+S QE+L+ 
		Sbjct: 810  YGSPRLERYNGLPSMEIQGEAAPGTSSGDAMALMENLASKLPAGIGYDWTGMSYQERLSG 869
		
		Query: 836  GQALSLYAVSILVVFLCLAALYESWSVPFSVILVIPLGLLGAALAAWMRDLNNDVYFQVA 895
		             QA +L A+S +VVFLCLAALYESWS+P SV+LV+PLG++G  LAA + +  NDVYF V 
		Sbjct: 870  NQAPALVAISFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVG 929
		
		Query: 896  LLTTIGLSSKNAILIVEFA-EAAVAEGYSLSRAALRAAQTRLRPIIMTSLAFIAGVMPLA 954
		            LLTTIGLS+KNAILIVEFA +    EG  +  A L A + RLRPI+MTSLAFI GV+PLA
		Sbjct: 930  LLTTIGLSAKNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLA 989
		
		Query: 955  IATGAGANSRIAIGTGIIGGTLTATLLAIFFVPLFFVLVKRLFAG 999
		            I+ GAG+ ++ A+G G++GG ++ATLLAIFFVP+FFV+++R F G
		Sbjct: 990  ISNGAGSGAQNAVGIGVMGGMVSATLLAIFFVPVFFVVIRRCFKG 1034
		
		
		
		 Score = 75.6 bits (186), Expect = 6e-16
		 Identities = 53/330 (16%), Positives = 117/330 (35%), Gaps = 19/330 (5%)
		
		Query: 691  QLQVDIDSNKAVSLGLSLNDVTDTLSSA----WGGTYVNDFIDRGRVKKVYIQGDSEFRS 746
		             +++ +D++      L+  DV + L         G         G+     I   + F++
		Sbjct: 183  AMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRFKN 242
		
		Query: 747  APSDLGKWFVRGSDN-AMTPFSAFATTRWLYGPER--LVRYNGSAA-----YEIQGENAT 798
		             P + GK  +R + + ++      A    L G     + R NG  A         G NA 
		Sbjct: 243  -PEEFGKVTLRVNSDGSVVRLKDVARVE-LGGENYNVIARINGKPAAGLGIKLATGANAL 300
		
		Query: 799  GFSSGDAMTKMEELANSLPAG--TTWAWSGLSLQEKLASGQALSLYAVSILVVFLCLAAL 856
		              +      K+ EL    P G    + +      +        +L+   +LV  + +   
		Sbjct: 301  DTAKA-IKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLV-MYLF 358
		
		Query: 857  YESWSVPFSVILVIPLGLLGAALAAWMRDLNNDVYFQVALLTTIGLSSKNAILIVEFAEA 916
		             ++        + +P+ LLG          + +      ++  IGL   +AI++VE  E 
		Sbjct: 359  LQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVER 418
		
		Query: 917  AVAEGYSLSRAALRAAQTRLR-PIIMTSLAFIAGVMPLAIATGAGANSRIAIGTGIIGGT 975
		             + E     + A   + ++++  ++  ++   A  +P+A   G+           I+   
		Sbjct: 419  VMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAM 478
		
		Query: 976  LTATLLAIFFVPLFFVLVKRLFAGKPRRQE 1005
		              + L+A+   P     + +  + +    +
		Sbjct: 479  ALSVLVALILTPALCATLLKPVSAEHHENK 508
		
		
	1712#c1765	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	29	0.048
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 29.0 bits (65), Expect = 0.048
		 Identities = 24/166 (14%), Positives = 49/166 (29%), Gaps = 11/166 (6%)
		
		Query: 70  DVQKAIADIDSARALYGQTNASLFPTVNAALSSTRSRSLANGTGTTAEADGTVSSYTLDL 129
		               A AD    ++   Q               +RS  L          +    + + + 
		Sbjct: 128 TALGAEADTLKTQSSLLQARL----EQTRYQILSRSIELNKLPELKLPDEPYFQNVSEEE 183
		
		Query: 130 FGRNQSLSRAARETWLASEFTAQNTRLTLIAEISTAWLTLAADNSNLALAKETMASAENS 189
		             R  SL +    TW   ++  +       AE  T         + +   +      ++ 
		Sbjct: 184 VLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTV-------LARINRYENLSRVEKSR 236
		
		Query: 190 LKIIQRQQQVGTAAATDVSEAMSVYQQARASVASYQTQVMQDKNAL 235
		           L            A   V E  + Y +A   +  Y++Q+ Q ++ +
		Sbjct: 237 LDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEI 282
		
		
	1713#c1766	TCRTETA#Tetracycline resistance protein signature.	68	9e-15
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 68.3 bits (167), Expect = 9e-15
		 Identities = 68/312 (21%), Positives = 114/312 (36%), Gaps = 18/312 (5%)
		
		Query: 5   SLSWALILGLLAGIGPMCTDLYLPALPEMSEQLAATTTITQLTLTASLIGLGVGQLLFGP 64
		            L   L    L  +G     L +P LP +   L  +  +T       L    + Q    P
		Sbjct: 6   PLIVILSTVALDAVG---IGLIMPVLPGLLRDLVHSNDVTA-HYGILLALYALMQFACAP 61
		
		Query: 65  ----LSDKIGRKRPLILSLLLFIVSSILCATTNNIYWLVVWRFIQGIAGAGGSVLSRSIA 120
		               LSD+ GR+  L++SL    V   + AT   ++ L + R + GI GA G+V    IA
		Sbjct: 62  VLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVAGAYIA 121
		
		Query: 121 RDKYQGVTLTQFFALLMTVNGLAPVLSPVLGGYIVSTFDWRTLFWVMAEISTVLLLGCLL 180
		            D   G    + F  +    G   V  PVLGG +   F     F+  A ++ +  L    
		Sbjct: 122 -DITDGDERARHFGFMSACFGFGMVAGPVLGGLM-GGFSPHAPFFAAAALNGLNFLTGCF 179
		
		Query: 181 FINETLPENKRGSSL----LLTGRSVVQNRRFMRFCLIQSFMLAGLFAYIGSSSFVL--Q 234
		            + E+    +R         L      +    +   +   F +  L   + ++ +V+  +
		Sbjct: 180 LLPESHKGERRPLRREALNPLASFRWARGMTVVAALMAVFF-IMQLVGQVPAALWVIFGE 238
		
		Query: 235 KEFGFSPMQFSLVFGLNGI-GLIIASWIFSRLARRINAMTLLRGGLIAAILCALLTVLCA 293
		             F +      +     GI   +  + I   +A R+     L  G+IA     +L     
		Sbjct: 239 DRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFAT 298
		
		Query: 294 WIQLPIPALVAL 305
		              +  P +V L
		Sbjct: 299 RGWMAFPIMVLL 310
		
		
	1715#c1768	HTHFIS#FIS bacterial regulatory protein HTH signature.	31	0.007
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 31.0 bits (70), Expect = 0.007
		 Identities = 9/16 (56%), Positives = 14/16 (87%)
		
		Query: 38  LVGESGSGKSLIAKAI 53
		           + GESG+GK L+A+A+
		Sbjct: 165 ITGESGTGKELVARAL 180
		
		
c2297	c2305	N	Y	N	c2282	c2321
	c2297	1	12	1.137916	Chemotaxis protein cheY
	c2298	0	11	1.479939	Protein-glutamate methylesterase
	c2299	0	11	1.284228	Chemotaxis protein methyltransferase
	c2300	0	11	0.857443	Hypothetical protein
	c2301	-1	11	0.778016	Methyl-accepting chemotaxis protein II
	c2302	-1	12	0.823039	Chemotaxis protein cheW
	c2303	-1	13	0.420292	Chemotaxis protein cheA
	c2304	-1	17	-1.178441	Chemotaxis motB protein
	c2305	0	15	-2.105357	Chemotaxis motA protein
	2232#c2297	HTHFIS#FIS bacterial regulatory protein HTH signature.	88	9e-24
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 88.3 bits (219), Expect = 9e-24
		 Identities = 30/105 (28%), Positives = 51/105 (48%), Gaps = 3/105 (2%)
		
		Query: 7   KFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGLDALNKLQAGGYGFVISDWNMPNMDGL 66
		             LV DD + +R ++   L   G++ V    +       + AG    V++D  MP+ +  
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYD-VRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63
		
		Query: 67  ELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPF 111
		           +LL  I+       LPVL+++A+      I A++ GA  Y+ KPF
		Sbjct: 64  DLLPRIKKARPD--LPVLVMSAQNTFMTAIKASEKGAYDYLPKPF 106
		
		
	2233#c2298	HTHFIS#FIS bacterial regulatory protein HTH signature.	65	9e-14
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 65.2 bits (159), Expect = 9e-14
		 Identities = 35/188 (18%), Positives = 72/188 (38%), Gaps = 23/188 (12%)
		
		Query: 1   MSKIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKFNPDVLTLDVEMP 60
		           M+   +L  DD A +R ++ + ++       V    +       I   + D++  DV MP
		Sbjct: 1   MTGATILVADDDAAIRTVLNQALSRAG--YDVRITSNAATLWRWIAAGDGDLVVTDVVMP 58
		
		Query: 61  RMDGLDFLEKLMRLRPMPVVMVSSLTGKGS-EVTLRALELGAIDFVTKPQLGIREGMLAY 119
		             +  D L ++ + RP   V+V  ++ + +    ++A E GA D++ KP   + E +   
		Sbjct: 59  DENAFDLLPRIKKARPDLPVLV--MSAQNTFMTAIKASEKGAYDYLPKP-FDLTELIGII 115
		
		Query: 120 SEMIAEKVRTAAKASLAAHKPLSAPTTLKAGPLLSSEKLIAIGASTGGTEAIRHVLQPLP 179
		              +AE  R  +K    +   +                   +G S    E  R + + + 
		Sbjct: 116 GRALAEPKRRPSKLEDDSQDGMP-----------------LVGRSAAMQEIYRVLARLMQ 158
		
		Query: 180 LSSPALLI 187
		                ++ 
		Sbjct: 159 TDLTLMIT 166
		
		
	2238#c2303	PF06580#Sensor histidine kinase	43	3e-06
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 42.9 bits (101), Expect = 3e-06
		 Identities = 23/151 (15%), Positives = 49/151 (32%), Gaps = 52/151 (34%)
		
		Query: 379 ELDKSLIERIIDPLT--HLVRNSLDHGIELPEKRLAAGKNSVGNLILSAEHQGGNICIEV 436
		           +++ ++++  + P+    LV N + HGI              G ++L      G + +EV
		Sbjct: 245 QINPAIMDVQVPPMLVQTLVENGIKHGIA--------QLPQGGKILLKGTKDNGTVTLEV 296
		
		Query: 437 TDDGAGLNRERILAKAASQGLTVSENMSDDEVAMLIFAPGFSTAEQVTDVSGRGVGMDVV 496
		            + G+   +                                            G G+  V
		Sbjct: 297 ENTGSLALKNTK--------------------------------------ESTGTGLQNV 318
		
		Query: 497 KRNIQEMGG---HVEIQSKQGTGTTIRILLP 524
		           +  +Q + G    +++  KQG      +L+P
		Sbjct: 319 RERLQMLYGTEAQIKLSEKQG-KVNAMVLIP 348
		
		
	2239#c2304	PF05272#Virulence-associated E family protein	31	0.009
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 30.8 bits (69), Expect = 0.009
		 Identities = 22/93 (23%), Positives = 35/93 (37%), Gaps = 11/93 (11%)
		
		Query: 46  LISISSPKELIQIAEYFRTPLATAVTGGDRISNSESPIPGGGDDYTQSQGEVNKQPNIEE 105
		           L  +SSP      A     P     + G   + ++   PGGGDD     GE      +++
		Sbjct: 384 LADVSSPTAAAGGAGGGEPPKKRDPSAG---AGTDPGGPGGGDD-----GEDPFGEWLDD 435
		
		Query: 106 LKKRM---EQSRLRKLRGDLDQLIESDPKLRAL 135
		              R+    +  L+  R  L + + S P L   
		Sbjct: 436 EVARLRLRGRWLLKPRRAALIEALRSAPALAGC 468
		
		
	2240#c2305	PF05844#YopD protein	33	0.001
		>PF05844#YopD protein
		          Length = 295
		
		 Score = 33.1 bits (75), Expect = 0.001
		 Identities = 12/28 (42%), Positives = 22/28 (78%), Gaps = 2/28 (7%)
		
		Query: 76  MDLLALLYRLMAKSRQMGMFSLERDIEN 103
		           ++LL +L+R+  K+R++G+  L+RD EN
		Sbjct: 74  VELLLILFRIAQKARELGV--LQRDNEN 99
		
		
c2338	c2345	N	Y	N	c2323	c2362
	c2338	-1	13	-1.465221	Flagellin
	c2339	-2	16	0.450688	Flagellar hook-associated protein 2
	c2340	-2	14	0.259965	Flagellar protein fliS
	c2341	-1	13	0.662108	Flagellar protein fliT
	c2342	-1	14	0.089651	Cytoplasmic alpha-amylase
	c2343	-1	18	-1.134300	Hypothetical lipoprotein yedD precursor
	c2344	-2	20	-4.279807	Hypothetical protein yedE
	c2345	2	34	-7.556630	Hypothetical protein yedF
	2273#c2338	FLAGELLIN#Flagellin signature.	181	2e-52
		>FLAGELLIN#Flagellin signature.
		          Length = 507
		
		 Score =  181 bits (460), Expect = 2e-52
		 Identities = 186/469 (39%), Positives = 243/469 (51%), Gaps = 11/469 (2%)
		
		Query: 2   AQVINTNSLSLITQNNINKNQSALSSSIERLSSGLRINSAKDDAAGQAIANRFTSNIKGL 61
		           AQVINTNSLSL+TQNN+NK+QS+LSS+IERLSSGLRINSAKDDAAGQAIANRFTSNIKGL
		Sbjct: 1   AQVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGL 60
		
		Query: 62  TQAARNANDGISVAQTTEGALSEINNNLQRIRELTVQASTGTNSDSDLDSIQDEIKSRLD 121
		           TQA+RNANDGIS+AQTTEGAL+EINNNLQR+REL+VQA+ GTNSDSDL SIQDEI+ RL+
		Sbjct: 61  TQASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLE 120
		
		Query: 122 EIDRVSGQTQFNGVNVLAKDGSMKIQVGANDGQTITIDLKKIDSDTLGLNGFNVNGSGTI 181
		           EIDRVS QTQFNGV VL++D  MKIQVGANDG+TITIDL+KID  +LGL+GFNVNG    
		Sbjct: 121 EIDRVSNQTQFNGVKVLSQDNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKEA 180
		
		Query: 182 ANKAATISDLTAAKMDAATNTITTTNNALTASKALDQLKDGDTVTIKADAAQTATVYTYN 241
		                  S       D            + +            V     A         N
		Sbjct: 181 TVGDLKSSFKNVTGYDTYAVGANKYRVDVNSG----------AVVTDTTAPTVPDKVYVN 230
		
		Query: 242 ASAGNFSFSNVSNNTSAKAGDVAASLLPPAGQTASGVYKAASGEVNFDVDANGKITIGGQ 301
		           A+ G  +  +  NNT+        S      +  +       G+     D  G       
		Sbjct: 231 AANGQLTTDDAENNTAVDLFKTTKSTA-GTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDT 289
		
		Query: 302 EAYLTSDGNLTTNDAGGATAATLDGLFKKAGDGQSIGFNKTASVTMGGTTYNFKTGADAG 361
		           +     +G ++T   G     T+  +   A +  +     + +V        F       
		Sbjct: 290 KTGNDGNGKVSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTK 349
		
		Query: 362 AATANAGVSFTDTASKETVLNKVATAKQGTAVAANGDTSATITYKSGVQTYQAVFAAGDG 421
		             +A       + A K      V  A+     A +  T A  T               + 
		Sbjct: 350 NESAKLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINED 409
		
		Query: 422 TASAKYADNTDVSNATATYTDADGEMTTIGSYTTKYSIDANNGKVTVDS 470
		            A+AK +    +++  +  +  D   +++G+   ++     N   TV +
		Sbjct: 410 AAAAKKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTN 458
		
		
		
		 Score = 95.1 bits (236), Expect = 8e-23
		 Identities = 95/371 (25%), Positives = 139/371 (37%), Gaps = 7/371 (1%)
		
		Query: 224 TVTIKADAAQTATVYTYNASAGNFSFSNVSNNTSAKAGDVAASLLPPAGQTASGVYKAAS 283
		            + + A+  +T T+        +     +         +     L  + +  +G    A 
		Sbjct: 144 KIQVGANDGETITIDLQKIDVKS---LGLDGFNVNGPKEATVGDLKSSFKNVTGYDTYAV 200
		
		Query: 284 GEVNFDVDANGKITIGGQEAYLTSDGNLTTNDAGGATAATLDGLFKKAGDGQSIGFNKTA 343
		           G   + VD N    +    A    D        G  T    +          +     TA
		Sbjct: 201 GANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFKTTKSTAGTA 260
		
		Query: 344 SVTMGGTTYNFKTGADAGAATANAGVSFTDTASKETVLNKVATAKQGTAVAANGDTSATI 403
		                          D            T T +            +   +     T+   
		Sbjct: 261 EAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLTVADITAGAA 320
		
		Query: 404 TYKSGVQTYQAVFAAGDGTASAKYADNTDVSNATATYTDADGEMTTIGSYTTKYSIDANN 463
		              +         +    T+        D      +   +D E        +K +++   
		Sbjct: 321 NVDA----ATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGESKITVNGAE 376
		
		Query: 464 GKVTVDSGTGTGKYAPKVGAEVYVSANGTLTTDATSEGTVTKDPLKALDEAISSIDKFRS 523
		                     T         +     +  +  DA +    T +PL ++D A+S +D  RS
		Sbjct: 377 YTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAAAAKKSTANPLASIDSALSKVDAVRS 436
		
		Query: 524 SLGAIQNRLDSAVTNLNNTTTNLSEAQSRIQDADYATEVSNMSKAQIIQQAGNSVLAKAN 583
		           SLGAIQNR DSA+TNL NT TNL+ A+SRI+DADYATEVSNMSKAQI+QQAG SVLA+AN
		Sbjct: 437 SLGAIQNRFDSAITNLGNTVTNLNSARSRIEDADYATEVSNMSKAQILQQAGTSVLAQAN 496
		
		Query: 584 QVPQQVLSLLQ 594
		           QVPQ VLSLL+
		Sbjct: 497 QVPQNVLSLLR 507
		
		
	2274#c2339	TYPE3OMBPROT#Type III secretion system outer membrane B protein ...	33	0.003
		>TYPE3OMBPROT#Type III secretion system outer membrane B protein
		           family signature.
		          Length = 538
		
		 Score = 32.7 bits (74), Expect = 0.003
		 Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
		
		Query: 214 NGMEVSVAAQNAQLTVNNVAIENSSNTISDALENITLNLNDVTTGNQTLTITQDTSKAQT 273
		           N  E +VAA+N    + + A+ +    +S AL   T++L  V+T    LT T  T   ++
		Sbjct: 236 NSSERAVAARNKAEELVSAALYSRPELLSQALSGKTVDLKIVSTS--LLTPTSLTGGEES 293
		
		Query: 274 AIKDWVNAYNSL 285
		            +KD VNA   L
		Sbjct: 294 MLKDQVNALKGL 305
		
		
	2279#c2344	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	30	0.018
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 30.2 bits (68), Expect = 0.018
		 Identities = 10/57 (17%), Positives = 17/57 (29%), Gaps = 2/57 (3%)
		
		Query: 175 RFTLLPIFRIPVKMQKVSAASPLTQKPDQARRRF--RLGMLVFFGMLGWALLTAMNQ 229
		           R  L    R   + + + A   L + P   R R      M         ++L  +  
		Sbjct: 26  RKQLDTPVREKDENEFLPAHLELIETPVSRRPRLVAYFIMGFLVIAFILSVLGQVEI 82
		
		
	2280#c2345	PF01206#SirA family protein	93	6e-29
		>PF01206#SirA family protein
		          Length = 76
		
		 Score = 92.5 bits (230), Expect = 6e-29
		 Identities = 16/71 (22%), Positives = 37/71 (52%)
		
		Query: 7  DYRLDMVGEPCPYPAVATLEAMPQLKKGEILEVVSDCPQSINNIPLDARNHGYTVLDIQQ 66
		          D  LD  G  CP P +   + +  +  GE+L V++  P S+ +    ++  G+ +L+ ++
		Sbjct: 5  DQSLDATGLNCPLPILKAKKTLATMNAGEVLYVMATDPGSVKDFESFSKQTGHELLEQKE 64
		
		Query: 67 DGPTIRYLIQK 77
		          +  T  + +++
		Sbjct: 65 EDGTYHFRLKR 75
		
		
c2348	c2367	N	Y	N	c2333	c2372
	c2348	5	36	-8.114841	Outer membrane porin protein nmpC precursor
	c2349	-2	22	-3.544039	Hypothetical transcriptional regulator ybcM
	c2350	-2	12	0.473813	Protein ybcL precursor
	c2351	1	15	2.444025	Hypothetical protein
	c2352	1	15	3.163863	EmrE protein
	c2353	1	18	4.915408	Flagellar hook-basal body complex protein fliE
	c2354	2	18	4.772370	Flagellar M-ring protein
	c2355	2	16	4.847908	Flagellar motor switch protein fliG
	c2356	0	14	4.563023	Hypothetical protein
	c2357	-2	16	3.960546	Flagellar assembly protein fliH
	c2358	-2	18	3.708785	Flagellum-specific ATP synthase
	c2359	-2	16	2.642357	Flagellar fliJ protein
	c2360	-2	16	2.790023	Flagellar hook-length control protein
	c2361	-2	22	2.331857	Flagellar fliL protein
	c2362	0	18	0.968669	Flagellar motor switch protein fliM
	c2363	3	17	0.593876	Flagellar motor switch protein fliN
	c2364	2	17	-2.549982	Flagellar protein fliO
	c2365	1	17	-3.284859	Flagellar biosynthetic protein fliP precursor
	c2366	1	19	-4.785175	Flagellar biosynthetic protein fliQ
	c2367	2	19	-5.081266	Flagellar biosynthetic protein fliR
	2283#c2348	ECOLIPORIN#E.coli/Salmonella-type porin signature.	495	e-179
		>ECOLIPORIN#E.coli/Salmonella-type porin signature.
		          Length = 383
		
		 Score =  495 bits (1277), Expect = e-179
		 Identities = 234/370 (63%), Positives = 271/370 (73%), Gaps = 31/370 (8%)
		
		Query: 1   MSAQAAEIYNKDSNKLDLYGKVNAKHYFSSNDADDGDTTYVRLGFKGETQINDQLTGFGQ 60
		            +A AAEIYNKD NKLDLYGKV+  HYFS + + DGD TY+R+GFKGETQINDQLTG+GQ
		Sbjct: 17  GAAHAAEIYNKDGNKLDLYGKVDGLHYFSDDSSKDGDQTYMRVGFKGETQINDQLTGYGQ 76
		
		Query: 61  WEYEFKGNRAESQGSSKDKTRLAFAGLKFGDYGSIDYGRNYGVAYDIGAWTDVLPEFGGD 120
		           WEY  + N  E +G++   TRLAFAGLKFGDYGS DYGRNYGV YD+  WTD+LPEFGGD
		Sbjct: 77  WEYNVQANTTEGEGANS-WTRLAFAGLKFGDYGSFDYGRNYGVLYDVEGWTDMLPEFGGD 135
		
		Query: 121 TWTQTDVFMTGRTTGVATYRNNDFFGLVDGLNFAAQYQGKNDR----------------T 164
		           ++T  D +MTGR  GVATYRN DFFGLVDGLNFA QYQGKN+                  
		Sbjct: 136 SYTYADNYMTGRANGVATYRNTDFFGLVDGLNFALQYQGKNESQSADDVNIGTNNRNNGD 195
		
		Query: 165 DVTEANGDGFGFSTTYEY-EGFGVGATYAKSDRTNDQVIYGNNSLNASGQNAEVWAAGLK 223
		           D+   NGDGFG STTY+   GF  GA Y  SDRTN+QV  G     A G  A+ W AGLK
		Sbjct: 196 DIRYDNGDGFGISTTYDIGMGFSAGAAYTTSDRTNEQVNAGGT--IAGGDKADAWTAGLK 253
		
		Query: 224 YDANNIYLATTYSETQNMTVFG------NNHIANKAQNFEVVAQYQFDFGLRPSVAYLQS 277
		           YDANNIYLAT YSET+NMT +G      +  +ANK QNFEV AQYQFDFGLRP+V++L S
		Sbjct: 254 YDANNIYLATMYSETRNMTPYGKTDKGYDGGVANKTQNFEVTAQYQFDFGLRPAVSFLMS 313
		
		Query: 278 KGKDLG----AWGDQDLVEYIDVGATYYFNKNMSTFVDYKINLIDKSD-FTKASGVATDD 332
		           KGKDL        D+DLV+Y DVGATYYFNKN ST+VDYKINL+D  D F K +G++TDD
		Sbjct: 314 KGKDLTYNNVNGDDKDLVKYADVGATYYFNKNFSTYVDYKINLLDDDDPFYKDAGISTDD 373
		
		Query: 333 IVAVGLVYQF 342
		           IVA+G+VYQF
		Sbjct: 374 IVALGMVYQF 383
		
		
	2288#c2353	FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE signa...	120	6e-39
		>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE
		           signature.
		          Length = 103
		
		 Score =  120 bits (301), Expect = 6e-39
		 Identities = 102/103 (99%), Positives = 102/103 (99%)
		
		Query: 12  SAIQGIEGVISQLQATAMSARAQESLPQPTISFAGQLHAALDRISDTQTVARTQAEKFTL 71
		           SAIQGIEGVISQLQATAMSARAQESLPQPTISFAGQLHAALDRISDTQT ARTQAEKFTL
		Sbjct: 1   SAIQGIEGVISQLQATAMSARAQESLPQPTISFAGQLHAALDRISDTQTAARTQAEKFTL 60
		
		Query: 72  GEPGVALNDVMTDMQKASVSMQMGIQVRNKLVAAYQEVMSMQV 114
		           GEPGVALNDVMTDMQKASVSMQMGIQVRNKLVAAYQEVMSMQV
		Sbjct: 61  GEPGVALNDVMTDMQKASVSMQMGIQVRNKLVAAYQEVMSMQV 103
		
		
	2289#c2354	FLGMRINGFLIF#Flagellar M-ring protein signature.	751	0.0
		>FLGMRINGFLIF#Flagellar M-ring protein signature.
		          Length = 559
		
		 Score =  751 bits (1940), Expect = 0.0
		 Identities = 476/555 (85%), Positives = 512/555 (92%), Gaps = 5/555 (0%)
		
		Query: 3   ATAAQTKSLEWLNRLRANPKIPLIVAGSAAVAVMVALILWAKAPDYRTLFSNLSDQDGGA 62
		           +TA Q K LEWLNRLRANP+IPLIVAGSAAVA++VA++LWAK PDYRTLFSNLSDQDGGA
		Sbjct: 5   STATQPKPLEWLNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGA 64
		
		Query: 63  IVSQLTQMNIPYRFSEASGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQ 122
		           IV+QLTQMNIPYRF+  SGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQ
		Sbjct: 65  IVAQLTQMNIPYRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQ 124
		
		Query: 123 FSEQVNYQRALEGELSRTIETIGPVKGARVHLAMPKPSLFVREQKSPSASVTVNLLPGRA 182
		           FSEQVNYQRALEGEL+RTIET+GPVK ARVHLAMPKPSLFVREQKSPSASVTV L PGRA
		Sbjct: 125 FSEQVNYQRALEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRA 184
		
		Query: 183 LDEGQISAIVHLVSSAVAGLPPGNVTLVDQGGHLLTQSNTSGRDLNDAQLKYASDVEGRI 242
		           LDEGQISA+VHLVSSAVAGLPPGNVTLVDQ GHLLTQSNTSGRDLNDAQLK+A+DVE RI
		Sbjct: 185 LDEGQISAVVHLVSSAVAGLPPGNVTLVDQSGHLLTQSNTSGRDLNDAQLKFANDVESRI 244
		
		Query: 243 QRRIEAILSPIVGNGNIHAQVTAQLDFASKEQTEEQYRPNGDESHAALRSRQLNESEQSG 302
		           QRRIEAILSPIVGNGN+HAQVTAQLDFA+KEQTEE Y PNGD S A LRSRQLN SEQ G
		Sbjct: 245 QRRIEAILSPIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVG 304
		
		Query: 303 SGYPGGVPGALSNQPAPANNAPISTPPANQNNRQQ--QASTTSNS---GPRSTQRNETSN 357
		           +GYPGGVPGALSNQPAP N API+TPP NQ N Q   Q ST++NS   GPRSTQRNETSN
		Sbjct: 305 AGYPGGVPGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNETSN 364
		
		Query: 358 YEVDRTIRHTKMNVGDVQRLSVAVVVNYKTLPDGKPLPLSNEQMKQIEALTREAMGFSEK 417
		           YEVDRTIRHTKMNVGD++RLSVAVVVNYKTL DGKPLPL+ +QMKQIE LTREAMGFS+K
		Sbjct: 365 YEVDRTIRHTKMNVGDIERLSVAVVVNYKTLADGKPLPLTADQMKQIEDLTREAMGFSDK 424
		
		Query: 418 RGDSLNVVNSPFNSSDESGGALPFWQQQAFIDQLLAAGRWLLVLLVAWLLWRKAVRPQLT 477
		           RGD+LNVVNSPF++ D +GG LPFWQQQ+FIDQLLAAGRWLLVL+VAW+LWRKAVRPQLT
		Sbjct: 425 RGDTLNVVNSPFSAVDNTGGELPFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVRPQLT 484
		
		Query: 478 RRAEAVKTVQQQAQAREEVEDAVEVRLSKDEQLQQRRANQRLGAEVMSQRIREMSDNDPR 537
		           RR E  K  Q+QAQ R+E E+AVEVRLSKDEQLQQRRANQRLGAEVMSQRIREMSDNDPR
		Sbjct: 485 RRVEEAKAAQEQAQVRQETEEAVEVRLSKDEQLQQRRANQRLGAEVMSQRIREMSDNDPR 544
		
		Query: 538 VVALVIRQWINNDHE 552
		           VVALVIRQW++NDHE
		Sbjct: 545 VVALVIRQWMSNDHE 559
		
		
	2290#c2355	FLGMOTORFLIG#Flagellar motor switch protein FliG signature.	341	e-119
		>FLGMOTORFLIG#Flagellar motor switch protein FliG signature.
		          Length = 344
		
		 Score =  341 bits (876), Expect = e-119
		 Identities = 117/329 (35%), Positives = 197/329 (59%), Gaps = 2/329 (0%)
		
		Query: 1   MSNLTGTDKSVILLMTIGEDRAAEVFKHLSQREVQTLSAAMANVTQISNKQLTDVLAEFE 60
		           +S LTG  K+ ILL++IG + +++VFK+LSQ E+++L+  +A +  I+++   +VL EF+
		Sbjct: 12  VSALTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNVLLEFK 71
		
		Query: 61  QEAEQFAALNINANDYLRSVLVKALGEERAASLLEDILETRDTASGIETLNFMEPQSAAD 120
		           +       +     DY R +L K+LG ++A  ++ + L +   +   E +   +P +  +
		Sbjct: 72  ELMMAQEFIQKGGIDYARELLEKSLGTQKAVDIINN-LGSALQSRPFEFVRRADPANILN 130
		
		Query: 121 LIRDEHPQIIATILVHLKRAQAADILALFDERLRHDVMLRIATFGGVQPAALAELTEVLN 180
		            I+ EHPQ IA IL +L   +A+ IL+     ++ +V  RIA      P  + E+  VL 
		Sbjct: 131 FIQQEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREVERVLE 190
		
		Query: 181 GLLDGQ-NLKRSKMGGVRTAAEIINLMKTQQEEAVITAVREFDGELAQKIIDEMFLFENL 239
		             L    +   +  GGV    EIIN+   + E+ +I ++ E D ELA++I  +MF+FE++
		Sbjct: 191 KKLASLSSEDYTSAGGVDNVVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMFVFEDI 250
		
		Query: 240 VDVDDRSIQRLLQEVDSESLLIALKGAEQPLREKFLRNMSQRAADILRDDLANRGPVRLS 299
		           V +DDRSIQR+L+E+D + L  ALK  + P++EK  +NMS+RAA +L++D+   GP R  
		Sbjct: 251 VLLDDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEFLGPTRRK 310
		
		Query: 300 QVENEQKAILLIVRRLAETGEMVIGSGED 328
		            VE  Q+ I+ ++R+L E GE+VI  G +
		Sbjct: 311 DVEESQQKIVSLIRKLEEQGEIVISRGGE 339
		
		
	2292#c2357	FLGFLIH#Flagellar assembly protein FliH signature.	371	e-134
		>FLGFLIH#Flagellar assembly protein FliH signature.
		          Length = 228
		
		 Score =  371 bits (954), Expect = e-134
		 Identities = 221/228 (96%), Positives = 224/228 (98%)
		
		Query: 8   MSDNLPWKTWTPDDLAPPPAEFVPMAESEETIIEEVEPSLEQQLAQLQMQAHEQGYQAGI 67
		           MSDNLPWKTWTPDDLAPP AEFVP+ E EETIIEE EPSLEQQLAQLQMQAHEQGYQAGI
		Sbjct: 1   MSDNLPWKTWTPDDLAPPQAEFVPIVEPEETIIEEAEPSLEQQLAQLQMQAHEQGYQAGI 60
		
		Query: 68  AEGRQQGHEQGYQEGLAQGLEQGLAEAKAQQAPIHARMQQLVSEFQTTLDALDSVIASRL 127
		           AEGRQQGH+QGYQEGLAQGLEQGLAEAK+QQAPIHARMQQLVSEFQTTLDALDSVIASRL
		Sbjct: 61  AEGRQQGHKQGYQEGLAQGLEQGLAEAKSQQAPIHARMQQLVSEFQTTLDALDSVIASRL 120
		
		Query: 128 MQMALEAARQVIGQTPTVDNSALIKQIQQLLQQEPLFSGKPQLRVHPDDLQRVDDMLGAT 187
		           MQMALEAARQVIGQTPTVDNSALIKQIQQLLQQEPLFSGKPQLRVHPDDLQRVDDMLGAT
		Sbjct: 121 MQMALEAARQVIGQTPTVDNSALIKQIQQLLQQEPLFSGKPQLRVHPDDLQRVDDMLGAT 180
		
		Query: 188 LSLHGWRLRGDPTLHPGGCKVSADEGDLDASVATRWQELCRLAAPGVV 235
		           LSLHGWRLRGDPTLHPGGCKVSADEGDLDASVATRWQELCRLAAPGVV
		Sbjct: 181 LSLHGWRLRGDPTLHPGGCKVSADEGDLDASVATRWQELCRLAAPGVV 228
		
		
	2294#c2359	FLGFLIJ#Flagellar FliJ protein signature.	202	2e-70
		>FLGFLIJ#Flagellar FliJ protein signature.
		          Length = 147
		
		 Score =  202 bits (515), Expect = 2e-70
		 Identities = 146/147 (99%), Positives = 147/147 (100%)
		
		Query: 1   MAEHGALATLKDLAEKEVEDAARLLGEMRRGCQQAEEQLKMLIDYQNEYRNNLNSDMSAG 60
		           MAEHGALATLKDLAEKEVEDAARLLGEMRRGCQQAEEQLKMLIDYQNEYRNNLNSDMSAG
		Sbjct: 1   MAEHGALATLKDLAEKEVEDAARLLGEMRRGCQQAEEQLKMLIDYQNEYRNNLNSDMSAG 60
		
		Query: 61  MTSNRWINYQQFIQTLEKAITQHRQQLNQWTQKVDIALNSWREKKQRLQAWQTLQERQST 120
		           +TSNRWINYQQFIQTLEKAITQHRQQLNQWTQKVDIALNSWREKKQRLQAWQTLQERQST
		Sbjct: 61  ITSNRWINYQQFIQTLEKAITQHRQQLNQWTQKVDIALNSWREKKQRLQAWQTLQERQST 120
		
		Query: 121 AALLAENRLDQKKMDEFAQRAAMRKPE 147
		           AALLAENRLDQKKMDEFAQRAAMRKPE
		Sbjct: 121 AALLAENRLDQKKMDEFAQRAAMRKPE 147
		
		
	2295#c2360	FLGHOOKFLIK#Flagellar hook-length control protein signature.	469	e-168
		>FLGHOOKFLIK#Flagellar hook-length control protein signature.
		          Length = 375
		
		 Score =  469 bits (1207), Expect = e-168
		 Identities = 365/375 (97%), Positives = 369/375 (98%)
		
		Query: 1   MIRLAPLITADVDTTTLPGGKASDAAQDFLALLSEALAGETTTDKAAPQLLVATDKPTAK 60
		           MIRLAPLITADVDTTTLPGGKASDAAQDFLALLSEALAGETTTDKAAPQLLVATDKPT K
		Sbjct: 1   MIRLAPLITADVDTTTLPGGKASDAAQDFLALLSEALAGETTTDKAAPQLLVATDKPTTK 60
		
		Query: 61  GEPLVSDILSDAQQADLLIPVDETPPVINDEQSTLTPLTTAQTMTLAAVADKNTTKDEKA 120
		           GEPL+SDI+SDAQQA+LLIPVDETPPVINDEQST TPLTTAQTM LAAVADKNTTKDEKA
		Sbjct: 61  GEPLISDIVSDAQQANLLIPVDETPPVINDEQSTSTPLTTAQTMALAAVADKNTTKDEKA 120
		
		Query: 121 DDLNEDVTASLSALFAMLPGFDNTPKVTDAPSTVLPAEKPTLFTKLTSAQLTTAQPDDAP 180
		           DDLNEDVTASLSALFAMLPGFDNTPKVTDAPSTVLP EKPTLFTKLTS QLTTAQPDDAP
		Sbjct: 121 DDLNEDVTASLSALFAMLPGFDNTPKVTDAPSTVLPTEKPTLFTKLTSEQLTTAQPDDAP 180
		
		Query: 181 GTPAQPLTPLVAEAQSKAEVISTPSPVTADASPLITPHQTQPLPTVAAPVLSAPLGSHEW 240
		           GTPAQPLTPLVAEAQSKAEVISTPSPVTA ASPLITPHQTQPLPTVAAPVLSAPLGSHEW
		Sbjct: 181 GTPAQPLTPLVAEAQSKAEVISTPSPVTAAASPLITPHQTQPLPTVAAPVLSAPLGSHEW 240
		
		Query: 241 QQSLSQHISLFTRQGQQSAELRLHPQDLGEVQISLKVDDNQAQIQMISPHQHVRAALEAA 300
		           QQSLSQHISLFTRQGQQSAELRLHPQDLGEVQISLKVDDNQAQIQM+SPHQHVRAALEAA
		Sbjct: 241 QQSLSQHISLFTRQGQQSAELRLHPQDLGEVQISLKVDDNQAQIQMVSPHQHVRAALEAA 300
		
		Query: 301 LPVLRTQLAESGIQLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVS 360
		           LPVLRTQLAESGIQLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVS
		Sbjct: 301 LPVLRTQLAESGIQLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVS 360
		
		Query: 361 LQGRVTGNSGVDIFA 375
		           LQGRVTGNSGVDIFA
		Sbjct: 361 LQGRVTGNSGVDIFA 375
		
		
	2297#c2362	FLGMOTORFLIM#Flagellar motor switch protein FliM signature.	385	e-136
		>FLGMOTORFLIM#Flagellar motor switch protein FliM signature.
		          Length = 344
		
		 Score =  385 bits (989), Expect = e-136
		 Identities = 85/324 (26%), Positives = 148/324 (45%), Gaps = 10/324 (3%)
		
		Query: 20  ILSQAEIDALLNGDS--EVKDEPTASVSGESDIRPYDPNTQRRVVRERLQALEIINERFA 77
		           +LSQ EID LL   S  +   E    +S    I  YD     +  +E+++ L +++E FA
		Sbjct: 4   VLSQDEIDQLLTAISSGDASIEDARPISDTRKITLYDFRRPDKFSKEQMRTLSLMHETFA 63
		
		Query: 78  RHFRMGLFNLLRRSPDITVGAIRIQPYHEFARNLPVPTNLNLIHLKPLRGTGLVVFSPSL 137
		           R     L   LR    + V ++    Y EF R++P P+ L +I + PL+G  ++   PS+
		Sbjct: 64  RLTTTSLSAQLRSMVHVHVASVDQLTYEEFIRSIPTPSTLAVITMDPLKGNAVLEVDPSI 123
		
		Query: 138 VFIAVDNLFGGDGRFPTKVEGREFTHTEQRVINRMLKLALEGYSDAWKAINPLEVEYVRS 197
		            F  +D LFGG G+   KV+ R+ T  E  V+  ++   L    ++W  +  L     + 
		Sbjct: 124 TFSIIDRLFGGTGQ-AAKVQ-RDLTDIENSVMEGVIVRILANVRESWTQVIDLRPRLGQI 181
		
		Query: 198 EMQVKFTNITTSPNDIVVNTPFHVEIGNLTGEFNICLPFSMIEPLRELLVNPPLENS--R 255
		           E   +F  I   P+++VV      ++G   G  N C+P+  IEP+   L +    +S  R
		Sbjct: 182 ETNPQFAQI-VPPSEMVVLVTLETKVGEEEGMMNFCIPYITIEPIISKLSSQFWFSSVRR 240
		
		Query: 256 NEDQNWRDNLVRQVQHSQLELVANFADISLRLSQILKLKPGDVLPIEKP---DRIIAHVD 312
		           +    +   L  ++    +++VA    + L +  IL L+ GD++ +      D  +  + 
		Sbjct: 241 SSTTQYMGVLRDKLSTVDMDVVAEVGSLRLSVRDILGLRVGDIIRLHDTHVGDPFVLSIG 300
		
		Query: 313 GVPVLTSQYGTLNGQYALRIEHLI 336
		                  Q G +  + A +I   I
		Sbjct: 301 NRKKFLCQPGVVGKKIAAQILERI 324
		
		
	2298#c2363	FLGMOTORFLIN#Flagellar motor switch protein FliN signature.	209	2e-73
		>FLGMOTORFLIN#Flagellar motor switch protein FliN signature.
		          Length = 137
		
		 Score =  209 bits (534), Expect = 2e-73
		 Identities = 124/137 (90%), Positives = 132/137 (96%)
		
		Query: 1   MSDMNNPADDNNGAMDDLWAEALSEQKSTSGKSATDAVFQQFGGGDVSGTLQDIDLIMDI 60
		           MSDMNNP+D+N GA+DDLWA+AL+EQK+T+ KSA DAVFQQ GGGDVSG +QDIDLIMDI
		Sbjct: 1   MSDMNNPSDENTGALDDLWADALNEQKATTTKSAADAVFQQLGGGDVSGAMQDIDLIMDI 60
		
		Query: 61  PVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGV 120
		           PVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGV
		Sbjct: 61  PVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGV 120
		
		Query: 121 RITDIITPSERMRRLSR 137
		           RITDIITPSERMRRLSR
		Sbjct: 121 RITDIITPSERMRRLSR 137
		
		
	2300#c2365	FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein Fl...	333	e-119
		>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP
		           signature.
		          Length = 245
		
		 Score =  333 bits (856), Expect = e-119
		 Identities = 244/245 (99%), Positives = 244/245 (99%)
		
		Query: 1   MRRLFSVAPVLLWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLM 60
		           MRRL SVAPVLLWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLM
		Sbjct: 1   MRRLLSVAPVLLWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLM 60
		
		Query: 61  MTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEK 120
		           MTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEK
		Sbjct: 61  MTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEK 120
		
		Query: 121 ISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTSELK 180
		           ISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTSELK
		Sbjct: 121 ISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTSELK 180
		
		Query: 181 TAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSLA 240
		           TAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSLA
		Sbjct: 181 TAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSLA 240
		
		Query: 241 QSFYS 245
		           QSFYS
		Sbjct: 241 QSFYS 245
		
		
	2301#c2366	TYPE3IMQPROT#Type III secretion system inner membrane Q protein ...	67	1e-18
		>TYPE3IMQPROT#Type III secretion system inner membrane Q protein
		          family signature.
		          Length = 86
		
		 Score = 67.1 bits (164), Expect = 1e-18
		 Identities = 22/78 (28%), Positives = 42/78 (53%)
		
		Query: 4  ESVMMMGTEAMKVALALAAPLLLVALVTGLIISILQAATQINEMTLSFIPKIIAVFIAII 63
		          + ++  G +A+ + L L+    +VA + GL++ + Q  TQ+ E TL F  K++ V + + 
		Sbjct: 2  DDLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLF 61
		
		Query: 64 IAGPWMLNLLLDYVRTLF 81
		          +   W   +LL Y R + 
		Sbjct: 62 LLSGWYGEVLLSYGRQVI 79
		
		
	2302#c2367	TYPE3IMRPROT#Type III secretion system inner membrane R protein ...	202	6e-67
		>TYPE3IMRPROT#Type III secretion system inner membrane R protein
		           family signature.
		          Length = 261
		
		 Score =  202 bits (516), Expect = 6e-67
		 Identities = 256/261 (98%), Positives = 259/261 (99%)
		
		Query: 1   MMQVTSDQWLSWLSLYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPA 60
		           M+QVTS+QWLSWL+LYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPA
		Sbjct: 1   MLQVTSEQWLSWLNLYFWPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPA 60
		
		Query: 61  NDVPVFSFFALWLAVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPGSHL 120
		           NDVPVFSFFALWLAVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDP SHL
		Sbjct: 61  NDVPVFSFFALWLAVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPASHL 120
		
		Query: 121 NMPVLARIMDMLALLLFLTFNGHLWLISLLVDTFHTLPIGSEPLNSNAFLALTKAGSLIF 180
		           NMPVLARIMDMLALLLFLTFNGHLWLISLLVDTFHTLPIG EPLNSNAFLALTKAGSLIF
		Sbjct: 121 NMPVLARIMDMLALLLFLTFNGHLWLISLLVDTFHTLPIGGEPLNSNAFLALTKAGSLIF 180
		
		Query: 181 LNGLMLALPLITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFC 240
		           LNGLMLALPLITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFC
		Sbjct: 181 LNGLMLALPLITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGISLMAALMPLIAPFC 240
		
		Query: 241 EHLFSEIFNLLADIISELPLI 261
		           EHLFSEIFNLLADIISELPLI
		Sbjct: 241 EHLFSEIFNLLADIISELPLI 261
		
		
c2380	c2387	N	Y	N	c2365	c2404
	c2380	-2	14	-2.669061	DNA-cytosine methyltransferase
	c2381	-3	22	-6.295698	Hypothetical protein yedJ
	c2382	-1	29	-7.909471	Hypothetical protein yedR
	c2383	-1	30	-8.477498	Outer membrane protein N precursor
	c2384	-2	27	-6.477051	Hypothetical protein
	c2385	-1	26	-6.033135	Protein yedU
	c2386	0	30	-7.413496	Putative sensor-like histidine kinase yedV
	c2387	0	24	-4.905275	Probable transcriptional Regulatory protein
	2315#c2380	PF05272#Virulence-associated E family protein	29	0.045
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 29.3 bits (65), Expect = 0.045
		 Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 15/62 (24%)
		
		Query: 320 AKYILTPVLWKYLYRYAKKHQARGNGFGYGMVYPNNPQSVTRTLSARYYKDGAEILIDRG 379
		           A+Y + PVLW Y+ R+ K   + G+      VY            +R  +DG+E    RG
		Sbjct: 166 ARYQVGPVLWGYVVRFIK---SDGDKLTLPYVY------------SRSQRDGSEAWKWRG 210
		
		Query: 380 WD 381
		           WD
		Sbjct: 211 WD 212
		
		
	2316#c2381	CARBMTKINASE#Bacterial carbamate kinase signature.	35	2e-04
		>CARBMTKINASE#Bacterial carbamate kinase signature.
		          Length = 314
		
		 Score = 34.8 bits (80), Expect = 2e-04
		 Identities = 22/92 (23%), Positives = 36/92 (39%), Gaps = 9/92 (9%)
		
		Query: 46  AQKLAADDDVDMLVILTACYFHDIVSLAKNHPQRQRSSILAAEETRRLLREEFVQFPA-- 103
		            +KLA + + D+ +ILT     +  +L     + Q    +  EE R+   E    F A  
		Sbjct: 219 GEKLAEEVNADIFMILTDV---NGAALYYGTEKEQWLREVKVEELRKYYEEG--HFKAGS 273
		
		Query: 104 --EKIEAVCHAIAAHSFSAQIAPLTTEAKIVQ 133
		              K+ A    I      A IA L    + ++
		Sbjct: 274 MGPKVLAAIRFIEWGGERAIIAHLEKAVEALE 305
		
		
	2318#c2383	ECOLIPORIN#E.coli/Salmonella-type porin signature.	418	e-148
		>ECOLIPORIN#E.coli/Salmonella-type porin signature.
		          Length = 383
		
		 Score =  418 bits (1075), Expect = e-148
		 Identities = 199/388 (51%), Positives = 249/388 (64%), Gaps = 41/388 (10%)
		
		Query: 24  MKRKVLAMLVPALLVAGAANAAEIYNKNGNKVELYGKMVGERILTDRENGEKGDNSQDTS 83
		           MKRKVLA+++PALL AGAA+AAEIYNK+GNK++LYGK+ G    +D ++ + GD     +
		Sbjct: 1   MKRKVLALVIPALLAAGAAHAAEIYNKDGNKLDLYGKVDGLHYFSD-DSSKDGD----QT 55
		
		Query: 84  YARVGVKGETQINPELTGYGQFELDLEASNRHNPDQ---TRLAYAGLSYKDFGSFDYGRN 140
		           Y RVG KGETQIN +LTGYGQ+E +++A+          TRLA+AGL + D+GSFDYGRN
		Sbjct: 56  YMRVGFKGETQINDQLTGYGQWEYNVQANTTEGEGANSWTRLAFAGLKFGDYGSFDYGRN 115
		
		Query: 141 VGVAYDAEAFTDMFVEWGGDSWAGTDLFMTNRTNGVATYRNTDFFGMVEGLNFALQYQGK 200
		            GV YD E +TDM  E+GGDS+   D +MT R NGVATYRNTDFFG+V+GLNFALQYQGK
		Sbjct: 116 YGVLYDVEGWTDMLPEFGGDSYTYADNYMTGRANGVATYRNTDFFGLVDGLNFALQYQGK 175
		
		Query: 201 NEGTGNY----------------KANGDGHGLSATYTID-GFSFAGAYANSDRTDWQSGD 243
		           NE                       NGDG G+S TY I  GFS   AY  SDRT+ Q   
		Sbjct: 176 NESQSADDVNIGTNNRNNGDDIRYDNGDGFGISTTYDIGMGFSAGAAYTTSDRTNEQVNA 235
		
		Query: 244 GK----GERAEVWALSTKYDANNVYAAVMYGESHNM-------NSDDGDVVNKTQNFEAV 292
		           G     G++A+ W    KYDANN+Y A MY E+ NM          DG V NKTQNFE  
		Sbjct: 236 GGTIAGGDKADAWTAGLKYDANNIYLATMYSETRNMTPYGKTDKGYDGGVANKTQNFEVT 295
		
		Query: 293 LQYQFDFGLRPSIGYSYSKALDVA----GYKDSDRLNYIEIGTWYYFNKNMNVYTAYQIN 348
		            QYQFDFGLRP++ +  SK  D+        D D + Y ++G  YYFNKN + Y  Y+IN
		Sbjct: 296 AQYQFDFGLRPAVSFLMSKGKDLTYNNVNGDDKDLVKYADVGATYYFNKNFSTYVDYKIN 355
		
		Query: 349 LLDKSD-YVLAHGLNTDDQLAVGIVYQF 375
		           LLD  D +    G++TDD +A+G+VYQF
		Sbjct: 356 LLDDDDPFYKDAGISTDDIVALGMVYQF 383
		
		
	2321#c2386	PF06580#Sensor histidine kinase	39	4e-05
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 38.7 bits (90), Expect = 4e-05
		 Identities = 38/195 (19%), Positives = 74/195 (37%), Gaps = 34/195 (17%)
		
		Query: 261 TLSQIRSIAEYQKTIAGN-IEELENISRLTENILFLARADKNNVLVKLDALSLNKEVENL 319
		            L+ IR++     T A   +  L  + R +     L  ++   V       SL  E+  +
		Sbjct: 178 ALNNIRALILEDPTKAREMLTSLSELMRYS-----LRYSNARQV-------SLADELTVV 225
		
		Query: 320 LDYL--EYLSDEKEIRFKVECNQQIFADKI---LLQRMLSNLIVNAIRYSPEKSRIHITS 374
		             YL    +  E  ++F+ + N  I   ++   L+Q ++ N I + I   P+  +I +  
		Sbjct: 226 DSYLQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKG 285
		
		Query: 375 FLDANGSLNIDIASPGTKINEPEKLFRRFWRGDNSRHSVGQGLGLSLVKA-IAELHGGSA 433
		             D NG++ +++ + G+   +  K                 G GL  V+  +  L+G  A
		Sbjct: 286 TKD-NGTVTLEVENTGSLALKNTKE--------------STGTGLQNVRERLQMLYGTEA 330
		
		Query: 434 TYHYLSKHNVFRITL 448
		                 K       +
		Sbjct: 331 QIKLSEKQGKVNAMV 345
		
		
	2322#c2387	HTHFIS#FIS bacterial regulatory protein HTH signature.	84	9e-21
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 84.5 bits (209), Expect = 9e-21
		 Identities = 30/117 (25%), Positives = 60/117 (51%), Gaps = 1/117 (0%)
		
		Query: 39  KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQ 98
		            IL+ +D+   +  + Q LS AGY +   S+           D  L++ D+++P  + + 
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 99  ILQTLRTA-KQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ 154
		           +L  ++ A    PV+ ++A+++    ++  + GA DYL KPF  +EL+  +   L +
		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121
		
		
c2437	c2443	N	Y	N	c2422	c2461
	c2437	1	30	-6.197999	Hypothetical protein
	c2438	-2	27	-4.372258	Hypothetical protein
	c2439	-2	25	-3.957230	Hypothetical protein
	c2440	-3	30	-5.664592	Hypothetical protein
	c2441	-2	30	-5.234805	Hypothetical protein
	c2442	-3	26	-4.431699	Hypothetical protein
	c2443	-2	25	-3.288442	Shikimate transporter
	2372#c2437	INTIMIN#Intimin signature.	75	2e-17
		>INTIMIN#Intimin signature.
		          Length = 939
		
		 Score = 75.5 bits (185), Expect = 2e-17
		 Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
		
		Query: 181 QQIASTSQLIGSLLAEDMNSEQAANIARGWASSQASGVMTDWLSRFGTARITLGVDEDFS 240
		           QQ AS    + S     +N + A + A G A +QAS  +  WL  +GTA + L    +F 
		Sbjct: 168 QQAASLGSQLQS---RSLNGDYAKDTALGIAGNQASSQLQAWLQHYGTAEVNLQSGNNFD 224
		
		
	2374#c2439	INTIMIN#Intimin signature.	55	3e-10
		>INTIMIN#Intimin signature.
		          Length = 939
		
		 Score = 55.5 bits (133), Expect = 3e-10
		 Identities = 62/263 (23%), Positives = 91/263 (34%), Gaps = 20/263 (7%)
		
		Query: 175 IAVKAHVNDQFGNPVTHQPATFSAAPSSQMIISQNTVSTNTQGVAEVTMTPERNGSYTVK 234
		           I   A V    G    + P +F+   S   ++S N+ +TN  G A VT+  ++ G   V 
		Sbjct: 578 ITYTATVKKN-GVAQANVPVSFNIV-SGTAVLSANSANTNGSGKATVTLKSDKPGQVVVS 635
		
		Query: 235 ASLANGASLEKQLEAI---DEKLTLTSSPLIGVNAPKGATLTATLT---SANGTPVEGQV 288
		           A  A   S       I     K ++T        A        T T        PV  Q 
		Sbjct: 636 AKTAEMTSALNANAVIFVDQTKASITEIKADKTTAVANGQDAITYTVKVMKGDKPVSNQE 695
		
		Query: 289 INFSVTLEGATLSGGKVRTNSSGQAPVVLTSNKVGTYTVTASFHNGVTIQTQTTVKVTGN 348
		           + F+ TL    LS    +T+++G A V LTS   G   V+A   +         V+    
		Sbjct: 696 VTFTTTL--GKLSNSTEKTDTNGYAKVTLTSTTPGKSLVSARVSDVAVDVKAPEVEFFTT 753
		
		Query: 349 PSTAHVASFIADPSTIAATNSDLSTLKATVEDGSGNL-IEGPTVYFALKSGSTTLTSLTA 407
		            +             I  T          ++ G  NL   G    +  +S +  + S   
		Sbjct: 754 LTID------DGNIEIVGTGVKGKLPTVWLQYGQVNLKASGGNGKYTWRSANPAIAS--- 804
		
		Query: 408 VTDQNGIATTSVKGEITGSVTVS 430
		           V   +G  T   KG  T SV  S
		Sbjct: 805 VDASSGQVTLKEKGTTTISVISS 827
		
		
		
		 Score = 52.8 bits (126), Expect = 2e-09
		 Identities = 46/170 (27%), Positives = 65/170 (38%), Gaps = 7/170 (4%)
		
		Query: 271 TLTATLTSANGTPVEGQVINFSVTLEGATLSGGKVRTNSSGQAPVVLTSNKVGTYTVTAS 330
		           T TAT+   NG       ++F++    A LS     TN SG+A V L S+K G   V+A 
		Sbjct: 579 TYTATVKK-NGVAQANVPVSFNIVSGTAVLSANSANTNGSGKATVTLKSDKPGQVVVSAK 637
		
		Query: 331 FHNGV-TIQTQTTVKVTGNPSTAHVASFIADPSTIAATNSDLSTLKATVEDGSGNLIEGP 389
		                  +     + V    + A +    AD +T  A   D  T    V  G    +   
		Sbjct: 638 TAEMTSALNANAVIFVDQ--TKASITEIKADKTTAVANGQDAITYTVKVMKG-DKPVSNQ 694
		
		Query: 390 TVYFALKSGSTTLTSLTAVTDQNGIATTSVKGEITGSVTVSAVTSAGGMQ 439
		            V F    G  + +  T  TD NG A  ++     G   VSA  S   + 
		Sbjct: 695 EVTFTTTLGKLSNS--TEKTDTNGYAKVTLTSTTPGKSLVSARVSDVAVD 742
		
		
		
		 Score = 51.2 bits (122), Expect = 7e-09
		 Identities = 51/233 (21%), Positives = 89/233 (38%), Gaps = 16/233 (6%)
		
		Query: 13  AVTDADGKAKVTLKGTKAGAHTVTASMVGGKS--EQLVVNFTADTLTAQVNLNVTEDNFI 70
		           A T+  GKA VTLK  K G   V+A      S      V F   T  +   +   +   +
		Sbjct: 612 ANTNGSGKATVTLKSDKPGQVVVSAKTAEMTSALNANAVIFVDQTKASITEIKADKTTAV 671
		
		Query: 71  ANNIGMTRLQATVTDGNGNPVEGIKVNFRGTSVTLSSTSVETDDQVFAEILVTSTEVGLK 130
		           AN          V      PV   +V F  T   LS+++ +TD   +A++ +TST  G  
		Sbjct: 672 ANGQDAITYTVKVMK-GDKPVSNQEVTFTTTLGKLSNSTEKTDTNGYAKVTLTSTTPGKS 730
		
		Query: 131 TVSASLADKPTEVISRLLN----AKVDVNSATI----TSQEIPEGQVMVAQDIAVKAHVN 182
		            VSA ++D   +V +  +       +D  +  I       ++P   +   Q     +  N
		Sbjct: 731 LVSARVSDVAVDVKAPEVEFFTTLTIDDGNIEIVGTGVKGKLPTVWLQYGQVNLKASGGN 790
		
		Query: 183 DQFGNPVTHQPATFSAAPSSQMIISQNTVSTNTQGVAEVTMTPERNGSYTVKA 235
		            ++     +       A S Q+ + +   +T +     V  +  +  +YT+  
		Sbjct: 791 GKYTWRSANPAIASVDASSGQVTLKEKGTTTIS-----VISSDNQTATYTIAT 838
		
		
		
		 Score = 40.1 bits (93), Expect = 2e-05
		 Identities = 35/213 (16%), Positives = 63/213 (29%), Gaps = 18/213 (8%)
		
		Query: 4   NFTLSDGDKAVTDADGKAKVTLKGTKAGAHTVTASMVGGKSE--QLVVNFTADTLTAQVN 61
		                      TD +G AKVTL  T  G   V+A +     +     V F         N
		Sbjct: 701 TLGKLSNSTEKTDTNGYAKVTLTSTTPGKSLVSARVSDVAVDVKAPEVEFFTTLTIDDGN 760
		
		Query: 62  LNVTEDNFIANNIGMTRLQATVTDGNGN-PVEGIKVNFRGTSVTLSSTSVETDDQVFAEI 120
		           + +     +   +        +  G  N    G    +   S   +  SV+         
		Sbjct: 761 IEI-----VGTGVKGKLPTVWLQYGQVNLKASGGNGKYTWRSANPAIASVDASSGQ---- 811
		
		Query: 121 LVTSTEVGLKTVSASLADKPTEVISRLLNAKVDVNSATITSQEIPEGQVMVAQDIAVKAH 180
		            VT  E G  T+S   +D  T   +  +     +    ++ +      V   ++      
		Sbjct: 812 -VTLKEKGTTTISVISSDNQT--ATYTIATPNSLIVPNMSKRVTYNDAVNTCKNFGG--- 865
		
		Query: 181 VNDQFGNPVTHQPATFSAAPSSQMIISQNTVST 213
		                 N + +    + AA   +   S  T+ +
		Sbjct: 866 KLPSSQNELENVFKAWGAANKYEYYKSSQTIIS 898
		
		
	2375#c2440	INTIMIN#Intimin signature.	28	0.022
		>INTIMIN#Intimin signature.
		          Length = 939
		
		 Score = 27.7 bits (61), Expect = 0.022
		 Identities = 22/129 (17%), Positives = 46/129 (35%), Gaps = 6/129 (4%)
		
		Query: 11  KISAIDYSQNINGDYKATVTGGGEGIATLIPVLNGVHQAGLSTTIEFISAETRPMTGTVS 70
		           K+S      + NG  K T+T    G + +   ++ V     +  +EF         G + 
		Sbjct: 704 KLSNSTEKTDTNGYAKVTLTSTTPGKSLVSARVSDVAVDVKAPEVEFF-TTLTIDDGNIE 762
		
		Query: 71  VNSANLPTASFPSQGFTGAYYQLNNDNFAPGKTAADYSFSSSASWVGVDATGKVTFKNDG 130
		           +    +     P+         L     + G     +  ++ A      ++G+VT K  G
		Sbjct: 763 IVGTGV-KGKLPTVWLQYGQVNL---KASGGNGKYTWRSANPAIASVDASSGQVTLKEKG 818
		
		Query: 131 DSNTVIITA 139
		            + T+ + +
		Sbjct: 819 -TTTISVIS 826
		
		
	2378#c2443	TCRTETB#Tetracycline resistance protein TetB signature.	33	0.002
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 33.3 bits (76), Expect = 0.002
		 Identities = 39/259 (15%), Positives = 96/259 (37%), Gaps = 18/259 (6%)
		
		Query: 79  LGGVIFGHFGDRLGRKRMLMLTVWMMGIATALIGILPSFSTIGWWAPILLVTLRAIQGFA 138
		           +G  ++G   D+LG KR+L+  + +    + +  +  SF ++     I+   ++     A
		Sbjct: 64  IGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSL----LIMARFIQGAGAAA 119
		
		Query: 139 VGGEWGGAALLSVESAPKNKK-AFYSSGVQVGYGVGLLLSTGLVSLISMMTTDEQFLSWG 197
		                       +    + K      S V +G GVG  +   +   I             
		Sbjct: 120 FPALVMVVVARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYI------------H 167
		
		Query: 198 WRIPFLFSIVLVLGALWVRNGMEESAEFEQQQHNQAAAKKRIPVIEALLRHPGAFLKIIA 257
		           W    L  ++ ++   ++   +++    +     +      + ++  +L      +  + 
		Sbjct: 168 WSYLLLIPMITIITVPFLMKLLKKEVRIKGHFDIKGIILMSVGIVFFMLFTTSYSISFLI 227
		
		Query: 258 LRLCELLTMYIVTAFALNYSTQNMGLPRELFLNIGLLVGGLSCLTIPCFAWLADRFGRRR 317
		           + +   L +++     +     + GL + +   IG+L GG+   T+  F  +     +  
		Sbjct: 228 VSVLSFL-IFVKHIRKVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDV 286
		
		Query: 318 VYITGALIGTLSAFPFFMA 336
		             ++ A IG++  FP  M+
		Sbjct: 287 HQLSTAEIGSVIIFPGTMS 305
		
		
c2596	c2605	N	Y	N	c2581	c2620
	c2596	-3	12	2.716228	Hypothetical chaperone protein yegD
	c2597	-3	12	3.088008	Hypothetical protein yegI
	c2598	-3	16	3.805905	Hypothetical protein yegK
	c2599	-3	16	3.811782	Hypothetical protein yegL
	c2600	-2	17	3.894588	Hypothetical protein yegM precursor
	c2601	-2	18	3.860459	Hypothetical protein yegN
	c2602	-2	15	2.620287	Hypothetical protein yegO
	c2603	-2	13	-2.841182	Hypothetical transport protein yegB
	c2604	-1	21	-5.561590	Sensor protein baeS
	c2605	-1	31	-9.057045	Transcriptional Regulatory protein baeR
	2527#c2596	SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein s...	49	1e-08
		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein
		           signature.
		          Length = 347
		
		 Score = 49.4 bits (118), Expect = 1e-08
		 Identities = 32/129 (24%), Positives = 58/129 (44%), Gaps = 20/129 (15%)
		
		Query: 153 AMMLH-IRQQAQAQLPEAITQAVIGRPINFQGLGGDEANTQAQGILERAAKRAGFKDVVF 211
		            M+ H I+Q           + ++  P+    +       + + I E +A+ AG ++V  
		Sbjct: 89  KMLQHFIKQVHSNSFMRPSPRVLVCVPVGATQV-------ERRAIRE-SAQGAGAREVFL 140
		
		Query: 212 QYEPVAAGLDYEATLQEEKRVLVVDIGGGTTDCSLLLMGPQWRSRLDREASLLGHSGCRI 271
		             EP+AA +     + E    +VVDIGGGTT+ +++ +             ++  S  RI
		Sbjct: 141 IEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLN-----------GVVYSSSVRI 189
		
		Query: 272 GGNDLDIAL 280
		           GG+  D A+
		Sbjct: 190 GGDRFDEAI 198
		
		
		
		 Score = 36.7 bits (85), Expect = 1e-04
		 Identities = 33/137 (24%), Positives = 56/137 (40%), Gaps = 23/137 (16%)
		
		Query: 353 RLSYRLV---RSAEESKIALSSV--AETRASLPFISDELAT------LISQQGLESALSQ 401
		           R +Y  +    +AE  K  + S    +    +      LA        ++   +  AL +
		Sbjct: 203 RRNYGSLIGEATAERIKHEIGSAYPGDEVREIEVRGRNLAEGVPRGFTLNSNEILEALQE 262
		
		Query: 402 PLARILEQVQLALDNAQEKPDV--------IYLTGGSARSPLIKKALAEQLPGIPVAGGD 453
		           PL  I+  V +AL+  Q  P++        + LTGG A    + + L E+  GIPV   +
		Sbjct: 263 PLTGIVSAVMVALE--QCPPELASDISERGMVLTGGGALLRNLDRLLMEET-GIPVVVAE 319
		
		Query: 454 D-FGSVTAGLARWAEVV 469
		           D    V  G  +  E++
		Sbjct: 320 DPLTCVARGGGKALEMI 336
		
		
	2531#c2600	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	52	4e-09
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 51.8 bits (124), Expect = 4e-09
		 Identities = 48/369 (13%), Positives = 106/369 (28%), Gaps = 87/369 (23%)
		
		Query: 53  SYKSRWVIVIVVVIAAIAAFWFWQGRNDSQSAAPG-----ATKQAQQSPAGG-------R 100
		           S + R V   ++    IA      G+ +  + A G        +  +            +
		Sbjct: 54  SRRPRLVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVK 113
		
		Query: 101 RGMRA---DPLA---PVQAATAVEQAVPRYLTGLGTITAANTVTVRSRVDG--QLMALHF 152
		            G      D L     + A     +     L      T    ++    ++   +L     
		Sbjct: 114 EGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDE 173
		
		Query: 153 QEGQQVKAGDLLAEI------------DPSQFKVALAQAQGQLA-------KDKATLANA 193
		              Q V   ++L                  Q ++ L + + +         + +      
		Sbjct: 174 PYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVE 233
		
		Query: 194 RRDLARYQQLAKTNLVSRQELDAQQALVSETEGTIKADEASVA----------------- 236
		           +  L  +  L     +++  +  Q+    E    ++  ++ +                  
		Sbjct: 234 KSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVT 293
		
		Query: 237 --------------------------SAQLQLDWSRITAPVDGRV-GLKQVDVGNQISSG 269
		                                       + +   S I APV  +V  LK    G  +++ 
		Sbjct: 294 QLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTA 353
		
		Query: 270 DTTGIVVITQTHPIDLVFTLPESDIATVVQAQKAGKPLVVEAWDRTNSKKL-SEGTLLSL 328
		           +T  +V++ +   +++   +   DI  +   Q A   + VEA+  T    L  +   ++L
		Sbjct: 354 ETL-MVIVPEDDTLEVTALVQNKDIGFINVGQNA--IIKVEAFPYTRYGYLVGKVKNINL 410
		
		Query: 329 DNQIDATTG 337
		           D   D   G
		Sbjct: 411 DAIEDQRLG 419
		
		
	2532#c2601	ACRIFLAVINRP#Acriflavin resistance protein family signature.	920	0.0
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score =  920 bits (2379), Expect = 0.0
		 Identities = 300/1036 (28%), Positives = 513/1036 (49%), Gaps = 29/1036 (2%)
		
		Query: 13   SRLFIMRPVATTLLMVAILLAGIIGYRALPVSALPEVDYPTIQVVTLYPGASPDVMTSAV 72
		            +  FI RP+   +L + +++AG +    LPV+  P +  P + V   YPGA    +   V
		Sbjct: 2    ANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTV 61
		
		Query: 73   TAPLERQFGQMSGLKQMSSQS-SGGASVITLQFQLTLPLDVAEQEVQAAINAATNLLPSD 131
		            T  +E+    +  L  MSS S S G+  ITL FQ     D+A+ +VQ  +  AT LLP +
		Sbjct: 62   TQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQE 121
		
		Query: 132  LPNPPVYSKVNPADPPIMTLAVTSTAMPMTQVE--DMVETRVAQKISQISGVGLVTLSGG 189
		            +    + S    +   +M     S     TQ +  D V + V   +S+++GVG V L G 
		Sbjct: 122  VQQQGI-SVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA 180
		
		Query: 190  QRPAVRVKLNAQAIAALGLTSETVRTAITGANVNSAKGSLDGP------SRAVTLSANDQ 243
		            Q  A+R+ L+A  +    LT   V   +   N   A G L G           ++ A  +
		Sbjct: 181  QY-AMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 239
		
		Query: 244  MQSAEEYRQLII-AYQNGAPIRLGDVATVEQGAENSWLGAWANKEQAIVMNVQRQPGANI 302
		             ++ EE+ ++ +    +G+ +RL DVA VE G EN  + A  N + A  + ++   GAN 
		Sbjct: 240  FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANA 299
		
		Query: 303  ISTADSIRQMLPQLTESLPKSVKVTVLSDRTTNIRASVDDTQFELMMAIALVVMIIYLFL 362
		            + TA +I+  L +L    P+ +KV    D T  ++ S+ +    L  AI LV +++YLFL
		Sbjct: 300  LDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFL 359
		
		Query: 363  RNIPATIIPGVAVPLSLIGTFAVMVFLDFSINNLTLMALTIATGFVVDDAIVVIENISRY 422
		            +N+ AT+IP +AVP+ L+GTFA++    +SIN LT+  + +A G +VDDAIVV+EN+ R 
		Sbjct: 360  QNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERV 419
		
		Query: 423  I-EKGEKPLAAALKGAGEIGFTIISLTFSLIAVLIPLLFMGDIVGRLFREFAITLAVAIL 481
		            + E    P  A  K   +I   ++ +   L AV IP+ F G   G ++R+F+IT+  A+ 
		Sbjct: 420  MMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMA 479
		
		Query: 482  ISAVVSLTLTPMMCARML---SQESLRKQNRFSRASEKMFDRIIAAYGRGLAKVLNHPWL 538
		            +S +V+L LTP +CA +L   S E    +  F       FD  +  Y   + K+L     
		Sbjct: 480  LSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGR 539
		
		Query: 539  TLSVALSTLLLSVLLWVFIPKGFFPVQDNGIIQGTLQAPQSSSFANMAQRQRQVADVILQ 598
		             L +    +   V+L++ +P  F P +D G+    +Q P  ++     +   QV D  L+
		Sbjct: 540  YLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLK 599
		
		Query: 599  DPA--VQSLTSFVGVDGTNPSLNSARLQINLKPLDERDDR---VQKVIARLQTAVDKVPG 653
		            +    V+S+ +  G   +  + N+    ++LKP +ER+      + VI R +  + K+  
		Sbjct: 600  NEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIR- 658
		
		Query: 654  VDLFLQPTQDLTIDTQVSRTQYQFTLQ---ATSLDALSTWVPQLMEKLQQLP-QLSDVSS 709
		             D F+ P     I    + T + F L        DAL+    QL+    Q P  L  V  
		Sbjct: 659  -DGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRP 717
		
		Query: 710  DWQDKGLVAYVNVDRDSASRLGISMADVDNALYNAFGQRLISTIYTQANQYRVVLEHNTE 769
		            +  +      + VD++ A  LG+S++D++  +  A G   ++    +    ++ ++ + +
		Sbjct: 718  NGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAK 777
		
		Query: 770  NTPGLAALDTIRLTSSDGGVVPLSSIAKIEQRFAPLSINHLDQFPVTTISFNVPDNYSLG 829
		                   +D + + S++G +VP S+       +    +   +  P   I        S G
		Sbjct: 778  FRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSG 837
		
		Query: 830  DAVQAIMDTEKTLNLPVDITTQFQGSTLAFQSALGSTVWLIVAAVVAMYIVLGILYESFI 889
		            DA  A+M+   +  LP  I   + G +   + +      L+  + V +++ L  LYES+ 
		Sbjct: 838  DA-MALMENLAS-KLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWS 895
		
		Query: 890  HPITILSTLPTAGVGALLALMIAGSELDVIAIIGIILLIGIVKKNAIMMIDFALAAEREQ 949
		             P++++  +P   VG LLA  +   + DV  ++G++  IG+  KNAI++++FA     ++
		Sbjct: 896  IPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKE 955
		
		Query: 950  GMSPREAIYQACLLRFRPILMTTLAALLGALPLMLSTGVGAELRRPLGIGMVGGLIVSQV 1009
		            G    EA   A  +R RPILMT+LA +LG LPL +S G G+  +  +GIG++GG++ + +
		Sbjct: 956  GKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATL 1015
		
		Query: 1010 LTLFTTPVIYLLFDRL 1025
		            L +F  PV +++  R 
		Sbjct: 1016 LAIFFVPVFFVVIRRC 1031
		
		
	2533#c2602	ACRIFLAVINRP#Acriflavin resistance protein family signature.	915	0.0
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score =  915 bits (2367), Expect = 0.0
		 Identities = 288/1035 (27%), Positives = 503/1035 (48%), Gaps = 36/1035 (3%)
		
		Query: 6    LFIYRPVATILLSVAITLCGILGFRMLPVAPLPQVDFPVIMVSASLPGASPETMASSVAT 65
		             FI RP+   +L++ + + G L    LPVA  P +  P + VSA+ PGA  +T+  +V  
		Sbjct: 4    FFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDTVTQ 63
		
		Query: 66   PLERSLGRIAGVSEMTSSS-SLGSTRIILQFDFDRDINGAARDVQAAINAAQSLLPSGMP 124
		             +E+++  I  +  M+S+S S GS  I L F    D + A   VQ  +  A  LLP  + 
		Sbjct: 64   VIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQEVQ 123
		
		Query: 125  SRPTYRKANPSDAPIMILTLTSDT--YSQGELYDFASTQLAPTISQIDGVGDVDVGGSSL 182
		             +        S + +M+    SD    +Q ++ D+ ++ +  T+S+++GVGDV + G+  
		Sbjct: 124  -QQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGAQY 182
		
		Query: 183  PAVRVGLNPQALFNQGVSLDDVRTAISNANVRKPQG------ALEDGTHRWQIQTNDELK 236
		             A+R+ L+   L    ++  DV   +   N +   G      AL        I      K
		Sbjct: 183  -AMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRFK 241
		
		Query: 237  TAAEYQPLIIHYN-NGGAVRLGDVATVTDSVQDVRNAGMTNAKPAILLMIRKLPEANIIQ 295
		               E+  + +  N +G  VRL DVA V    ++       N KPA  L I+    AN + 
		Sbjct: 242  NPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANALD 301
		
		Query: 296  TVDSIRARLPELQSTIPAAIDLQIAQDRSPTIRASLEEVEQTLIISVALVILVVFLFLRS 355
		            T  +I+A+L ELQ   P  + +    D +P ++ S+ EV +TL  ++ LV LV++LFL++
		Sbjct: 302  TAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQN 361
		
		Query: 356  GRATIIPAVAVPVSLIGTFAAMYLCGFSLNNLSLMALTIATGFVVDDAIVVLENIARHL- 414
		             RAT+IP +AVPV L+GTFA +   G+S+N L++  + +A G +VDDAIVV+EN+ R + 
		Sbjct: 362  MRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVMM 421
		
		Query: 415  EAGMKPLQAALQGTREVGFTVLSMSLSLVAVFLPLLLMGGLPGRLLREFAVTLSVAIGIS 474
		            E  + P +A  +   ++   ++ +++ L AVF+P+   GG  G + R+F++T+  A+ +S
		Sbjct: 422  EDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALS 481
		
		Query: 475  LLVSLTLTPMMCGWMLKASKPREQKRLRGFG----RMLVALQQGYGKSLKWVLNHTRLVG 530
		            +LV+L LTP +C  +LK       +   GF              Y  S+  +L  T    
		Sbjct: 482  VLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGRYL 541
		
		Query: 531  AVLLGTIALNIWLYISIPKTFFPEQDTGVLMGGIQADQSISFQ----AMRGKLQDFMKII 586
		             +    +A  + L++ +P +F PE+D GV +  IQ     + +     +      ++K  
		Sbjct: 542  LIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLKNE 601
		
		Query: 587  RD-DPAVDNVTGFT-GGSRVNSGMMFITLKPRGERS---ETAQQIIDRLRKKLAKEPGAN 641
		            +    +V  V GF+  G   N+GM F++LKP  ER+    +A+ +I R + +L K     
		Sbjct: 602  KANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIRDGF 661
		
		Query: 642  LFLMAVQDIRVGGRQANASYQYTLLSDDLAALREWEPKIRKKLATL-----PELADVNSD 696
		            +    +  I   G      ++   L D      +   + R +L  +       L  V  +
		Sbjct: 662  VIPFNMPAIVELGTATGFDFE---LIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPN 718
		
		Query: 697  QEDNGAEMNLIYDRDTMARLGIDVQAANSLLNNAFGQRQISTIYQPMNQYKVVMEVDPRY 756
		              ++ A+  L  D++    LG+ +   N  ++ A G   ++         K+ ++ D ++
		Sbjct: 719  GLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKF 778
		
		Query: 757  TQDISALEKMFVINNEGKAIPLSYFAKWQPANAPLSVNHQGLSAASTISFNLPTGKSLSD 816
		                  ++K++V +  G+ +P S F           +       +  I      G S  D
		Sbjct: 779  RMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGD 838
		
		Query: 817  ASAAIDRAMTQLGVPSTVRGSFAGTAQVFQETMNSQVILIIAAIATVYIVLGILYESYVH 876
		            A A ++   ++L  P+ +   + G +   + + N    L+  +   V++ L  LYES+  
		Sbjct: 839  AMALMENLASKL--PAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSI 896
		
		Query: 877  PLTILSTLPSAGVGALLALELFNAPFSLIALIGIMLLIGIVKKNAIMMVDFALEAQRHGN 936
		            P++++  +P   VG LLA  LFN    +  ++G++  IG+  KNAI++V+FA +      
		Sbjct: 897  PVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEG 956
		
		Query: 937  LTPQEAIFQACLLRFRPIMMTTLAALFGALPLVLSGGDGSELRQPLGITIVGGLVMSQLL 996
		                EA   A  +R RPI+MT+LA + G LPL +S G GS  +  +GI ++GG+V + LL
		Sbjct: 957  KGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLL 1016
		
		Query: 997  TLYTTPVVYLFFDRL 1011
		             ++  PV ++   R 
		Sbjct: 1017 AIFFVPVFFVVIRRC 1031
		
		
		
		 Score = 80.7 bits (199), Expect = 2e-17
		 Identities = 76/448 (16%), Positives = 161/448 (35%), Gaps = 26/448 (5%)
		
		Query: 592  VDNVTGFTGGS-RVNSGMMFITLKPRGERSETAQQIIDRLRKKLAKEPGANLFLMAVQDI 650
		            +DN+   +  S    S  + +T +   +      Q+ ++L+      P      +  Q I
		Sbjct: 72   IDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQE----VQQQGI 127
		
		Query: 651  RVGGRQANASYQYTLLSDDLAALREW-----EPKIRKKLATLPELADVNSDQEDNGAE-- 703
		             V    ++       +SD+    ++         ++  L+ L  + DV       GA+  
		Sbjct: 128  SVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQL----FGAQYA 183
		
		Query: 704  MNLIYDRDTMARLGID----VQAANSLLNNAFGQRQISTIYQPMNQYKVVMEVDPRYTQD 759
		            M +  D D + +  +     +       +     +   T   P  Q    +    R+   
		Sbjct: 184  MRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRFKNP 243
		
		Query: 760  ISALEKMFVINNEGKAIPLSYFAK--WQPANAPLSVNHQGLSAASTISFNLPTGKSLSDA 817
		                +    +N++G  + L   A+      N  +     G  AA           +L D 
		Sbjct: 244  EEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANAL-DT 302
		
		Query: 818  SAAIDRAMTQL--GVPSTVRGSFA-GTAQVFQETMNSQVILIIAAIATVYIVLGILYESY 874
		            + AI   + +L    P  ++  +   T    Q +++  V  +  AI  V++V+ +  ++ 
		Sbjct: 303  AKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQNM 362
		
		Query: 875  VHPLTILSTLPSAGVGALLALELFNAPFSLIALIGIMLLIGIVKKNAIMMVDFALEAQRH 934
		               L     +P   +G    L  F    + + + G++L IG++  +AI++V+        
		Sbjct: 363  RATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVMME 422
		
		Query: 935  GNLTPQEAIFQACLLRFRPIMMTTLAALFGALPLVLSGGDGSELRQPLGITIVGGLVMSQ 994
		              L P+EA  ++       ++   +      +P+   GG    + +   ITIV  + +S 
		Sbjct: 423  DKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMALSV 482
		
		Query: 995  LLTLYTTPVVYLFFDRLRLRFSRKPKQA 1022
		            L+ L  TP +     +       + K  
		Sbjct: 483  LVALILTPALCATLLKPVSAEHHENKGG 510
		
		
	2534#c2603	TCRTETB#Tetracycline resistance protein TetB signature.	126	9e-34
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score =  126 bits (317), Expect = 9e-34
		 Identities = 98/435 (22%), Positives = 191/435 (43%), Gaps = 25/435 (5%)
		
		Query: 20  FMQSLDTTIVNTALPSMAQSLGESPLHMHMVIVSYVLTVAVMLPASGWLADKVGVRNIFF 79
		           F   L+  ++N +LP +A    + P   + V  +++LT ++     G L+D++G++ +  
		Sbjct: 24  FFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLL 83
		
		Query: 80  TAIVLFTLGSLFCALSGTLNELL-LARALQGVGGAMMVPVGRLTVMKIVPREQYMAAMTF 138
		             I++   GS+   +  +   LL +AR +QG G A    +  + V + +P+E    A   
		Sbjct: 84  FGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKENRGKAFGL 143
		
		Query: 139 VTLPGQIGPLLGPALGGLLVEYASWHWIFLINIPVGIIGAITTLM-LMPNYTMQTRRFDL 197
		           +     +G  +GPA+GG++  Y   HW +L+ IP+  I  +  LM L+         FD+
		Sbjct: 144 IGSIVAMGEGVGPAIGGMIAHY--IHWSYLLLIPMITIITVPFLMKLLKKEVRIKGHFDI 201
		
		Query: 198 SGFLLLAVGMAVLTLALDGSKGTGFSPLAIAGLVAVGVVALVLYLLHAQNNNRALFSLKL 257
		            G +L++VG+    L         F+       + V V++ ++++ H +          L
		Sbjct: 202 KGIILMSVGIVFFML---------FTTSYSISFLIVSVLSFLIFVKHIRKVTDPFVDPGL 252
		
		Query: 258 FRTRTFSLGLAGSFAGRIGSGMLPFMTPVFLQIGFGFSPFHAG-LMMIPMVLGSMGMKRI 316
		            +   F +G+               M P  ++     S    G +++ P  +  +    I
		Sbjct: 253 GKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTMSVIIFGYI 312
		
		Query: 317 VVQVVNRFGYRRVLVATTLGLSLVTLLFMTTALL----GWYYVLPFVLFLQGMVNSTRFS 372
		              +V+R G   VL    +G++ +++ F+T + L     W+  +  V  L G+  S   +
		Sbjct: 313 GGILVDRRGPLYVL---NIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLGGL--SFTKT 367
		
		Query: 373 SMNTLTLKDLPDNLASSGNSLLSMIMQLSMSIGVTIAGLLLGLFGSQHVSVDSGTTQTVF 432
		            ++T+    L    A +G SLL+    LS   G+ I G LL +       +     Q+ +
		Sbjct: 368 VISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAIVGGLLSIPLLDQRLLPMEVDQSTY 427
		
		Query: 433 MYT--WLSMASIIAL 445
		           +Y+   L  + II +
		Sbjct: 428 LYSNLLLLFSGIIVI 442
		
		
	2535#c2604	BCTERIALGSPF#Bacterial general secretion pathway protein F signa...	34	0.001
		>BCTERIALGSPF#Bacterial general secretion pathway protein F
		           signature.
		          Length = 408
		
		 Score = 34.0 bits (78), Expect = 0.001
		 Identities = 28/95 (29%), Positives = 36/95 (37%), Gaps = 20/95 (21%)
		
		Query: 164 RQTSWLIVALSTLLAALATF------PLARGLLAPVKRLVDGTHKLAAGDFTTRVAPTSE 217
		           RQ + L+ A   L  AL         P    L+A V+  V   H LA      +  P S 
		Sbjct: 75  RQLATLVAASMPLEEALDAVAKQSEKPHLSQLMAAVRSKVMEGHSLAD---AMKCFPGSF 131
		
		Query: 218 DEL-----------GRLAEDFNQLASTLEKNQQMR 241
		           + L           G L    N+LA   E+ QQMR
		Sbjct: 132 ERLYCAMVAAGETSGHLDAVLNRLADYTEQRQQMR 166
		
		
	2536#c2605	HTHFIS#FIS bacterial regulatory protein HTH signature.	76	6e-18
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 75.6 bits (186), Expect = 6e-18
		 Identities = 28/136 (20%), Positives = 65/136 (47%), Gaps = 1/136 (0%)
		
		Query: 11  PRILIVEDEPKLGQLLIDYLRAASYAPTLISHGDQVLPYVRQTPPDLILLDLMLPGTDGL 70
		             IL+ +D+  +  +L   L  A Y   + S+   +  ++     DL++ D+++P  +  
		Sbjct: 4   ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63
		
		Query: 71  TLCREIR-RFSDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILRRCK 129
		            L   I+    D+P+++++A+   +  +   E GA DY+ KP+   E++  +   L   K
		Sbjct: 64  DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPK 123
		
		Query: 130 PQRELQQQDAESPLII 145
		            +    + D++  + +
		Sbjct: 124 RRPSKLEDDSQDGMPL 139
		
		
c2665	c2672	N	Y	N	c2650	c2689
	c2665	0	19	1.556463	Penicillin-binding protein 7 precursor
	c2666	1	19	2.655570	Hypothetical protein
	c2667	0	18	2.741638	Hypothetical protein yohC
	c2668	1	18	2.177783	Hypothetical protein yohD
	c2669	1	18	2.077375	Hypothetical protein
	c2670	0	16	2.113095	Putative conserved protein
	c2671	0	15	2.055580	Putative channel/filament proteins
	c2672	0	15	0.800942	Hypothetical protein yohI
	2596#c2665	BLACTAMASEA#Beta-lactamase class A signature.	44	5e-07
		>BLACTAMASEA#Beta-lactamase class A signature.
		          Length = 286
		
		 Score = 43.6 bits (103), Expect = 5e-07
		 Identities = 42/195 (21%), Positives = 76/195 (38%), Gaps = 18/195 (9%)
		
		Query: 4   MPKFRVSLFSLALMLAVPFAPQAVAKTAAATTASQPEIASGSAMI-VDLNTNKVIYSNHP 62
		           M   R+ + SL  +  +P A  A  +       S+ +++    MI +DL + + + +   
		Sbjct: 1   MRYIRLCIISL--LATLPLAVHASPQPLEQIKLSESQLSGRVGMIEMDLASGRTLTAWRA 58
		
		Query: 63  DLVRPIASISKLMTAMVVLDARLPLDEKLKVDISQTPEMKGVYSRV---RLNSEISRKDM 119
		           D   P+ S  K++    VL      DE+L+  I    +    YS V    L   ++  ++
		Sbjct: 59  DERFPMMSTFKVVLCGAVLARVDAGDEQLERKIHYRQQDLVDYSPVSEKHLADGMTVGEL 118
		
		Query: 120 LLLALMSSENRAAASLAHHYPGGYKAFIKAMNAKAKSLGMNNTRFV--EPTGLS-----V 172
		              A+  S+N +AA+L     GG       + A  + +G N TR    E           
		Sbjct: 119 CAAAITMSDN-SAANLLLATVGG----PAGLTAFLRQIGDNVTRLDRWETELNEALPGDA 173
		
		Query: 173 HNVSTARDLTKLLIA 187
		            + +T   +   L  
		Sbjct: 174 RDTTTPASMAATLRK 188
		
		
	2599#c2668	BCTERIALGSPF#Bacterial general secretion pathway protein F signa...	29	0.015
		>BCTERIALGSPF#Bacterial general secretion pathway protein F
		           signature.
		          Length = 408
		
		 Score = 28.6 bits (64), Expect = 0.015
		 Identities = 5/34 (14%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
		
		Query: 164 WLHNLDQHLKHW-VWLILVVVL-VVGVRWWLKRS 195
		            L  +   ++ +  W++L ++   +  R  L++ 
		Sbjct: 215 VLMGMSDAVRTFGPWMLLALLAGFMAFRVMLRQE 248
		
		
	2600#c2669	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	64	2e-15
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score = 63.9 bits (155), Expect = 2e-15
		 Identities = 39/128 (30%), Positives = 59/128 (46%), Gaps = 10/128 (7%)
		
		Query: 3   KQGQGGRIINITSVHEHTPLPDASAYTAAKHALGGLTKAMALELVRHKILVNAVAPGAIA 62
		              + G I+ + S     P    +AY ++K A    TK + LEL  + I  N V+PG+  
		Sbjct: 132 MDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSPGSTE 191
		
		Query: 63  TPMN-----GMDGGD--VKPDAEP---SIPLRRFGTTHEIASLVVWLCSEGANYTTGQSL 112
		           T M        +G +  +K   E     IPL++     +IA  V++L S  A + T  +L
		Sbjct: 192 TDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHITMHNL 251
		
		Query: 113 IVDGGFML 120
		            VDGG  L
		Sbjct: 252 CVDGGATL 259
		
		
	2601#c2670	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	36	9e-06
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score = 35.8 bits (82), Expect = 9e-06
		 Identities = 25/98 (25%), Positives = 44/98 (44%), Gaps = 1/98 (1%)
		
		Query: 3   QVAIITASDSGIGKECALLLAQQGFDIGITWHSDEEGAKDTAREVVSHGVRAEIVQLDLG 62
		           ++A IT +  GIG+  A  LA QG  I    ++ E+  K  +         AE    D+ 
		Sbjct: 9   KIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKA-EARHAEAFPADVR 67
		
		Query: 63  NLPEGAQALEKLIQRLGRIDVLVNNAGAMTKAPFLDMA 100
		           +     +   ++ + +G ID+LVN AG +       ++
		Sbjct: 68  DSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLS 105
		
		
	2603#c2672	SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein s...	30	0.018
		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein
		           signature.
		          Length = 347
		
		 Score = 29.7 bits (67), Expect = 0.018
		 Identities = 32/127 (25%), Positives = 53/127 (41%), Gaps = 5/127 (3%)
		
		Query: 144 GAKAMREAVPAHLPVSVKVRLGWDSGEK-KFEIADAVQQAGATELVVHGRTKEQGY-RAE 201
		           G     EA+  ++  +    +G  + E+ K EI  A       E+ V GR   +G  R  
		Sbjct: 190 GGDRFDEAIINYVRRNYGSLIGEATAERIKHEIGSAYPGDEVREIEVRGRNLAEGVPRGF 249
		
		Query: 202 HIDWQAIGE-IRQRLNIPVIANGEIWDWQSAQQCMAISGCDAVMIGRGALNIPNLSRVVK 260
		            ++   I E +++ L   V A     +    +    IS    V+ G GAL + NL R++ 
		Sbjct: 250 TLNSNEILEALQEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGAL-LRNLDRLL- 307
		
		Query: 261 YNEPRMP 267
		             E  +P
		Sbjct: 308 MEETGIP 314
		
		
c2726	c2730	N	Y	Y	c2711	c2750
	c2726	0	13	1.239139	Hypothetical protein yejM
	c2727	0	16	1.917692	*Hypothetical protein
	c2728	0	18	3.325154	Hypothetical protein
	c2729	-1	19	3.245878	Hypothetical protein
	c2730	0	21	3.638771	Nitrate/nitrite response regulator protein narP
	2655#c2726	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	30	0.027
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 30.4 bits (68), Expect = 0.027
		 Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 6/70 (8%)
		
		Query: 503 LHVSTPASEYSQGQ-DLF---NPQRRHYWVTAADNDTLAITTPKKTLVLNNNGKYRTYNL 558
		           L V+    E +  +  LF     QR H  V+    +T+ +   K  L  N NG+Y  YN 
		Sbjct: 926 LQVADKTGEPNHNELTLFDASKAQRDHLNVSLV-GNTVDLGAWKYKLR-NVNGRYDLYNP 983
		
		Query: 559 RGERVKDEKP 568
		             E+      
		Sbjct: 984 EVEKRNQTVD 993
		
		
	2656#c2727	PRTACTNFAMLY#Pertactin virulence factor family signature.	26	0.005
		>PRTACTNFAMLY#Pertactin virulence factor family signature.
		          Length = 910
		
		 Score = 26.2 bits (57), Expect = 0.005
		 Identities = 10/35 (28%), Positives = 14/35 (40%)
		
		Query: 2   WSSAINSRNNVTTDAGAGFEQTLTGLTLGIDSRFS 36
		           W      R  +   AG  F+Q + G  LG D   +
		Sbjct: 650 WGRGFAQRQQLDNRAGRRFDQKVAGFELGADHAVA 684
		
		
	2658#c2729	PERTACTIN#Pertactin signature.	27	0.024
		>PERTACTIN#Pertactin signature.
		          Length = 922
		
		 Score = 27.0 bits (59), Expect = 0.024
		 Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 2/43 (4%)
		
		Query: 40  VFAVIEKGGLLEV--KATGDFKIFVTDTGARPAAGDNLTLVTT 80
		           VFA +     L V   A+G  +++V ++G+ PA+G+ + LV T
		Sbjct: 484 VFADLGLSDKLVVMRDASGQHRLWVRNSGSEPASGNTMLLVQT 526
		
		
	2659#c2730	HTHFIS#FIS bacterial regulatory protein HTH signature.	65	2e-14
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 64.9 bits (158), Expect = 2e-14
		 Identities = 22/113 (19%), Positives = 48/113 (42%), Gaps = 2/113 (1%)
		
		Query: 19  VMIVDDHPLMRRGVRQLLELDSGFEVVAEAGDGASAIDLANRLDIDVILLDLNMKGMSGL 78
		           +++ DD   +R  + Q L   +G++V     + A+        D D+++ D+ M   +  
		Sbjct: 6   ILVADDDAAIRTVLNQALS-RAGYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63
		
		Query: 79  DTLNALRRDGVTAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIR 131
		           D L  +++      +++++  +         + GA  YL K  D   L+  I 
		Sbjct: 64  DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIG 116
		
		
c2758	c2763	N	Y	N	c2743	c2782
	c2758	-1	11	-1.776468	Outer membrane protein C precursor
	c2759	-1	11	-1.660740	Putative sensor-like histidine kinase yojN
	c2760	-1	12	-1.394835	Capsular synthesis regulator component B
	c2761	-1	13	-0.608118	Sensor protein rcsC
	c2762	-1	16	0.051678	Sensor protein atoS
	c2763	-1	14	0.892051	Acetoacetate metabolism Regulatory protein atoC
	2687#c2758	ECOLIPORIN#E.coli/Salmonella-type porin signature.	539	0.0
		>ECOLIPORIN#E.coli/Salmonella-type porin signature.
		          Length = 383
		
		 Score =  539 bits (1390), Expect = 0.0
		 Identities = 258/386 (66%), Positives = 295/386 (76%), Gaps = 14/386 (3%)
		
		Query: 1   MKVKVLSLLVPALLVAGAANAAEVYNKDGNKLDLYGKVDGLHYFSDDKSVDGDQTYMRLG 60
		           MK KVL+L++PALL AGAA+AAE+YNKDGNKLDLYGKVDGLHYFSDD S DGDQTYMR+G
		Sbjct: 1   MKRKVLALVIPALLAAGAAHAAEIYNKDGNKLDLYGKVDGLHYFSDDSSKDGDQTYMRVG 60
		
		Query: 61  FKGETQVTDQLTGYGQWEYQIQGNAPESE-NNSWTRVAFAGLKFQDIGSFDYGRNYGVVY 119
		           FKGETQ+ DQLTGYGQWEY +Q N  E E  NSWTR+AFAGLKF D GSFDYGRNYGV+Y
		Sbjct: 61  FKGETQINDQLTGYGQWEYNVQANTTEGEGANSWTRLAFAGLKFGDYGSFDYGRNYGVLY 120
		
		Query: 120 DVTSWTDVLPEFGGDTYG-SDNFMQQRGNGFATYRNTDFFGLVDGLNFAVQYQGQNGSVS 178
		           DV  WTD+LPEFGGD+Y  +DN+M  R NG ATYRNTDFFGLVDGLNFA+QYQG+N S S
		Sbjct: 121 DVEGWTDMLPEFGGDSYTYADNYMTGRANGVATYRNTDFFGLVDGLNFALQYQGKNESQS 180
		
		Query: 179 GENDPDFTGHGITNNGRKALRQNGDGVGGSITYDY-EGFGVGAAVSSSKRTWDQNNT-GL 236
		            ++     G    NNG      NGDG G S TYD   GF  GAA ++S RT +Q N  G 
		Sbjct: 181 ADDVN--IGTNNRNNGDDIRYDNGDGFGISTTYDIGMGFSAGAAYTTSDRTNEQVNAGGT 238
		
		Query: 237 IGTGDRAETYTGGLKYDANNIYLAAQYTQTYNATRVGSL------GWANKAQNFEAVAQY 290
		           I  GD+A+ +T GLKYDANNIYLA  Y++T N T  G        G ANK QNFE  AQY
		Sbjct: 239 IAGGDKADAWTAGLKYDANNIYLATMYSETRNMTPYGKTDKGYDGGVANKTQNFEVTAQY 298
		
		Query: 291 QFDFGLRPSVAYLQSKGKNLGVVAGRNYDDEDILKYVDVGATYYFNKNMSTYVDYKINLL 350
		           QFDFGLRP+V++L SKGK+L      N DD+D++KY DVGATYYFNKN STYVDYKINLL
		Sbjct: 299 QFDFGLRPAVSFLMSKGKDLT-YNNVNGDDKDLVKYADVGATYYFNKNFSTYVDYKINLL 357
		
		Query: 351 D-DNQFTRAAGINTDDIVALGLVYQF 375
		           D D+ F + AGI+TDDIVALG+VYQF
		Sbjct: 358 DDDDPFYKDAGISTDDIVALGMVYQF 383
		
		
	2689#c2760	HTHFIS#FIS bacterial regulatory protein HTH signature.	49	7e-09
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 48.7 bits (116), Expect = 7e-09
		 Identities = 26/145 (17%), Positives = 60/145 (41%), Gaps = 20/145 (13%)
		
		Query: 16  MNNMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMP 75
		           M    +++ADD   +   + ++L +  +   +    ++  L   +   D  +++TD+ MP
		Sbjct: 1   MTGATILVADDDAAIRTVLNQALSRAGYDVRI--TSNAATLWRWIAAGDGDLVVTDVVMP 58
		
		Query: 76  GDKYGDGITLIKYIKRHFPSLSIIVLTMNNNPAILSAVLDLDIEGIVLKQGA------PT 129
		                +   L+  IK+  P L ++V++  N     +A+          ++GA      P 
		Sbjct: 59  D---ENAFDLLPRIKKARPDLPVLVMSAQNTFM--TAIKA-------SEKGAYDYLPKPF 106
		
		Query: 130 DLPKALAALQKGKKFTPESVSRLLE 154
		           DL + +  + +         S+L +
		Sbjct: 107 DLTELIGIIGRALAEPKRRPSKLED 131
		
		
	2690#c2761	HTHFIS#FIS bacterial regulatory protein HTH signature.	81	6e-18
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 81.0 bits (200), Expect = 6e-18
		 Identities = 29/106 (27%), Positives = 47/106 (44%)
		
		Query: 827 ILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLNKNHIDIVLSDVNMPNMDGYRL 886
		           ILV DD    R +L   L   GY  +  ++       +     D+V++DV MP+ + + L
		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65
		
		Query: 887 TQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVI 932
		             RI++    LPV+ ++A        +  E G    L KP  L  +
		Sbjct: 66  LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTEL 111
		
		
	2692#c2763	HTHFIS#FIS bacterial regulatory protein HTH signature.	562	0.0
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score =  562 bits (1449), Expect = 0.0
		 Identities = 181/484 (37%), Positives = 269/484 (55%), Gaps = 35/484 (7%)
		
		Query: 1   MTAINRILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPDVVLMDIRMPE 60
		           MT    IL+ DD+  +R +L+ A +  G++    +N  T     A    D+V+ D+ MP+
		Sbjct: 1   MTGA-TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPD 59
		
		Query: 61  MDGIKALKEMRSHETRTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRAL 120
		            +    L  ++      PV++M+A     TA++A   GA+DY+ KPFDL EL  I+ RAL
		Sbjct: 60  ENAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119
		
		Query: 121 QLQSMKKEIRHLHQALSTSWQWGH-ILTNSPAMMDICKDTAKIALSQASVLISGESGTGK 179
		                    +     L    Q G  ++  S AM +I +  A++  +  +++I+GESGTGK
		Sbjct: 120 AEP------KRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGK 173
		
		Query: 180 ELIARAIHYNSRRAKGPFIKVNCAALPESLLESELFGHEKGAFTGAQTLRQGLFERANEG 239
		           EL+ARA+H   +R  GPF+ +N AA+P  L+ESELFGHEKGAFTGAQT   G FE+A  G
		Sbjct: 174 ELVARALHDYGKRRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGG 233
		
		Query: 240 TLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTFR 299
		           TL LDEIG+MP+  Q +LLR+LQ+ E+  +GG   I+ D+RI+AATN+DL+  + +G FR
		Sbjct: 234 TLFLDEIGDMPMDAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFR 293
		
		Query: 300 EDLFYRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWP 359
		           EDL+YRLNV+ L LPPLRDR EDI  L  HF+Q+   E    +   D  A+ L+ A  WP
		Sbjct: 294 EDLYYRLNVVPLRLPPLRDRAEDIPDLVRHFVQQAEKEGLD-VKRFDQEALELMKAHPWP 352
		
		Query: 360 GNIRELSNVIERAVVMNSGPIIFSEDLPPQIRQPV---------CNAGEAKTAPVGERN- 409
		           GN+REL N++ R   +    +I  E +  ++R  +           +G    +   E N 
		Sbjct: 353 GNVRELENLVRRLTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENM 412
		
		Query: 410 ----------------LKEEIKRVEKRIIMEVLEQQEGNRTRTALMLGISRRALMYKLQE 453
		                               +  +E  +I+  L    GN+ + A +LG++R  L  K++E
		Sbjct: 413 RQYFASFGDALPPSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRE 472
		
		Query: 454 YGID 457
		            G+ 
		Sbjct: 473 LGVS 476
		
		
c2902	c2906	N	Y	N	c2887	c2926
	c2902	-1	35	-9.721984	Multidrug resistance protein Y
	c2903	-1	35	-9.358557	Hypothetical protein
	c2904	-1	34	-8.401045	Multidrug resistance protein K
	c2905	-1	31	-7.597590	Positive transcription regulator evgA
	c2906	-1	31	-7.209354	Sensor protein evgS precursor
	2827#c2902	TCRTETB#Tetracycline resistance protein TetB signature.	122	2e-32
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score =  122 bits (308), Expect = 2e-32
		 Identities = 92/404 (22%), Positives = 167/404 (41%), Gaps = 17/404 (4%)
		
		Query: 19  VTIALSLATFMQMLDSTISNVAIPTISGFLGASTDEGTWVITSFGVANAIAIPVTGRLAQ 78
		           + I L + +F  +L+  + NV++P I+           WV T+F +  +I   V G+L+ 
		Sbjct: 15  ILIWLCILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSD 74
		
		Query: 79  RIGELRLFLLSVTFFSLSSLMCSLS-TNLDVLIFFRVVQGLMAGPLIPLSQSLLLRNYPP 137
		           ++G  RL L  +      S++  +  +   +LI  R +QG  A     L   ++ R  P 
		Sbjct: 75  QLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPK 134
		
		Query: 138 EKRTFALALWSMTVIIAPICGPILGGYICDNFSWGWIFLINVPMGIIVLTLCLTLLKGRE 197
		           E R  A  L    V +    GP +GG I     W   +L+ +PM  I+    L  L  +E
		Sbjct: 135 ENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHWS--YLLLIPMITIITVPFLMKLLKKE 192
		
		Query: 198 TETSPVKMNLPGLTLLVLGVGGLQIMLDKGRDLDWFNSSTIILLTVVSVISLISLVIWES 257
		                   ++ G+ L+ +G+  +  ML        F +S  I   +VSV+S +  V    
		Sbjct: 193 VRIKG-HFDIKGIILMSVGI--VFFML--------FTTSYSISFLIVSVLSFLIFVKHIR 241
		
		Query: 258 TSENPILDLSLFKSRNFTIGIVSITCAYLFYSGAIVLMPQLLQETMGYNAIWAGLAYAPI 317
		              +P +D  L K+  F IG++     +   +G + ++P ++++    +    G      
		Sbjct: 242 KVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFP 301
		
		Query: 318 GIMPLLIS-PLIGRYGNKIDMRLLVTFSFLMYAVCYYWRSVTFMPTIDFTGIILPQFFQG 376
		           G M ++I   + G   ++     ++       +V +   S     T  F  II+     G
		Sbjct: 302 GTMSVIIFGYIGGILVDRRGPLYVLNIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLGG 361
		
		Query: 377 FAVACFFLPLTTISFSGLPDNKFANASSMSNFFRTLSGSVGTSL 420
		            +       ++TI  S L   +     S+ NF   LS   G ++
		Sbjct: 362 LSFTK--TVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAI 403
		
		
	2829#c2904	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	78	6e-18
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 78.3 bits (193), Expect = 6e-18
		 Identities = 62/413 (15%), Positives = 123/413 (29%), Gaps = 98/413 (23%)
		
		Query: 13  RRKYFALLAVVLFIAFSGAYAYWSMELKDMISTDDAYVTGNADPISAQVSGSVTVVNHKD 72
		           RR       ++ F+  +   +          +      +G +  I    +  V  +  K+
		Sbjct: 55  RRPRLVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKE 114
		
		Query: 73  TNYVRQGDILVSLDKTDATIALNKA----------------------------------- 97
		              VR+GD+L+ L    A     K                                    
		Sbjct: 115 GESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEP 174
		
		Query: 98  -----------------KNNLANIVRQTNKLYLQDKQYSAEVASARIQ---YQQSLEDYN 137
		                            K   +    Q  +  L   +  AE  +   +   Y+       
		Sbjct: 175 YFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEK 234
		
		Query: 138 RRV----PLAKQGVISKEALEHTKDTLI----------SSKAALNAAIQAYKANKALVMN 183
		            R+     L  +  I+K A+   ++  +          S    + + I + K      + 
		Sbjct: 235 SRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEE--YQLV 292
		
		Query: 184 TPLNRQPQVIEAADATKE----------AWLALKRTDIKSPVTGYIAQRSVQ-VGETVSP 232
		           T L +   + +    T                 + + I++PV+  + Q  V   G  V+ 
		Sbjct: 293 TQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTT 352
		
		Query: 233 GQSLMAVVPARQ-MWVNANFKETQLTDVRIGQSVNIISDLYGENVVFHGRVTGINMGTGN 291
		            ++LM +VP    + V A  +   +  + +GQ+  I  +       F     G  +G   
		Sbjct: 353 AETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVE------AFPYTRYGYLVGK-- 404
		
		Query: 292 AFSLLPAQNATGNWIKIVQRVPVEVSLDPKELMEH----PLRIGLSMTATIDT 340
		               +         + +V  V   +S++   L       PL  G+++TA I T
		Sbjct: 405 -VKNINLDAIEDQRLGLVFNVI--ISIEENCLSTGNKNIPLSSGMAVTAEIKT 454
		
		
	2830#c2905	HTHFIS#FIS bacterial regulatory protein HTH signature.	49	3e-09
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 49.1 bits (117), Expect = 3e-09
		 Identities = 22/148 (14%), Positives = 53/148 (35%), Gaps = 31/148 (20%)
		
		Query: 4   IIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQV 63
		           ++ DD       +   L +   ++    +   +  + +     D+V+ DV +P  N   +
		Sbjct: 7   LVADDDAAIRTVLNQALSRAGYDVRIT-SNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65
		
		Query: 64  LETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYF 123
		           L  ++K +    ++++SA+N                          + AI+A++ G   +
		Sbjct: 66  LPRIKKARPDLPVLVMSAQNT------------------------FMTAIKASEKGAYDY 101
		
		Query: 124 ---PFSLNRFVGSLTSDQQKLDSLSKQE 148
		              PF L      +    + L    ++ 
		Sbjct: 102 LPKPFDLTE---LIGIIGRALAEPKRRP 126
		
		
	2831#c2906	HTHFIS#FIS bacterial regulatory protein HTH signature.	79	2e-17
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 79.5 bits (196), Expect = 2e-17
		 Identities = 30/105 (28%), Positives = 51/105 (48%)
		
		Query: 960  SILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSMQHYDLLITDVNMPNMDGFE 1019
		            +IL+ADD    R +L + L+  GYDV   ++       ++    DL++TDV MP+ + F+
		Sbjct: 5    TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 1020 LTRKLREQNSSLPIWGLTANAQANEREKGLNCGMNLCLFKPLTLD 1064
		            L  ++++    LP+  ++A        K    G    L KP  L 
		Sbjct: 65   LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLT 109
		
		
c3234	c3244	N	Y	N	c3219	c3259
	c3234	-2	12	2.748593	Putative transport protein
	c3235	-3	14	2.391967	Hypothetical protein ygaZ
	c3236	-3	16	2.574133	Hypothetical protein ygaH
	c3237	-3	15	2.372564	Transcriptional repressor mprA
	c3238	-2	15	2.618247	Multidrug resistance protein A
	c3239	-2	16	2.555011	Multidrug resistance protein B
	c3240	-1	14	0.871832	Hypothetical protein
	c3241	-1	14	0.603977	Hypothetical protein
	c3242	-1	12	0.739009	Hypothetical protein
	c3243	-1	13	0.143382	Hypothetical protein
	c3244	-1	14	-0.427397	Autoinducer-2 production protein luxS
	3159#c3234	TCRTETB#Tetracycline resistance protein TetB signature.	44	7e-07
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 44.1 bits (104), Expect = 7e-07
		 Identities = 32/165 (19%), Positives = 70/165 (42%), Gaps = 2/165 (1%)
		
		Query: 34  LDTIARNFSLSASSAGFIVTAAQLGYAAGLLFLVPLGDMFERRRLIVSMTLLAAGGMLIT 93
		           L  IA +F+   +S  ++ TA  L ++ G      L D    +RL++   ++   G +I 
		Sbjct: 37  LPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIG 96
		
		Query: 94  ASSQSLA-MMILGTALTGLFSVVAQILVPLA-ATLASPDKRGKVVGTIMSGLLLGILLAR 151
		               S   ++I+   + G  +     LV +  A     + RGK  G I S + +G  +  
		Sbjct: 97  FVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKENRGKAFGLIGSIVAMGEGVGP 156
		
		Query: 152 TVAGLLANLGGWRTVFWVASMLMALMALALWRGLPQMKSETHLNY 196
		            + G++A+   W  +  +  + +  +   +     +++ + H + 
		Sbjct: 157 AIGGMIAHYIHWSYLLLIPMITIITVPFLMKLLKKEVRIKGHFDI 201
		
		
	3162#c3237	PF05272#Virulence-associated E family protein	28	0.018
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 28.5 bits (63), Expect = 0.018
		 Identities = 23/94 (24%), Positives = 36/94 (38%), Gaps = 12/94 (12%)
		
		Query: 23  PYQEILLTRLCMHMQSKLLENRNKMLKAQGINETLFMALITLESQENHSIQPSELSCALG 82
		           P QE+ L    +  +   L  R     A+G  +  +    T  +        ++L  ALG
		Sbjct: 756 PEQELRLVETGVQGRLWALLTREGAPAAEGAAQKGYSVNTTFVTI-------ADLVQALG 808
		
		Query: 83  -----SSRTNATRIADELEKRGWIERRESDNDRR 111
		                SS     ++ D L + GW   RE+   RR
		Sbjct: 809 ADPGKSSPMLEGQVRDWLNENGWEYLRETSGQRR 842
		
		
	3163#c3238	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	79	3e-18
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 79.1 bits (195), Expect = 3e-18
		 Identities = 64/412 (15%), Positives = 120/412 (29%), Gaps = 97/412 (23%)
		
		Query: 29  LLLTLLFIIIAVAIGIYWFLVLRHFEETDDA----YVAGNQIQIMSQVSGSVTKVWADNT 84
		             L   FI+  + I      VL   E    A      +G   +I    +  V ++     
		Sbjct: 57  PRLVAYFIMGFLVIAFILS-VLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEG 115
		
		Query: 85  DFVKEGDVLVTLDPTDARQAFEKA------------------------------------ 108
		           + V++GDVL+ L    A     K                                     
		Sbjct: 116 ESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPY 175
		
		Query: 109 ----------------KTALASSVRQTHQLMINSKQLQANIEVQKIALAKA-------QS 145
		                           K   ++   Q +Q  +N  + +A        + +        +S
		Sbjct: 176 FQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKS 235
		
		Query: 146 DYNRRVPLGNANLIGREELQHARDAVTSAQAQLDVAIQQYNANQAMILGTKLEDQPAVQQ 205
		             +    L +   I +  +    +    A  +L V   Q    ++ IL  K E Q   Q 
		Sbjct: 236 RLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQL 295
		
		Query: 206 AATEVRN------------------AWLALERTRIVSPMTGYVSRRAVQ-PGAQISPTTP 246
		              E+ +                       + + I +P++  V +  V   G  ++    
		Sbjct: 296 FKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAET 355
		
		Query: 247 LMAVVPA-TNMWVDANFKETQIANMRIGQPVTITTDIYGDDVKY---TGKVVGLDMGTGS 302
		           LM +VP    + V A  +   I  + +GQ   I  + +    +Y    GKV  +     +
		Sbjct: 356 LMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAF-PYTRYGYLVGKVKNI-----N 409
		
		Query: 303 AFSLLPAQNATGNWIKVVQRLPVRIELDQKQLEQYPLRIGLSTLVSVNTTNR 354
		             ++       G    V+  +           +  PL  G++    + T  R
		Sbjct: 410 LDAIE--DQRLGLVFNVIISIEENCLST--GNKNIPLSSGMAVTAEIKTGMR 457
		
		
	3164#c3239	TCRTETB#Tetracycline resistance protein TetB signature.	132	8e-36
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score =  132 bits (334), Expect = 8e-36
		 Identities = 97/405 (23%), Positives = 169/405 (41%), Gaps = 23/405 (5%)
		
		Query: 20  IALSLATFMQVLDSTIANVAIPTIAGNLGSSLSQGTWVITSFGVANAISIPLTGWLAKRV 79
		           I L + +F  VL+  + NV++P IA +     +   WV T+F +  +I   + G L+ ++
		Sbjct: 17  IWLCILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQL 76
		
		Query: 80  GEVKLFLWSTIAFAIASWACGVS-SSLNMLIFFRVIQGIVAGPLIPLSQSLLLNNYPPAK 138
		           G  +L L+  I     S    V  S  ++LI  R IQG  A     L   ++    P   
		Sbjct: 77  GIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKEN 136
		
		Query: 139 RSIALALWSMTVIVAPICGPILGGYISDNYHWGWIFFINVPIGVAVVLMTLQTLRGRETR 198
		           R  A  L    V +    GP +GG I+   HW   + + +P+   + +  L  L  +E R
		Sbjct: 137 RGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHWS--YLLLIPMITIITVPFLMKLLKKEVR 194
		
		Query: 199 TERRRIDAVGLALLVIGIGSLQIMLDRGKELDWFSSQEIIILTVVAVVAICFLIVWELTD 258
		             +   D  G+ L+ +GI  +  ML        F++   I   +V+V++    +      
		Sbjct: 195 I-KGHFDIKGIILMSVGI--VFFML--------FTTSYSISFLIVSVLSFLIFVKHIRKV 243
		
		Query: 259 DNPIVDLSLFKSRNFTIGCLCISLAYMLYFGAIVLLPQLLQEVYGYTATWAGLASAPVGI 318
		            +P VD  L K+  F IG LC  + +    G + ++P ++++V+  +    G      G 
		Sbjct: 244 TDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGT 303
		
		Query: 319 IPVILS-PIIGRFAHKLDMRRLVTFSFIMYAVCFYWRAYTFEPGMDFGASAWPQFIQGF- 376
		           + VI+   I G    +     ++       +V F   ++          S +   I  F 
		Sbjct: 304 MSVIIFGYIGGILVDRRGPLYVLNIGVTFLSVSFLTASFL-----LETTSWFMTIIIVFV 358
		
		Query: 377 --AVACFFMPLTTITLSGLPPERLAAASSLSNFTRTLAGSIGTSI 419
		              ++     ++TI  S L  +   A  SL NFT  L+   G +I
		Sbjct: 359 LGGLSFTKTVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAI 403
		
		
	3169#c3244	LUXSPROTEIN#Bacterial autoinducer-2 (AI-2) production protein Lu...	293	e-105
		>LUXSPROTEIN#Bacterial autoinducer-2 (AI-2) production protein LuxS
		           signature.
		          Length = 171
		
		 Score =  293 bits (751), Expect = e-105
		 Identities = 132/170 (77%), Positives = 148/170 (87%)
		
		Query: 2   PLLDSFTVDHTRMEAPAVRVAKTMNTPHGDAITVFDLRFCVPNKEVMPERGIHTLEHLFA 61
		           PLLDSFTVDHTRM APAVRVAKTM TP GD ITVFDLRF  PNK+++ E+GIHTLEHL+A
		Sbjct: 1   PLLDSFTVDHTRMNAPAVRVAKTMQTPKGDTITVFDLRFTAPNKDILSEKGIHTLEHLYA 60
		
		Query: 62  GFMRNHLNGNGVEIIDISPMGCRTGFYMSLIGTPDEQRVADAWKAAMEDVLKVQDQNQIP 121
		           GFMRNHLNG+ VEIIDISPMGCRTGFYMSLIGTP EQ+VADAW AAMEDVLKV++QN+IP
		Sbjct: 61  GFMRNHLNGDSVEIIDISPMGCRTGFYMSLIGTPSEQQVADAWIAAMEDVLKVENQNKIP 120
		
		Query: 122 ELNVYQCGTYQMHSLQEAQDIARNILERDVRINSNEELALPKEKLQELHI 171
		           ELN YQCGT  MHSL EA+ IA+NILE  V +N N+ELALP+  L+EL I
		Sbjct: 121 ELNEYQCGTAAMHSLDEAKQIAKNILEVGVAVNKNDELALPESMLRELRI 170
		
		
c3330	c3337	N	Y	N	c3314	c3355
	c3330	-1	11	-1.367687	Hypothetical metabolite transport protein ygcS
	c3331	-1	11	-2.504304	Putative conserved protein
	c3332	1	15	-3.988771	Hypothetical oxidoreductase ygcW
	c3333	1	16	-3.651540	Hypothetical protein yqcE
	c3334	-1	19	-4.038224	Hypothetical sugar kinase ygcE
	c3335	-1	26	-5.220526	Hypothetical protein ygcF
	c3336	-1	29	-6.025933	Hypothetical protein
	c3337	0	28	-6.008621	Hypothetical protein
	3251#c3330	TCRTETB#Tetracycline resistance protein TetB signature.	36	3e-04
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 36.0 bits (83), Expect = 3e-04
		 Identities = 53/338 (15%), Positives = 123/338 (36%), Gaps = 34/338 (10%)
		
		Query: 93  LGSLVLGWISDHIGRQKIFTFSFMLITLASFLQFFATTP-EHLIGLRILIGIGLGGDYSV 151
		           +G+ V G +SD +G +++  F  ++    S + F   +    LI  R + G G     ++
		Sbjct: 64  IGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPAL 123
		
		Query: 152 GHTLLAEFSPRRHRGILLGAFSVVWT----VGYVLASIAGHHFISESPEAWRWLLASAAL 207
		              ++A + P+ +RG   G    +      VG  +  +  H+        W +LL    +
		Sbjct: 124 VMVVVARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYI------HWSYLLLIPMI 177
		
		Query: 208 PALLITLLRWGTPESPRWLLRQGRFAEAHAIVHRYFGPHVLLGDEVATATHKHIKTLF-- 265
		             + +  L     +  R    +G F     I+        +L     + +   +  L   
		Sbjct: 178 TIITVPFLMKLLKKEVR---IKGHFDIKGIILMSVGIVFFMLFTTSYSISFLIVSVLSFL 234
		
		Query: 266 -SSRYWRRTA--------FNSVFFVCLVIPWFVIYT----WLPTIAQTIGLEDALTASLM 312
		              ++ R+            ++ F+  V+   +I+     ++  +   +     L+ + +
		Sbjct: 235 IFVKHIRKVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEI 294
		
		Query: 313 LNALLIVGALLGLVLTHLLAHRRFLLGSFLLLTATLVVMACLPSGSSLTLLLFVLFSTTI 372
		            + ++  G +  ++  ++        G   +L   +  ++      S     F+L +T+ 
		Sbjct: 295 GSVIIFPGTMSVIIFGYIGGILVDRRGPLYVLNIGVTFLS-----VSFLTASFLLETTSW 349
		
		Query: 373 SAVSNLVGILPAESFPTDIRSLGVGFATAMSRLGAAVS 410
		                +V +L   SF   + S  V  +      GA +S
		Sbjct: 350 FMTIIIVFVLGGLSFTKTVISTIVSSSLKQQEAGAGMS 387
		
		
	3253#c3332	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	107	1e-29
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score =  107 bits (267), Expect = 1e-29
		 Identities = 73/257 (28%), Positives = 117/257 (45%), Gaps = 11/257 (4%)
		
		Query: 36  MDFFSLKGKTAIVTGGNSGLGQAFAMALAKAGANVFIPSFVKDNGETKEMIEK-QGVEVD 94
		           M+   ++GK A +TG   G+G+A A  LA  GA++    +  +  E      K +    +
		Sbjct: 1   MNAKGIEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAE 60
		
		Query: 95  FMQVDITAEGAPQKIIAACCERFGTVDILVNNAGICKLNKVLDFGRADWDPMIDVNLTAA 154
		               D+    A  +I A      G +DILVN AG+ +   +      +W+    VN T  
		Sbjct: 61  AFPADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGV 120
		
		Query: 155 FELSYEAAKIMIPQKSGKIINICSLFSYLGGQWSPAYSATKHALAGFTKAYCDELGQYNI 214
		           F  S   +K M+ ++SG I+ + S  + +      AY+++K A   FTK    EL +YNI
		Sbjct: 121 FNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNI 180
		
		Query: 215 QVNGIAPGYYATDI--TLATRSNPETNQRVLDH-------IPANRWGDTQDLMGAAVFLA 265
		           + N ++PG   TD+  +L    N    Q +          IP  +     D+  A +FL 
		Sbjct: 181 RCNIVSPGSTETDMQWSLWADENGAE-QVIKGSLETFKTGIPLKKLAKPSDIADAVLFLV 239
		
		Query: 266 SPASNYVNGHLLVVDGG 282
		           S  + ++  H L VDGG
		Sbjct: 240 SGQAGHITMHNLCVDGG 256
		
		
	3254#c3333	TCRTETA#Tetracycline resistance protein signature.	29	0.036
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 29.0 bits (65), Expect = 0.036
		 Identities = 22/103 (21%), Positives = 45/103 (43%), Gaps = 8/103 (7%)
		
		Query: 48  GLIMSTFGIAAIILYAPSGVIADKFSHRKMITSAMIITGLLGLIMATYPPLWVMLCIQVA 107
		           G++++ + +         G ++D+F  R ++  ++    +   IMAT P LWV+   ++ 
		Sbjct: 46  GILLALYALMQFACAPVLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIV 105
		
		Query: 108 FAITTILMLWSVSIKAASLLGD---HSEQGKIMGWMEGLRGVG 147
		             IT      +    A + + D     E+ +  G+M    G G
		Sbjct: 106 AGITG-----ATGAVAGAYIADITDGDERARHFGFMSACFGFG 143
		
		
	3258#c3337	56KDTSANTIGN#Rickettsia 56kDa type-specific antigen protein sign...	28	0.041
		>56KDTSANTIGN#Rickettsia 56kDa type-specific antigen protein
		           signature.
		          Length = 533
		
		 Score = 27.6 bits (61), Expect = 0.041
		 Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 12/74 (16%)
		
		Query: 30  NASWSEVLNQYQRRTDLIPNLVASIKGYSSHEQEVLEAVTLARSQANRASSDLQKTPGDE 89
		           +AS  ++ ++ Q   D +  L  S  GY            +  +  N+   +    P  +
		Sbjct: 294 SASIEQIQSKIQELGDTLEELRDSFDGY------------INNAFVNQIHLNFVMPPQAQ 341
		
		Query: 90  QKLQAWQQAQAQVT 103
		           Q+    QQ QAQ T
		Sbjct: 342 QQQGQGQQQQAQAT 355
		
		
c3417	c3424	N	Y	N	c3402	c3441
	c3417	0	17	1.084467	Prepilin peptidase dependent protein C
	c3418	-1	15	0.915359	Hypothetical protein ygdB precursor
	c3419	-3	11	1.477591	Prepilin peptidase dependent protein B
	c3420	-3	10	1.148429	Prepilin peptidase dependent protein A
	c3421	-3	8	1.128661	Hypothetical protein
	c3422	-3	9	1.063083	Thymidylate synthase
	c3423	-2	10	0.875893	Prolipoprotein diacylglyceryl transferase
	c3424	-2	10	1.257435	Phosphoenolpyruvate-protein phosphotransferase
	3335#c3417	BCTERIALGSPH#Bacterial general secretion pathway protein H signa...	29	0.002
		>BCTERIALGSPH#Bacterial general secretion pathway protein H
		           signature.
		          Length = 170
		
		 Score = 29.1 bits (65), Expect = 0.002
		 Identities = 27/114 (23%), Positives = 43/114 (37%), Gaps = 29/114 (25%)
		
		Query: 8   QQGFSLPEVMLAMVLMVMIVTA----------------LSGFQRTLMNSLASRNQYQQLW 51
		           Q+GF+L E+ML ++LM +                    L+ F+  L        Q  Q +
		Sbjct: 3   QRGFTLLEMMLILLLMGVSAGMVLLAFPASRDDSAAQTLARFEAQLRFVQQRGLQTGQFF 62
		
		Query: 52  -----RHGWQ--QTQLRAISPPA----NWQVNRMQTSQAGCVSISVTLVSPGGR 94
		                   WQ    + R  + PA     W   R    +AG V+ S ++   GG+
		Sbjct: 63  GVSVHPDRWQFLVLEARDGADPAPADDGWSGYRWLPLRAGRVATSGSI--AGGK 114
		
		
	3337#c3419	PilS_PF08805#PilS N terminal	27	0.030
		>PilS_PF08805#PilS N terminal
		          Length = 185
		
		 Score = 27.2 bits (60), Expect = 0.030
		 Identities = 12/50 (24%), Positives = 25/50 (50%)
		
		Query: 1  MSARRNRRMPVKEQGFSLLEVLIAMAISSVLLLGAARFLPALQRESLTNT 50
		           S+   RR   +++G +L+EVL+ + +  VL   A +    +Q    ++ 
		Sbjct: 13 FSSLSARRKKEQDKGATLMEVLLVVGVIVVLAASAYKLYSMVQSNIQSSN 62
		
		
	3338#c3420	BCTERIALGSPG#Bacterial general secretion pathway protein G signa...	29	0.003
		>BCTERIALGSPG#Bacterial general secretion pathway protein G
		          signature.
		          Length = 145
		
		 Score = 29.5 bits (66), Expect = 0.003
		 Identities = 9/24 (37%), Positives = 18/24 (75%)
		
		Query: 1  MKTQRGYTLIETLVAMLILVMLSA 24
		             QRG+TL+E +V ++I+ +L++
		Sbjct: 4  TDKQRGFTLLEIMVVIVIIGVLAS 27
		
		
	3342#c3424	PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase sign...	611	0.0
		>PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase
		           signature.
		          Length = 572
		
		 Score =  611 bits (1577), Expect = 0.0
		 Identities = 189/571 (33%), Positives = 314/571 (54%), Gaps = 7/571 (1%)
		
		Query: 168 QTRIRALPAAPGVAIAEGWQDATLPLMEQVYQASTLDPALERERLTGALEEAANEFRRYS 227
		             +I  + A+ GVAIA+ +      +   + + S  D + E E+LT ALE++  E R   
		Sbjct: 2   HHKITGIAASSGVAIAKAFIHLEPNV--DIEKTSITDVSTEIEKLTAALEKSKEELRAIK 59
		
		Query: 228 KRFAAGAQKETAAIFDLYSHLLSDTRLRRELFAEVDKGSV-AEWAVKTVIEKFAEQFAAL 286
		            +  A    + A IF  +  +L D  L   +  +++   + AE+A+K V + F   F ++
		Sbjct: 60  DQTEASMGADKAEIFAAHLLVLDDPELVDGIKGKIENEQMNAEYALKEVSDMFVSMFESM 119
		
		Query: 287 SDNYLKERAGDLRALGQRLLFHLDDANQGPNAW-PERFILVADELSATTLAELPQDRLVG 345
		            + Y+KERA D+R + +R+L HL     G  A   E  +++A++L+ +  A+L +  + G
		Sbjct: 120 DNEYMKERAADIRDVSKRVLGHLIGVETGSLATIAEETVIIAEDLTPSDTAQLNKQFVKG 179
		
		Query: 346 VVVRDGAANSHAAIMVRALGIPTVMGA-DIQPSVLHRRTLIVDGYRGELLVDPEPVLLQE 404
		                G   SH+AIM R+L IP V+G  ++   + H   +IVDG  G ++V+P    ++ 
		Sbjct: 180 FATDIGGRTSHSAIMSRSLEIPAVVGTKEVTEKIQHGDMVIVDGIEGIVIVNPTEEEVKA 239
		
		Query: 405 YQRLISEEIELSRLAEDDVNLPAQLKSGERIKVMLNAGLSPEHEEKLGSRIDGIGLYRTE 464
		           Y+   +   +  +     V  P+  K G  +++  N G   + +  L +  +GIGLYRTE
		Sbjct: 240 YEEKRAAFEKQKQEWAKLVGEPSTTKDGAHVELAANIGTPKDVDGVLANGGEGIGLYRTE 299
		
		Query: 465 IPFMLQSGFPSEEEQVAQYQGMLQMFNDKPVTLRTLDVGADKQLPYMPISEE-NPCLGWR 523
		             +M +   P+EEEQ   Y+ ++Q  + KPV +RTLD+G DK+L Y+ + +E NP LG+R
		Sbjct: 300 FLYMDRDQLPTEEEQFEAYKEVVQRMDGKPVVIRTLDIGGDKELSYLQLPKELNPFLGFR 359
		
		Query: 524 GIRITLDQPEIFLIQVRAMLRANAATGNLNILLPMVTSLDEVDEARRLIERAGREVEEMI 583
		            IR+ L++ +IF  Q+RA+LRA +  GNL ++ PM+ +L+E+ +A+ +++    ++    
		Sbjct: 360 AIRLCLEKQDIFRTQLRALLRA-STYGNLKVMFPMIATLEELRQAKAIMQEEKDKLLSEG 418
		
		Query: 584 GYEIPKPRIGIMLEVPSMVFMLPHLAKRVDFISVGTNDLTQYILAVDRNNTRVANIYDSL 643
		                   +GIM+E+PS        AK VDF S+GTNDL QY +A DR N RV+ +Y   
		Sbjct: 419 VDVSDSIEVGIMVEIPSTAVAANLFAKEVDFFSIGTNDLIQYTMAADRMNERVSYLYQPY 478
		
		Query: 644 HPAMLRALAMIAREAEIHGIDLRLCGEMAGDPMCVAILIGLGYRHLSMNGRSVARVKYLL 703
		           HPA+LR + M+ + A   G  + +CGEMAGD + + +L+GLG    SM+  S+   +  L
		Sbjct: 479 HPAILRLVDMVIKAAHSEGKWVGMCGEMAGDEVAIPLLLGLGLDEFSMSATSILPARSQL 538
		
		Query: 704 RRIDFAEAENLAQRSLEAQLATEVRHQVAAF 734
		            ++   E +  AQ++L    A EV   V   
		Sbjct: 539 LKLSKEELKPFAQKALMLDTAEEVEQLVKKT 569
		
		
c3564	c3570	N	Y	N	c3549	c3588
	c3564	7	33	-8.025412	Hypothetical protein
	c3565	6	36	-10.154830	Putative response regulator
	c3566	6	36	-10.842081	Hypothetical protein
	c3567	7	39	-11.434840	Hypothetical protein
	c3568	6	40	-11.653960	Hypothetical protein
	c3569	6	41	-11.633538	Hemolysin C
	c3570	5	38	-10.051226	Hemolysin A
	3482#c3564	PF06580#Sensor histidine kinase	42	3e-06
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 42.2 bits (99), Expect = 3e-06
		 Identities = 24/137 (17%), Positives = 54/137 (39%), Gaps = 24/137 (17%)
		
		Query: 360 LSIETRRLQLRIMMSHSLPLIRADISMIERVITNLLDNAVRH----TPPEGSIRLKVWQE 415
		           L + + + + R+   + +     D+ +   ++  L++N ++H     P  G I LK  ++
		Sbjct: 229 LQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKD 288
		
		Query: 416 DNRLHVEVADSGPGLTEDMRTHLFRRASVLCHEPSEEPRGGLGLLIVRRMLVLHGGD--- 472
		           +  + +EV ++G    +                 + +   G GL  VR  L +  G    
		Sbjct: 289 NGTVTLEVENTGSLALK-----------------NTKESTGTGLQNVRERLQMLYGTEAQ 331
		
		Query: 473 IRLTDSTTGACFRFFLP 489
		           I+L++          +P
		Sbjct: 332 IKLSEKQGKVNAMVLIP 348
		
		
	3483#c3565	HTHFIS#FIS bacterial regulatory protein HTH signature.	90	1e-22
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 89.5 bits (222), Expect = 1e-22
		 Identities = 35/129 (27%), Positives = 60/129 (46%)
		
		Query: 7   KILLMEDDYDIAALLRLNLQDEGYQIVHEADGARARLLLDKQTWDAVILDLMLPNVNGLE 66
		            IL+ +DD  I  +L   L   GY +   ++ A     +     D V+ D+++P+ N  +
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 67  ICRYIRQMTRYLPVIIISARTSETHRVLGLEMGADDYLPKPFSIPELIARIKALFRRQEA 126
		           +   I++    LPV+++SA+ +    +   E GA DYLPKPF + ELI  I       + 
		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124
		
		Query: 127 MGQNILLAG 135
		               +    
		Sbjct: 125 RPSKLEDDS 133
		
		
	3487#c3569	RTXTOXINC#Gram-negative bacterial RTX toxin-activating protein C...	317	e-114
		>RTXTOXINC#Gram-negative bacterial RTX toxin-activating protein C
		           signature.
		          Length = 170
		
		 Score =  317 bits (815), Expect = e-114
		 Identities = 161/170 (94%), Positives = 167/170 (98%)
		
		Query: 55  MNMNNPLEVLGHVSWLWASSPLHRNWPVSLFAINVLPAIRANQYALLTRDNYPVAYCSWA 114
		           MN+N PLE+LGHVSWLWASSPLHRNWPVSLFAINVLPAI+ANQY LLTRD+YPVAYCSWA
		Sbjct: 1   MNINKPLEILGHVSWLWASSPLHRNWPVSLFAINVLPAIQANQYVLLTRDDYPVAYCSWA 60
		
		Query: 115 NLSLENEIKYLNDVTSLVAEDWTSGDRKWFIDWIAPFGDNGALYKYMRKKFPDELFRAIR 174
		           NLSLENEIKYLNDVTSLVAEDWTSGDRKWFIDWIAPFGDNGALYKYMRKKFPDELFRAIR
		Sbjct: 61  NLSLENEIKYLNDVTSLVAEDWTSGDRKWFIDWIAPFGDNGALYKYMRKKFPDELFRAIR 120
		
		Query: 175 VDPKTHVGKVSEFHGGKIDKQLANKIFKQYYHELITEVKNKTDFNFSLTG 224
		           VDPKTHVGKVSEFHGGKIDKQLANKIFKQY+HELITEVK K+DFNFSLTG
		Sbjct: 121 VDPKTHVGKVSEFHGGKIDKQLANKIFKQYHHELITEVKRKSDFNFSLTG 170
		
		
	3488#c3570	RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family...	1484	0.0
		>RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family
		            signature.
		          Length = 1024
		
		 Score = 1484 bits (3843), Expect = 0.0
		 Identities = 988/1024 (96%), Positives = 1001/1024 (97%)
		
		Query: 1    MPTITTAQIKSTLQSAKQSSANKLHSAGQSTKDALKKAAEQTRNAGNRLILLIPKDYKGQ 60
		            M TITTAQIKSTLQSAKQS+ANKLHSAGQSTKDALKKAAEQTRNAGNRLILLIPKDYKGQ
		Sbjct: 1    MTTITTAQIKSTLQSAKQSAANKLHSAGQSTKDALKKAAEQTRNAGNRLILLIPKDYKGQ 60
		
		Query: 61   GSSLNDLVRTADELGIEVQYDEKNGTAITKQVFGTAEKLIGLTERGVTIFAPQLDKLLQK 120
		            GSSLNDLVRTADELGIEVQYDEKNGTAITKQVFGTAEKLIGLTERGVTIFAPQLDKLLQK
		Sbjct: 61   GSSLNDLVRTADELGIEVQYDEKNGTAITKQVFGTAEKLIGLTERGVTIFAPQLDKLLQK 120
		
		Query: 121  YQKAGNKLGGSAENIGDNLGKAGSVLSTFQNFLGTALSSMKIDELIKRQKSGSNVSSSEL 180
		            YQKAGN LGG AENIGDNLGKAG +LSTFQNFLGTALSSMKIDELIK+QKSG NVSSSEL
		Sbjct: 121  YQKAGNILGGGAENIGDNLGKAGGILSTFQNFLGTALSSMKIDELIKKQKSGGNVSSSEL 180
		
		Query: 181  AKASIELINQLVDTAASINNNVNSFSQQLNKLGSVLSNTKHLTGVGNKLQNLPNLDNIGA 240
		            AKASIELINQLVDT AS+NNNVNSFSQQLN LGSVLSNTKHL GVGNKLQNLPNLDNIGA
		Sbjct: 181  AKASIELINQLVDTVASLNNNVNSFSQQLNTLGSVLSNTKHLNGVGNKLQNLPNLDNIGA 240
		
		Query: 241  GLDTVSGILSAISASFILSNADADTGTKAAAGVELTTKVLGNVGKGISQYIIAQRAAQGL 300
		            GLDTVSGILSAISASFILSNADADT TKAAAGVELTTKVLGNVGKGISQYIIAQRAAQGL
		Sbjct: 241  GLDTVSGILSAISASFILSNADADTRTKAAAGVELTTKVLGNVGKGISQYIIAQRAAQGL 300
		
		Query: 301  STSAAAAGLIASVVTLAISPLSFLSIADKFKRANKIEEYSQRFKKLGYDGDSLLAAFHKE 360
		            STSAAAAGLIAS VTLAISPLSFLSIADKFKRANKIEEYSQRFKKLGYDGDSLLAAFHKE
		Sbjct: 301  STSAAAAGLIASAVTLAISPLSFLSIADKFKRANKIEEYSQRFKKLGYDGDSLLAAFHKE 360
		
		Query: 361  TGAIDASLTTISTVLASVSSGISAAATTSLVGAPVSALVGAVTGIISGILEASKQAMFEH 420
		            TGAIDASLTTISTVLASVSSGISAAATTSLVGAPVSALVGAVTGIISGILEASKQAMFEH
		Sbjct: 361  TGAIDASLTTISTVLASVSSGISAAATTSLVGAPVSALVGAVTGIISGILEASKQAMFEH 420
		
		Query: 421  VASKMADVIAEWEKKHGKNYFENGYDARHAAFLEDNFKILSQYNKEYSVERSVLITQQHW 480
		            VASKMADVIAEWEKKHGKNYFENGYDARHAAFLEDNFKILSQYNKEYSVERSVLITQQHW
		Sbjct: 421  VASKMADVIAEWEKKHGKNYFENGYDARHAAFLEDNFKILSQYNKEYSVERSVLITQQHW 480
		
		Query: 481  DTLIGELAGVTRNGDKTLSGKSYIDYYEEGKRLEKKPDEFQKQVFDPLKGNIDLSDSKSS 540
		            DTLIGELAGVTRNGDKTLSGKSYIDYYEEGKRLEKK DEFQKQVFDPLKGNIDLSDSKSS
		Sbjct: 481  DTLIGELAGVTRNGDKTLSGKSYIDYYEEGKRLEKKXDEFQKQVFDPLKGNIDLSDSKSS 540
		
		Query: 541  TLLKFVTPLLTPGEEIRERRQSGKYEYITELLVKGVDKWTVKGVQDKGSVYDYSNLIQHA 600
		            TLLKFVTPLLTPGEEIRERRQSGKYEYITELLVKGVDKWTVKGVQDKG+VYDYSNLIQHA
		Sbjct: 541  TLLKFVTPLLTPGEEIRERRQSGKYEYITELLVKGVDKWTVKGVQDKGAVYDYSNLIQHA 600
		
		Query: 601  SVGNNQYREIRIESHLGDGDDKVFLSAGSANIYAGKGHDVVYYDKTDTGYLTIDGTKATE 660
		            SVGNNQYREIRIESHLGDGDDKVFLSAGSANIYAGKGHDVVYYDKTDTGYLTIDGTKATE
		Sbjct: 601  SVGNNQYREIRIESHLGDGDDKVFLSAGSANIYAGKGHDVVYYDKTDTGYLTIDGTKATE 660
		
		Query: 661  AGNYTVTRVLGGDVKILQEVVKEQEVSVGKRTEKTQYRSYEFTHINGKNLTETDNLYSVE 720
		            AGNYTVTRVLGGDVK+LQEVVKEQEVSVGKRTEKTQYRSYEFTHINGKNLTETDNLYSVE
		Sbjct: 661  AGNYTVTRVLGGDVKVLQEVVKEQEVSVGKRTEKTQYRSYEFTHINGKNLTETDNLYSVE 720
		
		Query: 721  ELIGTTRADKFFGSKFTDIFHGADGDDHIEGNDGNDRLYGDKGNDTLRGGNGDDQLYGGD 780
		            ELIGTTRADKFFGSKFTDIFHGADGDD IEGNDGNDRLYGDKGNDTL GGNGDDQLYGGD
		Sbjct: 721  ELIGTTRADKFFGSKFTDIFHGADGDDLIEGNDGNDRLYGDKGNDTLSGGNGDDQLYGGD 780
		
		Query: 781  GNDKLIGGTGNNYLNGGDGDDELQVQGNSLAKNVLSGGKGNDKLYGSEGADLLDGGEGND 840
		            GNDKLIG  GNNYLNGGDGDDE QVQGNSLAKNVL GGKGNDKLYGSEGADLLDGGEG+D
		Sbjct: 781  GNDKLIGVAGNNYLNGGDGDDEFQVQGNSLAKNVLFGGKGNDKLYGSEGADLLDGGEGDD 840
		
		Query: 841  LLKGGYGNDIYRYLSGYGHHIIDDDGGKDDKLSLADIDFRDVAFRREGNDLIMYKAEGNV 900
		            LLKGGYGNDIYRYLSGYGHHIIDDDGGK+DKLSLADIDFRDVAF+REGNDLIMYK EGNV
		Sbjct: 841  LLKGGYGNDIYRYLSGYGHHIIDDDGGKEDKLSLADIDFRDVAFKREGNDLIMYKGEGNV 900
		
		Query: 901  LSIGHKNGITFRNWFEKESGDISNHQIEQIFDKDGRVITPDSLKKALEYQQSNNKASYVY 960
		            LSIGHKNGITFRNWFEKESGDISNH+IEQIFDK GR+ITPDSLKKALEYQQ NNKASYVY
		Sbjct: 901  LSIGHKNGITFRNWFEKESGDISNHEIEQIFDKSGRIITPDSLKKALEYQQRNNKASYVY 960
		
		Query: 961  GNDALAYGSQDNLNPLINEISKIISAAGNFDVKEERAAASLLQLSGNASDFSYGRNSITL 1020
		            GNDALAYGSQ +LNPLINEISKIISAAG+FDVKEER AASLLQLSGNASDFSYGRNSITL
		Sbjct: 961  GNDALAYGSQGDLNPLINEISKIISAAGSFDVKEERTAASLLQLSGNASDFSYGRNSITL 1020
		
		Query: 1021 TASA 1024
		            T SA
		Sbjct: 1021 TTSA 1024
		
		
c3583	c3591	N	Y	N	c3568	c3607
	c3583	7	39	-3.470348	PapG protein
	c3584	7	39	-2.560297	PapF protein
	c3585	5	33	-0.463753	PapE protein
	c3586	5	31	0.518206	PapK protein
	c3587	5	30	-0.808310	Hypothetical protein
	c3588	5	30	-1.398392	PapJ protein
	c3589	4	26	-1.723957	PapD protein
	c3590	4	25	-0.756002	PapC protein
	c3591	3	29	-2.245794	PapH protein
	3501#c3583	PF03627#PapG	603	0.0
		>PF03627#PapG
		          Length = 336
		
		 Score =  603 bits (1555), Expect = 0.0
		 Identities = 333/336 (99%), Positives = 335/336 (99%)
		
		Query: 1   MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT 60
		           MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT
		Sbjct: 1   MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT 60
		
		Query: 61  WNQCNGPEFADGSWAYYREYIAWVVFPKKVMTKNGYPLFIEVHNKGSWSEENTGDNDSYF 120
		           WNQCNGP FADGSWAYYREYIAWVVFPKKVMTKNGYPLFIEVHNKGSWSEENTGDNDSYF
		Sbjct: 61  WNQCNGPGFADGSWAYYREYIAWVVFPKKVMTKNGYPLFIEVHNKGSWSEENTGDNDSYF 120
		
		Query: 121 FLKGYKWDERAFDAGNLCQKPGETTRLTEKFNDIIFKVALPADLPLGDYSVTIPYTSGIQ 180
		           FLKGYKWDERAFDAGNLCQKPGETTRLTEKF+DIIFKVALPADLPLGDYSVTIPYTSG+Q
		Sbjct: 121 FLKGYKWDERAFDAGNLCQKPGETTRLTEKFDDIIFKVALPADLPLGDYSVTIPYTSGMQ 180
		
		Query: 181 RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY 240
		           RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY
		Sbjct: 181 RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY 240
		
		Query: 241 AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY 300
		           AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY
		Sbjct: 241 AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY 300
		
		Query: 301 KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP 336
		           KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP
		Sbjct: 301 KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP 336
		
		
	3502#c3584	FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein...	267	5e-95
		>FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein
		           signature.
		          Length = 167
		
		 Score =  267 bits (683), Expect = 5e-95
		 Identities = 155/167 (92%), Positives = 156/167 (93%), Gaps = 1/167 (0%)
		
		Query: 11  MARLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE 70
		           M RLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE
		Sbjct: 1   MIRLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE 60
		
		Query: 71  VTKTISISCTYKSGSPWIKVTGNAMA-GQTNVLATNIANFGIALYQGKGMSTPLTLGNGS 129
		           VTK ISISC YKSGS WIKVTGN M  GQ NVLATNI +FGIALYQGKGMSTPLTLGNGS
		Sbjct: 61  VTKNISISCPYKSGSLWIKVTGNTMGVGQNNVLATNITHFGIALYQGKGMSTPLTLGNGS 120
		
		Query: 130 GNGYRVTAGLDTARSTFTFTSVPFRNGSRTLNGGDFRTTASMSMIYN 176
		           GNGYRVTAGLDTARSTFTFTSVPFRNGS  LNGGDFRTTASMSMIYN
		Sbjct: 121 GNGYRVTAGLDTARSTFTFTSVPFRNGSGILNGGDFRTTASMSMIYN 167
		
		
	3503#c3585	FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein...	306	e-110
		>FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein
		           signature.
		          Length = 173
		
		 Score =  306 bits (784), Expect = e-110
		 Identities = 128/173 (73%), Positives = 145/173 (83%)
		
		Query: 7   MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVTKAEVDWGNVEIQTLSQNG 66
		           MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTV  AEV+WG++EIQ L Q+G
		Sbjct: 1   MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVQNAEVNWGDIEIQNLVQSG 60
		
		Query: 67  NHEKEFTVNMQCPYHLGTMKVTITATNTYNNAILVQNTSNTSSDGVLVYLYNSNAGNIGT 126
		            ++K+FTV+M CPY LGTMKVTIT+     N+ILV NTS  S DG+L+YLYNSN   IG 
		Sbjct: 61  GNQKDFTVDMNCPYSLGTMKVTITSNGQTGNSILVPNTSTASGDGLLIYLYNSNNSGIGN 120
		
		Query: 127 AITLGTPFTPGKITGNNADRTISLHAKLGYKGNMQSLKAGDFSATATLVASYS 179
		           A+TLG+  TPGKITG    R I+L+AKLGYKGNMQSL+AG FSATATLVASYS
		Sbjct: 121 AVTLGSQVTPGKITGTAPARKITLYAKLGYKGNMQSLQAGTFSATATLVASYS 173
		
		
	3508#c3590	PF00577#Outer membrane usher protein FimD	742	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score =  742 bits (1917), Expect = 0.0
		 Identities = 243/882 (27%), Positives = 362/882 (41%), Gaps = 67/882 (7%)
		
		Query: 2   MRGMKDRI-PFAVNNITCVILLSLFCNAASAVEFNTDVLDAADKKNIDFTRFSEAGYVLP 60
		           +   K R+  F V         +    +++ + FN   L    +   D +RF     + P
		Sbjct: 16  LHIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQAVADLSRFENGQELPP 75
		
		Query: 61  GQYLLDVIVNGQSISPASLQISFVEPQSSGDKAEKKLPQACLTSDMVRLMGLTAESLDKV 120
		           G Y +D+ +N   +  A+  ++F    S            CLT   +  MGL   S+  +
		Sbjct: 76  GTYRVDIYLNNGYM--ATRDVTFNTGDSEQGI------VPCLTRAQLASMGLNTASVSGM 127
		
		Query: 121 VYWHDGQCADF-HGLPGVDIRPDTGAGVLRINMPQAWLEYSDATWLPPSRWDDGIPGLML 179
		               D  C      +     + D G   L + +PQA++      ++PP  WD GI   +L
		Sbjct: 128 NLLADDACVPLTSMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLL 187
		
		Query: 180 DYNLNGTVSRNYQGGDSHQFSYNGTVGGNLGPWRLRADYQGSQEQSRYNGEKTTNRNFTW 239
		           +YN +G   +N  GG+SH    N   G N+G WRLR +   S   S  +    +   +  
		Sbjct: 188 NYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSS--DSSSGSKNKWQH 245
		
		Query: 240 SRFYLFRAIPRWRANLTLGENNINSDIFRSWSYTGASLESDDRMLPPRLRGYAPQITGIA 299
		              +L R I   R+ LTLG+     DIF   ++ GA L SDD MLP   RG+AP I GIA
		Sbjct: 246 INTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIA 305
		
		Query: 300 ETNARVVVSQQGRVLYDSMVPAGPFSIQDLD-SSVRGRLDVEVIEQNGRKKTFQVDTASV 358
		              A+V + Q G  +Y+S VP GPF+I D+  +   G L V + E +G  + F V  +SV
		Sbjct: 306 RGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSV 365
		
		Query: 359 PYLTRPGQVRYKLVSGRSRGYGHETEGPVFATGEASWGLSNQWSLYGGAVLAGDYNALAA 418
		           P L R G  RY + +G  R    + E P F       GL   W++YGG  LA  Y A   
		Sbjct: 366 PLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRYRAFNF 425
		
		Query: 419 GAGWDLGVPGTLSADITQSVARIEGERTFQGKSWRLSYSKRFDNADADITFAGYRFSERN 478
		           G G ++G  G LS D+TQ+ + +  +    G+S R  Y+K  + +  +I   GYR+S   
		Sbjct: 426 GIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSG 485
		
		Query: 479 YMTMEQYLNARYR--------------------NDYSSREKEMYTVTLNKNVADWNTSFN 518
		           Y        +R                       + +  ++    +T+ + +   + +  
		Sbjct: 486 YFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRTS-TLY 544
		
		Query: 519 LQYSRQTYWDIRKTD-YYTVSVNRYFNVFGLQGVAVGLSASRSKYLGRD--NDSAYLRIS 575
		           L  S QTYW     D  +   +N  F       +   LS S +K   +   +    L ++
		Sbjct: 545 LSGSHQTYWGTSNVDEQFQAGLNTAFE-----DINWTLSYSLTKNAWQKGRDQMLALNVN 599
		
		Query: 576 VPLGT------------GTASYSGSMSND-RYVNMAGYTDM-FNDGLDSYSLNAGLNSGG 621
		           +P                +ASYS S   + R  N+AG       D   SYS+  G   GG
		Sbjct: 600 IPFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGG 659
		
		Query: 622 GLTSQRQINAYYSHRSPLANLSANIASLQKGYTSFGVSASGGATITGKGAALHAGGMSGG 681
		              S     A  ++R    N +    S            SGG      G  L  G     
		Sbjct: 660 DGNSGSTGYATLNYRGGYGNANIG-YSHSDDIKQLYYGVSGGVLAHANGVTL--GQPLND 716
		
		Query: 682 TRLLVDTDGVGGVPVDGGQVV-TNRWGTGVVTDISSYYRNTTSVDLKRLPDDVEATRSVV 740
		           T +LV   G     V+    V T+  G  V+   + Y  N  ++D   L D+V+   +V 
		Sbjct: 717 TVVLVKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVA 776
		
		Query: 741 ESALTEGAIGYRKFSVLKGKRLFAILRLADGSQPPFGASVTSEKGRELGMVADEGLAWLS 800
		               T GAI   +F    G +L   L   +    PFGA VTSE  +  G+VAD G  +LS
		Sbjct: 777 NVVPTRGAIVRAEFKARVGIKLLMTLT-HNNKPLPFGAMVTSESSQSSGIVADNGQVYLS 835
		
		Query: 801 GVTPGETLSVNW--DGKIQCQVNVPETAISDQQLL----LPC 836
		           G+     + V W  +    C  N      S QQLL      C
		Sbjct: 836 GMPLAGKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAEC 877
		
		
	3509#c3591	FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein...	32	0.001
		>FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein
		           signature.
		          Length = 173
		
		 Score = 31.5 bits (71), Expect = 0.001
		 Identities = 41/173 (23%), Positives = 75/173 (43%), Gaps = 29/173 (16%)
		
		Query: 29  GMSLPEYWG----EEHVWWDGRAAFHGEVVRPACTLAMEDAWQIIDMGETPVRDL-QNGF 83
		           G+ LP   G     +HV       F G+++ PACT+   +    ++ G+  +++L Q+G 
		Sbjct: 6   GLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVQNAE----VNWGDIEIQNLVQSG- 60
		
		Query: 84  SGPERKFSLRLRNCEFNSQGGNLFSDSRIRVTFDGVRGET---PDKFNLSGQAKGINLQI 140
		            G ++ F++ + NC ++          ++ +T +G  G +   P+    SG    I L  
		Sbjct: 61  -GNQKDFTVDM-NCPYS------LGTMKVTITSNGQTGNSILVPNTSTASGDGLLIYLYN 112
		
		Query: 141 ADARGNIARAGKV-MPAIP--LTGNEEALDYTLRIVR----NGKKLEAGNYFA 186
		           ++    I  A  +     P  +TG   A   TL        N + L+AG + A
		Sbjct: 113 SNN-SGIGNAVTLGSQVTPGKITGTAPARKITLYAKLGYKGNMQSLQAGTFSA 164
		
		
c3989	c3996	N	Y	N	c3974	c4013
	c3989	-2	17	-0.772182	Protease degQ precursor
	c3990	-3	14	-0.682769	Protease degS precursor
	c3991	-1	14	-0.713928	Malate dehydrogenase
	c3992	-2	12	-0.998857	Arginine repressor
	c3993	-2	13	-0.429572	Hypothetical protein yhcN precursor
	c3994	-2	13	0.577689	Hypothetical protein yhcO
	c3995	-3	11	1.461312	Hypothetical protein yhcP
	c3996	-2	10	1.615520	Hypothetical protein yhcQ
	3898#c3989	V8PROTEASE#V8 serine protease family signature.	73	3e-16
		>V8PROTEASE#V8 serine protease family signature.
		          Length = 336
		
		 Score = 73.1 bits (179), Expect = 3e-16
		 Identities = 30/184 (16%), Positives = 63/184 (34%), Gaps = 38/184 (20%)
		
		Query: 104 GLGSGVIINANKGYVLTNNHVINQAQKISIQL------------NDGREFDAKLIGSDDQ 151
		            + SGV++  +   +LTN HV++        L             +G     ++     +
		Sbjct: 102 FIASGVVVGKDT--LLTNKHVVDATHGDPHALKAFPSAINQDNYPNGGFTAEQITKYSGE 159
		
		Query: 152 SDIALLQIQN-------PSKLTQIAIADSDKLRVGDFAVAVGNPFGLGQTATSGIISALG 204
		            D+A+++             +    ++++ + +V       G P           ++ + 
		Sbjct: 160 GDLAIVKFSPNEQNKHIGEVVKPATMSNNAETQVNQNITVTGYPGDKP-------VATMW 212
		
		Query: 205 RSGLNLEGLEN-FIQTDASINRGNSGGALLNLNGELIGINTAILAPGGGSVGIGFAIPSN 263
		            S   +  L+   +Q D S   GNSG  + N   E+IGI+           G+       
		Sbjct: 213 ESKGKITYLKGEAMQYDLSTTGGNSGSPVFNEKNEVIGIHWG---------GVPNEFNGA 263
		
		Query: 264 MART 267
		           +   
		Sbjct: 264 VFIN 267
		
		
	3899#c3990	V8PROTEASE#V8 serine protease family signature.	53	6e-10
		>V8PROTEASE#V8 serine protease family signature.
		          Length = 336
		
		 Score = 53.1 bits (127), Expect = 6e-10
		 Identities = 33/160 (20%), Positives = 61/160 (38%), Gaps = 26/160 (16%)
		
		Query: 77  RTLGSGVIMDQRGYIITNKHVINDADQIIVALQ------------DGRVFEALLVGSDSL 124
		             + SGV++  +  ++TNKHV++       AL+            +G      +      
		Sbjct: 101 TFIASGVVVG-KDTLLTNKHVVDATHGDPHALKAFPSAINQDNYPNGGFTAEQITKYSGE 159
		
		Query: 125 TDLAVLKINATGGLPTIP--INPRRVPH-----IGDVVLAIGNPYNLGQTITQGIISATG 177
		            DLA++K +       I   + P  + +     +   +   G P +     T     + G
		Sbjct: 160 GDLAIVKFSPNEQNKHIGEVVKPATMSNNAETQVNQNITVTGYPGD-KPVATMW--ESKG 216
		
		Query: 178 RIGLNPTGRQNFLQTDASINHGNSGGALVNSLGELMGINT 217
		           +I      +   +Q D S   GNSG  + N   E++GI+ 
		Sbjct: 217 KI---TYLKGEAMQYDLSTTGGNSGSPVFNEKNEVIGIHW 253
		
		
	3900#c3991	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	28	0.036
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score = 28.5 bits (63), Expect = 0.036
		 Identities = 37/167 (22%), Positives = 61/167 (36%), Gaps = 27/167 (16%)
		
		Query: 25  VAVLGAAGGIGQALALLLKTQLPSGSELSLYDIAPVTPGVAVDLSHIPTAVKIKGFSGED 84
		             + GAA GIG+A+A  L      G+ ++  D  P      V  S    A   + F  + 
		Sbjct: 11  AFITGAAQGIGEAVARTL---ASQGAHIAAVDYNP-EKLEKVVSSLKAEARHAEAFPADV 66
		
		Query: 85  ATPA------------LEGADVVLISAGVARK------PGMDRSDLFNVNAGIVKNLVQQ 126
		              A            +   D+++  AGV R          +    F+VN+  V N  + 
		Sbjct: 67  RDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRS 126
		
		Query: 127 VAKTCPK----ACIGIITNPVNTT-VAIAAEVLKKAGVYDKNKLFGV 168
		           V+K        + + + +NP      ++AA    KA      K  G+
		Sbjct: 127 VSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGL 173
		
		
	3901#c3992	ARGREPRESSOR#Bacterial arginine repressor signature.	168	9e-57
		>ARGREPRESSOR#Bacterial arginine repressor signature.
		          Length = 149
		
		 Score =  168 bits (428), Expect = 9e-57
		 Identities = 44/141 (31%), Positives = 71/141 (50%), Gaps = 5/141 (3%)
		
		Query: 15  KALLKEEKFSSQGEIVAALQEQGFDNINQSKVSRMLTKFGAVRTRNAKMEMVYCLPAELG 74
		           + ++   +  +Q E+V  L++ G+ N+ Q+ VSR + +   V+         Y LPA+  
		Sbjct: 11  REIITANEIETQDELVDILKKDGY-NVTQATVSRDIKELHLVKVPTNNGSYKYSLPADQR 69
		
		Query: 75  VPTTSSPLKNLV---LDIDYNDAVVVIHTSPGAAQLIARLLDSLGKAEGILGTIAGDDTI 131
		               S   ++L+   + ID    ++V+ T PG AQ I  L+D+L   E I+GTI GDDTI
		Sbjct: 70  FNPLSKLKRSLMDAFVKIDSASHLIVLKTMPGNAQAIGALMDNLDWEE-IMGTICGDDTI 128
		
		Query: 132 FTTPANGFTVKELYEAILELF 152
		                     K + + ILEL 
		Sbjct: 129 LIICRTHDDTKVVQKKILELL 149
		
		
	3905#c3996	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	54	2e-10
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 54.4 bits (131), Expect = 2e-10
		 Identities = 29/163 (17%), Positives = 59/163 (36%), Gaps = 16/163 (9%)
		
		Query: 6   RKFSRTAITVVLVILAFIAIFNAWVYYTE----SPWTRDARFSADVVAIAPDVSGLITQV 61
		              SR    V   I+ F+ I        +    +        S     I P  + ++ ++
		Sbjct: 51  TPVSRRPRLVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKEIKPIENSIVKEI 110
		
		Query: 62  NVHDNQLVKKGQVLFTIDQPR-------YQKALEEAQADVAYYQVLAQEKRQEAGRRNRL 114
		            V + + V+KG VL  +            Q +L +A+ +   YQ+L++    E  +   L
		Sbjct: 111 IVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRS--IELNKLPEL 168
		
		Query: 115 GVQAMSREEIDQANNVL---QTVLHQLAKAQATRDLAKLDLER 154
		            +      +      VL     +  Q +  Q  +   +L+L++
		Sbjct: 169 KLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDK 211
		
		
		
		 Score = 51.4 bits (123), Expect = 2e-09
		 Identities = 28/147 (19%), Positives = 54/147 (36%), Gaps = 15/147 (10%)
		
		Query: 100 LAQEKRQEAGRRNRLGVQ-AMSREEIDQANNVLQT-VLHQLAKAQAT-------RDLAKL 150
		              E R    +  ++  +   ++EE      + +  +L +L +               + 
		Sbjct: 264 AVNELRVYKSQLEQIESEILSAKEEYQLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEE 323
		
		Query: 151 DLERTVIRAPADGWVTNLNVYT-GEFITRGSTAVALVKQNSFY-VLAYMEETKLEGVRPG 208
		             + +VIRAP    V  L V+T G  +T   T + +V ++    V A ++   +  +  G
		Sbjct: 324 RQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVG 383
		
		Query: 209 YRAEIT----PLGSNKVLKGTVDSVAA 231
		             A I     P      L G V ++  
		Sbjct: 384 QNAIIKVEAFPYTRYGYLVGKVKNINL 410
		
		
c4005	c4011	N	Y	N	c3990	c4029
	c4005	-3	12	1.278380	Rod shape-determining protein mreC
	c4006	-3	13	0.463201	Rod shape-determining protein mreB
	c4007	-2	14	0.365735	Hypothetical protein
	c4008	-2	10	0.197855	Hypothetical protein yhdA
	c4009	-2	14	0.048475	Protein yhdH
	c4010	-1	14	-2.612532	Hypothetical protein
	c4011	0	13	-3.228325	Biotin carboxyl carrier protein of acetyl-CoA
	3914#c4005	PF03544#Gram-negative bacterial tonB protein	28	0.043
		>PF03544#Gram-negative bacterial tonB protein
		          Length = 243
		
		 Score = 28.4 bits (63), Expect = 0.043
		 Identities = 12/72 (16%), Positives = 20/72 (27%), Gaps = 3/72 (4%)
		
		Query: 296 MMPQVLPSPDAMGPKLPEPATGITQPTPQQPATGNAVTAPAAPTQPAANRSPQRATPPQS 355
		             P+ +P P    P + E      +P P+       V  P    +P  +R          
		Sbjct: 78  PEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVK---KVEQPKRDVKPVESRPASPFENTAP 134
		
		Query: 356 GAQPPARAPGGQ 367
		                + A    
		Sbjct: 135 ARPTSSTATAAT 146
		
		
	3915#c4006	SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein s...	580	0.0
		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein
		           signature.
		          Length = 347
		
		 Score =  580 bits (1498), Expect = 0.0
		 Identities = 347/347 (100%), Positives = 347/347 (100%)
		
		Query: 26  MLKKFRGMFSNDLSIDLGTANTLIYVKGQGIVLNEPSVVAIRQDRAGSPKSVAAVGHDAK 85
		           MLKKFRGMFSNDLSIDLGTANTLIYVKGQGIVLNEPSVVAIRQDRAGSPKSVAAVGHDAK
		Sbjct: 1   MLKKFRGMFSNDLSIDLGTANTLIYVKGQGIVLNEPSVVAIRQDRAGSPKSVAAVGHDAK 60
		
		Query: 86  QMLGRTPGNIAAIRPMKDGVIADFFVTEKMLQHFIKQVHSNSFMRPSPRVLVCVPVGATQ 145
		           QMLGRTPGNIAAIRPMKDGVIADFFVTEKMLQHFIKQVHSNSFMRPSPRVLVCVPVGATQ
		Sbjct: 61  QMLGRTPGNIAAIRPMKDGVIADFFVTEKMLQHFIKQVHSNSFMRPSPRVLVCVPVGATQ 120
		
		Query: 146 VERRAIRESAQGAGAREVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLNG 205
		           VERRAIRESAQGAGAREVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLNG
		Sbjct: 121 VERRAIRESAQGAGAREVFLIEEPMAAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLNG 180
		
		Query: 206 VVYSSSVRIGGDRFDEAIINYVRRNYGSLIGEATAERIKHEIGSAYPGDEVREIEVRGRN 265
		           VVYSSSVRIGGDRFDEAIINYVRRNYGSLIGEATAERIKHEIGSAYPGDEVREIEVRGRN
		Sbjct: 181 VVYSSSVRIGGDRFDEAIINYVRRNYGSLIGEATAERIKHEIGSAYPGDEVREIEVRGRN 240
		
		Query: 266 LAEGVPRGFTLNSNEILEALQEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGALL 325
		           LAEGVPRGFTLNSNEILEALQEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGALL
		Sbjct: 241 LAEGVPRGFTLNSNEILEALQEPLTGIVSAVMVALEQCPPELASDISERGMVLTGGGALL 300
		
		Query: 326 RNLDRLLMEETGIPVVVAEDPLTCVARGGGKALEMIDMHGGDLFSEE 372
		           RNLDRLLMEETGIPVVVAEDPLTCVARGGGKALEMIDMHGGDLFSEE
		Sbjct: 301 RNLDRLLMEETGIPVVVAEDPLTCVARGGGKALEMIDMHGGDLFSEE 347
		
		
	3918#c4009	NUCEPIMERASE#Nucleotide sugar epimerase signature.	29	0.026
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score = 29.0 bits (65), Expect = 0.026
		 Identities = 11/28 (39%), Positives = 17/28 (60%)
		
		Query: 150 VVVTGASGGVGSTAVALLHKLGYQVVAV 177
		            +VTGA+G +G      L + G+QVV +
		Sbjct: 3   YLVTGAAGFIGFHVSKRLLEAGHQVVGI 30
		
		
	3920#c4011	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	27	0.026
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 27.5 bits (61), Expect = 0.026
		 Identities = 8/27 (29%), Positives = 16/27 (59%)
		
		Query: 127 IEADKSGTVKAILVESGQPVEFDEPLV 153
		           I+  ++  VK I+V+ G+ V   + L+
		Sbjct: 99  IKPIENSIVKEIIVKEGESVRKGDVLL 125
		
		
c4027	c4032	N	Y	N	c4012	c4053
	c4027	-2	10	-1.792068	DNA-binding protein fis
	c4028	-3	10	-1.500723	Hypothetical adenine-specific methylase yhdJ
	c4029	-4	12	-1.255443	Hypothetical protein yhdU
	c4030	-3	13	-1.022500	Potential acrEF/envCD operon repressor
	c4031	-3	12	-0.199088	Acriflavine resistance protein E precursor
	c4032	-3	14	-0.815798	Acriflavine resistance protein F
	3936#c4027	DNABINDNGFIS#DNA-binding protein FIS signature.	157	3e-54
		>DNABINDNGFIS#DNA-binding protein FIS signature.
		          Length = 98
		
		 Score =  157 bits (399), Expect = 3e-54
		 Identities = 98/98 (100%), Positives = 98/98 (100%)
		
		Query: 1  MFEQRVNSDVLTVSTVNSQDQVTQKPLRDSVKQALKNYFAQLNGQDVNDLYELVLAEVEQ 60
		          MFEQRVNSDVLTVSTVNSQDQVTQKPLRDSVKQALKNYFAQLNGQDVNDLYELVLAEVEQ
		Sbjct: 1  MFEQRVNSDVLTVSTVNSQDQVTQKPLRDSVKQALKNYFAQLNGQDVNDLYELVLAEVEQ 60
		
		Query: 61 PLLDMVMQYTRGNQTRAALMMGINRGTLRKKLKKYGMN 98
		          PLLDMVMQYTRGNQTRAALMMGINRGTLRKKLKKYGMN
		Sbjct: 61 PLLDMVMQYTRGNQTRAALMMGINRGTLRKKLKKYGMN 98
		
		
	3939#c4030	HTHTETR#TetR bacterial regulatory protein HTH signature.	128	3e-39
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score =  128 bits (323), Expect = 3e-39
		 Identities = 76/209 (36%), Positives = 122/209 (58%), Gaps = 3/209 (1%)
		
		Query: 1   MAKRTKAKALKTRQELIETAIAQFAQHGVSKTTLNDIADAANVTRGAIYWHFENKTQLFN 60
		           MA++TK +A +TRQ +++ A+  F+Q GVS T+L +IA AA VTRGAIYWHF++K+ LF+
		Sbjct: 1   MARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFS 60
		
		Query: 61  EMW-LQQPSLRELIQDHLTAGLEHDPFQQLREKLIVGLQYIAKIPRQQALLKILYHKCEF 119
		           E+W L + ++ EL  +   A    DP   LRE LI  L+      R++ L++I++HKCEF
		Sbjct: 61  EIWELSESNIGELELE-YQAKFPGDPLSVLREILIHVLESTVTEERRRLLMEIIFHKCEF 119
		
		Query: 120 NDEM-LAEGVIREKMGFNPQTLREVLQACQQQGCVANNLDLDVVMIIIDGAFSGIVQNWL 178
		             EM + +   R     +   + + L+ C +   +  +L      II+ G  SG+++NWL
		Sbjct: 120 VGEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYISGLMENWL 179
		
		Query: 179 MNMAGYDLYKQAPALVDNVLRMFMPDENI 207
		                +DL K+A   V  +L M++    +
		Sbjct: 180 FAPQSFDLKKEARDYVAILLEMYLLCPTL 208
		
		
	3940#c4031	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	43	1e-06
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 43.3 bits (102), Expect = 1e-06
		 Identities = 38/217 (17%), Positives = 70/217 (32%), Gaps = 38/217 (17%)
		
		Query: 98  ATYQASYDSAKGELAKSEAAAAIAHLTVKRYVPLVGTKYISQQEYDQAIADA-RQADAAV 156
		                     K +L + E+    A    +             Q +   I D  RQ    +
		Sbjct: 262 VEAVNELRVYKSQLEQIESEILSAKEEYQLV----------TQLFKNEILDKLRQTTDNI 311
		
		Query: 157 IAAKATVESARINLAYTKVTAPISGRIGK-STVTEGALVTNGQTTELATVQQLDPIYVDV 215
		                 +         + + AP+S ++ +    TEG +VT  +T  +  V + D + V  
		Sbjct: 312 GLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETL-MVIVPEDDTLEVTA 370
		
		Query: 216 TQSSND--FMRLKQSVEQGNLHKENATSNVELVMENGQTYP-LKGTLQ--FSDVTVDEST 270
		              + D  F+ + Q+              +++       Y  L G ++    D   D+  
		Sbjct: 371 LVQNKDIGFINVGQNAI------------IKVEAFPYTRYGYLVGKVKNINLDAIEDQRL 418
		
		Query: 271 GSIT--LRAV------FPNPQHTLLPGMFVRARIDEG 299
		           G +   + ++        N    L  GM V A I  G
		Sbjct: 419 GLVFNVIISIEENCLSTGNKNIPLSSGMAVTAEIKTG 455
		
		
		
		 Score = 34.4 bits (79), Expect = 7e-04
		 Identities = 22/127 (17%), Positives = 43/127 (33%), Gaps = 13/127 (10%)
		
		Query: 46  TAPLEVKTELPGR-TNAYRIAEVRPQVSGIVLNRNFTEGSDVQAGQSLYQIDPATYQASY 104
		              +E+     G+ T++ R  E++P  + IV      EG  V+ G  L ++     +A  
		Sbjct: 77  LGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEA-- 134
		
		Query: 105 DSAKGELAKSEAAAAIAHLTVKRYVPLVGTKYISQQEYDQAIADARQADAAVIAAKATVE 164
		                +  K++++   A L   RY  L         E ++        +           
		Sbjct: 135 -----DTLKTQSSLLQARLEQTRYQIL-----SRSIELNKLPELKLPDEPYFQNVSEEEV 184
		
		Query: 165 SARINLA 171
		               +L 
		Sbjct: 185 LRLTSLI 191
		
		
		
		 Score = 29.0 bits (65), Expect = 0.031
		 Identities = 11/34 (32%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
		
		Query: 65  AEVRPQVSGIVLNRN-FTEGSDVQAGQSLYQIDP 97
		           + +R  VS  V      TEG  V   ++L  I P
		Sbjct: 328 SVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVP 361
		
		
	3941#c4032	ACRIFLAVINRP#Acriflavin resistance protein family signature.	1404	0.0
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score = 1404 bits (3636), Expect = 0.0
		 Identities = 1028/1034 (99%), Positives = 1032/1034 (99%)
		
		Query: 1    MANFFIRRPIFAWVLAIILMIAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60
		            MANFFIRRPIFAWVLAIILM+AGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT
		Sbjct: 1    MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60
		
		Query: 61   VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120
		            VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ
		Sbjct: 61   VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120
		
		Query: 121  EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA 180
		            EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA
		Sbjct: 121  EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFGA 180
		
		Query: 181  QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRL 240
		            QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 
		Sbjct: 181  QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTRF 240
		
		Query: 241  KNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANAL 300
		            KNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANAL
		Sbjct: 241  KNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANAL 300
		
		Query: 301  DTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIQEVVKTLFEAIMLVFLVMYLFLQ 360
		            DTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSI EVVKTLFEAIMLVFLVMYLFLQ
		Sbjct: 301  DTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFLQ 360
		
		Query: 361  NMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVM 420
		            NMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVM
		Sbjct: 361  NMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERVM 420
		
		Query: 421  MEDKLPPREATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMAL 480
		            MEDKLPP+EATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMAL
		Sbjct: 421  MEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMAL 480
		
		Query: 481  SVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGRY 540
		            SVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGRY
		Sbjct: 481  SVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGRY 540
		
		Query: 541  LLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLKN 600
		            LLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLKN
		Sbjct: 541  LLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLKN 600
		
		Query: 601  EKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERSGDENSAEAVIHRAKMELGKIRDG 660
		            EKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEER+GDENSAEAVIHRAKMELGKIRDG
		Sbjct: 601  EKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIRDG 660
		
		Query: 661  FVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPNGL 720
		            FVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPNGL
		Sbjct: 661  FVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPNGL 720
		
		Query: 721  EDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKVYVQADAKFRM 780
		            EDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKK+YVQADAKFRM
		Sbjct: 721  EDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKFRM 780
		
		Query: 781  LPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGDAM 840
		            LPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGDAM
		Sbjct: 781  LPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAAPGTSSGDAM 840
		
		Query: 841  ALMENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSIPVSV 900
		            ALMENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSIPVSV
		Sbjct: 841  ALMENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAALYESWSIPVSV 900
		
		Query: 901  MLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGVV 960
		            MLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGVV
		Sbjct: 901  MLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKDLMEKEGKGVV 960
		
		Query: 961  EATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIFF 1020
		            EATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIFF
		Sbjct: 961  EATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGMVSATLLAIFF 1020
		
		Query: 1021 VPVFFVVIRRCFKG 1034
		            VPVFFVVIRRCFKG
		Sbjct: 1021 VPVFFVVIRRCFKG 1034
		
		
c4095	c4112	N	Y	N	c4080	c4119
	c4095	-1	19	-1.466678	Probable general secretion pathway protein C
	c4096	-1	17	-0.398470	Probable general secretion pathway protein D
	c4097	0	22	-0.071725	Probable general secretion pathway protein E
	c4098	0	23	-0.599696	Putative general secretion pathway protein F
	c4099	1	22	-1.413490	Putative general secretion pathway protein G
	c4100	2	21	-1.781385	Putative general secretion pathway protein H
	c4101	1	22	-2.355176	Probable general secretion pathway protein I
	c4102	2	22	-3.062291	Probable general secretion pathway protein J
	c4103	0	23	-3.396837	Probable general secretion pathway protein K
	c4104	-2	19	-2.720582	Probable general secretion pathway protein L
	c4105	-2	21	-3.432074	Putative general secretion pathway protein M
	c4106	-2	24	-2.105299	Type 4 prepilin-like proteins leader peptide
	c4107	1	35	-1.744807	Bacterioferritin
	c4108	2	37	-1.322833	Bacterioferritin-associated ferredoxin
	c4109	3	39	-1.255093	Probable bifunctional chitinase/lysozyme
	c4110	7	48	-1.265498	Hypothetical protein
	c4111	8	51	-0.397975	Elongation factor Tu
	c4112	6	44	-1.079569	Elongation factor G
	4002#c4095	BCTERIALGSPC#Bacterial general secretion pathway protein C signa...	84	4e-21
		>BCTERIALGSPC#Bacterial general secretion pathway protein C
		           signature.
		          Length = 272
		
		 Score = 83.9 bits (207), Expect = 4e-21
		 Identities = 53/200 (26%), Positives = 94/200 (47%), Gaps = 15/200 (7%)
		
		Query: 59  EFSLAALWRNENHAGVKDANPVAVNQETPKLSIALNGIVLTSNDETSFVLINEGNEQKRY 118
		           +F+L  +   +N AG  DA     N     L+++L G++   +D  S  +I++ NEQ   
		Sbjct: 64  DFTLFGVSPEKNKAGALDA-SQMSNLPPSTLNLSLTGVMAGDDDSRSIAIISKDNEQFSR 122
		
		Query: 119 SLNEALESAPGT--FIRKINKTSVVFETHGHYEKVTLH-------PGLP--DIIKQPDSE 167
		            +NE +   PG    I  I    VV +  G YE + L+        G+P   + +Q    
		Sbjct: 123 GVNEEV---PGYNAKIVSIRPDRVVLQYQGRYEVLGLYSQEDSGSDGVPGAQVNEQLQQR 179
		
		Query: 168 NQNVLADYIIATPIRDGEQIYGLRLNPRKGLNAFTTSLLQPGDIALRINNLSLTHPDEVS 227
		               ++DY+  +PI +  ++ G RLNP    ++F    LQ  D+A+ +N L L   ++  
		Sbjct: 180 ASTTMSDYVSFSPIMNDNKLQGYRLNPGPKSDSFYRVGLQDNDMAVALNGLDLRDAEQAK 239
		
		Query: 228 QALSLLLTQQSAQFTIRRNG 247
		           +A+  +    +   T+ R+G
		Sbjct: 240 KAMERMADVHNFTLTVERDG 259
		
		
	4003#c4096	BCTERIALGSPD#Bacterial general secretion pathway protein D signa...	716	0.0
		>BCTERIALGSPD#Bacterial general secretion pathway protein D
		           signature.
		          Length = 660
		
		 Score =  716 bits (1850), Expect = 0.0
		 Identities = 344/629 (54%), Positives = 466/629 (74%), Gaps = 11/629 (1%)
		
		Query: 11  ITCCLLAALLMPCAGHAENEQYGANFNNADIRQFVEIVGQHLGKTILIDPSVQGTISVRS 70
		           +T  + AALL      A  E++ A+F   DI++F+  V ++L KT++IDPSV+GTI+VRS
		Sbjct: 12  LTLLIFAALLF---RPAAAEEFSASFKGTDIQEFINTVSKNLNKTVIIDPSVRGTITVRS 68
		
		Query: 71  NDTFSQQEYYQFFLSILDLYGYSVITLDNGFLKVVRSANVKTSPGMIADSSRPGVGDELV 130
		            D  ++++YYQFFLS+LD+YG++VI ++NG LKVVRS + KT+   +A  + PG+GDE+V
		Sbjct: 69  YDMLNEEQYYQFFLSVLDVYGFAVINMNNGVLKVVRSKDAKTAAVPVASDAAPGIGDEVV 128
		
		Query: 131 TRIVPLENVPARDLAPLLRQMMDAGSVGNVVHYEPSNVLILTGRASTINKLIEVIKRVDV 190
		           TR+VPL NV ARDLAPLLRQ+ D   VG+VVHYEPSNVL++TGRA+ I +L+ +++RVD 
		Sbjct: 129 TRVVPLTNVAARDLAPLLRQLNDNAGVGSVVHYEPSNVLLMTGRAAVIKRLLTIVERVDN 188
		
		Query: 191 IGTEKQQIIHLEYASAEDLAEILNQLISESHGKSQMPALLSAKIVADKRTNSLIISGPEK 250
		            G      + L +ASA D+ +++ +L ++   KS +P  + A +VAD+RTN++++SG   
		Sbjct: 189 AGDRSVVTVPLSWASAADVVKLVTEL-NKDTSKSALPGSMVANVVADERTNAVLVSGEPN 247
		
		Query: 251 ARQRITSLLKSLDVEESEEGNTRVYYLKYAKATNLVEVLTGVSEKLKDEKGNSRKPSSTS 310
		           +RQRI +++K LD +++ +GNT+V YLKYAKA++LVEVLTG+S  ++ EK  ++     +
		Sbjct: 248 SRQRIIAMIKQLDRQQATQGNTKVIYLKYAKASDLVEVLTGISSTMQSEKQAAK--PVAA 305
		
		Query: 311 AMDNVAITADEQTNSLVITADQSVQEKLATVIARLDIRRAQVLVEAIIVEVQDGNGLNLG 370
		              N+ I A  QTN+L++TA   V   L  VIA+LDIRR QVLVEAII EVQD +GLNLG
		Sbjct: 306 LDKNIIIKAHGQTNALIVTAAPDVMNDLERVIAQLDIRRPQVLVEAIIAEVQDADGLNLG 365
		
		Query: 371 VQWANKNVGAQQFTNTGLPVFNAAQGVADYKKNGGITSANPAWDMFSAYNGMAAGFFNGD 430
		           +QWANKN G  QFTN+GLP+  A  G   Y K+G ++S+       S++NG+AAGF+ G+
		Sbjct: 366 IQWANKNAGMTQFTNSGLPISTAIAGANQYNKDGTVSSSLA--SALSSFNGIAAGFYQGN 423
		
		Query: 431 WGVLLTALASNNKNDILATPSIVTLDNKLASFNVGQDVPVLSGSQTTSGDNVFNTVERKT 490
		           W +LLTAL+S+ KNDILATPSIVTLDN  A+FNVGQ+VPVL+GSQTTSGDN+FNTVERKT
		Sbjct: 424 WAMLLTALSSSTKNDILATPSIVTLDNMEATFNVGQEVPVLTGSQTTSGDNIFNTVERKT 483
		
		Query: 491 VGTKLKVTPQVNEGDAVLLEIEQEVSSVD---SSSNSTLGPTFNTRTIQNAVLVKTGETV 547
		           VG KLKV PQ+NEGD+VLLEIEQEVSSV    SS++S LG TFNTRT+ NAVLV +GETV
		Sbjct: 484 VGIKLKVKPQINEGDSVLLEIEQEVSSVADAASSTSSDLGATFNTRTVNNAVLVGSGETV 543
		
		Query: 548 VLGGLLDDFSKEQVSKVPLLGDIPLVGQLFRYTSTERAKRNLMVFIRPTIIRDDDVYRSL 607
		           V+GGLLD    +   KVPLLGDIP++G LFR TS + +KRNLM+FIRPT+IRD D YR  
		Sbjct: 544 VVGGLLDKSVSDTADKVPLLGDIPVIGALFRSTSKKVSKRNLMLFIRPTVIRDRDEYRQA 603
		
		Query: 608 SKEKYTRYRQEQQLRIDGKSKALIGSEDL 636
		           S  +YT +   Q  +   ++   + ++DL
		Sbjct: 604 SSGQYTAFNDAQSKQRGKENNDAMLNQDL 632
		
		
	4005#c4098	BCTERIALGSPF#Bacterial general secretion pathway protein F signa...	512	0.0
		>BCTERIALGSPF#Bacterial general secretion pathway protein F
		           signature.
		          Length = 408
		
		 Score =  512 bits (1321), Expect = 0.0
		 Identities = 195/405 (48%), Positives = 283/405 (69%), Gaps = 8/405 (1%)
		
		Query: 2   NYRYRAMTQDGQKLQGIIDANDERQARLRLREEGLFLLDIRPQK-------SSGVKTRRP 54
		            Y Y+A+   G+K +G  +A+  RQAR  LRE GL  L +   +       S+G+  RR 
		Sbjct: 3   QYHYQALDAQGKKCRGTQEADSARQARQLLRERGLVPLSVDENRGDQQKSGSTGLSLRRK 62
		
		Query: 55  -RISHSELTLFTRQLATLSAAALPLEESLAVIGQQSSNNRLADVLNQVRSAILEGHPLSD 113
		            R+S S+L L TRQLATL AA++PLEE+L  + +QS    L+ ++  VRS ++EGH L+D
		Sbjct: 63  IRLSTSDLALLTRQLATLVAASMPLEEALDAVAKQSEKPHLSQLMAAVRSKVMEGHSLAD 122
		
		Query: 114 ALQHFPTLFDSLYRTLVKAGEKSGLLAPVLEKLADYNENRQKIRSKLIQSLIYPCMLTTV 173
		           A++ FP  F+ LY  +V AGE SG L  VL +LADY E RQ++RS++ Q++IYPC+LT V
		Sbjct: 123 AMKCFPGSFERLYCAMVAAGETSGHLDAVLNRLADYTEQRQQMRSRIQQAMIYPCVLTVV 182
		
		Query: 174 AIVVVIILLTAVVPKITEQFVHMKQQLPLSTRILLGLSDTLQRTGPTLLATVFIVAVGFW 233
		           AI VV ILL+ VVPK+ EQF+HMKQ LPLSTR+L+G+SD ++  GP +L  +    + F 
		Sbjct: 183 AIAVVSILLSVVVPKVVEQFIHMKQALPLSTRVLMGMSDAVRTFGPWMLLALLAGFMAFR 242
		
		Query: 234 LWLKRGNNRHRFHAMLLRVALIGPLICAINSARYLRTLSILQSSGVPLLDGMNLSTESLN 293
		           + L++   R  FH  LL + LIG +   +N+ARY RTLSIL +S VPLL  M +S + ++
		Sbjct: 243 VMLRQEKRRVSFHRRLLHLPLIGRIARGLNTARYARTLSILNASAVPLLQAMRISGDVMS 302
		
		Query: 294 NLEIRQRLANAAENVRQGNSIHLSLEQTAIFPPMMLYMVASGEKSGQLGTLMVRAADNQE 353
		           N   R RL+ A + VR+G S+H +LEQTA+FPPMM +M+ASGE+SG+L +++ RAADNQ+
		Sbjct: 303 NDYARHRLSLATDAVREGVSLHKALEQTALFPPMMRHMIASGERSGELDSMLERAADNQD 362
		
		Query: 354 TLQQNRIALTLSIFEPALIITMALIVLFIVVSVLQPLLQLNSMIN 398
		               +++ L L +FEP L+++MA +VLFIV+++LQP+LQLN++++
		Sbjct: 363 REFSSQMTLALGLFEPLLVVSMAAVVLFIVLAILQPILQLNTLMS 407
		
		
	4006#c4099	BCTERIALGSPG#Bacterial general secretion pathway protein G signa...	249	1e-88
		>BCTERIALGSPG#Bacterial general secretion pathway protein G
		           signature.
		          Length = 145
		
		 Score =  249 bits (636), Expect = 1e-88
		 Identities = 144/145 (99%), Positives = 144/145 (99%)
		
		Query: 1   MRATDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYK 60
		           MRATDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYK
		Sbjct: 1   MRATDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYK 60
		
		Query: 61  LDNHRYPTTNQGLESLVEAPTLPPLAANYNKEGYIKRLPADPWGNDYVLVNPGEHGAYDL 120
		           LDNH YPTTNQGLESLVEAPTLPPLAANYNKEGYIKRLPADPWGNDYVLVNPGEHGAYDL
		Sbjct: 61  LDNHHYPTTNQGLESLVEAPTLPPLAANYNKEGYIKRLPADPWGNDYVLVNPGEHGAYDL 120
		
		Query: 121 LSAGPDGEMGTEDDITNWGLSKKKK 145
		           LSAGPDGEMGTEDDITNWGLSKKKK
		Sbjct: 121 LSAGPDGEMGTEDDITNWGLSKKKK 145
		
		
	4007#c4100	BCTERIALGSPH#Bacterial general secretion pathway protein H signa...	141	2e-45
		>BCTERIALGSPH#Bacterial general secretion pathway protein H
		           signature.
		          Length = 170
		
		 Score =  141 bits (356), Expect = 2e-45
		 Identities = 49/153 (32%), Positives = 76/153 (49%), Gaps = 18/153 (11%)
		
		Query: 3   QQRGFTLLEMMLVLALVAITASVVLFTYGREDAANTRARETAARFTAALELAIDRATLSG 62
		           +QRGFTLLEMML+L L+ ++A +VL  +    + +  A +T ARF A L     R   +G
		Sbjct: 2   RQRGFTLLEMMLILLLMGVSAGMVLLAFP--ASRDDSAAQTLARFEAQLRFVQQRGLQTG 59
		
		Query: 63  QPVGIHFSDSAWRIMV----PGKTP-------SAWRWVPLQEDAADESKNDWGEELSIQL 111
		           Q  G+      W+ +V     G  P       S +RW+PL+      S +  G +L++  
		Sbjct: 60  QFFGVSVHPDRWQFLVLEARDGADPAPADDGWSGYRWLPLRAGRVATSGSIAGGKLNLAF 119
		
		Query: 112 ---QPFKPDDSNQPQVVILADGQITPFSLLMAN 141
		              + + P D   P V+I   G++TPF L +  
		Sbjct: 120 AQGEAWTPGD--NPDVLIFPGGEMTPFRLTLGE 150
		
		
	4008#c4101	BCTERIALGSPG#Bacterial general secretion pathway protein G signa...	30	0.002
		>BCTERIALGSPG#Bacterial general secretion pathway protein G
		          signature.
		          Length = 145
		
		 Score = 29.9 bits (67), Expect = 0.002
		 Identities = 17/90 (18%), Positives = 41/90 (45%), Gaps = 8/90 (8%)
		
		Query: 14 MNKQSGMTLLEVLLAMSIFTAVALTLMSSMQGQ--RNAIERMRNETLALWIADNQLQSQD 71
		           +KQ G TLLE+++ + I   +A  ++ ++ G   +   ++  ++ +AL  A +  +  D
		Sbjct: 4  TDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYK-LD 62
		
		Query: 72 SFGEENTSSSGKELING-----EEWNWRSD 96
		          +     T+   + L+          N+  +
		Sbjct: 63 NHHYPTTNQGLESLVEAPTLPPLAANYNKE 92
		
		
	4009#c4102	BCTERIALGSPG#Bacterial general secretion pathway protein G signa...	34	1e-04
		>BCTERIALGSPG#Bacterial general secretion pathway protein G
		          signature.
		          Length = 145
		
		 Score = 34.1 bits (78), Expect = 1e-04
		 Identities = 14/45 (31%), Positives = 27/45 (60%), Gaps = 5/45 (11%)
		
		Query: 3  NRQQGFTLLEVMAALAIFSMLSVLAFMIFSQVSELHQRSQKEIQK 47
		          ++Q+GFTLLE+M  + I   + VLA ++   +  +  + + + QK
		Sbjct: 5  DKQRGFTLLEIMVVIVI---IGVLASLVVPNL--MGNKEKADKQK 44
		
		
	4013#c4106	PREPILNPTASE#Type IV prepilin cysteine protease (C20) family sig...	151	4e-47
		>PREPILNPTASE#Type IV prepilin cysteine protease (C20) family
		           signature.
		          Length = 290
		
		 Score =  151 bits (383), Expect = 4e-47
		 Identities = 88/262 (33%), Positives = 118/262 (45%), Gaps = 47/262 (17%)
		
		Query: 5   LPLFILVGFIAGYFVNVMAYHL---------------SPLEDKTALTFRQVLVH------ 43
		             L  L   + G F+NV+ + L                  +D+        L+       
		Sbjct: 16  FSLVFLFSLMIGSFLNVVIHRLPIMLEREWQAEYRSYFNPDDEGVDEPPYNLMVPRSCCP 75
		
		Query: 44  FWQKKYAWHDTVPLI-------------------------LCVAAAIACALAPFTPIVTG 78
		                    + +PL+                         L    ++A A+       T 
		Sbjct: 76  HCNHPITALENIPLLSWLWLRGRCRGCQAPISARYPLVELLTALLSVAVAMTLAPGWGTL 135
		
		Query: 79  ALFLYFCFALTLSVIDFRTQLLPDKLTLPLLWLGLVFNAQSGLIDLHDAVYGAVAGYGVL 138
		           A  L     + L+ ID    LLPD+LTLPLLW GL+FN   G + L DAV GA+AGY VL
		Sbjct: 136 AALLLTWVLVALTFIDLDKMLLPDQLTLPLLWGGLLFNLLGGFVSLGDAVIGAMAGYLVL 195
		
		Query: 139 WCVYWGVWLVCHKEGLGYGDFKLLAAAGAWCGWQTLPMILLIASLGGIGYAIVSQLLQRR 198
		           W +YW   L+  KEG+GYGDFKLLAA GAW GWQ LP++LL++SL G    I   LL+  
		Sbjct: 196 WSLYWAFKLLTGKEGMGYGDFKLLAALGAWLGWQALPIVLLLSSLVGAFMGIGLILLRNH 255
		
		Query: 199 TIPT-IAFGPWLALGSMINLGY 219
		                I FGP+LA+   I L +
		Sbjct: 256 HQSKPIPFGPYLAIAGWIALLW 277
		
		
	4014#c4107	HELNAPAPROT#Helicobacter neutrophil-activating protein A family ...	35	3e-05
		>HELNAPAPROT#Helicobacter neutrophil-activating protein A family
		           signature.
		          Length = 153
		
		 Score = 35.2 bits (81), Expect = 3e-05
		 Identities = 28/150 (18%), Positives = 59/150 (39%), Gaps = 24/150 (16%)
		
		Query: 5   TKVINYLNKLLGNE---LVAINQYFLHARMFKNWGLKRLNDVEYHESIDEM-----KHAD 56
		           T V N LN  L N       ++++        +W +K  +    HE  +E+     +  D
		Sbjct: 11  TLVENSLNTQLSNWFLLYSKLHRF--------HWYVKGPHFFTLHEKFEELYDHAAETVD 62
		
		Query: 57  RYIERILFLEGLPN--LQDLGKL------NIGEDVEEMLRSDLALELDGAKNLREAIGYA 108
		              ER+L + G P   +++  +              EM+++ +      +   +  IG A
		Sbjct: 63  TIAERLLAIGGQPVATVKEYTEHASITDGGNETSASEMVQALVNDYKQISSESKFVIGLA 122
		
		Query: 109 DSVHDYVSRDMMIEILRDEEGHIDWLETEL 138
		           +   D  + D+ + ++ + E  +  L + L
		Sbjct: 123 EENQDNATADLFVGLIEEVEKQVWMLSSYL 152
		
		
	4018#c4111	TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family ...	80	4e-18
		>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family
		           signature.
		          Length = 639
		
		 Score = 79.5 bits (196), Expect = 4e-18
		 Identities = 57/198 (28%), Positives = 87/198 (43%), Gaps = 13/198 (6%)
		
		Query: 28  VNVGTIGHVDHGKTTLTAAI------TTVLAKTYGGAARAFDQIDNAPEEKARGITINTS 81
		           +N+G + HVD GKTTLT ++       T L     G  R     DN   E+ RGITI T 
		Sbjct: 4   INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRT----DNTLLERQRGITIQTG 59
		
		Query: 82  HVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQV 141
		              +         +D PGH D++  +    + +DGAIL+++A DG   QTR      R++
		Sbjct: 60  ITSFQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKM 119
		
		Query: 142 GVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWE 201
		           G+P  I F+NK D    +  L  V  +++E LS          +     +       +W+
		Sbjct: 120 GIP-TIFFINKIDQNGID--LSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWD 176
		
		Query: 202 AKILELAGFLDSYIPEPE 219
		             I      L+ Y+    
		Sbjct: 177 TVIEGNDDLLEKYMSGKS 194
		
		
	4019#c4112	TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family ...	613	0.0
		>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family
		           signature.
		          Length = 639
		
		 Score =  613 bits (1583), Expect = 0.0
		 Identities = 178/698 (25%), Positives = 304/698 (43%), Gaps = 81/698 (11%)
		
		Query: 9   RYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAAT 68
		           +  NIG+ AH+DAGKTT TE +L+ +G   ++G V  G    D    E++RGITI +  T
		Sbjct: 2   KIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGIT 61
		
		Query: 69  TAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWR 128
		           +  W          ++NIIDTPGH+DF  EV RS+ VLDGA+++  A  GVQ Q+  ++ 
		Sbjct: 62  SFQWEN-------TKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFH 114
		
		Query: 129 QANKYKVPRIAFVNKMDRMGANFLKVVNQIKTRLGANPVPLQLAIGAEEHFTGVVDLVKM 188
		              K  +P I F+NK+D+ G +   V   IK +L A  V  Q           V     M
		Sbjct: 115 ALRKMGIPTIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQ----------KVELYPNM 164
		
		Query: 189 KAINWNDADQGVTFEYEDIPADMVELANEWHQNLIESAAEASEELMEKYLGGEELTEAEI 248
		              N+ +++Q                         ++  E +++L+EKY+ G+ L   E+
		Sbjct: 165 CVTNFTESEQ------------------------WDTVIEGNDDLLEKYMSGKSLEALEL 200
		
		Query: 249 KGALRQRVLNNEIILVTCGSAFKNKGVQAMLDAVIDYLPSPVDVPAINGILDDGKDTPAE 308
		           +     R  N  +  V  GSA  N G+  +++ + +   S                    
		Sbjct: 201 EQEESIRFHNCSLFPVYHGSAKNNIGIDNLIEVITNKFYSSTH----------------- 243
		
		Query: 309 RHASDDEPFSALAFKIATDPFVGNLTFFRVYSGVVNSGDTVLNSVKAARERFGRIVQMHA 368
		                        FKI        L + R+YSGV++  D+V  S K  + +   +     
		Sbjct: 244 ---RGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRISEK-EKIKITEMYTSIN 299
		
		Query: 369 NKREEIKEVRAGDIAAAIG----LKDVTTGDTLCDPDAPIILERMEFPEPVISIAVEPKT 424
		            +  +I +  +G+I         L  V  GDT   P      ER+E P P++   VEP  
		Sbjct: 300 GELCKIDKAYSGEIVILQNEFLKLNSV-LGDTKLLPQR----ERIENPLPLLQTTVEPSK 354
		
		Query: 425 KADQEKMGLALGRLAKEDPSFRVWTDEESNQTIIAGMGELHLDIIVDRMKREFNVEANVG 484
		              +E +  AL  ++  DP  R + D  +++ I++ +G++ +++    ++ +++VE  + 
		Sbjct: 355 PQQREMLLDALLEISDSDPLLRYYVDSATHEIILSFLGKVQMEVTCALLQEKYHVEIEIK 414
		
		Query: 485 KPQVAYRETIRQKVTDVEGKHAKQSGGRGQYGHVVIDMYPLEPGSNPKGYEFINDIKGGV 544
		           +P V Y E   +K    E     +      +  + + + PL  GS   G ++ + +  G 
		Sbjct: 415 EPTVIYMERPLKK---AEYTIHIEVPPNPFWASIGLSVSPLPLGS---GMQYESSVSLGY 468
		
		Query: 545 IPGEYIPAVDKGIQEQLKAGPLAGYPVVDMGIRLHFGSYHDVDSSELAFKLAASIAFKEG 604
		           +   +  AV +GI+   + G L G+ V D  I   +G Y+   S+   F++ A I  ++ 
		Sbjct: 469 LNQSFQNAVMEGIRYGCEQG-LYGWNVTDCKICFKYGLYYSPVSTPADFRMLAPIVLEQV 527
		
		Query: 605 FKKAKPVLLEPIMKVEVETPEENTGDVIGDLSRRRGMLKGQESEVTGVKIHAEVPLSEMF 664
		            KKA   LLEP +  ++  P+E       D  +    +   + +   V +  E+P   + 
		Sbjct: 528 LKKAGTELLEPYLSFKIYAPQEYLSRAYTDAPKYCANIVDTQLKNNEVILSGEIPARCIQ 587
		
		Query: 665 GYATQLRSLTKGRASYTMEFLKYDEAPSNVAQAVIEAR 702
		            Y + L   T GR+    E   Y        + V + R
		Sbjct: 588 EYRSDLTFFTNGRSVCLTELKGYHVT---TGEPVCQPR 622
		
		
c4120	c4130	N	Y	N	c4105	c4144
	c4120	0	17	0.226469	Hypothetical protein yheO
	c4121	0	17	1.777418	FKBP-type peptidyl-prolyl cis-trans isomerase
	c4122	-1	15	3.321905	SlyX protein
	c4123	-2	14	3.143369	FKBP-type peptidyl-prolyl cis-trans isomerase
	c4124	-1	15	2.913553	Conserved hypothetical protein
	c4125	-2	15	2.924798	Glutathione-regulated potassium-efflux system
	c4126	-1	18	2.722861	Putative NAD(P)H oxidoreductase yheR
	c4127	-1	19	1.909137	Hypothetical ABC transporter ATP-binding protein
	c4128	-3	13	0.981423	Hypothetical protein yheT
	c4129	-2	14	1.262239	Hypothetical protein yheU
	c4130	-2	14	1.320114	Probable phosphoribulokinase
	4027#c4120	ACRIFLAVINRP#Acriflavin resistance protein family signature.	29	0.023
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score = 28.7 bits (64), Expect = 0.023
		 Identities = 14/62 (22%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
		
		Query: 164 ASSVEDLVTQTLEFTIEEVNADRNV-SNNAKNRQIVLNLYEKGIFDIKDAINQVADRLNI 222
		           A +V+D VTQ +E  +  ++    + S +     + + L  +   D   A  QV ++L +
		Sbjct: 54  AQTVQDTVTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQL 113
		
		Query: 223 SK 224
		           + 
		Sbjct: 114 AT 115
		
		
	4028#c4121	INFPOTNTIATR#Macrophage infectivity potentiator signature.	132	5e-40
		>INFPOTNTIATR#Macrophage infectivity potentiator signature.
		          Length = 233
		
		 Score =  132 bits (334), Expect = 5e-40
		 Identities = 79/226 (34%), Positives = 124/226 (54%), Gaps = 9/226 (3%)
		
		Query: 28  AAKPATTADSKAAFKNDDQKSAYALGASLGRYMENSLKEQEKLGIKLDKDQLIAGVQDAF 87
		           A   A  A    +   D  K +Y++GA LG       K  +  GI ++ D L  G+QD  
		Sbjct: 14  AMSTAMAATDATSLTTDKDKLSYSIGADLG-------KNFKNQGIDINPDVLAKGMQDGM 66
		
		Query: 88  A-DKSKLSDQEIEQTLQAFEARVKSSAQAKMEKDAADNEAKGKEYREKFAKEKGVKTSST 146
		           +  +  L++++++  L  F+  + +   A+  K A +N+AKG  +      + G+    +
		Sbjct: 67  SGAQLILTEEQMKDVLSKFQKDLMAKRSAEFNKKAEENKAKGDAFLSANKSKPGIVVLPS 126
		
		Query: 147 GLVYQVVEAGKGEAPKDSDTVVVNYKGTLIDGKEFDNSYTRGEPLSFRLDGVIPGWTEGL 206
		           GL Y++++AG G  P  SDTV V Y GTLIDG  FD++   G+P +F++  VIPGWTE L
		Sbjct: 127 GLQYKIIDAGTGAKPGKSDTVTVEYTGTLIDGTVFDSTEKAGKPATFQVSQVIPGWTEAL 186
		
		Query: 207 KNIKKGGKIKLVIPPELAYGKAGVPG-IPPNSTLVFDVELLDVKPA 251
		           + +  G   ++ +P +LAYG   V G I PN TL+F + L+ VK A
		Sbjct: 187 QLMPAGSTWEVFVPADLAYGPRSVGGPIGPNETLIFKIHLISVKKA 232
		
		
	4032#c4125	60KDINNERMP#60kDa inner membrane protein signature.	31	0.021
		>60KDINNERMP#60kDa inner membrane protein signature.
		          Length = 548
		
		 Score = 30.7 bits (69), Expect = 0.021
		 Identities = 13/69 (18%), Positives = 29/69 (42%), Gaps = 6/69 (8%)
		
		Query: 261 TAIDPFKGLLLG---LFFISVGMSLNLGVLYTHL-LWVVISVVVLVAVKILVLYLLARLY 316
		            A+ P   L +    L+FIS  +   L  +++ +  W    +++   V+ ++  L     
		Sbjct: 318 AAVAPHLDLTVDYGWLWFISQPLFKLLKWIHSFVGNWGFSIIIITFIVRGIMYPLTKA-- 375
		
		Query: 317 GVRSSERMQ 325
		              S  +M+
		Sbjct: 376 QYTSMAKMR 384
		
		
	4033#c4126	ISCHRISMTASE#Isochorismatase signature.	32	0.001
		>ISCHRISMTASE#Isochorismatase signature.
		          Length = 312
		
		 Score = 31.9 bits (72), Expect = 0.001
		 Identities = 32/135 (23%), Positives = 51/135 (37%), Gaps = 16/135 (11%)
		
		Query: 12  YAHPESQDSVANRVLLKPATQLSNVTVHDLYAHYPDFFIDIPREQALLREHEVIVFQH-- 69
		           Y  P + D   N+V   P    + + +HD+  ++ D F         L  +   +     
		Sbjct: 9   YQMPTASDMPQNKVSWVPDPNRAVLLIHDMQNYFVDAFTAGASPVTELSANIRKLKNQCV 68
		
		Query: 70  ----PLYTYSCPALLKEWLDRVLSRGFASGPGGNQLAGKYWRSVITTGEPESA------Y 119
		               P+   + P       DR L   F  GPG N  +G Y   +IT   PE        +
		Sbjct: 69  QLGIPVVYTAQPGSQNP-DDRALLTDFW-GPGLN--SGPYEEKIITELAPEDDDLVLTKW 124
		
		Query: 120 RYDALNRYPMSDVLR 134
		           RY A  R  + +++R
		Sbjct: 125 RYSAFKRTNLLEMMR 139
		
		
	4034#c4127	GPOSANCHOR#Gram-positive coccus surface protein anchor signature.	33	0.005
		>GPOSANCHOR#Gram-positive coccus surface protein anchor signature.
		          Length = 539
		
		 Score = 32.7 bits (74), Expect = 0.005
		 Identities = 27/152 (17%), Positives = 54/152 (35%), Gaps = 22/152 (14%)
		
		Query: 504 KVEPFDGDLEDYQQWLSDVQKQENQTDEAPKENANSAQARKDQKRREAELRAQTQPLRKE 563
		            +     D    +   ++    E +  +   ++      R+  +R     R   + L  E
		Sbjct: 272 AMNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLDASREAKKQLEAE 331
		
		Query: 564 IARLEKEME---------------------KLNAQLAQAEEKLGDSELYDQNRKAELTAC 602
		             +LE++ +                     +L A+  + EE+   SE   Q+ + +L A 
		Sbjct: 332 HQKLEEQNKISEASRQSLRRDLDASREAKKQLEAEHQKLEEQNKISEASRQSLRRDLDAS 391
		
		Query: 603 LQQQASAKSGLEECEMAWLEAQEQLEQMLLEG 634
		            + +   +  LEE     L A E+L + L E 
		Sbjct: 392 REAKKQVEKALEEANSK-LAALEKLNKELEES 422
		
		
		
		 Score = 32.7 bits (74), Expect = 0.005
		 Identities = 13/125 (10%), Positives = 39/125 (31%), Gaps = 7/125 (5%)
		
		Query: 513 EDYQQWLSDVQKQENQTDEAPKENANSAQARKDQKRREAELRAQTQPLRKEIARLEKEME 572
		           +  +  ++       +      E A  A  + D ++        +            +++
		Sbjct: 127 KALEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFST-------ADSAKIK 179
		
		Query: 573 KLNAQLAQAEEKLGDSELYDQNRKAELTACLQQQASAKSGLEECEMAWLEAQEQLEQMLL 632
		            L A+ A  E +  + E   +      TA   +  + ++          + ++ LE  + 
		Sbjct: 180 TLEAEKAALEARQAELEKALEGAMNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMN 239
		
		Query: 633 EGQSN 637
		              ++
		Sbjct: 240 FSTAD 244
		
		
	4037#c4130	PF07299#Fibronectin-binding protein (FBP)	32	0.002
		>PF07299#Fibronectin-binding protein (FBP)
		          Length = 219
		
		 Score = 31.8 bits (72), Expect = 0.002
		 Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
		
		Query: 71  PEANDFGLLEQTFIEYGQSGKGKSRKYLHTYDEAVPWNQVPGTFTP 116
		           P+  +  + E ++       KG SRK++   ++   +  + GTF  
		Sbjct: 112 PDMEELDMKELSY--LSWIDKGSSRKFIIAKNDKNKFVGLQGTFQS 155
		
		
c4236	c4242	N	Y	N	c4219	c4260
	c4236	-2	19	3.305085	Gamma-glutamyltranspeptidase precursor
	c4237	-2	22	3.156804	Hypothetical protein yhhA precursor
	c4238	-2	22	3.068367	Glycerophosphoryl diester phosphodiesterase
	c4239	-2	25	3.124200	SN-glycerol-3-phosphate transport ATP-binding
	c4240	-1	24	2.363754	SN-glycerol-3-phosphate transport system
	c4241	-1	25	3.338301	SN-glycerol-3-phosphate transport system
	c4242	-2	26	3.564729	Glycerol-3-phosphate-binding periplasmic protein
	4141#c4236	NAFLGMOTY#Sodium-type flagellar protein MotY precursor signature.	32	0.005
		>NAFLGMOTY#Sodium-type flagellar protein MotY precursor signature.
		          Length = 293
		
		 Score = 32.0 bits (72), Expect = 0.005
		 Identities = 27/80 (33%), Positives = 36/80 (45%), Gaps = 13/80 (16%)
		
		Query: 272 RTPISGDYRGYQVYSMPPPSSGGIHIVQILNILENFDMQKYGF-GSADAMQIMAEAEKYA 330
		           R P+ G+ R   + SMPPP   G H  +I N+   F  Q  G+ G   A  I++E EK  
		Sbjct: 77  RRPM-GETRNVSLISMPPPWRPGEHADRITNL--KFFKQFDGYVGGQTAWGILSELEKGR 133
		
		Query: 331 YADRSEYLGDPDFVKVPWQA 350
		           Y         P F    WQ+
		Sbjct: 134 Y---------PTFSYQDWQS 144
		
		
	4143#c4238	PF04619#Dr-family adhesin	29	0.014
		>PF04619#Dr-family adhesin
		          Length = 160
		
		 Score = 28.7 bits (64), Expect = 0.014
		 Identities = 12/60 (20%), Positives = 23/60 (38%), Gaps = 4/60 (6%)
		
		Query: 29  VGAKYGHKMIEFDAKLSKDGEIFLLHDDNLERTSNGWGVAGDLNWQD----LLRVDAGSW 84
		           +G       ++ D    + G+ FL+ D+N ++         +  W        + D GSW
		Sbjct: 70  LGCDARQVALKADTDNFEQGKFFLISDNNRDKLYVNIRPTDNSAWTTDNGVFYKNDVGSW 129
		
		
	4144#c4239	PF05272#Virulence-associated E family protein	28	0.046
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 28.5 bits (63), Expect = 0.046
		 Identities = 10/29 (34%), Positives = 16/29 (55%)
		
		Query: 46  IVMVGPSGCGKSTLLRMVAGLERVTTGDI 74
		           +V+ G  G GKSTL+  + GL+  +    
		Sbjct: 599 VVLEGTGGIGKSTLINTLVGLDFFSDTHF 627
		
		
	4147#c4242	MALTOSEBP#Maltose binding protein signature.	39	2e-05
		>MALTOSEBP#Maltose binding protein signature.
		          Length = 396
		
		 Score = 39.3 bits (91), Expect = 2e-05
		 Identities = 39/160 (24%), Positives = 66/160 (41%), Gaps = 14/160 (8%)
		
		Query: 134 GHLLSQPFNSSTPVLYYNKDAFKKAGLDPEQPPKTWQDLADYAAKLKASGMKCGYASGWQ 193
		           G L++ P       L YNKD           PPKTW+++     +LKA G      +  +
		Sbjct: 127 GKLIAYPIAVEALSLIYNKDLLP-------NPPKTWEEIPALDKELKAKGKSALMFNLQE 179
		
		Query: 194 GWIQLENFSAWNGLPFASKNNGFDGTDAVLEF--NKPEQVKHIAMLEEMNKKGDFSYVGR 251
		            +      +A  G  F  +N  +D  D  ++    K      + +++  +   D  Y   
		Sbjct: 180 PYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDY--- 236
		
		Query: 252 KDESTEKFYNGDCAMTTASSGSLANIREYAKFNYGVGMMP 291
		              +   F  G+ AMT     + +NI + +K NYGV ++P
		Sbjct: 237 -SIAEAAFNKGETAMTINGPWAWSNI-DTSKVNYGVTVLP 274
		
		
c4285	c4290	N	Y	N	c4270	c4309
	c4285	-2	12	2.703731	Hypothetical protein yhhJ
	c4286	-3	9	2.607450	Hypothetical ABC transporter ATP-binding protein
	c4287	-1	11	0.924852	Hypothetical protein yhiI precursor
	c4288	0	11	-0.637900	Hypothetical protein
	c4289	0	11	-1.091411	Hypothetical protein yhiM
	c4290	-1	13	0.732561	Hypothetical protein yhiN
	4190#c4285	ABC2TRNSPORT#ABC-2 type transport system membrane protein signat...	50	3e-09
		>ABC2TRNSPORT#ABC-2 type transport system membrane protein
		           signature.
		          Length = 262
		
		 Score = 50.3 bits (120), Expect = 3e-09
		 Identities = 41/171 (23%), Positives = 73/171 (42%), Gaps = 7/171 (4%)
		
		Query: 228 REREHGTVEHLLVMPITPFEIMMAKV-WSMGLVVLVVSGLSLVLMVKGVLGVPIEGSIPL 286
		           R     T E +L   +   +I++ ++ W+     L  +G+ +V    G      +    L
		Sbjct: 93  RMEGQRTWEAMLYTQLRLGDIVLGEMAWAATKAALAGAGIGVVAAALGY----TQWLSLL 148
		
		Query: 287 FMLGV-ALSLFATTSIGIFMGTIARSMPQLGLLVILVLLPLQMLSGGSTPRESMPQMVQD 345
		           + L V AL+  A  S+G+ +  +A S         LV+ P+  LSG   P + +P + Q 
		Sbjct: 149 YALPVIALTGLAFASLGMVVTALAPSYDYFIFYQTLVITPILFLSGAVFPVDQLPIVFQT 208
		
		Query: 346 IMLTMPTTHFVSLAQAILYRGAGFEIVWPQFLTLMAIGGAFF-TIALLRFR 395
		               +P +H + L + I+      ++        + I   FF + ALLR R
		Sbjct: 209 AARFLPLSHSIDLIRPIMLGHPVVDVCQHVGALCIYIVIPFFLSTALLRRR 259
		
		
	4191#c4286	PF05272#Virulence-associated E family protein	30	0.047
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 30.0 bits (67), Expect = 0.047
		 Identities = 9/26 (34%), Positives = 14/26 (53%)
		
		Query: 37  ARCMVGLIGPDGVGKSSLLSLISGAR 62
		               V L G  G+GKS+L++ + G  
		Sbjct: 595 FDYSVVLEGTGGIGKSTLINTLVGLD 620
		
		
	4192#c4287	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	84	4e-20
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 84.5 bits (209), Expect = 4e-20
		 Identities = 71/408 (17%), Positives = 139/408 (34%), Gaps = 81/408 (19%)
		
		Query: 6   RHLAWWVVGALAVAAVVAWWLLRPAGVP-EGFAVSNGRIEATEVDIASKIAGRIDTILVK 64
		           R +A++++G L +A +++            G    +GR +     I       +  I+VK
		Sbjct: 58  RLVAYFIMGFLVIAFILSVLGQVEIVATANGKLTHSGRSKE----IKPIENSIVKEIIVK 113
		
		Query: 65  EGQFVREGEVLAKMDTRV----------------LQEQRLEAI----------------- 91
		           EG+ VR+G+VL K+                    L++ R + +                 
		Sbjct: 114 EGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDE 173
		
		Query: 92  -------------------AQIKEAQSAVAAAQALLEQRQSETRAAQSLVNQRQAELDSV 132
		                               Q    Q+     +  L+++++E     + +N+ +      
		Sbjct: 174 PYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVE 233
		
		Query: 133 AKRHTRSRSLAQRGAISAQQLDDDRAAAESARAALESAKAQVSASKAAIEAARTNIIQ-- 190
		             R     SL  + AI+   + +       A   L   K+Q+   ++ I +A+       
		Sbjct: 234 KSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVT 293
		
		Query: 191 -----------AQTRVEAAQATERRIAADID--DSELKAPRDGRV-QYRVAEPGEVLAAG 236
		                       QT       T      +     S ++AP   +V Q +V   G V+   
		Sbjct: 294 QLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTA 353
		
		Query: 237 GRVLNMVDLSDVY-MTFFLPTEQAGTLKLGGEARLILDAAPDLRIPATISFVASVAQFTP 295
		             ++ +V   D   +T  +  +  G + +G  A + ++A P  R       V  V     
		Sbjct: 354 ETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYG---YLVGKVKNINL 410
		
		Query: 296 KTVETSDERLKLMFRVKARIPPELLQQHLEYV--KTGLPGVAWVRVNE 341
		             +E  D+RL L+F V   I    L    + +   +G+   A ++   
		Sbjct: 411 DAIE--DQRLGLVFNVIISIEENCLSTGNKNIPLSSGMAVTAEIKTGM 456
		
		
	4195#c4290	ALARACEMASE#Alanine racemase signature.	29	0.033
		>ALARACEMASE#Alanine racemase signature.
		          Length = 356
		
		 Score = 29.0 bits (65), Expect = 0.033
		 Identities = 23/98 (23%), Positives = 38/98 (38%), Gaps = 18/98 (18%)
		
		Query: 226 ENLLFTHRGLSGPAVLQISSYWQPGEFVSINLLPDVDLETFL--NEQRNAHPNQSLKNTL 283
		           E +    RG  GP +L +  ++   +   + +     L T +  N Q  A  N  LK  L
		Sbjct: 63  EAITLRERGWKGP-ILMLEGFFHAQD---LEIYDQHRLTTCVHSNWQLKALQNARLKAPL 118
		
		Query: 284 AVHL------------PKRLVERLQQLGQIPDVSLKQL 309
		            ++L            P R++   QQL  + +V    L
		Sbjct: 119 DIYLKVNSGMNRLGFQPDRVLTVWQQLRAMANVGEMTL 156
		
		
c4545	c4552	N	Y	N	c4530	c4569
	c4545	-1	16	-5.690715	Hypothetical protein
	c4546	-1	17	-4.721984	Hypothetical protein
	c4547	0	22	-3.212550	S-adenosylmethionine synthetase
	c4548	2	30	-4.854654	Hypothetical protein
	c4549	4	32	-5.379782	Hypothetical protein
	c4550	5	30	-3.829536	Hypothetical protein
	c4551	7	27	-1.651118	Hypothetical protein
	c4552	9	26	1.380735	Transposase insC for insertion element
	4448#c4545	PF06580#Sensor histidine kinase	203	4e-64
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score =  203 bits (519), Expect = 4e-64
		 Identities = 56/214 (26%), Positives = 101/214 (47%), Gaps = 14/214 (6%)
		
		Query: 203 RKRVEIERSLHEAEFKALSYQINPHFLFNVLNTIGRLAFLEDAQRTETMVHDFSDMMRYL 262
		             + ++     EA+  AL  QINPHF+FN LN I  L  LED  +   M+   S++MRY 
		Sbjct: 149 IDQWKMASMAQEAQLMALKAQINPHFMFNALNNIRALI-LEDPTKAREMLTSLSELMRYS 207
		
		Query: 263 LRKNSHGLITLRNEINYVNNYMSIQKVRMRDRFDYLCDIPEKYLDVVCPFLILQPLVENF 322
		           LR ++   ++L +E+  V++Y+ +  ++  DR  +   I    +DV  P +++Q LVEN 
		Sbjct: 208 LRYSNARQVSLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPPMLVQTLVENG 267
		
		Query: 323 FNYVVEPRDSNSHLLIRATDDGLNVIIEVTDNGDGIAPDTINRILSGDQKLQKGSIGINN 382
		             + +        +L++ T D   V +EV + G     +T           +    G+ N
		Sbjct: 268 IKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTK----------ESTGTGLQN 317
		
		Query: 383 IKNRLKLLFGESYGLEIMSPNKPRMGTTIKLRFP 416
		           ++ RL++L+G    +++             +  P
		Sbjct: 318 VRERLQMLYGTEAQIKLSEKQG---KVNAMVLIP 348
		
		
	4449#c4546	HTHFIS#FIS bacterial regulatory protein HTH signature.	59	6e-12
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 59.5 bits (144), Expect = 6e-12
		 Identities = 29/139 (20%), Positives = 53/139 (38%), Gaps = 3/139 (2%)
		
		Query: 3   TIVIVEDEPIELESLRQIISQCVENAAIHEASTGKKAIHLIDQLSQIDMILVDINIPLPN 62
		           TI++ +D+      L Q +S+      +   S        I      D+++ D+ +P  N
		Sbjct: 5   TILVADDDAAIRTVLNQALSR--AGYDVRITSNAATLWRWIAA-GDGDLVVTDVVMPDEN 61
		
		Query: 63  GKQVIEYLKKKNSDTKIIVITANDDFDIVRSMYNLKVDDYLLKPVKKCILTDTIKKTLAF 122
		              ++  +KK   D  ++V++A + F            DYL KP     L   I + LA 
		Sbjct: 62  AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAE 121
		
		Query: 123 DEGENEKSRALKQKVFAMI 141
		            +    K     Q    ++
		Sbjct: 122 PKRRPSKLEDDSQDGMPLV 140
		
		
	4453#c4550	HTHTETR#TetR bacterial regulatory protein HTH signature.	72	4e-18
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 72.4 bits (177), Expect = 4e-18
		 Identities = 33/63 (52%), Positives = 41/63 (65%)
		
		Query: 10 RHTKFAAEETRKQILDVAEFCFCETGFSKTTLEMIAARAGCTRGAIYWYFNEKKDLLRQV 69
		          R TK  A+ETR+ ILDVA   F + G S T+L  IA  AG TRGAIYW+F +K DL  ++
		Sbjct: 3  RKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEI 62
		
		Query: 70 IER 72
		           E 
		Sbjct: 63 WEL 65
		
		
	4454#c4551	ACRIFLAVINRP#Acriflavin resistance protein family signature.	411	e-137
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score =  411 bits (1057), Expect = e-137
		 Identities = 202/339 (59%), Positives = 270/339 (79%), Gaps = 1/339 (0%)
		
		Query: 1    MIQARNQLLAEAAKSPA-LNMVRPNGMNDEPQFQILIDDEKVQAFKLSMSDVDNIMSAAW 59
		            + QARNQLL  AA+ PA L  VRPNG+ D  QF++ +D EK QA  +S+SD++  +S A 
		Sbjct: 694  LTQARNQLLGMAAQHPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTAL 753
		
		Query: 60   GSMYVNDFNDRGRVKKVYIQGEPGSRISPQDFDKWYVRNSDGDMVSFASFATGKWIYGSP 119
		            G  YVNDF DRGRVKK+Y+Q +   R+ P+D DK YVR+++G+MV F++F T  W+YGSP
		Sbjct: 754  GGTYVNDFIDRGRVKKLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSP 813
		
		Query: 120  KLEQYNGISAVEILGEPAPGYSSGDAMKAIEDIAARLPEGFHISWTGLSFEERLSGSQAP 179
		            +LE+YNG+ ++EI GE APG SSGDAM  +E++A++LP G    WTG+S++ERLSG+QAP
		Sbjct: 814  RLERYNGLPSMEIQGEAAPGTSSGDAMALMENLASKLPAGIGYDWTGMSYQERLSGNQAP 873
		
		Query: 180  ALYALSLLIVFLCLAALYESWSIPFSVMLVVPLGVLGAVCATLLRGLGNDVFFQVGLLTT 239
		            AL A+S ++VFLCLAALYESWSIP SVMLVVPLG++G + A  L    NDV+F VGLLTT
		Sbjct: 874  ALVAISFVVVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTT 933
		
		Query: 240  IGLSAKNAILIVEFARELHEKEGLSIKEAAVEAARVRLRPIIMTSLAFVMGVIPLAVSTG 299
		            IGLSAKNAILIVEFA++L EKEG  + EA + A R+RLRPI+MTSLAF++GV+PLA+S G
		Sbjct: 934  IGLSAKNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNG 993
		
		Query: 300  ASSGSKHAIGTGVVGGMITATILAIFYIPLFYMLIAGFF 338
		            A SG+++A+G GV+GGM++AT+LAIF++P+F+++I   F
		Sbjct: 994  AGSGAQNAVGIGVMGGMVSATLLAIFFVPVFFVVIRRCF 1032
		
		
		
		 Score = 77.2 bits (190), Expect = 1e-17
		 Identities = 64/322 (19%), Positives = 125/322 (38%), Gaps = 21/322 (6%)
		
		Query: 29  EPQFQILIDDEKVQAFKLSMSDVDNIMSAA----WGSMYVNDFNDRGRVKKVYIQGEPGS 84
		           +   +I +D + +  +KL+  DV N +                   G+     I  +   
		Sbjct: 181 QYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQ-TR 239
		
		Query: 85  RISPQDFDKWYVR-NSDGDMVSFASFAT---GKWIYGSPKLEQYNGISAVEILGEPAPGY 140
		             +P++F K  +R NSDG +V     A    G   Y    + + NG  A  +  + A G 
		Sbjct: 240 FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNV--IARINGKPAAGLGIKLATGA 297
		
		Query: 141 SSGDAMKAI----EDIAARLPEGFHISW---TGLSFEERLSGSQAPALYALSLLIVFLCL 193
		           ++ D  KAI     ++    P+G  + +   T    +  +         A+  ++VFL +
		Sbjct: 298 NALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAI--MLVFLVM 355
		
		Query: 194 AALYESWSIPFSVMLVVPLGVLGAVCATLLRGLGNDVFFQVGLLTTIGLSAKNAILIVEF 253
		               ++        + VP+ +LG        G   +     G++  IGL   +AI++VE 
		Sbjct: 356 YLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVEN 415
		
		Query: 254 ARELHEKEGLSIKEAAVEAARVRLRPIIMTSLAFVMGVIPLAVSTGASSGSKHAIGTGVV 313
		              +  ++ L  KEA  ++       ++  ++      IP+A   G++          +V
		Sbjct: 416 VERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIV 475
		
		Query: 314 GGMITATILAIFYIP-LFYMLI 334
		             M  + ++A+   P L   L+
		Sbjct: 476 SAMALSVLVALILTPALCATLL 497
		
		
	4455#c4552	PF06704#DspF/AvrF protein	25	0.047
		>PF06704#DspF/AvrF protein
		          Length = 129
		
		 Score = 25.2 bits (55), Expect = 0.047
		 Identities = 20/85 (23%), Positives = 39/85 (45%), Gaps = 6/85 (7%)
		
		Query: 28  RTTQEKIAIVQQSFEPGMTVSLVARQHGVAASQLFLWRKQYQEGSLTAVAA-GEQVVPAS 86
		             +    + + +S    +  SL A Q+GV A    L+  Q  E ++  +    E V+   
		Sbjct: 2   NNSPTDFSRLIKSLGAQLGTSLTA-QNGVCA----LYDSQDNEAAVIEMPDHSEMVIFHC 56
		
		Query: 87  ELAAAMKQIKELQRLLNKTPDVSRL 111
		            +  +  +  +LQ+LL+   DV+R+
		Sbjct: 57  RVGRSPDRAADLQKLLSLNFDVARM 81
		
		
c4586	c4597	N	Y	N	c4571	c4609
	c4586	-1	11	0.946105	Hypothetical protein yicM
	c4587	-2	13	1.909167	Hypothetical protein yicN
	c4588	-2	13	2.344932	Hypothetical protein yicO
	c4589	-2	11	1.211107	Probable adenine deaminase
	c4590	-2	13	0.463201	Hexose phosphate transport protein
	c4591	0	13	1.468948	Regulatory protein uhpC
	c4592	0	13	1.051825	Sensor protein uhpB
	c4593	0	16	0.517321	Transcriptional Regulatory protein uhpA
	c4594	0	14	-0.232894	Hypothetical protein
	c4595	0	17	3.416481	Acetolactate synthase isozyme I small subunit
	c4596	0	15	3.507771	Acetolactate synthase isozyme I large subunit
	c5498	-1	17	1.781840	IlvBN operon leader peptide
	c4597	-2	17	1.733042	Multidrug resistance protein D
	4489#c4586	TCRTETA#Tetracycline resistance protein signature.	40	1e-05
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 40.2 bits (94), Expect = 1e-05
		 Identities = 36/208 (17%), Positives = 72/208 (34%), Gaps = 13/208 (6%)
		
		Query: 88  IIVEFLPVSLLTP----MAQDLGISEGVAGQSVTVTAFVAMFASLFITQTIQATDR--RY 141
		           + ++ + + L+ P    + +DL  S  V      + A  A+            +DR  R 
		Sbjct: 14  VALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLGALSDRFGRR 73
		
		Query: 142 VVILFAVLL-TLSCLLVSFANSFSLLLIGRACLGLALGGFWAMSASLTMRLVPPRTVPKA 200
		            V+L ++    +   +++ A    +L IGR   G+  G   A++ +    +       + 
		Sbjct: 74  PVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGIT-GATGAVAGAYIADITDGDERARH 132
		
		Query: 201 LSVIFGAVSIALVIAAPLGSFLGELIGWRNVFNAAAAMG----VLCIFWIIKSLPSLPGE 256
		              +       +V    LG  +G        F AAAA+     +   F + +S       
		Sbjct: 133 FGFMSACFGFGMVAGPVLGGLMGG-FSPHAPFFAAAALNGLNFLTGCFLLPESHKGERRP 191
		
		Query: 257 PSHQKQNTFRLLQRPGVMAGMIAIFMSF 284
		              +  N     +    M  + A+   F
		Sbjct: 192 LRREALNPLASFRWARGMTVVAALMAVF 219
		
		
	4492#c4589	UREASE#Urea amidohydrolase (urease) protein signature.	38	1e-04
		>UREASE#Urea amidohydrolase (urease) protein signature.
		          Length = 570
		
		 Score = 37.8 bits (88), Expect = 1e-04
		 Identities = 30/105 (28%), Positives = 43/105 (40%), Gaps = 17/105 (16%)
		
		Query: 22  AVSRGDAVADYIIDNVSILDLINGGEISGPIVIKGRYIAGVG-AEYAD---------APA 71
		            V+R     D +I N  ILD  + G +   I +K   IA +G A   D          P 
		Sbjct: 60  QVTREGGAVDTVITNALILD--HWGIVKADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPG 117
		
		Query: 72  LQRIDARGATAVPGFIDAHLHIESSMMTPVTFETATLPRGLTTVI 116
		            + I   G     G +D+H+H     + P   E A L  GLT ++
		Sbjct: 118 TEVIAGEGKIVTAGGMDSHIH----FICPQQIEEA-LMSGLTCML 157
		
		
	4493#c4590	TCRTETB#Tetracycline resistance protein TetB signature.	34	0.001
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 34.1 bits (78), Expect = 0.001
		 Identities = 28/168 (16%), Positives = 61/168 (36%), Gaps = 17/168 (10%)
		
		Query: 49  FNIAQNDMISTYGLSMTQLGMIGLGFSITYGVGKTLVSYYADGKNTKQFLPFMLILSAIC 108
		            N++  D+ + +         +   F +T+ +G  +    +D    K+ L F +I++  C
		Sbjct: 33  LNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIIN--C 90
		
		Query: 109 MLGFSASMGSGSVSLFLMIAFYALSGFFQSTGGSCSYSTI----TKWTPRRKRGTFLGFW 164
		                  +G    SL +M      + F Q  G +   + +     ++ P+  RG   G  
		Sbjct: 91  FGSVIGFVGHSFFSLLIM------ARFIQGAGAAAFPALVMVVVARYIPKENRGKAFGLI 144
		
		Query: 165 NISHNLGGAGAAGVALFGANYLFDGHVIGMFIFPSIIALIVGFIGLRY 212
		                +G      +    A+Y+   +   + + P  +  I+    L  
		Sbjct: 145 GSIVAMGEGVGPAIGGMIAHYIHWSY---LLLIP--MITIITVPFLMK 187
		
		
	4494#c4591	TCRTETB#Tetracycline resistance protein TetB signature.	40	1e-05
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 40.2 bits (94), Expect = 1e-05
		 Identities = 65/408 (15%), Positives = 137/408 (33%), Gaps = 60/408 (14%)
		
		Query: 30  RHILLTIWLGYALFY--FTRKSFNAAVPEILANGVLSRSDIGLLATLFYITYGVSKFVSG 87
		           RH  + IWL    F+        N ++P+I  +     +    + T F +T+ +   V G
		Sbjct: 11  RHNQILIWLCILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYG 70
		
		Query: 88  IVSDRSNARYFMGIGLIATGIINILFGFSTSLWAFAVLWVLNAFFQGWGS---PVCARLL 144
		            +SD+   +  +  G+I     +++     S   F  L ++  F QG G+   P    ++
		Sbjct: 71  KLSDQLGIKRLLLFGIIINCFGSVIGFVGHS---FFSLLIMARFIQGAGAAAFPALVMVV 127
		
		Query: 145 TAWY-SRTERGGWWALWNTAHNVGGALIPIVMAASALHYGWRAGMMIAGCMAIVVGIFLC 203
		            A Y  +  RG  + L  +   +G  + P +    A +  W    ++   M  ++ +   
		Sbjct: 128 VARYIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHW--SYLLLIPMITIITVPF- 184
		
		Query: 204 WRLRDRPQALGLPAVGEWRHDALEIAQQQEGAGLTRKEILTKYVLLNPYIWLLSFCYVLV 263
		                    + L           +I     G  L    I+   +    Y        VL 
		Sbjct: 185 --------LMKLLKKEVRIKGHFDIK----GIILMSVGIVFFMLFTTSYSISFLIVSVLS 232
		
		Query: 264 YVV-----RAAINDWGNLYMSETLGVDLVTANTAVTMFELGGFI-----------GALVA 307
		           +++     R   + + +  + + +   +      +    + GF+               A
		Sbjct: 233 FLIFVKHIRKVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTA 292
		
		Query: 308 GWGSDKLFNGNRGPMNLIFAAGILL-SVGSLWLMPFASYVMQATCFFTIGFFVFGPQMLI 366
		             GS  +F G    +   +  GIL+   G L+++      + +  F T  F +      +
		Sbjct: 293 EIGSVIIFPGTMSVIIFGYIGGILVDRRGPLYVLNIGVTFL-SVSFLTASFLLETTSWFM 351
		
		Query: 367 ---------GMAAAECS---------HKEAAGAATGFVGLFAYLGASL 396
		                    G++  +            ++ AGA    +   ++L    
		Sbjct: 352 TIIIVFVLGGLSFTKTVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGT 399
		
		
	4495#c4592	PF06580#Sensor histidine kinase	39	2e-05
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 39.5 bits (92), Expect = 2e-05
		 Identities = 28/142 (19%), Positives = 57/142 (40%), Gaps = 11/142 (7%)
		
		Query: 367 LRPRQLDDLTLEQAIRSLMREMELEGRGIVSHLEWRIDESALSENQRVTLFRVCQEGLNN 426
		           LR      ++L   +  +   ++L        L++    +    + +V    + Q  + N
		Sbjct: 208 LRYSNARQVSLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQVPPM-LVQTLVEN 266
		
		Query: 427 IVKHA-----DASAVTLQGWQHDERLMLVIEDDGSGLPPDSGQ-HGFGLTGMRERVTALG 480
		            +KH          + L+G + +  + L +E+ GS    ++ +  G GL  +RER+  L 
		Sbjct: 267 GIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTKESTGTGLQNVRERLQMLY 326
		
		Query: 481 G---TLTISCLHG-TRVSVSLP 498
		           G    + +S   G     V +P
		Sbjct: 327 GTEAQIKLSEKQGKVNAMVLIP 348
		
		
	4496#c4593	HTHFIS#FIS bacterial regulatory protein HTH signature.	61	2e-13
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 61.4 bits (149), Expect = 2e-13
		 Identities = 29/174 (16%), Positives = 59/174 (33%), Gaps = 20/174 (11%)
		
		Query: 2   ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDIS 61
		            T+ + DD   +R+   Q L       V     +       +      + + D+ MPD +
		Sbjct: 4   ATILVADDDAAIRTVLNQALSRA-GYDVRI-TSNAATLWRWIAAGDGDLVVTDVVMPDEN 61
		
		Query: 62  GLELLSQLPK---GMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATG 118
		             +LL ++ K    +  +++S  ++     +A   GA  +L K     ELI  +      
		Sbjct: 62  AFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGR---- 117
		
		Query: 119 GCYLTPDIAIKLASGRQDPLTKRERQVAEKLAQG---MAVKEIAAELGLSPKTV 169
		                   A+     R   L    +     + +      +  + A L  +  T+
		Sbjct: 118 --------ALAEPKRRPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTL 163
		
		
	4501#c4597	TCRTETB#Tetracycline resistance protein TetB signature.	60	7e-12
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 59.5 bits (144), Expect = 7e-12
		 Identities = 41/184 (22%), Positives = 81/184 (44%), Gaps = 1/184 (0%)
		
		Query: 7   RNVNLLLMLVLLVAVGQMAQTIYIPAIADMARDLNVREGAVQSVMGAYLLTYGVSQLFYG 66
		           R+  +L+ L +L     + + +   ++ D+A D N    +   V  A++LT+ +    YG
		Sbjct: 11  RHNQILIWLCILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYG 70
		
		Query: 67  PISDRVGRRPVILVGMSIFMLATLVA-VTTSSLTVLIAASAMQGMGTGVGGVMARTLPRD 125
		            +SD++G + ++L G+ I    +++  V  S  ++LI A  +QG G      +   +   
		Sbjct: 71  KLSDQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVAR 130
		
		Query: 126 LYERTQLRHANSLLNMGILVSPLLAPLIGGLLDTMWNWRACYLFLLVLCAGVTFSMARWM 185
		              +     A  L+   + +   + P IGG++    +W    L  ++    V F M    
		Sbjct: 131 YIPKENRGKAFGLIGSIVAMGEGVGPAIGGMIAHYIHWSYLLLIPMITIITVPFLMKLLK 190
		
		Query: 186 PETR 189
		            E R
		Sbjct: 191 KEVR 194
		
		
c4961	c4969	N	Y	Y	c4946	c4987
	c4961	0	18	3.818662	Sensor protein zraS
	c4962	0	20	3.858797	Transcriptional Regulatory protein zraR
	c4963	0	19	2.436656	Phosphoribosylamine--glycine ligase
	c4964	0	15	0.454532	Purine biosynthesis protein PurH
	c4965	0	15	-0.143026	Hypothetical protein
	c4968	0	14	0.485965	*Hypothetical protein yjaA
	c4969	-1	13	1.310993	Hypothetical acetyltransferase yjaB
	4858#c4961	PF06580#Sensor histidine kinase	36	3e-04
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 35.6 bits (82), Expect = 3e-04
		 Identities = 19/96 (19%), Positives = 37/96 (38%), Gaps = 16/96 (16%)
		
		Query: 356 NLYLNAIQAIGQHGVISVTASESGAGVKISVTDSGKGIAADQLEAIFTPYFTTKAEGTGL 415
		           N   + I  + Q G I +  ++    V + V ++G     +              E TG 
		Sbjct: 266 NGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNT------------KESTGT 313
		
		Query: 416 GLAVVHNIVEQHGG---TIQVASQEGKGATFTLWLP 448
		           GL  V   ++   G    I+++ ++GK     + +P
		Sbjct: 314 GLQNVRERLQMLYGTEAQIKLSEKQGKV-NAMVLIP 348
		
		
	4859#c4962	HTHFIS#FIS bacterial regulatory protein HTH signature.	527	0.0
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score =  527 bits (1359), Expect = 0.0
		 Identities = 184/468 (39%), Positives = 253/468 (54%), Gaps = 35/468 (7%)
		
		Query: 8   ILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQVFDLVLCDVRMAEMDGIAT 67
		           ILV DDD +  T+L   L   GY+V + ++       +     DLV+ DV M + +    
		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65
		
		Query: 68  LKEIKTLNPAIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALAHTHSV 127
		           L  IK   P +PVL+M+A ++  TA++A + GA DYL KP D   L   + +ALA     
		Sbjct: 66  LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRR 125
		
		Query: 128 DAETPAVSASQFGMVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKELVARAIHASSA 187
		            ++    S     +VG+S AMQ +   +A +  ++ T++I G+SGTGKELVARA+H    
		Sbjct: 126 PSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDLTLMITGESGTGKELVARALHDYGK 185
		
		Query: 188 RSEKPLVTLNCAALNESLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLDEIGDISP 247
		           R   P V +N AA+   L+ESELFGHEKGAFTGA  R  GRF +A+GGTLFLDEIGD+  
		Sbjct: 186 RRNGPFVAINMAAIPRDLIESELFGHEKGAFTGAQTRSTGRFEQAEGGTLFLDEIGDMPM 245
		
		Query: 248 MMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQDLYYRLNVVAI 307
		             Q RLLR +Q+ E   VG    I  DVR++AAT++DL   +N G FR+DLYYRLNVV +
		Sbjct: 246 DAQTRLLRVLQQGEYTTVGGRTPIRSDVRIVAATNKDLKQSINQGLFREDLYYRLNVVPL 305
		
		Query: 308 EVPSLRQRREDIPLLANHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVER 367
		            +P LR R EDIP L  HF+Q+  +     VK F  +A++L+  + WPGN+RELEN V R
		Sbjct: 306 RLPPLRDRAEDIPDLVRHFVQQAEKEGLD-VKRFDQEALELMKAHPWPGNVRELENLVRR 364
		
		Query: 368 AVVLLTGEYISERELPLAIASTPIPLVQSQDIQP-------------------------- 401
		              L   + I+   +   + S        +                              
		Sbjct: 365 LTALYPQDVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFASFGDALP 424
		
		Query: 402 --------LVEVEKEVILAALEKTGGNKTEAARQLGITRKTLLAKLSR 441
		                   L E+E  +ILAAL  T GN+ +AA  LG+ R TL  K+  
		Sbjct: 425 PSGLYDRVLAEMEYPLILAALTATRGNQIKAADLLGLNRNTLRKKIRE 472
		
		
	4863#c4968	SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein s...	32	6e-04
		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein
		           signature.
		          Length = 347
		
		 Score = 31.7 bits (72), Expect = 6e-04
		 Identities = 23/62 (37%), Positives = 32/62 (51%), Gaps = 9/62 (14%)
		
		Query: 49  IANFFVAEKVLQDLVLQLHPRSTWHSFLPAKRMDIVVSALEMNEGGLSQVEERILHEVVA 108
		           IA+FFV EK+LQ  + Q+H  S      P+ R+ + V        G +QVE R + E   
		Sbjct: 81  IADFFVTEKMLQHFIKQVHSNSF---MRPSPRVLVCVPV------GATQVERRAIRESAQ 131
		
		Query: 109 GA 110
		           GA
		Sbjct: 132 GA 133
		
		
	4864#c4969	SACTRNSFRASE#Streptothricin acetyltransferase signature.	32	4e-04
		>SACTRNSFRASE#Streptothricin acetyltransferase signature.
		          Length = 173
		
		 Score = 32.2 bits (73), Expect = 4e-04
		 Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
		
		Query: 78  IDPDVRGCGVGRMLVKHALSMAPE-----LTTNVNEQNEQAVGFYKKVGFKV 124
		           +  D R  GVG  L+  A+  A E     L     + N  A  FY K  F +
		Sbjct: 97  VAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFII 148
		
		
c5111	c5118	N	Y	N	c5095	c5137
	c5111	-2	15	0.859777	Phosphonates transport ATP-binding protein phnC
	c5112	-2	15	0.424898	PhnB protein
	c5113	-3	16	0.662966	PhnA protein
	c5114	-3	15	0.444004	Hypothetical protein yjdA
	c5115	-2	14	0.996263	Hypothetical protein yjcZ
	c5116	-2	13	-0.733260	Proline/betaine transporter
	c5117	-2	18	-0.085969	Sensor protein basS/pmrB
	c5118	-1	17	-0.550735	Transcriptional Regulatory protein basR/pmrA
	5004#c5111	PF05272#Virulence-associated E family protein	29	0.016
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 29.3 bits (65), Expect = 0.016
		 Identities = 12/22 (54%), Positives = 13/22 (59%)
		
		Query: 32  MVALLGPSGSGKSTLLRHLSGL 53
		            V L G  G GKSTL+  L GL
		Sbjct: 598 SVVLEGTGGIGKSTLINTLVGL 619
		
		
	5009#c5116	TCRTETA#Tetracycline resistance protein signature.	44	9e-07
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 44.0 bits (104), Expect = 9e-07
		 Identities = 57/290 (19%), Positives = 105/290 (36%), Gaps = 55/290 (18%)
		
		Query: 96  FFGMLGDKYGRQKILAITIVIMSISTFCIGLIPSYDTIGIWAPILLLICKMAQGFSVGGE 155
		             G L D++GR+ +L +++   ++    +   P      +W   +L I ++  G + G  
		Sbjct: 62  VLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPF-----LW---VLYIGRIVAGIT-GAT 112
		
		Query: 156 YTGASIFVAEYSPDRKR----GFMGSWLDFGSIAGFVLGAGVVVLISTIVGEENFLDWGW 211
		              A  ++A+ +   +R    GFM +   FG +AG VLG G++   S             
		Sbjct: 113 GAVAGAYIADITDGDERARHFGFMSACFGFGMVAGPVLG-GLMGGFSP------------ 159
		
		Query: 212 RIPFFIALPLGIIGLYLRHALEETPAFQQHVDKLEQGDREGLQDGPKVSFKEIATKHWRS 271
		             PFF A  L  +       L           K E+         P  SF+      W  
		Sbjct: 160 HAPFFAAAALNGLNFLTGCFLLPESH------KGERRPLRREALNPLASFR------WAR 207
		
		Query: 272 LLTCIGLVIATNVTYYML----LTYMPSYLSHNLHYS-EDHGVLIIIAIMIGMLFVQPVM 326
		            +T +  ++A      ++          +     H+     G+ +    ++  L    + 
		Sbjct: 208 GMTVVAALMAVFFIMQLVGQVPAALWVIFGEDRFHWDATTIGISLAAFGILHSLAQAMIT 267
		
		Query: 327 GLLSDRFGRRPFVLLG----SVALFVLA--------IPAFILINSNVIGL 364
		           G ++ R G R  ++LG         +LA         P  +L+ S  IG+
		Sbjct: 268 GPVAARLGERRALMLGMIADGTGYILLAFATRGWMAFPIMVLLASGGIGM 317
		
		
		
		 Score = 39.4 bits (92), Expect = 2e-05
		 Identities = 39/164 (23%), Positives = 73/164 (44%), Gaps = 16/164 (9%)
		
		Query: 297 LSHNLHYSEDHGVLI-IIAIMIGMLFVQPVMGLLSDRFGRRPFVLLGSVALFVLAIPAFI 355
		           L H+   +  +G+L+ + A+M       PV+G LSDRFGRRP +L+    L   A+   I
		Sbjct: 35  LVHSNDVTAHYGILLALYALM--QFACAPVLGALSDRFGRRPVLLVS---LAGAAVDYAI 89
		
		Query: 356 LINSNVIGLIFAGLLMLAVILNCFTGVMASTLPAMFPTHIR---YSALAAAFNISVLVAG 412
		           +  +  + +++ G  ++A I      V  + +  +     R   +  ++A F    +VAG
		Sbjct: 90  MATAPFLWVLYIG-RIVAGITGATGAVAGAYIADITDGDERARHFGFMSACFGFG-MVAG 147
		
		Query: 413 LTPTLAAWLVESSQNLMMPAYYLMVVAVVGLITG-VTMKETANR 455
		             P L   +   S +   P +    +  +  +TG   + E+   
		Sbjct: 148 --PVLGGLMGGFSPH--APFFAAAALNGLNFLTGCFLLPESHKG 187
		
		
	5010#c5117	PF06580#Sensor histidine kinase	37	7e-05
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 37.2 bits (86), Expect = 7e-05
		 Identities = 39/182 (21%), Positives = 80/182 (43%), Gaps = 34/182 (18%)
		
		Query: 184 ARLDQMMESVSQLLQLARAGQSFSSGNYQHVKLLEDV-ILPSYDELSTML--DQRQQTLL 240
		            +  +M+ S+S+L++      S    N + V L +++ ++ SY +L+++   D+ Q    
		Sbjct: 191 TKAREMLTSLSELMR-----YSLRYSNARQVSLADELTVVDSYLQLASIQFEDRLQFENQ 245
		
		Query: 241 LPESAADITVQGDATLLRMLLRNLVENAHRY----SPQGSNIMIKLQEDGGAV-MAVEDE 295
		           +  +  D+ V        ML++ LVEN  ++     PQG  I++K  +D G V + VE+ 
		Sbjct: 246 INPAIMDVQV------PPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENT 299
		
		Query: 296 GPGIDESKCGELSKAFVRMDSRYGGIGLGLSIV-SRITQLHHGQFFLQNRQETSGTRAWI 354
		           G                 + +     G GL  V  R+  L+  +  ++  ++     A +
		Sbjct: 300 GSLA--------------LKNTKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMV 345
		
		Query: 355 RL 356
		            +
		Sbjct: 346 LI 347
		
		
	5011#c5118	HTHFIS#FIS bacterial regulatory protein HTH signature.	92	1e-23
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 91.8 bits (228), Expect = 1e-23
		 Identities = 42/121 (34%), Positives = 60/121 (49%)
		
		Query: 2   KILIVEDDTLLLQGLILAAQTEGYACDGVSTARMAEQSLEAGHYSLVVLDLGLPDEDGLH 61
		            IL+ +DD  +   L  A    GY     S A    + + AG   LVV D+ +PDE+   
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 62  FLARIRQKKYTLPVLILTARDTLTDKIAGLDVGADDYLVKPFALEELHARIRALLRRHNN 121
		            L RI++ +  LPVL+++A++T    I   + GA DYL KPF L EL   I   L     
		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124
		
		Query: 122 Q 122
		           +
		Sbjct: 125 R 125
		
		
c5179	c5187	N	Y	N	c5164	c5203
	c5179	7	38	-3.417978	PapG protein
	c5180	6	39	-2.531750	PapF protein
	c5181	5	33	-0.450700	PapE protein
	c5182	4	31	0.489031	PapK protein
	c5183	5	31	-0.866435	Hypothetical protein
	c5184	4	31	-1.407677	PapJ protein
	c5185	4	30	-2.180318	PapD protein
	c5186	4	28	-1.344325	PapC protein
	c5187	6	32	-4.008344	PapH protein
	5070#c5179	PF03627#PapG	601	0.0
		>PF03627#PapG
		          Length = 336
		
		 Score =  601 bits (1550), Expect = 0.0
		 Identities = 333/336 (99%), Positives = 334/336 (99%)
		
		Query: 1   MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT 60
		           MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT
		Sbjct: 1   MKKWFPALLFSLCVSGESSAWNNIVFYSLGNVNSYQGGNVVITQRPQFITSWRPGIATVT 60
		
		Query: 61  WNQCNGPEFADGSWAYYREYIAWVVFPKKVMTQNGYPLFIEVHNKGSWSEENTGDNDSYF 120
		           WNQCNGP FADGSWAYYREYIAWVVFPKKVMT+NGYPLFIEVHNKGSWSEENTGDNDSYF
		Sbjct: 61  WNQCNGPGFADGSWAYYREYIAWVVFPKKVMTKNGYPLFIEVHNKGSWSEENTGDNDSYF 120
		
		Query: 121 FLKGYKWDERAFDAGNLCQKPGETTRLTEKFDDIIFKVALPADLPLGDYSVKIPYTSGMQ 180
		           FLKGYKWDERAFDAGNLCQKPGETTRLTEKFDDIIFKVALPADLPLGDYSV IPYTSGMQ
		Sbjct: 121 FLKGYKWDERAFDAGNLCQKPGETTRLTEKFDDIIFKVALPADLPLGDYSVTIPYTSGMQ 180
		
		Query: 181 RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY 240
		           RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY
		Sbjct: 181 RHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGGCRPSAQSLEIKHGDLSINSANNHY 240
		
		Query: 241 AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY 300
		           AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY
		Sbjct: 241 AAQTLSVSCDVPANIRFMLLRNTTPTYSHGKKFSVGLGHGWDSIVSVNGVDTGETTMRWY 300
		
		Query: 301 KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP 336
		           KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP
		Sbjct: 301 KAGTQNLTIGSRLYGESSKIQPGVLSGSATLLMILP 336
		
		
	5071#c5180	FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein...	267	5e-95
		>FIMBRIALPAPF#Escherichia coli: P pili tip fibrillum papF protein
		           signature.
		          Length = 167
		
		 Score =  267 bits (683), Expect = 5e-95
		 Identities = 155/167 (92%), Positives = 156/167 (93%), Gaps = 1/167 (0%)
		
		Query: 11  MARLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE 70
		           M RLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE
		Sbjct: 1   MIRLSLFISLLLTSVAVLADVQINIRGNVYIPPCTINNGQNIVVDFGNINPEHVDNSRGE 60
		
		Query: 71  VTKTISISCTYKSGSPWIKVTGNAMA-GQTNVLATNIANFGIALYQGKGMSTPLTLGNGS 129
		           VTK ISISC YKSGS WIKVTGN M  GQ NVLATNI +FGIALYQGKGMSTPLTLGNGS
		Sbjct: 61  VTKNISISCPYKSGSLWIKVTGNTMGVGQNNVLATNITHFGIALYQGKGMSTPLTLGNGS 120
		
		Query: 130 GNGYRVTAGLDTARSTFTFTSVPFRNGSRTLNGGDFRTTASMSMIYN 176
		           GNGYRVTAGLDTARSTFTFTSVPFRNGS  LNGGDFRTTASMSMIYN
		Sbjct: 121 GNGYRVTAGLDTARSTFTFTSVPFRNGSGILNGGDFRTTASMSMIYN 167
		
		
	5072#c5181	FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein...	306	e-110
		>FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein
		           signature.
		          Length = 173
		
		 Score =  306 bits (784), Expect = e-110
		 Identities = 128/173 (73%), Positives = 145/173 (83%)
		
		Query: 7   MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVTKAEVDWGNVEIQTLSQNG 66
		           MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTV  AEV+WG++EIQ L Q+G
		Sbjct: 1   MKKIRGLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVQNAEVNWGDIEIQNLVQSG 60
		
		Query: 67  NHEKEFTVNMQCPYHLGTMKVTITATNTYNNAILVQNTSNTSSDGVLVYLYNSNAGNIGT 126
		            ++K+FTV+M CPY LGTMKVTIT+     N+ILV NTS  S DG+L+YLYNSN   IG 
		Sbjct: 61  GNQKDFTVDMNCPYSLGTMKVTITSNGQTGNSILVPNTSTASGDGLLIYLYNSNNSGIGN 120
		
		Query: 127 AITLGTPFTPGKITGNNADRTISLHAKLGYKGNMQSLKAGDFSATATLVASYS 179
		           A+TLG+  TPGKITG    R I+L+AKLGYKGNMQSL+AG FSATATLVASYS
		Sbjct: 121 AVTLGSQVTPGKITGTAPARKITLYAKLGYKGNMQSLQAGTFSATATLVASYS 173
		
		
	5077#c5186	PF00577#Outer membrane usher protein FimD	742	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score =  742 bits (1918), Expect = 0.0
		 Identities = 243/882 (27%), Positives = 362/882 (41%), Gaps = 67/882 (7%)
		
		Query: 5   MRGMKDRI-PFAVNNITCVILLSLFCNAASAVEFNTDVLDAADKKNIDFTRFSEAGYVLP 63
		           +   K R+  F V         +    +++ + FN   L    +   D +RF     + P
		Sbjct: 16  LHIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQAVADLSRFENGQELPP 75
		
		Query: 64  GQYLLDVIVNGQSISPASLQISFVEPQSSGDKAEKKLPQACLTSDMVRLMGLTAESLDKV 123
		           G Y +D+ +N   +  A+  ++F    S            CLT   +  MGL   S+  +
		Sbjct: 76  GTYRVDIYLNNGYM--ATRDVTFNTGDSEQGI------VPCLTRAQLASMGLNTASVSGM 127
		
		Query: 124 VYWHDGQCADF-HGLPGVDIRPDTGAGVLRINMPQAWLEYSDATWLPPSRWDDGIPGLML 182
		               D  C      +     + D G   L + +PQA++      ++PP  WD GI   +L
		Sbjct: 128 NLLADDACVPLTSMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDPGINAGLL 187
		
		Query: 183 DYNLNGTVSRNYQGGDSHQFSYNGTVGGNLGPWRLRADYQGSQEQSRYNGEKTTNRNFTW 242
		           +YN +G   +N  GG+SH    N   G N+G WRLR +   S   S  +    +   +  
		Sbjct: 188 NYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSS--DSSSGSKNKWQH 245
		
		Query: 243 SRFYLFRAIPRWRANLTLGENNINSDIFRSWSYTGASLESDDRMLPPRLRGYAPQITGIA 302
		              +L R I   R+ LTLG+     DIF   ++ GA L SDD MLP   RG+AP I GIA
		Sbjct: 246 INTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPVIHGIA 305
		
		Query: 303 ETNARVVVSQQGRVLYDSMVPAGPFSIQDLD-SSVRGRLDVEVIEQNGRKKTFQVDTASV 361
		              A+V + Q G  +Y+S VP GPF+I D+  +   G L V + E +G  + F V  +SV
		Sbjct: 306 RGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTVPYSSV 365
		
		Query: 362 PYLTRPGQVRYKLVSGRSRGYGHETEGPVFATGEASWGLSNQWSLYGGAVLAGDYNALAA 421
		           P L R G  RY + +G  R    + E P F       GL   W++YGG  LA  Y A   
		Sbjct: 366 PLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRYRAFNF 425
		
		Query: 422 GAGWDLGVPGTLSADITQSVARIEGERTFQGKSWRLSYSKRFDNADADITFAGYRFSERN 481
		           G G ++G  G LS D+TQ+ + +  +    G+S R  Y+K  + +  +I   GYR+S   
		Sbjct: 426 GIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYRYSTSG 485
		
		Query: 482 YMTMEQYLNARYR--------------------NDYSSREKEMYTVTLNKNVADWNTSFN 521
		           Y        +R                       + +  ++    +T+ + +   + +  
		Sbjct: 486 YFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRTS-TLY 544
		
		Query: 522 LQYSRQTYWDIRKTD-YYTVSVNRYFNVFGLQGVAVGLSASRSKYLGRD--NDSAYLRIS 578
		           L  S QTYW     D  +   +N  F       +   LS S +K   +   +    L ++
		Sbjct: 545 LSGSHQTYWGTSNVDEQFQAGLNTAFE-----DINWTLSYSLTKNAWQKGRDQMLALNVN 599
		
		Query: 579 VPLGT------------GTASYSGSMSND-RYVNMAGYTDM-FNDGLDSYSLNAGLNSGG 624
		           +P                +ASYS S   + R  N+AG       D   SYS+  G   GG
		Sbjct: 600 IPFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGG 659
		
		Query: 625 GLTSQRQINAYYSHRSPLANLSANIASLQKGYTSFGVSASGGATITGKGAALHAGGMSGG 684
		              S     A  ++R    N +    S            SGG      G  L  G     
		Sbjct: 660 DGNSGSTGYATLNYRGGYGNANIG-YSHSDDIKQLYYGVSGGVLAHANGVTL--GQPLND 716
		
		Query: 685 TRLLVDTDGVGGVPVDGGQVV-TNRWGTGVVTDISSYYRNTTSVDLKRLPDDVEATRSVV 743
		           T +LV   G     V+    V T+  G  V+   + Y  N  ++D   L D+V+   +V 
		Sbjct: 717 TVVLVKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVA 776
		
		Query: 744 ESALTEGAIGYRKFSVLKGKRLFAILRLADGSQPPFGASVTSEKGRELGMVADEGLAWLS 803
		               T GAI   +F    G +L   L   +    PFGA VTSE  +  G+VAD G  +LS
		Sbjct: 777 NVVPTRGAIVRAEFKARVGIKLLMTLT-HNNKPLPFGAMVTSESSQSSGIVADNGQVYLS 835
		
		Query: 804 GVTPGETLSVNW--DGKIQCQVNVPETAISDQQLL----LPC 839
		           G+     + V W  +    C  N      S QQLL      C
		Sbjct: 836 GMPLAGKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAEC 877
		
		
	5078#c5187	FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein...	32	0.001
		>FIMBRIALPAPE#Escherichia coli: P pili tip fibrillum papE protein
		           signature.
		          Length = 173
		
		 Score = 31.5 bits (71), Expect = 0.001
		 Identities = 41/173 (23%), Positives = 75/173 (43%), Gaps = 29/173 (16%)
		
		Query: 29  GMSLPEYWG----EEHVWWDGRAAFHGEVVRPACTLAMEDAWQIIDMGETPVRDL-QNGF 83
		           G+ LP   G     +HV       F G+++ PACT+   +    ++ G+  +++L Q+G 
		Sbjct: 6   GLCLPVMLGAVLMSQHVHAADNLTFKGKLIIPACTVQNAE----VNWGDIEIQNLVQSG- 60
		
		Query: 84  SGPERKFSLRLRNCEFNSQGGNLFSDSRIRVTFDGVRGET---PDKFNLSGQAKGINLQI 140
		            G ++ F++ + NC ++          ++ +T +G  G +   P+    SG    I L  
		Sbjct: 61  -GNQKDFTVDM-NCPYS------LGTMKVTITSNGQTGNSILVPNTSTASGDGLLIYLYN 112
		
		Query: 141 ADARGNIARAGKV-MPAIP--LTGNEEALDYTLRIVR----NGKKLEAGNYFA 186
		           ++    I  A  +     P  +TG   A   TL        N + L+AG + A
		Sbjct: 113 SNN-SGIGNAVTLGSQVTPGKITGTAPARKITLYAKLGYKGNMQSLQAGTFSA 164
		
		
c5396	c5415	N	Y	N	c5381	c5422
	c5396	3	15	-1.141126	Outer membrane usher protein fimD precursor
	c5397	0	15	1.041905	FimF protein precursor
	c5398	-1	21	2.667356	Hypothetical protein
	c5399	-1	20	2.737563	FimG protein precursor
	c5400	-2	20	2.590588	FimH protein precursor
	c5401	0	23	2.966686	High-affinity gluconate transporter
	c5402	-1	20	2.411155	Mannonate dehydratase
	c5403	-1	18	2.809674	D-mannonate oxidoreductase
	c5404	-1	17	1.610865	Uxu operon transcriptional regulator
	c5405	-2	19	1.348035	Hypothetical protein yjiD
	c5406	-1	20	1.206869	Hypothetical protein
	c5407	1	19	1.633802	Hypothetical transcriptional regulator yjiE
	c5408	2	19	-0.088261	Isoaspartyl dipeptidase
	c5409	3	21	-1.483271	Hypothetical protein yjiG
	c5410	1	20	-0.703036	Hypothetical protein yjiH
	c5411	1	19	-0.319132	Hypothetical protein
	c5414	2	18	0.312389	Hypothetical protein yjiJ
	c5415	2	16	-0.696130	Hypothetical protein yjiK
	5287#c5396	PF00577#Outer membrane usher protein FimD	1098	0.0
		>PF00577#Outer membrane usher protein FimD
		          Length = 878
		
		 Score = 1098 bits (2842), Expect = 0.0
		 Identities = 877/878 (99%), Positives = 877/878 (99%)
		
		Query: 1   MSYLNLRLYQRNTQCLHIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQA 60
		           MSYLNLRLYQRNTQCLHIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQA
		Sbjct: 1   MSYLNLRLYQRNTQCLHIRKHRLAGFFVRLFVACAFAAQAPLSSAELYFNPRFLADDPQA 60
		
		Query: 61  VADLSRFENGQELPPGTYRVDIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLN 120
		           VADLSRFENGQELPPGTYRVDIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLN
		Sbjct: 61  VADLSRFENGQELPPGTYRVDIYLNNGYMATRDVTFNTGDSEQGIVPCLTRAQLASMGLN 120
		
		Query: 121 TASVSGMNLLADDACVPLTSMIHDATAHLDVGQQRLNLTIPQAFMSNRARGYIPPELWDP 180
		           TASVSGMNLLADDACVPLTSMIHDATA LDVGQQRLNLTIPQAFMSNRARGYIPPELWDP
		Sbjct: 121 TASVSGMNLLADDACVPLTSMIHDATAQLDVGQQRLNLTIPQAFMSNRARGYIPPELWDP 180
		
		Query: 181 GINAGLLNYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSK 240
		           GINAGLLNYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSK
		Sbjct: 181 GINAGLLNYNFSGNSVQNRIGGNSHYAYLNLQSGLNIGAWRLRDNTTWSYNSSDSSSGSK 240
		
		Query: 241 NKWQHINTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPV 300
		           NKWQHINTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPV
		Sbjct: 241 NKWQHINTWLERDIIPLRSRLTLGDGYTQGDIFDGINFRGAQLASDDNMLPDSQRGFAPV 300
		
		Query: 301 IHGIARGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTV 360
		           IHGIARGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTV
		Sbjct: 301 IHGIARGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTV 360
		
		Query: 361 PYSSVPLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRY 420
		           PYSSVPLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRY
		Sbjct: 361 PYSSVPLLQREGHTRYSITAGEYRSGNAQQEKPRFFQSTLLHGLPAGWTIYGGTQLADRY 420
		
		Query: 421 RAFNFGIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYR 480
		           RAFNFGIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYR
		Sbjct: 421 RAFNFGIGKNMGALGALSVDMTQANSTLPDDSQHDGQSVRFLYNKSLNESGTNIQLVGYR 480
		
		Query: 481 YSTSGYFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRT 540
		           YSTSGYFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRT
		Sbjct: 481 YSTSGYFNFADTTYSRMNGYNIETQDGVIQVKPKFTDYYNLAYNKRGKLQLTVTQQLGRT 540
		
		Query: 541 STLYLSGSHQTYWGTSNVDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNI 600
		           STLYLSGSHQTYWGTSNVDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNI
		Sbjct: 541 STLYLSGSHQTYWGTSNVDEQFQAGLNTAFEDINWTLSYSLTKNAWQKGRDQMLALNVNI 600
		
		Query: 601 PFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGD 660
		           PFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGD
		Sbjct: 601 PFSHWLRSDSKSQWRHASASYSMSHDLNGRMTNLAGVYGTLLEDNNLSYSVQTGYAGGGD 660
		
		Query: 661 GNSGSTGYATLNYRGGYGNANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVL 720
		           GNSGSTGYATLNYRGGYGNANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVL
		Sbjct: 661 GNSGSTGYATLNYRGGYGNANIGYSHSDDIKQLYYGVSGGVLAHANGVTLGQPLNDTVVL 720
		
		Query: 721 VKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVP 780
		           VKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVP
		Sbjct: 721 VKAPGAKDAKVENQTGVRTDWRGYAVLPYATEYRENRVALDTNTLADNVDLDNAVANVVP 780
		
		Query: 781 TRGAIVRAEFKARVGIKLLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLA 840
		           TRGAIVRAEFKARVGIKLLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLA
		Sbjct: 781 TRGAIVRAEFKARVGIKLLMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLA 840
		
		Query: 841 GKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAECR 878
		           GKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAECR
		Sbjct: 841 GKVQVKWGEEENAHCVANYQLPPESQQQLLTQLSAECR 878
		
		
	5290#c5399	VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature.	30	0.004
		>VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature.
		          Length = 1291
		
		 Score = 30.4 bits (68), Expect = 0.004
		 Identities = 30/158 (18%), Positives = 49/158 (31%), Gaps = 9/158 (5%)
		
		Query: 3   WRKRGYLLAAMLAFASATIQAADVTITVNGKVVAKPCTVSTTNATVDLGDLYSFSLMSAG 62
		           W  R   + A LA + +TI  + VT  VN   +      +     +     +       G
		Sbjct: 258 WMGRLQYVGAYLAPSYSTINTSKVTGEVNFNHLTVGDHNAAQAGIIASNKTH------IG 311
		
		Query: 63  AASAWHDVALELTNCPVG--TSRVTASFSGAADSTGYYKNQGTAQNIQLELQDDSGNTLN 120
		               W    L +   P G    +     S    +      Q ++QN       +  N+  
		Sbjct: 312 TLDLWQSAGLNIIAPPEGGYKDKPNDKPSNTTQNNAKNDKQESSQNNSNTQVINPPNSAQ 371
		
		Query: 121 TGATKTVQVDDSSQSAHFPLQVRALTVNGGATQGTIQA 158
		               +  QV D   +      V    +N  A  GTI+ 
		Sbjct: 372 KTEIQPTQVIDGPFAGGKNTVVNINRINTNA-DGTIRV 408
		
		
	5291#c5400	SURFACELAYER#Lactobacillus surface layer protein signature.	28	0.045
		>SURFACELAYER#Lactobacillus surface layer protein signature.
		          Length = 439
		
		 Score = 28.1 bits (62), Expect = 0.045
		 Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 1/79 (1%)
		
		Query: 214 SQNLGYYLSGTTADAGNSIFTNTASFSPAQGVGVQLTRNGTIIPANNTVSLGAVGTSAVS 273
		           S+N G  ++  +A+  N  FT      PA  V V L ++G    ++  +       +  +
		Sbjct: 133 SENAGKEITIGSAN-PNVTFTEKTGDQPASTVKVTLDQDGVAKLSSVQIKNVYAIDTTYN 191
		
		Query: 274 LGLTANYARTGGQVTAGNV 292
		             +      TG  VT G V
		Sbjct: 192 SNVNFYDVTTGATVTTGAV 210
		
		
	5292#c5401	PF06580#Sensor histidine kinase	31	0.008
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 31.4 bits (71), Expect = 0.008
		 Identities = 10/49 (20%), Positives = 25/49 (51%)
		
		Query: 230 LVPLIPAIIMISTTIANIWLVKDTPAWEVVNFIGSSPIAMFIAMVVAFV 278
		           +  +I  ++     I  +W V +T  W ++ FI + P+A  + + ++ +
		Sbjct: 73  MGQIILRVLPACVVIGMVWFVANTSIWRLLAFINTKPVAFTLPLALSII 121
		
		
	5297#c5406	PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase sign...	153	1e-47
		>PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase
		           signature.
		          Length = 572
		
		 Score =  153 bits (389), Expect = 1e-47
		 Identities = 46/110 (41%), Positives = 66/110 (60%)
		
		Query: 1   MIEVPAAVMIADKLASEVDFFSIGTNDLTQYIMAADRGNSTVAKLVDYCNDAVINAIAMV 60
		           M+E+P+  + A+  A EVDFFSIGTNDL QY MAADR N  V+ L    + A++  + MV
		Sbjct: 430 MVEIPSTAVAANLFAKEVDFFSIGTNDLIQYTMAADRMNERVSYLYQPYHPAILRLVDMV 489
		
		Query: 61  CQAGRNNEIPVSMCGEMAGDIQQTARLLTMGIDKLSASPSRLPALKAAIR 110
		            +A  +    V MCGEMAGD      LL +G+D+ S S + +   ++ + 
		Sbjct: 490 IKAAHSEGKWVGMCGEMAGDEVAIPLLLGLGLDEFSMSATSILPARSQLL 539
		
		
	5299#c5408	UREASE#Urea amidohydrolase (urease) protein signature.	35	4e-04
		>UREASE#Urea amidohydrolase (urease) protein signature.
		          Length = 570
		
		 Score = 35.5 bits (82), Expect = 4e-04
		 Identities = 30/129 (23%), Positives = 48/129 (37%), Gaps = 33/129 (25%)
		
		Query: 26  CDVLIANGKIIAVASNIPSDIVPDCT--------VVDLSGQILCPGFIDQHVHLIGG--- 74
		            D+ + +G+I A+      D+ P  T        V+   G+I+  G +D H+H I     
		Sbjct: 86  ADIGLKDGRIAAIGKAGNPDMQPGVTIIVGPGTEVIAGEGKIVTAGGMDSHIHFICPQQI 145
		
		Query: 75  ------------GGEAGP------TTRTP-EVALSRLTEA--GITSVVGLLGTDSISRHP 113
		                       GG  GP      TT TP    ++R+ EA       +   G  + S  P
		Sbjct: 146 EEALMSGLTCMLGGGTGPAHGTLATTCTPGPWHIARMIEAADAFPMNLAFAGKGNAS-LP 204
		
		Query: 114 ESLLAKTRA 122
		            +L+     
		Sbjct: 205 GALVEMVLG 213
		
		
	5303#c5414	TCRTETA#Tetracycline resistance protein signature.	29	0.027
		>TCRTETA#Tetracycline resistance protein signature.
		          Length = 399
		
		 Score = 29.4 bits (66), Expect = 0.027
		 Identities = 58/312 (18%), Positives = 106/312 (33%), Gaps = 16/312 (5%)
		
		Query: 82  RPFLLASALASGLLILAMAWLPPFILVLLIRVLAGVASAGMLIFGSTLIMQHTRHPFVLA 141
		           RP LL S   + +    MA  P   ++ + R++AG+  A   + G+ +            
		Sbjct: 73  RPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVAGAYIADITDGDERARH 132
		
		Query: 142 ALFSGVGIGIALSNEYVLAGLHFDLSSQTLWQGAGALSGMMLIALTLLMP-SKKHAIAPM 200
		             F     G  +    VL GL    S    +  A AL+G+  +    L+P S K    P+
		Sbjct: 133 FGFMSACFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGCFLLPESHKGERRPL 192
		
		Query: 201 PLAKTEQQIMSWW---------LLAILYGLAGFGYIIVATYLPLMAKDAGSPLLTAHLWT 251
		                       W         L+A+ + +   G +  A ++            T  + +
		Sbjct: 193 RREALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAALWVIFGEDRFHWDATTIGI-S 251
		
		Query: 252 LVGLSIVPGCFGWLWA---AKRWGALPCLTANLLVQAIS-VLLTLASDSPLLLIISSLGF 307
		           L    I+      +     A R G    L   ++      +LL  A+   +   I  L  
		Sbjct: 252 LAAFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFATRGWMAFPIMVL-L 310
		
		Query: 308 GGTFMGTTSLVMTIARQLSVPGNLNLLGFVTLIYGIGQILGPALTSMLGNGTSALASATL 367
		               +G  +L   ++RQ+       L G +  +  +  I+GP L + +   +    +   
		Sbjct: 311 ASGGIGMPALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGPLLFTAIYAASITTWNGWA 370
		
		Query: 368 CGAAALFIAALI 379
		             A A      +
		Sbjct: 371 WIAGAALYLLCL 382
		
		
	5304#c5415	ADHESNFAMILY#Adhesin family signature.	29	0.026
		>ADHESNFAMILY#Adhesin family signature.
		          Length = 309
		
		 Score = 29.1 bits (65), Expect = 0.026
		 Identities = 10/45 (22%), Positives = 17/45 (37%)
		
		Query: 54 LFVIVAVCTFFVQSCARKSNHAASFQNYHATIDGKEIAGITNNIS 98
		            +++ +    + +CA       S Q          IA IT NI+
		Sbjct: 6  TLLVLFLSAIILVACASGKKDTTSGQKLKVVATNSIIADITKNIA 50
		
		
c5482	c5488	N	Y	N	c5467	
	c5482	-2	15	1.028931	Probable phosphoglycerate mutase 2
	c5483	-1	13	0.429038	Right origin-binding protein
	c5484	0	14	0.048849	CreA protein
	c5485				Transcriptional Regulatory protein creB
	c5486				Sensor protein creC
	c5487				Inner membrane protein creD
	c5488				Aerobic respiration control protein arcA
	5371#c5482	VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature.	29	0.017
		>VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature.
		          Length = 1291
		
		 Score = 28.8 bits (64), Expect = 0.017
		 Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
		
		Query: 145 PLLVSHGIALGCLVSTILGLPAWAERRLRLRNCSISRVDYQESLW 189
		           P +V  GIA G  V T+ GL  W  ++    N      D  + +W
		Sbjct: 42  PAIVG-GIATGAAVGTVSGLLGWGLKQAEEAN---KTPDKPDKVW 82
		
		
	5374#c5485	HTHFIS#FIS bacterial regulatory protein HTH signature.	90	9e-23
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 89.5 bits (222), Expect = 9e-23
		 Identities = 34/139 (24%), Positives = 61/139 (43%)
		
		Query: 1   MQRETVWLVEDEQGIADTLVYMLQQEGFDVEVFERGLPVLDKARQQVPDVMILDVGLPDI 60
		           M   T+ + +D+  I   L   L + G+DV +      +         D+++ DV +PD 
		Sbjct: 1   MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60
		
		Query: 61  SGFELCRQLLALHPALPVLFLTARSEEVDRLLGLEIGADDYVAKPFSPREVCARVRTLLR 120
		           + F+L  ++    P LPVL ++A++  +  +   E GA DY+ KPF   E+   +   L 
		Sbjct: 61  NAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120
		
		Query: 121 RVKKFSTPSPVIRIGHFEL 139
		             K+  +           L
		Sbjct: 121 EPKRRPSKLEDDSQDGMPL 139
		
		
	5375#c5486	PF06580#Sensor histidine kinase	32	0.006
		>PF06580#Sensor histidine kinase
		          Length = 349
		
		 Score = 31.8 bits (72), Expect = 0.006
		 Identities = 41/182 (22%), Positives = 72/182 (39%), Gaps = 40/182 (21%)
		
		Query: 312 LRQARLENRQEVVLTAVDVAALFR---RVSEARTVQLAE--KNITLHVM--------PTE 358
		           +R   LE+  +       ++ L R   R S AR V LA+    +  ++           +
		Sbjct: 182 IRALILEDPTKAREMLTSLSELMRYSLRYSNARQVSLADELTVVDSYLQLASIQFEDRLQ 241
		
		Query: 359 VNVASEPALLEQALGNLL-----DNA----IDFTPESGCITLSAEVDQEYVTLKVLDTGS 409
		                 PA+++  +  +L     +N     I   P+ G I L    D   VTL+V +TGS
		Sbjct: 242 FENQINPAIMDVQVPPMLVQTLVENGIKHGIAQLPQGGKILLKGTKDNGTVTLEVENTGS 301
		
		Query: 410 GIPDYALSRIFERFYSLPRANGQKSSGLGLAFVSE-VARLFNGEVTLR-NVQEGGVLASL 467
		                               N ++S+G GL  V E +  L+  E  ++ + ++G V A +
		Sbjct: 302 LALK----------------NTKESTGTGLQNVRERLQMLYGTEAQIKLSEKQGKVNAMV 345
		
		Query: 468 RL 469
		            +
		Sbjct: 346 LI 347
		
		
	5377#c5488	HTHFIS#FIS bacterial regulatory protein HTH signature.	82	4e-20
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 81.8 bits (202), Expect = 4e-20
		 Identities = 30/122 (24%), Positives = 60/122 (49%), Gaps = 1/122 (0%)
		
		Query: 1   MQTPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYDINLVIMDINLPGK 60
		           M    IL+ +D+   R  L       GYDV   ++ A + + ++  D +LV+ D+ +P +
		Sbjct: 1   MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60
		
		Query: 61  NGLLLARELRE-QANVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLS 119
		           N   L   +++ + ++ ++ ++ ++  +  I   E GA DY+ KPF+  EL       L+
		Sbjct: 61  NAFDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALA 120
		
		Query: 120 RT 121
		             
		Sbjct: 121 EP 122
		
		
