:: PredictBias ::

A) Input parameters
Genome	F16.gbk	Threshold dinucleotide bias	2
Threshold codon bias	4	Threshold %GC bias	3
E-value (RPSBlast)	0.05	Genome (non-pathogenic)

B) Compare a potential GI or PAI in related non-pathogenic sp. (phylogenetic tree)
Potential GI or PAI start end
Select Organism

C) Potential GIs and PAIs in AP011940 (download)

S.No

Start

End

Bias

Virulence

Insertion elements

Prediction

HPF16_0060

HPF16_0091

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0060	2	11	0.923343	proline permease
HPF16_0061	3	12	0.210885	proline/pyrroline-5-carboxylate dehydrogenase
HPF16_0062	7	19	-1.608064	hypothetical protein
HPF16_0063	6	18	-1.846037	hypothetical protein
HPF16_0064	5	17	-0.889033	hypothetical protein
HPF16_0065	4	16	-0.799079	hypothetical protein
HPF16_0066	4	15	-0.446736	hypothetical protein
HPF16_0067	2	13	-0.618193	hypothetical protein
HPF16_0068	2	13	-0.870865	hypothetical protein
HPF16_0069	2	14	-0.905536	hypothetical protein
HPF16_0070	2	14	-1.242798	hypothetical protein
HPF16_0071	3	14	-1.462289	hypothetical protein
HPF16_0072	3	11	-0.572690	hypothetical protein
HPF16_0073	3	15	-0.674686	hypothetical protein
HPF16_0074	4	14	0.506446	hypothetical protein
HPF16_0075	1	15	1.615362	hypothetical protein
HPF16_0076	1	14	1.627366	hypothetical protein
HPF16_0077	1	14	1.759667	hypothetical protein
HPF16_0078	1	16	2.278360	hypothetical protein
HPF16_0079	5	23	3.548488	urease accessory protein
HPF16_0080	4	23	3.379520	urease accessory protein
HPF16_0081	4	21	2.500879	urease accessory protein
HPF16_0082	2	18	2.457823	urease accessory protein UreE
HPF16_0083	2	19	2.458286	urea transporter
HPF16_0084	0	17	2.301109	urease subunit alpha
HPF16_0085	-1	10	1.472069	bifunctional urease subunit gamma/beta
HPF16_0086	0	11	1.910533	*lipoprotein signal peptidase
HPF16_0087	0	12	2.521515	urease protein
HPF16_0088	3	13	2.575771	30S ribosomal protein S20
HPF16_0089	2	14	2.426454	peptide chain release factor 1
HPF16_0090	3	14	1.261334	possible part of outer membrane protein HorA
HPF16_0091	2	13	1.169062	possible part of outer membrane protein HorA

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0084	UREASE	1047	0.0	Urea amidohydrolase (urease) protein signature.
>UREASE#Urea amidohydrolase (urease) protein signature. Length = 570 Score = 1047 bits (2708), Expect = 0.0 Identities = 355/569 (62%), Positives = 444/569 (78%), Gaps = 4/569 (0%) Query: 3 KISRKEYASMYGPTTGDKVRLGDTDLIAEVEHDYTIYGEELKFGGGKTLREGMSQSN-NP 61 ++SR YA+M+GPT GDKVRL DT+L EVE D+T +GEE+KFGGGK +R+GM QS Sbjct: 4 RMSRAAYANMFGPTVGDKVRLADTELFIEVEKDFTTHGEEVKFGGGKVIRDGMGQSQVTR 63 Query: 62 SKEELDLIITNALIVDYTGIYKADIGIKDGKIAGIGKGGNKDMQDGVKNNLSVGPATEAL 121 +D +ITNALI+D+ GI KADIG+KDG+IA IGK GN DMQ GV + VGP TE + Sbjct: 64 EGGAVDTVITNALILDHWGIVKADIGLKDGRIAAIGKAGNPDMQPGV--TIIVGPGTEVI 121 Query: 122 AGEGLIVTAGGIDTHIHFISPQQIPTAFASGVTTMIGGGTGPADGTNATTITPGRRNLKW 181 AGEG IVTAGG+D+HIHFI PQQI A SG+T M+GGGTGPA GT ATT TPG ++ Sbjct: 122 AGEGKIVTAGGMDSHIHFICPQQIEEALMSGLTCMLGGGTGPAHGTLATTCTPGPWHIAR 181 Query: 182 MLRAAEEYSMNLGFLAKGNTSNDASLADQIEAGAIGFKIHEDWGTTPSAINHALDVADKY 241 M+ AA+ + MNL F KGN S +L + + GA K+HEDWGTTP+AI+ L VAD+Y Sbjct: 182 MIEAADAFPMNLAFAGKGNASLPGALVEMVLGGATSLKLHEDWGTTPAAIDCCLSVADEY 241 Query: 242 DVQVAIHTDTLNEAGCVEDTMAAIAGRTMHTFHTEGAGGGHAPDIIKVAGEHNILPASTN 301 DVQV IHTDTLNE+G VEDT+AAI GRT+H +HTEGAGGGHAPDII++ G+ N++P+STN Sbjct: 242 DVQVMIHTDTLNESGFVEDTIAAIKGRTIHAYHTEGAGGGHAPDIIRICGQPNVIPSSTN 301 Query: 302 PTIPFTVNTEAEHMDMLMVCHHLDKSIKEDVQFADSRIRPQTIAAEDTLHDMGIFSITSS 361 PT P+TVNT AEH+DMLMVCHHL +I ED+ FA+SRIR +TIAAED LHD+G FSI SS Sbjct: 302 PTRPYTVNTLAEHLDMLMVCHHLSPTIPEDIAFAESRIRKETIAAEDILHDIGAFSIISS 361 Query: 362 DSQAMGRVGEVITRTWQTADKNKKEFGRLKEEKGDNDNFRIKRYLSKYTINPAIAHGISE 421 DSQAMGRVGEV RTWQTADK K++ GRLKEE GDNDNFR+KRY++KYTINPAIAHG+S Sbjct: 362 DSQAMGRVGEVAIRTWQTADKMKRQRGRLKEETGDNDNFRVKRYIAKYTINPAIAHGLSH 421 Query: 422 YVGSVEVGKVADLVLWSPAFFGVKPNMIIKGGFIALSQMGDANASIPTPQPVYYREMFAH 481 +GS+EVGK ADLVLW+PAFFGVKP+M++ GG IA + MGD NASIPTPQPV+YR MF Sbjct: 422 EIGSLEVGKRADLVLWNPAFFGVKPDMVLLGGTIAAAPMGDPNASIPTPQPVHYRPMFGA 481 Query: 482 HGKAKYDANITFVSQAAYDKGIKEELGLERQVLPVKNCR-NITKKDMQFNDTTAHIEVNP 540 +G+++ ++++TFVSQA+ D G+ LG+ ++++ V+N R I K M N T HIEV+P Sbjct: 482 YGRSRTNSSVTFVSQASLDAGLAGRLGVAKELVAVQNTRGGIGKASMIHNSLTPHIEVDP 541 Query: 541 ETYHVFVDGKEVTSKPATKVSLAQLFSIF 569 ETY V DG+ +T +PAT + +AQ + +F Sbjct: 542 ETYEVRADGELLTCEPATVLPMAQRYFLF 570
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0091	FLAGELLIN	31	0.007	Flagellin signature.
>FLAGELLIN#Flagellin signature. Length = 507 Score = 31.2 bits (70), Expect = 0.007 Identities = 12/131 (9%), Positives = 38/131 (29%), Gaps = 1/131 (0%) Query: 1 METDLQDQKKTPSSSGNSVASQLVKDTTTVNNFKSVSVSGMNTTLSGVETMFSQTTTIST 60 T + ++ S T+ VN + N + + + + Sbjct: 309 TLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGES 368 Query: 61 LLNSSTDLSSVISNAQELSSAFGALESTQNTLKGYLDSSSATIGQLTNGSNAVVGVLDKA 120 + + + + +++ A + + + + + +D A Sbjct: 369 KITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINEDAAAAKK-STANPLASIDSA 427 Query: 121 INQVDTALADL 131 +++VD + L Sbjct: 428 LSKVDAVRSSL 438

HPF16_0114

HPF16_0119

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0114	2	11	1.381895	hypothetical protein
HPF16_0115	2	12	2.746339	hypothetical protein
HPF16_0116	2	13	3.090837	methyl-accepting chemotaxis protein
HPF16_0117	0	11	3.532207	2',3'-cyclic-nucleotide 2'-phosphodiesterase
HPF16_0118	-2	11	4.560642	S-ribosylhomocysteinase
HPF16_0119	-2	12	3.734094	cystathionine gamma-synthase/cystathionine

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0118	LUXSPROTEIN	222	8e-78	Bacterial autoinducer-2 (AI-2) production protein Lu...
>LUXSPROTEIN#Bacterial autoinducer-2 (AI-2) production protein LuxS signature. Length = 171 Score = 222 bits (568), Expect = 8e-78 Identities = 56/145 (38%), Positives = 89/145 (61%), Gaps = 7/145 (4%) Query: 8 VESFNLDHTKVKAPYVRIADRKKGVNGDLIVKYDVRLKQPNKDHMDMPSLHSLEHLVAEI 67 ++SF +DHT++ AP VR+A + GD I +D+R PNKD + +H+LEHL A Sbjct: 3 LDSFTVDHTRMNAPAVRVAKTMQTPKGDTITVFDLRFTAPNKDILSEKGIHTLEHLYAGF 62 Query: 68 IRNHA----SYVVDWSPMGCQTGFYLTVLNHDNYTEILEVLEKTMQDVLKA---TEVPAS 120 +RNH ++D SPMGC+TGFY++++ + ++ + M+DVLK ++P Sbjct: 63 MRNHLNGDSVEIIDISPMGCRTGFYMSLIGTPSEQQVADAWIAAMEDVLKVENQNKIPEL 122 Query: 121 NEKQCGWAANHTLEGAQNLARAFLD 145 NE QCG AA H+L+ A+ +A+ L+ Sbjct: 123 NEYQCGTAAMHSLDEAKQIAKNILE 147

HPF16_0304

HPF16_0344

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0304	2	15	3.393787	50S ribosomal protein L21
HPF16_0305	2	15	3.538363	50S ribosomal protein L27
HPF16_0306	1	14	3.692191	periplasmic dipeptide-binding protein
HPF16_0307	1	14	4.039275	dipeptide permease protein
HPF16_0308	-1	12	3.363112	dipeptide permease protein
HPF16_0309	-2	12	3.085224	dipeptide ABC transporter, ATP-binding protein
HPF16_0310	-2	13	2.855186	dipeptide transport system atp-binding protein
HPF16_0311	-1	12	2.253775	GTPase ObgE
HPF16_0312	-1	11	1.610460	hypothetical protein
HPF16_0313	1	16	2.308824	hypothetical protein
HPF16_0314	0	15	1.228631	glutamate-1-semialdehyde aminotransferase
HPF16_0315	1	15	-1.047498	hypothetical protein
HPF16_0316	1	15	-0.680424	hypothetical protein
HPF16_0317	3	15	-0.272007	hypothetical protein
HPF16_0318	1	13	-0.758644	hypothetical protein
HPF16_0319	0	14	-1.839930	Type II restriction enzyme
HPF16_0320	2	11	-0.496054	DNA methylase
HPF16_0321	1	12	-0.009571	hypothetical protein
HPF16_0322	1	14	-0.231631	conserved hypothetical ATP-binding protein
HPF16_0323	0	15	-0.676463	nitrite extrusion protein
HPF16_0324	1	15	-1.213994	nitrite extrusion protein
HPF16_0325	2	15	-1.423545	hypothetical protein
HPF16_0326	0	15	-1.623335	arginyl-tRNA synthetase
HPF16_0327	1	13	-1.078589	sec-independent protein translocase protein
HPF16_0328	0	13	-1.332752	guanylate kinase
HPF16_0329	1	11	-1.708266	poly E-rich protein
HPF16_0330	-1	13	-2.311079	membrane bound endonuclease
HPF16_0331	1	12	-2.319447	outer membrane protein HorC
HPF16_0332	2	13	-2.446067	flagellar basal body L-ring protein
HPF16_0333	3	12	-2.206324	CMP-N-acetylneuraminic acid synthetase
HPF16_0334	2	11	-1.434851	CMP-N-acetylneuraminic acid synthetase
HPF16_0335	1	11	-1.006610	flagellar biosynthesis protein G
HPF16_0336	1	14	0.367472	tetraacyldisaccharide 4'-kinase
HPF16_0337	0	15	1.412401	NH(3)-dependent NAD+ synthetase
HPF16_0338	0	16	1.616121	*ketol-acid reductoisomerase
HPF16_0339	-1	16	1.293116	cell division inhibitor
HPF16_0340	2	18	1.803306	cell division topological specificity factor
HPF16_0341	2	19	2.202534	hypothetical protein
HPF16_0342	4	22	1.977882	Holliday junction resolvase-like protein
HPF16_0343	4	23	0.637704	cysteine-rich protein C
HPF16_0344	5	18	-0.854210	hypothetical protein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0323	TCRTETA	44	3e-07	Tetracycline resistance protein signature.
>TCRTETA#Tetracycline resistance protein signature. Length = 399 Score = 44.4 bits (105), Expect = 3e-07 Identities = 44/227 (19%), Positives = 88/227 (38%), Gaps = 13/227 (5%) Query: 9 ISFGLIALSFLICYFDSIPFFW-LWIWRFIAGVASSALMILVAPLSLPYVKENKKALVGG 67 + L + + PF W L+I R +AG+ + A + +++A G Sbjct: 76 LLVSLAGAAVDYAIMATAPFLWVLYIGRIVAGI-TGATGAVAGAYIADITDGDERARHFG 134 Query: 68 FIFSAVGIGSVFSGFVLPWISSYNIKWAWIFLGSSCLIAFILSLIGLKN-HSLKKKSVKK 126 F+ + G G V + + ++ + + + F+ L H +++ +++ Sbjct: 135 FMSACFGFGMVAGPVLGGLMGGFSPHAPFFAAAALNGLNFLTGCFLLPESHKGERRPLRR 194 Query: 127 EESAFKIPFHL--------WLLLISCALNAIGFLPHTLFWVDYLIRHLNISPTTAGTSWA 178 E F L+ + + +G +P L WV + + TT G S A Sbjct: 195 EALNPLASFRWARGMTVVAALMAVFFIMQLVGQVPAAL-WVIFGEDRFHWDATTIGISLA 253 Query: 179 LFG-FGATLGSLISGPMAQKLGAKNANIFILILKSIACFLPIFFHQI 224 FG + ++I+GP+A +LG + A + +I L F + Sbjct: 254 AFGILHSLAQAMITGPVAARLGERRALMLGMIADGTGYILLAFATRG 300
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0328	PF05272	29	0.011	Virulence-associated E family protein
>PF05272#Virulence-associated E family protein Length = 892 Score = 29.3 bits (65), Expect = 0.011 Identities = 9/18 (50%), Positives = 11/18 (61%) Query: 8 LILSGPSGAGKSTLTKYL 25 ++L G G GKSTL L Sbjct: 599 VVLEGTGGIGKSTLINTL 616
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0329	IGASERPTASE	66	1e-13	IgA-specific serine endopeptidase (S6) signature.
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 66.2 bits (161), Expect = 1e-13 Identities = 51/256 (19%), Positives = 84/256 (32%), Gaps = 9/256 (3%) Query: 99 KPFLPTEVLKVLQKKLGSNMSELEPSQNLDPTQEVLEANWDELENLGDLEALVQEEPNNE 158 ++ + SN E+ P A E E QE E Sbjct: 995 TNITTPNNIQADVPSVPSNNEEIARVDEA-PVPPPAPATPSETTETVA-ENSKQESKTVE 1052 Query: 159 EQLLPTLNAQEEKEEVKEEVKEEVKETPQEEEKPKDDEIQEGETQKNEEVSKELETQEEL 218 + + EV +E K VK Q E + + +KE T E+ Sbjct: 1053 KNEQDATETTAQNREVAKEAKSNVKANTQTNEV---AQSGSETKETQTTETKETATVEKE 1109 Query: 219 EIPKEETQENKEEKQEKTQDSPSTQELEAMQELVKEIQENSNGQEDKKETQESAETPQEL 278 E K ET++ +E + +Q SP ++ E +Q + +EN + KE Q T + Sbjct: 1110 EKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPAREND-PTVNIKEPQSQTNTTADT 1168 Query: 279 EKQELEIPKETPQELKIPQ-EKEIPQEKETQKLETPQDKETQENTETPQKLETQEDHYES 337 E+ E Q + E + TP + N+E+ K + + H S Sbjct: 1169 EQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNR--HRRS 1226 Query: 338 IEDIPELVMAQAMGEE 353 + +P V Sbjct: 1227 VRSVPHNVEPATTSSN 1242 Score = 41.2 bits (96), Expect = 7e-06 Identities = 31/189 (16%), Positives = 60/189 (31%), Gaps = 9/189 (4%) Query: 127 LDPTQEVLEANWDELENLGDLEALVQEEPNNEEQLLPT-LNAQEEKEEVKEEVKEEVKET 185 + EA + N E E Q T A EKEE + E+ +E Sbjct: 1063 AQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEV 1122 Query: 186 PQEEEKPKDDEIQEGETQKNEEVSKELETQEELEIPKEETQENKEEKQEKTQDSPSTQEL 245 P+ + + Q Q E ++E + ++ P+ +T + +Q + S + + Sbjct: 1123 PKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVE-- 1180 Query: 246 EAMQELVKEIQENSNGQEDKKETQESAETPQELEKQELEIPKETPQELKIPQEKEIPQEK 305 Q + + N+ + + T Q E P+ + +P Sbjct: 1181 ---QPVTESTTVNTGNSVVENPENTTPATTQPTVNSESS---NKPKNRHRRSVRSVPHNV 1234 Query: 306 ETQKLETPQ 314 E + Sbjct: 1235 EPATTSSND 1243
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0332	FLGLRINGFLGH	191	2e-63	Flagellar L-ring protein signature.
>FLGLRINGFLGH#Flagellar L-ring protein signature. Length = 232 Score = 191 bits (487), Expect = 2e-63 Identities = 52/172 (30%), Positives = 85/172 (49%), Gaps = 18/172 (10%) Query: 56 GERPLFADRRAMKPNDLITIIVSEKASANYSSS----KDYKSASGGNSTPPRLTYNGLDE 111 G +PLF DRR D +TI++ E SA+ SSS +D K+ G ++ P L GL Sbjct: 61 GYQPLFEDRRPRNIGDTLTIVLQENVSASKSSSANASRDGKTNFGFDTVPRYL--QGLFG 118 Query: 112 RKKQEVQYLDDKNNYNFTKSSNNTNFKGGGSQKKSEDLEIVLSARIIKVLENGNYFIYGN 171 + +V+ S F G G S L+ + +VL NGN + G Sbjct: 119 NARADVEA------------SGGNTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHVVGE 166 Query: 172 KEVLVDGEKQILKVSGVIRPYDIERNNTIQSKFLADAKIEYTNLGHLSDSNK 223 K++ ++ + ++ SGV+ P I +NT+ S +ADA+IEY G+++++ Sbjct: 167 KQIAINQGTEFIRFSGVVNPRTISGSNTVPSTQVADARIEYVGNGYINEAQN 218
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0335	SACTRNSFRASE	28	0.016	Streptothricin acetyltransferase signature.
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 28.0 bits (62), Expect = 0.016 Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 3/49 (6%) Query: 102 RGETILKALERIAFE---EFQLNSLHLEVMENNFKAIAFYEKNHYELEG 147 R + + AL A E E L LE + N A FY K+H+ + Sbjct: 102 RKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFIIGA 150

HPF16_0454

HPF16_0491

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0454	0	12	-3.438595	molybdenum ABC transporter ModB
HPF16_0455	0	10	-4.065832	molybdenum ABC transporter ModD, split, N
HPF16_0456	-1	9	-2.278073	molybdenum ABC transporter ModD, split, C
HPF16_0457	-1	10	-2.230756	glutamyl-tRNA synthetase
HPF16_0458	-2	12	-2.895166	outer membrane protein HopK
HPF16_0459	0	12	-2.614568	Type II adenine specific methyltransferase
HPF16_0460	0	12	-0.839920	Type II adenine specific methyltransferase
HPF16_0461	5	17	-0.309854	hypothetical protein
HPF16_0462	8	24	-1.692071	Type II adenine specific DNA methyltransferase
HPF16_0463	8	23	-1.603115	Type II adenine specific DNA methyltransferase
HPF16_0464	8	24	-1.230729	IS605 transposase
HPF16_0465	9	25	-1.409861	hypothetical protein
HPF16_0466	9	24	-1.531465	hypothetical protein
HPF16_0467	7	22	-1.825343	hypothetical protein
HPF16_0468	7	21	-1.905622	DNA primase
HPF16_0469	8	27	-2.302316	hypothetical protein
HPF16_0470	7	28	-2.874959	hypothetical protein
HPF16_0471	9	26	-2.060993	hypothetical protein
HPF16_0472	10	30	-2.389515	hypothetical protein
HPF16_0473	11	32	-1.264629	hypothetical protein
HPF16_0474	9	29	-0.689747	hypothetical protein
HPF16_0475	3	22	-0.532070	phage integrase
HPF16_0476	2	23	1.468695	putative phage integrase protein
HPF16_0477	6	20	1.505175	hypothetical protein
HPF16_0478	5	20	1.397923	hypothetical protein
HPF16_0479	2	16	0.260468	Type II restriction endonuclease
HPF16_0480	2	16	-0.285443	catalase-like protein
HPF16_0481	3	17	-0.422668	outer membrane protein HofC
HPF16_0482	3	13	-1.791347	outer membrane protein HofD
HPF16_0483	3	17	0.344131	conserved hypothetical mosaic
HPF16_0484	2	16	0.886937	hypothetical protein
HPF16_0485	2	14	1.655752	hypothetical protein
HPF16_0486	2	14	2.215997	hypothetical protein
HPF16_0487	2	14	2.462135	Holliday junction resolvase
HPF16_0488	2	13	2.399243	iron-regulated outer membrane protein
HPF16_0489	3	14	3.102491	catalase
HPF16_0490	2	14	3.082058	hypothetical protein
HPF16_0491	2	16	2.597863	hypothetical protein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0455	PF05272	29	0.006	Virulence-associated E family protein
>PF05272#Virulence-associated E family protein Length = 892 Score = 28.9 bits (64), Expect = 0.006 Identities = 10/20 (50%), Positives = 13/20 (65%) Query: 33 LLGESGAGKSTILRILAGLE 52 L G G GKST++ L GL+ Sbjct: 601 LEGTGGIGKSTLINTLVGLD 620
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0461	TCRTETOQM	196	3e-57	Tetracycline resistance protein TetO/TetQ/TetM family ...
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 196 bits (501), Expect = 3e-57 Identities = 115/461 (24%), Positives = 190/461 (41%), Gaps = 67/461 (14%) Query: 3 NIRNIAVIAHVDHGKTTLVDGLLSQSGTFSEREKVDE--RVMDSNDLERERGITILSKNT 60 I NI V+AHVD GKTTL + LL SG +E VD+ D+ LER+RGITI + T Sbjct: 2 KIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGIT 61 Query: 61 AIYYKDTKINIIDTPGHADFGGEVERVLKMVDGVLLLVDAQEGVMPQTKFVVKKALSFGI 120 + +++TK+NIIDTPGH DF EV R L ++DG +LL+ A++GV QT+ + GI Sbjct: 62 SFQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGI 121 Query: 121 CPIVVVNKIDKPAAEPDRVVDEVFDLF---------VAMGASDKQLDFPV-----VYAAA 166 I +NKID+ + V ++ + V + + +F Sbjct: 122 PTIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDTVIEG 181 Query: 167 RDGYAMKSLDDE----------------------------KKNL--EPLFETILEHVPSP 196 D K + + K N+ + L E I S Sbjct: 182 NDDLLEKYMSGKSLEALELEQEESIRFHNCSLFPVYHGSAKNNIGIDNLIEVITNKFYSS 241 Query: 197 SGSVDEPLQMQIFTLDYDNYVGKIGIARVFNGSVKKNESVLLMKSDGSKENGRITKLIGF 256 + L ++F ++Y ++ R+++G + +SV + KE +IT++ Sbjct: 242 THRGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRI----SEKEKIKITEMYTS 297 Query: 257 LGLARTEIENAYAGDIVAIAG--FSAMDV-GDSVVDPANPMPLDPMHLEEPTMSVYFAVN 313 + +I+ AY+G+IV + V GD+ + P +P P + + Sbjct: 298 INGELCKIDKAYSGEIVILQNEFLKLNSVLGDTKLLPQRERIENP----LPLLQTTVEPS 353 Query: 314 DSPLAGLEGKHVTANKLKDRLLKEMQTNIAMKCEEMGEGKFKVSGRGELQITILAENLRR 373 + + D LL+ + + +S G++Q+ + L+ Sbjct: 354 KPQQREMLLDALLEISDSDPLLRYYVDSAT--------HEIILSFLGKVQMEVTCALLQE 405 Query: 374 E-GFEFSISRPEVIIKEENGVKCEPFEHLVIDTPQDFSGAI 413 + E I P VI E K E H+ + P F +I Sbjct: 406 KYHVEIEIKEPTVIYMERPLKKAEYTIHIEVP-PNPFWASI 445 Score = 41.8 bits (98), Expect = 8e-06 Identities = 20/80 (25%), Positives = 30/80 (37%), Gaps = 1/80 (1%) Query: 396 EPFEHLVIDTPQDFSGAIIERLGKRKAEMKAMNPMSDGYTRLEFEIPARGLIGYRSEFLT 455 EP+ I PQ++ K A + + + L EIPAR + YRS+ Sbjct: 537 EPYLSFKIYAPQEYLSRAYTDAPKYCANIVDTQ-LKNNEVILSGEIPARCIQEYRSDLTF 595 Query: 456 DTKGEGVMNHSFLEFRPFSG 475 T G V + +G Sbjct: 596 FTNGRSVCLTELKGYHVTTG 615
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0467	GPOSANCHOR	37	2e-04	Gram-positive coccus surface protein anchor signature.
>GPOSANCHOR#Gram-positive coccus surface protein anchor signature. Length = 539 Score = 36.6 bits (84), Expect = 2e-04 Identities = 11/126 (8%), Positives = 35/126 (27%), Gaps = 3/126 (2%) Query: 333 KQISQYAKGLRFKILTGKSTKKELKRLEELENTINQEEERLKGKDLNSLQQEIQKERENA 392 S + K+ K E + +L+ E Sbjct: 203 MNFSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQ 262 Query: 393 LKLKESIKAKQNHTETLKNALNQKEKAKNPIEQQRQTLQKERNEKEQEKRNHENAKREKE 452 +L+++++ N + + + ++ + N ++ +R+ + Sbjct: 263 AELEKALEGAMNF---STADSAKIKTLEAEKAALEAEKADLEHQSQVLNANRQSLRRDLD 319 Query: 453 QQKQAI 458 ++A Sbjct: 320 ASREAK 325 Score = 32.0 bits (72), Expect = 0.007 Identities = 34/351 (9%), Positives = 106/351 (30%), Gaps = 43/351 (12%) Query: 107 EISAIENAINRLNNEIHPLNQEIDKQQEALNHLNQEIASVNNEISAQTSAVKEEEERLNA 166 + ++ ++ E + L + L + E+S ++ + + Sbjct: 51 TLEKVQERADKFEIENNTLKLKNSDLSFNNKALKDHNDELTEELSNA---KEKLRKNDKS 107 Query: 167 LELQTNAKKQIKESLEKLEKLKQKLKRLKKQSRWKKQFTFLTDNPPDIQAKQQSALNQTK 226 L + + ++++ LEK + + ++A++ + + Sbjct: 108 LSEKASKIQELEARKADLEKALEGAMNFSTA---------DSAKIKTLEAEKAALAARKA 158 Query: 227 EENALMHFFLTDPYAILPKGFIYEYHNAGKETYNALNAPNNMDGINNQFKINALNQVLDN 286 + E G ++ ++ + + A L+ Sbjct: 159 DL---------------------EKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEK 197 Query: 287 SYQKFLPGNESYNALGNVEQVKALKFYDLVLNFNLESEKLENALFFKQISQYAKGLRFKI 346 + + + + + +A K L+ L + + + ++ Sbjct: 198 ALEGAMNFSTADSAKI-----KTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLE 252 Query: 347 LTGKSTKKELKRLEELENTINQEEERLKGKDLNSLQQEIQKERENALKLKESIKAKQNHT 406 + + LE+ + +L+ E L+ + + Sbjct: 253 AEKAALEARQAELEKALE-GAMNFSTADSAKIKTLEAEKAALEAEKADLEHQSQVLNANR 311 Query: 407 ETLKNALNQKEKAKNPIEQQRQTLQKERNEKEQEK----RNHENAKREKEQ 453 ++L+ L+ +AK +E + Q L+++ E + R+ + ++ K+Q Sbjct: 312 QSLRRDLDASREAKKQLEAEHQKLEEQNKISEASRQSLRRDLDASREAKKQ 362 Score = 29.3 bits (65), Expect = 0.047 Identities = 22/159 (13%), Positives = 43/159 (27%) Query: 320 NLESEKLENALFFKQISQYAKGLRFKILTGKSTKKELKRLEELENTINQEEERLKGKDLN 379 LE+EK A + + +G + K L+ + E E+ +N Sbjct: 145 TLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAELEKALEGAMN 204 Query: 380 SLQQEIQKERENALKLKESIKAKQNHTETLKNALNQKEKAKNPIEQQRQTLQKERNEKEQ 439 + K + + K + + L+ A+N I+ + + Sbjct: 205 FSTADSAKIKTLEAEKAALAARKADLEKALEGAMNFSTADSAKIKTLEAEKAALEARQAE 264 Query: 440 EKRNHENAKREKEQQKQAINNEINAIGNERLTFKQLGTQ 478 ++ E A I L Q Sbjct: 265 LEKALEGAMNFSTADSAKIKTLEAEKAALEAEKADLEHQ 303

HPF16_0629

HPF16_0646

Genomic Island

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0629	2	12	-2.202232	hypothetical protein
HPF16_0630	3	15	-3.155888	hypothetical protein
HPF16_0631	1	14	-2.654768	hypothetical protein
HPF16_0632	1	14	-1.927594	labile enterotoxin outputA
HPF16_0633	-1	13	-0.813914	hypothetical protein
HPF16_0634	0	12	0.280760	hypothetical protein
HPF16_0635	1	12	1.796720	hypothetical protein
HPF16_0636	2	13	2.424756	transcriptional regulator
HPF16_0637	2	11	2.664405	putative outer membrane protein
HPF16_0638	2	12	2.444926	outer membrane protein
HPF16_0639	2	11	2.081383	anaerobic C4-dicarboxylate transporter
HPF16_0640	1	11	0.922965	L-asparaginase II
HPF16_0641	1	13	-0.133257	hypothetical protein
HPF16_0642	3	14	-1.080556	hypothetical protein
HPF16_0643	1	13	-1.366276	hypothetical protein
HPF16_0644	2	13	-1.143889	DNA polymerase III subunits gamma and tau
HPF16_0645	2	12	-2.089816	hypothetical protein
HPF16_0646	2	13	-1.854169	putative abc transporter, ATP-binding protein

HPF16_0679

HPF16_0708

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0679	1	13	-3.588110	aspartate aminotransferase
HPF16_0680	0	16	-4.488436	hypothetical protein
HPF16_0681	-2	17	-2.733729	integrase-recombinase protein
HPF16_0682	1	17	-3.023635	methylated-DNA--protein-cysteine
HPF16_0683	1	15	-2.564326	hypothetical protein
HPF16_0684	-1	11	-1.053820	hypothetical protein
HPF16_0685	-1	11	0.218276	integrase-recombinase protein
HPF16_0686	1	10	0.807240	methylated-DNA--protein-cysteine
HPF16_0687	2	11	0.990996	hypothetical protein
HPF16_0688	2	13	1.627033	putative lipopolysaccharide biosynthesis
HPF16_0689	1	12	2.209186	ribonucleotide-diphosphate reductase subunit
HPF16_0690	3	17	1.973203	hypothetical protein
HPF16_0691	6	15	1.066509	hypothetical protein
HPF16_0692	2	11	0.621139	hypothetical protein
HPF16_0693	1	10	0.448649	hypothetical protein
HPF16_0694	1	11	-1.155383	UDP-N-acetylglucosamine pyrophosphorylase
HPF16_0695	2	14	-3.074806	flagellar biosynthesis protein FliP
HPF16_0696	2	15	-3.260529	iron(III) dicitrate transport protein FecA1
HPF16_0697	-1	16	-2.678483	iron(II) transport protein
HPF16_0698	0	18	-2.864423	hypothetical protein
HPF16_0699	2	18	-2.090366	putative type II cytosine specific
HPF16_0700	1	13	0.594444	putative type II restriction enzyme
HPF16_0701	2	12	2.818766	hypothetical protein
HPF16_0702	1	12	3.980224	acetyl coenzyme A acetyltransferase
HPF16_0703	3	13	3.756937	3-oxoacid Coa-transferase, subunit A
HPF16_0704	3	14	3.576687	succinyl-CoA-transferase subunit B
HPF16_0705	2	13	2.742205	short-chain fatty acids transporter
HPF16_0706	2	14	2.910635	putative outer membrane protein
HPF16_0707	3	12	2.795283	hydantoin utilization protein A
HPF16_0708	2	12	1.739302	N-methylhydantoinase

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0691	PF07132	35	6e-05	Harpin protein (HrpN)
>PF07132#Harpin protein (HrpN) Length = 356 Score = 34.7 bits (79), Expect = 6e-05 Identities = 19/46 (41%), Positives = 29/46 (63%) Query: 51 FWGEAVGAGMGGAMGGMIGSLVGPWSTVFGAGIGGGIGAYSGAEIG 96 F G +G G+GG +GG+ SL G + G G+GGG+G+ G+ +G Sbjct: 60 FMGSMMGGGLGGGLGGLGSSLGGLGGGLLGGGLGGGLGSSLGSGLG 105
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0695	FLGBIOSNFLIP	276	2e-96	Escherichia coli: Flagellar biosynthetic protein Fl...
>FLGBIOSNFLIP#Escherichia coli: Flagellar biosynthetic protein FliP signature. Length = 245 Score = 276 bits (708), Expect = 2e-96 Identities = 113/245 (46%), Positives = 162/245 (66%), Gaps = 2/245 (0%) Query: 1 MRFFIFLILICPLICPLMSADSALPSVNLSLNAPNDPKQLVTTLNVIALLTLLVLAPSLI 60 MR + + + L A + LP + S P + + + +T L P+++ Sbjct: 1 MRRLLSVAPVL-LWLITPLAFAQLPGIT-SQPLPGGGQSWSLPVQTLVFITSLTFIPAIL 58 Query: 61 LVMTSFTRLIVVFSFLRTALGTQQTPPTQILVSLSLILTFFIMEPSLKKAYDTGIKPYMD 120 L+MTSFTR+I+VF LR ALGT PP Q+L+ L+L LTFFIM P + K Y +P+ + Sbjct: 59 LMMTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSE 118 Query: 121 KKISYTEAFEKSALPFKEFMLKNTREKDLALFFRIRNLPNPKTPDEVSLSVLIPAFMISE 180 +KIS EA EK A P +EFML+ TRE DL LF R+ N + P+ V + +L+PA++ SE Sbjct: 119 EKISMQEALEKGAQPLREFMLRQTREADLGLFARLANTGPLQGPEAVPMRILLPAYVTSE 178 Query: 181 LKTAFQIGFLLYLPFLVIDMVISSILMAMGMMMLPPVMISLPFKILVFILVDGFNLLTEN 240 LKTAFQIGF +++PFL+ID+VI+S+LMA+GMMM+PP I+LPFK+++F+LVDG+ LL + Sbjct: 179 LKTAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLVGS 238 Query: 241 LVASF 245 L SF Sbjct: 239 LAQSF 243

HPF16_0806

HPF16_0833

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0806	2	16	-0.431834	hypothetical protein
HPF16_0807	4	17	-0.482689	50S ribosomal protein L31
HPF16_0808	4	17	-1.139817	transcription termination factor Rho
HPF16_0809	6	20	-2.397141	glutamate racemase
HPF16_0810	8	22	-3.318276	IS606 transposase
HPF16_0811	7	21	-3.337378	cag pathogenicity island protein
HPF16_0812	6	21	-3.246125	cag pathogenicity island protein
HPF16_0813	5	20	-3.253518	cag pathogenicity island protein
HPF16_0814	6	20	-3.025242	DNA transfer protein
HPF16_0815	7	20	-3.407967	cag pathogenicity island protein
HPF16_0816	6	19	-3.060273	cag pathogenicity island protein
HPF16_0817	8	20	-3.509418	cag island protein
HPF16_0818	10	21	-4.363797	cag pathogenicity island protein
HPF16_0819	11	23	-5.205598	cag pathogenicity island protein
HPF16_0820	11	22	-5.337070	cag pathogenicity island protein
HPF16_0821	9	26	-4.673018	cag pathogenicity island protein
HPF16_0822	10	28	-4.733039	cag pathogenicity island protein
HPF16_0823	10	21	-3.336720	cag pathogenicity island protein
HPF16_0824	9	21	-3.469686	cag pathogenicity island protein
HPF16_0825	10	20	-3.262654	cag pathogenicity island protein
HPF16_0826	9	19	-2.816192	cag pathogenicity island protein
HPF16_0827	10	18	-2.806580	cag pathogenicity island protein
HPF16_0828	10	18	-2.224970	cag island protein
HPF16_0829	9	19	-2.287613	cag pathogenicity island protein
HPF16_0830	7	19	-2.281500	cag pathogenicity island protein
HPF16_0831	5	16	-2.015459	cag pathogenicity island protein
HPF16_0832	3	13	-2.193070	cag island protein
HPF16_0833	2	11	-1.799381	cag pathogenicity island protein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0807	PF01206	27	0.004	SirA family protein
>PF01206#SirA family protein Length = 76 Score = 26.6 bits (59), Expect = 0.004 Identities = 7/22 (31%), Positives = 12/22 (54%) Query: 19 SGKEIEVLSTKPEMRIDISSFC 40 +G+ + V++T P D SF Sbjct: 31 AGEVLYVMATDPGSVKDFESFS 52
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0811	TYPE4SSCAGA	1724	0.0	Type IV secretion system CagA exotoxin signature.
>TYPE4SSCAGA#Type IV secretion system CagA exotoxin signature. Length = 1147 Score = 1724 bits (4467), Expect = 0.0 Identities = 921/1187 (77%), Positives = 1013/1187 (85%), Gaps = 55/1187 (4%) Query: 1 MTNETIDQTTTPDQTGFVPQRFINNLQVAFIKVDNAVASFDPDQKSIVDKNDKDNRQAFE 60 MTNETIDQ + F PQ+FINNLQVAF+KVDNAVAS+DPDQK IVDKND+DNRQAFE Sbjct: 1 MTNETIDQQPQ-TEAAFNPQQFINNLQVAFLKVDNAVASYDPDQKPIVDKNDRDNRQAFE 59 Query: 61 KISQLREEYANKAIKNPAKKNQYFSDFINKSNDLINKDNLIAVDSSVESFRKFGDQRYQI 120 ISQLREEY+NKAIKNP KKNQYFSDFINKSNDLINKDNLI V+SS +SF+KFGDQRY+I Sbjct: 60 GISQLREEYSNKAIKNPTKKNQYFSDFINKSNDLINKDNLIDVESSTKSFQKFGDQRYRI 119 Query: 121 FTSWVSLQKDPSKINTQQIRNFMENVIQPPISDDKEKAEFLRSAKQSFAGIIIGNQIRSD 180 FTSWVS Q DPSKINT+ IRNFMEN+IQPPI DDKEKAEFL+SAKQSFAGIIIGNQIR+D Sbjct: 120 FTSWVSHQNDPSKINTRSIRNFMENIIQPPILDDKEKAEFLKSAKQSFAGIIIGNQIRTD 179 Query: 181 EKFMGVFDESLKARQEAEKNAEPAGGDWLDIFLSFVFNKKQSSDLKETLNQEPRPDFEQN 240 +KFMGVFDESLK RQEAEKN EP GGDWLDIFLSF+F+KKQSSD+KE +NQEP P + + Sbjct: 180 QKFMGVFDESLKERQEAEKNGEPTGGDWLDIFLSFIFDKKQSSDVKEAINQEPVPHVQPD 239 Query: 241 LATTTTDIQGLPPEARDLLDERGNFFKFTLGDVEMLDVEGVADKDPNYKFNQLLIHNNAL 300 +ATTTTDIQGLPPEARDLLDERGNF KFTLGD+EMLDVEGVAD DPNYKFNQLLIHNNAL Sbjct: 240 IATTTTDIQGLPPEARDLLDERGNFSKFTLGDMEMLDVEGVADIDPNYKFNQLLIHNNAL 299 Query: 301 SSMLMGSHSNIEPEKVSLLYGDNGGPEARHDWNATVGYKDQQGNNVATLINAHLNNDSGL 360 SS+LMGSH+ IEPEKVSLLYG NGGP ARHDWNATVGYKDQQGNNVAT+IN H+ N SGL Sbjct: 300 SSVLMGSHNGIEPEKVSLLYGGNGGPGARHDWNATVGYKDQQGNNVATIINVHMKNGSGL 359 Query: 361 IIAGNEDGIKNPSFYLYKEDQLTGLKQAMSQEEIQNKVDFMEFLAQNNAKLDNLSEKEKE 420 +IAG E GI NPSFYLYKEDQLTG ++A+SQEEIQNK+DFMEFLAQNNAKLDNLSEKEKE Sbjct: 360 VIAGGEKGINNPSFYLYKEDQLTGSQRALSQEEIQNKIDFMEFLAQNNAKLDNLSEKEKE 419 Query: 421 KFQAEIENFQKDRKAYLDALGNDHIAFVSKKDPKHLALVTEFGNGEVSYTLKDYGKKQDK 480 KF+ EI++FQKD KAYLDALGND IAFVSKKD KH AL+TEFGNG++SYTLKDYGKK DK Sbjct: 420 KFRTEIKDFQKDSKAYLDALGNDRIAFVSKKDTKHSALITEFGNGDLSYTLKDYGKKADK 479 Query: 481 ALDGETKTTLQGNLKYDGVMFVDYSNFKYTNASKSPDKGVGATNGVSHLEANFSKVAVFN 540 ALD E TLQG+LK+DGVMFVDYSNFKYTNASK+P+KGVG TNGVSHLE F+KVA+FN Sbjct: 480 ALDREKNVTLQGSLKHDGVMFVDYSNFKYTNASKNPNKGVGVTNGVSHLEVGFNKVAIFN 539 Query: 541 LPNLNNLAITNYIRRDLEDKLWAKGLSSQEANKLIKDFLNSNKEMVGKVLNFNKAVAEAK 600 LP+LNNLAIT+++RR+LEDKL KGLS QEANKLIKDFL+SNKE+VGK LNFNKAVA+AK Sbjct: 540 LPDLNNLAITSFVRRNLEDKLTTKGLSPQEANKLIKDFLSSNKELVGKTLNFNKAVADAK 599 Query: 601 NTGNYDEVKKAQKDLEKSLRKREHLEKEVAKKLESRNDNKNRMEAKAQANSQKDKIFALI 660 NTGNYDEVKKAQKDLEKSLRKREHLEKEV KKLES++ NKN+MEAKAQANSQKD+IFALI Sbjct: 600 NTGNYDEVKKAQKDLEKSLRKREHLEKEVEKKLESKSGNKNKMEAKAQANSQKDEIFALI 659 Query: 661 NQEASKEARAAVFDPNLKGIRSELSDKLENINKNLKDFGKSFDELKNGKNNDFSKAEETL 720 N+EA+++ARA + NLKGI+ ELSDKLEN+NKNLKDF KSFDE KNGKN DFSKAEETL Sbjct: 660 NKEANRDARAIAYAQNLKGIKRELSDKLENVNKNLKDFDKSFDEFKNGKNKDFSKAEETL 719 Query: 721 KALKDSVKDLGINPEWISKIENLNVALNDFKNGKNKDFSKVTQAKSDLENSIKDVIINQK 780 KALK SVKDLGINPEWISK+ENLN ALN+FKNGKNKDFSKVTQAKSDLENS+KDVIINQK Sbjct: 720 KALKGSVKDLGINPEWISKVENLNAALNEFKNGKNKDFSKVTQAKSDLENSVKDVIINQK 779 Query: 781 ITDKVDNLNQAVSETKLTGDFSKVEQALAELKSLS-------------LDLGKNSDLQKS 827 +TDKVDNLNQAVS K TGDFS+VEQALA+LK+ S L+ K S++ +S Sbjct: 780 VTDKVDNLNQAVSVAKATGDFSRVEQALADLKNFSKEQLAQQAQKNESLNARKKSEIYQS 839 Query: 828 VKNGVNGTLVGNGLSKTEATTLTKNFSDIRKELNEKLFGNSNNNNNGLKNSAEPIYAKVN 887 VKNGVNGTLVGNGLS+ EATTL+KNFSDI+KELN KL +NNNNNGLKN EPIYAKVN Sbjct: 840 VKNGVNGTLVGNGLSQAEATTLSKNFSDIKKELNAKLGNFNNNNNNGLKN--EPIYAKVN 897 Query: 888 KKKTGQATSPEEPIYAQVAKKVSAKIDQLNESTSAINRKIDRINKIASAGKGVGGFSGAG 947 KKK GQA S EEPIYAQVAKKV+AKID+LN+ S G GV G Sbjct: 898 KKKAGQAASLEEPIYAQVAKKVNAKIDRLNQIAS---------------GLGVVG----- 937 Query: 948 RSASPEPIYATIDFDEANQAGFPLRRSAAVNDLSKVGLSREQELTRRIGDLNQAVSEAKT 1007 AGFPL+R V+DLSKVGLSR QEL ++I +LNQAVSEAK Sbjct: 938 -----------------QAAGFPLKRHDKVDDLSKVGLSRNQELAQKIDNLNQAVSEAKA 980 Query: 1008 GHFDNLEQKIDELKDSTKKNALKLWVESAKQVPTGLQAKLDNYATNSHTRINSNVHNGAI 1067 G F NLEQ ID+LKDSTK N + LWVESAK+VP L AKLDNYATNSH RINSN+ NGAI Sbjct: 981 GFFGNLEQTIDKLKDSTKHNPMNLWVESAKKVPASLSAKLDNYATNSHIRINSNIKNGAI 1040 Query: 1068 NEKATGMLTQKNPEWLKLVNDKIVAHNVGSAHLSEYDKIGFNQKNMKDYSDSFKFSTKLN 1127 NEKATGMLTQKNPEWLKLVNDKIVAHNVGS LSEYDKIGFNQKNMKDYSDSFKFSTKLN Sbjct: 1041 NEKATGMLTQKNPEWLKLVNDKIVAHNVGSVPLSEYDKIGFNQKNMKDYSDSFKFSTKLN 1100 Query: 1128 NAVKDIKSSFVQFLTNTFSTGS-YSLTKANVEHGVKNT-TKSGFQKS 1172 NAVKD S F QFLTN FST S Y L + N EHG+KN TK GFQKS Sbjct: 1101 NAVKDTNSGFTQFLTNAFSTASYYCLARENAEHGIKNVNTKGGFQKS 1147
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0814	ACRIFLAVINRP	33	0.008	Acriflavin resistance protein family signature.
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 32.9 bits (75), Expect = 0.008 Identities = 20/88 (22%), Positives = 32/88 (36%), Gaps = 18/88 (20%) Query: 19 EVQKRQFQKIEELKADMQKGVNPFFKVLFDGGNRLFGFPETFIYSSI-------FILFVT 71 + K K+ EL+ +G+ +D F+ SI F + Sbjct: 301 DTAKAIKAKLAELQPFFPQGMK--VLYPYD--------TTPFVQLSIHEVVKTLFEAIML 350 Query: 72 IVLSVILF-QAYEPVLIVAIVIVLVALG 98 + L + LF Q LI I + +V LG Sbjct: 351 VFLVMYLFLQNMRATLIPTIAVPVVLLG 378
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0820	TYPE4SSCAGX	31	0.005	Type IV secretion system CagX conjugation protein si...
>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein signature. Length = 522 Score = 31.3 bits (70), Expect = 0.005 Identities = 30/119 (25%), Positives = 55/119 (46%), Gaps = 16/119 (13%) Query: 24 AINTALLPSEYKKLVALGFKKIKTFHQRHDEKEVTEEEKEFATNALREKLRNDRARAEQI 83 A+N AL+ +Y++ + K K D KE+ E++K EK + + +A++ Sbjct: 112 AVNFALMTRDYQEFL----KTKKLIVDAPDPKELEEQKKAL------EKEKEAKEQAQKA 161 Query: 84 QKNIEAFEKKNNSSIQKKAAKHKGLQELNETNANPLNDNPNSNSSTETKSNKDDNFDEM 142 QK+ K +++A L+ L +NP N + N N S K +++ D+M Sbjct: 162 QKD------KREKRKEERAKNRANLENLTNAMSNPQNLSNNKNLSELIKQQRENELDQM 214
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0825	PF04335	119	3e-35	VirB8 type IV secretion protein
>PF04335#VirB8 type IV secretion protein Length = 227 Score = 119 bits (300), Expect = 3e-35 Identities = 44/205 (21%), Positives = 74/205 (36%), Gaps = 10/205 (4%) Query: 27 KLNKANRTFKRAFYL---SMALNIAAVASIVMMMPLKKTDIFVYGIDRYTGEFKIVKRSD 83 KL A R+ K A+ + + AL A V ++ + PLK + +V +DR TGE I + Sbjct: 24 KLAAAERSKKLAWVVAGVAGALATAGVVAVAALTPLKTVEPYVITVDRNTGEASIAAKLH 83 Query: 84 A-RQIVNSEAVVDSATSKFVSLLFGYSKNSLRDRKDQLMQYCDVSFQTQAMRMFNENIRQ 142 I EAV + +V G+ + + D +M Q + R + + Q Sbjct: 84 GDATITYDEAVRKYFLATYVRYREGWIAAAREEYFDAVMVMSARPEQDRWSRFYKTDNPQ 143 Query: 143 FVDKVRA-EAIISSNIQREKVKNSPLTRLTFFITIKITPDTMENYEYITKKQVTIYYDFA 201 + A + I + +F +T T TI Y Sbjct: 144 SPQNILANRTDVFVEI-KRVSFLGGNVAQVYFTKESVTGSNS----TKTDAVATIKYKVD 198 Query: 202 RGNSSQENLIINPFGFKVFDIQITD 226 S + + NP G++V + Sbjct: 199 GTPSKEVDRFKNPLGYQVESYRADV 223
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0827	TYPE4SSCAGX	861	0.0	Type IV secretion system CagX conjugation protein si...
>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein signature. Length = 522 Score = 861 bits (2225), Expect = 0.0 Identities = 511/522 (97%), Positives = 515/522 (98%), Gaps = 1/522 (0%) Query: 1 MEQAFFKKIVGCFCLGCLFLSNVIEAAP-DIKNFNRGRVKVVNKKIAYLGDEKPITIWTS 59 M QAFFKKIVGCFCLG LFLS+ IEA DIKNFNRGRVKVVNKKIAYLGDEKPITIWTS Sbjct: 1 MGQAFFKKIVGCFCLGYLFLSSAIEAVALDIKNFNRGRVKVVNKKIAYLGDEKPITIWTS 60 Query: 60 LDNVTVIQLEKDETISYITTGFNKGWSIVPNSNHIFIQPKSVKSNLMFEKEAVNFALMTR 119 LDNVTVIQLEKDETISYITTGFNKGWSIVPNSNHIFIQPKSVKSNLMFEKEAVNFALMTR Sbjct: 61 LDNVTVIQLEKDETISYITTGFNKGWSIVPNSNHIFIQPKSVKSNLMFEKEAVNFALMTR 120 Query: 120 DYQEFLKTKKLIVDAPDPKELEEQKKALEKEKEAKEQAQKAQKDKREKRKEERAKNRANL 179 DYQEFLKTKKLIVDAPDPKELEEQKKALEKEKEAKEQAQKAQKDKREKRKEERAKNRANL Sbjct: 121 DYQEFLKTKKLIVDAPDPKELEEQKKALEKEKEAKEQAQKAQKDKREKRKEERAKNRANL 180 Query: 180 ENLTNAMSNPQNLSNNKNLSEFIKQQRENELDQMERLEDMQEQAQANALKQIEELNKKQA 239 ENLTNAMSNPQNLSNNKNLSE IKQQRENELDQMERLEDMQEQAQANALKQIEELNKKQA Sbjct: 181 ENLTNAMSNPQNLSNNKNLSELIKQQRENELDQMERLEDMQEQAQANALKQIEELNKKQA 240 Query: 240 EEAVKQRAKDKINIKTDKSQKSPEDNSIELSPSDSAWRTNLVVRTNKALYQFILRIAQKD 299 EEAV+QRAKDKI+IKTDKSQKSPEDNSIELSPSDSAWRTNLVVRTNKALYQFILRIAQKD Sbjct: 241 EEAVRQRAKDKISIKTDKSQKSPEDNSIELSPSDSAWRTNLVVRTNKALYQFILRIAQKD 300 Query: 300 NFASAYLTVKLEYPQRHEVSSVIEEELRKREEAKRQRELIKQENLNTTAYINRVMMASNE 359 NFASAYLTVKLEYPQRHEVSSVIEEEL+KREEAKRQRELIKQENLNTTAYINRVMMASNE Sbjct: 301 NFASAYLTVKLEYPQRHEVSSVIEEELKKREEAKRQRELIKQENLNTTAYINRVMMASNE 360 Query: 360 QIINKEKIREEKQKIILDQAKALETQYVHNALKRNPVPRNYNYYQAPEKRSKHIMPSEIF 419 QIINKEKIREEKQKIILDQAKALETQYVHNALKRNPVPRNYNYYQAPEKRSKHIMPSEIF Sbjct: 361 QIINKEKIREEKQKIILDQAKALETQYVHNALKRNPVPRNYNYYQAPEKRSKHIMPSEIF 420 Query: 420 DDGTFTYFGFKNITLQPAIFVVQPDGKLSMTDAAIDPNMTNSGLRWYRVNEIAEKFKLIK 479 DDGTFTYFGFKNITLQPAIFVVQPDGKLSMTDAAIDPNMTNSGLRWYRVNEIAEKFKLIK Sbjct: 421 DDGTFTYFGFKNITLQPAIFVVQPDGKLSMTDAAIDPNMTNSGLRWYRVNEIAEKFKLIK 480 Query: 480 DKALVTVINKGYGKNPLTKNYNIKNYGELERVIKKLPLVRDK 521 DKALVTVINKGYGKNPLTKNYNIKNYGELERVIKKLPLVRDK Sbjct: 481 DKALVTVINKGYGKNPLTKNYNIKNYGELERVIKKLPLVRDK 522
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0828	IGASERPTASE	35	0.005	IgA-specific serine endopeptidase (S6) signature.
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 34.7 bits (79), Expect = 0.005 Identities = 31/185 (16%), Positives = 70/185 (37%), Gaps = 8/185 (4%) Query: 497 VSKARNEKEKKECEKLLTPEAKKLLEEAKESLKAYKDCVSRARNEKEKQECEKLLTPEAK 556 SK + E+ E T + +++ +EAK ++KA A++ E +E + T E Sbjct: 1047 ESKTVEKNEQDATET--TAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETA 1104 Query: 557 KLLEE--AKKSLKAYKDCVSRARNEKEKQECEKLLTPEAKKLLEQQALDCLKNAKTDEER 614 + +E AK + ++ KQE + + P+A+ E +K ++ Sbjct: 1105 TVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNT 1164 Query: 615 N----ECLKNIPQDLQKELLADMSVKAYKDCVSKARNEKEKKECEKLLTPEAKKLLEEAK 670 + K ++++ + +V V N + + + K + Sbjct: 1165 TADTEQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNRHR 1224 Query: 671 ESLKA 675 S+++ Sbjct: 1225 RSVRS 1229 Score = 33.5 bits (76), Expect = 0.011 Identities = 31/210 (14%), Positives = 65/210 (30%), Gaps = 9/210 (4%) Query: 756 EAEKKRCVKDLPK--DLQKKVLAKESVKAYLDCVSRARNEKEKKECEKLLTPEAKKLLEE 813 E EK+ D SV + + ++R + + + E Sbjct: 984 EVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEIARVDEAPVPPPAPATPSETTETVAEN 1043 Query: 814 AKESLKAYKDCVSRARNEKEKQECEKLLTPEAKKLLEQQALDCLKNAKTEAEKKRCVKDL 873 +K+ K + A E Q E ++ Q + ++ E + Sbjct: 1044 SKQESKTVEKNEQDAT-ETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKE 1102 Query: 874 PKDLQKKVLAKESVKAYLDCVSRARNEKEKQECEKLLTPEAKKLLEEAKESLKAYKDCLS 933 ++K+ AK + + KQE + + P+A+ E + Sbjct: 1103 TATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPARENDPTVN------IK 1156 Query: 934 QARNEEERRACEKLLTPEAKKLLEQEVKKS 963 + +++ A + E +EQ V +S Sbjct: 1157 EPQSQTNTTADTEQPAKETSSNVEQPVTES 1186 Score = 32.7 bits (74), Expect = 0.020 Identities = 29/236 (12%), Positives = 61/236 (25%), Gaps = 9/236 (3%) Query: 934 QARNEEERRACEKLL------TPEAKKLLEQEVKKSVKAYLDCVSRARNEKEKQECEKLL 987 + NEE R E + TP E K ++ + E Q E Sbjct: 1011 PSNNEEIARVDEAPVPPPAPATPSETTETVAENSKQESKTVEKNEQDATETTAQNREVAK 1070 Query: 988 TPEAKKLLEQQALDCLKNAKTEAEKKRCVKDLPKDLQKKVLAKESVKAYLDCVSRARNEK 1047 ++ Q + ++ E + ++K+ AK + + Sbjct: 1071 EAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEVPKVTSQVS 1130 Query: 1048 EKKECEKLLTPEAKKLLEEAKESLKAYKDCLSQARNEEE---RRACEKLLTPEAKKLLEQ 1104 K+E + + P+A+ E + + E + + P + Sbjct: 1131 PKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVEQPVTESTTVN 1190 Query: 1105 EVKKSVKAYLDCVSRARNEKEKQECEKLLTPEARKFLAKQVLNCLEKARNEEERKA 1160 V+ + E R+ + N + +R Sbjct: 1191 TGNSVVENPENTTPATTQPTVNSESSNKPKNRHRRSVRSVPHNVEPATTSSNDRST 1246 Score = 32.3 bits (73), Expect = 0.024 Identities = 26/220 (11%), Positives = 67/220 (30%), Gaps = 6/220 (2%) Query: 644 KARNEKEKKECEKLLTPEAKKLLEEAKESLKAYKDCVSRARNEKEKQECEKLLTPEAKKL 703 + + + + TP + + S +R + + + Sbjct: 984 EVEKRNQTVDTTNITTPNNIQADVPSVPSNNEEI---ARVDEAPVPPPAPATPSETTETV 1040 Query: 704 LEEAKKSLKAYKDCVSRARNEKEKQECEKLLTPEAKKLLEQQALDCLKNAKTEAEKKRCV 763 E +K+ K + A E Q E ++ Q + ++ E + Sbjct: 1041 AENSKQESKTVEKNEQDAT-ETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTE 1099 Query: 764 KDLPKDLQKKVLAKESVKAYLDCVSRARNEKEKKECEKLLTPEAKKLLEEAKESLKAYKD 823 ++K+ AK + + K+E + + P+A+ E + K+ Sbjct: 1100 TKETATVEKEEKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPAREN--DPTVNIKE 1157 Query: 824 CVSRARNEKEKQECEKLLTPEAKKLLEQQALDCLKNAKTE 863 S+ + ++ K + ++ + + N+ E Sbjct: 1158 PQSQTNTTADTEQPAKETSSNVEQPVTESTTVNTGNSVVE 1197
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0833	PF07201	30	0.020	Hypersensitivity response secretion protein HrpJ
>PF07201#Hypersensitivity response secretion protein HrpJ Length = 293 Score = 29.8 bits (67), Expect = 0.020 Identities = 14/76 (18%), Positives = 26/76 (34%), Gaps = 15/76 (19%) Query: 277 APENSKEKLIEELIANSQLIANEEEREKKLLAEKEKQ--------EAELAKY--KLKDLE 326 S + EE+ E +E L K E ++ +Y K+ +LE Sbjct: 44 GTLQSIADMAEEVTF-----VFSERKELSLDKRKLSDSQARVSDVEEQVNQYLSKVPELE 98 Query: 327 NQKKLKALEAELKKKN 342 ++ + L + L Sbjct: 99 QKQNVSELLSLLSNSP 114

HPF16_0861

HPF16_0874

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0861	2	17	-2.705491	adhesion HpaA homologue HpaA2
HPF16_0862	4	21	-2.464616	50S ribosomal protein L28
HPF16_0863	4	19	-2.290169	putative potassium channel protein
HPF16_0864	4	16	-2.844484	hypothetical protein
HPF16_0865	2	13	-2.649517	hypothetical protein
HPF16_0866	2	12	-2.128487	hypothetical protein
HPF16_0867	-1	10	-0.389446	hypothetical protein
HPF16_0868	-2	10	-0.224166	Holliday junction DNA helicase motor protein
HPF16_0869	-2	10	0.312091	hypothetical protein
HPF16_0870	-1	10	1.081397	virulence factor MviN
HPF16_0871	0	11	1.737541	cysteinyl-tRNA synthetase
HPF16_0872	1	12	2.012113	vacuolating cytotoxin A
HPF16_0873	-1	17	1.508661	iron(III) dicitrate transporter, ATP-binding
HPF16_0874	-1	14	3.215202	iron(III) dicitrate ABC transporter, permease

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0861	PF05211	261	1e-89	Neuraminyllactose-binding hemagglutinin
>PF05211#Neuraminyllactose-binding hemagglutinin Length = 260 Score = 261 bits (667), Expect = 1e-89 Identities = 65/276 (23%), Positives = 121/276 (43%), Gaps = 39/276 (14%) Query: 11 FPQRLYFKTLIALGISSVLVGCAIKPVAEVKPQNQQEKPIQVNEKIQTTQKVTPFNFNYS 70 F + K L+ + ++LVGC+ I+T + N+ + Sbjct: 7 FKDFAWKKCLLGASVVALLVGCS-------------------PHIIETNEVALKLNY-HP 46 Query: 71 LHVAQAAQNYRLIGILAPRIQVSDNL-KPYIDKFQDALINQIQTIFEKRGYQTLFF--KD 127 A + + I +L P Q SDN+ K Y +KF++ +++ I + +GY+ + D Sbjct: 47 ASEKVQALDEK-ILLLRPAFQYSDNIAKEYENKFKNQTTLKVEQILQNQGYKVINVDSSD 105 Query: 128 ESALTLQDKRKLFAVLDVKGWVGVLEDLKMNLKDPNNPNL--GTLVDQ------SSGSVW 179 + + K++ + + + G + + D K ++ + P L T +D+ +G V Sbjct: 106 KDDFSFAQKKEGYLAVAMNGEIVLRPDPKRTIQKKSEPGLLFSTGLDKMEGVLIPAGFVK 165 Query: 180 FSFYEPESNRVVHDFAVEVGTF--QAITYTYTYKQSNSGGFNSSNSIIHEDLEKNKEDAI 237 + EP S + F +++ Q + T S+SGG S+ N DAI Sbjct: 166 VTILEPMSGESLDSFTMDLSELDIQEK-FLKTTHSSHSGGLVSTMV----KGTDNSNDAI 220 Query: 238 HQILNKIYALIMKKAVTELTEKNISQYKEAFDRMKG 273 LNKI+A IM++ +LT+KN+ Y++ +KG Sbjct: 221 KSALNKIFANIMQEIDKKLTQKNLESYQKDAKELKG 256
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0871	OMS28PORIN	30	0.018	OMS28 porin signature.
>OMS28PORIN#OMS28 porin signature. Length = 257 Score = 30.1 bits (67), Expect = 0.018 Identities = 13/37 (35%), Positives = 25/37 (67%) Query: 309 EEDLLVSKKRLDKIYRLKQRVLGTLGGINPNFKKEIL 345 +E L+ S++ LD+ + Q+VL + G+NP+ K ++L Sbjct: 188 KETLMASERALDETVQEAQKVLNMVNGLNPSNKDQVL 224
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0872	VACCYTOTOXIN	2023	0.0	Helicobacter pylori vacuolating cytotoxin signature.
>VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature. Length = 1291 Score = 2023 bits (5242), Expect = 0.0 Identities = 1176/1291 (91%), Positives = 1228/1291 (95%) Query: 1 MELQQTHRKINRPLVSLALVGLLVSITPQKSHAAFFTTVIIPAIVGGIATGAAVGTVSGL 60 ME+QQTHRKINRPLVSLALVG LVSITPQ+SHAAFFTTVIIPAIVGGIATGAAVGTVSGL Sbjct: 1 MEIQQTHRKINRPLVSLALVGALVSITPQQSHAAFFTTVIIPAIVGGIATGAAVGTVSGL 60 Query: 61 LGWGLKQAEEANKTPDKPDKVWRIQAGRGFNEFPNKEYDLYKSLLSSKIDGGWDWGNAAR 120 LGWGLKQAEEANKTPDKPDKVWRIQAG+GFNEFPNKEYDLYKSLLSSKIDGGWDWGNAAR Sbjct: 61 LGWGLKQAEEANKTPDKPDKVWRIQAGKGFNEFPNKEYDLYKSLLSSKIDGGWDWGNAAR 120 Query: 121 HYWVKGGQWNKLEVDMKDAVGTYKLSGLRNFTGGDLDVNMQKATLRLGQFNGNSFTSFKD 180 HYWVK GQWNKLEVDM++AVGTY LSGL NFTGGDLDVNMQKATLRLGQFNGNSFTS+KD Sbjct: 121 HYWVKDGQWNKLEVDMQNAVGTYNLSGLINFTGGDLDVNMQKATLRLGQFNGNSFTSYKD 180 Query: 181 SADRTTRVDFNAKNILIDNFLEINNRVGSGAGRKASSTVLTLQASEGITSGKNAEISLYD 240 SADRTTRVDFNAKNILIDNFLEINNRVGSGAGRKASSTVLTLQASEGITS +NAEISLYD Sbjct: 181 SADRTTRVDFNAKNILIDNFLEINNRVGSGAGRKASSTVLTLQASEGITSRENAEISLYD 240 Query: 241 GATLNLASNSVKLMGNVWMGRLQYVGAYLAPSYSTINTSKVVGEVNFNHLTVGDRNAAQA 300 GATLNLASNSVKLMGNVWMGRLQYVGAYLAPSYSTINTSKV GEVNFNHLTVGD NAAQA Sbjct: 241 GATLNLASNSVKLMGNVWMGRLQYVGAYLAPSYSTINTSKVTGEVNFNHLTVGDHNAAQA 300 Query: 301 GIIASKKTYIGTLDLWQSAGLNIIAPPEGGYKDKPNNTNSQSGAKNDKNESAKNDKQDSN 360 GIIAS KT+IGTLDLWQSAGLNIIAPPEGGYKDKPN+ S + N KN+ ++ + +SN Sbjct: 301 GIIASNKTHIGTLDLWQSAGLNIIAPPEGGYKDKPNDKPSNTTQNNAKNDKQESSQNNSN 360 Query: 361 TQVINPPNSGQKTEIQPTQVIDGPFAGAKDTVVNINRINTNADGTIKVGGYTASLTTNAA 420 TQVINPPNS QKTEIQPTQVIDGPFAG K+TVVNINRINTNADGTI+VGG+ ASLTTNAA Sbjct: 361 TQVINPPNSAQKTEIQPTQVIDGPFAGGKNTVVNINRINTNADGTIRVGGFKASLTTNAA 420 Query: 421 HLNIGKGGVNLSNQASGRSLLVENLTGNITVDGALRVNNQVGGYALAGSSANFEFKAGVD 480 HL+IGKGG+NLSNQASGRSLLVENLTGNITVDG LRVNNQVGGYALAGSSANFEFKAG D Sbjct: 421 HLHIGKGGINLSNQASGRSLLVENLTGNITVDGPLRVNNQVGGYALAGSSANFEFKAGTD 480 Query: 481 TKNGTIAFNNNISLGRFVNLKASAHTVNFKDIDTGNGGFNTLDFSGVTNKVNINKLITAS 540 TKNGT FNN+ISLGRFVNLK AHT NFK IDTGNGGFNTLDFSGVTNKVNINKLITAS Sbjct: 481 TKNGTATFNNDISLGRFVNLKVDAHTANFKGIDTGNGGFNTLDFSGVTNKVNINKLITAS 540 Query: 541 TNVAVKNFNINELLVKTNGISVGEYTNFSEDIGNQSRINTVRLETGTRSIYSGGVKFKGG 600 TNVAVKNFNINEL+VKTNG+SVGEYT+FSEDIG+QSRINTVRLETGTRSIYSGGVKFKGG Sbjct: 541 TNVAVKNFNINELVVKTNGVSVGEYTHFSEDIGSQSRINTVRLETGTRSIYSGGVKFKGG 600 Query: 601 EKLVINDFYYAPWNYFDARNIKNVEITNKLAFGPQGSPYGTAKLMFNNLTLGPNAVMDYS 660 EKLVINDFYYAPWNYFDARNIKNVEITNKLAFGPQGSP+GTAKLMFNNLTLG NAVMDYS Sbjct: 601 EKLVINDFYYAPWNYFDARNIKNVEITNKLAFGPQGSPWGTAKLMFNNLTLGQNAVMDYS 660 Query: 661 QFSNVTIQGNFINNQGTINYLVRGGNIETLNVGNAAVMSFNNDIDSATGFYKPLVKINSA 720 QFSN+TIQG+F+NNQGTINYLVRGG + TLNVGNAA M F+N++DSATGFY+PL+KINSA Sbjct: 661 QFSNLTIQGDFVNNQGTINYLVRGGQVATLNVGNAAAMFFSNNVDSATGFYQPLMKINSA 720 Query: 721 QDLIKNKEHVLLKAKIIGYENASLGTNSISNANLIEQFNERLALYNNNNRMDTCVVRNTD 780 QDLIKNKEHVLLKAKIIGY N S GT+SI+N NLIEQF ERLALYNNNNRMD CVVRNTD Sbjct: 721 QDLIKNKEHVLLKAKIIGYGNVSAGTDSIANVNLIEQFKERLALYNNNNRMDICVVRNTD 780 Query: 781 DIKACGMAIGDQAMVNNPDNYKYLIGKAWKNIGISKTANGSKISVRYLGNSTPTENGGNT 840 DIKACG AIG+Q+MVNNP+NYKYL GKAWKNIGISKTANGSKISV YLGNSTPTENGGNT Sbjct: 781 DIKACGTAIGNQSMVNNPENYKYLEGKAWKNIGISKTANGSKISVHYLGNSTPTENGGNT 840 Query: 841 TNLPTNTTNNARFARYALIKNAPFAQTSATPNLVAINKHDFGTIESVFELANRSKDIHAL 900 TNLPTNTTN RFA YALIKNAPFA+ SATPNLVAIN+HDFGTIESVFELANRS DI L Sbjct: 841 TNLPTNTTNKVRFASYALIKNAPFARYSATPNLVAINQHDFGTIESVFELANRSNDIDTL 900 Query: 901 YAHSGAQGRDLLQTLLIDSHNAGYARTMIDATSANEITKQLNEANSALNNIASLEHKTSG 960 YA+SGAQGRDLLQTLLIDSH+AGYARTMIDATSANEITKQLN A + LNNIASLEHKTSG Sbjct: 901 YANSGAQGRDLLQTLLIDSHDAGYARTMIDATSANEITKQLNTATTTLNNIASLEHKTSG 960 Query: 961 LQTLSLSNAMILNSRLVNLSRRHTNNIDSFARRLQALKDQRFASLESAAEVLYQFAPKYE 1020 LQTLSLSNAMILNSRLVNLSRRHTN+IDSFA+RLQALKDQRFASLESAAEVLYQFAPKYE Sbjct: 961 LQTLSLSNAMILNSRLVNLSRRHTNHIDSFAKRLQALKDQRFASLESAAEVLYQFAPKYE 1020 Query: 1021 KPTNVWANAIGGASLNSGGNTSLYGTSAGVDAYLNEKVEAIVGGFGSYGYSSFNNQANSL 1080 KPTNVWANAIGG SLNSGGN SLYGTSAGVDAYLN +VEAIVGGFGSYGYSSF+NQANSL Sbjct: 1021 KPTNVWANAIGGTSLNSGGNASLYGTSAGVDAYLNGEVEAIVGGFGSYGYSSFSNQANSL 1080 Query: 1081 NSGANNANFGVYSRIFANRHEFDFEAQGAVGSDQSSLNFKSALLRDLNQSYNYLAYGAAT 1140 NSGANN NFGVYSRIFAN+HEFDFEAQGA+GSDQSSLNFKSALLRDLNQSYNYLAY AAT Sbjct: 1081 NSGANNTNFGVYSRIFANQHEFDFEAQGALGSDQSSLNFKSALLRDLNQSYNYLAYSAAT 1140 Query: 1141 RASYGYDFAFFRNALVLKPSVGVSYNHLGSTNFESNSTNKTALKNGASSQHLFNASANVE 1200 RASYGYDFAFFRNALVLKPSVGVSYNHLGSTNF+SNS K ALKNGASSQHLFNASANVE Sbjct: 1141 RASYGYDFAFFRNALVLKPSVGVSYNHLGSTNFKSNSNQKVALKNGASSQHLFNASANVE 1200 Query: 1201 ARYYYGDTSYFYMNAGVLQEFANFGSSNAVSLNTFKVNAARNPLNTHARVMMGGELKLAK 1260 ARYYYGDTSYFYMNAGVLQEFANFGSSNAVSLNTFKVNA RNPLNTHARVMMGGELKLAK Sbjct: 1201 ARYYYGDTSYFYMNAGVLQEFANFGSSNAVSLNTFKVNATRNPLNTHARVMMGGELKLAK 1260 Query: 1261 EVFLNLGFVYLHNLISNIGHFASNLGMRYSF 1291 EVFLNLGFVYLHNLISNIGHFASNLGMRYSF Sbjct: 1261 EVFLNLGFVYLHNLISNIGHFASNLGMRYSF 1291

HPF16_0940

HPF16_0946

Genomic Island

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0940	3	18	-1.974453	NAD(P)H-dependent glycerol-3-phosphate
HPF16_0941	7	19	-4.080181	hypothetical protein
HPF16_0942	11	25	-6.146648	hypothetical protein
HPF16_0943	13	26	-6.291044	IS605 transposase
HPF16_0944	9	18	-4.614915	IS605 family transposase OrfB
HPF16_0945	8	19	-3.481998	resolvase domain-containing protein
HPF16_0946	5	18	-3.675106	putative transposase OrfA

HPF16_0961

HPF16_0969

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0961	3	12	-0.171074	cell division protein
HPF16_0962	3	13	-1.258095	cell division protein FtsZ
HPF16_0963	0	13	-3.334625	hypothetical protein
HPF16_0964	0	13	-3.316002	hypothetical protein
HPF16_0965	0	13	-3.204326	hypothetical protein
HPF16_0966	1	14	-3.913514	hypothetical protein
HPF16_0967	1	17	-3.864298	hypothetical protein
HPF16_0968	3	18	-3.748699	hypothetical protein
HPF16_0969	6	24	-2.216138	hypothetical protein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0961	SHAPEPROTEIN	39	2e-05	Bacterial cell shape determinant MreB/Mbl protein s...
>SHAPEPROTEIN#Bacterial cell shape determinant MreB/Mbl protein signature. Length = 347 Score = 39.4 bits (92), Expect = 2e-05 Identities = 38/181 (20%), Positives = 68/181 (37%), Gaps = 13/181 (7%) Query: 211 AASIATLSNDERELGVACVDIGGETCNLTIYSGNSIRYNKYLPIGSHHLSTDLSSMLNTP 270 AA+I G VDIGG T + + S N + Y+ + IG + + + Sbjct: 146 AAAIGAGLPVSEATGSMVVDIGGGTTEVAVISLNGVVYSSSVRIGGDRFDEAIINYVRRN 205 Query: 271 F------PYAEEVKIKYGDLSFESGEETPSQSVQIPTTGSDGNESHVVPLSRIQNIMRDR 324 + AE +K + G S G+E V+ + + I +++ Sbjct: 206 YGSLIGEATAERIKHEIG--SAYPGDEVREIEVRGRNLAEGVPRGFTLNSNEILEALQEP 263 Query: 325 ALETFQIIHRSIQDSGLE---EHLGGGVVLTGGMTLMKGIKELAKAHFTNYPVRLAA-PM 380 + +++ E + G+VLTGG L++ + L T PV +A P+ Sbjct: 264 LTGIVSAVMVALEQCPPELASDISERGMVLTGGGALLRNLDRLL-MEETGIPVVVAEDPL 322 Query: 381 E 381 Sbjct: 323 T 323

HPF16_1063

HPF16_1070

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1063	2	19	-1.085638	Type II DNA modification enzyme
HPF16_1064	3	15	-0.899902	flgM protein
HPF16_1065	4	14	-1.683789	hypothetical protein
HPF16_1066	5	14	-1.547796	peptidyl-prolyl cis-trans isomerase
HPF16_1067	4	15	-2.346868	hypothetical protein
HPF16_1068	5	16	-2.093635	peptidoglycan-associated lipoprotein precursor
HPF16_1069	2	15	-0.033315	translocation protein TolB
HPF16_1070	2	19	-0.157645	hypothetical protein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1068	OMPADOMAIN	145	5e-45	OMPA domain signature.
>OMPADOMAIN#OMPA domain signature. Length = 346 Score = 145 bits (368), Expect = 5e-45 Identities = 45/168 (26%), Positives = 71/168 (42%), Gaps = 22/168 (13%) Query: 22 NMDKETVAGDVSAKTVQSAPVSTETAQEKQEPKQEPAPVVEEKPAVESGTIIASIYFDFD 81 D ++ VS + Q P PAP V+ K T+ + + F+F+ Sbjct: 177 RPDNGMLSLGVSYRFGQGEAA----PVVAPAP--APAPEVQTK----HFTLKSDVLFNFN 226 Query: 82 KYEIKESDQETLDEIVQKAKE---NHMQVLLEGNTDEFGSSEYNQALGVKRTLSVKNALV 138 K +K Q LD++ + V++ G TD GS YNQ L +R SV + L+ Sbjct: 227 KATLKPEGQAALDQLYSQLSNLDPKDGSVVVLGYTDRIGSDAYNQGLSERRAQSVVDYLI 286 Query: 139 IKGVEKDMIKTISFGETKPKCTQ-----KTR----ECYKENRRVDVKL 177 KG+ D I GE+ P K R +C +RRV++++ Sbjct: 287 SKGIPADKISARGMGESNPVTGNTCDNVKQRAALIDCLAPDRRVEIEV 334
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1070	IGASERPTASE	32	0.003	IgA-specific serine endopeptidase (S6) signature.
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 32.0 bits (72), Expect = 0.003 Identities = 16/87 (18%), Positives = 36/87 (41%), Gaps = 2/87 (2%) Query: 57 PSDEKKDEKVVEKNATDKEGDFIDPKEQEES-LENIFSSLNDFQEKTDT-NAQKDEQKNE 114 E K + E++AT+ + ++ +S ++ + Q ++T Q E K Sbjct: 1044 SKQESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKET 1103 Query: 115 QEEEQEEEQEEEQRRLKEQQRLRKNQK 141 E+EE+ + E + +E ++ Sbjct: 1104 ATVEKEEKAKVETEKTQEVPKVTSQVS 1130 Score = 30.0 bits (67), Expect = 0.012 Identities = 14/80 (17%), Positives = 31/80 (38%), Gaps = 1/80 (1%) Query: 106 AQKDEQKNEQEEEQEEEQEEEQRRLKEQQRLRKNQKNQEMLKGLQQNLDQFAQKLESVKN 165 + + ++QE + E+ E++ Q R + + Q N + E+ + Sbjct: 1037 TETVAENSKQESKTVEKNEQDATETTAQNREVAKEAKSNVKANTQTN-EVAQSGSETKET 1095 Query: 166 KTLDLQIPKQDGVDEKAYQE 185 +T + + +EKA E Sbjct: 1096 QTTETKETATVEKEEKAKVE 1115

HPF16_1079

HPF16_1085

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1079	1	18	-3.455019	F0F1 ATP synthase subunit B'
HPF16_1080	2	18	-3.069746	plasmid replication-partition related protein
HPF16_1081	3	18	-2.698887	SpoOJ regulator
HPF16_1082	2	19	-2.614653	biotin--protein ligase
HPF16_1083	2	19	-2.534761	methionyl-tRNA formyltransferase
HPF16_1084	3	18	-3.236346	ATPase
HPF16_1085	2	14	0.237990	hypothetical protein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1083	FERRIBNDNGPP	32	0.003	Ferrichrome-binding periplasmic protein signature.
>FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature. Length = 296 Score = 31.8 bits (72), Expect = 0.003 Identities = 12/33 (36%), Positives = 19/33 (57%) Query: 70 EPEVQILKALKPDFIVVVAYGKILPKEVLSIAP 102 EP +++L +KP F+V A P+ + IAP Sbjct: 86 EPNLELLTEMKPSFMVWSAGYGPSPEMLARIAP 118
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1085	RTXTOXIND	41	1e-05	Gram-negative bacterial RTX secretion protein D signat...
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 40.6 bits (95), Expect = 1e-05 Identities = 28/195 (14%), Positives = 71/195 (36%), Gaps = 19/195 (9%) Query: 27 QIELENQSRF-LAQQKEFEKEVKEKRAQYQSHFKILEQKEEALKEREREQKAKFDDAVKQ 85 +++L ++ F ++E + + Q+ + QKE L ++ E+ + Sbjct: 167 ELKLPDEPYFQNVSEEEVLRLTSLIKEQFSTWQNQKYQKELNLDKKRAERLTVLARINRY 226 Query: 86 ASALALQDERAKIIEEARKNAFLEQQKGLELLQKELDEKSKQVRELHQKEAEIERLKREN 145 + ++ R + + LE + + E EL ++++E+++ E Sbjct: 227 ENLSRVEKSRLDDFSSLLHKQAIAKHAVLEQ-ENKYVEAV---NELRVYKSQLEQIESEI 282 Query: 146 NEAESRLKAENEKKLNEKLETERERIEKALHEKNELKFKQQEEQLEMLRNELKNAQRKAE 205 A+ + + NE L+ R+ + +L + + +A Sbjct: 283 LSAKEEYQLVTQLFKNEILDKLRQTTDNI---------GLLTLELAKNEERQQASVIRAP 333 Query: 206 LSSQQFQGEVQELAI 220 +S +VQ+L + Sbjct: 334 VS-----VKVQQLKV 343

HPF16_1171

HPF16_1182

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1171	-1	12	3.215171	carbamoyl phosphate synthase small subunit
HPF16_1172	-1	10	3.498701	formamidase
HPF16_1173	-1	11	3.129908	hypothetical protein
HPF16_1174	-1	10	3.182132	Maf-like protein
HPF16_1175	0	11	3.027382	alanyl-tRNA synthetase
HPF16_1176	0	16	1.538431	hypothetical protein
HPF16_1177	-2	11	0.798702	outer membrane protein
HPF16_1178	2	14	-0.695167	30S ribosomal protein S18
HPF16_1179	2	14	-0.926745	single-strand DNA-binding protein
HPF16_1180	2	11	-1.002183	30S ribosomal protein S6
HPF16_1181	3	10	-0.838214	DNA polymerase III subunit delta
HPF16_1182	2	8	-0.273548	3'-5' exoribonuclease R

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1176	PF05844	25	0.035	YopD protein
>PF05844#YopD protein Length = 295 Score = 25.0 bits (54), Expect = 0.035 Identities = 13/65 (20%), Positives = 28/65 (43%), Gaps = 1/65 (1%) Query: 10 SVLKANNPHFDKIFEKHNQLDDDIKTAEQQNASDAEVSHMKKQKLKLKDEIHSMIIEYRE 69 L+A F+ + I++ Q + +V + Q ++E+++ I + + Sbjct: 197 VALRAAGRAFESRNGALQVANTVIQSFVQMANASVQVRQGESQASAREEEVNATIGQ-SQ 255 Query: 70 KQKSE 74 KQK E Sbjct: 256 KQKVE 260
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1179	INVEPROTEIN	27	0.041	Salmonella/Shigella invasion protein E (InvE) signat...
>INVEPROTEIN#Salmonella/Shigella invasion protein E (InvE) signature. Length = 372 Score = 27.0 bits (59), Expect = 0.041 Identities = 14/76 (18%), Positives = 28/76 (36%), Gaps = 7/76 (9%) Query: 49 CFIDARLFGRTAEIANQYLSKGSSVLIEGRLT----YESWMDQTGKKNSRHTIT--VDSL 102 C + ARLFG+T + L I+ Y W+ G R + ++ Sbjct: 168 CALKARLFGKTLSLKPGLLRASYRQFIQSESHEVEIYSDWIASYG-YQRRLVVLDFIEGS 226 Query: 103 QFMDKKSDNPQANAMQ 118 D +++ + ++ Sbjct: 227 LLTDIDANDASCSRLE 242

HPF16_1294

HPF16_1306

Genomic Island

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1294	0	12	-3.135039	Type II citrate synthase
HPF16_1295	0	13	-5.521820	putative endonuclease, split and separated by
HPF16_1296	-1	11	-5.281296	putative type III restriction enzyme M protein
HPF16_1297	-2	11	-4.569342	putative type III restriction enzyme
HPF16_1298	-2	13	-3.814339	biotin synthase
HPF16_1299	-2	15	-4.964089	putative ribonuclease N
HPF16_1300	0	15	-5.166384	hypothetical protein
HPF16_1301	1	14	-3.913514	hypothetical protein
HPF16_1302	1	17	-3.864298	hypothetical protein
HPF16_1303	3	18	-3.748699	hypothetical protein
HPF16_1304	6	24	-2.216138	hypothetical protein
HPF16_1305	6	24	-2.269914	hypothetical protein
HPF16_1306	3	20	-1.833276	hypothetical protein

HPF16_1331

HPF16_1342

Genomic Island

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1331	2	22	-2.360529	hypothetical protein
HPF16_1332	1	21	-1.392128	hypothetical protein
HPF16_1333	2	22	-0.136594	hypothetical protein
HPF16_1334	2	19	0.222722	hypothetical protein
HPF16_1335	2	16	-0.951528	hypothetical protein
HPF16_1336	0	14	-0.364405	hypothetical protein
HPF16_1337	0	13	-0.679286	peptidyl-prolyl cis-trans isomerase B,
HPF16_1338	0	17	-1.420497	carbon storage regulator
HPF16_1339	1	16	-1.972611	4-diphosphocytidyl-2-C-methyl-D-erythritol
HPF16_1340	2	19	-1.972801	SsrA-binding protein
HPF16_1341	2	16	-0.245587	biopolymer transport protein
HPF16_1342	2	17	-0.926567	biopolymer transport protein

HPF16_1363

HPF16_1379

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1363	2	10	0.556346	outer membrane protein
HPF16_1364	0	8	0.103952	branched-chain amino acid aminotransferase
HPF16_1365	0	9	-0.548584	outer membrane protein HorJ
HPF16_1366	1	11	-0.688044	DNA polymerase I
HPF16_1367	0	18	-0.030089	Type II restriction-modification specificity
HPF16_1368	-1	18	1.072804	Type II restriction-modification specificity
HPF16_1369	1	18	0.673706	Type IIG restriction-modification enzyme
HPF16_1370	3	17	1.122712	hypothetical protein
HPF16_1371	4	14	0.382399	thymidylate kinase
HPF16_1372	3	12	0.432963	phosphopantetheine adenylyltransferase
HPF16_1373	2	13	0.414235	3-octaprenyl-4-hydroxybenzoate carboxy-lyase
HPF16_1374	3	12	-0.122434	flagellar basal body P-ring biosynthesis protein
HPF16_1375	2	11	-0.162989	DNA helicase II
HPF16_1376	1	12	-0.155815	hypothetical protein
HPF16_1377	0	12	0.060736	seryl-tRNA synthetase
HPF16_1378	0	15	-0.461539	hypothetical protein
HPF16_1379	2	15	-0.657855	hypothetical protein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1372	LPSBIOSNTHSS	223	6e-78	Lipopolysaccharide core biosynthesis protein signat...
>LPSBIOSNTHSS#Lipopolysaccharide core biosynthesis protein signature. Length = 166 Score = 223 bits (569), Expect = 6e-78 Identities = 65/148 (43%), Positives = 94/148 (63%) Query: 4 IGIYPGTFDPVTNGHIDIIHRSSELFEKLIVAVAHSSAKNPMFSLKERLEMIQLATKSFK 63 IYPG+FDP+T GH+DII R LF+++ VAV + K PMFS++ERLE I A Sbjct: 2 NAIYPGSFDPITFGHLDIIERGCRLFDQVYVAVLRNPNKQPMFSVQERLEQIAKAIAHLP 61 Query: 64 NVECVAFEGLLANLAKEYHCRVLVRGLRVVSDFEYELQMGYANKSLNHELETLYFMPTLQ 123 N + +FEGL N A++ ++RGLRV+SDFE ELQM NK+L +LET++ + + Sbjct: 62 NAQVDSFEGLTVNYARQRQAGAILRGLRVLSDFELELQMANTNKTLASDLETVFLTTSTE 121 Query: 124 NAFISSSIVRSIIAHKGDASHLVPKEIH 151 +F+SSS+V+ + G+ H VP + Sbjct: 122 YSFLSSSLVKEVARFGGNVEHFVPSHVA 149

HPF16_1391

HPF16_1397

Genomic Island

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1391	1	10	-3.155239	UDP-N-acetylmuramoylalanyl-D-glutamate--2,
HPF16_1392	1	12	-5.004826	transaldolase
HPF16_1393	0	15	-6.037995	50S ribosomal protein L25/general stress protein
HPF16_1394	0	16	-6.824777	peptidyl-tRNA hydrolase
HPF16_1395	1	18	-7.358737	hypothetical protein
HPF16_1396	2	19	-5.930878	Type II methylase
HPF16_1397	6	19	-4.793513	Type II adenine specific DNA methyltransferase

HPF16_1407

HPF16_1427

Pathogenicity Island (biased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1407	2	13	1.970017	hypothetical protein
HPF16_1408	1	13	1.245531	ferrodoxin-like protein
HPF16_1409	-1	11	1.028100	hypothetical protein
HPF16_1410	-1	13	-0.256494	dihydroneopterin aldolase
HPF16_1411	-1	9	-0.977767	iron-regulated outer membrane protein FrpB4
HPF16_1412	-1	8	-1.363575	putative IRON-regulated outer membrane protein
HPF16_1413	0	9	-2.802345	selenocysteine synthase
HPF16_1414	0	8	-2.840129	transcription elongation factor NusA
HPF16_1415	0	8	-3.015191	Type IIG restriction-modification enzyme
HPF16_1416	0	9	-3.145509	Type III restriction enzyme
HPF16_1417	0	10	-2.482319	Type III DNA modification enzyme
HPF16_1418	0	13	-1.627866	DNA recombinase
HPF16_1419	0	13	-1.364652	hypothetical protein
HPF16_1420	-1	13	-1.394666	hypothetical protein
HPF16_1421	1	11	-0.703475	exodeoxyribonuclease
HPF16_1422	1	11	-0.388806	*periplasmic competence protein
HPF16_1423	3	12	-1.046084	chromosomal replication initiation protein
HPF16_1424	3	16	-2.323038	purine nucleoside phosphorylase
HPF16_1425	2	12	-1.970916	hypothetical protein
HPF16_1426	1	11	-2.194734	D-fructose-6-phosphate amidotransferase
HPF16_1427	0	13	-3.042213	FAD-dependent thymidylate synthase

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1410	ARGDEIMINASE	26	0.035	Bacterial arginine deiminase signature.
>ARGDEIMINASE#Bacterial arginine deiminase signature. Length = 409 Score = 26.3 bits (58), Expect = 0.035 Identities = 12/60 (20%), Positives = 25/60 (41%), Gaps = 8/60 (13%) Query: 7 VHIHNLVFETILGILEFERLKPQKISVNLDLFYTELPN-----KAYLDYIKIQELIQKMM 61 +I +L+ E ++ + L+ + IS + + K Y + I +I KM+ Sbjct: 70 EYIEDLISEVLVSSVA---LENKFISQFILEAEIKTDFTINLLKDYFSSLTIDNMISKMI 126
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1423	HTHFIS	35	5e-04	FIS bacterial regulatory protein HTH signature.
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 35.2 bits (81), Expect = 5e-04 Identities = 9/51 (17%), Positives = 24/51 (47%), Gaps = 4/51 (7%) Query: 125 TVYEIAKKVAQSDTPPYNPVLFYGGTGLGKTHILNAIGNHALEKHKKVVLV 175 +Y + ++ Q+D ++ G +G GK + A+ ++ ++ V + Sbjct: 148 EIYRVLARLMQTDLT----LMITGESGTGKELVARALHDYGKRRNGPFVAI 194

HPF16_0251

HPF16_0258

Pathogenicity Island (unbiased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0251	-2	13	0.865817	neutrophil activating protein (napA)
HPF16_0252	-3	12	0.644202	histidine kinase sensor protein
HPF16_0253	-2	11	1.548395	hypothetical protein
HPF16_0254	-2	11	2.016538	flagellar basal body P-ring protein
HPF16_0255	-2	10	2.041266	ATP-dependent RNA helicase
HPF16_0256	-2	9	1.785764	hypothetical protein
HPF16_0257	-3	9	1.844945	hypothetical protein
HPF16_0258	-3	9	1.829786	oligopeptide permease ATPase protein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0251	HELNAPAPROT	149	3e-49	Helicobacter neutrophil-activating protein A family ...
>HELNAPAPROT#Helicobacter neutrophil-activating protein A family signature. Length = 153 Score = 149 bits (377), Expect = 3e-49 Identities = 39/140 (27%), Positives = 75/140 (53%), Gaps = 1/140 (0%) Query: 5 EILKHLQADAIVLFMKVHNFHWNVKGTDFFNVHKATEEIYEEFADMFDDLAERIVQLGHH 64 L ++ +L+ K+H FHW VKG FF +H+ EE+Y+ A+ D +AER++ +G Sbjct: 15 NSLNTQLSNWFLLYSKLHRFHWYVKGPHFFTLHEKFEELYDHAAETVDTIAERLLAIGGQ 74 Query: 65 PLVTLTEALKLTRVKEETKTSFHSKDIFKEILEDYKHLEKEFKELSNTAEKEGDKVTVTY 124 P+ T+ E + + + + + ++ + ++ DYK + E K + AE+ D T Sbjct: 75 PVATVKEYTEHASITDGGNET-SASEMVQALVNDYKQISSESKFVIGLAEENQDNATADL 133 Query: 125 ADDQLAKLQKSIWMLQAHLA 144 + +++K +WML ++L Sbjct: 134 FVGLIEEVEKQVWMLSSYLG 153
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0252	PF06580	30	0.016	Sensor histidine kinase
>PF06580#Sensor histidine kinase Length = 349 Score = 29.8 bits (67), Expect = 0.016 Identities = 10/71 (14%), Positives = 25/71 (35%), Gaps = 13/71 (18%) Query: 281 IVLQNFLYNAIDAIEALEESEQ-GQVKIEAFIQNEFIVFTIIDNGKEVENKSALFEPFET 339 +++Q + N I + + Q G++ ++ N + + + G + Sbjct: 258 MLVQTLVENGI--KHGIAQLPQGGKILLKGTKDNGTVTLEVENTGSLALKNTK------- 308 Query: 340 TKLKGNGLGLA 350 + G GL Sbjct: 309 ---ESTGTGLQ 316
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0254	FLGPRINGFLGI	360	e-126	Flagellar P-ring protein signature.
>FLGPRINGFLGI#Flagellar P-ring protein signature. Length = 373 Score = 360 bits (925), Expect = e-126 Identities = 120/345 (34%), Positives = 192/345 (55%), Gaps = 26/345 (7%) Query: 19 AEKIGDIASVVGVRDNQLIGYGLVIGLNGTGDK-SGSKFTMQSISNMLESVNVKISADDI 77 +I DIAS+ RDNQLIGYGLV+GL GTGD S FT QS+ ML+++ + Sbjct: 28 TSRIKDIASLQAGRDNQLIGYGLVVGLQGTGDSLRSSPFTEQSMRAMLQNLGITTQGGQS 87 Query: 78 KSKNVAAVMITASLPPFARQGDKIDVQISSIGDAKSIQGGTLVMTPLNAVDGNIYALAQG 137 +KN+AAVM+TA+LPPFA G ++DV +SS+GDA S++GG L+MT L+ DG IYA+AQG Sbjct: 88 NAKNIAAVMVTANLPPFASPGSRVDVTVSSLGDATSLRGGNLIMTSLSGADGQIYAVAQG 147 Query: 138 AITSGN-----------SNNLLSANIINGATIEREVSYDLFHKNAMVLSLKNPNFKNAIQ 186 A+ SA + NGA IERE+ +VL L+NP+F A++ Sbjct: 148 ALIVNGFSAQGDAATLTQGVTTSARVPNGAIIERELPSKFKDSVNLVLQLRNPDFSTAVR 207 Query: 187 VQNTLNKV----FGNKVAIALDPKTIQITRPERFSMVEFLALVQEIPINYSTKNKIIVDE 242 V + +N +G+ +A D + I + +P + +A ++ + + T K++++E Sbjct: 208 VADVVNAFARARYGDPIAEPRDSQEIAVQKPRVADLTRLMAEIENLTVETDTPAKVVINE 267 Query: 243 KSGTIVSGVDIMVHPIVVTSQDITLKITKEPLDN--------SKNTQDLDNNMSLNTAHN 294 ++GTIV G D+ + + V+ +T+++T+ P Q + M++ Sbjct: 268 RTGTIVIGADVRISRVAVSYGTLTVQVTESPQVIQPAPFSRGQTAVQPQTDIMAMQEGSK 327 Query: 295 TLSSNGKNITIAGVVKALQKIGVSAKGMVSILQALKKSGAISAEM 339 G ++ +V L IG+ A G+++ILQ +K +GA+ AE+ Sbjct: 328 VAIVEGPDLR--TLVAGLNSIGLKADGIIAILQGIKSAGALQAEL 370
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0255	SECA	30	0.029	SecA protein signature.
>SECA#SecA protein signature. Length = 901 Score = 29.8 bits (67), Expect = 0.029 Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 2/63 (3%) Query: 261 IVFTRTKKEADELHQFLASKNYKSTALHGDMDQRDRRASIMAFKKNDADVLVATDVASRG 320 +V T + ++++ + L K L+ + A+I+A A V +AT++A RG Sbjct: 453 LVGTISIEKSELVSNELTKAGIKHNVLNAKFHANE--AAIVAQAGYPAAVTIATNMAGRG 510 Query: 321 LDI 323 DI Sbjct: 511 TDI 513
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0258	HTHFIS	31	0.009	FIS bacterial regulatory protein HTH signature.
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 31.3 bits (71), Expect = 0.009 Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 7/50 (14%) Query: 30 VAIVGESGSGKSSIANIIMRLNPR----FKPHNGEVLFETTNLLKESEEF 75 + I GESG+GK +A + R F N + L ESE F Sbjct: 163 LMITGESGTGKELVARALHDYGKRRNGPFVAINMAAIPRD---LIESELF 209

HPF16_0328

HPF16_0335

Pathogenicity Island (unbiased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0328	0	13	-1.332752	guanylate kinase
HPF16_0329	1	11	-1.708266	poly E-rich protein
HPF16_0330	-1	13	-2.311079	membrane bound endonuclease
HPF16_0331	1	12	-2.319447	outer membrane protein HorC
HPF16_0332	2	13	-2.446067	flagellar basal body L-ring protein
HPF16_0333	3	12	-2.206324	CMP-N-acetylneuraminic acid synthetase
HPF16_0334	2	11	-1.434851	CMP-N-acetylneuraminic acid synthetase
HPF16_0335	1	11	-1.006610	flagellar biosynthesis protein G

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0328	PF05272	29	0.011	Virulence-associated E family protein
>PF05272#Virulence-associated E family protein Length = 892 Score = 29.3 bits (65), Expect = 0.011 Identities = 9/18 (50%), Positives = 11/18 (61%) Query: 8 LILSGPSGAGKSTLTKYL 25 ++L G G GKSTL L Sbjct: 599 VVLEGTGGIGKSTLINTL 616
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0329	IGASERPTASE	66	1e-13	IgA-specific serine endopeptidase (S6) signature.
>IGASERPTASE#IgA-specific serine endopeptidase (S6) signature. Length = 1541 Score = 66.2 bits (161), Expect = 1e-13 Identities = 51/256 (19%), Positives = 84/256 (32%), Gaps = 9/256 (3%) Query: 99 KPFLPTEVLKVLQKKLGSNMSELEPSQNLDPTQEVLEANWDELENLGDLEALVQEEPNNE 158 ++ + SN E+ P A E E QE E Sbjct: 995 TNITTPNNIQADVPSVPSNNEEIARVDEA-PVPPPAPATPSETTETVA-ENSKQESKTVE 1052 Query: 159 EQLLPTLNAQEEKEEVKEEVKEEVKETPQEEEKPKDDEIQEGETQKNEEVSKELETQEEL 218 + + EV +E K VK Q E + + +KE T E+ Sbjct: 1053 KNEQDATETTAQNREVAKEAKSNVKANTQTNEV---AQSGSETKETQTTETKETATVEKE 1109 Query: 219 EIPKEETQENKEEKQEKTQDSPSTQELEAMQELVKEIQENSNGQEDKKETQESAETPQEL 278 E K ET++ +E + +Q SP ++ E +Q + +EN + KE Q T + Sbjct: 1110 EKAKVETEKTQEVPKVTSQVSPKQEQSETVQPQAEPAREND-PTVNIKEPQSQTNTTADT 1168 Query: 279 EKQELEIPKETPQELKIPQ-EKEIPQEKETQKLETPQDKETQENTETPQKLETQEDHYES 337 E+ E Q + E + TP + N+E+ K + + H S Sbjct: 1169 EQPAKETSSNVEQPVTESTTVNTGNSVVENPENTTPATTQPTVNSESSNKPKNR--HRRS 1226 Query: 338 IEDIPELVMAQAMGEE 353 + +P V Sbjct: 1227 VRSVPHNVEPATTSSN 1242 Score = 41.2 bits (96), Expect = 7e-06 Identities = 31/189 (16%), Positives = 60/189 (31%), Gaps = 9/189 (4%) Query: 127 LDPTQEVLEANWDELENLGDLEALVQEEPNNEEQLLPT-LNAQEEKEEVKEEVKEEVKET 185 + EA + N E E Q T A EKEE + E+ +E Sbjct: 1063 AQNREVAKEAKSNVKANTQTNEVAQSGSETKETQTTETKETATVEKEEKAKVETEKTQEV 1122 Query: 186 PQEEEKPKDDEIQEGETQKNEEVSKELETQEELEIPKEETQENKEEKQEKTQDSPSTQEL 245 P+ + + Q Q E ++E + ++ P+ +T + +Q + S + + Sbjct: 1123 PKVTSQVSPKQEQSETVQPQAEPARENDPTVNIKEPQSQTNTTADTEQPAKETSSNVE-- 1180 Query: 246 EAMQELVKEIQENSNGQEDKKETQESAETPQELEKQELEIPKETPQELKIPQEKEIPQEK 305 Q + + N+ + + T Q E P+ + +P Sbjct: 1181 ---QPVTESTTVNTGNSVVENPENTTPATTQPTVNSESS---NKPKNRHRRSVRSVPHNV 1234 Query: 306 ETQKLETPQ 314 E + Sbjct: 1235 EPATTSSND 1243
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0332	FLGLRINGFLGH	191	2e-63	Flagellar L-ring protein signature.
>FLGLRINGFLGH#Flagellar L-ring protein signature. Length = 232 Score = 191 bits (487), Expect = 2e-63 Identities = 52/172 (30%), Positives = 85/172 (49%), Gaps = 18/172 (10%) Query: 56 GERPLFADRRAMKPNDLITIIVSEKASANYSSS----KDYKSASGGNSTPPRLTYNGLDE 111 G +PLF DRR D +TI++ E SA+ SSS +D K+ G ++ P L GL Sbjct: 61 GYQPLFEDRRPRNIGDTLTIVLQENVSASKSSSANASRDGKTNFGFDTVPRYL--QGLFG 118 Query: 112 RKKQEVQYLDDKNNYNFTKSSNNTNFKGGGSQKKSEDLEIVLSARIIKVLENGNYFIYGN 171 + +V+ S F G G S L+ + +VL NGN + G Sbjct: 119 NARADVEA------------SGGNTFNGKGGANASNTFSGTLTVTVDQVLVNGNLHVVGE 166 Query: 172 KEVLVDGEKQILKVSGVIRPYDIERNNTIQSKFLADAKIEYTNLGHLSDSNK 223 K++ ++ + ++ SGV+ P I +NT+ S +ADA+IEY G+++++ Sbjct: 167 KQIAINQGTEFIRFSGVVNPRTISGSNTVPSTQVADARIEYVGNGYINEAQN 218
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0335	SACTRNSFRASE	28	0.016	Streptothricin acetyltransferase signature.
>SACTRNSFRASE#Streptothricin acetyltransferase signature. Length = 173 Score = 28.0 bits (62), Expect = 0.016 Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 3/49 (6%) Query: 102 RGETILKALERIAFE---EFQLNSLHLEVMENNFKAIAFYEKNHYELEG 147 R + + AL A E E L LE + N A FY K+H+ + Sbjct: 102 RKKGVGTALLHKAIEWAKENHFCGLMLETQDINISACHFYAKHHFIIGA 150

HPF16_0354

HPF16_0362

Pathogenicity Island (unbiased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0354	-2	10	0.909342	flagellar MS-ring protein
HPF16_0355	-2	12	1.185632	flagellar motor switch protein G
HPF16_0356	-1	12	1.224390	flagellar assembly protein H
HPF16_0357	-1	9	1.595421	1-deoxy-D-xylulose-5-phosphate synthase
HPF16_0358	0	11	0.909068	GTP-binding protein LepA
HPF16_0359	0	12	-1.233924	hypothetical protein
HPF16_0360	-1	12	0.406359	hypothetical protein
HPF16_0361	0	12	0.211648	flagellar basal-body rod protein
HPF16_0362	0	11	-0.208825	alpha-ketoglutarate permease

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0354	FLGMRINGFLIF	551	0.0	Flagellar M-ring protein signature.
>FLGMRINGFLIF#Flagellar M-ring protein signature. Length = 559 Score = 551 bits (1420), Expect = 0.0 Identities = 179/582 (30%), Positives = 294/582 (50%), Gaps = 66/582 (11%) Query: 11 VDFFIKLNKKQKIALIAAGVLITALLVFLLLYPFKEKDYAQGGYGVLFERLDSSDNALIL 70 +++ +L +I LI AG A++V ++L+ K DY LF L D I+ Sbjct: 13 LEWLNRLRANPRIPLIVAGSAAVAIVVAMVLWA-KTPDYR-----TLFSNLSDQDGGAIV 66 Query: 71 QHLQQNQIPYKILKDD-TILIPKDKVYEERITLASQGIPKTSKVGFEIFDTKDFGATDFD 129 L Q IPY+ I +P DKV+E R+ LA QG+PK VGFE+ D + FG + F Sbjct: 67 AQLTQMNIPYRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQFS 126 Query: 130 QNIKLIRAIEGELSRTIESLNPILKANVHIAIPKDSVFVAKEVPPSASVMLKLKPDMKLS 189 + + RA+EGEL+RTIE+L P+ A VH+A+PK S+FV ++ PSASV + L+P L Sbjct: 127 EQVNYQRALEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALD 186 Query: 190 PTQILGIKNLIAAAVPKLTTENVKIVNENGESIGEGDILENSKELALEQLRYKQNFENIL 249 QI + +L+++AV L NV +V+++G + + + + ++L QL++ + E+ + Sbjct: 187 EGQISAVVHLVSSAVAGLPPGNVTLVDQSGHLLTQSNT--SGRDLNDAQLKFANDVESRI 244 Query: 250 ENKIVNILAPIVGGKNKVVARVNAEFDFSQKKSTKETFDPNN-----VVRSEQNLEEKKE 304 + +I IL+PIVG N V A+V A+ DF+ K+ T+E + PN +RS Q ++ Sbjct: 245 QRRIEAILSPIVGNGN-VHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQV 303 Query: 305 GAPKKQVGGVPGVVSN-IGPVQGLKDNKEPEKYEKSQN---------------------- 341 GA GGVPG +SN P P + +QN Sbjct: 304 GAGYP--GGVPGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNE 361 Query: 342 TTNYEVGKTISEIKGEFGTLVRLNAAVVVDGKYKIALKDGANTLEYEPLSDESLKKINAL 401 T+NYEV +TI K G + RL+ AVVV+ K L DG + PL+ + +K+I L Sbjct: 362 TSNYEVDRTIRHTKMNVGDIERLSVAVVVNYK---TLADG----KPLPLTADQMKQIEDL 414 Query: 402 VKQAIGYNQNRGDDVAVSNFEFNPMAPMLDNATLSEKIMHKTQKVLGSFTPLIKYILVFI 461 ++A+G++ RGD + V N F+ + T E + Q + +++LV + Sbjct: 415 TREAMGFSDKRGDTLNVVNSPFSAVDN-----TGGELPFWQQQSFIDQLLAAGRWLLVLV 469 Query: 462 VLFIFYKKVIVPFSERMLEVVPDEDKEVKSMFEEMDEEEDELNKLGDLRKKVEDQLGLNA 521 V +I ++K + P R +E ++ + E + E L+K L+++ +Q Sbjct: 470 VAWILWRKAVRPQLTRRVEEAKAAQEQAQVRQETEEAVEVRLSKDEQLQQRRANQ----- 524 Query: 522 TFSEEEVRYEIVLEKIRGTLKERPDEIAMLFKLLIKDEISSD 563 + E++ ++IR E D + L+I+ +S+D Sbjct: 525 -----RLGAEVMSQRIR----EMSDNDPRVVALVIRQWMSND 557
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0355	FLGMOTORFLIG	347	e-121	Flagellar motor switch protein FliG signature.
>FLGMOTORFLIG#Flagellar motor switch protein FliG signature. Length = 344 Score = 347 bits (893), Expect = e-121 Identities = 121/338 (35%), Positives = 208/338 (61%), Gaps = 4/338 (1%) Query: 8 KQKAQLDELSMSEKIAILLIQVGEDATGEILRHLDIDSITEISKQIVQLNGTDKQIGAAV 67 K+ + L+ +K AILL+ +G + + ++ ++L + I ++ +I +L ++ V Sbjct: 7 KEILDVSALTGKQKAAILLVSIGSEISSKVFKYLSQEEIESLTFEIAKLETITSELKDNV 66 Query: 68 LEEFFAIFQSNQYINTGGLEYARELLTRTLGSEEARKVMDKLTKSLQTQKNFAYLGKIKP 127 L EF + + ++I GG++YARELL ++LG+++A +++ L +LQ+ + F ++ + P Sbjct: 67 LLEFKELMMAQEFIQKGGIDYARELLEKSLGTQKAVDIINNLGSALQS-RPFEFVRRADP 125 Query: 128 QQLADFIINEHPQTIALILAHMEAPNAAETLSYFPDEMKAEISIRMANLGEISPQVVKRV 187 + +FI EHPQTIALIL++++ A+ LS P E++ ++ R+A + SP+VV+ V Sbjct: 126 ANILNFIQQEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEVVREV 185 Query: 188 STVLENKLESLTSYK-IEVGGLRAVAEIFNRLGQKSAKTTLARIESVDNKLAGAIKEMMF 246 VLE KL SL+S GG+ V EI N +K+ K + +E D +LA IK+ MF Sbjct: 186 ERVLEKKLASLSSEDYTSAGGVDNVVEIINMADRKTEKFIIESLEEEDPELAEEIKKKMF 245 Query: 247 TFEDISKLDNFAIREILKVADKKDLSLALKTSTQDLTDKFLNNMSSRAAEQFVEEMQYLG 306 FEDI LD+ +I+ +L+ D ++L+ ALK+ + +K NMS RAA E+M++LG Sbjct: 246 VFEDIVLLDDRSIQRVLREIDGQELAKALKSVDIPVQEKIFKNMSKRAASMLKEDMEFLG 305 Query: 307 AVKIKDVDVAQRKIIEIVQSLQEKG--VIQTGEEEDVI 342 + KDV+ +Q+KI+ +++ L+E+G VI G EEDV+ Sbjct: 306 PTRRKDVEESQQKIVSLIRKLEEQGEIVISRGGEEDVL 343 Score = 30.9 bits (70), Expect = 0.006 Identities = 20/103 (19%), Positives = 41/103 (39%), Gaps = 3/103 (2%) Query: 4 KLTPKQKAQLDELSMSEKIAILLIQVGEDATGEILRHLDIDSITEISKQIVQLNGTDKQI 63 + P + + IA++L + IL L + T ++++I ++ T ++ Sbjct: 122 RADPANILNFIQQEHPQTIALILSYLDPQKASFILSSLPTEVQTNVARRIALMDRTSPEV 181 Query: 64 GAA---VLEEFFAIFQSNQYINTGGLEYARELLTRTLGSEEAR 103 VLE+ A S Y + GG++ E++ E Sbjct: 182 VREVERVLEKKLASLSSEDYTSAGGVDNVVEIINMADRKTEKF 224
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0356	FLGFLIH	37	2e-05	Flagellar assembly protein FliH signature.
>FLGFLIH#Flagellar assembly protein FliH signature. Length = 228 Score = 37.5 bits (86), Expect = 2e-05 Identities = 52/228 (22%), Positives = 105/228 (46%), Gaps = 21/228 (9%) Query: 28 NLPHKT-NPNNASLETPNPKEPLEKKAIENDLIDCLLKKTDELSSHLVKLQMQFEKAQEE 86 NLP KT P++ + P E + E +I+ + L L +LQMQ A E+ Sbjct: 4 NLPWKTWTPDDLA---PPQAEFVPIVEPEETIIE---EAEPSLEQQLAQLQMQ---AHEQ 54 Query: 87 S-KALIENAKNDGYKIGFKEGEEKMRNELTHSVNEEKNQLLHAISALDEKMKKSEDHLMA 145 +A I + G+K G++EG + L + E K+Q + + + + + + L A Sbjct: 55 GYQAGIAEGRQQGHKQGYQEG---LAQGLEQGLAEAKSQQAPIHARMQQLVSEFQTTLDA 111 Query: 146 LE----KELSAIAIDIAKEVILKEVEDNSQKVALALAEELLKNVLDATDIHLKVNPLDYP 201 L+ L +A++ A++VI + ++ + + + L + L + L+V+P D Sbjct: 112 LDSVIASRLMQMALEAARQVIGQTPTVDNSALIKQIQQLLQQEPLFSGKPQLRVHPDDLQ 171 Query: 202 YLNERLQNASKI---KLESNEAISKGGVMITSSNGSLDGNLMERFKTL 246 +++ L + +L + + GG +++ G LD ++ R++ L Sbjct: 172 RVDDMLGATLSLHGWRLRGDPTLHPGGCKVSADEGDLDASVATRWQEL 219
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0358	TCRTETOQM	138	8e-37	Tetracycline resistance protein TetO/TetQ/TetM family ...
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 138 bits (350), Expect = 8e-37 Identities = 98/437 (22%), Positives = 174/437 (39%), Gaps = 85/437 (19%) Query: 9 NIRNFSIIAHIDHGKSTLADCLIAECNAIS---NREMTSQVMDTMDIEKERGITIKAQSV 65 I N ++AH+D GK+TL + L+ AI+ + + + D +E++RGITI+ Sbjct: 2 KIINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGIT 61 Query: 66 RLNYTLKGEDYVLNLIDTPGHVDFSYEVSRSLCSCEGALLVVDATQGVEAQTIANTYIAL 125 + E+ +N+IDTPGH+DF EV RSL +GA+L++ A GV+AQT + Sbjct: 62 SFQW----ENTKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALR 117 Query: 126 DNHLEILPVINKIDLPNANVLEVKQDIEDTIGIDCSNANEVSAKARLGIKD--------- 176 + + INKID ++ V QDI++ + + +V + + + Sbjct: 118 KMGIPTIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNMCVTNFTESEQWDT 177 Query: 177 -------LLEKIITTIPAPSGDFNAPLKALIYD-------------------------SW 204 LLEK ++ + + ++ + Sbjct: 178 VIEGNDDLLEKYMSGKSLEALELEQEESIRFHNCSLFPVYHGSAKNNIGIDNLIEVITNK 237 Query: 205 F--------------------DNYLGALALVRIMDGSINTEQEILVMGTGKKHGVLGLYY 244 F LA +R+ G ++ + + K + +Y Sbjct: 238 FYSSTHRGQSELCGKVFKIEYSEKRQRLAYIRLYSGVLHLRDSVRISEKEKI-KITEMYT 296 Query: 245 PNPLKKIPTKSLECGEIGIV---SLGLKSVTDIAVGDTLTDAKNPTPKPVEGFMPAKPFV 301 + GEI I+ L L SV +GDT P + +E P + Sbjct: 297 SINGELCKIDKAYSGEIVILQNEFLKLNSV----LGDTKLL---PQRERIEN---PLPLL 346 Query: 302 FAGLYPIETDRFEDLREALLKLQLNDCALNFEPESSVALGFGFRVGFLGLLHMEVIKERL 361 + P + + E L +ALL++ +D L + +S+ + FLG + MEV L Sbjct: 347 QTTVEPSKPQQREMLLDALLEISDSDPLLRYYVDSATH---EIILSFLGKVQMEVTCALL 403 Query: 362 EREFGLNLIATAPTVVY 378 + ++ + + PTV+Y Sbjct: 404 QEKYHVEIEIKEPTVIY 420 Score = 31.0 bits (70), Expect = 0.015 Identities = 15/75 (20%), Positives = 28/75 (37%), Gaps = 2/75 (2%) Query: 405 IKEPFVRATIITPSEFLGNLMQLLNNKRGIQEKMEYLNQSRVMLTYSLPSNEIVMDFYDK 464 + EP++ I P E+L + L + V+L+ +P+ I ++ Sbjct: 535 LLEPYLSFKIYAPQEYLSRAYTDAPKYCANIVDTQ-LKNNEVILSGEIPARCI-QEYRSD 592 Query: 465 LKSCTKGYASFDYEP 479 L T G + E Sbjct: 593 LTFFTNGRSVCLTEL 607
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0361	FLGHOOKAP1	30	0.008	Flagellar hook-associated protein signature.
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 30.3 bits (68), Expect = 0.008 Identities = 9/40 (22%), Positives = 16/40 (40%) Query: 3 NGYYAATGAMATQFNRLDLTSNNLANLNTNGFKRDDAITG 42 + A + L+ SNN+++ N G+ R I Sbjct: 2 SLINNAMSGLNAAQAALNTASNNISSYNVAGYTRQTTIMA 41
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0362	TCRTETB	42	3e-06	Tetracycline resistance protein TetB signature.
>TCRTETB#Tetracycline resistance protein TetB signature. Length = 458 Score = 42.2 bits (99), Expect = 3e-06 Identities = 57/315 (18%), Positives = 103/315 (32%), Gaps = 67/315 (21%) Query: 37 APYFAKEFTHTNDPTLALISAFLVFMLGFFMRPLGSLFFGKLGDKKGRKTSMVYSIILMA 96 P A +F T + +AF++ G+ +GKL D+ G K +++ II+ Sbjct: 37 LPDIANDFNKPPASTNWVNTAFMLTFSI------GTAVYGKLSDQLGIKRLLLFGIIINC 90 Query: 97 LGSFLLALLPTKEIVGEWAFLFLLLARLLQGFSVGGE------YGVVATYLSELGKNGKK 150 GS + VG F L++AR +QG G VVA Y+ + + Sbjct: 91 FGSVIGF-------VGHSFFSLLIMARFIQG--AGAAAFPALVMVVVARYIPKENRGKAF 141 Query: 151 GFYGSFQYVTLVGGQLLAIFSLFIVENIYTHEQISTFAWRYLFALGGILALLSLFLRNIM 210 G GS + G + + H W YL + I + FL ++ Sbjct: 142 GLIGSIVAMGEGVGPA--------IGGMIAH----YIHWSYLLLIPMITIITVPFLMKLL 189 Query: 211 EETMDSGITSKTTIKEKIQRGSLKELLNHKKALM-------IVFGLTMGGSLCFYTFTVY 263 + + +K + K ++ + T + Sbjct: 190 K-----------------KEVRIKGHFDIKGIILMSVGIVFFMLFTTSYSISFLIVSVLS 232 Query: 264 LKIFLTNSSSFSSK-------ESSFIMLLALSYFILLQPLCG---MLADKIKRTQMLMVF 313 IF+ + + ++ M+ L I+ + G M+ +K L Sbjct: 233 FLIFVKHIRKVTDPFVDPGLGKNIPFMIGVLCGGIIFGTVAGFVSMVPYMMKDVHQLSTA 292 Query: 314 AIAGLIVTPVVFYGI 328 I +I+ P I Sbjct: 293 EIGSVIIFPGTMSVI 307

HPF16_0743

HPF16_0758

Pathogenicity Island (unbiased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0743	-2	12	-0.987027	adenylate kinase
HPF16_0744	-2	14	-2.157222	aspartyl-tRNA synthetase
HPF16_0745	1	10	-1.364875	chemotaxis protein
HPF16_0746	1	10	-1.307564	NAD-dependent DNA ligase LigA
HPF16_0747	1	8	-0.522798	hypothetical protein
HPF16_0748	2	9	-0.412877	ABC transporter. ATP-binding protein
HPF16_0749	1	9	-0.189645	hypothetical protein
HPF16_0750	1	8	0.323896	putative vacuolating cytotoxin (VacA)-like
HPF16_0751	-1	10	1.249373	hypothetical protein
HPF16_0752	-3	10	0.831370	cytoplasmic pump protein of the hefABC efflux
HPF16_0753	-3	12	0.609882	membrane fusion protein of the hefABC efflux
HPF16_0754	-3	11	-0.616499	outer membrane protein HefA
HPF16_0755	-3	12	-0.663445	uroporphyrinogen decarboxylase
HPF16_0756	-2	10	-1.020028	hypothetical protein
HPF16_0757	-1	10	-0.463435	3-methyladenine DNA glycosylase
HPF16_0758	0	10	-0.117191	flagellin A

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0743	MALTOSEBP	29	0.011	Maltose binding protein signature.
>MALTOSEBP#Maltose binding protein signature. Length = 396 Score = 28.9 bits (64), Expect = 0.011 Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 5/52 (9%) Query: 60 GELVPLEIVVETILSAIKSSDKGIILIDGYPRSMEQMQALDKELNAQNEVVL 111 G+L+ I VE LS I + D L+ P++ E++ ALDKEL A+ + L Sbjct: 127 GKLIAYPIAVEA-LSLIYNKD----LLPNPPKTWEEIPALDKELKAKGKSAL 173
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0745	HTHFIS	55	1e-10	FIS bacterial regulatory protein HTH signature.
>HTHFIS#FIS bacterial regulatory protein HTH signature. Length = 484 Score = 55.2 bits (133), Expect = 1e-10 Identities = 24/110 (21%), Positives = 44/110 (40%), Gaps = 6/110 (5%) Query: 194 ILIAEDSLSALKTLEKIVQTLELRYLAFPNGKELLDYLYEKEHYQQVGVVITDLEMPVIS 253 IL+A+D + L + + N L ++ +V+TD+ MP + Sbjct: 6 ILVADDDAAIRTVLNQALSRAGYDVRITSNAATLWRWIAA----GDGDLVVTDVVMPDEN 61 Query: 254 GFEVLKTIKADSRTEHLPVIINSSMSSDSNRQLAQSLEADGFVVKSNILE 303 F++L IK LPV++ S+ ++ A A ++ K L Sbjct: 62 AFDLLPRIK--KARPDLPVLVMSAQNTFMTAIKASEKGAYDYLPKPFDLT 109
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0747	LCRVANTIGEN	31	6e-04	Low calcium response V antigen signature.
>LCRVANTIGEN#Low calcium response V antigen signature. Length = 326 Score = 31.2 bits (70), Expect = 6e-04 Identities = 16/33 (48%), Positives = 20/33 (60%) Query: 16 KRKKLLTELAELEAEIKVSSERKSSFNISLSPS 48 R KL ELAEL AE+K+ S ++ N LS S Sbjct: 149 ARSKLREELAELTAELKIYSVIQAEINKHLSSS 181
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0750	VACCYTOTOXIN	270	3e-75	Helicobacter pylori vacuolating cytotoxin signature.
>VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature. Length = 1291 Score = 270 bits (692), Expect = 3e-75 Identities = 105/407 (25%), Positives = 188/407 (46%), Gaps = 15/407 (3%) Query: 2786 SAGLNAIES-AGNNSLMWLNALFVAKGGNPLFAPYYLQDNSTEHIVTLMKDITSTLGMLS 2844 S ++ + + +G L L + + +A + S I + T+TL ++ Sbjct: 894 SNDIDTLYANSGAQGRDLLQTLLI-DSHDAGYARTMIDATSANEITKQLNTATTTLNNIA 952 Query: 2845 KSNLKNNSTDVLQLNTYTQQMGRLAKLSSFASFDSTDFSERLSSLKNQRFADAIPNAMDV 2904 K + L L+ RL LS + F++RL +LK+QRFA + +A +V Sbjct: 953 SLEHKTSGLQTLSLSNAMILNSRLVNLSRRHTNHIDSFAKRLQALKDQRFAS-LESAAEV 1011 Query: 2905 ILKYFQRDKLKNNLWATGVGGVSFVENGTGTLYGVNVGYDRFIKG---VIVGGYAAYGYS 2961 + ++ + + N+WA +GG S G +LYG + G D ++ G IVGG+ +YGYS Sbjct: 1012 LYQFAPKYEKPTNVWANAIGGTSLNSGGNASLYGTSAGVDAYLNGEVEAIVGGFGSYGYS 1071 Query: 2962 GFYER--ITSSKSDNVDVGLYARAFIKKSELTFSVNETWGANKTQISSNDTLLSMINQSY 3019 F + +S ++N + G+Y+R F + E F G++++ ++ LL +NQSY Sbjct: 1072 SFSNQANSLNSGANNTNFGVYSRIFANQHEFDFEAQGALGSDQSSLNFKSALLRDLNQSY 1131 Query: 3020 QYSTWTTNARVNYGYDFMFKNKSVIVKPQISLRYYYIGMTGLEGVMNNALYNQFKANADP 3079 Y ++ R +YGYDF F ++++KP + + Y ++G T + + Sbjct: 1132 NYLAYSAATRASYGYDFAFFRNALVLKPSVGVSYNHLGSTNFKS----NSNQKVALKNGA 1187 Query: 3080 SKKSVLMIDFAFENRHYFNKNSYFYAIGGIGRDLLVRSMGDKLVRFIGDNILSYRKGELY 3139 S + + E R+Y+ SYFY G+ ++ + V + + R Sbjct: 1188 SSQHLFNASANVEARYYYGDTSYFYMNAGVLQEFANFGSSNA-VSLNTFKVNATRNP--L 1244 Query: 3140 NTFANITTGGEIRLFKSFYVNAGVGARFGLDYKMINITGNIGMRLAF 3186 NT A + GGE++L K ++N G L + + N+GMR +F Sbjct: 1245 NTHARVMMGGELKLAKEVFLNLGFVYLHNLISNIGHFASNLGMRYSF 1291
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0752	ACRIFLAVINRP	901	0.0	Acriflavin resistance protein family signature.
>ACRIFLAVINRP#Acriflavin resistance protein family signature. Length = 1034 Score = 901 bits (2329), Expect = 0.0 Identities = 285/1038 (27%), Positives = 515/1038 (49%), Gaps = 40/1038 (3%) Query: 1 MYKTAINRPITTLMFALAIVFFGTMGFKKLSVALFPKIDLPTVVVTTTYPGASAEIIESK 60 M I RPI + A+ ++ G + +L VA +P I P V V+ YPGA A+ ++ Sbjct: 1 MANFFIRRPIFAWVLAIILMMAGALAILQLPVAQYPTIAPPAVSVSANYPGADAQTVQDT 60 Query: 61 VTDKIEEAVMGIDGIKKVTSTSSKNVSIVV-IEFELEKPNEEALNDVVNKISSVR-FDDS 118 VT IE+ + GID + ++STS S+ + + F+ + A V NK+ Sbjct: 61 VTQVIEQNMNGIDNLMYMSSTSDSAGSVTITLTFQSGTDPDIAQVQVQNKLQLATPLLPQ 120 Query: 119 NIKKPSINKFDTDSQAIISLFVSSSSVPAT--TLNDYAKKTIKPMLQKIDGVGGVQLNGF 176 +++ I+ + S ++ S + T ++DY +K L +++GVG VQL G Sbjct: 121 EVQQQGISVEKSSSSYLMVAGFVSDNPGTTQDDISDYVASNVKDTLSRLNGVGDVQLFG- 179 Query: 177 RERQIRIYADPTLMNKYNLTYADLFNTLKAENVEIDGGRIVNS------QRELSILVNAN 230 + +RI+ D L+NKY LT D+ N LK +N +I G++ + Q SI+ Sbjct: 180 AQYAMRIWLDADLLNKYKLTPVDVINQLKVQNDQIAAGQLGGTPALPGQQLNASIIAQTR 239 Query: 231 SYSVADVEKIQV-----GNHVRLGDIAKIEIGLEEDNTFASFKDKPGVILEIQKIAGANE 285 + + K+ + G+ VRL D+A++E+G E N A KP L I+ GAN Sbjct: 240 FKNPEEFGKVTLRVNSDGSVVRLKDVARVELGGENYNVIARINGKPAAGLGIKLATGANA 299 Query: 286 IEIVDRVYEALKHIQAISP-NYEIRPFLDTTGYIRTSIEDVKFDLVLGAILAVLVVFAFL 344 ++ + L +Q P ++ DTT +++ SI +V L +L LV++ FL Sbjct: 300 LDTAKAIKAKLAELQPFFPQGMKVLYPYDTTPFVQLSIHEVVKTLFEAIMLVFLVMYLFL 359 Query: 345 RNGTITLVSAISIPISVMGTFALIQWMGFSLNMLTMVALTLAIGIIIDDAIVVIENIHK- 403 +N TL+ I++P+ ++GTFA++ G+S+N LTM + LAIG+++DDAIVV+EN+ + Sbjct: 360 QNMRATLIPTIAVPVVLLGTFAILAAFGYSINTLTMFGMVLAIGLLVDDAIVVVENVERV 419 Query: 404 KLEMGMNERKASYEGVREIGFALVAISAMLLSVFVPIGNMKGIIGRFFQSFGITVALAIA 463 +E + ++A+ + + +I ALV I+ +L +VF+P+ G G ++ F IT+ A+A Sbjct: 420 MMEDKLPPKEATEKSMSQIQGALVGIAMVLSAVFIPMAFFGGSTGAIYRQFSITIVSAMA 479 Query: 464 LSYVVVVTIIPMVSSVVVNPRHS-------RFYVWSEPFFKALESRYTKLLQWVLNHKLI 516 LS +V + + P + + ++ P + F+ W F + YT + +L Sbjct: 480 LSVLVALILTPALCATLLKPVSAEHHENKGGFFGWFNTTFDHSVNHYTNSVGKILGSTGR 539 Query: 517 IFIAVVLVFVGSLFVASKLGMEFMLKEDRGRFLVWLKAKPGVSIDY----MTQKSKIFQK 572 + L+ G + + +L F+ +ED+G FL ++ G + + + Q + + K Sbjct: 540 YLLIYALIVAGMVVLFLRLPSSFLPEEDQGVFLTMIQLPAGATQERTQKVLDQVTDYYLK 599 Query: 573 AIEKHAEVEFTTLQVGY-GTTQNPFKAKIFVQLKPLKERKKEHELGQFELMSALRKELKS 631 + + E FT + G QN FV LKP +ER E ++ + EL Sbjct: 600 NEKANVESVFTVNGFSFSGQAQNA--GMAFVSLKPWEERNG-DENSAEAVIHRAKMELGK 656 Query: 632 MPEAKGLENINLSEVSLIGGGGDSSPFQTFVFSHSQEAVDKSVANLKKFLLESPELKGKI 691 + + + N+ + G ++ F + + D + L + + + Sbjct: 657 IRDGF-VIPFNMPAIV---ELGTATGFDFELIDQAGLGHDALTQARNQLLGMAAQHPASL 712 Query: 692 EGYHTSTSESQPQLQLKILRQNANKYGVSAQTIGSVVSSAFSGTSQASVFKEDGKEYDMI 751 + E Q +L++ ++ A GVS I +S+A G + + F + G+ + Sbjct: 713 VSVRPNGLEDTAQFKLEVDQEKAQALGVSLSDINQTISTALGG-TYVNDFIDRGRVKKLY 771 Query: 752 IRVPDNKRVSVEDIKRLQVRNKYDKLMFLDALVEITETKSPSSISRYNRQRSVTVLAQPK 811 ++ R+ ED+ +L VR+ +++ A + RYN S+ + + Sbjct: 772 VQADAKFRMLPEDVDKLYVRSANGEMVPFSAFTTSHWVYGSPRLERYNGLPSMEIQGEAA 831 Query: 812 AGISLGEILTQVSKNTKEWLVEGANYRFTGEADNAKETNGEFLIALATAFVLIYMILAAL 871 G S G+ + + +N L G Y +TG + + + + +A +FV++++ LAAL Sbjct: 832 PGTSSGDAMALM-ENLASKLPAGIGYDWTGMSYQERLSGNQAPALVAISFVVVFLCLAAL 890 Query: 872 YESILEPFIIMVTMPLSFSGAFFALGLVHQPLSMFSMIGLILLIGMVGKNATLLIDVANE 931 YES P +M+ +PL G A L +Q ++ M+GL+ IG+ KNA L+++ A + Sbjct: 891 YESWSIPVSVMLVVPLGIVGVLLAATLFNQKNDVYFMVGLLTTIGLSAKNAILIVEFAKD 950 Query: 932 -ERKKGLNIQEAILFAGKTRLRPILMTTIAMVCGMLPLALASGDGAAMKSPIGIAMSGGL 990 K+G + EA L A + RLRPILMT++A + G+LPLA+++G G+ ++ +GI + GG+ Sbjct: 951 LMEKEGKGVVEATLMAVRMRLRPILMTSLAFILGVLPLAISNGAGSGAQNAVGIGVMGGM 1010 Query: 991 MISMVLSLLIVPVFYRLL 1008 + + +L++ VPVF+ ++ Sbjct: 1011 VSATLLAIFFVPVFFVVI 1028
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0753	RTXTOXIND	51	1e-09	Gram-negative bacterial RTX secretion protein D signat...
>RTXTOXIND#Gram-negative bacterial RTX secretion protein D signature. Length = 478 Score = 51.0 bits (122), Expect = 1e-09 Identities = 22/69 (31%), Positives = 34/69 (49%) Query: 40 STGIVDSIKVTEGSVVKKGDVLLLLYNQDKQAQSDSTEQQLIFAKKQYQRYSKIGGAVDK 99 IV I V EG V+KGDVLL L +A + T+ L+ A+ + RY + +++ Sbjct: 103 ENSIVKEIIVKEGESVRKGDVLLKLTALGAEADTLKTQSSLLQARLEQTRYQILSRSIEL 162 Query: 100 NTLESYEFN 108 N L + Sbjct: 163 NKLPELKLP 171 Score = 31.3 bits (71), Expect = 0.003 Identities = 21/152 (13%), Positives = 48/152 (31%), Gaps = 25/152 (16%) Query: 70 QAQSDSTEQQLIFAKKQYQR--YSKIGGAVDKNTLESYEFNYRRLESDYAYSIALLNKTI 127 +++ S +++ + ++ K+ D + + E ++ Sbjct: 279 ESEILSAKEEYQLVTQLFKNEILDKLRQTTDN--IGLLTLELAKNEER-------QQASV 329 Query: 128 LRAPFDGVIASKNIQVGEGVSANNTVLLRLVSHARKLVIE--FDSKYINAVKVG------ 179 +RAP + + GV L+ +V L + +K I + VG Sbjct: 330 IRAPVSVKVQQLKVHTEGGVVTTAETLMVIVPEDDTLEVTALVQNKDIGFINVGQNAIIK 389 Query: 180 -DTYTYSIDGDSNQHEAKITKIYP--TVDENT 208 + + Y+ G K+ I D+ Sbjct: 390 VEAFPYTRYGYL---VGKVKNINLDAIEDQRL 418
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0757	PF05272	33	0.001	Virulence-associated E family protein
>PF05272#Virulence-associated E family protein Length = 892 Score = 32.7 bits (74), Expect = 0.001 Identities = 13/95 (13%), Positives = 26/95 (27%), Gaps = 20/95 (21%) Query: 60 ILENDDEINLKKIAYAEFSKLAECVRPSGFYNQKAKRLINLSENILKDFQNFENFKQEAT 119 L + + +A+ E + VR + +KA E+ Sbjct: 458 ALRSAPALA-GCVAFDELREQPVAVRAFPW--RKAPG-------------PLEDADVLRL 501 Query: 120 REWLLDQKGIGKESADAILCYVCAKEVMVVDKYSY 154 +++ G G+ SA + D Sbjct: 502 ADYVETTYGTGEASAQTTEQAINV----AADMNRV 532
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0758	FLAGELLIN	245	2e-77	Flagellin signature.
>FLAGELLIN#Flagellin signature. Length = 507 Score = 245 bits (627), Expect = 2e-77 Identities = 126/518 (24%), Positives = 209/518 (40%), Gaps = 22/518 (4%) Query: 2 AFRVNTNINAMNAHVQSALTQNALKTSLERLSSGLRINKAADDASGMTVADSLRSQANSL 61 A +NTN ++ +Q++L +++ERLSSGLRIN A DDA+G +A+ S L Sbjct: 1 AQVINTNSLSLLTQNNLNKSQSSLSSAIERLSSGLRINSAKDDAAGQAIANRFTSNIKGL 60 Query: 62 GQAIANTNDGMGIIQVADKAMDEQLKILDTVKVKATQAAQDGQTTESRKAIQSDIVRLIQ 121 QA N NDG+ I Q + A++E L V+ + QA + K+IQ +I + ++ Sbjct: 61 TQASRNANDGISIAQTTEGALNEINNNLQRVRELSVQATNGTNSDSDLKSIQDEIQQRLE 120 Query: 122 GLDNIGNTTTYNGQALLSGQFTNKEFQVGAYSNQSIKASIGSTTSDKIGQVRI-ATGALI 180 +D + N T +NG +LS + QVGA ++I + +G G Sbjct: 121 EIDRVSNQTQFNGVKVLSQDN-QMKIQVGANDGETITIDLQKIDVKSLGLDGFNVNGPKE 179 Query: 181 TASGDISLTFKQVDGVNDVTLESVKISSSAGTGIGVLAEVINKNSNQTGVKAYASVITTS 240 GD+ +FK V G + + + K +G V ++ V A +TT Sbjct: 180 ATVGDLKSSFKNVTGYDTYAVGANKYRVDVNSGAVVTDTTAPTVPDKVYVNAANGQLTTD 239 Query: 241 DVAVQSGSLSNLTLNGIHLGNIADIKKNDSDGRLVAAINAVTSETGVEAYTDQNGRLNLR 300 D N + K A A+ + + + + Sbjct: 240 DAE-----------NNTAVDLFKTTKSTAGTAEAKAIAGAIKGGKEGDTFDYKGVTFTID 288 Query: 301 SLDGRGIEIKTDSVSNGPSALTMVNGGQDLTKGSTNYGRLSLTRLDAKSINV------VS 354 + G K + NG V S + +N + Sbjct: 289 TKTGNDGNGKVSTTINGEKVTLTVADITAGAANVDAATLQSSKNVYTSVVNGQFTFDDKT 348 Query: 355 ASDSQHLGFTAIGFGESQVAETTVNLRDVTGNFNANVKSASGANYNAVIASGNQSL---G 411 ++S L ++ TVN + T N + + +G + S Sbjct: 349 KNESAKLSDLEANNAVKGESKITVNGAEYTANAAGDKVTLAGKTMFIDKTASGVSTLINE 408 Query: 412 AGVTTLRGAMVVIDIAESAMKMLDKVRSDLGSVQNQMISTVNNISITQVNVKAAESQIRD 471 + + +SA+ +D VRS LG++QN+ S + N+ T N+ +A S+I D Sbjct: 409 DAAAAKKSTANPLASIDSALSKVDAVRSSLGAIQNRFDSAITNLGNTVTNLNSARSRIED 468 Query: 472 VDFAEESANFNKNNILAQSGSYAMSQANTVQQNILRLL 509 D+A E +N +K IL Q+G+ ++QAN V QN+L LL Sbjct: 469 ADYATEVSNMSKAQILQQAGTSVLAQANQVPQNVLSLL 506

HPF16_0871

HPF16_0878

Pathogenicity Island (unbiased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_0871	0	11	1.737541	cysteinyl-tRNA synthetase
HPF16_0872	1	12	2.012113	vacuolating cytotoxin A
HPF16_0873	-1	17	1.508661	iron(III) dicitrate transporter, ATP-binding
HPF16_0874	-1	14	3.215202	iron(III) dicitrate ABC transporter, permease
HPF16_0875	-1	13	2.045131	short-chain oxidoreductase
HPF16_0876	-2	14	2.367917	hypothetical protein
HPF16_0877	-1	16	2.255358	hypothetical protein
HPF16_0878	-1	16	2.537667	hypothetical protein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0871	OMS28PORIN	30	0.018	OMS28 porin signature.
>OMS28PORIN#OMS28 porin signature. Length = 257 Score = 30.1 bits (67), Expect = 0.018 Identities = 13/37 (35%), Positives = 25/37 (67%) Query: 309 EEDLLVSKKRLDKIYRLKQRVLGTLGGINPNFKKEIL 345 +E L+ S++ LD+ + Q+VL + G+NP+ K ++L Sbjct: 188 KETLMASERALDETVQEAQKVLNMVNGLNPSNKDQVL 224
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0872	VACCYTOTOXIN	2023	0.0	Helicobacter pylori vacuolating cytotoxin signature.
>VACCYTOTOXIN#Helicobacter pylori vacuolating cytotoxin signature. Length = 1291 Score = 2023 bits (5242), Expect = 0.0 Identities = 1176/1291 (91%), Positives = 1228/1291 (95%) Query: 1 MELQQTHRKINRPLVSLALVGLLVSITPQKSHAAFFTTVIIPAIVGGIATGAAVGTVSGL 60 ME+QQTHRKINRPLVSLALVG LVSITPQ+SHAAFFTTVIIPAIVGGIATGAAVGTVSGL Sbjct: 1 MEIQQTHRKINRPLVSLALVGALVSITPQQSHAAFFTTVIIPAIVGGIATGAAVGTVSGL 60 Query: 61 LGWGLKQAEEANKTPDKPDKVWRIQAGRGFNEFPNKEYDLYKSLLSSKIDGGWDWGNAAR 120 LGWGLKQAEEANKTPDKPDKVWRIQAG+GFNEFPNKEYDLYKSLLSSKIDGGWDWGNAAR Sbjct: 61 LGWGLKQAEEANKTPDKPDKVWRIQAGKGFNEFPNKEYDLYKSLLSSKIDGGWDWGNAAR 120 Query: 121 HYWVKGGQWNKLEVDMKDAVGTYKLSGLRNFTGGDLDVNMQKATLRLGQFNGNSFTSFKD 180 HYWVK GQWNKLEVDM++AVGTY LSGL NFTGGDLDVNMQKATLRLGQFNGNSFTS+KD Sbjct: 121 HYWVKDGQWNKLEVDMQNAVGTYNLSGLINFTGGDLDVNMQKATLRLGQFNGNSFTSYKD 180 Query: 181 SADRTTRVDFNAKNILIDNFLEINNRVGSGAGRKASSTVLTLQASEGITSGKNAEISLYD 240 SADRTTRVDFNAKNILIDNFLEINNRVGSGAGRKASSTVLTLQASEGITS +NAEISLYD Sbjct: 181 SADRTTRVDFNAKNILIDNFLEINNRVGSGAGRKASSTVLTLQASEGITSRENAEISLYD 240 Query: 241 GATLNLASNSVKLMGNVWMGRLQYVGAYLAPSYSTINTSKVVGEVNFNHLTVGDRNAAQA 300 GATLNLASNSVKLMGNVWMGRLQYVGAYLAPSYSTINTSKV GEVNFNHLTVGD NAAQA Sbjct: 241 GATLNLASNSVKLMGNVWMGRLQYVGAYLAPSYSTINTSKVTGEVNFNHLTVGDHNAAQA 300 Query: 301 GIIASKKTYIGTLDLWQSAGLNIIAPPEGGYKDKPNNTNSQSGAKNDKNESAKNDKQDSN 360 GIIAS KT+IGTLDLWQSAGLNIIAPPEGGYKDKPN+ S + N KN+ ++ + +SN Sbjct: 301 GIIASNKTHIGTLDLWQSAGLNIIAPPEGGYKDKPNDKPSNTTQNNAKNDKQESSQNNSN 360 Query: 361 TQVINPPNSGQKTEIQPTQVIDGPFAGAKDTVVNINRINTNADGTIKVGGYTASLTTNAA 420 TQVINPPNS QKTEIQPTQVIDGPFAG K+TVVNINRINTNADGTI+VGG+ ASLTTNAA Sbjct: 361 TQVINPPNSAQKTEIQPTQVIDGPFAGGKNTVVNINRINTNADGTIRVGGFKASLTTNAA 420 Query: 421 HLNIGKGGVNLSNQASGRSLLVENLTGNITVDGALRVNNQVGGYALAGSSANFEFKAGVD 480 HL+IGKGG+NLSNQASGRSLLVENLTGNITVDG LRVNNQVGGYALAGSSANFEFKAG D Sbjct: 421 HLHIGKGGINLSNQASGRSLLVENLTGNITVDGPLRVNNQVGGYALAGSSANFEFKAGTD 480 Query: 481 TKNGTIAFNNNISLGRFVNLKASAHTVNFKDIDTGNGGFNTLDFSGVTNKVNINKLITAS 540 TKNGT FNN+ISLGRFVNLK AHT NFK IDTGNGGFNTLDFSGVTNKVNINKLITAS Sbjct: 481 TKNGTATFNNDISLGRFVNLKVDAHTANFKGIDTGNGGFNTLDFSGVTNKVNINKLITAS 540 Query: 541 TNVAVKNFNINELLVKTNGISVGEYTNFSEDIGNQSRINTVRLETGTRSIYSGGVKFKGG 600 TNVAVKNFNINEL+VKTNG+SVGEYT+FSEDIG+QSRINTVRLETGTRSIYSGGVKFKGG Sbjct: 541 TNVAVKNFNINELVVKTNGVSVGEYTHFSEDIGSQSRINTVRLETGTRSIYSGGVKFKGG 600 Query: 601 EKLVINDFYYAPWNYFDARNIKNVEITNKLAFGPQGSPYGTAKLMFNNLTLGPNAVMDYS 660 EKLVINDFYYAPWNYFDARNIKNVEITNKLAFGPQGSP+GTAKLMFNNLTLG NAVMDYS Sbjct: 601 EKLVINDFYYAPWNYFDARNIKNVEITNKLAFGPQGSPWGTAKLMFNNLTLGQNAVMDYS 660 Query: 661 QFSNVTIQGNFINNQGTINYLVRGGNIETLNVGNAAVMSFNNDIDSATGFYKPLVKINSA 720 QFSN+TIQG+F+NNQGTINYLVRGG + TLNVGNAA M F+N++DSATGFY+PL+KINSA Sbjct: 661 QFSNLTIQGDFVNNQGTINYLVRGGQVATLNVGNAAAMFFSNNVDSATGFYQPLMKINSA 720 Query: 721 QDLIKNKEHVLLKAKIIGYENASLGTNSISNANLIEQFNERLALYNNNNRMDTCVVRNTD 780 QDLIKNKEHVLLKAKIIGY N S GT+SI+N NLIEQF ERLALYNNNNRMD CVVRNTD Sbjct: 721 QDLIKNKEHVLLKAKIIGYGNVSAGTDSIANVNLIEQFKERLALYNNNNRMDICVVRNTD 780 Query: 781 DIKACGMAIGDQAMVNNPDNYKYLIGKAWKNIGISKTANGSKISVRYLGNSTPTENGGNT 840 DIKACG AIG+Q+MVNNP+NYKYL GKAWKNIGISKTANGSKISV YLGNSTPTENGGNT Sbjct: 781 DIKACGTAIGNQSMVNNPENYKYLEGKAWKNIGISKTANGSKISVHYLGNSTPTENGGNT 840 Query: 841 TNLPTNTTNNARFARYALIKNAPFAQTSATPNLVAINKHDFGTIESVFELANRSKDIHAL 900 TNLPTNTTN RFA YALIKNAPFA+ SATPNLVAIN+HDFGTIESVFELANRS DI L Sbjct: 841 TNLPTNTTNKVRFASYALIKNAPFARYSATPNLVAINQHDFGTIESVFELANRSNDIDTL 900 Query: 901 YAHSGAQGRDLLQTLLIDSHNAGYARTMIDATSANEITKQLNEANSALNNIASLEHKTSG 960 YA+SGAQGRDLLQTLLIDSH+AGYARTMIDATSANEITKQLN A + LNNIASLEHKTSG Sbjct: 901 YANSGAQGRDLLQTLLIDSHDAGYARTMIDATSANEITKQLNTATTTLNNIASLEHKTSG 960 Query: 961 LQTLSLSNAMILNSRLVNLSRRHTNNIDSFARRLQALKDQRFASLESAAEVLYQFAPKYE 1020 LQTLSLSNAMILNSRLVNLSRRHTN+IDSFA+RLQALKDQRFASLESAAEVLYQFAPKYE Sbjct: 961 LQTLSLSNAMILNSRLVNLSRRHTNHIDSFAKRLQALKDQRFASLESAAEVLYQFAPKYE 1020 Query: 1021 KPTNVWANAIGGASLNSGGNTSLYGTSAGVDAYLNEKVEAIVGGFGSYGYSSFNNQANSL 1080 KPTNVWANAIGG SLNSGGN SLYGTSAGVDAYLN +VEAIVGGFGSYGYSSF+NQANSL Sbjct: 1021 KPTNVWANAIGGTSLNSGGNASLYGTSAGVDAYLNGEVEAIVGGFGSYGYSSFSNQANSL 1080 Query: 1081 NSGANNANFGVYSRIFANRHEFDFEAQGAVGSDQSSLNFKSALLRDLNQSYNYLAYGAAT 1140 NSGANN NFGVYSRIFAN+HEFDFEAQGA+GSDQSSLNFKSALLRDLNQSYNYLAY AAT Sbjct: 1081 NSGANNTNFGVYSRIFANQHEFDFEAQGALGSDQSSLNFKSALLRDLNQSYNYLAYSAAT 1140 Query: 1141 RASYGYDFAFFRNALVLKPSVGVSYNHLGSTNFESNSTNKTALKNGASSQHLFNASANVE 1200 RASYGYDFAFFRNALVLKPSVGVSYNHLGSTNF+SNS K ALKNGASSQHLFNASANVE Sbjct: 1141 RASYGYDFAFFRNALVLKPSVGVSYNHLGSTNFKSNSNQKVALKNGASSQHLFNASANVE 1200 Query: 1201 ARYYYGDTSYFYMNAGVLQEFANFGSSNAVSLNTFKVNAARNPLNTHARVMMGGELKLAK 1260 ARYYYGDTSYFYMNAGVLQEFANFGSSNAVSLNTFKVNA RNPLNTHARVMMGGELKLAK Sbjct: 1201 ARYYYGDTSYFYMNAGVLQEFANFGSSNAVSLNTFKVNATRNPLNTHARVMMGGELKLAK 1260 Query: 1261 EVFLNLGFVYLHNLISNIGHFASNLGMRYSF 1291 EVFLNLGFVYLHNLISNIGHFASNLGMRYSF Sbjct: 1261 EVFLNLGFVYLHNLISNIGHFASNLGMRYSF 1291
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0875	DHBDHDRGNASE	89	4e-23	2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase sig...
>DHBDHDRGNASE#2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase signature. Length = 261 Score = 89.0 bits (220), Expect = 4e-23 Identities = 59/243 (24%), Positives = 108/243 (44%), Gaps = 12/243 (4%) Query: 1 MGEKKESQKVAIITGASSGIGLECALMLLDQGYKVYALSRHATLCVALNHALC------E 54 M K K+A ITGA+ GIG A L QG + A+ + + +L E Sbjct: 1 MNAKGIEGKIAFITGAAQGIGEAVARTLASQGAHIAAVDYNPEKLEKVVSSLKAEARHAE 60 Query: 55 SIDIDVSDSNALKEVFSNISAKEDHCDVLINSAGYGVFGSVEDTPIDEVKKQFGVNFFAL 114 + DV DS A+ E+ + I + D+L+N AG G + +E + F VN + Sbjct: 61 AFPADVRDSAAIDEITARIEREMGPIDILVNVAGVLRPGLIHSLSDEEWEATFSVNSTGV 120 Query: 115 CEVVQFCLPLLKNKPHSKIFNLSSIAGRVSMLFLGHYSASKHALEAYSDALRLELKPFNI 174 + + ++ I + S V + Y++SK A ++ L LEL +NI Sbjct: 121 FNASRSVSKYMMDRRSGSIVTVGSNPAGVPRTSMAAYASSKAAAVMFTKCLGLELAEYNI 180 Query: 175 QVCLIEPGPVKSNWEKTAFSVESFESENSLYALEVNAAKSFYSGV-YQKALSPKAVAQKI 233 + ++ PG +++ + + ++ EN + + ++F +G+ +K P +A + Sbjct: 181 RCNIVSPGSTETDMQWSLWA-----DENGAEQVIKGSLETFKTGIPLKKLAKPSDIADAV 235 Query: 234 VFL 236 +FL Sbjct: 236 LFL 238
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_0878	SECA	31	7e-04	SecA protein signature.
>SECA#SecA protein signature. Length = 901 Score = 31.4 bits (71), Expect = 7e-04 Identities = 16/78 (20%), Positives = 35/78 (44%), Gaps = 12/78 (15%) Query: 4 SPTKKDYTRYSEKQLFNLINQLEQKIKKMQNDRASFKEKMAKELDKRDQNFKDKIDALNE 63 S + R +++ N+IN +E +++K+ ++ EL + F+ +++ Sbjct: 12 SRNDRTLRRM--RKVVNIINAMEPEMEKLSDE----------ELKGKTAEFRARLEKGEV 59 Query: 64 LLQKISQAFDDKRDCCFR 81 L I +AF R+ R Sbjct: 60 LENLIPEAFAVVREASKR 77

HPF16_1277

HPF16_1282

Pathogenicity Island (unbiased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1277	-3	12	0.317912	nodulation protein
HPF16_1278	-3	10	-0.162855	GDP-D-mannose dehydratase
HPF16_1279	-2	9	-0.416085	mannose-6-phosphate isomerase
HPF16_1280	-1	11	-0.490587	comB10 competence protein
HPF16_1281	-2	10	-0.948631	comB9 competence protein
HPF16_1282	-2	11	0.126759	comB8 competence protein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1277	NUCEPIMERASE	48	2e-08	Nucleotide sugar epimerase signature.
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 48.2 bits (115), Expect = 2e-08 Identities = 51/346 (14%), Positives = 105/346 (30%), Gaps = 54/346 (15%) Query: 5 ILITGAYGMVGQNTVLYFKKNKPDV-----------ALLTPKKSELY-----------LL 42 L+TGA G +G + + V L + EL L Sbjct: 3 YLVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQPGFQFHKIDLA 62 Query: 43 DKDNVQAYLKEYKPTCIIHCAGRVGGIVANMNDLSTYMVENLLMGLYLFSSALDLGVKKA 102 D++ + + R + ++ + Y NL L + ++ Sbjct: 63 DREGMTDLFASGHFERVFISPHR-LAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQHL 121 Query: 103 INLASSCAYPKFAPNPLKESDLLNGSLEPTNEGYALAKLSVMKYCEYVSAEKGVFYKTLV 162 + +SS Y P D ++ + YA K + S G+ L Sbjct: 122 LYASSSSVYGLNRKMPFSTDDSVDHPVSL----YAATKKANELMAHTYSHLYGLPATGLR 177 Query: 163 PCNLYGEFDKFEEKIAHMIPGLIARMHTAKLKNEKEFVMWGDGTARREYLNAKDLARFIS 222 +YG + + P + T + K ++ G +R++ D+A I Sbjct: 178 FFTVYGPWGR---------PDMALFKFTKAMLEGKSIDVYNYGKMKRDFTYIDDIAEAII 228 Query: 223 LAYENIASIPS-----------------VMNVGSGVDYSIEEYYKMIARVLDYKGAFVKD 265 + I + V N+G+ + +Y + + L + Sbjct: 229 RLQDVIPHADTQWTVETGTPAASIAPYRVYNIGNSSPVELMDYIQALEDALGIEAKKNML 288 Query: 266 LSKPVGMQQKLMDISK-QKALKWELEIPLEQGIKEAYEYYLKLLEV 310 +P + + D + + + E ++ G+K +Y +V Sbjct: 289 PLQPGDVLETSADTKALYEVIGFTPETTVKDGVKNFVNWYRDFYKV 334
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1278	NUCEPIMERASE	88	1e-21	Nucleotide sugar epimerase signature.
>NUCEPIMERASE#Nucleotide sugar epimerase signature. Length = 334 Score = 87.9 bits (218), Expect = 1e-21 Identities = 46/180 (25%), Positives = 72/180 (40%), Gaps = 19/180 (10%) Query: 7 LITGVTGQDGSYLAEYLLNLGYEVHGLKRRSSSINTSRIDHLYEDLHSEHKRRFFLHYGD 66 L+TG G G ++++ LL G++V G+ + + S E L F H D Sbjct: 4 LVTGAAGFIGFHVSKRLLEAGHQVVGIDNLNDYYDVSLKQARLELLAQP---GFQFHKID 60 Query: 67 MTDSSNLIHLIATTKPTEIYNLAAQSHVKVSFETPEYTANADGIGTLRILEAMRILGLEK 126 + D + L A+ ++ + V+ S E P A+++ G L ILE R ++ Sbjct: 61 LADREGMTDLFASGHFERVFISPHRLAVRYSLENPHAYADSNLTGFLNILEGCRHNKIQ- 119 Query: 127 KTRFYQASTSELYGEVLETPQNENTPF-------NPRSPYAVAKMYAFYITKNYREAYNL 179 AS+S +YG N PF +P S YA K + Y Y L Sbjct: 120 --HLLYASSSSVYGL------NRKMPFSTDDSVDHPVSLYAATKKANELMAHTYSHLYGL 171
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1281	TYPE4SSCAGX	32	0.003	Type IV secretion system CagX conjugation protein si...
>TYPE4SSCAGX#Type IV secretion system CagX conjugation protein signature. Length = 522 Score = 32.1 bits (72), Expect = 0.003 Identities = 26/72 (36%), Positives = 37/72 (51%), Gaps = 8/72 (11%) Query: 190 KEETKEEETITIGDNTNAMKIVKKDIQKGYRALKSSQ--RKWYCLGICSKKSKLSLMPEE 247 KE+ +EE+ I D A+ + Q + ALK + R + K+SK +MP E Sbjct: 365 KEKIREEKQKIILDQAKAL-----ETQYVHNALKRNPVPRNYNYYQAPEKRSK-HIMPSE 418 Query: 248 IFNDKQFTYFKF 259 IF+D FTYF F Sbjct: 419 IFDDGTFTYFGF 430
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1282	PF04335	133	1e-40	VirB8 type IV secretion protein
>PF04335#VirB8 type IV secretion protein Length = 227 Score = 133 bits (336), Expect = 1e-40 Identities = 38/202 (18%), Positives = 73/202 (36%), Gaps = 4/202 (1%) Query: 40 QSVFRLERNRLKIAYKLLGLMSFIALVLAIVLISVLPLQKTEHHF--VDFLNQDKHYAII 97 + K+A+ + G+ +A + + ++ PL+ E + VD + A Sbjct: 22 RDKLAAAERSKKLAWVVAGVAGALATAGVVAVAALTPLKTVEPYVITVDRNTGEASIAAK 81 Query: 98 QRADKSISSNEALARSLIGAYVLNRESINRIDDKSRYELVRLQSSSKVWQRFEDLIKTQN 157 D +I+ +EA+ + + YV RE + ++ V + S+ R+ KT N Sbjct: 82 LHGDATITYDEAVRKYFLATYVRYREGWIAAAREEYFDAVMVMSARPEQDRWSRFYKTDN 141 Query: 158 SIYAQSHLEREVHI-VNIAIYQQDNNPIASVSIAAKLMNENKLVYEKRYKIVLSYLFDTP 216 Q+ L + V I +A V + + + + + Y D Sbjct: 142 PQSPQNILANRTDVFVEIKRVSFLGGNVAQVYFTKESVTGSNST-KTDAVATIKYKVDGT 200 Query: 217 DFDYASMPKNPTGFKVTRYSIT 238 KNP G++V Y Sbjct: 201 PSKEVDRFKNPLGYQVESYRAD 222

HPF16_1346

HPF16_1352

Pathogenicity Island (unbiased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1346	0	12	0.247095	putative inner membrane protein translocase
HPF16_1347	-1	11	0.160761	hypothetical protein
HPF16_1348	0	8	0.749886	tRNA modification GTPase TrmE
HPF16_1349	1	10	1.296547	outer membrane protein HomD
HPF16_1350	-2	13	0.711508	hypothetical protein
HPF16_1351	-1	12	1.606874	hypothetical protein
HPF16_1352	-2	10	1.787155	membrane-associated lipoprotein

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1346	60KDINNERMP	423	e-145	60kDa inner membrane protein signature.
>60KDINNERMP#60kDa inner membrane protein signature. Length = 548 Score = 423 bits (1089), Expect = e-145 Identities = 166/568 (29%), Positives = 279/568 (49%), Gaps = 55/568 (9%) Query: 10 RLILAIALSFLFIALYSYFFQKPNKTTTPTTKQETTNNHTATNSNTPNTFSPTQAIPQEN 69 R +L IAL F+ ++ Q + P + + T T T + A Q Sbjct: 5 RNLLVIALLFVSFMIW----QAWEQDKNPQPQAQQTTQTTTT-AAGSAADQGVPASGQGK 59 Query: 70 LLSTISFEHARIEIDSLGR--IKQVYLKDKKYLTPKQKGFLEHVSHLFNPKANVQPLLKE 127 L+ ++ + + I++ G + + K L Q L S F +A ++ Sbjct: 60 LI-SVKTDVLDLTINTRGGDVEQALLPAYPKELNSTQPFQLLETSPQFIYQAQSGLTGRD 118 Query: 128 LPLLATDKLKPLEVRFLDPTLNNKAFNTPYSASKTTLGPNEQLV--LTQDLGALTIIKTL 185 P + +PL +N A G NE V D T KT Sbjct: 119 GPDNPANGPRPL-------------YNVEKDAYVLAEGQNELQVPMTYTDAAGNTFTKTF 165 Query: 186 TFYDDLHYDLQIAFKSPN--------NIIPSYVITNGYRPVADLDS-----YTFSGVLLE 232 Y + + + N + + P D S +TF G Sbjct: 166 VLKRG-DYAVNVNYNVQNAGEKPLEISSFGQLKQSITLPPHLDTGSSNFALHTFRGAAYS 224 Query: 233 NNDKKIEKIE---DKDAKEIKRFSNTLFLSSVDRYFTTLLFTKDPQGFEALIDSEIGTKN 289 D+K EK + D + + S +++ + +YF T + G + +G N Sbjct: 225 TPDEKYEKYKFDTIADNENLNISSKGGWVAMLQQYFATAWIPHN-DGTNNFYTANLG--N 281 Query: 290 PLGFISLKSEA-----------NLHGYIGPKDYLSLKAISPMLTDVIEYGLITFFAKGVF 338 + I KS+ N ++GP+ + A++P L ++YG + F ++ +F Sbjct: 282 GIAAIGYKSQPVLVQPGQTGAMNSTLWVGPEIQDKMAAVAPHLDLTVDYGWLWFISQPLF 341 Query: 339 VLLDYLYQFVGNWGWAIILLTIIVRLILYPLSYKGMVSMQKLKEIAPKMKELQEKYKGEP 398 LL +++ FVGNWG++II++T IVR I+YPL+ SM K++ + PK++ ++E+ + Sbjct: 342 KLLKWIHSFVGNWGFSIIIITFIVRGIMYPLTKAQYTSMAKMRMLQPKIQAMRERLGDDK 401 Query: 399 QKLQAHMMQLYKKHGANPLGGCLPLILQIPVFFAIYRVLYNAVELKSSEWILWIHDLSIM 458 Q++ MM LYK NPLGGC PL++Q+P+F A+Y +L +VEL+ + + LWIHDLS Sbjct: 402 QRISQEMMALYKAEKVNPLGGCFPLLIQMPIFLALYYMLMGSVELRQAPFALWIHDLSAQ 461 Query: 459 DPYFILPLLMGTSMYWHQSVTPSSVTDPMQAKIFKFLPLLFTIFLITFPAGLVLYWTTNN 518 DPY+ILP+LMG +M++ Q ++P++VTDPMQ KI F+P++FT+F + FP+GLVLY+ +N Sbjct: 462 DPYYILPILMGVTMFFIQKMSPTTVTDPMQQKIMTFMPVIFTVFFLWFPSGLVLYYIVSN 521 Query: 519 ILSVLQQLIINKVLENKKRAHAQNKKES 546 +++++QQ +I + LE K+ H++ KK+S Sbjct: 522 LVTIIQQQLIYRGLE-KRGLHSREKKKS 548
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1347	DPTHRIATOXIN	31	0.004	Diphtheria toxin signature.
>DPTHRIATOXIN#Diphtheria toxin signature. Length = 567 Score = 31.3 bits (70), Expect = 0.004 Identities = 24/76 (31%), Positives = 41/76 (53%), Gaps = 2/76 (2%) Query: 17 IQASIALNCPIINLQYEVIQTPSKGFLNIGKKEAIILAGVKESV-KEVKEESVKETSTKE 75 ++ S+ + INL ++VI+ +K + K+ I + ES K V EE K+ +E Sbjct: 223 VRRSVGSSLSCINLDWDVIRDKTKTKIESLKEHGPIKNKMSESPNKTVSEEKAKQY-LEE 281 Query: 76 IHQSAEEKKQNSEIET 91 HQ+A E + SE++T Sbjct: 282 FHQTALEHPELSELKT 297
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1348	TCRTETOQM	32	0.006	Tetracycline resistance protein TetO/TetQ/TetM family ...
>TCRTETOQM#Tetracycline resistance protein TetO/TetQ/TetM family signature. Length = 639 Score = 31.7 bits (72), Expect = 0.006 Identities = 32/134 (23%), Positives = 53/134 (39%), Gaps = 25/134 (18%) Query: 216 LSIVGKPNAGKSSLLNAMLLEERA---LVSDIKGTTR-DTIEE-------------VIEL 258 + ++ +AGK++L ++L A L S KGTTR D + Sbjct: 6 IGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQW 65 Query: 259 QGHKVRLIDTAGIRESADKIERLGIEKSLKSLENCDIILGVFDLSKPLEKEDFNLIDTLN 318 + KV +IDT G + ++ R SL L D + + ++ + L L Sbjct: 66 ENTKVNIIDTPGHMDFLAEVYR-----SLSVL---DGAILLISAKDGVQAQTRILFHALR 117 Query: 319 RAKKPCIVVLNKND 332 + P I +NK D Sbjct: 118 KMGIPTIFFINKID 131
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1352	LIPOLPP20	293	e-105	LPP20 lipoprotein precursor signature.
>LIPOLPP20#LPP20 lipoprotein precursor signature. Length = 175 Score = 293 bits (752), Expect = e-105 Identities = 174/175 (99%), Positives = 175/175 (100%) Query: 1 MKNQVKKILGMSVIAAMVIVGCSHAPKSGISKSNKAYKEATKGAPDWVVGDLEKVAKYEK 60 MKNQVKKILGMSV+AAMVIVGCSHAPKSGISKSNKAYKEATKGAPDWVVGDLEKVAKYEK Sbjct: 1 MKNQVKKILGMSVVAAMVIVGCSHAPKSGISKSNKAYKEATKGAPDWVVGDLEKVAKYEK 60 Query: 61 YSGVFLGRAEDLITNNDVDYSTNQATAKARANLAANLKSTLQKDLENEKTRTVDASGKRS 120 YSGVFLGRAEDLITNNDVDYSTNQATAKARANLAANLKSTLQKDLENEKTRTVDASGKRS Sbjct: 61 YSGVFLGRAEDLITNNDVDYSTNQATAKARANLAANLKSTLQKDLENEKTRTVDASGKRS 120 Query: 121 ISGTDTEKISQLVDKELIASKMLARYVGKDRVFVLVGLDKQIVDKVREELGMVKK 175 ISGTDTEKISQLVDKELIASKMLARYVGKDRVFVLVGLDKQIVDKVREELGMVKK Sbjct: 121 ISGTDTEKISQLVDKELIASKMLARYVGKDRVFVLVGLDKQIVDKVREELGMVKK 175

HPF16_1472

HPF16_1479

Pathogenicity Island (unbiased-composition)

LocusTag	DNBias	CDNBias	%GCBias	Product
HPF16_1472	-1	12	1.621368	flagellar hook-basal body protein FliE
HPF16_1473	-2	12	1.554968	flagellar basal body rod protein FlgC
HPF16_1474	1	12	1.486469	flagellar basal body rod protein FlgB
HPF16_1475	1	12	0.958843	putative rod shape-determining protein
HPF16_1476	0	14	-0.112525	hypothetical protein
HPF16_1477	1	14	0.302609	putative peroxidase
HPF16_1478	0	13	-0.274860	outer membrane protein
HPF16_1479	1	14	-0.274860	penicillin-binding protein 2

ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1472	FLGHOOKFLIE	77	6e-22	Flagellar hook-basal body complex protein FliE signa...
>FLGHOOKFLIE#Flagellar hook-basal body complex protein FliE signature. Length = 103 Score = 77.0 bits (189), Expect = 6e-22 Identities = 19/77 (24%), Positives = 40/77 (51%), Gaps = 1/77 (1%) Query: 34 EQKGGEFSKLLKQSINELNNTQEQSDKALADMATGQIK-DLHQAAIAIGKAETSMKLMLE 92 Q F+ L +++ +++TQ + G+ L+ + KA SM++ ++ Sbjct: 27 PQPTISFAGQLHAALDRISDTQTAARTQAEKFTLGEPGVALNDVMTDMQKASVSMQMGIQ 86 Query: 93 VRNKAISAYKELLRTQI 109 VRNK ++AY+E++ Q+ Sbjct: 87 VRNKLVAAYQEVMSMQV 103
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1473	FLGHOOKAP1	28	0.016	Flagellar hook-associated protein signature.
>FLGHOOKAP1#Flagellar hook-associated protein signature. Length = 546 Score = 28.4 bits (63), Expect = 0.016 Identities = 10/38 (26%), Positives = 15/38 (39%) Query: 121 NVNAVVEMADLVEATRAYQANVVAFQSAKNMAQNAIGM 158 VN E +L + Y AN Q+A + I + Sbjct: 508 GVNLDEEYGNLQRFQQYYLANAQVLQTANAIFDALINI 545
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1476	FERRIBNDNGPP	34	6e-04	Ferrichrome-binding periplasmic protein signature.
>FERRIBNDNGPP#Ferrichrome-binding periplasmic protein signature. Length = 296 Score = 34.2 bits (78), Expect = 6e-04 Identities = 31/183 (16%), Positives = 74/183 (40%), Gaps = 10/183 (5%) Query: 106 NVELLKKLSPDLVVTFVGNPKAVEHAKKF--GISFLSFQEKTIAEVMEDID---AQAKAL 160 N+ELL ++ P +V G + E + G F K + A L Sbjct: 88 NLELLTEMKPSFMVWSAGYGPSPEMLARIAPGRGFNFSDGKQPLAMARKSLTEMADLLNL 147 Query: 161 EIDASKKLAKMQETLDFIKERL-KDVKKKKGVELFHKAN--KISGHQALDSDILEKGGID 217 + A LA+ ++ + +K R K + + + G +L +IL++ GI Sbjct: 148 QSAAETHLAQYEDFIRSMKPRFVKRGARPLLLTTLIDPRHMLVFGPNSLFQEILDEYGIP 207 Query: 218 N-FGLKYVKFGRADVSVEKIVK-ENPEIIFIWWISPLTPEDVLNNPKFSTIKAIKNKQVY 275 N + + +G VS++++ ++ +++ + + ++ P + + ++ + Sbjct: 208 NAWQGETNFWGSTAVSIDRLAAYKDVDVLCFDHDNSKDMDALMATPLWQAMPFVRAGRFQ 267 Query: 276 KLP 278 ++P Sbjct: 268 RVP 270
ORFs having significant similarity with Known Virulence factors
LocusTag	Hits	Score	E-value	Comments
HPF16_1479	TYPE3IMPPROT	29	0.029	Type III secretion system inner membrane P protein ...
>TYPE3IMPPROT#Type III secretion system inner membrane P protein family signature. Length = 224 Score = 29.4 bits (66), Expect = 0.029 Identities = 9/23 (39%), Positives = 12/23 (52%) Query: 4 LRYKLLLFVFIGFWGLLVLNLFI 26 KL+LFV + W LL L + Sbjct: 195 TPIKLVLFVALDGWTLLSKGLIL 217