BOV_A0025	BOV_A0041	Y	Y	Y	BOV_A0008	BOV_A0053
	BOV_A0025	0	14	3.198416	branched-chain amino acid ABC transporter
	BOV_A0026	0	14	3.747758	glyoxalase family protein
	BOV_A0027	0	14	2.818524	putative 3-oxoacyl-(acyl-carrier-protein)
	BOV_A0028	1	14	3.001770	short chain dehydrogenase/reductase family
	BOV_A0029	0	12	2.538968	putative acetoin dehydrogenase, alpha/subunit
	BOV_A0031	0	13	1.586930	shikimate dehydrogenase
	BOV_A0032	2	15	1.110842	hypothetical protein
	BOV_A0033	2	14	0.310590	magnesium-translocating P-type ATPase
	BOV_A0034	0	17	-0.874109	hypothetical protein
	BOV_A0035	0	17	-1.522279	MgtC family protein
	BOV_A0036	0	15	-1.603723	hypothetical protein
	BOV_A0037	-1	15	-0.464349	sensor histidine kinase
	BOV_A0038	-1	14	0.154397	LuxR family DNA-binding response regulator
	BOV_A0040	1	16	1.143098	*response regulator
	BOV_A0041	2	17	1.083627	hypothetical protein
	25#BOV_A0027	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	116	9e-34
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score =  116 bits (292), Expect = 9e-34
		 Identities = 81/250 (32%), Positives = 115/250 (46%), Gaps = 14/250 (5%)
		
		Query: 6   ENRTLVLTGANGGIGRAIAELFHASGANLVLTDLDREGLDAFAASLGSPERIA-TIKADA 64
		           E +   +TGA  GIG A+A    + GA++   D + E L+   +SL +  R A    AD 
		Sbjct: 7   EGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADV 66
		
		Query: 65  SSADDAEKTVALAMERFGGIDFLVPSAGIYQAKPFAEMSDADWHRTISINLDGVFYLCKR 124
		             +   ++  A      G ID LV  AG+ +      +SD +W  T S+N  GVF   + 
		Sbjct: 67  RDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRS 126
		
		Query: 125 ALPALK--EDSSIVTLASLAAYRGAYVNAHYGATKGAMVSMTRALSRELAP-KTRVNGVA 181
		               +      SIVT+ S  A       A Y ++K A V  T+ L  ELA    R N V+
		Sbjct: 127 VSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVS 186
		
		Query: 182 PGIIETPMTSEL----------LKTRMDETMTQTPLKRLGKPSEIASVIAFLCSPAASFV 231
		           PG  ET M   L          +K  ++   T  PLK+L KPS+IA  + FL S  A  +
		Sbjct: 187 PGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHI 246
		
		Query: 232 TGETIQVNGG 241
		           T   + V+GG
		Sbjct: 247 TMHNLCVDGG 256
		
		
	26#BOV_A0028	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	117	5e-34
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score =  117 bits (294), Expect = 5e-34
		 Identities = 76/250 (30%), Positives = 119/250 (47%), Gaps = 12/250 (4%)
		
		Query: 7   KLVLVTGAGRGLGAAISSGAAEQGARVILVDIDGTAAKAQADALTAKGFVAEGHALDVTD 66
		           K+  +TGA +G+G A++   A QGA +  VD +    +    +L A+   AE    DV D
		Sbjct: 9   KIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAFPADVRD 68
		
		Query: 67  RDAVAALADDILSRFGGLDVLVNNAGVAGRAAFDQPEAVEVWDRVIGVNLEGAFNVSHAL 126
		             A+  +   I    G +D+LVN AGV          + E W+    VN  G FN S ++
		Sbjct: 69  SAAIDEITARIEREMGPIDILVNVAGVLRPGLIHS-LSDEEWEATFSVNSTGVFNASRSV 127
		
		Query: 127 VPALKAAK-GNVVHLCSVAGFVSGGSTAGYVVSKGAIRSLTQVMARDLAPHGIRVNAVAP 185
		              +   + G++V + S    V   S A Y  SK A    T+ +  +LA + IR N V+P
		Sbjct: 128 SKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVSP 187
		
		Query: 186 GIMMSEM---------AVAQLNRPGGTDWFMNRVMMKRIGETSEVVDPVVFLASPMASYI 236
		           G   ++M            Q+ + G  + F   + +K++ + S++ D V+FL S  A +I
		Sbjct: 188 GSTETDMQWSLWADENGAEQVIK-GSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHI 246
		
		Query: 237 TGTILPVDGG 246
		           T   L VDGG
		Sbjct: 247 TMHNLCVDGG 256
		
		
	35#BOV_A0038	HTHFIS#FIS bacterial regulatory protein HTH signature.	107	2e-29
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score =  107 bits (269), Expect = 2e-29
		 Identities = 28/123 (22%), Positives = 55/123 (44%)
		
		Query: 11  VFIVDDDHSVRLGLVDLFASIGLKALCFASVNEFLKHAREEVPACLILDVRMPGESGTEF 70
		           + + DDD ++R  L    +  G      ++     +         ++ DV MP E+  + 
		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFDL 65
		
		Query: 71  HARMKGLDIRLPVIFITGHGDIAMGVKAIKDGAIDFLAKPFRNQDLLDAVQQAIRTDRKR 130
		             R+K     LPV+ ++        +KA + GA D+L KPF   +L+  + +A+   ++R
		Sbjct: 66  LPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKRR 125
		
		Query: 131 LRE 133
		             +
		Sbjct: 126 PSK 128
		
		
	36#BOV_A0040	HTHFIS#FIS bacterial regulatory protein HTH signature.	92	5e-25
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 91.8 bits (228), Expect = 5e-25
		 Identities = 34/115 (29%), Positives = 57/115 (49%)
		
		Query: 3   RILLAEDDNDMRRFLVKALEKAGYHVTHFDNGASAYERLQEEPFSLLLTDIVMPEMDGIE 62
		            IL+A+DD  +R  L +AL +AGY V    N A+ +  +      L++TD+VMP+ +  +
		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64
		
		Query: 63  LARRATEIDPDLKIMFITGFAAVALNPDSDAPRDAKVLSKPFHLRDLVNEIEKML 117
		           L  R  +  PDL ++ ++          +        L KPF L +L+  I + L
		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRAL 119
		
		
BOV_A0052	BOV_A0059	Y	Y	N	BOV_A0034	BOV_A0076
	BOV_A0052	3	21	-0.214254	hypothetical protein
	BOV_A0053	5	20	-0.871601	putative lipoprotein
	BOV_A0054	4	19	-1.112843	P-type DNA transfer ATPase VirB11
	BOV_A0055	4	19	-1.884229	type IV secretion system protein VirB10
	BOV_A0056	3	20	-2.372070	P-type conjugative transfer protein VirB9
	BOV_A0057	4	21	-2.617514	type IV secretion system protein VirB8
	BOV_A0058	4	21	-2.482511	type IV secretion system protein VirB6
	BOV_A0059	2	19	-1.743798	P-type DNA transfer protein VirB5
	47#BOV_A0053	OMPADOMAIN#OMPA domain signature.	51	2e-10
		>OMPADOMAIN#OMPA domain signature.
		          Length = 346
		
		 Score = 51.5 bits (123), Expect = 2e-10
		 Identities = 32/144 (22%), Positives = 56/144 (38%), Gaps = 21/144 (14%)
		
		Query: 47  FPQEPTAQATMWPARPPKQTVS--------VYFPQDVTVFRPTSAQ-INQLHTLLWPV-P 96
		           F Q   A        P  +  +        V F  +    +P     ++QL++ L  + P
		Sbjct: 191 FGQGEAAPVVAPAPAPAPEVQTKHFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDP 250
		
		Query: 97  KH--INVRGLTDNNCPPPGDTQVARVRALAIYNWLINQGVPASRI-TISYAPVKDYASN- 152
		           K   + V G TD       +  ++  RA ++ ++LI++G+PA +I             N 
		Sbjct: 251 KDGSVVVLGYTDRIGSDAYNQGLSERRAQSVVDYLISKGIPADKISARGMGESNPVTGNT 310
		
		Query: 153 -------APLSPGRVLNRRVDIEI 169
		                  A L      +RRV+IE+
		Sbjct: 311 CDNVKQRAALIDCLAPDRRVEIEV 334
		
		
	49#BOV_A0055	PF03544#Gram-negative bacterial tonB protein	39	1e-05
		>PF03544#Gram-negative bacterial tonB protein
		          Length = 243
		
		 Score = 39.2 bits (91), Expect = 1e-05
		 Identities = 26/122 (21%), Positives = 33/122 (27%), Gaps = 1/122 (0%)
		
		Query: 33  VLLFLFVVGFIVVLLLLLVFHMRGN-AENNHHSDKTMVQTSTVPMRTFKLPPPPPPAPPE 91
		            LL + + G +V  LL    H              TMV  + +       PPP P   PE
		Sbjct: 18  TLLSVCIHGAVVAGLLYTSVHQVIELPAPAQPISVTMVAPADLEPPQAVQPPPEPVVEPE 77
		
		Query: 92  PPAPPPAPAMPIAEPAAAALSLPPLPDDTPAKDDVLDKSASALMVVTKSSGDTNAQTTNA 151
		           P   P       A          P P   P K     K     +    +S   N      
		Sbjct: 78  PEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVEQPKRDVKPVESRPASPFENTAPARP 137
		
		Query: 152 RI 153
		             
		Sbjct: 138 TS 139
		
		
	50#BOV_A0056	TYPE4SSCAGX#Type IV secretion system CagX conjugation protein si...	51	2e-09
		>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein
		           signature.
		          Length = 522
		
		 Score = 50.9 bits (121), Expect = 2e-09
		 Identities = 47/197 (23%), Positives = 72/197 (36%), Gaps = 58/197 (29%)
		
		Query: 93  SHSNQSIDMAPEPGKWDTNLMVTTDQRMYDFDLRLMPGRNNQRVAYRVQFRYPAAAAAAA 152
		           S  + SI+++P    W TNL+V T++ +Y F LR+    N       V+  YP     ++
		Sbjct: 262 SPEDNSIELSPSDSAWRTNLVVRTNKALYQFILRIAQKDNFASAYLTVKLEYPQRHEVSS 321
		
		Query: 153 V----------AAAQKRVV-QARMNA---------------------------------- 167
		           V          A  Q+ ++ Q  +N                                   
		Sbjct: 322 VIEEELKKREEAKRQRELIKQENLNTTAYINRVMMASNEQIINKEKIREEKQKIILDQAK 381
		
		Query: 168 -----------RPSPVNWNYTMQVG--TNSASIAPTLAYDDGRFTYLRFPNNRDFPAAFL 214
		                      + +PV  NY         S  I P+  +DDG FTY  F N    PA F+
		Sbjct: 382 ALETQYVHNALKRNPVPRNYNYYQAPEKRSKHIMPSEIFDDGTFTYFGFKNITLQPAIFV 441
		
		Query: 215 VAEDKSESIVNSHIDPS 231
		           V  D   S+ ++ IDP+
		Sbjct: 442 VQPDGKLSMTDAAIDPN 458
		
		
	51#BOV_A0057	PF04335#VirB8 type IV secretion protein	215	6e-73
		>PF04335#VirB8 type IV secretion protein
		          Length = 227
		
		 Score =  215 bits (550), Expect = 6e-73
		 Identities = 58/217 (26%), Positives = 104/217 (47%), Gaps = 7/217 (3%)
		
		Query: 23  YDEALNWEAAHVRLIEKSERRAWKIAGAFGTITVLLGIGIAGMLPLKQHVPYLVRVNAQT 82
		           ++EA +WE   +   E+S++ AW +AG  G +     + +A + PLK   PY++ V+  T
		Sbjct: 14  FEEAASWERDKLAAAERSKKLAWVVAGVAGALATAGVVAVAALTPLKTVEPYVITVDRNT 73
		
		Query: 83  GAPDILTSLD-EKSVSYDTVMDKYWLSQYVIARETYDWYTLQKDYETVGMLSSPSEGQSY 141
		           G   I   L  + +++YD  + KY+L+ YV  RE +     ++ ++ V ++S+  E   +
		Sbjct: 74  GEASIAAKLHGDATITYDEAVRKYFLATYVRYREGWIAAAREEYFDAVMVMSARPEQDRW 133
		
		Query: 142 ASQFQGD--KALDKQYGSNVRTSVTIVSIVPNGKGIGTVRFAKTTKRTNETGDGETTHWI 199
		           +  ++ D  ++      +     V I  +   G  +  V F K +   + +     T  +
		Sbjct: 134 SRFYKTDNPQSPQNILANRTDVFVEIKRVSFLGGNVAQVYFTKESVTGSNS---TKTDAV 190
		
		Query: 200 ATIGYQYVNPSLMSESARLTNPLGFNVTSYRVDPEMG 236
		           ATI Y+        E  R  NPLG+ V SYR D E+ 
		Sbjct: 191 ATIKYKVDGTP-SKEVDRFKNPLGYQVESYRADVEVP 226
		
		
	52#BOV_A0058	CHANLCOLICIN#Channel forming colicin signature.	32	0.004
		>CHANLCOLICIN#Channel forming colicin signature.
		          Length = 522
		
		 Score = 32.0 bits (72), Expect = 0.004
		 Identities = 16/31 (51%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
		
		Query: 305 SGSSGGGGSGSAKAGGESSYSAGGNAMWSPA 335
		           SGS GGGG G +K+  ESS +    A WS A
		Sbjct: 32  SGSGGGGGKGGSKS--ESSAAIHATAKWSTA 60
		
		
BOV_A0078	BOV_A0083	Y	Y	N	BOV_A0062	BOV_A0106
	BOV_A0078	2	14	2.318203	hypothetical protein
	BOV_A0079	3	16	0.533780	keto-hydroxyglutarate-aldolase/keto-deoxy-
	BOV_A0080	3	17	-0.616792	hypothetical protein
	BOV_A0081	3	14	-0.383660	rhodanese family protein
	BOV_A0082	4	15	-1.047994	molybdate ABC transporter substrate-binding
	BOV_A0083	4	15	0.012317	molybdate ABC transporter permease
	71#BOV_A0078	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	36	4e-04
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 36.2 bits (83), Expect = 4e-04
		 Identities = 41/288 (14%), Positives = 80/288 (27%), Gaps = 32/288 (11%)
		
		Query: 269  ADEEEDNGDTAAPATARPARATAPTRQTPAAVPAAPVEQPRETMVAALPARDAP-VPMQA 327
		             ++     DT    T    +A  P+  +     A   E P      A P+     V   +
		Sbjct: 985  VEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAENS 1044
		
		Query: 328  PRPETGLDAQAAAAETPVAAFNVPVPAHKPQMAPQDAVALAAAEDPAAAARAAVDANTAQ 387
		             +    ++     A    A           ++A +    + A       A++  +    Q
		Sbjct: 1045 KQESKTVEKNEQDATETTA--------QNREVAKEAKSNVKANTQTNEVAQSGSETKETQ 1096
		
		Query: 388  VADAGMSAALTNGFVPVPSARPHLETDNVQLAAAVIPTARP-------ERPGEHPARGQD 440
		              +   +A +          +  +ET+  Q    V     P        +P   PAR  D
		Sbjct: 1097 TTETKETATVEK------EEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPAREND 1150
		
		Query: 441  AIAALVNSQSDEPAQMAGEMADATGNAVAPQPGKTAAFPLPTQAPRADTKLAMVSRRDEI 500
		                +   QS        E      ++   QP   +          +  +    +     
		Sbjct: 1151 PTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTEST---TVNTGNSVVENPENTTPAT- 1206
		
		Query: 501  GELIAPPEDDYDYDAKPVA--AAAPKQAPAPVQMASAAPTKPAAVASA 546
		                  P  + +   KP      + +  P  V+ A+ +    + VA  
		Sbjct: 1207 ----TQPTVNSESSNKPKNRHRRSVRSVPHNVEPATTSSNDRSTVALC 1250
		
		
BOV_A0145	BOV_A0152	Y	Y	N	BOV_A0129	BOV_A0174
	BOV_A0145	2	21	-0.531877	hypothetical protein
	BOV_A0146	3	24	-0.963014	LysR family transcriptional regulator
	BOV_A0147	5	23	-0.773321	CAIB/BAIF family protein
	BOV_A0148	5	24	-1.426704	hypothetical protein
	BOV_A0149	4	26	-2.080382	putative citrate lyase subunit beta
	BOV_A0150	6	27	-2.804883	hypothetical protein
	BOV_A0151	4	21	-1.975005	putative cytochrome b561
	BOV_A0152	2	19	-0.434345	outermembrane transporter
	139#BOV_A0152	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	32	0.013
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 32.0 bits (72), Expect = 0.013
		 Identities = 39/149 (26%), Positives = 49/149 (32%), Gaps = 13/149 (8%)
		
		Query: 433 SGVNTYTGGTTLTAGTLAAASDNNLGG------ASGGLTFNGGTLQVMGTSWTSTNWAVS 486
		              +T TGG       LA   D    G       SG LT N    Q  G  +   ++ V 
		Sbjct: 355 GKTSTITGGEKSLNVDLADGKDKPNHGKSVTFEGSGTLTLNNNIDQGAGGLFFEGDYEVK 414
		
		Query: 487 LQAGGGTFDIE--DAANNFAVTQGVAGAGG--LTKSGSGTLTLSGANSYTGATTVSAGTL 542
		             +   T+       A    VT  V       L K G GTL + G     G+  V  GT+
		Sbjct: 415 GTSDNTTWKGAGVSVAEGKTVTWKVHNPQYDRLAKIGKGTLIVEGTGDNKGSLKVGDGTV 474
		
		Query: 543 ---TQGAAGGFSTASSRYDVDTDGTLDLG 568
		               Q    G    +S   V    TL L 
		Sbjct: 475 ILKQQTNGSGQHAFASVGIVSGRSTLVLN 503
		
		
BOV_A0171	BOV_A0177	Y	N	N	BOV_A0152	BOV_A0197
	BOV_A0171	5	25	0.943871	ATP phosphoribosyltransferase catalytic subunit
	BOV_A0173	6	31	0.725174	hypothetical protein
	BOV_A0174	7	26	1.075644	fumarate hydratase
	BOV_A0175	5	23	0.495434	hypothetical protein
	BOV_A0176	5	22	0.959386	hypothetical protein
	BOV_A0177	3	19	0.446610	chaperonin GroEL
BOV_A0218	BOV_A0226	Y	Y	N	BOV_A0199	BOV_A0243
	BOV_A0218	2	12	1.778053	dihydrodipicolinate synthase family protein
	BOV_A0219	3	13	2.014301	malate/L-lactate dehydrogenase family protein
	BOV_A0220	2	12	1.300152	hypothetical protein
	BOV_A0221	1	13	3.169962	hypothetical protein
	BOV_A0222	0	11	3.056133	cytochrome c oxidase subunit III
	BOV_A0223	-1	13	3.466810	norF protein
	BOV_A0224	-1	13	3.134655	nitric-oxide reductase, small subunit
	BOV_A0226	-1	14	3.003483	CbbQ/NirQ/NorQ/GpvN family protein
	202#BOV_A0226	HTHFIS#FIS bacterial regulatory protein HTH signature.	32	0.003
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 31.7 bits (72), Expect = 0.003
		 Identities = 26/97 (26%), Positives = 39/97 (40%), Gaps = 13/97 (13%)
		
		Query: 25  CALFEMAWQRKLPLLLKGPTGCGKT---RFVSHMAARMGLPLSTVSCH---DDLAAADLT 78
		             +     Q  L L++ G +G GK    R +     R   P   ++      DL  ++L 
		Sbjct: 150 YRVLARLMQTDLTLMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRDLIESELF 209
		
		Query: 79  GRYLLKG---GDTIWMDGRLTRAVRDGGICYLDEIVE 112
		           G    KG   G      GR  +A  +GG  +LDEI +
		Sbjct: 210 GHE--KGAFTGAQTRSTGRFEQA--EGGTLFLDEIGD 242
		
		
BOV_A0288	BOV_A0293	Y	N	N	BOV_A0268	BOV_A0319
	BOV_A0288	1	12	-4.485492	hypothetical protein
	BOV_A0289	1	12	-3.336938	hypothetical protein
	BOV_A0290	2	11	-3.530410	glutaredoxin-like protein nrdH
	BOV_A0291	2	12	-3.672406	ribonucleotide reductase stimulatory protein
	BOV_A0292	2	12	-3.625671	ribonucleotide-diphosphate reductase subunit
	BOV_A0293	2	11	-2.295757	ribonucleotide-diphosphate reductase subunit
BOV_A0466	BOV_A0522	Y	Y	Y	BOV_A0451	BOV_A0494
	BOV_A0466	-1	13	-3.181858	oligopeptide ABC transporter permease
	BOV_A0467	0	13	-3.994836	oligopeptide ABC transporter substrate-binding
	BOV_A0468	0	14	-3.122756	oligopeptide ABC transporter substrate-binding
	BOV_A0469	3	17	-0.822724	transposase OrfA
	BOV_A0470	2	17	0.905571	transposase OrfB
	BOV_A0471	3	18	1.938898	hypothetical protein
	BOV_A0472	4	17	1.601503	hypothetical protein
	BOV_A0473	3	16	1.965188	NAD-dependent epimerase/dehydratase family
	BOV_A0474	2	18	2.413657	UDP-glucose 4-epimerase
	BOV_A0476	0	15	2.191434	UDP-glucose 6-dehydrogenase
	BOV_A0477	0	16	0.363384	hypothetical protein
	BOV_A0478	-1	18	-0.109932	endoglucanase family protein
	BOV_A0479	0	22	-1.144715	hypothetical protein
	BOV_A0480	1	27	-2.580604	hypothetical protein
	BOV_A0481	0	26	-1.897229	AraC family transcriptional regulator
	BOV_A0482	0	28	-3.049366	IS711, transposase orfB
	BOV_A0483	1	28	-2.525485	IS711, transposase orfA
	BOV_A0484	1	28	-2.952112	TRm24 transposase
	BOV_A0487	3	24	-1.921626	hypothetical protein
	BOV_A0488	3	26	-0.946232	AraC family transcriptional regulator
	BOV_A0489	2	25	-1.988460	transposase
	BOV_A0490	3	26	-2.204857	transposase
	BOV_A0491	3	25	-2.198665	hypothetical protein
	BOV_A0492	4	25	-3.371535	hypothetical protein
	BOV_A0494	3	25	-3.728254	hypothetical protein
	BOV_A0495	3	25	-4.107861	Y4jO-like protein
	BOV_A0496	4	30	-4.922491	hypothetical protein
	BOV_A0497	4	29	-6.299237	putative prevent-host-death protein
	BOV_A0500	4	30	-6.510831	ABC transporter ATP-binding protein
	BOV_A0501	4	30	-6.423687	ABC transporter ATP-binding protein
	BOV_A0502	4	30	-6.680915	ABC transporter permease
	BOV_A0503	3	30	-6.669707	ABC transporter permease
	BOV_A0504	3	29	-6.365983	ABC transporter substrate-binding protein
	BOV_A0505	4	31	-4.609784	amidohydrolase
	BOV_A0507	6	23	-0.710582	hypothetical protein
	BOV_A0506	5	26	-3.259257	hypothetical protein
	BOV_A0508	5	28	-3.770334	hypothetical protein
	BOV_A0510	4	28	-3.712406	transposase, Tn3 family
	BOV_A0511	5	29	-4.077824	hypothetical protein
	BOV_A0513	4	28	-3.966229	transposase
	BOV_A0512	5	34	-5.635688	putative YapH protein
	BOV_A0514	6	34	-4.927618	transposase OrfB
	BOV_A0515	5	30	-3.836504	transposase OrfA
	BOV_A0516	5	26	-3.094017	hemagglutinin
	BOV_A0517	4	25	-2.535546	transposase OrfA
	BOV_A0519	5	24	-2.170443	transposase OrfB
	BOV_A0518	4	22	-1.584364	putative cell wall surface protein
	BOV_A0521	3	22	-0.654539	IS66 family element, orf4
	BOV_A0522	2	19	-1.316191	IS66 family element, orf3
	421#BOV_A0473	NUCEPIMERASE#Nucleotide sugar epimerase signature.	202	8e-65
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score =  202 bits (515), Expect = 8e-65
		 Identities = 83/337 (24%), Positives = 138/337 (40%), Gaps = 41/337 (12%)
		
		Query: 20  VLVAGGAGFLGSHLCERLLNEGHSVICVDNFSTGRIENIRH----LLNFDGFSFIRHDIV 75
		            LV G AGF+G H+ +RLL  GH V+ +DN +     +++     LL   GF F + D+ 
		Sbjct: 3   YLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDLA 62
		
		Query: 76  NTLDLR-------VDEIYNLACPASPPHYQADPVHTMKTNVIGSLNLLELAAHYK-ARIF 127
		           +   +         + ++      +  +   +P     +N+ G LN+LE   H K   + 
		Sbjct: 63  DREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQHLL 122
		
		Query: 128 QASTSEVYGDPHVHPQPENYWGNVNSFGPRSCYDEGKRSAETLFHDFHQQYGVDIRIVRI 187
		            AS+S VYG     P   +   +V+   P S Y   K++ E + H +   YG+    +R 
		Sbjct: 123 YASSSSVYGLNRKMPFSTD--DSVDH--PVSLYAATKKANELMAHTYSHLYGLPATGLRF 178
		
		Query: 188 FNTYGPRMRPDDGRVVSNFIVQALKGEDITVYGDGSQTRSFCYVDDLIEGFHRLM----- 242
		           F  YGP  RPD    +  F    L+G+ I VY  G   R F Y+DD+ E   RL      
		Sbjct: 179 FTVYGPWGRPD--MALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAIIRLQDVIPH 236
		
		Query: 243 ---------------YSPHAIRVPVNIGNPGEFTVGALAEQIIAMTGSRSRIVYYPLPVD 287
		                           +P+ +    NIGN     +    + +    G  ++    PL   
		Sbjct: 237 ADTQWTVETGTPAASIAPYRV---YNIGNSSPVELMDYIQALEDALGIEAKKNMLPLQPG 293
		
		Query: 288 DPRQRRPDITVAKRELGWEPTVALAQGLEPTIAYFEH 324
		           D  +   D       +G+ P   +  G++  + ++  
		Sbjct: 294 DVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYRD 330
		
		
	422#BOV_A0474	NUCEPIMERASE#Nucleotide sugar epimerase signature.	150	5e-45
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score =  150 bits (381), Expect = 5e-45
		 Identities = 76/326 (23%), Positives = 131/326 (40%), Gaps = 42/326 (12%)
		
		Query: 5   NVLVVGGAGFIGSHTAKLLAGQGYAPVVYDNLSTGHQSAVRWG----------DFVEGDI 54
		             LV G AGFIG H +K L   G+  V  DNL+  +  +++             F + D+
		Sbjct: 2   KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDL 61
		
		Query: 55  LDQARLVETMEKYVPVAVIHFAASAYVGESVEDPAKYYRNNVGGTQSLLDACRLTRTQNV 114
		            D+  + +         V        V  S+E+P  Y  +N+ G  ++L+ CR  + Q++
		Sbjct: 62  ADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQHL 121
		
		Query: 115 IFSSSCATYGVPSRLPIGE-GEAQNPINPYGRTKLIAEHMLADYAVAYGLRYVALRYFNA 173
		           +++SS + YG+  ++P        +P++ Y  TK   E M   Y+  YGL    LR+F  
		Sbjct: 122 LYASSSSVYGLNRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLPATGLRFFT- 180
		
		Query: 174 SGADIDGELGEKHDPETHLIPRAMMAAAGRLDVLEVYGDDYETPDGTCIRDYIHVTDLAR 233
		               + G  G + D       +AM+        ++VY        G   RD+ ++ D+A 
		Sbjct: 181 ----VYGPWG-RPDMALFKFTKAMLEG----KSIDVYN------YGKMKRDFTYIDDIAE 225
		
		Query: 234 AHVLAVEHLKEAGGNLAV---------------NLGTGRGTSIREIVQSIGRLTGRSVPV 278
		           A +   + +  A     V               N+G      + + +Q++    G     
		Sbjct: 226 AIIRLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAKK 285
		
		Query: 279 AMRARRAGDPPALYADPALAAEKLGF 304
		            M   + GD     AD     E +GF
		Sbjct: 286 NMLPLQPGDVLETSADTKALYEVIGF 311
		
		
	425#BOV_A0478	SALSPVBPROT#Salmonella virulence plasmid 65kDa B protein signature.	29	0.026
		>SALSPVBPROT#Salmonella virulence plasmid 65kDa B protein signature.
		          Length = 591
		
		 Score = 28.9 bits (64), Expect = 0.026
		 Identities = 20/58 (34%), Positives = 22/58 (37%), Gaps = 1/58 (1%)
		
		Query: 226 LEVGRDTTFVERTKPGYDRVARFNKPIAIAELGYEGDDDYVRAWVAEANKPHAEFPAM 283
		            E+G   T V R    YD      +  A   L YEG D Y RA V     P    P M
		Sbjct: 319 DELGEADTLVSRLLLEYDENPILTQLCAARTLAYEG-DGYRRAPVNNMMPPPPPPPMM 375
		
		
	433#BOV_A0488	SECA#SecA protein signature.	34	2e-04
		>SECA#SecA protein signature.
		          Length = 901
		
		 Score = 34.5 bits (79), Expect = 2e-04
		 Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 4/43 (9%)
		
		Query: 3   PHPSLSAPKIRPDLIRPVETMGPYDSCWCRSGKKYKWCHFRRE 45
		              + +A   +    +     G  D C C SGKKYK CH R +
		Sbjct: 863 DSAAAAALAAQTGERKV----GRNDPCPCGSGKKYKQCHGRLQ 901
		
		
BOV_A0576	BOV_A0585	Y	Y	Y	BOV_A0561	BOV_A0606
	BOV_A0576	2	12	-1.362156	polar differentiation response regulator
	BOV_A0577	2	12	-0.776124	hypothetical protein
	BOV_A0578	2	12	-1.039070	nucleoside diphosphate kinase regulator
	BOV_A0579	2	14	-1.879201	DNA polymerase IV
	BOV_A0581	2	16	-3.733500	hypothetical protein
	BOV_A0580	6	25	-4.736537	hypothetical protein
	BOV_A0583	3	26	-4.488990	*endonuclease V
	BOV_A0584	2	29	-4.876804	hypothetical protein
	BOV_A0586	1	30	-5.569902	hypothetical protein
	BOV_A0585	2	20	-2.145878	hypothetical protein
	511#BOV_A0576	HTHFIS#FIS bacterial regulatory protein HTH signature.	64	3e-15
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 64.1 bits (156), Expect = 3e-15
		 Identities = 20/119 (16%), Positives = 50/119 (42%), Gaps = 5/119 (4%)
		
		Query: 12  MTK-SVMIVEDNELNMKLFRDLIEASGYETIRTRSGLEALDLAREHHPDLILMDIQLPEV 70
		           MT  ++++ +D+     +    +  +GY+   T +             DL++ D+ +P+ 
		Sbjct: 1   MTGATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDE 60
		
		Query: 71  SGLEVTKWLKDDEELRHIPVIAVTAFAMKGDE-ERIRQGGCEAYISKPISVPRFIETIK 128
		           +  ++   +K  +    +PV+ ++A        +   +G  + Y+ KP  +   I  I 
		Sbjct: 61  NAFDLLPRIK--KARPDLPVLVMSAQNTFMTAIKASEKGAYD-YLPKPFDLTELIGIIG 116
		
		
BOV_A0752	BOV_A0758	Y	N	N	BOV_A0735	BOV_A0778
	BOV_A0752	3	14	-1.922874	nickel transporter permease NikC
	BOV_A0753	2	16	-2.824118	nickel transporter permease NikB
	BOV_A0754	2	18	-3.588405	nickel ABC transporter substrate-binding
	BOV_A0755	3	20	-3.557374	nickel responsive regulator
	BOV_A0756	3	20	-3.343012	UxaA family hydrolase
	BOV_A0757	2	23	-3.436651	ABC transporter permease
	BOV_A0758	0	23	-3.004943	ABC transporter permease
BOV_A0781	BOV_A0790	Y	Y	Y	BOV_A0764	BOV_A0809
	BOV_A0781	3	28	-1.571124	*hypothetical protein
	BOV_A0782	2	27	-0.393663	hypothetical protein
	BOV_A0783	4	19	-0.740340	hypothetical protein
	BOV_A0784	4	23	-2.278001	hypothetical protein
	BOV_A0785	5	20	-1.014532	hypothetical protein
	BOV_A0786	5	19	-0.978659	hypothetical protein
	BOV_A0787	5	19	-0.957547	hypothetical protein
	BOV_A0788	4	20	-1.117892	type I restriction-modification system, M
	BOV_A0789	4	22	-0.928552	type I restriction-modification system subunit
	BOV_A0790	4	18	-0.198821	type I restriction-modification enzyme, R
	692#BOV_A0788	FLGMOTORFLIM#Flagellar motor switch protein FliM signature.	30	0.017
		>FLGMOTORFLIM#Flagellar motor switch protein FliM signature.
		          Length = 344
		
		 Score = 30.2 bits (68), Expect = 0.017
		 Identities = 11/43 (25%), Positives = 19/43 (44%)
		
		Query: 6  LATTRIIEVNMAKLTRTELENHLWKSADILRGSIDSSDYKIYI 48
		          + T  ++    A+LT T L   L     +   S+D   Y+ +I
		Sbjct: 52 MRTLSLMHETFARLTTTSLSAQLRSMVHVHVASVDQLTYEEFI 94
		
		
BOV_A1004	BOV_A1015	Y	N	Y	BOV_A0988	BOV_A1037
	BOV_A1004	-1	11	-3.362227	ubiquinone/menaquinone biosynthesis
	BOV_A1005	1	16	-4.368010	uracil phosphoribosyltransferase
	BOV_A1006	2	27	-5.855927	hypothetical protein
	BOV_A1007	2	31	-6.620183	methionine sulfoxide reductase A
	BOV_A1008	3	36	-8.178936	hypothetical protein
	BOV_A1010	1	34	-6.682640	*IS3 family transposase orfB
	BOV_A1011	0	30	-5.280385	IS3 family transposase orfA
	BOV_A1014	-1	22	-3.897711	IS3 family transposase orfA
	BOV_A1015	-1	21	-3.040274	IS3 family transposase orfB
BOV_A1047	BOV_A1053	Y	Y	N	BOV_A1032	BOV_A1085
	BOV_A1047	3	15	-0.303064	motD-related protein
	BOV_A1048	3	15	-0.737550	chemotaxis protein
	BOV_A1050	4	16	-1.058703	hypothetical protein
	BOV_A1051	4	16	-1.201903	flagellar MS-ring protein
	BOV_A1052	5	17	-1.299951	flagellin family protein
	BOV_A1053	5	16	-1.007896	outer membrane autotransporter
	918#BOV_A1047	FLGHOOKFLIK#Flagellar hook-length control protein signature.	34	7e-04
		>FLGHOOKFLIK#Flagellar hook-length control protein signature.
		          Length = 375
		
		 Score = 34.4 bits (78), Expect = 7e-04
		 Identities = 28/129 (21%), Positives = 52/129 (40%), Gaps = 15/129 (11%)
		
		Query: 257 KTLQIRLDPVELGTVTARIRVAGDSVEAHLVADKSHAAEMLAADRSMIEKALKVAGVGDD 316
		           ++ ++RL P +LG V   ++V  +  +  +V+   H    L A   ++   L  +G+   
		Sbjct: 257 QSAELRLHPQDLGEVQISLKVDDNQAQIQMVSPHQHVRAALEAALPVLRTQLAESGI--- 313
		
		Query: 317 TKISVTVADRNAQGAAQHVAAAQNAGQQQASAQQQGHQLAFNMQQQGSQGRGGEAQAQFM 376
		                       Q    +++    +GQQQA++QQQ  Q   N +    +          +
		Sbjct: 314 ------------QLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVSL 361
		
		Query: 377 SGRSGGEGG 385
		            GR  G  G
		Sbjct: 362 QGRVTGNSG 370
		
		
	921#BOV_A1051	FLGMRINGFLIF#Flagellar M-ring protein signature.	538	0.0
		>FLGMRINGFLIF#Flagellar M-ring protein signature.
		          Length = 559
		
		 Score =  538 bits (1386), Expect = 0.0
		 Identities = 159/576 (27%), Positives = 252/576 (43%), Gaps = 76/576 (13%)
		
		Query: 9   LGKLGARKLIALGLVGAALMGAILYTSIYLGRPSYETLYVGLSRDDVNRMGLALGEAGIP 68
		           L +L A   I L + G+A +  ++   ++   P Y TL+  LS  D   +   L +  IP
		Sbjct: 16  LNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMNIP 75
		
		Query: 69  FDVKSDGSSILVPIGKAENARMYLAEKGLPTSNNAGYELFDNMGSLGLTSFMQEITRVRA 128
		           +   +   +I VP  K    R+ LA++GLP     G+EL D     G++ F +++   RA
		Sbjct: 76  YRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQE-KFGISQFSEQVNYQRA 134
		
		Query: 129 LEGEIARTIQAIRGVKAARVHIVLAEKGSFRRGDQKPSASVVIRAEGGFSAESAQ--SIR 186
		           LEGE+ARTI+ +  VK+ARVH+ + +   F R  + PSASV +  E G + +  Q  ++ 
		Sbjct: 135 LEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALDEGQISAVV 194
		
		Query: 187 QLVAAAVPSLDASSVTVLDTNGHLLA---SAGEGANGAALMTASLEQQVASHVDDSIRKA 243
		            LV++AV  L   +VT++D +GHLL    ++G   N A L  A+    V S +   I   
		Sbjct: 195 HLVSSAVAGLPPGNVTLVDQSGHLLTQSNTSGRDLNDAQLKFAN---DVESRIQRRIEAI 251
		
		Query: 244 LAPYLGLGHFQTSVQAALDTDRRQTKETTYDPESRVERSVRVVRESGDSRNNRNDNATGV 303
		           L+P +G G+    V A LD   ++  E  Y P     ++    R+   S         GV
		Sbjct: 252 LSPIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPGGV 311
		
		Query: 304 -------------------------EQNIPQEQIQNRNGESSTEKTDRREELTNYEVNSK 338
		                                     QN PQ      N  S+  ++ +R E +NYEV+  
		Sbjct: 312 PGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTST-NSNSAGPRSTQRNETSNYEVDRT 370
		
		Query: 339 TVSTVSDGYSIKRLSIAVVIDQARLLQTAGTTPPPANFVDQQITKIRDLVATAAGLNTNR 398
		              T  +   I+RLS+AVV++   L   A   P P      Q+ +I DL   A G +  R
		Sbjct: 371 IRHTKMNVGDIERLSVAVVVNYKTL---ADGKPLP--LTADQMKQIEDLTREAMGFSDKR 425
		
		Query: 399 GDVINVTAVNF--LDPAGADMEPVSAPW--TDTLLRQSGSYANALAILAAVGLLIWFGLR 454
		           GD +NV    F  +D  G ++     P+    + + Q  +    L +L    +L    +R
		Sbjct: 426 GDTLNVVNSPFSAVDNTGGEL-----PFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVR 480
		
		Query: 455 PLL--RDQNVKPAGTEVAIREAGEVATPNFIGGAESVGEGVQAVIGGPAAYADQMKTSLS 512
		           P L  R +  K A  +  +R+  E A    +   E                       L 
		Sbjct: 481 PQLTRRVEEAKAAQEQAQVRQETEEAVEVRLSKDE----------------------QLQ 518
		
		Query: 513 DLRQRMRMPAKL---RLEQMIEMDEERVAAVLKQWI 545
		             R   R+ A++   R+ +M + D   VA V++QW+
		Sbjct: 519 QRRANQRLGAEVMSQRIREMSDNDPRVVALVIRQWM 554
		
		
	922#BOV_A1052	FLAGELLIN#Flagellin signature.	80	5e-19
		>FLAGELLIN#Flagellin signature.
		          Length = 507
		
		 Score = 79.7 bits (196), Expect = 5e-19
		 Identities = 45/227 (19%), Positives = 83/227 (36%), Gaps = 7/227 (3%)
		
		Query: 4   ILTNSSALTALQTLASTNKSLESTQNRISTGLRISEASDNASYWSIATSMKSDNKANSAV 63
		           I TNS +L     L  +  SL S   R+S+GLRI+ A D+A+  +IA    S+ K  +  
		Sbjct: 4   INTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQA 63
		
		Query: 64  QDALGLGAGKVDTAYSAINKIRESVDDIKTKLVSAMGA--STEDKGKIETEIKSIVANIN 121
		                 G     T   A+N+I  ++  ++   V A     S  D   I+ EI+  +  I+
		Sbjct: 64  SRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEID 123
		
		Query: 122 SALSNANYAGSNLLNGPTTDLNVVASYNRSGNAVTVDKITVKATDTDAKTMVKDIVDAGF 181
		              +   + G  +L+        V +     N      I ++  D  +  +    V+   
		Sbjct: 124 RVSNQTQFNGVKVLSQDNQMKIQVGA-----NDGETITIDLQKIDVKSLGLDGFNVNGPK 178
		
		Query: 182 FTSASDDTAIGTALNTVETALASLATGAATLGAAKSQIDSQKSFLSA 228
		             +  D  +    +   +T           + +     D+    +  
		Sbjct: 179 EATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPD 225
		
		
	923#BOV_A1053	PERTACTIN#Pertactin signature.	60	2e-10
		>PERTACTIN#Pertactin signature.
		          Length = 922
		
		 Score = 59.7 bits (144), Expect = 2e-10
		 Identities = 88/384 (22%), Positives = 134/384 (34%), Gaps = 45/384 (11%)
		
		Query: 2979 DTLLTNRLVIDGDTAGTTQVSVTNRGGLGAQTVEGIKIIQVGGASNGMFLLAGDYMFNGE 3038
		            D  L+++LV+  D +G  ++ V N G     +   + ++Q    S   F LA     N +
		Sbjct: 487  DLGLSDKLVVMRDASGQHRLWVRNSGS-EPASGNTMLLVQTPRGSAATFTLA-----NKD 540
		
		Query: 3039 QAVVAGAYGYRLYKGGVSTPADGNWYLRSALL----NPETPTNPTDPETPLYQPGVPLYE 3094
		              V  G Y YRL   G     +G W L  A       P     P     P   P  P   
		Sbjct: 541  GKVDIGTYRYRLAANG-----NGQWSLVGAKAPPAPKPAPQPGPQPGPQPPQPPQPPQPP 595
		
		Query: 3095 SYAGSLQQLNKLGTLQQRVGNRVWAKHPVPAQNDENGAGPS------------------- 3135
		                  Q+  +    Q   G  + A           G   +                   
		Sbjct: 596  QPPQPPQRQPEAPAPQPPAGRELSAAANAAVNTGGVGLASTLWYAESNALSKRLGELRLN 655
		
		Query: 3136 -GNNGIWARIEAAHAEFDPKQSTSRASYDADIWKFQTGIDGMFAETASGKFIGGVYVQYG 3194
		                G W R  A   + D +       +D  +  F+ G D   A       +GG+    G
		Sbjct: 656  PDAGGAWGRGFAQRQQLDNRAGRR---FDQKVAGFELGADHAVAVAGGRWHLGGLA---G 709
		
		Query: 3195 TVSSSVSSPFGNGSIESSGYGAGATLTWYGESDFYIDGVAQINWFDSDLNSATLGRQLVD 3254
		                      G+G   +     G   T+   S FY+D   + +  ++D   A      V 
		Sbjct: 710  YTRGDRGFT-GDGGGHTDSVHVGGYATYIANSGFYLDATLRASRLENDFKVAGSDGYAVK 768
		
		Query: 3255 GN-RAVGYSLSVETGQKIEIGEGWSLTPQAQLAYSAIRFDDFKDAFDTSVSPENDHDLTG 3313
		            G  R  G  +S+E G++    +GW L PQA+LA   +    ++ A    V  E    + G
		Sbjct: 769  GKYRTHGVGVSLEAGRRFAHADGWFLEPQAELAVFRVGGGAYRAANGLRVRDEGGSSVLG 828
		
		Query: 3314 RLGLAINRDAEWLDAQGRRVAMHI 3337
		            RLGL + +  E   A GR+V  +I
		Sbjct: 829  RLGLEVGKRIEL--AGGRQVQPYI 850
		
		
BOV_A0007	BOV_A0011	N	Y	N	BOV_A0001	BOV_A0044
	BOV_A0007	-1	16	1.657130	Bmp family lipoprotein
	BOV_A0009	-1	15	2.749334	hypothetical protein
	BOV_A0008	0	15	2.569149	putative enterobactin synthetase subunit D
	BOV_A0010	-1	14	2.000035	2,3-dihydroxybenzoate-2,3-dehydrogenase
	BOV_A0011	-1	14	1.265261	isochorismatase
	6#BOV_A0007	LIPPROTEIN48#Mycoplasma P48 major surface lipoprotein signature.	45	2e-07
		>LIPPROTEIN48#Mycoplasma P48 major surface lipoprotein signature.
		          Length = 428
		
		 Score = 45.4 bits (107), Expect = 2e-07
		 Identities = 60/268 (22%), Positives = 99/268 (36%), Gaps = 37/268 (13%)
		
		Query: 36  IMLIVNGTLGDKSFFDSAANGMKMIKDKYGDEVETRILEIGDDPTKWEPVLLDASEQDWD 95
		           +++   G + DKSF  SA   +K I  + G E+    +E   +        L A  + W 
		Sbjct: 65  VLITDEGKIDDKSFNQSAFEALKAINKQTGIEINN--VEPSSNFESAYNSALSAGHKIW- 121
		
		Query: 96  LIIAGTYQMAETVGSVAQQYPDK------KYILYDASVPYEEGGYDNVYSIQYKQNEGSY 149
		            ++ G          +   + ++      K I  D  +  E   Y   YS+Q+   E ++
		Sbjct: 122 -VLNGFKHQQSIKQYI-DAHREELERNQIKIIGIDFDIETE---YKWFYSLQFNIKESAF 176
		
		Query: 150 LGGLLAASLLKEGKLGDGAKNLGFLGGMDIPVINDFLVGYIAGA---QSVIPDAKI---- 202
		             G   AS L E    +  + +   GG   P +  F  G+  G          +KI    
		Sbjct: 177 TTGYAIASWLSEQD--ESKRVVASFGGGAFPGVTTFNEGFAKGILYYNQKHKSSKIYHTS 234
		
		Query: 203 AVSYAGSFMDAAKGKEL-------GLAQYRSGVSLGFVVASQTGLGQLSAAKETGKYVLG 255
		            V     F    K   +         A  +    +   VA       +  A + G+YV+G
		Sbjct: 235 PVKLDSGFTAGEKMNTVINNVLSSTPADVKYNPHVILSVAGPATFETVRLANK-GQYVIG 293
		
		Query: 256 VDSDQEAIFKDSDPAIAKQVVSSVLKNI 283
		           VDSDQ  I          ++++SVLK+I
		Sbjct: 294 VDSDQGMIQD------KDRILTSVLKHI 315
		
		
	8#BOV_A0008	ENTSNTHTASED#Enterobactin synthetase component D signature.	97	1e-26
		>ENTSNTHTASED#Enterobactin synthetase component D signature.
		          Length = 234
		
		 Score = 97.0 bits (241), Expect = 1e-26
		 Identities = 66/207 (31%), Positives = 102/207 (49%), Gaps = 12/207 (5%)
		
		Query: 35  FVMARYSASKPLIDPSIPAPARAAPRRKAEFVAGQACAREALRLAGGPAVMPGRGDDHAP 94
		           F  + +     L  P       A  +RKAE +AG+  A  ALR  G   V PG GD   P
		Sbjct: 20  FDASSFREHDLLWLPHHDRLRSAGRKRKAEHLAGRIAAVHALREVGVRTV-PGMGDKRQP 78
		
		Query: 95  IWPPGMVGSISHSKGCAIAVAARQSRYLGLGIDIERLQTESSARKIAPQILGESELRQLP 154
		           +WP G+ GSISH    A+AV +RQ     +GIDIE++ ++ +A ++AP I+   E + L 
		Sbjct: 79  LWPDGLFGSISHCATTALAVISRQR----IGIDIEKIMSQHTATELAPSIIDSDERQILQ 134
		
		Query: 155 EAGRAFLVS--LAFSAKESLFKALYPAVQQFQSFHAAAFSFDGDRQQACLELAVDWSAQW 212
		            +   F ++  LAFSAKES++KA +        F++A  +       +   L    +   
		Sbjct: 135 ASLLPFPLALTLAFSAKESVYKA-FSDRVTLPGFNSAKVTSLTATHISLHLLPAFAATMA 193
		
		Query: 213 RRGQRFPIRFFCRDGFILTCTAIAAIS 239
		            R       +F RD  ++  T ++AI+
		Sbjct: 194 ER--TVRTEWFQRDNSVI--TLVSAIT 216
		
		
	9#BOV_A0010	DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...	258	8e-89
		>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
		           signature.
		          Length = 261
		
		 Score =  258 bits (660), Expect = 8e-89
		 Identities = 114/254 (44%), Positives = 153/254 (60%), Gaps = 12/254 (4%)
		
		Query: 15  GKRVIVTGAAQGIGRRVAERFLAEGATVIGLD-----------RQAGEADAPFRLIRLDI 63
		           GK   +TGAAQGIG  VA    ++GA +  +D               EA         D+
		Sbjct: 8   GKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAEAF-PADV 66
		
		Query: 64  TDAAEVRAVSDGLKAEGKPLDILVNVAGVLKLGNSDRLSAEDWKTCMDVNASGPFHLLSQ 123
		            D+A +  ++  ++ E  P+DILVNVAGVL+ G    LS E+W+    VN++G F+    
		Sbjct: 67  RDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGVFNASRS 126
		
		Query: 124 WVPVFRDQRHGAIVNVASNAAHVPRLNMAAYCASKAALASFSHCVALELAPYGVRCNVVS 183
		                 D+R G+IV V SN A VPR +MAAY +SKAA   F+ C+ LELA Y +RCN+VS
		Sbjct: 127 VSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNIRCNIVS 186
		
		Query: 184 PGSTRTAMLGAMLNDPSGEAQLVRGLPEQFKLGIPLGKIAMPDDIANVILFLASDQAGHV 243
		           PGST T M  ++  D +G  Q+++G  E FK GIPL K+A P DIA+ +LFL S QAGH+
		Sbjct: 187 PGSTETDMQWSLWADENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAVLFLVSGQAGHI 246
		
		Query: 244 TMQDIVVDGGATLG 257
		           TM ++ VDGGATLG
		Sbjct: 247 TMHNLCVDGGATLG 260
		
		
	10#BOV_A0011	ISCHRISMTASE#Isochorismatase signature.	336	e-118
		>ISCHRISMTASE#Isochorismatase signature.
		          Length = 312
		
		 Score =  336 bits (863), Expect = e-118
		 Identities = 138/302 (45%), Positives = 188/302 (62%), Gaps = 18/302 (5%)
		
		Query: 1   MAIPKIADYPMPQKAGFPANKTNWQPDPARAVLLIHDMQRYFLRFYDANGPLMGDLIGNL 60
		           MAIP I  Y MP  +  P NK +W PDP RAVLLIHDMQ YF+  + A    + +L  N+
		Sbjct: 1   MAIPAIQPYQMPTASDMPQNKVSWVPDPNRAVLLIHDMQNYFVDAFTAGASPVTELSANI 60
		
		Query: 61  VRLRNWAHENGVPVVYTAQPHEQPAGDRALLNDMWGPGLPAAAPEQQLIVDKLTPGATDT 120
		            +L+N   + G+PVVYTAQP  Q   DRALL D WGPGL  + P ++ I+ +L P   D 
		Sbjct: 61  RKLKNQCVQLGIPVVYTAQPGSQNPDDRALLTDFWGPGL-NSGPYEEKIITELAPEDDDL 119
		
		Query: 121 VLAKWRYSAFQRSDLLQRMKDWNRDQLIIGGIYAHIGCMVTAIDAFMNDIQPFMVGDAVA 180
		           VL KWRYSAF+R++LL+ M+   RDQLII GIYAHIGC+VTA +AFM DI+ F VGDAVA
		Sbjct: 120 VLTKWRYSAFKRTNLLEMMRKEGRDQLIITGIYAHIGCLVTACEAFMEDIKAFFVGDAVA 179
		
		Query: 181 DFSEEEHRLALKYVATRCGAVIDTASLIRK----------------PATETTRDWLQKRV 224
		           DFS E+H++AL+Y A RC   + T SL+ +                     T + ++K++
		Sbjct: 180 DFSLEKHQMALEYAAGRCAFTVMTDSLLDQLQNAPADVQKTSANTGKKNVFTCENIRKQI 239
		
		Query: 225 LELI-EDETELDPQENLILYGLDSLQVMKLSAELKERGVAVGFDDLARVPTLAAWWDLIE 283
		            EL+ E   ++  QE+L+  GLDS+++M L  + +  G  V F +LA  PT+  W  L+ 
		Sbjct: 240 AELLQETPEDITDQEDLLDRGLDSVRIMTLVEQWRREGAEVTFVELAERPTIEEWQKLLT 299
		
		Query: 284 TK 285
		           T+
		Sbjct: 300 TR 301
		
		
BOV_A0053	BOV_A0063	N	Y	N	BOV_A0035	BOV_A0078
	BOV_A0053	5	20	-0.871601	putative lipoprotein
	BOV_A0054	4	19	-1.112843	P-type DNA transfer ATPase VirB11
	BOV_A0055	4	19	-1.884229	type IV secretion system protein VirB10
	BOV_A0056	3	20	-2.372070	P-type conjugative transfer protein VirB9
	BOV_A0057	4	21	-2.617514	type IV secretion system protein VirB8
	BOV_A0058	4	21	-2.482511	type IV secretion system protein VirB6
	BOV_A0059	2	19	-1.743798	P-type DNA transfer protein VirB5
	BOV_A0060	1	19	-1.864943	type IV secretion system protein VirB4
	BOV_A0061	0	14	-1.207258	type IV secretion system protein VirB3
	BOV_A0062	-1	13	0.081389	type IV secretion system protein VirB2
	BOV_A0063	-3	9	0.442374	type IV secretion system protein VirB1
	47#BOV_A0053	OMPADOMAIN#OMPA domain signature.	51	2e-10
		>OMPADOMAIN#OMPA domain signature.
		          Length = 346
		
		 Score = 51.5 bits (123), Expect = 2e-10
		 Identities = 32/144 (22%), Positives = 56/144 (38%), Gaps = 21/144 (14%)
		
		Query: 47  FPQEPTAQATMWPARPPKQTVS--------VYFPQDVTVFRPTSAQ-INQLHTLLWPV-P 96
		           F Q   A        P  +  +        V F  +    +P     ++QL++ L  + P
		Sbjct: 191 FGQGEAAPVVAPAPAPAPEVQTKHFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDP 250
		
		Query: 97  KH--INVRGLTDNNCPPPGDTQVARVRALAIYNWLINQGVPASRI-TISYAPVKDYASN- 152
		           K   + V G TD       +  ++  RA ++ ++LI++G+PA +I             N 
		Sbjct: 251 KDGSVVVLGYTDRIGSDAYNQGLSERRAQSVVDYLISKGIPADKISARGMGESNPVTGNT 310
		
		Query: 153 -------APLSPGRVLNRRVDIEI 169
		                  A L      +RRV+IE+
		Sbjct: 311 CDNVKQRAALIDCLAPDRRVEIEV 334
		
		
	49#BOV_A0055	PF03544#Gram-negative bacterial tonB protein	39	1e-05
		>PF03544#Gram-negative bacterial tonB protein
		          Length = 243
		
		 Score = 39.2 bits (91), Expect = 1e-05
		 Identities = 26/122 (21%), Positives = 33/122 (27%), Gaps = 1/122 (0%)
		
		Query: 33  VLLFLFVVGFIVVLLLLLVFHMRGN-AENNHHSDKTMVQTSTVPMRTFKLPPPPPPAPPE 91
		            LL + + G +V  LL    H              TMV  + +       PPP P   PE
		Sbjct: 18  TLLSVCIHGAVVAGLLYTSVHQVIELPAPAQPISVTMVAPADLEPPQAVQPPPEPVVEPE 77
		
		Query: 92  PPAPPPAPAMPIAEPAAAALSLPPLPDDTPAKDDVLDKSASALMVVTKSSGDTNAQTTNA 151
		           P   P       A          P P   P K     K     +    +S   N      
		Sbjct: 78  PEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVEQPKRDVKPVESRPASPFENTAPARP 137
		
		Query: 152 RI 153
		             
		Sbjct: 138 TS 139
		
		
	50#BOV_A0056	TYPE4SSCAGX#Type IV secretion system CagX conjugation protein si...	51	2e-09
		>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein
		           signature.
		          Length = 522
		
		 Score = 50.9 bits (121), Expect = 2e-09
		 Identities = 47/197 (23%), Positives = 72/197 (36%), Gaps = 58/197 (29%)
		
		Query: 93  SHSNQSIDMAPEPGKWDTNLMVTTDQRMYDFDLRLMPGRNNQRVAYRVQFRYPAAAAAAA 152
		           S  + SI+++P    W TNL+V T++ +Y F LR+    N       V+  YP     ++
		Sbjct: 262 SPEDNSIELSPSDSAWRTNLVVRTNKALYQFILRIAQKDNFASAYLTVKLEYPQRHEVSS 321
		
		Query: 153 V----------AAAQKRVV-QARMNA---------------------------------- 167
		           V          A  Q+ ++ Q  +N                                   
		Sbjct: 322 VIEEELKKREEAKRQRELIKQENLNTTAYINRVMMASNEQIINKEKIREEKQKIILDQAK 381
		
		Query: 168 -----------RPSPVNWNYTMQVG--TNSASIAPTLAYDDGRFTYLRFPNNRDFPAAFL 214
		                      + +PV  NY         S  I P+  +DDG FTY  F N    PA F+
		Sbjct: 382 ALETQYVHNALKRNPVPRNYNYYQAPEKRSKHIMPSEIFDDGTFTYFGFKNITLQPAIFV 441
		
		Query: 215 VAEDKSESIVNSHIDPS 231
		           V  D   S+ ++ IDP+
		Sbjct: 442 VQPDGKLSMTDAAIDPN 458
		
		
	51#BOV_A0057	PF04335#VirB8 type IV secretion protein	215	6e-73
		>PF04335#VirB8 type IV secretion protein
		          Length = 227
		
		 Score =  215 bits (550), Expect = 6e-73
		 Identities = 58/217 (26%), Positives = 104/217 (47%), Gaps = 7/217 (3%)
		
		Query: 23  YDEALNWEAAHVRLIEKSERRAWKIAGAFGTITVLLGIGIAGMLPLKQHVPYLVRVNAQT 82
		           ++EA +WE   +   E+S++ AW +AG  G +     + +A + PLK   PY++ V+  T
		Sbjct: 14  FEEAASWERDKLAAAERSKKLAWVVAGVAGALATAGVVAVAALTPLKTVEPYVITVDRNT 73
		
		Query: 83  GAPDILTSLD-EKSVSYDTVMDKYWLSQYVIARETYDWYTLQKDYETVGMLSSPSEGQSY 141
		           G   I   L  + +++YD  + KY+L+ YV  RE +     ++ ++ V ++S+  E   +
		Sbjct: 74  GEASIAAKLHGDATITYDEAVRKYFLATYVRYREGWIAAAREEYFDAVMVMSARPEQDRW 133
		
		Query: 142 ASQFQGD--KALDKQYGSNVRTSVTIVSIVPNGKGIGTVRFAKTTKRTNETGDGETTHWI 199
		           +  ++ D  ++      +     V I  +   G  +  V F K +   + +     T  +
		Sbjct: 134 SRFYKTDNPQSPQNILANRTDVFVEIKRVSFLGGNVAQVYFTKESVTGSNS---TKTDAV 190
		
		Query: 200 ATIGYQYVNPSLMSESARLTNPLGFNVTSYRVDPEMG 236
		           ATI Y+        E  R  NPLG+ V SYR D E+ 
		Sbjct: 191 ATIKYKVDGTP-SKEVDRFKNPLGYQVESYRADVEVP 226
		
		
	52#BOV_A0058	CHANLCOLICIN#Channel forming colicin signature.	32	0.004
		>CHANLCOLICIN#Channel forming colicin signature.
		          Length = 522
		
		 Score = 32.0 bits (72), Expect = 0.004
		 Identities = 16/31 (51%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
		
		Query: 305 SGSSGGGGSGSAKAGGESSYSAGGNAMWSPA 335
		           SGS GGGG G +K+  ESS +    A WS A
		Sbjct: 32  SGSGGGGGKGGSKS--ESSAAIHATAKWSTA 60
		
		
	57#BOV_A0063	PHAGEIV#Gene IV protein signature.	28	0.049
		>PHAGEIV#Gene IV protein signature.
		          Length = 426
		
		 Score = 27.6 bits (61), Expect = 0.049
		 Identities = 7/57 (12%), Positives = 15/57 (26%)
		
		Query: 134 TGGFKTKPGSPSYVQKVVASADVTTKPIAVVPMIRKTPDAAAAVAAPVKKRQPADRN 190
		              F      PS +QK   +       +          ++A +    V +     + 
		Sbjct: 78  ANNFDMVGSIPSIIQKYNPNNQDYIDELPSSDNQEYDDNSAPSGGFFVPQNDNVTQT 134
		
		
BOV_A0107	BOV_A0119	N	Y	N	BOV_A0091	BOV_A0132
	BOV_A0107	-1	13	-0.490545	Bcr/CflA subfamily drug resistance transporter
	BOV_A0108	2	12	0.051747	HlyD family secretion protein
	BOV_A0109	2	11	-0.316033	TetR family transcriptional regulator
	BOV_A0110	2	12	0.357649	LuxR family transcriptional regulator
	BOV_A0111	1	15	1.274989	hypothetical protein
	BOV_A0112	1	16	0.923466	flagellar biosynthesis protein FlhB
	BOV_A0113	0	15	0.750041	flagellar motor switch protein G
	BOV_A0114	-1	11	0.870502	putative flagellar motor switch protein FliN
	BOV_A0115	-1	10	1.219098	hypothetical protein
	BOV_A0117	0	9	-0.475232	flagellar motor protein MotA
	BOV_A0118	0	11	-0.859712	hypothetical protein
	BOV_A0119	1	12	-0.797379	flagellar basal body rod protein FlgF
	96#BOV_A0107	TCRTETB#Tetracycline resistance protein TetB signature.	103	6e-26
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score =  103 bits (259), Expect = 6e-26
		 Identities = 73/402 (18%), Positives = 148/402 (36%), Gaps = 19/402 (4%)
		
		Query: 36  FMAILDIQIVSASLSEIQAGLGASTDEISWVQTSYLIAEVIMIPLSGFLGRLLSTRVLFT 95
		           F ++L+  +++ SL +I           +WV T++++   I   + G L   L  + L  
		Sbjct: 24  FFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLL 83
		
		Query: 96  ISAAGFTLASMLCATA-TNIEQMIVYRAIQGFIGGGMIPSVFAAAFTIF-PPSKRSIVSP 153
		                    S++     +    +I+ R IQG  G    P++       + P   R     
		Sbjct: 84  FGIIINCFGSVIGFVGHSFFSLLIMARFIQG-AGAAAFPALVMVVVARYIPKENRGKAFG 142
		
		Query: 154 MIGLVATLAPTIGPTIGGYLSHAFSWHWLFLVNVGPGILVTIAAWNLIDFDEGDLSLLDK 213
		           +IG +  +   +GP IGG ++H   W +L L+   P I + I    L+   + ++ +   
		Sbjct: 143 LIGSIVAMGEGVGPAIGGMIAHYIHWSYLLLI---PMITI-ITVPFLMKLLKKEVRIKGH 198
		
		Query: 214 FDWWGLFGMAAFLGSLEYVLEEGPRNDWLQDHTIFIMSIILTIGAIVFFYRVFTAEQPIV 273
		           FD  G+  M+  +                         I+  +  ++F   +     P V
		Sbjct: 199 FDIKGIILMSVGIVFFMLFTTS---YSIS-------FLIVSVLSFLIFVKHIRKVTDPFV 248
		
		Query: 274 DFRAFRNMNFAFGSLFSFVMGVGLYGLTYLYPLYLSMIRGYDALMIGEA-LFVSGLAMFF 332
		           D    +N+ F  G L   ++   + G   + P  +  +       IG   +F   +++  
		Sbjct: 249 DPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPGTMSVII 308
		
		Query: 333 TAPVAGFLSNRMDPRLMMMIGFVGFAIGTWLVTGLTADWDFNELLMPQILRGCSLMLCMV 392
		              + G L +R  P  ++ IG    ++  +L      +     + +  +     L     
		Sbjct: 309 FGYIGGILVDRRGPLYVLNIGVTFLSVS-FLTASFLLETTSWFMTIIIVFVLGGLSFTKT 367
		
		Query: 393 PINNLALGTLPPSLMKNASGLFNLTRNLGGAVGLAVINTILT 434
		            I+ +   +L          L N T  L    G+A++  +L+
		Sbjct: 368 VISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAIVGGLLS 409
		
		
	97#BOV_A0108	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	110	2e-28
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score =  110 bits (276), Expect = 2e-28
		 Identities = 62/413 (15%), Positives = 127/413 (30%), Gaps = 89/413 (21%)
		
		Query: 69  RVVLPSLVAVAAIGALWYGYNWWTVGRFMVSTDDAYVQGDIASIAPKVTGYIENIPVAAN 128
		           R+V   ++    I  +        V     +       G    I P     ++ I V   
		Sbjct: 58  RLVAYFIMGFLVIAFILSV--LGQVEIVATANGKLTHSGRSKEIKPIENSIVKEIIVKEG 115
		
		Query: 129 QQVKAGDVIFQLDAGDYQIALDEANAKLATQ----------------------------- 159
		           + V+ GDV+ +L A   +    +  + L                                
		Sbjct: 116 ESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPY 175
		
		Query: 160 ----------------KETLIRIQAQTDAAKAALLQANADQQAAKAVLLNAQST------ 197
		                           KE     Q Q    +  L +  A++    A +   ++       
		Sbjct: 176 FQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKS 235
		
		Query: 198 -MARVQKLHETRFV-------AQSELDNAQSALDQARARLAGADAQIASAKANISVLEAQ 249
		            +     L   + +        +++   A + L   +++L   +++I SAK    ++   
		Sbjct: 236 RLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQL 295
		
		Query: 250 Y--------NEAASSTKSLELARDKAARDLSFTSLRALFDGVIGNLS-GKKGDLVAPGQK 300
		           +         +   +   L L   K       + +RA     +  L    +G +V   + 
		Sbjct: 296 FKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAET 355
		
		Query: 301 IAALVPVDQ-LYIDANFKETQLAHIKVGETAHIYVDAIDGTKF---DGKVASIAPASGAV 356
		           +  +VP D  L + A  +   +  I VG+ A I V+A   T++    GKV +I   +   
		Sbjct: 356 LMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDA--- 412
		
		Query: 357 FSLLPPENATGNFTKVVQRVPVRITIPKEAFESGK---IRAGLSVIVDVDTRT 406
		                 +   G    V+  +              K   + +G++V  ++ T  
		Sbjct: 413 ----IEDQRLGLVFNVIISIEE-----NCLSTGNKNIPLSSGMAVTAEIKTGM 456
		
		
	98#BOV_A0109	HTHTETR#TetR bacterial regulatory protein HTH signature.	76	7e-19
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 75.8 bits (186), Expect = 7e-19
		 Identities = 34/155 (21%), Positives = 65/155 (41%), Gaps = 9/155 (5%)
		
		Query: 54  RSQILEGAQSVFLRMGFDAASMNDITREAGVSKGTIYVYFNSKEDLFVALCEHYRQTLFS 113
		           R  IL+ A  +F + G  + S+ +I + AGV++G IY +F  K DLF  + E     +  
		Sbjct: 13  RQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESNIGE 72
		
		Query: 114 SFIGQLEKGFSNRQELIDFGVALTTLITSSIAIRAQRIVVGVSERKPELA------ARFY 167
		             +    K   +   +      L  ++ S++    +R+++ +   K E         +  
		Sbjct: 73  LELEYQAKFPGDPLSV--LREILIHVLESTVTEERRRLLMEIIFHKCEFVGEMAVVQQAQ 130
		
		Query: 168 ERGPKRSHAIMAQSLQAMIDAGVL-EQHDVTRTAY 201
		                 S+  + Q+L+  I+A +L       R A 
		Sbjct: 131 RNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAI 165
		
		
	101#BOV_A0112	TYPE3IMSPROT#Type III secretion system inner membrane S protein ...	288	8e-98
		>TYPE3IMSPROT#Type III secretion system inner membrane S protein
		           family signature.
		          Length = 354
		
		 Score =  288 bits (738), Expect = 8e-98
		 Identities = 95/344 (27%), Positives = 164/344 (47%), Gaps = 9/344 (2%)
		
		Query: 10  KTEEATEQKIRDALDKGNMPFSREAPILAGIASFLVIAVFVAAPAATRLA---VFLRELI 66
		           KTE+ T +KIRDA  KG +  S+E    A I +   + + ++       +   +   E  
		Sbjct: 5   KTEQPTPKKIRDARKKGQVAKSKEVVSTALIVALSAMLMGLSDYYFEHFSKLMLIPAEQS 64
		
		Query: 67  DRPEDWLLNSAEDATRLFSVLALAVGAALVPVFIIIPLAGIAASAFQNAPRFVGERIRPQ 126
		             P    L      + +   + L       P+  +  L  IA+   Q      GE I+P 
		Sbjct: 65  YLPFSQAL------SYVVDNVLLEFFYLCFPLLTVAALMAIASHVVQYGFLISGEAIKPD 118
		
		Query: 127 ASRISPLKGWQRIFGRAGQVEFLKSLAKLLAASVIVFLVFFKGNSLFTDAVATDPGALPE 186
		             +I+P++G +RIF     VEFLKS+ K++  S++++++                  +  
		Sbjct: 119 IKKINPIEGAKRIFSIKSLVEFLKSILKVVLLSILIWIIIKGNLVTLLQLPTCGIECITP 178
		
		Query: 187 FLRKNVVRLLVANVLAIAAIAGFDLAWSRIHWRQELRMTRQEVKDELKQSEGDPLVKSRL 246
		            L + + +L+V   +    I+  D A+    + +EL+M++ E+K E K+ EG P +KS+ 
		Sbjct: 179 LLGQILRQLMVICTVGFVVISIADYAFEYYQYIKELKMSKDEIKREYKEMEGSPEIKSKR 238
		
		Query: 247 RSLGRDRARRRMINAVPTATLIVANPTHFSVALRYKPNEDAAPVVVAKGQDLIALKIREI 306
		           R   ++   R M   V  ++++VANPTH ++ + YK  E   P+V  K  D     +R+I
		Sbjct: 239 RQFHQEIQSRNMRENVKRSSVVVANPTHIAIGILYKRGETPLPLVTFKYTDAQVQTVRKI 298
		
		Query: 307 AASHSIPVFEDVQLARALYKQVNVDQMIAPEFYKAVAELIRIIN 350
		           A    +P+ + + LARALY    VD  I  E  +A AE++R + 
		Sbjct: 299 AEEEGVPILQRIPLARALYWDALVDHYIPAEQIEATAEVLRWLE 342
		
		
	102#BOV_A0113	FLGMOTORFLIG#Flagellar motor switch protein FliG signature.	190	6e-60
		>FLGMOTORFLIG#Flagellar motor switch protein FliG signature.
		          Length = 344
		
		 Score =  190 bits (484), Expect = 6e-60
		 Identities = 80/330 (24%), Positives = 158/330 (47%), Gaps = 13/330 (3%)
		
		Query: 22  VDTLTGPQKAAAILVAIGRPAAARLLKHFNAEDLRKLAGHARTLEPISPLDFEQLVKQFE 81
		           V  LTG QKAA +LV+IG   ++++ K+ + E++  L      LE I+    + ++ +F+
		Sbjct: 12  VSALTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNVLLEFK 71
		
		Query: 82  DLF-AEGAPVSEAAQRFEGLLRDTLPQEEVDAVLEDRVQPQLVQESVWIQVARLPMESLQ 140
		           +L  A+             LL  +L  ++   ++ +      +Q   +  V R    ++ 
		Sbjct: 72  ELMMAQEFIQKGGIDYARELLEKSLGTQKAVDIINNLGSA--LQSRPFEFVRRADPANIL 129
		
		Query: 141 AYLGNQHPQIIAYIVSRLPSDLAARLFVALPPQLRNAVVQRSLHIGNVAPAAAELLEDVL 200
		            ++  +HPQ IA I+S L    A+ +  +LP +++  V +R   +   +P     +E VL
		Sbjct: 130 NFIQQEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREVERVL 189
		
		Query: 201 RRDL-----LGRSDAGPLKAHHGQIANIFNQLDRSEMEELMASLQDLNRDDLNRIKAKLF 255
		            + L        + AG +      +  I N  DR   + ++ SL++ + +    IK K+F
		Sbjct: 190 EKKLASLSSEDYTSAGGVDN----VVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMF 245
		
		Query: 256 TFEDIERLSQRARLLLFDEVQTEQIATALREADPKLQELVLSSLSARGRRMVESELSAEQ 315
		            FEDI  L  R+   +  E+  +++A AL+  D  +QE +  ++S R   M++ ++    
		Sbjct: 246 VFEDIVLLDDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEF-L 304
		
		Query: 316 GNITSQNIAEARRIIARIAIDLSERGIITL 345
		           G    +++ E+++ I  +   L E+G I +
		Sbjct: 305 GPTRRKDVEESQQKIVSLIRKLEEQGEIVI 334
		
		
	103#BOV_A0114	FLGMOTORFLIN#Flagellar motor switch protein FliN signature.	88	5e-26
		>FLGMOTORFLIN#Flagellar motor switch protein FliN signature.
		          Length = 137
		
		 Score = 88.4 bits (219), Expect = 5e-26
		 Identities = 37/84 (44%), Positives = 59/84 (70%), Gaps = 3/84 (3%)
		
		Query: 32  SASKPNLDLIMGIPVDVQVVLGGTTMPVSSLMKLGRGAVITLDKQIGDPVDIVVNGRVIA 91
		           S +  ++DLIM IPV + V LG T M +  L++L +G+V+ LD   G+P+DI++NG +IA
		Sbjct: 48  SGAMQDIDLIMDIPVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIA 107
		
		Query: 92  RGEVIVLEDDSSRFGVSLTEIIGK 115
		           +GEV+V+ D   ++GV +T+II  
		Sbjct: 108 QGEVVVVAD---KYGVRITDIITP 128
		
		
	104#BOV_A0115	IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.	28	0.015
		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.
		          Length = 1541
		
		 Score = 28.1 bits (62), Expect = 0.015
		 Identities = 12/66 (18%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
		
		Query: 68   AKLDARLAETQRVRREMDEAIEELNRLRKALSRDMRQARILAETPPPRQEKTPSAAEQPL 127
		            A+  +   ETQ    +    +E+  + +    +     ++ ++   P+QE++ +   Q  
		Sbjct: 1086 AQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQV-SPKQEQSETVQPQAE 1144
		
		Query: 128  PADKNA 133
		            PA +N 
		Sbjct: 1145 PAREND 1150
		
		
	107#BOV_A0119	FLGHOOKAP1#Flagellar hook-associated protein signature.	31	0.004
		>FLGHOOKAP1#Flagellar hook-associated protein signature.
		          Length = 546
		
		 Score = 31.1 bits (70), Expect = 0.004
		 Identities = 5/33 (15%), Positives = 18/33 (54%)
		
		Query: 3  NNSIYVGLSSLITLERRMDAIAHNVANASTVGF 35
		          ++ I   +S L   +  ++  ++N+++ +  G+
		Sbjct: 1  SSLINNAMSGLNAAQAALNTASNNISSYNVAGY 33
		
		
BOV_A0136	BOV_A0144	N	Y	N	BOV_A0121	BOV_A0161
	BOV_A0136	0	16	0.949129	flagellar basal body rod protein FlgC
	BOV_A0137	-1	17	1.429605	flagellar hook-basal body protein FliE
	BOV_A0138	-1	15	0.968536	flagellar basal body rod protein FlgG
	BOV_A0139	-1	15	0.235161	flagellar basal body P-ring biosynthesis protein
	BOV_A0141	1	13	-0.154245	hypothetical protein
	BOV_A0142	-1	14	-0.236053	flagellar basal body L-ring protein
	BOV_A0143	0	16	-0.335799	putative flagellar protein FliL
	BOV_A0144	0	17	-0.348345	flagellar biosynthesis protein FliP
	124#BOV_A0136	FLGHOOKAP1#Flagellar hook-associated protein signature.	31	0.001
		>FLGHOOKAP1#Flagellar hook-associated protein signature.
		          Length = 546
		
		 Score = 31.1 bits (70), Expect = 0.001
		 Identities = 10/38 (26%), Positives = 20/38 (52%)
		
		Query: 99  NVNMVVEMADMREANRSYEANLQVVRQARELISMTIDL 136
		            VN+  E  +++   + Y AN QV++ A  +    I++
		Sbjct: 508 GVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545
		
		
	125#BOV_A0137	FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE signa...	35	9e-06
		>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE
		           signature.
		          Length = 103
		
		 Score = 35.4 bits (81), Expect = 9e-06
		 Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 2/81 (2%)
		
		Query: 33  QAVPAAPGASFGEVLSQMTGSVSQKLQAAEATSIQGIKG--DAPVRDVVSSVMEAEQSLQ 90
		           Q     P  SF   L      +S    AA   + +   G     + DV++ + +A  S+Q
		Sbjct: 23  QESLPQPTISFAGQLHAALDRISDTQTAARTQAEKFTLGEPGVALNDVMTDMQKASVSMQ 82
		
		Query: 91  TVIAIRDKIVQAYLEISRMPI 111
		             I +R+K+V AY E+  M +
		Sbjct: 83  MGIQVRNKLVAAYQEVMSMQV 103
		
		
	126#BOV_A0138	FLGHOOKAP1#Flagellar hook-associated protein signature.	43	9e-07
		>FLGHOOKAP1#Flagellar hook-associated protein signature.
		          Length = 546
		
		 Score = 42.6 bits (100), Expect = 9e-07
		 Identities = 10/45 (22%), Positives = 21/45 (46%)
		
		Query: 213 SIKQGYLEASNVDPVKEITDLITAQRAYEMNSKVIQAADEMAATV 257
		            +       S V+  +E  +L   Q+ Y  N++V+Q A+ +   +
		Sbjct: 498 QLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDAL 542
		
		
		
		 Score = 39.2 bits (91), Expect = 1e-05
		 Identities = 21/85 (24%), Positives = 33/85 (38%), Gaps = 15/85 (17%)
		
		Query: 4  LTIAATGMNAQQLNLEVIANNIANINTTGFKRARAEFTDLLYQSERTAGVPNQANQAIVP 63
		          +  A +G+NA Q  L   +NNI++ N  G+ R            + T      +      
		Sbjct: 4  INNAMSGLNAAQAALNTASNNISSYNVAGYTR------------QTTIMAQANSTLG--- 48
		
		Query: 64 EGALVGLGVQTAAVRNLHIQGSFNQ 88
		           G  VG GV  + V+  +     NQ
		Sbjct: 49 AGGWVGNGVYVSGVQREYDAFITNQ 73
		
		
	129#BOV_A0142	FLGLRINGFLGH#Flagellar L-ring protein signature.	188	4e-62
		>FLGLRINGFLGH#Flagellar L-ring protein signature.
		          Length = 232
		
		 Score =  188 bits (479), Expect = 4e-62
		 Identities = 67/248 (27%), Positives = 102/248 (41%), Gaps = 27/248 (10%)
		
		Query: 2   KNSMNKAILAVAMVLLLAGCA---TKPEEIG-----RAPDLSPVAAHLGMQNNPQFNGYP 53
		           KN+ +   ++  +VL L GCA   + P   G       P  +PVA     Q+  Q   Y 
		Sbjct: 3   KNAAHTYAISSLLVLSLTGCAWIPSTPLVQGATSAQPVPGPTPVANGSIFQS-AQPINYG 61
		
		Query: 54  ARPGKASYSLWDQRSTNFFKDPRAATPGDVLTVIISINDRANLDNKTDRERVSKGIYGGG 113
		            +P               F+D R    GD LT+++  N  A+  +  +  R  K     G
		Sbjct: 62  YQP--------------LFEDRRPRNIGDTLTIVLQENVSASKSSSANASRDGKT--NFG 105
		
		Query: 114 GSFAASSITGAAAGGDMDASVNTHSDSKSKGKGTIERSEDIRLQIAAIVTDTLPNGNLII 173
		                  + G        A V     +   GKG    S      +   V   L NGNL +
		Sbjct: 106 FDTVPRYLQGLFGNAR--ADVEASGGNTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHV 163
		
		Query: 174 RGSQEVRVNNELRVLNVAGVVRPRDISGNNTISYDKIAEARISYGGRGRLSEIQQPPYGQ 233
		            G +++ +N     +  +GVV PR ISG+NT+   ++A+ARI Y G G ++E Q   + Q
		Sbjct: 164 VGEKQIAINQGTEFIRFSGVVNPRTISGSNTVPSTQVADARIEYVGNGYINEAQNMGWLQ 223
		
		Query: 234 QILDQFSP 241
		           +     SP
		Sbjct: 224 RFFLNLSP 231
		
		
	131#BOV_A0144	FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein Fl...	248	1e-85
		>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP
		           signature.
		          Length = 245
		
		 Score =  248 bits (636), Expect = 1e-85
		 Identities = 100/234 (42%), Positives = 149/234 (63%), Gaps = 3/234 (1%)
		
		Query: 13  LALTVSAQAQQALPLDKLLPAGSGAASGQIVQLFGLLTVLSIAPGLLIMVTSFTRFAIAF 72
		           L L       Q   +      G G +    VQ    +T L+  P +L+M+TSFTR  I F
		Sbjct: 12  LWLITPLAFAQLPGITSQPLPGGGQSWSLPVQTLVFITSLTFIPAILLMMTSFTRIIIVF 71
		
		Query: 73  SLLRSGLGLQTAPASMVMISLALFMTFYVMAPAFDRAWNNGVQPLMRNEITQEAAFGEIS 132
		            LLR+ LG  +AP + V++ LALF+TF++M+P  D+ + +  QP    +I+ + A  + +
		Sbjct: 72  GLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEEKISMQEALEKGA 131
		
		Query: 133 QPFREFMMAQVRDKDLRLFEDLAD-PSFRTSDDGIVDFRVLVPAFMISELRRGFEIGFLI 191
		           QP REFM+ Q R+ DL LF  LA+    +  +   V  R+L+PA++ SEL+  F+IGF I
		Sbjct: 132 QPLREFMLRQTREADLGLFARLANTGPLQGPEA--VPMRILLPAYVTSELKTAFQIGFTI 189
		
		Query: 192 VLPFLVIDLVVATLTMSMGMMMLPPTVISLPFKILFFVLIDGWNILVGSLIRSF 245
		            +PFL+IDLV+A++ M++GMMM+PP  I+LPFK++ FVL+DGW +LVGSL +SF
		Sbjct: 190 FIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGSLAQSF 243
		
		
BOV_A0359	BOV_A0366	N	Y	N	BOV_A0344	BOV_A0387
	BOV_A0359	-1	12	0.188975	exopolysaccharide biosynthesis protein Bme12
	BOV_A0360	0	13	0.086414	exopolysaccharide biosynthesis protein Bme11
	BOV_A0361	-1	11	0.208560	fucose synthetase family protein
	BOV_A0362	-1	10	-0.080238	GDP-mannose 4,6-dehydratase
	BOV_A0363	-1	12	0.426622	putative glycosyltransferase
	BOV_A0364	-1	11	0.448312	glycosyl transferase family protein
	BOV_A0365	-1	10	-0.045748	glycosyl transferase family protein
	BOV_A0366	-1	13	0.023555	outer membrane protein Omp31
	316#BOV_A0359	CHANLCOLICIN#Channel forming colicin signature.	36	6e-04
		>CHANLCOLICIN#Channel forming colicin signature.
		          Length = 522
		
		 Score = 35.8 bits (82), Expect = 6e-04
		 Identities = 36/162 (22%), Positives = 61/162 (37%), Gaps = 12/162 (7%)
		
		Query: 234 SGATCDGAEYGDCRRNRRSIHRAGKAANRQALKNNNEAPAMTEILASPAIQNLRNEEARV 293
		           SG+   G + G    +  +IH   K +  Q  K   E  A  +  A    +   N +A  
		Sbjct: 32  SGSGGGGGKGGSKSESSAAIHATAKWSTAQLKKTQAEQAARAKAAAEAQAKAKANRDALT 91
		
		Query: 294 QRHLD----ELKANGALKSAEIPVLMAERESLKQQITA--------QVDEIIKSLSNEIR 341
		           QR  D     L+ N +   +   +  A   +++ +           +  +  ++     +
		Sbjct: 92  QRLKDIVNEALRHNASRTPSATELAHANNAAMQAEDERLRLAKAEEKARKEAEAAEKAFQ 151
		
		Query: 342 IAVQRRTSLEKELKEAETDLAKANQAQVRAAQLDREANASRV 383
		            A QRR  +E+E  E E  L  A   + R A L  EA A  +
		Sbjct: 152 EAEQRRKEIEREKAETERQLKLAEAEEKRLAALSEEAKAVEI 193
		
		
	317#BOV_A0360	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	74	2e-16
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 74.1 bits (182), Expect = 2e-16
		 Identities = 25/213 (11%), Positives = 73/213 (34%), Gaps = 7/213 (3%)
		
		Query: 151 VTAGMQLI-----SAQQEYADLQMQITAQTIRRARFEAELKGTDFTYAVPEQTAANKDMV 205
		           V  G  L+      A+ +    Q  +    + + R++   +  +       +        
		Sbjct: 118 VRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELKLPDEPYFQ 177
		
		Query: 206 ALTRHMVEGERTLFDVRRNNLAAERRALEAQAASYGDEITTLQQSIKLHDTEIQLLQENV 265
		            ++   V    +L   + +    ++   E        E  T+   I  ++   ++ +  +
		Sbjct: 178 NVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENLSRVEKSRL 237
		
		Query: 266 NSSKSLVDRGLAAKSSLRDMERDLSSTRRDALELASFLARARQNQLAVEQRIANLDETRR 325
		           +   SL+ +   AK ++ + E        +     S L +     L+ ++    + +  +
		Sbjct: 238 DDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQLVTQLFK 297
		
		Query: 326 SEAASSLQEIDLNMA--RMQRRSNSQLEAMAEI 356
		           +E    L++   N+    ++   N + +  + I
		Sbjct: 298 NEILDKLRQTTDNIGLLTLELAKNEERQQASVI 330
		
		
	318#BOV_A0361	NUCEPIMERASE#Nucleotide sugar epimerase signature.	80	5e-19
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score = 79.8 bits (197), Expect = 5e-19
		 Identities = 71/352 (20%), Positives = 130/352 (36%), Gaps = 72/352 (20%)
		
		Query: 19  KIFVAGHTGMVGSAILRRLQHED-----CDIITAAHSVL-------------------DL 54
		           K  V G  G +G  + +RL          D +   + V                    DL
		Sbjct: 2   KYLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDL 61
		
		Query: 55  T-RQGPTENFISGHRPDVIIIAAARVGGILANSRFPADFLYDNLAIGMNLIHAAHQIGVE 113
		             R+G T+ F SGH  + + I+  R   +  +   P  +   NL   +N++       ++
		Sbjct: 62  ADREGMTDLFASGH-FERVFISPHR-LAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ 119
		
		Query: 114 RLLWLGSSCIYPRDAAQPLTEDALLTGPLEPTNEAYAIAKIAGLKYAQSCARQF-----G 168
		            LL+  SS +Y  +   P + D  +  P+      YA  K A    A + +  +     G
		Sbjct: 120 HLLYASSSSVYGLNRKMPFSTDDSVDHPVSL----YAATKKANELMAHTYSHLYGLPATG 175
		
		Query: 169 DRFITAMPTNLYGPNDNFDPTSSHVLPALIRRVHEARMRGAEEVVLWGSGKPLREFLHVD 228
		            RF T     +YGP    D      L    + + E      + + ++  GK  R+F ++D
		Sbjct: 176 LRFFT-----VYGPWGRPD----MALFKFTKAMLE-----GKSIDVYNYGKMKRDFTYID 221
		
		Query: 229 DLADACLHLL------------------RFYNGIEPVNIGSGEEISIKELALTVARIVGY 270
		           D+A+A + L                            NIG+   + + +    +   +G 
		Sbjct: 222 DIAEAIIRLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGI 281
		
		Query: 271 EGRFEHDLSKPDGTPRKLLDTSRI-EALGWQPRIHLEDGLR---DVYRNWLE 318
		           E +      +P        DT  + E +G+ P   ++DG++   + YR++ +
		Sbjct: 282 EAKKNMLPLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYRDFYK 333
		
		
	319#BOV_A0362	NUCEPIMERASE#Nucleotide sugar epimerase signature.	86	5e-21
		>NUCEPIMERASE#Nucleotide sugar epimerase signature.
		          Length = 334
		
		 Score = 86.0 bits (213), Expect = 5e-21
		 Identities = 68/354 (19%), Positives = 126/354 (35%), Gaps = 50/354 (14%)
		
		Query: 7   LFVGVTGQDGAYLSELLLGKGYRVHGLKRRSSSFNMARIDHLYQDPHEEDIRFRLHFGDL 66
		           L  G  G  G ++S+ LL  G++V G+   +  ++++      +   +   +F  H  DL
		Sbjct: 4   LVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQF--HKIDL 61
		
		Query: 67  TDATNLCRVIQEVQPDEIYNLGAQSHVQVSFETPEYTANADALGTLRLLESMRILGLGKS 126
		            D   +  +      + ++    +  V+ S E P   A+++  G L +LE  R   +   
		Sbjct: 62  ADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ-- 119
		
		Query: 127 CRFYQASTSELFGNSSHHAQNEQTPFA-------PRSPYATAKLYAYWTTVNYRDAYGFH 179
		                AS+S ++G       N + PF+       P S YA  K         Y   YG  
		Sbjct: 120 -HLLYASSSSVYGL------NRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGLP 172
		
		Query: 180 ASNGILFNHESPLRGETFVTRKITRAVA---AIERGLQDRLRLGNLEARRDWGHARDYVE 236
		           A+    F    P         K T+A+    +I+            + +RD+ +  D  E
		Sbjct: 173 ATGLRFFTVYGPWGRPDMALFKFTKAMLEGKSID-------VYNYGKMKRDFTYIDDIAE 225
		
		Query: 237 GMWRILQEDTPDDYVLATGETHTVREFIEHAFKAVDKQIVWHGDG--------VDEVGID 288
		            + R+         V+   +T    E    A      ++   G+         +    ++
		Sbjct: 226 AIIRLQD-------VIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQA--LE 276
		
		Query: 289 RKTGNCLIEIDPRY--FRPNEVDFLMGDASKAKDRLGWQHTTGFENLVAEMVDW 340
		              G   IE        +P +V     D     + +G+   T  ++ V   V+W
		Sbjct: 277 DALG---IEAKKNMLPLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNW 327
		
		
	323#BOV_A0366	OMPADOMAIN#OMPA domain signature.	50	3e-09
		>OMPADOMAIN#OMPA domain signature.
		          Length = 346
		
		 Score = 49.5 bits (118), Expect = 3e-09
		 Identities = 52/250 (20%), Positives = 87/250 (34%), Gaps = 69/250 (27%)
		
		Query: 1   MK--SVILASIAAMFATSAMAADVVVSEPSAPTAAPVDTFSWTGGYIGINAGYAGGKFKH 58
		           MK  ++ +A   A FAT A              AAP D   +TG  +G  + Y    F +
		Sbjct: 1   MKKTAIAIAVALAGFATVA-------------QAAPKDNTWYTGAKLG-WSQYHDTGFIN 46
		
		Query: 59  PFSSFDKEDGEHVSGSPDVTAGGFVG-------GVQAGYNWQLDNGVVLGAETDFQGLSV 111
		                 +           + AG F G       G + GY+W                +  
		Sbjct: 47  NNGPTHENQ---------LGAGAFGGYQVNPYVGFEMGYDW-------------LGRMPY 84
		
		Query: 112 TGSISAGASSLEGNAETKVEWFGTVRARLGYTATERLMVYGTGGLAYGKVKSAFNLGDDA 171
		            GS+  GA   +G           + A+LGY  T+ L +Y   G    +  +  N+    
		Sbjct: 85  KGSVENGAYKAQG---------VQLTAKLGYPITDDLDIYTRLGGMVWRADTKSNVYGK- 134
		
		Query: 172 PALHTWSDKTKAGWTLGAGAEYAINNNWTLKSEYLYT-DLGKRNLVDVDNSFLESKVNFH 230
		                 +  T        G EYAI      + EY +T ++G  + +         + +  
		Sbjct: 135 ------NHDTGVSPVFAGGVEYAITPEIATRLEYQWTNNIGDAHTIGT-------RPDNG 181
		
		Query: 231 TVRVGLNYKF 240
		            + +G++Y+F
		Sbjct: 182 MLSLGVSYRF 191
		
		
BOV_A0401	BOV_A0413	N	Y	N	BOV_A0383	BOV_A0426
	BOV_A0401	-1	13	0.909210	TetR family transcriptional regulator
	BOV_A0402	-2	11	1.122690	HlyD family secretion protein
	BOV_A0403	-1	11	0.140392	ABC transporter ATP-binding protein
	BOV_A0404	-1	11	0.042745	ABC transporter permease
	BOV_A0405	-1	10	-0.011532	hypothetical protein
	BOV_A0406	-1	11	-0.318854	putative taurine ABC transporter permease
	BOV_A0407	-1	11	-0.636662	ABC transporter ATP-binding protein
	BOV_A0408	0	14	-1.169422	ABC transporter substrate-binding protein
	BOV_A0409	1	15	-1.304355	MarR family transcriptional regulator
	BOV_A0410	2	15	-1.362327	putative transporter
	BOV_A0411	0	14	-0.210107	HlyD family secretion protein
	BOV_A0413	2	17	0.376422	putative transcriptional regulatory protein
	351#BOV_A0401	HTHTETR#TetR bacterial regulatory protein HTH signature.	72	2e-17
		>HTHTETR#TetR bacterial regulatory protein HTH signature.
		          Length = 215
		
		 Score = 71.6 bits (175), Expect = 2e-17
		 Identities = 29/179 (16%), Positives = 60/179 (33%), Gaps = 13/179 (7%)
		
		Query: 9   PPQASLSSEQTRKALIVAALRLFGAKGYEATSTREIASLAKANIGSIAYHFGGKEGLRLA 68
		             +    +++TR+ ++  ALRLF  +G  +TS  EIA  A    G+I +HF  K  L   
		Sbjct: 2   ARKTKQEAQETRQHILDVALRLFSQQGVSSTSLGEIAKAAGVTRGAIYWHFKDKSDLFSE 61
		
		Query: 69  AADYIVETFRLIAAQALGNFQPAGFSREEREDARAQMISALERMVHFIVARPETGEIVQF 128
		             +        +  +    F           D  + +   L  ++   V       +++ 
		Sbjct: 62  IWELSESNIGELELEYQAKF---------PGDPLSVLREILIHVLESTVTEERRRLLMEI 112
		
		Query: 129 LLRELAHPTAA--LDRIYKGVFEPVHKRLCMIWEAA--TGEAAESEATRLVVFTLVGQI 183
		           +  +         + +  + +    + R+    +             TR     + G I
		Sbjct: 113 IFHKCEFVGEMAVVQQAQRNLCLESYDRIEQTLKHCIEAKMLPADLMTRRAAIIMRGYI 171
		
		
	352#BOV_A0402	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	59	9e-12
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 58.7 bits (142), Expect = 9e-12
		 Identities = 21/131 (16%), Positives = 47/131 (35%), Gaps = 5/131 (3%)
		
		Query: 27  VEGEFVQLAPLQVAQVRDIAVKRGDRVEAGEPIATVEDTDARIAVAQAEAALAQAQAQLA 86
		             G   ++ P++ + V++I VK G+ V  G+ +  +    A     + +++L QA+ +  
		Sbjct: 92  HSGRSKEIKPIENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQT 151
		
		Query: 87  NLQVGKRPEEIAVLEAAVRSARAQADDAQRTLLRTRDLARRGVATQAQLDDAATQLEVAE 146
		             Q+         +E          D+     +   ++ R     + Q      Q    E
		Sbjct: 152 RYQI-----LSRSIELNKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKE 206
		
		Query: 147 AAIGQSTANLA 157
		             + +  A   
		Sbjct: 207 LNLDKKRAERL 217
		
		
		
		 Score = 44.8 bits (106), Expect = 3e-07
		 Identities = 27/257 (10%), Positives = 79/257 (30%), Gaps = 25/257 (9%)
		
		Query: 67  ARIAVAQAEAALAQAQAQLANLQVGKRPEEIAVLEAAVR---SARAQADDAQRTLLR-TR 122
		             +   +AE     A+              +    + +     A+    + +   +    
		Sbjct: 207 LNLDKKRAERLTVLARINRYENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVN 266
		
		Query: 123 DLARRGVATQAQLDDAATQLEVAEAAIGQSTANLAVGKLPARPEEIKAAENAVKSAEAQL 182
		           +L       ++QL+   +++  A+      T       L    ++++   + +     +L
		Sbjct: 267 ELR----VYKSQLEQIESEILSAKEEYQLVTQLFKNEIL----DKLRQTTDNIGLLTLEL 318
		
		Query: 183 QTAKWQRAQRTIEAPAAGRITDV-VRNPGDIAGPSAPVLTMLPDGAVKL-KVYIPEERFS 240
		              + ++    I AP + ++  + V   G +   +  ++ ++P+         +  +   
		Sbjct: 319 AKNEERQQASVIRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIG 378
		
		Query: 241 DVAVGSVLSVHCDG----CAPGLQARVSYVSPD---PEFTPPVIYSLETRQKLVYLVEAH 293
		            + VG    +  +         L  +V  ++ D    +    V   +         +   
		Sbjct: 379 FINVGQNAIIKVEAFPYTRYGYLVGKVKNINLDAIEDQRLGLVFNVI--ISIEENCLSTG 436
		
		Query: 294 PVDPASPLQPGQIVDVD 310
		             +   PL  G  V  +
		Sbjct: 437 --NKNIPLSSGMAVTAE 451
		
		
	354#BOV_A0404	ABC2TRNSPORT#ABC-2 type transport system membrane protein signat...	49	9e-09
		>ABC2TRNSPORT#ABC-2 type transport system membrane protein
		           signature.
		          Length = 262
		
		 Score = 48.8 bits (116), Expect = 9e-09
		 Identities = 46/173 (26%), Positives = 76/173 (43%), Gaps = 8/173 (4%)
		
		Query: 206 ALTRETERGTMENLLAMPATPAEIMLGKIL---PYLAVGGVQMVLVAAKLIFGVPFVGSL 262
		           A  R   + T E +L       +I+LG++       A+ G  + +VAA L  G     SL
		Sbjct: 90  AFGRMEGQRTWEAMLYTQLRLGDIVLGEMAWAATKAALAGAGIGVVAAAL--GYTQWLSL 147
		
		Query: 263 TLLLSSVLIFVLSLALLGYTISTVSRTQMQAMQLTFFFFLPSLMLSGFMFPFRGMPDWAQ 322
		              L  + +  L+ A LG  ++ ++ +    +        P L LSG +FP   +P   Q
		Sbjct: 148 LYALPVIALTGLAFASLGMVVTALAPSYDYFIFYQTLVITPILFLSGAVFPVDQLPIVFQ 207
		
		Query: 323 ALGNIFPLTYFLRIVRAVMLKGAGLADIAGEVMALILF--VFLFAGLALLRFR 373
		                 PL++ + ++R +ML      D+   V AL ++  +  F   ALLR R
		Sbjct: 208 TAARFLPLSHSIDLIRPIMLGHPV-VDVCQHVGALCIYIVIPFFLSTALLRRR 259
		
		
	357#BOV_A0407	PF05272#Virulence-associated E family protein	28	0.035
		>PF05272#Virulence-associated E family protein
		          Length = 892
		
		 Score = 28.5 bits (63), Expect = 0.035
		 Identities = 11/20 (55%), Positives = 13/20 (65%)
		
		Query: 33  LIGPSGCGKSTLLRFLGGLE 52
		           L G  G GKSTL+  L GL+
		Sbjct: 601 LEGTGGIGKSTLINTLVGLD 620
		
		
	360#BOV_A0410	TCRTETB#Tetracycline resistance protein TetB signature.	41	7e-06
		>TCRTETB#Tetracycline resistance protein TetB signature.
		          Length = 458
		
		 Score = 41.4 bits (97), Expect = 7e-06
		 Identities = 37/200 (18%), Positives = 71/200 (35%), Gaps = 12/200 (6%)
		
		Query: 57  IQGSLGATLTETTWLVAAYMAPFASLTILLLKIRTQFGLRRFAEVAIAVFLVASLLHLLV 116
		           I          T W+  A+M  F+  T +  K+  Q G++R     I +    S++  + 
		Sbjct: 40  IANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQLGIKRLLLFGIIINCFGSVIGFVG 99
		
		Query: 117 YDVWS-AIPVRFI--AGAAAVPISSVGVLYMLEAFPPDKKRTWGLSLALTCSGAAGPFAR 173
		           +  +S  I  RFI  AGAAA P   + V   +  + P + R     L  +          
		Sbjct: 100 HSFFSLLIMARFIQGAGAAAFPALVMVV---VARYIPKENRGKAFGLIGSIVAMGEGVGP 156
		
		Query: 174 IISPMLFDIGQWQQLYMLEIGLALACFAVVYVLPLTQIPRAKVLHWLDFVAYTFIAIGFG 233
		            I  M+     W  L ++ +   +    ++ +L        ++    D      +++G  
		Sbjct: 157 AIGGMIAHYIHWSYLLLIPMITIITVPFLMKLLK----KEVRIKGHFDIKGIILMSVGI- 211
		
		Query: 234 ALVVVLVQGKNYWWFEAPWI 253
		            +  +L        F    +
		Sbjct: 212 -VFFMLFTTSYSISFLIVSV 230
		
		
	361#BOV_A0411	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	104	8e-27
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score =  104 bits (260), Expect = 8e-27
		 Identities = 63/414 (15%), Positives = 130/414 (31%), Gaps = 85/414 (20%)
		
		Query: 3   VSKKYIRGGFAILIGLLGVFIILWAWQLPPFKHSVETTDNAYVRGQVTVMSPQVSGYITK 62
		           VS++     + I+  L+  F  + +  L   +            G+   + P  +  + +
		Sbjct: 53  VSRRPRLVAYFIMGFLVIAF--ILSV-LGQVEIVATANGKLTHSGRSKEIKPIENSIVKE 109
		
		Query: 63  VNVTDYEQVKKGDLLFEID------------SRSYQQKLDQA------------------ 92
		           + V + E V+KGD+L ++             S   Q +L+Q                   
		Sbjct: 110 IIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIELNKLPELK 169
		
		Query: 93  ----------------------LAALDSKKAALANSEQSQRSAEATIKAREAQISGAKAA 130
		                                      + +      E +     A      A+I+  +  
		Sbjct: 170 LPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRYENL 229
		
		Query: 131 LEVAKANTVRVDTLLPRG-------VTTQSSADTAHGNMLQAQAAVDQAEAALAVAKEDL 183
		             V K+      +LL +        +  ++    A   +   ++ ++Q E+ +  AKE+ 
		Sbjct: 230 SRVEKSRLDDFSSLLHKQAIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEY 289
		
		Query: 184 --------RTIIVAREGLNADLHNAEAAVALARIDLQNTKILAPRDGKLGEVGVR-LGQY 234
		                     I+        ++      +A      Q + I AP   K+ ++ V   G  
		Sbjct: 290 QLVTQLFKNEILDKLRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGV 349
		
		Query: 235 VTAGTQLVSLVP--AVKWIMANFKETQLYGMKVGQPVTLTVDAL---RHAELKGHIEAFS 289
		           VT    L+ +VP      + A  +   +  + VGQ   + V+A    R+  L G ++  +
		Sbjct: 350 VTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNIN 409
		
		Query: 290 PATGSEFSVIKSDNATGNFTKITQRLSVRISIDEGQPDAELLAPGMSVVVRVDT 343
		                       D   G    +   +         +     L+ GM+V   + T
		Sbjct: 410 LDA-------IEDQRLGLVFNVIISIEENCLSTGNKN--IPLSSGMAVTAEIKT 454
		
		
	362#BOV_A0413	HTHFIS#FIS bacterial regulatory protein HTH signature.	95	1e-24
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 94.9 bits (236), Expect = 1e-24
		 Identities = 40/138 (28%), Positives = 66/138 (47%), Gaps = 3/138 (2%)
		
		Query: 4   GAHILIVDDDKDIRDLLHEFLKRRGMHVSIACNGDEMLDVLSRTPIDLVILDVMLPGKSG 63
		           GA IL+ DDD  IR +L++ L R G  V I  N   +   ++    DLV+ DV++P ++ 
		Sbjct: 3   GATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENA 62
		
		Query: 64  IEICQDVR-RTSRVPIIMLTAIADAADKILGLEIGADDYIAKPFDPRELLARIRAVLRRF 122
		            ++   ++     +P+++++A       I   E GA DY+ KPFD  EL+  I   L   
		Sbjct: 63  FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122
		
		Query: 123 EGNRSPQRALTQIYRFAG 140
		           +  R P +          
		Sbjct: 123 K--RRPSKLEDDSQDGMP 138
		
		
BOV_A0857	BOV_A0865	N	Y	N	BOV_A0840	BOV_A0883
	BOV_A0857	-1	10	-0.041425	AcrB/AcrD/AcrF multidrug efflux protein
	BOV_A0859	-2	11	0.144417	HlyD family secretion protein
	BOV_A0860	0	15	0.611418	hypothetical protein
	BOV_A0862	0	14	0.622771	L-lactate dehydrogenase
	BOV_A0863	0	15	1.070198	outer surface protein
	BOV_A0864	0	14	1.568088	putative alanine catabolic operon
	BOV_A0865	-2	10	1.518320	alanine racemase
	751#BOV_A0857	ACRIFLAVINRP#Acriflavin resistance protein family signature.	460	e-147
		>ACRIFLAVINRP#Acriflavin resistance protein family signature.
		          Length = 1034
		
		 Score =  460 bits (1186), Expect = e-147
		 Identities = 229/1043 (21%), Positives = 432/1043 (41%), Gaps = 61/1043 (5%)
		
		Query: 7    LSDWALNHRSLVWYFMLVFLVAGLVSYLDLGREEDPEFTVKTMVVQANWPGASIDETLNQ 66
		            ++++ +      W   ++ ++AG ++ L L   + P      + V AN+PGA      + 
		Sbjct: 1    MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60
		
		Query: 67   VTDRLEKKLEELDTLDYTRSVTT-AGKSVVFVFLKDTTRAQDVKKSWTEVRHLLTDIQNT 125
		            VT  +E+ +  +D L Y  S +  AG   + +  +  T   D   +  +V++ L      
		Sbjct: 61   VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGT---DPDIAQVQVQNKLQLATPL 117
		
		Query: 126  LPQGVYGPY-FNDQFGDVFGNIYAFTADGLSMRQ--LRDYAED-VRTKILTIPNAGKVEL 181
		            LPQ V       ++    +  +  F +D     Q  + DY    V+  +  +   G V+L
		Sbjct: 118  LPQEVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQL 177
		
		Query: 182  IGAQDEAIYLEFSTRQVAALGLDQQAILKALQDQNAITPSGVVQAGPE------RISVRV 235
		             GAQ  A+ +      +    L    ++  L+ QN    +G +   P         S+  
		Sbjct: 178  FGAQ-YAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIA 236
		
		Query: 236  SGQFNSEADLRAVNLRVNN--RFFRLSDVATITRGYVDPPTSIFRVNGEDAIGLGIGMKP 293
		              +F +  +   V LRVN+     RL DVA +  G  +    I R+NG+ A GLGI +  
		Sbjct: 237  QTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELG-GENYNVIARINGKPAAGLGIKLAT 295
		
		Query: 294  NGNLLEFGAELDKMMDQVTAELPVGVKVFKVADQPQVVKEAVSGFTQALFEAVVIVLAVS 353
		              N L+    +   + ++    P G+KV    D    V+ ++    + LFEA+++V  V 
		Sbjct: 296  GANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVM 355
		
		Query: 354  FVSLG-LRAGFVVSLSIPLVLAITFLSMSLMDISLQRVSLGALIIALGLLVDDAMIAVEM 412
		            ++ L  +RA  + ++++P+VL  TF  ++    S+  +++  +++A+GLLVDDA++ VE 
		Sbjct: 356  YLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVEN 415
		
		Query: 413  MV-ARLEHGDPINKAATYVYSHTAFPMLTGTLVTIAGFIPIGLNNSQAGEYTFTLFVVIA 471
		            +    +E   P  +A     S     ++   +V  A FIP+       G       + I 
		Sbjct: 416  VERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIV 475
		
		Query: 472  VSLLVSWVVAVLFAPLLGVTFLPKKMKPHEEKRSRFFEAFSRVLLLSM-----------R 520
		             ++ +S +VA++  P L  T L      H E +  FF  F+     S+            
		Sbjct: 476  SAMALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILG 535
		
		Query: 521  HKWTTIITTIVLFVISVFGMGFIERQFFPQSDRPELVLDWTLPQNSSIADTKAQMERFEE 580
		                 ++   ++    V     +   F P+ D+   +    LP  ++   T+  +++  +
		Sbjct: 536  STGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTD 595
		
		Query: 581  TMLKDN-PDVEHWSTYVGQGAIRFVLSFDVQPANPYFGQMVAVARDVEARDRLKAKFEAA 639
		              LK+   +VE   T  G        SF  Q  N     +     +    D   A+    
		Sbjct: 596  YYLKNEKANVESVFTVNG-------FSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIH 648
		
		Query: 640  -FRKDYVGTDVYVKYLELGPPV---GRPVQYRI-----SGPDVQKLRGIAQDFAGILS-A 689
		              + +              P +   G    +       +G     L        G+ +  
		Sbjct: 649  RAKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQH 708
		
		Query: 690  DKRLGVVNYNWNEPGRVIRVDVMQDKARKLGISSKDIATTLNGVVGGITITQVRDSIYLI 749
		               L  V  N  E     +++V Q+KA+ LG+S  DI  T++  +GG  +    D   + 
		Sbjct: 709  PASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVK 768
		
		Query: 750  DVIARAQAHERDSIDTLQSLQVATGNGTSVPLAAIANFRYELEQPVIYRRSRIPTITVAA 809
		             +  +A A  R   + +  L V + NG  VP +A     +    P + R + +P++ +  
		Sbjct: 769  KLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQG 828
		
		Query: 810  GIIDKTMPDTIARDLGPAIKTFADRLPAGYYIQTAGTVEESGKSQGPIAAVVPLMLFVMA 869
		                   P T + D    ++  A +LPAG      G   +   S     A+V +   V+ 
		Sbjct: 829  EA----APGTSSGDAMALMENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVF 884
		
		Query: 870  TVLMVQLQSFQRLFLVVAVAPLGLIGVVAALLPSGKPLGFVAILGVLALIGILIRNSVIL 929
		              L    +S+     V+ V PLG++GV+ A     +      ++G+L  IG+  +N++++
		Sbjct: 885  LCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILI 944
		
		Query: 930  IVQVEE-DIQEGLHPWDAVMKASQHRMRPIALTAAAASLALIPIA------REVFWGPMA 982
		            +   ++   +EG    +A + A + R+RPI +T+ A  L ++P+A             + 
		Sbjct: 945  VEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQN-AVG 1003
		
		Query: 983  YAMMGGIIAGTAITLLFLPALYV 1005
		              +MGG+++ T + + F+P  +V
		Sbjct: 1004 IGVMGGMVSATLLAIFFVPVFFV 1026
		
		
		
		 Score = 96.8 bits (241), Expect = 2e-22
		 Identities = 89/507 (17%), Positives = 173/507 (34%), Gaps = 34/507 (6%)
		
		Query: 10   WALNHRSLVWYFMLVFLVAGLVSYLDLGREEDPEFTVKTMVVQANWP-GASIDET---LN 65
		              L           + +   +V +L L     PE      +     P GA+ + T   L+
		Sbjct: 532  KILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLD 591
		
		Query: 66   QVTDRLEKKLEELDTLDYTRS-VTTAGKSV----VFVFLKDTTRAQDVKKSWTEVRHLLT 120
		            QVTD   K  +      +T +  + +G++      FV LK        + S   V H   
		Sbjct: 592  QVTDYYLKNEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAK 651
		
		Query: 121  DIQNTLPQGVYGPYFNDQFGDVFGNIYAFTADGLSMR-QLRDYAEDVRTKILTIPNAGKV 179
		                 +  G   P FN       G    F  + +       D     R ++L +      
		Sbjct: 652  MELGKIRDGFVIP-FNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPA 710
		
		Query: 180  ELIGAQDEA------IYLEFSTRQVAALGLDQQAILKALQDQNAITPSGVVQAGPE--RI 231
		             L+  +           LE    +  ALG+    I + +      T            ++
		Sbjct: 711  SLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKL 770
		
		Query: 232  SVRVSGQF-NSEADLRAVNLRVNN-RFFRLSDVATITRGYVDPPTSIFRVNGEDAIGLGI 289
		             V+   +F     D+  + +R  N      S   T    Y      + R NG  ++ +  
		Sbjct: 771  YVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVY--GSPRLERYNGLPSMEIQG 828
		
		Query: 290  GMKPNGNLLEFGAELDKMMDQVTAELPVGVKVFKVADQPQVVKEAVSGFTQALFEAVVIV 349
		               P  +  +  A ++ +  +    LP G+  +         + + +     +  + V+V
		Sbjct: 829  EAAPGTSSGDAMALMENLASK----LPAGIG-YDWTGMSYQERLSGNQAPALVAISFVVV 883
		
		Query: 350  ---LAVSFVSLGLRAGFVVSLSIPLVLAITFLSMSLMDISLQRVSLGALIIALGLLVDDA 406
		               LA  + S        V L +PL +    L+ +L +       +  L+  +GL   +A
		Sbjct: 884  FLCLAALYESW--SIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNA 941
		
		Query: 407  MIAVEMMVARLEH-GDPINKAATYVYSHTAFPMLTGTLVTIAGFIPIGLNNSQAGEYTFT 465
		            ++ VE     +E  G  + +A          P+L  +L  I G +P+ ++N         
		Sbjct: 942  ILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNA 1001
		
		Query: 466  LFVVIAVSLLVSWVVAVLFAPLLGVTF 492
		            + + +   ++ + ++A+ F P+  V  
		Sbjct: 1002 VGIGVMGGMVSATLLAIFFVPVFFVVI 1028
		
		
		
		 Score = 73.3 bits (180), Expect = 4e-15
		 Identities = 81/524 (15%), Positives = 172/524 (32%), Gaps = 44/524 (8%)
		
		Query: 517  LSMRHKWTTIITTIVLFVISVFGMGFIERQFFPQSDRPELVLDWTLPQNSSIADTKAQME 576
		              +R      +  I+L +     +  +    +P    P + +    P  +     +  + 
		Sbjct: 4    FFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYP-GADAQTVQDTVT 62
		
		Query: 577  RFEETMLKDNPDVEH-WSTYVGQGAIRFVLSFDVQPANPYFGQMVAVARDVEARDRLKAK 635
		            +  E  +    ++ +  ST    G++   L+F     +P   Q+    +   A   L  +
		Sbjct: 63   QVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSG-TDPDIAQVQVQNKLQLATPLLPQE 121
		
		Query: 636  FEAAFRKDYVGTDVYVKYLELGPPVGRPVQYRISGPDVQKLRGIAQDFA--GILSADKRL 693
		             +           + V+       +           +    +    D+    +     RL
		Sbjct: 122  VQQ--------QGISVEKSSSSYLM----VAGFVSDNPGTTQDDISDYVASNVKDTLSRL 169
		
		Query: 694  -GVVNYNWNEPGRVIRVDVMQDKARKLGISSKDIATTLNG----VVGGITITQVRDSIYL 748
		             GV +         +R+ +  D   K  ++  D+   L      +  G            
		Sbjct: 170  NGVGDVQLFGAQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQ 229
		
		Query: 749  IDVIARAQAHERDSIDTLQSLQVATGNGTSVPLAAIANFRYELEQPVIYRRSR-IPTITV 807
		            ++    AQ   ++  +  +       +G+ V L  +A      E   +  R    P   +
		Sbjct: 230  LNASIIAQTRFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGL 289
		
		Query: 808  AAGIIDKTMPDTIARDLGPAIKTFADRLPAGYYIQ----TAGTVEESGKSQGPIAAVVPL 863
		               +         A+ +   +       P G  +     T   V+ S      I  VV  
		Sbjct: 290  GIKLATGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLS------IHEVVKT 343
		
		Query: 864  MLFVMATVLMVQ---LQSFQRLFLVVAVA-PLGLIGVVAALLPSGKPLGFVAILGVLALI 919
		            +   +  V +V    LQ+  R  L+  +A P+ L+G  A L   G  +  + + G++  I
		Sbjct: 344  LFEAIMLVFLVMYLFLQNM-RATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAI 402
		
		Query: 920  GILIRNSVILIVQVEEDIQE-GLHPWDAVMKASQHRMRPIALTAAAASLALIPIA----- 973
		            G+L+ ++++++  VE  + E  L P +A  K+       +   A   S   IP+A     
		Sbjct: 403  GLLVDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGS 462
		
		Query: 974  REVFWGPMAYAMMGGIIAGTAITLLFLPALYVAWFRIKEPEHSP 1017
		                +   +  ++  +     + L+  PAL     +    EH  
		Sbjct: 463  TGAIYRQFSITIVSAMALSVLVALILTPALCATLLKPVSAEHHE 506
		
		
	752#BOV_A0859	RTXTOXIND#Gram-negative bacterial RTX secretion protein D signat...	61	2e-12
		>RTXTOXIND#Gram-negative bacterial RTX secretion protein D
		           signature.
		          Length = 478
		
		 Score = 61.0 bits (148), Expect = 2e-12
		 Identities = 42/209 (20%), Positives = 77/209 (36%), Gaps = 11/209 (5%)
		
		Query: 80  ERLVDIGQHVEKGQLLARIDDVEQRANMRVAQASMDAAEAQLVQADANFKRQQALLKQGF 139
		            RL D    + K   +A+   +EQ      A   +   ++QL Q ++     +   +   
		Sbjct: 235 SRLDDFSSLLHKQ-AIAKHAVLEQENKYVEAVNELRVYKSQLEQIESEILSAKEEYQL-V 292
		
		Query: 140 TTRSQYDQADQALRTAQSALSSAQSQLGNARDELSYTELHAPVSGVVTARNIET-GQVVQ 198
		           T   + +  D+ LR     +     +L    +    + + APVS  V    + T G VV 
		Sbjct: 293 TQLFKNEILDK-LRQTTDNIGLLTLELAKNEERQQASVIRAPVSVKVQQLKVHTEGGVVT 351
		
		Query: 199 AAQTAFSIA-EDGSRDAIFDVQETLVNHARIGMGVTVALLADPSIEA---EGNIRELSP- 253
		            A+T   I  ED + +    VQ   +    +G    + + A P        G ++ ++  
		Sbjct: 352 TAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIKVEAFPYTRYGYLVGKVKNINLD 411
		
		Query: 254 -VVDAQTGTV-RVKVGIAQATAQMALGAI 280
		            + D + G V  V + I +         I
		Sbjct: 412 AIEDQRLGLVFNVIISIEENCLSTGNKNI 440
		
		
		
		 Score = 45.2 bits (107), Expect = 3e-07
		 Identities = 21/130 (16%), Positives = 48/130 (36%), Gaps = 28/130 (21%)
		
		Query: 74  VNGQVVERLVDIGQHVEKGQLLARIDDVEQRANMRVAQASMDAAEAQLVQ---------- 123
		            N  V E +V  G+ V KG +L ++  +   A+    Q+S+  A  +  +          
		Sbjct: 103 ENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIEL 162
		
		Query: 124 -----------------ADANFKRQQALLKQGFTT-RSQYDQADQALRTAQSALSSAQSQ 165
		                            ++    R  +L+K+ F+T ++Q  Q +  L   ++   +  ++
		Sbjct: 163 NKLPELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLAR 222
		
		Query: 166 LGNARDELSY 175
		           +    +    
		Sbjct: 223 INRYENLSRV 232
		
		
	755#BOV_A0863	OUTRMMBRANEA#Outer membrane protein A signature.	28	0.030
		>OUTRMMBRANEA#Outer membrane protein A signature.
		          Length = 346
		
		 Score = 28.4 bits (63), Expect = 0.030
		 Identities = 33/179 (18%), Positives = 58/179 (32%), Gaps = 45/179 (25%)
		
		Query: 90  ASYGVGVGYRFNDMLRTDLTLDYF-RASINGRTNCPSYVKSSHGLNPVEDNCHYEDNSKA 148
		              G   GY+ N  +  ++  D+  R    G     +Y   + G+            +K 
		Sbjct: 56  LGAGAFGGYQVNPYVGFEMGYDWLGRMPYKGSVENGAY--KAQGVQL---------TAKL 104
		
		Query: 149 SVWTAMANAYVDLPRVGPLTPYLGAGIGAAYVKYDTWKTSEICPTCTLQSDKDGFDSWRF 208
		                        P    L  Y    +G    + DT            +S+  G +    
		Sbjct: 105 G-----------YPITDDLDIY--TRLGGMVWRADT------------KSNVYGKNHDTG 139
		
		Query: 209 AMALMA-GVSYDLTDQLKLDLGYRYLRVNGGNAYGYDEQDRQ------VINQYGQGAGA 260
		              + A GV Y +T ++   L Y++   N G+A+    +         V  ++GQG  A
		Sbjct: 140 VSPVFAGGVEYAITPEIATRLEYQWTN-NIGDAHTIGTRPDNGMLSLGVSYRFGQGEAA 197
		
		
	757#BOV_A0865	ALARACEMASE#Alanine racemase signature.	251	7e-83
		>ALARACEMASE#Alanine racemase signature.
		          Length = 356
		
		 Score =  251 bits (643), Expect = 7e-83
		 Identities = 106/369 (28%), Positives = 168/369 (45%), Gaps = 22/369 (5%)
		
		Query: 19  TIDLAALRHNYSAIATRIAPTRTAAVVKADAYGLGASRVAPAFYEAGCRDFFVAHLGEAV 78
		           ++DL AL+ N S +       R  +VVKA+AYG G  R+  A        F + +L EA+
		Sbjct: 8   SLDLQALKQNLSIVRQAATHARVWSVVKANAYGHGIERIWSAIGATDG--FALLNLEEAI 65
		
		Query: 79  ALKPFLKPDATLYVLNGLQPGTEAACAREG-ILPVLNSLEQVENWAALATRLGKKLPALL 137
		            L+        L +L G     +     +  +   ++S  Q++  A    RL   L   L
		Sbjct: 66  TLRERGWKGPIL-MLEGFFHAQDLEIYDQHRLTTCVHSNWQLK--ALQNARLKAPLDIYL 122
		
		Query: 138 QFDTGMSRLGLSAKEFDRLLENVTLLSRIDIKFAISHLANGDEPGNAANARQLAKMTALL 197
		           + ++GM+RLG        + + +  ++ +     +SH A  + P   +    +A++    
		Sbjct: 123 KVNSGMNRLGFQPDRVLTVWQQLRAMANVGEMTLMSHFAEAEHPDGISG--AMARIEQAA 180
		
		Query: 198 ARLPKLPAALANSGGTFLGKTYYFDLARPGIALYGIDPERQHDFSDKVAHENKKPKHSIL 257
		             L     +L+NS  T      +FD  RPGI LYG  P          + + +   ++ L
		Sbjct: 181 EGLE-CRRSLSNSAATLWHPEAHFDWVRPGIILYGASP----------SGQWRDIANTGL 229
		
		Query: 258 -PVLPLSARVIQVRDVDKGATVGYGGTYVANGPMRIATIAVGYADGLFRSLSNKGAAFFG 316
		            PV+ LS+ +I V+ +  G  VGYGG Y A    RI  +A GYADG  R           
		Sbjct: 230 RPVMTLSSEIIGVQTLKAGERVGYGGRYTARDEQRIGIVAAGYADGYPRHAPTGTPVLVD 289
		
		Query: 317 DTRLPIIGRVSMDSITLDVTSLPEGTLKLGSLVELIGPHQRLEDVARDCDTIPYEILTAL 376
		             R   +G VSMD + +D+T  P+    +G+ VEL G   +++DVA    T+ YE++ AL
		Sbjct: 290 GVRTMTVGTVSMDMLAVDLTPCPQA--GIGTPVELWGKEIKIDDVAAAAGTVGYELMCAL 347
		
		Query: 377 GNRYARVYV 385
		             R   V V
		Sbjct: 348 ALRVPVVTV 356
		
		
BOV_A1034	BOV_A1058	N	Y	N	BOV_A1011	BOV_A1065
	BOV_A1034	2	18	-0.963690	hypothetical protein
	BOV_A1035	2	18	-0.928077	hypothetical protein
	BOV_A1036	3	18	-1.207105	flagellar biosynthesis protein FliR
	BOV_A1037	1	17	-1.151086	flagellar biosynthesis protein FlhA
	BOV_A1038	1	16	-1.217554	flagellar biosynthesis protein FliQ
	BOV_A1039	1	15	-0.985515	flagellar basal body rod modification protein
	BOV_A1040	1	16	-1.368370	flagellar biosynthesis repressor FlbT
	BOV_A1041	-2	15	-0.428383	flagellar biosynthesis regulatory protein FlaF
	BOV_A1042	-2	15	0.057757	flagellar hook-associated protein FlgL
	BOV_A1043	-2	16	0.504736	flagellar hook-associated protein FlgK
	BOV_A1044	-2	15	0.893554	flagellar hook protein FlgE
	BOV_A1045	0	17	0.489624	response regulator receiver
	BOV_A1047	3	15	-0.303064	motD-related protein
	BOV_A1048	3	15	-0.737550	chemotaxis protein
	BOV_A1050	4	16	-1.058703	hypothetical protein
	BOV_A1051	4	16	-1.201903	flagellar MS-ring protein
	BOV_A1052	5	17	-1.299951	flagellin family protein
	BOV_A1053	5	16	-1.007896	outer membrane autotransporter
	BOV_A1054	0	9	-0.247582	hypothetical protein
	BOV_A1057	0	9	0.184544	D-xylose ABC transporter permease
	BOV_A1058	1	12	1.180423	AraC family transcriptional regulator
	906#BOV_A1034	FLGFLGJ#Flagellar protein FlgJ signature.	32	0.001
		>FLGFLGJ#Flagellar protein FlgJ signature.
		          Length = 313
		
		 Score = 32.0 bits (72), Expect = 0.001
		 Identities = 15/64 (23%), Positives = 29/64 (45%)
		
		Query: 88  SPAYRKFEAFMLQSFVQSMFTSDTTATFGKGIAGEYWKSMMAEAMANKMADGGGVGIARL 147
		            P  R+ E   +Q  ++SM  +              + SM  + +A +M  G G+G+A +
		Sbjct: 34  RPVARQVEGMFVQMMLKSMRDALPKDGLFSSEHTRLYTSMYDQQIAQQMTAGKGLGLAEM 93
		
		Query: 148 LEEQ 151
		           + +Q
		Sbjct: 94  MVKQ 97
		
		
	908#BOV_A1036	TYPE3IMRPROT#Type III secretion system inner membrane R protein ...	82	5e-21
		>TYPE3IMRPROT#Type III secretion system inner membrane R protein
		           family signature.
		          Length = 261
		
		 Score = 82.5 bits (204), Expect = 5e-21
		 Identities = 51/203 (25%), Positives = 92/203 (45%), Gaps = 4/203 (1%)
		
		Query: 17  LAFCRIGACLMLMPGISSARIPLQVRLFIALACSFAVLPLVLQRIVTAVDAGQPWTLFRL 76
		               R+ A +   P +S   +P +V+L +A+  +FA+ P +    V        W    L
		Sbjct: 18  WPLLRVLALISTAPILSERSVPKRVKLGLAMMITFAIAPSLPANDVPVFSFFALW----L 73
		
		Query: 77  MVGEMFIGALIGILAHIYFWAQQFMANMMAMAVGYSGSPADSITENEPQATLATIVTFSA 136
		            V ++ IG  +G      F A +    ++ + +G S +       +     LA I+   A
		Sbjct: 74  AVQQILIGIALGFTMQFAFAAVRTAGEIIGLQMGLSFATFVDPASHLNMPVLARIMDMLA 133
		
		Query: 137 LFLFFVTDMHLEIFRALLNSYVAIPVDGRFRPDAAMIDFTDALSAAFLATLRIAAPFIVF 196
		           L LF   + HL +   L++++  +P+ G      A +  T A S  FL  L +A P I  
		Sbjct: 134 LLLFLTFNGHLWLISLLVDTFHTLPIGGEPLNSNAFLALTKAGSLIFLNGLMLALPLITL 193
		
		Query: 197 AILVNFAIGLVNKLTPAIPVYFI 219
		            + +N A+GL+N++ P + ++ I
		Sbjct: 194 LLTLNLALGLLNRMAPQLSIFVI 216
		
		
	909#BOV_A1037	GPOSANCHOR#Gram-positive coccus surface protein anchor signature.	35	7e-04
		>GPOSANCHOR#Gram-positive coccus surface protein anchor signature.
		          Length = 539
		
		 Score = 35.4 bits (81), Expect = 7e-04
		 Identities = 20/53 (37%), Positives = 29/53 (54%)
		
		Query: 309 VGIAVPRRQARQREADAAEAGKKQREAEEQERNSVKASLETNQIELCLGKQLS 361
		             I+   RQ+ +R+ DA+   KKQ E   +E NS  A+LE    EL   K+L+
		Sbjct: 374 NKISEASRQSLRRDLDASREAKKQVEKALEEANSKLAALEKLNKELEESKKLT 426
		
		
		
		 Score = 32.7 bits (74), Expect = 0.005
		 Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 6/55 (10%)
		
		Query: 316 RQARQREADAAEAGKKQREAEEQERNSVKASLETNQIELCLGKQLSARLIASQEE 370
		           RQ+ +R+ DA+   KKQ EAE Q+        E ++      + L   L AS+E 
		Sbjct: 346 RQSLRRDLDASREAKKQLEAEHQKLEEQNKISEASR------QSLRRDLDASREA 394
		
		
	910#BOV_A1038	TYPE3IMQPROT#Type III secretion system inner membrane Q protein ...	57	1e-14
		>TYPE3IMQPROT#Type III secretion system inner membrane Q protein
		          family signature.
		          Length = 86
		
		 Score = 56.7 bits (137), Expect = 1e-14
		 Identities = 23/73 (31%), Positives = 41/73 (56%)
		
		Query: 5  DALDIVNSAIWTVLTASGPAVLAAMLAGIGIALFQALTQIQEMTLTFVPKIIVIFVVLAL 64
		          D +   N A++ VL  SG   + A + G+ + LFQ +TQ+QE TL F  K++ + + L L
		Sbjct: 3  DLVFAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQLQEQTLPFGIKLLGVCLCLFL 62
		
		Query: 65 TAPFVGAQINAFT 77
		           + + G  + ++ 
		Sbjct: 63 LSGWYGEVLLSYG 75
		
		
	915#BOV_A1043	FLGHOOKAP1#Flagellar hook-associated protein signature.	82	1e-18
		>FLGHOOKAP1#Flagellar hook-associated protein signature.
		          Length = 546
		
		 Score = 81.5 bits (201), Expect = 1e-18
		 Identities = 105/554 (18%), Positives = 192/554 (34%), Gaps = 105/554 (18%)
		
		Query: 4   SSALLTAKSSLAATSKQTSVVSRNISGAKDADYSRRT---ASLVSGPYGSLYVG------ 54
		           SS +  A S L A     +  S NIS    A Y+R+T   A   S      +VG      
		Sbjct: 1   SSLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVS 60
		
		Query: 55  -ISRSADEAMFNRYIQSNSAASASSTLADGLDRLSALYSADNYSGSPSGLIGDLRDALQT 113
		            + R  D  + N+   + + +S  +   + + ++  + S    + S +  + D   +LQT
		Sbjct: 61  GVQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLSTS--TSSLATQMQDFFTSLQT 118
		
		Query: 114 YAASPSNSALGDSVVSVAQSLRND--------------ADREIADSVANINDLLAKFEKA 159
		             ++  + A   +++  ++ L N                +  I  SV  IN+   +    
		Sbjct: 119 LVSNAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASL 178
		
		Query: 160 NQDV--VGGTRMGRDVSDYLDQRDALLKQLSGEIGITTMMRGDNDMVIFAENGVTLFETT 217
		           N  +  + G   G   ++ LDQRD L+ +L+  +G+   ++      I   NG +L + +
		Sbjct: 179 NDQISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGS 238
		
		Query: 218 ARKVTFEQSAVLTPGVAGKAVT----VDGVPLSHDTFDQPFGTGRLSGLLQLRDQM---- 269
		               T  Q A + P  A  + T    VDG   + +  ++   TG L G+L  R Q     
		Sbjct: 239 ----TARQLAAV-PSSADPSRTTVAYVDGTAGNIEIPEKLLNTGSLGGILTFRSQDLDQT 293
		
		Query: 270 --QLDEIARGLVTVFAESDQTGSSPDQ---TGLFSWSGSPAIPGADLSAGIAGTIEVSVP 324
		              L ++A      F    + G   +       F+  G PA+     + G          
		Sbjct: 294 RNTLGQLALAFAEAFNTQHKAGFDANGDAGEDFFA-IGKPAVLQNTKNKGDVAIGATVTD 352
		
		Query: 325 FIASEGGSALLLRDGGANGANYK--------YNVQGAAGFSDRLR-------ALNEAFSE 369
		             A       +  D                           D L        A+N++F+ 
		Sbjct: 353 ASAVLATDYKISFDNNQWQVTRLASNTTFTVTPDANGKVAFDGLELTFTGTPAVNDSFTL 412
		
		Query: 370 PMVFDAAAGI-----------------------SSSSSLIGYSASSLGWLEGKRQKANSE 406
		             V DA   +                        +  +L+   ++S     G  +  N  
		Sbjct: 413 KPVSDAIVNMDVLITDEAKIAMASEEDAGDSDNRNGQALLDLQSNSK--TVGGAKSFNDA 470
		
		Query: 407 F-----------TYNGTVASQADFALSNAT-------GVDIDTEMALLLDLEHSYQASSR 448
		           +               T ++     ++  +       GV++D E   L   +  Y A+++
		Sbjct: 471 YASLVSDIGNKTATLKTSSATQGNVVTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQ 530
		
		Query: 449 VLTTVSAMLDDLLN 462
		           VL T +A+ D L+N
		Sbjct: 531 VLQTANAIFDALIN 544
		
		
	916#BOV_A1044	FLGHOOKAP1#Flagellar hook-associated protein signature.	41	5e-06
		>FLGHOOKAP1#Flagellar hook-associated protein signature.
		          Length = 546
		
		 Score = 41.1 bits (96), Expect = 5e-06
		 Identities = 12/48 (25%), Positives = 27/48 (56%)
		
		Query: 329 IMSGTLEESNADIAQELTDMIEAQRSYTANSKVFQTGSELMDVLVNLK 376
		           + +     S  ++ +E  ++   Q+ Y AN++V QT + + D L+N++
		Sbjct: 499 LSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINIR 546
		
		
		
		 Score = 34.2 bits (78), Expect = 8e-04
		 Identities = 12/33 (36%), Positives = 20/33 (60%)
		
		Query: 9  TGVSGMNAQANRLSTVADNIANASTVGYKRAET 41
		            +SG+NA    L+T ++NI++ +  GY R  T
		Sbjct: 6  NAMSGLNAAQAALNTASNNISSYNVAGYTRQTT 38
		
		
	917#BOV_A1045	HTHFIS#FIS bacterial regulatory protein HTH signature.	32	0.002
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 31.7 bits (72), Expect = 0.002
		 Identities = 25/148 (16%), Positives = 53/148 (35%), Gaps = 10/148 (6%)
		
		Query: 2   IVVVDDRDMVTEGYSSWFGREGITTTGF-TPTDFDEWVESVPEQDIMAIEAFLIGECADQ 60
		           I+V DD   +    +    R G              W+ +    D++  +  +  E  + 
		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGD-GDLVVTDVVMPDE--NA 62
		
		Query: 61  HRLPARIRER-CKAPVIAVNDRPSLEHTLELFQFGVDDVVRKPVHVREILARI-NAIRRR 118
		             L  RI++     PV+ ++ + +    ++  + G  D + KP  + E++  I  A+   
		Sbjct: 63  FDLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122
		
		Query: 119 AGASATSGADGTQLGPIRVFSDGRDPQI 146
		               +    D     P+     GR   +
		Sbjct: 123 KRRPSKLEDDSQDGMPLV----GRSAAM 146
		
		
	918#BOV_A1047	FLGHOOKFLIK#Flagellar hook-length control protein signature.	34	7e-04
		>FLGHOOKFLIK#Flagellar hook-length control protein signature.
		          Length = 375
		
		 Score = 34.4 bits (78), Expect = 7e-04
		 Identities = 28/129 (21%), Positives = 52/129 (40%), Gaps = 15/129 (11%)
		
		Query: 257 KTLQIRLDPVELGTVTARIRVAGDSVEAHLVADKSHAAEMLAADRSMIEKALKVAGVGDD 316
		           ++ ++RL P +LG V   ++V  +  +  +V+   H    L A   ++   L  +G+   
		Sbjct: 257 QSAELRLHPQDLGEVQISLKVDDNQAQIQMVSPHQHVRAALEAALPVLRTQLAESGI--- 313
		
		Query: 317 TKISVTVADRNAQGAAQHVAAAQNAGQQQASAQQQGHQLAFNMQQQGSQGRGGEAQAQFM 376
		                       Q    +++    +GQQQA++QQQ  Q   N +    +          +
		Sbjct: 314 ------------QLGQSNISGESFSGQQQAASQQQQSQRTANHEPLAGEDDDTLPVPVSL 361
		
		Query: 377 SGRSGGEGG 385
		            GR  G  G
		Sbjct: 362 QGRVTGNSG 370
		
		
	921#BOV_A1051	FLGMRINGFLIF#Flagellar M-ring protein signature.	538	0.0
		>FLGMRINGFLIF#Flagellar M-ring protein signature.
		          Length = 559
		
		 Score =  538 bits (1386), Expect = 0.0
		 Identities = 159/576 (27%), Positives = 252/576 (43%), Gaps = 76/576 (13%)
		
		Query: 9   LGKLGARKLIALGLVGAALMGAILYTSIYLGRPSYETLYVGLSRDDVNRMGLALGEAGIP 68
		           L +L A   I L + G+A +  ++   ++   P Y TL+  LS  D   +   L +  IP
		Sbjct: 16  LNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMNIP 75
		
		Query: 69  FDVKSDGSSILVPIGKAENARMYLAEKGLPTSNNAGYELFDNMGSLGLTSFMQEITRVRA 128
		           +   +   +I VP  K    R+ LA++GLP     G+EL D     G++ F +++   RA
		Sbjct: 76  YRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQE-KFGISQFSEQVNYQRA 134
		
		Query: 129 LEGEIARTIQAIRGVKAARVHIVLAEKGSFRRGDQKPSASVVIRAEGGFSAESAQ--SIR 186
		           LEGE+ARTI+ +  VK+ARVH+ + +   F R  + PSASV +  E G + +  Q  ++ 
		Sbjct: 135 LEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALDEGQISAVV 194
		
		Query: 187 QLVAAAVPSLDASSVTVLDTNGHLLA---SAGEGANGAALMTASLEQQVASHVDDSIRKA 243
		            LV++AV  L   +VT++D +GHLL    ++G   N A L  A+    V S +   I   
		Sbjct: 195 HLVSSAVAGLPPGNVTLVDQSGHLLTQSNTSGRDLNDAQLKFAN---DVESRIQRRIEAI 251
		
		Query: 244 LAPYLGLGHFQTSVQAALDTDRRQTKETTYDPESRVERSVRVVRESGDSRNNRNDNATGV 303
		           L+P +G G+    V A LD   ++  E  Y P     ++    R+   S         GV
		Sbjct: 252 LSPIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPGGV 311
		
		Query: 304 -------------------------EQNIPQEQIQNRNGESSTEKTDRREELTNYEVNSK 338
		                                     QN PQ      N  S+  ++ +R E +NYEV+  
		Sbjct: 312 PGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTST-NSNSAGPRSTQRNETSNYEVDRT 370
		
		Query: 339 TVSTVSDGYSIKRLSIAVVIDQARLLQTAGTTPPPANFVDQQITKIRDLVATAAGLNTNR 398
		              T  +   I+RLS+AVV++   L   A   P P      Q+ +I DL   A G +  R
		Sbjct: 371 IRHTKMNVGDIERLSVAVVVNYKTL---ADGKPLP--LTADQMKQIEDLTREAMGFSDKR 425
		
		Query: 399 GDVINVTAVNF--LDPAGADMEPVSAPW--TDTLLRQSGSYANALAILAAVGLLIWFGLR 454
		           GD +NV    F  +D  G ++     P+    + + Q  +    L +L    +L    +R
		Sbjct: 426 GDTLNVVNSPFSAVDNTGGEL-----PFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVR 480
		
		Query: 455 PLL--RDQNVKPAGTEVAIREAGEVATPNFIGGAESVGEGVQAVIGGPAAYADQMKTSLS 512
		           P L  R +  K A  +  +R+  E A    +   E                       L 
		Sbjct: 481 PQLTRRVEEAKAAQEQAQVRQETEEAVEVRLSKDE----------------------QLQ 518
		
		Query: 513 DLRQRMRMPAKL---RLEQMIEMDEERVAAVLKQWI 545
		             R   R+ A++   R+ +M + D   VA V++QW+
		Sbjct: 519 QRRANQRLGAEVMSQRIREMSDNDPRVVALVIRQWM 554
		
		
	922#BOV_A1052	FLAGELLIN#Flagellin signature.	80	5e-19
		>FLAGELLIN#Flagellin signature.
		          Length = 507
		
		 Score = 79.7 bits (196), Expect = 5e-19
		 Identities = 45/227 (19%), Positives = 83/227 (36%), Gaps = 7/227 (3%)
		
		Query: 4   ILTNSSALTALQTLASTNKSLESTQNRISTGLRISEASDNASYWSIATSMKSDNKANSAV 63
		           I TNS +L     L  +  SL S   R+S+GLRI+ A D+A+  +IA    S+ K  +  
		Sbjct: 4   INTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQA 63
		
		Query: 64  QDALGLGAGKVDTAYSAINKIRESVDDIKTKLVSAMGA--STEDKGKIETEIKSIVANIN 121
		                 G     T   A+N+I  ++  ++   V A     S  D   I+ EI+  +  I+
		Sbjct: 64  SRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEID 123
		
		Query: 122 SALSNANYAGSNLLNGPTTDLNVVASYNRSGNAVTVDKITVKATDTDAKTMVKDIVDAGF 181
		              +   + G  +L+        V +     N      I ++  D  +  +    V+   
		Sbjct: 124 RVSNQTQFNGVKVLSQDNQMKIQVGA-----NDGETITIDLQKIDVKSLGLDGFNVNGPK 178
		
		Query: 182 FTSASDDTAIGTALNTVETALASLATGAATLGAAKSQIDSQKSFLSA 228
		             +  D  +    +   +T           + +     D+    +  
		Sbjct: 179 EATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPD 225
		
		
	923#BOV_A1053	PERTACTIN#Pertactin signature.	60	2e-10
		>PERTACTIN#Pertactin signature.
		          Length = 922
		
		 Score = 59.7 bits (144), Expect = 2e-10
		 Identities = 88/384 (22%), Positives = 134/384 (34%), Gaps = 45/384 (11%)
		
		Query: 2979 DTLLTNRLVIDGDTAGTTQVSVTNRGGLGAQTVEGIKIIQVGGASNGMFLLAGDYMFNGE 3038
		            D  L+++LV+  D +G  ++ V N G     +   + ++Q    S   F LA     N +
		Sbjct: 487  DLGLSDKLVVMRDASGQHRLWVRNSGS-EPASGNTMLLVQTPRGSAATFTLA-----NKD 540
		
		Query: 3039 QAVVAGAYGYRLYKGGVSTPADGNWYLRSALL----NPETPTNPTDPETPLYQPGVPLYE 3094
		              V  G Y YRL   G     +G W L  A       P     P     P   P  P   
		Sbjct: 541  GKVDIGTYRYRLAANG-----NGQWSLVGAKAPPAPKPAPQPGPQPGPQPPQPPQPPQPP 595
		
		Query: 3095 SYAGSLQQLNKLGTLQQRVGNRVWAKHPVPAQNDENGAGPS------------------- 3135
		                  Q+  +    Q   G  + A           G   +                   
		Sbjct: 596  QPPQPPQRQPEAPAPQPPAGRELSAAANAAVNTGGVGLASTLWYAESNALSKRLGELRLN 655
		
		Query: 3136 -GNNGIWARIEAAHAEFDPKQSTSRASYDADIWKFQTGIDGMFAETASGKFIGGVYVQYG 3194
		                G W R  A   + D +       +D  +  F+ G D   A       +GG+    G
		Sbjct: 656  PDAGGAWGRGFAQRQQLDNRAGRR---FDQKVAGFELGADHAVAVAGGRWHLGGLA---G 709
		
		Query: 3195 TVSSSVSSPFGNGSIESSGYGAGATLTWYGESDFYIDGVAQINWFDSDLNSATLGRQLVD 3254
		                      G+G   +     G   T+   S FY+D   + +  ++D   A      V 
		Sbjct: 710  YTRGDRGFT-GDGGGHTDSVHVGGYATYIANSGFYLDATLRASRLENDFKVAGSDGYAVK 768
		
		Query: 3255 GN-RAVGYSLSVETGQKIEIGEGWSLTPQAQLAYSAIRFDDFKDAFDTSVSPENDHDLTG 3313
		            G  R  G  +S+E G++    +GW L PQA+LA   +    ++ A    V  E    + G
		Sbjct: 769  GKYRTHGVGVSLEAGRRFAHADGWFLEPQAELAVFRVGGGAYRAANGLRVRDEGGSSVLG 828
		
		Query: 3314 RLGLAINRDAEWLDAQGRRVAMHI 3337
		            RLGL + +  E   A GR+V  +I
		Sbjct: 829  RLGLEVGKRIEL--AGGRQVQPYI 850
		
		
	926#BOV_A1058	HTHFIS#FIS bacterial regulatory protein HTH signature.	34	8e-04
		>HTHFIS#FIS bacterial regulatory protein HTH signature.
		          Length = 484
		
		 Score = 34.0 bits (78), Expect = 8e-04
		 Identities = 21/97 (21%), Positives = 37/97 (38%), Gaps = 2/97 (2%)
		
		Query: 163 RKLSAHDPMAHMLHALIAKIMATTESDSASQHLRQLMFNATRQAFHSTGESAPLHSLHDS 222
		             ++       +   +    +    + S S  + Q +    RQ F S G++ P   L+D 
		Sbjct: 372 DVITREIIENELRSEIPDSPIEKAAARSGSLSISQAVEENMRQYFASFGDALPPSGLYDR 431
		
		Query: 223 ASKRLQIVDLLIDRHLTETELSARWLATRLGISIRTL 259
		               ++    LI   LT T  +    A  LG++  TL
		Sbjct: 432 VLAEME--YPLILAALTATRGNQIKAADLLGLNRNTL 466
		
		
