PredictBias

		>BCTERIALGSPG#Bacterial general secretion pathway protein G

		           signature.

		          Length = 145

		

		 Score =  188 bits (480), Expect = 6e-65

		 Identities = 67/140 (47%), Positives = 94/140 (67%), Gaps = 3/140 (2%)

		

		Query: 10  QAARRQRGFTLIEIMVVVAILGILAALIVPKIMSRPDEARRIAAKQDIGTIMQALKLYRL 69

		           +A  +QRGFTL+EIMVV+ I+G+LA+L+VP +M   ++A +  A  DI  +  AL +Y+L

		Sbjct: 2   RATDKQRGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQKAVSDIVALENALDMYKL 61

		

		Query: 70  DNGRYPTQDQGLNALIQKPTTDPIPNNWKDGGYLERLPNDPWGNSYKYLNPGVHGEIDVF 129

		           DN  YPT +QGL +L++ PT  P+  N+   GY++RLP DPWGN Y  +NPG HG  D+ 

		Sbjct: 62  DNHHYPTTNQGLESLVEAPTLPPLAANYNKEGYIKRLPADPWGNDYVLVNPGEHGAYDLL 121

		

		Query: 130 SYGADGKEGGESNDSDIGSW 149

		           S G DG+ G E    DI +W

		Sbjct: 122 SAGPDGEMGTE---DDITNW 138

		

		

		>BCTERIALGSPH#Bacterial general secretion pathway protein H

		           signature.

		          Length = 170

		

		 Score = 51.5 bits (123), Expect = 1e-10

		 Identities = 20/101 (19%), Positives = 33/101 (32%), Gaps = 15/101 (14%)

		

		Query: 51  RARGFTLLEMLVVLVIAGILVSVASLTLRRNPRTDLREEAQRIALLFETAGDEAQVRARP 110

		           R RGFTLLEM+++L++ G+   +  L    +      +   R                + 

		Sbjct: 2   RQRGFTLLEMMLILLLMGVSAGMVLLAFPASRDDSAAQTLARFEAQLRFVQQRGLQTGQF 61

		

		Query: 111 IAWRATEHGFRF---------------DIRTGDGWRPLRDD 136

		                    ++F               D  +G  W PLR  

		Sbjct: 62  FGVSVHPDRWQFLVLEARDGADPAPADDGWSGYRWLPLRAG 102

		

		

		>BCTERIALGSPG#Bacterial general secretion pathway protein G

		          signature.

		          Length = 145

		

		 Score = 30.2 bits (68), Expect = 0.001

		 Identities = 10/26 (38%), Positives = 18/26 (69%)

		

		Query: 10 RSPARSRGFTMIEVLVALAIIAVALA 35

		          R+  + RGFT++E++V + II V  +

		Sbjct: 2  RATDKQRGFTLLEIMVVIVIIGVLAS 27

		

		

		>BCTERIALGSPG#Bacterial general secretion pathway protein G

		           signature.

		          Length = 145

		

		 Score = 33.3 bits (76), Expect = 3e-04

		 Identities = 17/72 (23%), Positives = 34/72 (47%), Gaps = 3/72 (4%)

		

		Query: 33  RGFTLIEMMIAITILAVIA-ILSWRGLDQIIRGREKVAAAMEDERVFAQMFDQMRIDARR 91

		           RGFTL+E+M+ I I+ V+A ++    +    +  ++   A+ D        D  ++D   

		Sbjct: 8   RGFTLLEIMVVIVIIGVLASLVVPNLMGNKEKADKQK--AVSDIVALENALDMYKLDNHH 65

		

		Query: 92  AATDDEAGQPAV 103

		             T ++  +  V

		Sbjct: 66  YPTTNQGLESLV 77

		

		

		>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein

		           signature.

		          Length = 347

		

		 Score = 32.0 bits (73), Expect = 0.004

		 Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 3/67 (4%)

		

		Query: 144 AGQPGDAPFAPPTLVGDLGGGALYLAMGVLAGIVDAR-LRGKGQIVDAAIVDGSANLMNL 202

		           AG P        ++V D+GGG   +A+  L G+V +  +R  G   D AI++        

		Sbjct: 151 AGLPVSEATG--SMVVDIGGGTTEVAVISLNGVVYSSSVRIGGDRFDEAIINYVRRNYGS 208

		

		Query: 203 LLSIHAA 209

		           L+    A

		Sbjct: 209 LIGEATA 215

		

		

		>UREASE#Urea amidohydrolase (urease) protein signature.

		          Length = 570

		

		 Score = 30.1 bits (68), Expect = 0.003

		 Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 5/44 (11%)

		

		Query: 106 GGILVYDQFVTP----PTPQPVQQRRLRWGAHGRSNNGDNFYVV 145

		           GG +       P    PTPQPV  R + +GA+GRS    +   V

		Sbjct: 452 GGTIAAAPMGDPNASIPTPQPVHYRPM-FGAYGRSRTNSSVTFV 494

		

		

		>PERTACTIN#Pertactin signature.

		          Length = 922

		

		 Score = 33.2 bits (75), Expect = 0.003

		 Identities = 24/93 (25%), Positives = 31/93 (33%)

		

		Query: 81  PKAGQRSPAGATPLAPRAPLPSANPAPVAPGPASAPAVDAHAPAPAGMNAATAAAVAAAQ 140

		           P A + +P       P+ P P   P P  P        +A AP P      +AAA AA  

		Sbjct: 568 PPAPKPAPQPGPQPGPQPPQPPQPPQPPQPPQPPQRQPEAPAPQPPAGRELSAAANAAVN 627

		

		Query: 141 AAQAAQANAAALNADEAADLDLPSLTAHEAAAG 173

		                 A+        A    L  L  +  A G

		Sbjct: 628 TGGVGLASTLWYAESNALSKRLGELRLNPDAGG 660

		

		

		>60KDINNERMP#60kDa inner membrane protein signature.

		          Length = 548

		

		 Score =  490 bits (1263), Expect = e-171

		 Identities = 204/576 (35%), Positives = 320/576 (55%), Gaps = 46/576 (7%)

		

		Query: 1   MDIKRTVLWVIFFMSAVMLFDNWQRSHGRPSMFFPNVTQTNTASNATNGNGASGANAAAA 60

		           MD +R +L +     + M++  W++             Q  T +  T             

		Sbjct: 1   MDSQRNLLVIALLFVSFMIWQAWEQDKNPQ-----PQAQQTTQTTTT------------- 42

		

		Query: 61  ANALPAAATGAAPATTAPAAQAQLVRFSTDVYNGEIDTRGGTLAKLTLTK---AGDGKQP 117

		                 AA  AA      + Q +L+   TDV +  I+TRGG + +  L       +  QP

		Sbjct: 43  ------AAGSAADQGVPASGQGKLISVKTDVLDLTINTRGGDVEQALLPAYPKELNSTQP 96

		

		Query: 118 DLSVTLFDHTANHTYLARTGLLGGDFPN-----HNDVYAQVAGPTSLAADQNTLKLSFES 172

		                L + +    Y A++GL G D P+        +Y        LA  QN L++    

		Sbjct: 97  ---FQLLETSPQFIYQAQSGLTGRDGPDNPANGPRPLYNVEKDAYVLAEGQNELQVPMTY 153

		

		Query: 173 PVKGGVKVVKTYTFTRGSYVIGVDTKIENVGAAPVTPSVYMELVRD-----NSSVETPMF 227

		               G    KT+   RG Y + V+  ++N G  P+  S + +L +      +    +  F

		Sbjct: 154 TDAAGNTFTKTFVLKRGDYAVNVNYNVQNAGEKPLEISSFGQLKQSITLPPHLDTGSSNF 213

		

		Query: 228 S-HTFLGPAVYTDQKHFQKITFGDIDKNKADYVTSADNGWIAMVQHYFASAWIPQSGAKR 286

		           + HTF G A  T  + ++K  F  I  N+   ++S   GW+AM+Q YFA+AWIP +    

		Sbjct: 214 ALHTFRGAAYSTPDEKYEKYKFDTIADNENLNISS-KGGWVAMLQQYFATAWIPHNDGTN 272

		

		Query: 287 DIYVEKIDPTLYRVGVKQPVAAIAPGQSADVSARLFAGPEEERMLEGIAPGLELVKDYGW 346

		           + Y   +   +  +G K     + PGQ+  +++ L+ GPE +  +  +AP L+L  DYGW

		Sbjct: 273 NFYTANLGNGIAAIGYKSQPVLVQPGQTGAMNSTLWVGPEIQDKMAAVAPHLDLTVDYGW 332

		

		Query: 347 VTIIAKPLFWLLEKIHGFVGNWGWAIVLLTLLIKAVFFPLSAASYKSMARMKEITPRMQA 406

		           +  I++PLF LL+ IH FVGNWG++I+++T +++ + +PL+ A Y SMA+M+ + P++QA

		Sbjct: 333 LWFISQPLFKLLKWIHSFVGNWGFSIIIITFIVRGIMYPLTKAQYTSMAKMRMLQPKIQA 392

		

		Query: 407 LRERFKSDPQKMNAALMELYKTEKVNPFGGCLPVVIQIPVFISLYWVLLASVEMRGAPWV 466

		           +RER   D Q+++  +M LYK EKVNP GGC P++IQ+P+F++LY++L+ SVE+R AP+ 

		Sbjct: 393 MRERLGDDKQRISQEMMALYKAEKVNPLGGCFPLLIQMPIFLALYYMLMGSVELRQAPFA 452

		

		Query: 467 LWIHDLSQRDPYFILPVLMAVSMFVQTKLNPTP-PDPVQAKMMMFMPIAFSVMFFFFPAG 525

		           LWIHDLS +DPY+ILP+LM V+MF   K++PT   DP+Q K+M FMP+ F+V F +FP+G

		Sbjct: 453 LWIHDLSAQDPYYILPILMGVTMFFIQKMSPTTVTDPMQQKIMTFMPVIFTVFFLWFPSG 512

		

		Query: 526 LVLYYVVNNVLSIAQQYYITRTL---GGAAAKKKAS 558

		           LVLYY+V+N+++I QQ  I R L   G  + +KK S

		Sbjct: 513 LVLYYIVSNLVTIIQQQLIYRGLEKRGLHSREKKKS 548

		

		

		>PF05272#Virulence-associated E family protein

		          Length = 892

		

		 Score = 36.6 bits (84), Expect = 2e-04

		 Identities = 25/123 (20%), Positives = 40/123 (32%), Gaps = 9/123 (7%)

		

		Query: 191 IDFLEAADARGKLAHIR--ERLAHVLGDARQGALLREGLSV----VLAGQPNVGKSSLLN 244

		           +  L       K   +R  + +   +       ++  G       VL G   +GKS+L+N

		Sbjct: 555 VHVLGKTPDDYKPRRLRYLQLVGKYILMGHVARVMEPGCKFDYSVVLEGTGGIGKSTLIN 614

		

		Query: 245 ALAGAELAIVTPI-AGTTRDKVAQTIQIEGIPLHIIDTAGLRETEDEVEKIGIARTWGEI 303

		            L G +    T    GT +D   Q   I    L  +     R  + E  K   +      

		Sbjct: 615 TLVGLDFFSDTHFDIGTGKDSYEQIAGIVAYELSEMT--AFRRADAEAVKAFFSSRKDRY 672

		

		Query: 304 ERA 306

		             A

		Sbjct: 673 RGA 675

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 40.7 bits (95), Expect = 8e-07

		 Identities = 23/113 (20%), Positives = 45/113 (39%), Gaps = 11/113 (9%)

		

		Query: 37  FEEPYETFTELSQLYDQHVHDQRERRFVAFDSDGELVGLVELI----ELDYIHRRGEFQI 92

		           F +PY    E   +   +V ++ +  F+ +  +   +G +++         I       I

		Sbjct: 42  FSKPYFKQYEDDDMDVSYVEEEGKAAFLYY-LENNCIGRIKIRSNWNGYALIE-----DI 95

		

		Query: 93  IIAPNRQGRGFATRATRLAVEYAFKVLNLRKLYLIVDKSNVAAIRVYEKCGFK 145

		            +A + + +G  T     A+E+A K  +   L L     N++A   Y K  F 

		Sbjct: 96  AVAKDYRKKGVGTALLHKAIEWA-KENHFCGLMLETQDINISACHFYAKHHFI 147

		

		

		>MALTOSEBP#Maltose binding protein signature.

		          Length = 396

		

		 Score = 32.4 bits (73), Expect = 0.002

		 Identities = 26/94 (27%), Positives = 44/94 (46%), Gaps = 8/94 (8%)

		

		Query: 5   LTLLLTMTFGFVQAAELHLANWPDWMP--------PELLKKFEKETGIKTTLDIYDSDAT 56

		           L+ L TM F     A++       W+          E+ KKFEK+TGIK T++  D    

		Sbjct: 12  LSALTTMMFSASALAKIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEE 71

		

		Query: 57  LLSKLQAGGGGYDVVVAGDYYVQVFAKNGLVRKL 90

		              ++ A G G D++         +A++GL+ ++

		Sbjct: 72  KFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEI 105

		

		

		>SACTRNSFRASE#Streptothricin acetyltransferase signature.

		          Length = 173

		

		 Score = 38.8 bits (90), Expect = 2e-06

		 Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 1/67 (1%)

		

		Query: 67  RHAFINALFVRPAWHGAGVGREMLERALAWLREQGSESVSL-VTDPGSRADGFYQHLGWI 125

		            +A I  + V   +   GVG  +L +A+ W +E     + L   D    A  FY    +I

		Sbjct: 88  GYALIEDIAVAKDYRKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFI 147

		

		Query: 126 RGELDSY 132

		            G +D+ 

		Sbjct: 148 IGAVDTM 154

		

		

		>FLGHOOKFLIK#Flagellar hook-length control protein signature.

		          Length = 375

		

		 Score = 71.4 bits (174), Expect = 1e-15

		 Identities = 65/198 (32%), Positives = 90/198 (45%), Gaps = 6/198 (3%)

		

		Query: 259 ALAALRDAADSARATLAASSAPAALQQAA-PAALAANAGAAAASAAPSLAPPVGTPDWTD 317

		               L      A++     S P+ +  AA P             AAP L+ P+G+ +W  

		Sbjct: 183 PAQPLTPLVAEAQSKAEVISTPSPVTAAASPLITPHQTQPLPTVAAPVLSAPLGSHEWQQ 242

		

		Query: 318 ALSQKVVFLSNAHQQSAELTLNPPDLGPLQVVLRVADNHAHALFVSQHAQVRDAVEAALP 377

		           +LSQ +   +   QQSAEL L+P DLG +Q+ L+V DN A    VS H  VR A+EAALP

		Sbjct: 243 SLSQHISLFTRQGQQSAELRLHPQDLGEVQISLKVDDNQAQIQMVSPHQHVRAALEAALP 302

		

		Query: 378 KLREAMEAGGLGLGSASVSDGGFASAQQQQTPQRQSSDGSATRRAFGASTADAALDELAA 437

		            LR  +   G+ LG +++S   F+  QQ  + Q+QS   +A          D     L  

		Sbjct: 303 VLRTQLAESGIQLGQSNISGESFSGQQQAASQQQQSQR-TANHEPLAGEDDDT----LPV 357

		

		Query: 438 ASSSGATRRTVGMVDTFA 455

		             S          VD FA

		Sbjct: 358 PVSLQGRVTGNSGVDIFA 375

		

		

		>FLGFLIJ#Flagellar FliJ protein signature.

		          Length = 147

		

		 Score = 59.8 bits (144), Expect = 2e-14

		 Identities = 43/140 (30%), Positives = 74/140 (52%)

		

		Query: 1   MAQSFPLQLLLERAQDDLDTAAKQLGRAQRERTDAQAQLDALMRYRDEYRVRFAESAQSG 60

		           MA+   L  L + A+ +++ AA+ LG  +R    A+ QL  L+ Y++EYR        +G

		Sbjct: 1   MAEHGALATLKDLAEKEVEDAARLLGEMRRGCQQAEEQLKMLIDYQNEYRNNLNSDMSAG 60

		

		Query: 61  MPAGNWRNFQAFLDTLDAAIEQQRRVLAAAQTRIDAARPEWQAKKRTLGSYEILQARGAR 120

		           + +  W N+Q F+ TL+ AI Q R+ L     ++D A   W+ KK+ L +++ LQ R + 

		Sbjct: 61  ITSNRWINYQQFIQTLEKAITQHRQQLNQWTQKVDIALNSWREKKQRLQAWQTLQERQST 120

		

		Query: 121 QDAQRAAKREQRDADEHAAK 140

		                  + +Q+  DE A +

		Sbjct: 121 AALLAENRLDQKKMDEFAQR 140

		

		

		>FLGFLIH#Flagellar assembly protein FliH signature.

		          Length = 228

		

		 Score =  109 bits (273), Expect = 1e-31

		 Identities = 64/184 (34%), Positives = 106/184 (57%), Gaps = 4/184 (2%)

		

		Query: 37  AAAALAAELQRVRDAAHAEGLAAGHVEGQALGYQAGYEQGRAKGFDEGQAEAHTHAAQLA 96

		           A  +L  +L +++  AH +G  AG  EG+  G++ GY++G A+G ++G AEA +  A + 

		Sbjct: 36  AEPSLEQQLAQLQMQAHEQGYQAGIAEGRQQGHKQGYQEGLAQGLEQGLAEAKSQQAPIH 95

		

		Query: 97  A----LAASFRDALAGVERDLADDIATLALEIAQQVVRQHVQHDPAALIAAAREVLAAEP 152

		           A    L + F+  L  ++  +A  +  +ALE A+QV+ Q    D +ALI   +++L  EP

		Sbjct: 96  ARMQQLVSEFQTTLDALDSVIASRLMQMALEAARQVIGQTPTVDNSALIKQIQQLLQQEP 155

		

		Query: 153 ALAGAPHLIVNPADLPVVEAYLKDELDTLGWSVRTDTSIERGGCRAHASTGEIDATLTTR 212

		             +G P L V+P DL  V+  L   L   GW +R D ++  GGC+  A  G++DA++ TR

		Sbjct: 156 LFSGKPQLRVHPDDLQRVDDMLGATLSLHGWRLRGDPTLHPGGCKVSADEGDLDASVATR 215

		

		Query: 213 WERV 216

		           W+ +

		Sbjct: 216 WQEL 219

		

		

		>FLGMOTORFLIG#Flagellar motor switch protein FliG signature.

		          Length = 344

		

		 Score =  298 bits (765), Expect = e-102

		 Identities = 114/324 (35%), Positives = 191/324 (58%)

		

		Query: 5   GLNKSALLLMSIGEEEAAQVFKFLAPREVQKIGAAMAALKNVTREQVEDVLNDFVQEAEK 64

		           G  K+A+LL+SIG E +++VFK+L+  E++ +   +A L+ +T E  ++VL +F +    

		Sbjct: 17  GKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNVLLEFKELMMA 76

		

		Query: 65  HTALSLDSSEYIRTVLTKALGEDKAGVLIDRILQGSDTSGIEGLKWMDSAAVAELIKNEH 124

		              +     +Y R +L K+LG  KA  +I+ +     +   E ++  D A +   I+ EH

		Sbjct: 77  QEFIQKGGIDYARELLEKSLGTQKAVDIINNLGSALQSRPFEFVRRADPANILNFIQQEH 136

		

		Query: 125 PQIIATILVHLDRDQASEIASCFTERLRNDVLLRIATLDGIQPTALRELDDVLTGLLSGS 184

		           PQ IA IL +LD  +AS I S     ++ +V  RIA +D   P  +RE++ VL   L+  

		Sbjct: 137 PQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREVERVLEKKLASL 196

		

		Query: 185 DNLKRAPMGGIRTAAEILNFMTSVHEEAVIENVKQYDPDLAQKIIDQMFVFENLLDLEDR 244

		            +      GG+    EI+N      E+ +IE++++ DP+LA++I  +MFVFE+++ L+DR

		Sbjct: 197 SSEDYTSAGGVDNVVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMFVFEDIVLLDDR 256

		

		Query: 245 AIQLLLKEVESEALIIALKGAPPALRQKFLSNMSQRAAELLAEDLDARGPVRVSEVETQQ 304

		           +IQ +L+E++ + L  ALK     +++K   NMS+RAA +L ED++  GP R  +VE  Q

		Sbjct: 257 SIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEFLGPTRRKDVEESQ 316

		

		Query: 305 RKILQVVRNLAESGQIVIGGKAED 328

		           +KI+ ++R L E G+IVI    E+

		Sbjct: 317 QKIVSLIRKLEEQGEIVISRGGEE 340

		

		

		>FLGMRINGFLIF#Flagellar M-ring protein signature.

		          Length = 559

		

		 Score =  468 bits (1205), Expect = e-162

		 Identities = 254/562 (45%), Positives = 360/562 (64%), Gaps = 37/562 (6%)

		

		Query: 53  LSRMKTNPRLPFLIGAALAIAAIVALVLWSRAPDYRVLYSNLSDRDGGAIIAALQQANVP 112

		           L+R++ NPR+P ++  + A+A +VA+VLW++ PDYR L+SNLSD+DGGAI+A L Q N+P

		Sbjct: 16  LNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMNIP 75

		

		Query: 113 YKFADAGGAILVPANQVHETRLKLAAMGLPKGGSVGFELMDNQKFGISQFAEQVNYQRAL 172

		           Y+FA+  GAI VPA++VHE RL+LA  GLPKGG+VGFEL+D +KFGISQF+EQVNYQRAL

		Sbjct: 76  YRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQFSEQVNYQRAL 135

		

		Query: 173 EGELQRTVESINAVRAARVHLAIPKPSVFVRDREAPSASVLVDLYPGRVLDEGQVLAVTR 232

		           EGEL RT+E++  V++ARVHLA+PKPS+FVR++++PSASV V L PGR LDEGQ+ AV  

		Sbjct: 136 EGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALDEGQISAVVH 195

		

		Query: 233 MVSSSVPDMPAKNVTIVDQDGNLLTQT-ASATGLDASQLKYVQQIERNTQKRIDAILAPI 291

		           +VSS+V  +P  NVT+VDQ G+LLTQ+  S   L+ +QLK+   +E   Q+RI+AIL+PI

		Sbjct: 196 LVSSAVAGLPPGNVTLVDQSGHLLTQSNTSGRDLNDAQLKFANDVESRIQRRIEAILSPI 255

		

		Query: 292 FGAGNARSQVSADVDFSKIEQTSESYGPNGTPQQSAIRSQQTSSSTELAQSGASGVPGAL 351

		            G GN  +QV+A +DF+  EQT E Y PNG   ++ +RS+Q + S ++      GVPGAL

		Sbjct: 256 VGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPGGVPGAL 315

		

		Query: 352 SNTPPQPASAPIVA-------------SNGQPAGPAATPVSDRKDSTTNYELDKTVRHVE 398

		           SN P  P  API               ++      +A P S +++ T+NYE+D+T+RH +

		Sbjct: 316 SNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNETSNYEVDRTIRHTK 375

		

		Query: 399 QSMGTIKRLSVAVVVNYQPSTDAKGRVTMQPLAADKLAQVQQLVKDAMGYDEKRGDSVNV 458

		            ++G I+RLSVAVVVNY+   D K      PL AD++ Q++ L ++AMG+ +KRGD++NV

		Sbjct: 376 MNVGDIERLSVAVVVNYKTLADGKP----LPLTADQMKQIEDLTREAMGFSDKRGDTLNV 431

		

		Query: 459 VNSAFSAAADPFANLPWWRQPDMIELGKDIAKWLGVAAAAAALYFMFVRPALRR---AFP 515

		           VNS FSA  +    LP+W+Q   I+      +WL V   A  L+   VRP L R      

		Sbjct: 432 VNSPFSAVDNTGGELPFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVRPQLTRRVEEAK 491

		

		Query: 516 PPAEPAAAAVPALDGPDDVLALDGLPSPDKKQLAEEDEEHPALLAFENERNRYERNLDYA 575

		              E A       +  +  L+ D      +                 N+R   E      

		Sbjct: 492 AAQEQAQVRQETEEAVEVRLSKDEQLQQRR----------------ANQRLGAEVMSQRI 535

		

		Query: 576 RTIARQDPKIVATVVKNWVSDE 597

		           R ++  DP++VA V++ W+S++

		Sbjct: 536 REMSDNDPRVVALVIRQWMSND 557

		

		

		>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE

		           signature.

		          Length = 103

		

		 Score = 61.2 bits (148), Expect = 9e-16

		 Identities = 47/111 (42%), Positives = 62/111 (55%), Gaps = 8/111 (7%)

		

		Query: 3   APVNGIASALQQMQAMAAQAAGGASPATSLAGSGAASAGSFASAMKASLDKISGDQQKAL 62

		           + + GI   + Q+QA A  A    S              SFA  + A+LD+IS  Q  A 

		Sbjct: 1   SAIQGIEGVISQLQATAMSARAQES--------LPQPTISFAGQLHAALDRISDTQTAAR 52

		

		Query: 63  GEAHAFEIGAQNVSLNDVMVDMQKANIGFQFGLQVRNKLVSAYNEIMQMSV 113

		            +A  F +G   V+LNDVM DMQKA++  Q G+QVRNKLV+AY E+M M V

		Sbjct: 53  TQAEKFTLGEPGVALNDVMTDMQKASVSMQMGIQVRNKLVAAYQEVMSMQV 103

		

		

		>TYPE3IMSPROT#Type III secretion system inner membrane S protein

		           family signature.

		          Length = 354

		

		 Score = 62.9 bits (153), Expect = 4e-15

		 Identities = 17/81 (20%), Positives = 32/81 (39%), Gaps = 1/81 (1%)

		

		Query: 10  AVLAYDAKGGDTAPRVVAKGYGLVAERIIERARDAGLYVHTAPEMV-SLLMQVDLDARIP 68

		           A+     +G    P V  K      + + + A + G+ +     +  +L     +D  IP

		Sbjct: 268 AIGILYKRGETPLPLVTFKYTDAQVQTVRKIAEEEGVPILQRIPLARALYWDALVDHYIP 327

		

		Query: 69  PQLYQAVAELLAWLYALERDA 89

		            +  +A AE+L WL     + 

		Sbjct: 328 AEQIEATAEVLRWLERQNIEK 348

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 84.9 bits (210), Expect = 3e-21

		 Identities = 31/114 (27%), Positives = 55/114 (48%), Gaps = 2/114 (1%)

		

		Query: 5   ILLVDDHAIVRQGIRQLLIDRGIAREVKEAECGGDALVIAEKSEFDVILLDISLPDMNGI 64

		           IL+ DD A +R  + Q L   G   +V+               + D+++ D+ +PD N  

		Sbjct: 6   ILVADDDAAIRTVLNQALSRAGY--DVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63

		

		Query: 65  EVLKRLKRRLPSTPVLMFSMYREDQFAVRALKAGAAGYLSKTVNAAQMVSAISQ 118

		           ++L R+K+  P  PVL+ S       A++A + GA  YL K  +  +++  I +

		Sbjct: 64  DLLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGR 117

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 26.8 bits (59), Expect = 0.029

		 Identities = 10/38 (26%), Positives = 17/38 (44%)

		

		Query: 102 NVDPVQEMVNMISASRSYQANVETLNTAKQLMLKTLTI 139

		            V+  +E  N+    + Y AN + L TA  +    + I

		Sbjct: 508 GVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 34.2 bits (78), Expect = 0.001

		 Identities = 17/58 (29%), Positives = 24/58 (41%)

		

		Query: 356 ISAPGSTNHGTLQGSALENSNVDLTSQLVKLITAQRNYQANAQTIKTQQTVDQTLINL 413

		            SA        L       S V+L  +   L   Q+ Y ANAQ ++T   +   LIN+

		Sbjct: 488 SSATQGNVVTQLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545

		

		

		

		 Score = 29.9 bits (67), Expect = 0.018

		 Identities = 11/31 (35%), Positives = 17/31 (54%)

		

		Query: 6  GLSGLAGASSDLDVIGNNIANANTVGFKGST 36

		           +SGL  A + L+   NNI++ N  G+   T

		Sbjct: 7  AMSGLNAAQAALNTASNNISSYNVAGYTRQT 37

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 29.2 bits (65), Expect = 0.019

		 Identities = 9/34 (26%), Positives = 18/34 (52%)

		

		Query: 4  LIYTAMTGATQSLEQQSVVANNLANASTTGFRAQ 37

		          LI  AM+G   +    +  +NN+++ +  G+  Q

		Sbjct: 3  LINNAMSGLNAAQAALNTASNNISSYNVAGYTRQ 36

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score = 42.3 bits (99), Expect = 1e-06

		 Identities = 10/48 (20%), Positives = 23/48 (47%)

		

		Query: 213 TLKQGYVESSNVNVVQELVNMIQTQRAYEINSKAVTTSDQMLQTVTQM 260

		            L       S VN+ +E  N+ + Q+ Y  N++ + T++ +   +  +

		Sbjct: 498 QLSNQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545

		

		

		

		 Score = 40.3 bits (94), Expect = 5e-06

		 Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 14/80 (17%)

		

		Query: 4  SLYIAATGMNAQQAQMDVISNNLANVSTNGFKGSRAVFEDLLYQTVRQPGANSTQQTELP 63

		           +  A +G+NA QA ++  SNN+++ +  G+               RQ    +   + L 

		Sbjct: 3  LINNAMSGLNAAQAALNTASNNISSYNVAGYT--------------RQTTIMAQANSTLG 48

		

		Query: 64 SGLQLGTGVQQVATERLYTQ 83

		          +G  +G GV     +R Y  

		Sbjct: 49 AGGWVGNGVYVSGVQREYDA 68

		

		

		>FLGLRINGFLGH#Flagellar L-ring protein signature.

		          Length = 232

		

		 Score =  205 bits (522), Expect = 1e-68

		 Identities = 128/222 (57%), Positives = 156/222 (70%), Gaps = 7/222 (3%)

		

		Query: 25  AALAAAALALAGCAQIPREPITQQPMSAMPPMPPAMQAPGSIY---NPGYAG-RPLFEDQ 80

		           A  +   L+L GCA IP  P+ Q   SA P   P   A GSI+    P   G +PLFED+

		Sbjct: 10  AISSLLVLSLTGCAWIPSTPLVQGATSAQPVPGPTPVANGSIFQSAQPINYGYQPLFEDR 69

		

		Query: 81  RPRNVGDILTIVIAENINATKSSGANTNRQGNTSFDVPTAG-FLGGLF--NKANLSAQGA 137

		           RPRN+GD LTIV+ EN++A+KSS AN +R G T+F   T   +L GLF   +A++ A G 

		Sbjct: 70  RPRNIGDTLTIVLQENVSASKSSSANASRDGKTNFGFDTVPRYLQGLFGNARADVEASGG 129

		

		Query: 138 NKFAATGGASAANTFNGTITVTVTNVLPNGNLVVSGEKQMLINQGNEFVRFSGIVNPNTI 197

		           N F   GGA+A+NTF+GT+TVTV  VL NGNL V GEKQ+ INQG EF+RFSG+VNP TI

		Sbjct: 130 NTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHVVGEKQIAINQGTEFIRFSGVVNPRTI 189

		

		Query: 198 SGQNSVYSTQVADARIEYSAKGYINEAETMGWLQRFFLNIAP 239

		           SG N+V STQVADARIEY   GYINEA+ MGWLQRFFLN++P

		Sbjct: 190 SGSNTVPSTQVADARIEYVGNGYINEAQNMGWLQRFFLNLSP 231

		

		

		>FLGPRINGFLGI#Flagellar P-ring protein signature.

		          Length = 373

		

		 Score =  371 bits (954), Expect = e-129

		 Identities = 164/392 (41%), Positives = 225/392 (57%), Gaps = 27/392 (6%)

		

		Query: 10  RVVRPLVAARRRAAACCALAACMLALAFAPAAARAERLKDLAQIQGVRDNPLIGYGLVVG 69

		           RV+R + AA   +A           L+  PA A   R+KD+A +Q  RDN LIGYGLVVG

		Sbjct: 2   RVLRIIAAALVFSALPF--------LSTPPAQADTSRIKDIASLQAGRDNQLIGYGLVVG 53

		

		Query: 70  LDGTGDQTMQTPFTTQTLANMLANLGISINNGSANGGGSSAMTNMQLKNVAAVMVTATLP 129

		           L GTGD    +PFT Q++  ML NLGI+   G +N            KN+AAVMVTA LP

		Sbjct: 54  LQGTGDSLRSSPFTEQSMRAMLQNLGITTQGGQSN-----------AKNIAAVMVTANLP 102

		

		Query: 130 PFARPGEAIDVTVSSLGNAKSLRGGTLLLTPLKGADGQVYALAQGNMAVGGAGASANGSR 189

		           PFA PG  +DVTVSSLG+A SLRGG L++T L GADGQ+YA+AQG + V G  A  + + 

		Sbjct: 103 PFASPGSRVDVTVSSLGDATSLRGGNLIMTSLSGADGQIYAVAQGALIVNGFSAQGDAAT 162

		

		Query: 190 VQVNQLAAGRIAGGAIVERSVPNAVAQMNGVLQLQLNDMDYGTAQRIVSAVNS----SFG 245

		           +      + R+  GAI+ER +P+        L LQL + D+ TA R+   VN+     +G

		Sbjct: 163 LTQGVTTSARVPNGAIIERELPSKFKDSV-NLVLQLRNPDFSTAVRVADVVNAFARARYG 221

		

		Query: 246 AGTATALDGRTIQLTAPADSAQQVAFMARLQNLEVSPERAAAKVILNARTGSIVMNQMVT 305

		              A   D + I +  P  +      MA ++NL V  +   AKV++N RTG+IV+   V 

		Sbjct: 222 DPIAEPRDSQEIAVQKPRVA-DLTRLMAEIENLTVETD-TPAKVVINERTGTIVIGADVR 279

		

		Query: 306 LQNCAVAHGNLSVVVNTQPVVSQPGPFSNGQTVVAQQSQIQLKQDNGSLRMVTAGANLAE 365

		           +   AV++G L+V V   P V QP PFS GQT V  Q+ I   Q+   +  +  G +L  

		Sbjct: 280 ISRVAVSYGTLTVQVTESPQVIQPAPFSRGQTAVQPQTDIMAMQEGSKV-AIVEGPDLRT 338

		

		Query: 366 VVKALNSLGATPADLMSILQAMKAAGALRADL 397

		           +V  LNS+G     +++ILQ +K+AGAL+A+L

		Sbjct: 339 LVAGLNSIGLKADGIIAILQGIKSAGALQAEL 370

		

		

		>FLGFLGJ#Flagellar protein FlgJ signature.

		          Length = 313

		

		 Score =  226 bits (578), Expect = 5e-75

		 Identities = 124/297 (41%), Positives = 173/297 (58%), Gaps = 15/297 (5%)

		

		Query: 15  ALDVQGFDALRSKATAAAPREGVKMVAGQFDAMFTQMMLKSMRDATPSDGLLDSSSSKMY 74

		           A D Q  + L++KA    P   ++ VA Q + MF QMMLKSMRDA P DGL  S  +++Y

		Sbjct: 12  AWDAQSLNELKAKA-GEDPAANIRPVARQVEGMFVQMMLKSMRDALPKDGLFSSEHTRLY 70

		

		Query: 75  TSMLDQQLAQQMSS-KGIGVADALTKQLLRNANVAPDAQGEGGLAAMNALAKAYANSNGA 133

		           TSM DQQ+AQQM++ KG+G+A+ + KQ+     +  ++     +         Y N   +

		Sbjct: 71  TSMYDQQIAQQMTAGKGLGLAEMMVKQMTPEQPLPEESTPAAPMKFPLETVVRYQNQALS 130

		

		Query: 134 PGNGALAGTRGYSAASALTPPLKGNGNSAQADAFVEKMALAAQAASAATGIPARFIVGQA 193

		                              P    +     + AF+ +++L AQ AS  +G+P   I+ QA

		Sbjct: 131 ------------QLVQKAVPRNYDDSLPGDSKAFLAQLSLPAQLASQQSGVPHHLILAQA 178

		

		Query: 194 ALESGWGKREIRGANGESSYNVFGIKATKGWTGRTVSAVTTEYVNGKPHRVVAQFRAYDS 253

		           ALESGWG+R+IR  NGE SYN+FG+KA+  W G      TTEY NG+  +V A+FR Y S

		Sbjct: 179 ALESGWGQRQIRRENGEPSYNLFGVKASGNWKGPVTEITTTEYENGEAKKVKAKFRVYSS 238

		

		Query: 254 YEHAMTDYANLLKNNPRYASVLNAGHNAEGFAHGMQKAGYATDPHYAKKLISIMQQI 310

		           Y  A++DY  LL  NPRYA+V  A  +AE  A  +Q AGYATDPHYA+KL +++QQ+

		Sbjct: 239 YLEALSDYVGLLTRNPRYAAVTTAA-SAEQGAQALQDAGYATDPHYARKLTNMIQQM 294

		

		

		>FLGHOOKAP1#Flagellar hook-associated protein signature.

		          Length = 546

		

		 Score =  236 bits (603), Expect = 2e-71

		 Identities = 162/444 (36%), Positives = 253/444 (56%), Gaps = 12/444 (2%)

		

		Query: 50  NTLMNLGVSGLNAALWGLTTTGQNISNAATPGYSVERPVYAEASGQYTSSGYLPQGVSTV 109

		           ++L+N  +SGLNAA   L T   NIS+    GY+ +  + A+A+    + G++  GV   

		Sbjct: 1   SSLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMAQANSTLGAGGWVGNGVYVS 60

		

		Query: 110 TVERQYNQYLSNQLNAAQTQGSSLSTYYTLVAQLNNYVGSPTAGIATAITNYFTGLQTVA 169

		            V+R+Y+ +++NQL AAQTQ S L+  Y  +++++N + + T+ +AT + ++FT LQT+ 

		Sbjct: 61  GVQREYDAFITNQLRAAQTQSSGLTARYEQMSKIDNMLSTSTSSLATQMQDFFTSLQTLV 120

		

		Query: 170 NNAADPSARQTAMSNAQTLASQLVAAGQQYSQLRQSVNSQLTDTVTQINSYTSQIAQLNE 229

		           +NA DP+ARQ  +  ++ L +Q     Q      + VN  +  +V QIN+Y  QIA LN+

		Sbjct: 121 SNAEDPAARQALIGKSEGLVNQFKTTDQYLRDQDKQVNIAIGASVDQINNYAKQIASLND 180

		

		Query: 230 QIA--SASSQGQPPNQLLDQRDLAVSKLSQLAGVQV-VQSNGNYSVFLSGGQPLVVGNAS 286

		           QI+  +    G  PN LLDQRD  VS+L+Q+ GV+V VQ  G Y++ ++ G  LV G+ +

		Sbjct: 181 QISRLTGVGAGASPNNLLDQRDQLVSELNQIVGVEVSVQDGGTYNITMANGYSLVQGSTA 240

		

		Query: 287 YQLATVASPSDPSELTI-VSKGVAGSAQPGPTQYLPDVSLTGGALGGLLAFRSQTLDPAQ 345

		            QLA V S +DPS  T+    G AG+ +      +P+  L  G+LGG+L FRSQ LD  +

		Sbjct: 241 RQLAAVPSSADPSRTTVAYVDGTAGNIE------IPEKLLNTGSLGGILTFRSQDLDQTR 294

		

		Query: 346 AQLGALAVSFASQVNAQNALGVDMSGNPGGSLFAVGAPAVYANQNNTGSATLSVSFVDGT 405

		             LG LA++FA   N Q+  G D +G+ G   FA+G PAV  N  N G   +  +  D +

		Sbjct: 295 NTLGQLALAFAEAFNTQHKAGFDANGDAGEDFFAIGKPAVLQNTKNKGDVAIGATVTDAS 354

		

		Query: 406 QPTTSDYALSYDGAKYTLTDRATGSVVGTATPSSTPPTMTIGGLKLSLSSTPNAGDSFTV 465

		               +DY +S+D  ++ +T R   +   T TP +    +   GL+L+ + TP   DSFT+

		Sbjct: 355 AVLATDYKISFDNNQWQVT-RLASNTTFTVTPDAN-GKVAFDGLELTFTGTPAVNDSFTL 412

		

		Query: 466 LPTRGALDGFSLATANGSAIAAAS 489

		            P   A+    +   + + IA AS

		Sbjct: 413 KPVSDAIVNMDVLITDEAKIAMAS 436

		

		

		

		 Score = 84.6 bits (209), Expect = 4e-19

		 Identities = 46/105 (43%), Positives = 66/105 (62%)

		

		Query: 608 GTNDGRNALALSQLVNSKTMNNGTTTLTGAYAGYVNAIGNAASQLKASSAAQTALVGQIT 667

		           G +D RN  AL  L ++     G  +   AYA  V+ IGN  + LK SSA Q  +V Q++

		Sbjct: 441 GDSDNRNGQALLDLQSNSKTVGGAKSFNDAYASLVSDIGNKTATLKTSSATQGNVVTQLS 500

		

		Query: 668 QAQQSVSGVNQNEEAANLMQYQQLYQANAKVIQTANSVFQTVLGL 712

		             QQS+SGVN +EE  NL ++QQ Y ANA+V+QTAN++F  ++ +

		Sbjct: 501 NQQQSISGVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545

		

		

		>FLAGELLIN#Flagellin signature.

		          Length = 507

		

		 Score = 41.2 bits (96), Expect = 6e-06

		 Identities = 55/369 (14%), Positives = 113/369 (30%), Gaps = 10/369 (2%)

		

		Query: 16  MNDQQAQIAQLYQQVSSGISLTTPADNPLAAAQAVQLSATSATLAQYTQNQTIVQTALQT 75

		           +N  Q+ ++   +++SSG+ + +  D+    A A + ++    L Q ++N     +  QT

		Sbjct: 17  LNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGLTQASRNANDGISIAQT 76

		

		Query: 76  EDTTLTSVNDVLNAAYQALMHAGDGGLSDSDRAALAAQIQGSRDHLLTLANTADGAGNYL 135

		            +  L  +N+ L    +  + A +G  SDSD  ++  +IQ   + +  ++N     G  +

		Sbjct: 77  TEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLEEIDRVSNQTQFNGVKV 136

		

		Query: 136 FAGFQPTTQPFSNKPGGGVTY------AGDYGARAVQIADTRTVSQGDNGANVFMSVPFL 189

		            +             G  +T           G     +   +  + GD  ++      + 

		Sbjct: 137 LSQDNQMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKEATVGDLKSSFKNVTGYD 196

		

		Query: 190 GSLPVPAAGASNTGTGTIGAVSITNPSDPTNTHQFTITFGGTAAAPTYTVTDNSVTPPTT 249

		                      +  +G +   +                   T  A   T  D   T  +T

		Sbjct: 197 TYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTDDAENNTAVDLFKTTKST 256

		

		Query: 250 TAAQAYSSGQGINLGGQTVAVSGKPAVGDTFTVTPAPQAGTDVFATLD----TVIAALKS 305

		                  +  G   GG+         V  T            V  T++    T+  A  +

		Sbjct: 257 AGTAEAKAIAGAIKGGKEGDTFDYKGVTFTIDTKTGNDGNGKVSTTINGEKVTLTVADIT 316

		

		Query: 306 PVGNSQTASTALTNTMATASTKLMNTMTNVLTVQASVGGRLQEVKAMQAVTTTNTLQTTN 365

		               +  A+T  ++     S        +  T   S      E        +  T+    

		Sbjct: 317 AGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGESKITVNGAE 376

		

		Query: 366 SLSNLTDTN 374

		             +N     

		Sbjct: 377 YTANAAGDK 385

		

		

		>ACRIFLAVINRP#Acriflavin resistance protein family signature.

		          Length = 1034

		

		 Score = 28.3 bits (63), Expect = 0.021

		 Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 2/63 (3%)

		

		Query: 110 YVQQGMMPVTAGLVVASAVLISEASNRSALQWGITAAVAAL-AYRTRVHPLWLLAGGALA 168

		           Y   G++  T GL   +A+LI E +     + G     A L A R R+ P+ + +   + 

		Sbjct: 925 YFMVGLL-TTIGLSAKNAILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFIL 983

		

		Query: 169 GLV 171

		           G++

		Sbjct: 984 GVL 986

		

		

		>SSBTLNINHBTR#Streptomyces subtilisin inhibitor signature.

		          Length = 144

		

		 Score = 29.0 bits (64), Expect = 0.021

		 Identities = 21/44 (47%), Positives = 23/44 (52%), Gaps = 3/44 (6%)

		

		Query: 21 VLHPLAGRPLLSHVIDTARALAPSRLVVVIGHGAEQVRAAVAAP 64

		          V  PLAG  L S     A   APS LV+ +GHG     AA AAP

		Sbjct: 18 VCGPLAGASLASPATAPASLYAPSALVLTVGHGES---AATAAP 58

		

		

		>cloacin#Cloacin signature.

		          Length = 551

		

		 Score = 29.3 bits (65), Expect = 0.042

		 Identities = 23/86 (26%), Positives = 27/86 (31%), Gaps = 23/86 (26%)

		

		Query: 424 GRGANAGGGAGDDDRAPRAAHDSG---RGGDVKGGGKGGSKGGVK--------GGGTDDH 472

		           GRG N G            AH +     GG    G  GG+  G          GGG+   

		Sbjct: 6   GRGHNTG------------AHSTSGNINGGPTGLGVGGGASDGSGWSSENNPWGGGSGSG 53

		

		Query: 473 GHWVDKGYKGGEGNAADGAGRRRNGG 498

		            HW      G  G   +  G    GG

		Sbjct: 54  IHWGGGSGHGNGGGNGNSGGGSGTGG 79

		

		

		>HTHTETR#TetR bacterial regulatory protein HTH signature.

		          Length = 215

		

		 Score = 28.1 bits (62), Expect = 0.041

		 Identities = 17/136 (12%), Positives = 34/136 (25%), Gaps = 8/136 (5%)

		

		Query: 2   GTTIRDVAQAANVSIGTVSRALKNQPGLSEATRARIVE-----IAHRMNYDPTQLRPRIK 56

		            T++ ++A+AA V+ G +    K++  L                       P      ++

		Sbjct: 31  STSLGEIAKAAGVTRGAIYWHFKDKSDLFSEIWELSESNIGELELEYQAKFPGDPLSVLR 90

		

		Query: 57  -RLTFLLHRQHNNFATTPFFSHVLHGVEDACRERGIVPSLLTTGPTDDVIRQMRPHAPDA 115

		             L  +L               + H  E    E  +V          +   ++       

		Sbjct: 91  EILIHVLESTVTEERRRLLMEIIFHKCEFV-GEMAVVQQAQRNLCL-ESYDRIEQTLKHC 148

		

		Query: 116 IAVAGFMEPETLEALA 131

		           I              A

		Sbjct: 149 IEAKMLPADLMTRRAA 164

		

		

		>PF03544#Gram-negative bacterial tonB protein

		          Length = 243

		

		 Score = 35.3 bits (81), Expect = 3e-04

		 Identities = 18/99 (18%), Positives = 34/99 (34%), Gaps = 3/99 (3%)

		

		Query: 55  PVQVELLKPQPIERAPAPEKPAADRPRAAPKRAARASAPPAHAPRASAPVSSAAESSTES 114

		           P Q     P+P+       +P  + P+ AP    +    P   P+    V        + 

		Sbjct: 62  PPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVEQPKR---DV 118

		

		Query: 115 SAESPAAASGAEPASAADGQAAGATSGAAAGASGASAPP 153

		                  AS  E  + A   ++ AT+  +   +  ++ P

		Sbjct: 119 KPVESRPASPFENTAPARPTSSTATAATSKPVTSVASGP 157

		

		

		>GPOSANCHOR#Gram-positive coccus surface protein anchor signature.

		          Length = 539

		

		 Score = 30.0 bits (67), Expect = 0.003

		 Identities = 18/64 (28%), Positives = 24/64 (37%), Gaps = 4/64 (6%)

		

		Query: 68  PALETAPLNAPGAAPAAASDSAPGSPAASAPASAVAPASMPASVAAPAAPA----PSSPP 123

		            A E A L A  A+ +   D+ PG+ A      A    + P    AP        PS+  

		Sbjct: 451 QAEELAKLRAGKASDSQTPDAKPGNKAVPGKGQAPQAGTKPNQNKAPMKETKRQLPSTGE 510

		

		Query: 124 AAQP 127

		            A P

		Sbjct: 511 TANP 514

		

		

		>OMPADOMAIN#OMPA domain signature.

		          Length = 346

		

		 Score = 67.6 bits (165), Expect = 2e-14

		 Identities = 27/103 (26%), Positives = 46/103 (44%), Gaps = 2/103 (1%)

		

		Query: 399 QADGGAAANAASGAAAQTQAQAPALPAAIYFETGKSELPADAKDAIAAAAEYVRAH--PD 456

		           Q +       A   A + Q +   L + + F   K+ L  + + A+      +      D

		Sbjct: 193 QGEAAPVVAPAPAPAPEVQTKHFTLKSDVLFNFNKATLKPEGQAALDQLYSQLSNLDPKD 252

		

		Query: 457 AKLALSGFTDKTGSADANAELAKRRAQVVRDALKTAGVAEDRI 499

		             + + G+TD+ GS   N  L++RRAQ V D L + G+  D+I

		Sbjct: 253 GSVVVLGYTDRIGSDAYNQGLSERRAQSVVDYLISKGIPADKI 295

		

		

		>ABC2TRNSPORT#ABC-2 type transport system membrane protein

		           signature.

		          Length = 262

		

		 Score = 31.8 bits (72), Expect = 0.003

		 Identities = 33/155 (21%), Positives = 60/155 (38%), Gaps = 7/155 (4%)

		

		Query: 163 YGEFFATGILIMAFMSIGVVSTA-TTIATLRERNTFKMYVCFPVSRF-VFLASLIVSRVI 220

		           Y  F A G++  + M+     T       +  + T++  +   +    + L  +  +   

		Sbjct: 65  YTAFLAAGMVATSAMTAATFETIYAAFGRMEGQRTWEAMLYTQLRLGDIVLGEMAWAATK 124

		

		Query: 221 LMLAASVTLMLAARYLFQVPLPLWSLRALRAIPVVLLGAAMLLSLGTLLASRARSLAAAE 280

		             LA +   ++AA   +       SL  L A+PV+ L      SLG ++ + A S     

		Sbjct: 125 AALAGAGIGVVAAALGY---TQWLSL--LYALPVIALTGLAFASLGMVVTALAPSYDYFI 179

		

		Query: 281 AWCNLIYFPLLFFSDLTIPLRAAPHWLRVVLLVLP 315

		            +  L+  P+LF S    P+   P   +     LP

		Sbjct: 180 FYQTLVITPILFLSGAVFPVDQLPIVFQTAARFLP 214

		

		

		>PHPHTRNFRASE#Phosphoenolpyruvate-protein phosphotransferase

		           signature.

		          Length = 572

		

		 Score =  513 bits (1323), Expect = e-175

		 Identities = 194/567 (34%), Positives = 312/567 (55%), Gaps = 7/567 (1%)

		

		Query: 303 PNTLAGVCAAPGIAVGTLVRWDDAQIVPPELASGTPAAESRLLDRALAEVDAQLETTVRE 362

		            + + G+ A+ G+A+       +  +   + +    + E   L  AL +   +L     +

		Sbjct: 2   HHKITGIAASSGVAIAKAFIHLEPNVDIEKTSITDVSTEIEKLTAALEKSKEELRAIKDQ 61

		

		Query: 363 ASRRGAIGEAGIFAVHRVLLEDPALVDAARDLI-SLGKSAGYAWRETIRAQTAVLADVDD 421

		                   +A IFA H ++L+DP LVD  +  I +   +A YA +E      ++   +D+

		Sbjct: 62  TEASMGADKAEIFAAHLLVLDDPELVDGIKGKIENEQMNAEYALKEVSDMFVSMFESMDN 121

		

		Query: 422 TLLAERAADLRDIDKRVLRAL-GYASASARELPAEAVLAAEEFTPSDLASLDRERVAALV 480

		             + ERAAD+RD+ KRVL  L G  + S   +  E V+ AE+ TPSD A L+++ V    

		Sbjct: 122 EYMKERAADIRDVSKRVLGHLIGVETGSLATIAEETVIIAEDLTPSDTAQLNKQFVKGFA 181

		

		Query: 481 MARGGATSHAAIIARQLGIPALVAVGDALYAIAQRTQVVVDASAGRLEYAPSALDVERAR 540

		              GG TSH+AI++R L IPA+V   +    I     V+VD   G +   P+  +V+   

		Sbjct: 182 TDIGGRTSHSAIMSRSLEIPAVVGTKEVTEKIQHGDMVIVDGIEGIVIVNPTEEEVKAYE 241

		

		Query: 541 HERQRLAGVREANRRMSGEAALTRDGHRIEVAANIATLDDARVALDNGADAVGLLRTELM 600

		            +R      ++   ++ GE + T+DG  +E+AANI T  D    L NG + +GL RTE +

		Sbjct: 242 EKRAAFEKQKQEWAKLVGEPSTTKDGAHVELAANIGTPKDVDGVLANGGEGIGLYRTEFL 301

		

		Query: 601 FIHRQAAPTASEHQQSYQSIVDALQGRAAIIRTLDVGADKEVDYLTLPPEPNPALGLRGI 660

		           ++ R   PT  E  ++Y+ +V  + G+  +IRTLD+G DKE+ YL LP E NP LG R I

		Sbjct: 302 YMDRDQLPTEEEQFEAYKEVVQRMDGKPVVIRTLDIGGDKELSYLQLPKELNPFLGFRAI 361

		

		Query: 661 RLAQVRPDLLDDQLRGLLAVKPYGSVRILLPMVTDVGELVRIRKRIDD-----FARAMGR 715

		           RL   + D+   QLR LL    YG+++++ PM+  + EL + +  + +      +  +  

		Sbjct: 362 RLCLEKQDIFRTQLRALLRASTYGNLKVMFPMIATLEELRQAKAIMQEEKDKLLSEGVDV 421

		

		Query: 716 AQAVEVGVMIEVPSAALLADQLAQHADFLSIGTNDLTQYTLAMDRCQADLAAQADGLHPA 775

		           + ++EVG+M+E+PS A+ A+  A+  DF SIGTNDL QYT+A DR    ++      HPA

		Sbjct: 422 SDSIEVGIMVEIPSTAVAANLFAKEVDFFSIGTNDLIQYTMAADRMNERVSYLYQPYHPA 481

		

		Query: 776 VLRLVDATVRGAEKHGKWVGVCGALGGDPVAVPVLVGLGVTELSVDPVSVPGIKAQVRRL 835

		           +LRLVD  ++ A   GKWVG+CG + GD VA+P+L+GLG+ E S+   S+   ++Q+ +L

		Sbjct: 482 ILRLVDMVIKAAHSEGKWVGMCGEMAGDEVAIPLLLGLGLDEFSMSATSILPARSQLLKL 541

		

		Query: 836 DYQLCRQRAQDLLALESAQAVRAASRE 862

		             +  +  AQ  L L++A+ V    ++

		Sbjct: 542 SKEELKPFAQKALMLDTAEEVEQLVKK 568

		

		

		>cloacin#Cloacin signature.

		          Length = 551

		

		 Score = 30.8 bits (69), Expect = 0.023

		 Identities = 31/120 (25%), Positives = 48/120 (40%), Gaps = 8/120 (6%)

		

		Query: 176 VVVDGAAPAVLRYDDTDDELRYVETLPADAQNNSPGNAPP--AAAQPVANRALPSVKRQR 233

		           V + G  P+ +  DD +   + V +LPAD    SP ++ P   A   V  R +  VK +R

		Sbjct: 134 VALYGVLPSQIAKDDPNMMSKIVTSLPADDITESPVSSLPLDKATVNVNVRVVDDVKDER 193

		

		Query: 234 ALPGALDLRGVELTLPELPSAQVAALRERAGTLGLDGARVPVWGVVAPRRLPADIAVPGG 293

		                +   GV +++P +     A   ER G         PV  +      PA   +  G

		Sbjct: 194 QNISVVS--GVPMSVPVVD----AKPTERPGVFTASIPGAPVLNISVNNSTPAVQTLSPG 247

		

		

		>TYPE3IMSPROT#Type III secretion system inner membrane S protein

		           family signature.

		          Length = 354

		

		 Score = 34.0 bits (78), Expect = 9e-05

		 Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 1/42 (2%)

		

		Query: 44  KRETKQQFIDAITAGRRRYRQIEIQSQDVL-PVGDATYVVAG 84

		           KRE K+         +RR    EIQS+++   V  ++ VVA 

		Sbjct: 222 KREYKEMEGSPEIKSKRRQFHQEIQSRNMRENVKRSSVVVAN 263

		

		

		>TCRTETA#Tetracycline resistance protein signature.

		          Length = 399

		

		 Score = 84.9 bits (210), Expect = 3e-20

		 Identities = 77/368 (20%), Positives = 143/368 (38%), Gaps = 31/368 (8%)

		

		Query: 7   RATTSLAAIFALRMLGLFMIMPVFSVYAKTIPGGENVVL-VGIALGAYGVTQSLLYIFYG 65

		           R    + +  AL  +G+ +IMPV     + +    +V    GI L  Y + Q       G

		Sbjct: 5   RPLIVILSTVALDAVGIGLIMPVLPGLLRDLVHSNDVTAHYGILLALYALMQFACAPVLG 64

		

		Query: 66  WASDKFGRKPVIAAGLLIFALGSFVAAFAHDITWIIVGRVIQGM-GAVSSAVLAFIADLT 124

		             SD+FGR+PV+   L   A+   + A A  +  + +GR++ G+ GA  +   A+IAD+T

		Sbjct: 65  ALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGITGATGAVAGAYIADIT 124

		

		Query: 125 SEHNRTKAMAMVGGSIGMSFAVAIVGAPI--VFHWVGMSGLFAIVGALSVAAIGVVLWVV 182

		               R +    +    G      + G  +  +         F    AL+        +++

		Sbjct: 125 DGDERARHFGFMSACFGFGM---VAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGCFLL 181

		

		Query: 183 PDAPRPVHVPAPFAEVLHNVELLRLNFGVLVLHATQTALFLVVPRLLVDGGLPVA----- 237

		           P++ +    P    E L+ +   R   G+ V+ A     F+    + + G +P A     

		Sbjct: 182 PESHKGERRPLR-REALNPLASFRWARGMTVVAALMAVFFI----MQLVGQVPAALWVIF 236

		

		Query: 238 ----SHWQ-----VYLPVMGL--AFVMMVPAIIVAEKQGRMKPVLLGGIAAILIGQLLLG 286

		                HW      + L   G+  +    +    VA + G  + ++L G+ A   G +LL 

		Sbjct: 237 GEDRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGERRALML-GMIADGTGYILLA 295

		

		Query: 287 VATHTILIVAAILFVYFLGFNILEASQPSLVSKLAPGSRKGAATGVYNTTQSIGLALGGV 346

		            AT   +     + V      I   +  +++S+     R+G   G      S+   +G +

		Sbjct: 296 FATRGWMAF--PIMVLLASGGIGMPALQAMLSRQVDEERQGQLQGSLAALTSLTSIVGPL 353

		

		Query: 347 VGGVLLKH 354

		           +   +   

		Sbjct: 354 LFTAIYAA 361

		

		

		>cloacin#Cloacin signature.

		          Length = 551

		

		 Score = 42.8 bits (100), Expect = 3e-07

		 Identities = 30/71 (42%), Positives = 35/71 (49%), Gaps = 9/71 (12%)

		

		Query: 109 GGRGGSGGGGGGGDDGGY-------GGGGGRDMERGGGGGRASGGGG--AGARSGGGGGA 159

		           GG  G G GGG  D  G+       GGG G  +  GGG G  +GGG   +G  SG GG  

		Sbjct: 22  GGPTGLGVGGGASDGSGWSSENNPWGGGSGSGIHWGGGSGHGNGGGNGNSGGGSGTGGNL 81

		

		Query: 160 SRPSAPAGGGF 170

		           S  +AP   GF

		Sbjct: 82  SAVAAPVAFGF 92

		

		

		

		 Score = 33.1 bits (75), Expect = 5e-04

		 Identities = 23/61 (37%), Positives = 26/61 (42%), Gaps = 5/61 (8%)

		

		Query: 109 GGRGGSGGGGGGGDDGGYGGGGGRDMERGGGGGRASGGGGAGARSGGGGGASRPSAPAGG 168

		           GG  GSG   GGG   G GGG G       GGG  +GG  +   +    G    S P  G

		Sbjct: 47  GGGSGSGIHWGGGSGHGNGGGNG-----NSGGGSGTGGNLSAVAAPVAFGFPALSTPGAG 101

		

		Query: 169 G 169

		           G

		Sbjct: 102 G 102

		

		

		>BACINVASINC#Salmonella/Shigella invasin protein C signature.

		          Length = 409

		

		 Score = 29.5 bits (65), Expect = 0.049

		 Identities = 15/54 (27%), Positives = 26/54 (48%)

		

		Query: 79  QLRVLPRGITGLLNISKLTPDALAIIRATALALTHLEQAEKKVDDESPLPILDA 132

		           QLR     +    +IS ++  A+A++ A    +  L QA+ K+  +  L   DA

		Sbjct: 105 QLREQQAEVGKFFDISGMSSSAVALLAAANTLMLTLNQADSKLSGKLSLVSFDA 158

		

		

		>SALSPVBPROT#Salmonella virulence plasmid 65kDa B protein signature.

		          Length = 591

		

		 Score = 60.1 bits (145), Expect = 7e-11

		 Identities = 55/208 (26%), Positives = 81/208 (38%), Gaps = 41/208 (19%)

		

		Query: 12  LNLPSGGGSVSGDGGDFSVDLNTGTATLKFDLTVPAGPNGITPPHTLQYSAGAGDGAFGI 71

		             LP GG ++S  G D       G A++   L + A   G  P   L YS+G G+G FG+

		Sbjct: 18  PFLPKGGKALSQSGPD-------GLASITLPLPISAE-RGFAPALALHYSSGGGNGPFGV 69

		

		Query: 72  GWSLGLMTIRRR-----------------------ITPATGAAEPAPPGACSLVGVGELV 108

		           GWS   M+I R                         T +TG A P P    +   V    

		Sbjct: 70  GWSCATMSIARSTSHGVPQYNDSDEFLGPDGEVLVQTLSTGDA-PNPVTCFAYGDVSFPQ 128

		

		Query: 109 DMGARRFRPIVDATGLLIEFTGAS------WTATDKTDTQYTLGTSANARIG---GGALP 159

		                R++P  +++   +E+   +      W   D     + LG +A AR+      +  

		Sbjct: 129 SYTVTRYQPRTESSFYRLEYWVGNSNGDDFWLLHDSNGILHLLGKTAAARLSDPQAASHT 188

		

		Query: 160 AAWLVDRCADSAGNAIAYTWLDVGGARV 187

		           A WLV+     AG  I Y++L   G  V

		Sbjct: 189 AQWLVEESVTPAGEHIYYSYLAENGDNV 216

		

		

		>PF05616#Neisseria meningitidis TspB protein

		          Length = 501

		

		 Score = 34.7 bits (79), Expect = 0.002

		 Identities = 28/80 (35%), Positives = 32/80 (40%), Gaps = 9/80 (11%)

		

		Query: 164 SQGNSAASSVAVTRAKAVDAAVVGAFSPPQMPNPSALPAANP--NAAPSTTPGFHPAPGV 221

		           SQGN+      + R    D     A +P   P P   PA NP  N AP+  PG  P P  

		Sbjct: 299 SQGNTTVDVQVIPRP---DLTPGSAEAPNAQPLPEVSPAENPANNPAPNENPGTRPNPEP 355

		

		Query: 222 MPPRGIDLAPAALTPLKIQP 241

		            P    DL P A      QP

		Sbjct: 356 DP----DLNPDANPDTDGQP 371

		

		

		>YERSSTKINASE#Yersinia serine/threonine protein kinase signature.

		          Length = 732

		

		 Score = 33.9 bits (77), Expect = 0.004

		 Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)

		

		Query: 149 QVLDGLAHAHANGVVHRDLKPQNVMVTTRDGEPCAKILDFGI 190

		           ++LD   H    GVVH D+KP NV+     GEP   ++D G+

		Sbjct: 253 RLLDVTNHLAKAGVVHNDIKPGNVVFDRASGEPV--VIDLGL 292

		

		

		>V8PROTEASE#V8 serine protease family signature.

		          Length = 336

		

		 Score = 30.4 bits (68), Expect = 0.004

		 Identities = 10/30 (33%), Positives = 13/30 (43%)

		

		Query: 144 NREPNAPGEPDELGELGELGEPDLPDEPDD 173

		              P+ P  PD      E   PD P+ PD+

		Sbjct: 292 PDNPDNPNNPDNPNNPDEPNNPDNPNNPDN 321

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 57.5 bits (139), Expect = 9e-11

		 Identities = 34/122 (27%), Positives = 52/122 (42%), Gaps = 15/122 (12%)

		

		Query: 493 RALVVDDNENARETLGAMLATLGIRVDLRGTGKEGLRCFGECQHDIVVLDLELPDISGFE 552

		             LV DD+   R  L   L+  G  V +        R       D+VV D+ +PD + F+

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64

		

		Query: 553 VAEQIRWATSSDAARKTTILGVSAYES------ALLKGDHAIFDAFIPKPIHLDTLGGIV 606

		           +  +I+      A     +L +SA  +      A  KG    +D ++PKP  L  L GI+

		Sbjct: 65  LLPRIK-----KARPDLPVLVMSAQNTFMTAIKASEKG---AYD-YLPKPFDLTELIGII 115

		

		Query: 607 SR 608

		            R

		Sbjct: 116 GR 117

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 37.5 bits (87), Expect = 5e-05

		 Identities = 22/125 (17%), Positives = 47/125 (37%), Gaps = 12/125 (9%)

		

		Query: 188 ARIAVVDDSPDVAETICEYFAEKGVAAIAYYDSVSFRKALEVEDFDGYILDWLLGEETAA 247

		           A I V DD   +   + +  +  G       ++ +  + +   D D  + D ++ +E A 

		Sbjct: 4   ATILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAF 63

		

		Query: 248 PLVRGIRASENADAPIFLLTGKISTGEASEDEIADIVSSFNARCEE---KPVRLPILFAE 304

		            L+  I+     D P+ +++         ++     + +      +   KP  L  L   

		Sbjct: 64  DLLPRIK-KARPDLPVLVMSA--------QNTFMTAIKASEKGAYDYLPKPFDLTELIGI 114

		

		Query: 305 VARAL 309

		           + RAL

		Sbjct: 115 IGRAL 119

		

		

		>TCRTETA#Tetracycline resistance protein signature.

		          Length = 399

		

		 Score = 34.8 bits (80), Expect = 8e-04

		 Identities = 47/264 (17%), Positives = 93/264 (35%), Gaps = 28/264 (10%)

		

		Query: 77  AIVFGRLGDLVGRKHTFLITIVIMGISTFVVGFLPGYASIGIAAPVIFIAMRLLQGLALG 136

		           A V G L D  GR+   L+++    +   ++   P          V++I  R++ G+  G

		Sbjct: 60  APVLGALSDRFGRRPVLLVSLAGAAVDYAIMATAP-------FLWVLYIG-RIVAGIT-G 110

		

		Query: 137 GEYGGAATYVAEHAPSHRRGFYTSWIQTTATLGLFLSLLVILGVRTAIGEEAFGSWGWRV 196

		                A  Y+A+      R  +  ++      G+      + G    +G    G +    

		Sbjct: 111 ATGAVAGAYIADITDGDERARHFGFMSACFGFGM------VAG--PVLGGLM-GGFSPHA 161

		

		Query: 197 PFVASILLLAVSVWIRLQLNESPVFLRIKAEGKTSKAPLTEAFGQWKNLKIVILALIGLT 256

		           PF A+  L  ++      L         +   + +  PL             +  +  L 

		Sbjct: 162 PFFAAAALNGLNFLTGCFLLPESHKGERRPLRREALNPLASF-----RWARGMTVVAALM 216

		

		Query: 257 AGQAVVWYTGQFYA---LFFLTQTLKVDGASANILIALALLIGTPF-FVFFGSLSDRIGR 312

		           A   ++   GQ  A   + F       D  +  I +A   ++ +    +  G ++ R+G 

		Sbjct: 217 AVFFIMQLVGQVPAALWVIFGEDRFHWDATTIGISLAAFGILHSLAQAMITGPVAARLGE 276

		

		Query: 313 KPIILAGCLIAALTYFPLFKALTH 336

		           +  ++ G +IA  T + L    T 

		Sbjct: 277 RRALMLG-MIADGTGYILLAFATR 299

		

		

		

		 Score = 34.8 bits (80), Expect = 8e-04

		 Identities = 17/42 (40%), Positives = 24/42 (57%)

		

		Query: 287 ILIALALLIGTPFFVFFGSLSDRIGRKPIILAGCLIAALTYF 328

		           IL+AL  L+        G+LSDR GR+P++L     AA+ Y 

		Sbjct: 47  ILLALYALMQFACAPVLGALSDRFGRRPVLLVSLAGAAVDYA 88

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score = 47.6 bits (113), Expect = 7e-08

		 Identities = 50/230 (21%), Positives = 85/230 (36%), Gaps = 55/230 (23%)

		

		Query: 305 LAGLRTQAEF-ALRHEVNADVAH----SLEQIA----TSSEQAARLVTQLLALARAENRA 355

		           +A +  +A+  AL+ ++N    H    +L  I         +A  ++T L  L R     

		Sbjct: 154 MASMAQEAQLMALKAQINP---HFMFNALNNIRALILEDPTKAREMLTSLSELMRY---- 206

		

		Query: 356 TGLTFEPVEIASLARQ--AVRDWV---QAALAKQMDLGYEGPDTDAPLRVDGQPVMLREM 410

		             L +      SLA +   V  ++         ++    +       ++V   P ML   

		Sbjct: 207 -SLRYSNARQVSLADELTVVDSYLQLASIQFEDRLQFENQINPAIMDVQV---PPML--- 259

		

		Query: 411 LGNLIDNAIRY----TPAGGRITVRVRAERAAGAVHLEVEDTGPGIPPNERERVVERFYR 466

		           +  L++N I++     P GG+I ++   +   G V LEVE+TG     N +E        

		Sbjct: 260 VQTLVENGIKHGIAQLPQGGKILLKGTKDN--GTVTLEVENTGSLALKNTKE-------- 309

		

		Query: 467 ILGREGDGSGLGLAIVRE-IVAQHGGTLTIDDNVYQTSPRLAGTLVRVSI 515

		                   +G GL  VRE +   +G    I       S +       V I

		Sbjct: 310 -------STGTGLQNVRERLQMLYGTEAQIK-----LSEKQGKVNAMVLI 347

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 99.5 bits (248), Expect = 3e-26

		 Identities = 35/118 (29%), Positives = 64/118 (54%), Gaps = 1/118 (0%)

		

		Query: 2   RILIAEDDSILADGLTRSLRQSGYAVDHVRNGVEADTALSMQTFDLLILDLGLPKMSGLE 61

		            IL+A+DD+ +   L ++L ++GY V    N       ++    DL++ D+ +P  +  +

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64

		

		Query: 62  VLRRLRARNSNLPVLILTAADSVDERVKGLDLGADDYMAKPFALNE-LEARVRALTRR 118

		           +L R++    +LPVL+++A ++    +K  + GA DY+ KPF L E +    RAL   

		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEP 122

		

		

		>BCTERIALGSPH#Bacterial general secretion pathway protein H

		           signature.

		          Length = 170

		

		 Score = 41.1 bits (96), Expect = 4e-07

		 Identities = 29/124 (23%), Positives = 44/124 (35%), Gaps = 23/124 (18%)

		

		Query: 1   MRARGFTLIELMIVLAIVGVVAAYAIPAYQDYLARSRVGEGLALAAS--ARLAVAENAAS 58

		           MR RGFTL+E+M++L ++GV A   + A+      SR        A   A+L   +    

		Sbjct: 1   MRQRGFTLLEMMLILLLMGVSAGMVLLAFPA----SRDDSAAQTLARFEAQLRFVQQRGL 56

		

		Query: 59  GNGFSGGYVSPPATRNVDSIRVDDDSGQIVV-----AFTTRVAAAGANTLVLVPSAPDQA 113

		             G   G            + V  D  Q +V           A  G +    +P    + 

		Sbjct: 57  QTGQFFG------------VSVHPDRWQFLVLEARDGADPAPADDGWSGYRWLPLRAGRV 104

		

		Query: 114 DTPT 117

		            T  

		Sbjct: 105 ATSG 108

		

		

		>PF06580#Sensor histidine kinase

		          Length = 349

		

		 Score = 29.1 bits (65), Expect = 0.048

		 Identities = 17/107 (15%), Positives = 41/107 (38%), Gaps = 14/107 (13%)

		

		Query: 205 AALSALLSVGLALTVSRGPWLQVG-----------VMVVAGFWMAFA-QARRDPA--ASR 250

		           + +  +L+      + R  WL++             +V+   W        R  A   ++

		Sbjct: 49  SLMGLVLTHAYRSFIKRQGWLKLNMGQIILRVLPACVVIGMVWFVANTSIWRLLAFINTK 108

		

		Query: 251 ARAWAIPVVLGVLFVAVNVAVRWANVHYHLGLAESAADRMRDAGQIA 297

		             A+ +P+ L ++F  V V   W+ +++     ++      D  ++A

		Sbjct: 109 PVAFTLPLALSIIFNVVVVTFMWSLLYFGWHFFKNYKQAEIDQWKMA 155

		

		

		>PF03544#Gram-negative bacterial tonB protein

		          Length = 243

		

		 Score = 39.2 bits (91), Expect = 1e-06

		 Identities = 18/97 (18%), Positives = 28/97 (28%), Gaps = 2/97 (2%)

		

		Query: 18  AGCAAFAPRDAAKLECTMPVAAYPENAKPLERRATVLVRAMITASGNAENVTVTTSSRNA 77

		           +            L    P   YP  A+ L     V V+  +T  G  +NV + ++    

		Sbjct: 147 SKPVTSVASGPRALSRNQPQ--YPARAQALRIEGQVKVKFDVTPDGRVDNVQILSAKPAN 204

		

		Query: 78  AADRAAVDAMSRIACSQTPARGGEPYPFTLTRPFVFE 114

		             +R   +AM R          G             E

		Sbjct: 205 MFEREVKNAMRRWRYEPGKPGSGIVVNILFKINGTTE 241

		

		

		>PF06776#Invasion associated locus B

		          Length = 214

		

		 Score = 29.5 bits (66), Expect = 0.020

		 Identities = 11/49 (22%), Positives = 15/49 (30%), Gaps = 2/49 (4%)

		

		Query: 1  MKTGRRHFVRSVASASAALAAAAWSPARAAIDAPASPATALSLTPGRWS 49

		          + + RR   R+ A    A A A            A    A+    G W 

		Sbjct: 38 LASCRRLARRNGARLMLAGAMAI--ALSFGWSDRADAQGAVRSVHGDWQ 84

		

		

		

		 Score = 28.7 bits (64), Expect = 0.039

		 Identities = 7/37 (18%), Positives = 13/37 (35%)

		

		Query: 10 RSVASASAALAAAAWSPARAAIDAPASPATALSLTPG 46

		          +++    A L+    S  R A    A    A ++   

		Sbjct: 25 KAIQMGPAELSPMLASCRRLARRNGARLMLAGAMAIA 61

		

		

		>BLACTAMASEA#Beta-lactamase class A signature.

		          Length = 286

		

		 Score = 29.8 bits (67), Expect = 0.018

		 Identities = 11/35 (31%), Positives = 15/35 (42%)

		

		Query: 57 REDALFRFASVSKPIVSAAAMRAVAAGKLDLDASI 91

		          R D  F   S  K ++  A +  V AG   L+  I

		Sbjct: 57 RADERFPMMSTFKVVLCGAVLARVDAGDEQLERKI 91

		

		

		>TCRTETB#Tetracycline resistance protein TetB signature.

		          Length = 458

		

		 Score = 35.2 bits (81), Expect = 4e-04

		 Identities = 31/155 (20%), Positives = 59/155 (38%), Gaps = 5/155 (3%)

		

		Query: 26  LLALATAGFITIVTEALPAGLLPLMGRDLRVSDALVGQLVTVYAAGSIVAAIPLVAATRG 85

		           L+ L    F +++ E +    LP +  D     A    + T +     +        +  

		Sbjct: 16  LIWLCILSFFSVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLSDQ 75

		

		Query: 86  MRRRPLLLAALAGFVVANTATAASPYYAPVLV-ARCVAGVSAGLLWALLAGYASRMVDAR 144

		           +  + LLL  +      +        +  +L+ AR + G  A    AL+    +R +   

		Sbjct: 76  LGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIPKE 135

		

		Query: 145 QRGRAIAIAMLGAPVAMSVGI-PL-GTALGAALGW 177

		            RG+A    ++G+ VAM  G+ P  G  +   + W

		Sbjct: 136 NRGKAFG--LIGSIVAMGEGVGPAIGGMIAHYIHW 168

		

		

		>TCRTETB#Tetracycline resistance protein TetB signature.

		          Length = 458

		

		 Score =  138 bits (349), Expect = 3e-38

		 Identities = 92/408 (22%), Positives = 171/408 (41%), Gaps = 15/408 (3%)

		

		Query: 17  VMLWLVATGFFMQTLDATIVNTALPSMAASLGESPLRMQSVVIAYSLTMAVMIPVSGWLA 76

		           +++WL    FF   L+  ++N +LP +A    + P     V  A+ LT ++   V G L+

		Sbjct: 15  ILIWLCILSFF-SVLNEMVLNVSLPDIANDFNKPPASTNWVNTAFMLTFSIGTAVYGKLS 73

		

		Query: 77  DTLGTRRVFFSAILIFTLGSLLCANAHT-LPLLVAFRVIQGVGGAMLLPVGRLAVLRTFP 135

		           D LG +R+    I+I   GS++    H+   LL+  R IQG G A    +  + V R  P

		Sbjct: 74  DQLGIKRLLLFGIIINCFGSVIGFVGHSFFSLLIMARFIQGAGAAAFPALVMVVVARYIP 133

		

		Query: 136 AERYLPALSFVAIPGLIGPLIGPTLGGWLVKIASWHWIFLINVPVGIAGCIATFYSMPDS 195

		            E    A   +     +G  +GP +GG +      HW +L+ +P+     +     +   

		Sbjct: 134 KENRGKAFGLIGSIVAMGEGVGPAIGGMIAH--YIHWSYLLLIPMITIITVPFLMKLLKK 191

		

		Query: 196 RNPAAGRFDLKGYLLLTIGMIAISLSLDGLADLGMQHAMVLVLLILSLACFVAYGLYAVR 255

		                G FD+KG +L+++G++   L               L++ +LS   FV +     +

		Sbjct: 192 EVRIKGHFDIKGIILMSVGIVFFMLFTT------SYSISFLIVSVLSFLIFVKHIR---K 242

		

		Query: 256 APQPIFSLELFGIHTFSVGLLGNLFARIGSGAMPYLIPLLLQVSLGYGAFEAG-LMMLPV 314

		              P     L     F +G+L              ++P +++        E G +++ P 

		Sbjct: 243 VTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTAEIGSVIIFPG 302

		

		Query: 315 AAAGMFSKRIITVLITRHGYRKVLLANTIMVGLMMASFALVSDAMPTWLKIAQLALFGGF 374

		             + +    I  +L+ R G   VL      + +   + + + +    ++ I  + + GG 

		Sbjct: 303 TMSVIIFGYIGGILVDRRGPLYVLNIGVTFLSVSFLTASFLLETTSWFMTIIIVFVLGGL 362

		

		Query: 375 NSMQFTAMNTLTLKDLGTGGASSGNSLFSLVQMLSMSLGVTVAGALLA 422

		           +  + T ++T+    L    A +G SL +    LS   G+ + G LL+

		Sbjct: 363 SFTK-TVISTIVSSSLKQQEAGAGMSLLNFTSFLSEGTGIAIVGGLLS 409

		

		

		>PF03544#Gram-negative bacterial tonB protein

		          Length = 243

		

		 Score = 29.2 bits (65), Expect = 0.029

		 Identities = 16/84 (19%), Positives = 27/84 (32%), Gaps = 5/84 (5%)

		

		Query: 154 PAAAPDVSDVSDLPDAPPDAGRAAPPADAAPARHRAPPDPPDPPAPAAELDARRRDAQLD 213

		           P  A        +   P       PP +A     +  P P   P P  +++  +RD +  

		Sbjct: 62  PPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVEQPKRDVKPV 121

		

		Query: 214 EAAMLLRVAAAALAARAPSAEPVH 237

		           E+       A+     AP+     

		Sbjct: 122 ESR-----PASPFENTAPARPTSS 140

		

		

		>RTXTOXINA#Gram-negative bacterial RTX toxin determinant A family

		           signature.

		          Length = 1024

		

		 Score = 28.4 bits (63), Expect = 0.026

		 Identities = 12/52 (23%), Positives = 26/52 (50%)

		

		Query: 11  AAAIAVVTVTAMAAAPVAAAAAATVTAAAMVAATATAVAVATAVVAATAPAM 62

		           A+   + TV A  ++ ++AAA  ++  A + A       + + ++ A+  AM

		Sbjct: 366 ASLTTISTVLASVSSGISAAATTSLVGAPVSALVGAVTGIISGILEASKQAM 417

		

		

		>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family

		           signature.

		          Length = 639

		

		 Score =  629 bits (1623), Expect = 0.0

		 Identities = 172/683 (25%), Positives = 295/683 (43%), Gaps = 75/683 (10%)

		

		Query: 107 RYRNIGISAHIDAGKTTTTERILFYTGVSHKIGEVHDGAATMDWMEQEQERGITITSAAT 166

		           +  NIG+ AH+DAGKTT TE +L+ +G   ++G V  G    D    E++RGITI +  T

		Sbjct: 2   KIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGIT 61

		

		Query: 167 TAFWKGMAGNYPEHRINIIDTPGHVDFTIEVERSMRVLDGACMVYDSVGGVQPQSETVWR 226

		           +  W+         ++NIIDTPGH+DF  EV RS+ VLDGA ++  +  GVQ Q+  ++ 

		Sbjct: 62  SFQWEN-------TKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFH 114

		

		Query: 227 QANKYKVPRIAFVNKMDRVGADFFRVQRQIGERLKGVAVPIQIPVGAEEHFQGVVDLVKM 286

		              K  +P I F+NK+D+ G D   V + I E+L    V  Q           V     M

		Sbjct: 115 ALRKMGIPTIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQ----------KVELYPNM 164

		

		Query: 287 KAIVWDDESQGVKFTYEDIPANLVELAHEWREKMVEAAAEASEELLEKYLTDHNSLTEDE 346

		               + +  Q                         +   E +++LLEKY+    SL   E

		Sbjct: 165 CVTNFTESEQ------------------------WDTVIEGNDDLLEKYM-SGKSLEALE 199

		

		Query: 347 IKAALRKRTIANEIVPMLCGSAFKNKGVQAMLDAVIDYLPSPADVPAILGHDLDDKEAER 406

		           ++     R     + P+  GSA  N G+  +++ + +   S                   

		Sbjct: 200 LEQEESIRFHNCSLFPVYHGSAKNNIGIDNLIEVITNKFYSSTH---------------- 243

		

		Query: 407 HPSDDEPFSALAFKIMTDPFVGQLIFFRVYSGVVESGDTLLNATKDKKERLGRILQMHAN 466

		                       FKI       +L + R+YSGV+   D++  + K+K  ++  +      

		Sbjct: 244 --RGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRISEKEKI-KITEMYTSING 300

		

		Query: 467 ERKEIKEVRAGDIAAAVG--LK-EATTGDTLCDPGKPIILEKMEFPEPVISQAVEPKTKA 523

		           E  +I +  +G+I       LK  +  GDT   P +    E++E P P++   VEP    

		Sbjct: 301 ELCKIDKAYSGEIVILQNEFLKLNSVLGDTKLLPQR----ERIENPLPLLQTTVEPSKPQ 356

		

		Query: 524 DQEKMGLALNRLAQEDPSFRVQTDEESGQTIISGMGELHLEIIVDRMKREFGVEATVGKP 583

		            +E +  AL  ++  DP  R   D  + + I+S +G++ +E+    ++ ++ VE  + +P

		Sbjct: 357 QREMLLDALLEISDSDPLLRYYVDSATHEIILSFLGKVQMEVTCALLQEKYHVEIEIKEP 416

		

		Query: 584 QVAYRETVRTVAEDVEGKFVKQSGGRGQYGHAVIKLEPNP-GKGYEFLDEIKGGVIPREF 642

		            V Y E      +  E     +      +    + + P P G G ++   +  G + + F

		Sbjct: 417 TVIYME---RPLKKAEYTIHIEVPPNPFWASIGLSVSPLPLGSGMQYESSVSLGYLNQSF 473

		

		Query: 643 IPAVNKGIEETLKSGVLAGYPVVDVKVHLTFGSYHDVDSNENAFRMAGSMAFKEAMRRAK 702

		             AV +GI    + G L G+ V D K+   +G Y+   S    FRM   +  ++ +++A 

		Sbjct: 474 QNAVMEGIRYGCEQG-LYGWNVTDCKICFKYGLYYSPVSTPADFRMLAPIVLEQVLKKAG 532

		

		Query: 703 PVLLEPMMAVEVETPEDFMGNVMGDLSSRRGIVQGMEDIAGGGGKLVRAEVPLAEMFGYS 762

		             LLEP ++ ++  P++++     D       +   +        ++  E+P   +  Y 

		Sbjct: 533 TELLEPYLSFKIYAPQEYLSRAYTDAPKYCANIVDTQ--LKNNEVILSGEIPARCIQEYR 590

		

		Query: 763 TSLRSATQGRATYTMEFKHYAET 785

		           + L   T GR+    E K Y  T

		Sbjct: 591 SDLTFFTNGRSVCLTELKGYHVT 613

		

		

		>BACINVASINB#Salmonella/Shigella invasin protein B signature.

		          Length = 593

		

		 Score = 27.4 bits (60), Expect = 0.015

		 Identities = 22/89 (24%), Positives = 33/89 (37%), Gaps = 4/89 (4%)

		

		Query: 23  QTERLALEEQVAQLRNEAQTLHAELEQLRDERNALAAERDTLSAKIDDAQVKLNAILEKL 82

		           Q    + +E   Q+  E QT   E ++  D   A   + DT  +  D A  KL     KL

		Sbjct: 112 QAMIESQKEMGIQVSKEFQTALGEAQEATDLYEASIKKTDTAKSVYDAATKKLTQAQNKL 171

		

		Query: 83  ----PRTKNVPDAENQLDLLAPQANDEGE 107

		               P       AE  ++    +A +  E

		Sbjct: 172 QSLDPADPGYAQAEAAVEQAGKEATEAKE 200

		

		

		>SSBTLNINHBTR#Streptomyces subtilisin inhibitor signature.

		          Length = 144

		

		 Score = 29.8 bits (66), Expect = 0.015

		 Identities = 36/109 (33%), Positives = 49/109 (44%), Gaps = 8/109 (7%)

		

		Query: 8   AALAALSGLPCIALAQGDASASSASFASSVS--YAPAAA--SPADADSALSTAPAAAAAS 63

		           A  AA  GL   A+    A AS AS A++ +  YAP+A   +    +SA + AP  A   

		Sbjct: 5   ARWAATLGLTATAVCGPLAGASLASPATAPASLYAPSALVLTVGHGESAATAAPLRAVTL 64

		

		Query: 64  PASGAARGAEAVSADAASAV--ASGASSASPARAASAAQL--APVVVTA 108

		             +  A G    +A A + +  A G  SA  A  +       APVVVT 

		Sbjct: 65  TCAPTASGTHPAAAAACAELRAAHGDPSALAAEDSVMCTREYAPVVVTV 113

		

		

		>FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature.

		          Length = 296

		

		 Score = 39.9 bits (93), Expect = 7e-06

		 Identities = 37/179 (20%), Positives = 66/179 (36%), Gaps = 9/179 (5%)

		

		Query: 49  ARRVVSLAPHVTELIYAAG----GGAKLVGAVSYSDYPPAAKAIARVGSNKALDLERIAA 104

		             R+V+L     EL+ A G    G A  +    +   PP   ++  VG     +LE +  

		Sbjct: 35  PNRIVALEWLPVELLLALGIVPYGVADTINYRLWVSEPPLPDSVIDVGLRTEPNLELLTE 94

		

		Query: 105 LKPDLIVVWRHGNAEHETERLRALGIPLYFSEPRH-LDDVAASLDKLGLLLGTHEIASAA 163

		           +KP  +V         E     A G    FS+ +  L     SL ++  LL     A   

		Sbjct: 95  MKPSFMVWSAGYGPSPEMLARIAPGRGFNFSDGKQPLAMARKSLTEMADLLNLQSAAETH 154

		

		Query: 164 ADAYRRRIAQLRARYADK--PPVTVFFQAWDKPLITLNGDH-IVSDVIALCGGRNVFAR 219

		              Y   I  ++ R+  +   P+ +     D   + + G + +  +++   G  N +  

		Sbjct: 155 LAQYEDFIRSMKPRFVKRGARPL-LLTTLIDPRHMLVFGPNSLFQEILDEYGIPNAWQG 212

		

		

		>cloacin#Cloacin signature.

		          Length = 551

		

		 Score = 29.7 bits (66), Expect = 0.003

		 Identities = 19/59 (32%), Positives = 23/59 (38%), Gaps = 1/59 (1%)

		

		Query: 49  GTVNVWGGDGWRDRDHWRGGDDRWHGGWRGGGNWRGGNDWHGGRGNGWQGGRGPAGGRN 107

		           G   +  G G  D   W   ++ W GG   G +W GG   HG  G     G G   G N

		Sbjct: 23  GPTGLGVGGGASDGSGWSSENNPWGGGSGSGIHW-GGGSGHGNGGGNGNSGGGSGTGGN 80

		

		

		>PF05860#haemagglutination activity domain.

		          Length = 117

		

		 Score = 67.5 bits (165), Expect = 4e-15

		 Identities = 23/138 (16%), Positives = 51/138 (36%), Gaps = 23/138 (16%)

		

		Query: 82  AQVVG-AGANAPSVIQTQNGLQQVNITKPSGAGVSLNTYSQFDVPKQGVIVNNSPTLTNT 140

		           AQ+         S I T+   + +     +G+ +  + + +F VP  G    N+PT    

		Sbjct: 1   AQITPDTTLPINSNITTEGNTRIIERGTQAGSNLFHS-FQEFSVPTSGTAFFNNPT---- 55

		

		Query: 141 QQAGYINGNPNLGPNGSAKIIINQVNSNNPSQLKGFVEIAGQRAEMIISNPSGLVVDGGG 200

		                           + + II++V   + S + G +      A + + NP+G++     

		Sbjct: 56  ----------------NIQNIISRVTGGSVSNIDGLIRANAT-ANLFLINPNGIIFGQNA 98

		

		Query: 201 FINTSRAILTTGTPSLNA 218

		            ++   + + +    L  

		Sbjct: 99  RLDIGGSFVGSTANRLKF 116

		

		

		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.

		          Length = 1541

		

		 Score = 31.2 bits (70), Expect = 0.017

		 Identities = 13/76 (17%), Positives = 28/76 (36%), Gaps = 2/76 (2%)

		

		Query: 26   PSPADQAAAARANAEQDRQAQQQRDAQQRDAAVRAPSVRSEVPKVEAYPALPAEAPCFRI 85

		            P+PA  +      AE  +Q  +  +  ++DA     + ++     EA   + A      +

		Sbjct: 1028 PAPATPSETTETVAENSKQESKTVEKNEQDAT--ETTAQNREVAKEAKSNVKANTQTNEV 1085

		

		Query: 86   DRFTLDVPNSLPDTTK 101

		             +   +   +    TK

		Sbjct: 1086 AQSGSETKETQTTETK 1101

		

		

		>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature.

		          Length = 1541

		

		 Score = 44.3 bits (104), Expect = 6e-06

		 Identities = 51/355 (14%), Positives = 97/355 (27%), Gaps = 34/355 (9%)

		

		Query: 379  RAQARPAAPDPRFAPRRPATQAAVSAARNRPMTFTPSRQTTGSTPPQPAPRAQTAAPTAE 438

		              + R    D          QA V +  +               PP PA  ++T    AE

		Sbjct: 984  EVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARV-DEAPVPPPAPATPSETTETVAE 1042

		

		Query: 439  TARKRAPANPARAPLYAWHEKPAEHIAPAASVHETLRSIEASAAQWTALAGATSTAATPV 498

		             +++ +             +   E  A    V +  +S   +  Q   +A + S      

		Sbjct: 1043 NSKQESKTVEKN------EQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQ 1096

		

		Query: 499  TARESMAAPAAPSGGAAASAARDGRAPTSAETAAPDGHAPTS----AKTVAPDGHVPTSA 554

		            T      A       A     +    P      +P      +    A+    +       

		Sbjct: 1097 TTETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIK 1156

		

		Query: 555  ETAAPDGHVPTS---AETVAPDGHAPTSAETAAPDGHAP------TSAETAAPNDHASTS 605

		            E  +       +   A+  + +   P +  T    G++       T+  T  P  ++ +S

		Sbjct: 1157 EPQSQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESS 1216

		

		Query: 606  -------AETAAPDGHVPTSAETAAPDGHVSA---TVETSAVAAPAGITQAAPPIAADTC 655

		                     +     H    A T++ D    A      T+  A  +     A  +A +  

		Sbjct: 1217 NKPKNRHRRSVRSVPHNVEPATTSSNDRSTVALCDLTSTNTNAVLSDARAKAQFVALNVG 1276

		

		Query: 656  PAGEHVIAAVEPAGTSDSAA----IGAGAIAHAEAGAAASTAETASPIGVDTHIA 706

		             A    I+ +E                     +      S+  T + +G D  I+

		Sbjct: 1277 KAVSQHISQLEMNNEGQYNVWVSNTSMNKNYSSSQYRRFSSKSTQTQLGWDQTIS 1331

		

		

		

		 Score = 40.8 bits (95), Expect = 7e-05

		 Identities = 52/315 (16%), Positives = 93/315 (29%), Gaps = 51/315 (16%)

		

		Query: 690  ASTAETASPIGVDTHIAPSREADRTA-QTAPTAPSPAEATPHVDAPHALDVAARALVGNT 748

		             +   T + I  D    PS   +      AP  P PA ATP          +        

		Sbjct: 994  TTNITTPNNIQADVPSVPSNNEEIARVDEAPVPP-PAPATP----------SETTET-VA 1041

		

		Query: 749  AATAHGAAAVDGSAQRADTASPAASTSGPPAPVAASAASSDRAAPQPVATAAPASIATSG 808

		              +   +  V+ + Q A   +           VA  A S+ +A  Q        +     

		Sbjct: 1042 ENSKQESKTVEKNEQDATETTAQNRE------VAKEAKSNVKANTQ-------TNEVAQS 1088

		

		Query: 809  ALGTMKASGTAGPQPSTIAAQRASAIDDTGQPPSTGHSTHAAVSNELGRRPHAAPDAVTP 868

		               T +   T   + +T+  +  + ++          ++  +   E         + V P

		Sbjct: 1089 GSETKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQE-------QSETVQP 1141

		

		Query: 869  VLPPAAAAVPTNASAVQRQALASESAEAAQGVARAAAAGDSRETTQVSPAGARPDGAAPS 928

		               PA    PT  +  + Q+  + +A+  Q     ++  +   T               S

		Sbjct: 1142 QAEPARENDPT-VNIKEPQSQTNTTADTEQPAKETSSNVEQPVTES------TTVNTGNS 1194

		

		Query: 929  AAVGNPIAPLPDASAITAHEDAPT--------SAAPDAATPVIAAMDSAMPNAVAPASAI 980

		                NP    P  +  T + ++          S          A   S   + VA     

		Sbjct: 1195 VVE-NPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPHNVEPATTSSNDRSTVALCDLT 1253

		

		Query: 981  A--SNAGMSPASASA 993

		            +  +NA +S A A A

		Sbjct: 1254 STNTNAVLSDARAKA 1268

		

		

		

		 Score = 31.6 bits (71), Expect = 0.039

		 Identities = 40/283 (14%), Positives = 70/283 (24%), Gaps = 41/283 (14%)

		

		Query: 300  PPPASAMPAPTIAAAKPAAATMPPSGLSKAERLAAPTGGAAAPLAAPAAAVTSPAAFAPA 359

		            PPPA A P+ T       +     +     +     T        A  A     A     

		Sbjct: 1026 PPPAPATPSETTETVAENSKQESKTVEKNEQDATETTAQNR--EVAKEAKSNVKAN--TQ 1081

		

		Query: 360  ATGIAKPIGSTAAVAALGKR-----AQARPAAPDPRFAPRRPATQAAVSAARNRPMTFTP 414

		               +A+    T        +      +   A  +       P   + VS  + +  T  P

		Sbjct: 1082 TNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQP 1141

		

		Query: 415  SRQTTGSTPPQPAPRAQTAAPTAETARKRAPANPARAPLYAWHEKPAEHIAPAASVHETL 474

		              +       +  P      P ++T        PA+                     ET 

		Sbjct: 1142 QAEPA----RENDPTVNIKEPQSQTNTTADTEQPAK---------------------ETS 1176

		

		Query: 475  RSIEASAAQWTALAGATSTAATPVTARESMAAPAAPSGGAAASAARDGRA-------PTS 527

		             ++E    + T +    S    P     +   P   S  +     R  R+          

		Sbjct: 1177 SNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPHNVEP 1236

		

		Query: 528  AETAAPDGHAPTSAKTVAPDGHVPTSAETAAPDGHVPTSAETV 570

		            A T++ D          + + +   S   A          + V

		Sbjct: 1237 ATTSSNDRSTVALCDLTSTNTNAVLSDARAKAQFVALNVGKAV 1279

		

		

		>HTHFIS#FIS bacterial regulatory protein HTH signature.

		          Length = 484

		

		 Score = 89.1 bits (221), Expect = 1e-22

		 Identities = 39/157 (24%), Positives = 71/157 (45%), Gaps = 3/157 (1%)

		

		Query: 7   TVVLIEDEKQIRRFVRSALEEEGIAVFDAETGRQGLIEAATRKPDLAIVDLGLPDGDGLD 66

		           T+++ +D+  IR  +  AL   G  V             A    DL + D+ +PD +  D

		Sbjct: 5   TILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAAGDGDLVVTDVVMPDENAFD 64

		

		Query: 67  VIRELR-GWSEMPVIVLSARTHEEEKVAALDAGADDYLTKPFGVSELLARIRAHL--RRR 123

		           ++  ++    ++PV+V+SA+      + A + GA DYL KPF ++EL+  I   L   +R

		Sbjct: 65  LLPRIKKARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLTELIGIIGRALAEPKR 124

		

		Query: 124 NQAGAAESPVVRFGDVSVDLALRRVWRGGEVVHLTPL 160

		             +   +        V    A++ ++R    +  T L

		Sbjct: 125 RPSKLEDDSQDGMPLVGRSAAMQEIYRVLARLMQTDL 161

		

		

		>TCRTETA#Tetracycline resistance protein signature.

		          Length = 399

		

		 Score = 35.2 bits (81), Expect = 5e-04

		 Identities = 30/101 (29%), Positives = 47/101 (46%), Gaps = 9/101 (8%)

		

		Query: 130 ALVIGAYADRAGRKPAMTLTLAMMAVGTGAIAVLPGYETIGVAAPILLVVTRLIQGLAWG 189

		           A V+GA +DR GR+P + ++LA  AV    +A  P           +L + R++ G+  G

		Sbjct: 60  APVLGALSDRFGRRPVLLVSLAGAAVDYAIMATAPFLW--------VLYIGRIVAGIT-G 110

		

		Query: 190 GEAGPATTYILEAAPPERRAAYACWQVATQGFAAVAAGLAG 230

		                A  YI +    + RA +  +  A  GF  VA  + G

		Sbjct: 111 ATGAVAGAYIADITDGDERARHFGFMSACFGFGMVAGPVLG 151

		

		

		>SECGEXPORT#Protein-export SecG membrane protein signature.

		          Length = 110

		

		 Score = 82.7 bits (204), Expect = 8e-24

		 Identities = 46/102 (45%), Positives = 68/102 (66%), Gaps = 1/102 (0%)

		

		Query: 8   IIVVQLLSALGVIGLVLLQHGKGADMGAAFGSGASGSLFGATGSANFLSRTTAVLATIFF 67

		           ++VV L+ A+G++GL++LQ GKGADMGA+FG+GAS +LFG++GS NF++R TA+LAT+FF

		Sbjct: 5   LLVVFLIVAIGLVGLIMLQQGKGADMGASFGAGASATLFGSSGSGNFMTRMTALLATLFF 64

		

		Query: 68  VATLALTYLGSYKSAPSVGVLGAAPAPAASAPAASQTPAASA 109

		           + +L L  + S K+           APA +       PA   

		Sbjct: 65  IISLVLGNINSNKTNKGSEWEN-LSAPAKTEQTQPAAPAKPT 105

		

		

		>OUTRMMBRANEA#Outer membrane protein A signature.

		          Length = 346

		

		 Score = 29.9 bits (67), Expect = 0.013

		 Identities = 16/96 (16%), Positives = 28/96 (29%), Gaps = 10/96 (10%)

		

		Query: 138 YAVILAGWASNSKYAFLGAMR-------AAAQMVSYEISMGFALVLVLMTAGSLNLSEIV 190

		           Y     GW+      F+            A     Y+++      +     G +      

		Sbjct: 29  YTGAKLGWSQYHDTGFINNNGPTHENQLGAGAFGGYQVNPYVGFEMGYDWLGRMPY---K 85

		

		Query: 191 GSQQHGFFAGHGVNFLSWNWLPLLPVFVIYFISGIA 226

		           GS ++G +   GV   +    P+     IY   G  

		Sbjct: 86  GSVENGAYKAQGVQLTAKLGYPITDDLDIYTRLGGM 121

		

		

		>PF01540#Adhesin lipoprotein

		          Length = 475

		

		 Score = 28.9 bits (64), Expect = 0.015

		 Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 3/84 (3%)

		

		Query: 13  RTGRALADLLLKQQDFEVTALVRRPDFA--LPGAKVVVADLTGDFSSAFN-GITHAIYAA 69

		           + G+  AD  LKQ +     L + PD++  L      +A+ T  F  A + G   AI + 

		Sbjct: 35  KNGKEKADAALKQANALAEELKKNPDYSKILETLNKEIAEATKSFKEAGSYGDYPAIISK 94

		

		Query: 70  GSAESEGATEEEQIDRDAVARAAD 93

		            SA  E A  E+Q    A  + AD

		Sbjct: 95  LSAAVENAKSEQQKVDQANKKIAD 118

		

		

		>ACRIFLAVINRP#Acriflavin resistance protein family signature.

		          Length = 1034

		

		 Score =  745 bits (1925), Expect = 0.0

		 Identities = 279/1104 (25%), Positives = 502/1104 (45%), Gaps = 100/1104 (9%)

		

		Query: 3    LARPFITRPVATTLLALGIALAGLFAFVKLPVSPLPQVDFPTILVQASLPGASPETVATS 62

		            +A  FI RP+   +LA+ + +AG  A ++LPV+  P +  P + V A+ PGA  +TV  +

		Sbjct: 1    MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60

		

		Query: 63   VTSPLERHLGSIADVAEMTSMS-SVGNARIVLQFNLNRDIDGAARDVQAAINAARADLPA 121

		            VT  +E+++  I ++  M+S S S G+  I L F    D D A   VQ  +  A   LP 

		Sbjct: 61   VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120

		

		Query: 122  SLKSNPTYRKVNPADSPIMVVSLTS--KTASPAKLYDAASTVLQQSLSQIDGIGQVSLSG 179

		             ++          + S +MV    S     +   + D  ++ ++ +LS+++G+G V L G

		Sbjct: 121  EVQ-QQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFG 179

		

		Query: 180  SANPAVRVELEPQALFHYGIGLEDVRAALASANANSPKGAIEAGP------HRYQLYTND 233

		            +   A+R+ L+   L  Y +   DV   L   N     G +   P          +    

		Sbjct: 180  AQY-AMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQT 238

		

		Query: 234  QATKAAQYKDLVI-AYRNHAAVSLSDVSSVVDSVEDLRNLGLMNGERAVLVILYRSPGAN 292

		            +     ++  + +    + + V L DV+ V    E+   +  +NG+ A  + +  + GAN

		Sbjct: 239  RFKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGAN 298

		

		Query: 293  IIDTIERVKAALPQLTAALPADIQVTPVLDRSRTIRASLADTEHTLIIAVSLVVMVVFLF 352

		             +DT + +KA L +L    P  ++V    D +  ++ S+ +   TL  A+ LV +V++LF

		Sbjct: 299  ALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLF 358

		

		Query: 353  LRNWRATLIPSVAVPISIVGTFGAMYLLGFSLNNLSLMALIVATGFVVDDAIVVLENIAR 412

		            L+N RATLIP++AVP+ ++GTF  +   G+S+N L++  +++A G +VDDAIVV+EN+ R

		Sbjct: 359  LQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVER 418

		

		Query: 413  HI-ENGTPRLQAAFDGAREVGFTVLSISLSLVAVFLPILLMGGIVGRLFREFALTLSLAI 471

		             + E+  P  +A      ++   ++ I++ L AVF+P+   GG  G ++R+F++T+  A+

		Sbjct: 419  VMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAM 478

		

		Query: 472  AVSLVVSLTLTPMMCARLLPEAHAPRDE--GRVARWLERGFEWMQRGYERTLSWALRHPF 529

		            A+S++V+L LTP +CA LL    A   E  G    W    F+     Y  ++   L    

		Sbjct: 479  ALSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTG 538

		

		Query: 530  TILMTLVATIALNIALYIVVPKGFFPQQDTGLMIGGIQADQTTSFQAMKLRFTEMMRIIR 589

		              L+     +A  + L++ +P  F P++D G+ +  IQ     + +  +    ++     

		Sbjct: 539  RYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYL 598

		

		Query: 590  ANP-----NVANVAGFT-GGAQTNSGFMFVALKDKPQR---KLSADQVIQQLRPQLAEVA 640

		             N      +V  V GF+  G   N+G  FV+LK   +R   + SA+ VI + + +L ++ 

		Sbjct: 599  KNEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVIHRAKMELGKIR 658

		

		Query: 641  GARTFLQAAQDIRAGGRQSNAQYQFT-LLGDSTAELYKWGP-ILTEALQKRPELADVNSD 698

		                       I   G  +   ++     G     L +    +L  A Q    L  V  +

		Sbjct: 659  DGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASLVSVRPN 718

		

		Query: 699  QQQGGLEAMVTIDRATAARLGIKPAQIDNTLYDAFGQRQVSTIYNPLNQYHVVMEVAPQY 758

		              +   +  + +D+  A  LG+  + I+ T+  A G   V+   +      + ++   ++

		Sbjct: 719  GLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRVKKLYVQADAKF 778

		

		Query: 759  WQSPEMLKQIYISTSGGSASGVQTTNAAAGTYVATTARASTAGAAAQSAAAIAADSARNQ 818

		               PE + ++Y+ ++ G    V  +      +V  + R                   R  

		Sbjct: 779  RMLPEDVDKLYVRSANGEM--VPFSAFTTSHWVYGSPRLE-----------------RYN 819

		

		Query: 819  ALNSIASSG--KSSASSGAAVSTSKSTMVPLSAIASFGPSTTPLAVNHQGLFVATTISFN 876

		             L S+   G      SSG A++  ++                                  

		Sbjct: 820  GLPSMEIQGEAAPGTSSGDAMALMENLAS------------------------------K 849

		

		Query: 877  LPPGVSLSKATQVIYQTMAEVGVPPTIQGSFQGTAQAFQESLKDQPILILAALAAVYIVL 936

		            LP G+                       G       +        P L+  +   V++ L

		Sbjct: 850  LPAGIGY------------------DWTGMSYQERLSG----NQAPALVAISFVVVFLCL 887

		

		Query: 937  GILYESYIHPVTILSTLPSAGVGALLGLLLFKTEFSIIALIGVILLIGIVKKNAIMMVDF 996

		              LYES+  PV+++  +P   VG LL   LF  +  +  ++G++  IG+  KNAI++V+F

		Sbjct: 888  AALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEF 947

		

		Query: 997  AIDA-SRQGKSSFDAIHEACLLRFRPIMMTTMAALLGALPLAFGRGDGAEMRAPLGIAIA 1055

		            A D   ++GK   +A   A  +R RPI+MT++A +LG LPLA   G G+  +  +GI + 

		Sbjct: 948  AKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVM 1007

		

		Query: 1056 GGLIVSQMLTLYTTPVVYLYMDRL 1079

		            GG++ + +L ++  PV ++ + R 

		Sbjct: 1008 GGMVSATLLAIFFVPVFFVVIRRC 1031

		

		

		

		 Score = 96.1 bits (239), Expect = 4e-22

		 Identities = 83/503 (16%), Positives = 167/503 (33%), Gaps = 25/503 (4%)

		

		Query: 2    NLARPFITRPVATTLLALGIALAGLFAFVKLPVSPLPQVDFPTILVQASLP-GASPETVA 60

		            N     +       L+   I    +  F++LP S LP+ D    L    LP GA+ E   

		Sbjct: 528  NSVGKILGSTGRYLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQ 587

		

		Query: 61   TSVTSPLERHLGSIAD----VAEMTSMSSVGNAR----IVLQFNLNRDIDGAARDVQAAI 112

		              +    + +L +       V  +   S  G A+      +      + +G     +A I

		Sbjct: 588  KVLDQVTDYYLKNEKANVESVFTVNGFSFSGQAQNAGMAFVSLKPWEERNGDENSAEAVI 647

		

		Query: 113  NAARADLPASLKSNPTYRKVNPADSPIMVVSLTSKT-----ASPAKLYDAASTVLQQSLS 167

		            + A+ +L            +              +           L  A + +L  +  

		Sbjct: 648  HRAKMELGKIRDGFVIPFNMPAIVELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQ 707

		

		Query: 168  QIDGIGQVSLSGSAN-PAVRVELEPQALFHYGIGLEDVRAALASANANSPKGAIEAGPHR 226

		                +  V  +G  +    ++E++ +     G+ L D+   +++A   +           

		Sbjct: 708  HPASLVSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGGTYVNDFIDRGRV 767

		

		Query: 227  YQLYT---NDQATKAAQYKDLVIAYRNHAAVSLSDVSSVVDSVEDLRNLGLMNGERAVLV 283

		             +LY                L +   N   V  S  ++    V     L   NG  ++ +

		Sbjct: 768  KKLYVQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHW-VYGSPRLERYNGLPSMEI 826

		

		Query: 284  ILYRSPGANIIDTIERVKAALPQLTAALPADIQVTPVLDRSRTIRASLADTEHTLIIAVS 343

		                +PG +  D      A +  L + LPA I        S   R S       + I+  

		Sbjct: 827  QGEAAPGTSSGD----AMALMENLASKLPAGIGYD-WTGMSYQERLSGNQAPALVAISFV 881

		

		Query: 344  LVVMVVFLFLRNWRATLIPSVAVPISIVGTFGAMYLLGFSLNNLSLMALIVATGFVVDDA 403

		            +V + +     +W   +   + VP+ IVG   A  L     +   ++ L+   G    +A

		Sbjct: 882  VVFLCLAALYESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNA 941

		

		Query: 404  IVVLENI-ARHIENGTPRLQAAFDGAREVGFTVLSISLSLVAVFLPILLMGGIVGRLFRE 462

		            I+++E       + G   ++A     R     +L  SL+ +   LP+ +  G        

		Sbjct: 942  ILIVEFAKDLMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNA 1001

		

		Query: 463  FALTLSLAIAVSLVVSLTLTPMM 485

		              + +   +  + ++++   P+ 

		Sbjct: 1002 VGIGVMGGMVSATLLAIFFVPVF 1024

		

		

		

		 Score = 59.9 bits (145), Expect = 5e-11

		 Identities = 37/225 (16%), Positives = 84/225 (37%), Gaps = 4/225 (1%)

		

		Query: 870  ATTISFNLPPGVSLSKATQVIYQTMAEV--GVPPTIQGS-FQGTAQAFQESLKDQPILIL 926

		            A  +   L  G +     + I   +AE+    P  ++      T    Q S+ +    + 

		Sbjct: 286  AAGLGIKLATGANALDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLF 345

		

		Query: 927  AALAAVYIVLGILYESYIHPVTILSTLPSAGVGALLGLLLFKTEFSIIALIGVILLIGIV 986

		             A+  V++V+ +  ++    +     +P   +G    L  F    + + + G++L IG++

		Sbjct: 346  EAIMLVFLVMYLFLQNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLL 405

		

		Query: 987  KKNAIMMVDFAIDASRQGKSSF-DAIHEACLLRFRPIMMTTMAALLGALPLAFGRGDGAE 1045

		              +AI++V+       + K    +A  ++       ++   M      +P+AF  G    

		Sbjct: 406  VDDAIVVVENVERVMMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGA 465

		

		Query: 1046 MRAPLGIAIAGGLIVSQMLTLYTTPVVYLYMDRLRVWAEKRRDRR 1090

		            +     I I   + +S ++ L  TP +   + +            

		Sbjct: 466  IYRQFSITIVSAMALSVLVALILTPALCATLLKPVSAEHHENKGG 510