Submission Results

Sequence Name: Burkholderia pseudomallei Pasteur 52237, whole genome shotgun

GenBank Accession Number: AAHV00000000.2

GenInfo (GI) Number: 99033018

Download Results: AAHV00000000.2.PHASTER.zip

gi|99033018|ref|AAHV00000000| Burkholderia pseudomallei Pasteur 52237 whole .7347086, gc%: 68.02%

Download summary as .txt file: summary.txt file_download

Total: 4 prophage regions have been identified, of which 1 regions are intact, 3 regions are incomplete, and 0 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
116.7Kbincomplete40302602145-2618911 info_outlinePHAGE_Acinet_Bphi_B125163.36%Show info_outline
258.2Kbintact150573770583-3828856 info_outlinePHAGE_Burkho_phi5223766.38%Show info_outline
317.4Kbincomplete4074442782-4460248 info_outlinePHAGE_Ectoca_167.08%Show info_outline
412.1Kbincomplete30194600035-4612143 info_outlinePHAGE_Cronob_phiES1564.50%Show info_outline
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)
Region: The number assigned to the region.
Region Length: The length of the sequence of that region (in bp).
Completeness: A prediction of whether the region contains a intact or incomplete prophage based on the above criteria.
Score: The score of the region based on the above criteria.
# Total Proteins: The number of ORFs present in the region.
Region Position: The start and end positions of the region on the bacterial chromosome.
Most Common Phage: The phage(s) with the highest number of proteins most similar to those in the region.
GC %: The percentage of GC nucleotides of the region.

Criteria for scoring prophage regions (as intact, questionable, or incomplete):
Method 1:

  1. If the number of certain phage organism in this table is more than or equal to 100% of the total number of CDS of the region, the region is marked with total score 150. If less than 100%, method 2 and 3 will be used.
Method 2:
  1. If the number of certain phage organism in this table is more than 50% of the total number of CDS of the region, that phage organism is considered as the major potential phage for that region; the percentage of the total number of that phage organism in this table in the total number of proteins of the region is calculated and then multipled by 100; the percentage of the length of that phage organism in this table in the length of the region is calculated and then multipled by 50 (phage head's encapsulation capability is considered).
Method 3:
  1. If any of the specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin') are present, the score will be increased by 10 for each keyword found.
  2. If the size of the region is greater than 30 Kb, the score will be increased by 10.
  3. If there are at least 40 proteins in the region, the score will be increased by 10.
  4. If all of the phage-related proteins and hypothetical proteins constitute more than 70% of the total number of proteins in the region, the score will be increased by 10.
Compared the total score of method 2 with the total score of method 3, the bigger one is chosen as the total score of the region.
If the region's total score is less than 70, it is marked as incomplete; if between 70 to 90, it is marked as questionable; if greater than 90, it is marked as intact.

gi|99033018|ref|AAHV00000000| Burkholderia pseudomallei Pasteur 52237 whole [asmbl_id: NC_000000].7347086, gc%: 68.02%

Download details as .txt file: detail.txt file_download

Hits against Virus and Prophage Database
Hits against Bacterial Database or GenBank File

Region 1, total 34 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(2602145..2603605)PHAGE_Gifsy_2: bacteriophage side tail fiber protein; Lambda gpStf (gpN) homolog; PP_02701; phage(gi169257320)3e-05Showinfo_outline
2complement(2603615..2604088)hypothetical; PP_027020.0Showinfo_outline
3complement(2604120..2604311)hypothetical; PP_027030.0Showinfo_outline
4complement(2604321..2604626)hypothetical protein Slit_1920 [Sideroxydans lithotrophicus ES-1] gi|291614379|ref|YP_003524536.1|; PP_027041e-29Showinfo_outline
5complement(2604689..2604961)hypothetical; PP_027050.0Showinfo_outline
6complement(2604958..2605098)hypothetical; PP_027060.0Showinfo_outline
7complement(2605145..2605369)PHAGE_Acinet_Ac42: hypothetical protein; PP_02708; phage(gi311992508)2e-22Showinfo_outline
8complement(2605369..2605542)hypothetical; PP_027090.0Showinfo_outline
92605552..2605704hypothetical; PP_027070.0Showinfo_outline
10complement(2605976..2606260)hypothetical; PP_027100.0Showinfo_outline
11complement(2606425..2607762)PHAGE_Thermu_TMA: portal protein; PP_02711; phage(gi343960384)2e-05Showinfo_outline
12complement(2607771..2609198)PHAGE_Acinet_Bphi_B1251: hypothetical protein; PP_02712; phage(gi423262000)1e-143Showinfo_outline
13complement(2609188..2609673)PHAGE_Acinet_Bphi_B1251: phage protein; PP_02713; phage(gi423261999)1e-34Showinfo_outline
14complement(2609716..2610381)PHAGE_Pectob_ZF40: putative transposase; PP_02714; phage(gi422936679)4e-48Showinfo_outline
152610466..2610621hypothetical; PP_027150.0Showinfo_outline
162610648..2610959hypothetical protein Psesu_1136 [Pseudoxanthomonas suwonensis 11-1] gi|319786742|ref|YP_004146217.1|; PP_027164e-11Showinfo_outline
172610989..2611144hypothetical; PP_027170.0Showinfo_outline
182611173..2611352hypothetical; PP_027180.0Showinfo_outline
192611383..2612015PHAGE_Burkho_Bcep176: gp36; PP_02719; phage(gi77864661)1e-71Showinfo_outline
202612063..2612329PHAGE_Burkho_Bcep176: gp39; PP_02720; phage(gi77864664)2e-16Showinfo_outline
212612420..2612623hypothetical; PP_027210.0Showinfo_outline
222612662..2612916hypothetical protein Slit_1949 [Sideroxydans lithotrophicus ES-1] gi|291614408|ref|YP_003524565.1|; PP_027227e-20Showinfo_outline
232612969..2613463PHAGE_Erwini_vB_EamP_S6: gp055; PP_02723; phage(gi422935894)8e-46Showinfo_outline
24complement(2613420..2614139)PHAGE_Pseudo_F10: Putative metallophosphoesterase; PP_02724; phage(gi148912821)6e-37Showinfo_outline
25complement(2614126..2614299)hypothetical; PP_027250.0Showinfo_outline
262614391..2614645PHAGE_Mycoba_Fruitloop: gp41; PP_02726; phage(gi206599921)3e-05Showinfo_outline
272614629..2614964PHAGE_Burkho_phiE125: putative helix-turn-helix transcriptional regulator; PP_02727; phage(gi17975230)1e-05Showinfo_outline
28complement(2614968..2615043)tRNA0.0Showinfo_outline
29complement(2615048..2615125)tRNA0.0Showinfo_outline
30complement(2615131..2615220)tRNA0.0Showinfo_outline
31complement(2615765..2615841)tRNA0.0Showinfo_outline
322616457..2617284hypothetical; PP_027280.0Showinfo_outline
332617409..2617651hypothetical; PP_027290.0Showinfo_outline
342617958..2618911PHAGE_Acinet_Bphi_B1251: hypothetical protein; PP_02730; phage(gi423261989)6e-21Showinfo_outline

Region 2, total 59 CDS

#CDS PositionBLAST HitE-ValueSequence
13770583..3770594attL0.0Showinfo_outline
23782956..3785367PHAGE_Cercop_2: ubiquitin E3 ligase ICP0; PP_03882; phage(gi110007342)9e-09Showinfo_outline
33785379..3786527rod shape-determining protein RodA [Burkholderia pseudomallei MSHR346] gi|237810356|ref|YP_002894807.1|; PP_038830.0Showinfo_outline
43786524..3786859PHAGE_Helico_SNPV: ORF91; PP_03884; phage(gi18138279)3e-05Showinfo_outline
5complement(3786911..3787687)PHAGE_Megavi_chiliensis: putative Sel1-like repeat-containing protein; PP_03885; phage(gi363539854)7e-10Showinfo_outline
6complement(3787684..3788469)HpcH/HpaI aldolase [Burkholderia pseudomallei K96243] gi|53717822|ref|YP_106808.1|; PP_038865e-144Showinfo_outline
7complement(3788466..3788846)hypothetical protein BPC006_I0160 [Burkholderia pseudomallei BPC006] gi|403516826|ref|YP_006650959.1|; PP_038874e-20Showinfo_outline
8complement(3788890..3789342)PHAGE_Strept_Dp_1: QueD; PP_03888; phage(gi327198317)1e-12Showinfo_outline
9complement(3789362..3789994)PHAGE_Burkho_BcepGomr: BcepGomrgp37; PP_03889; phage(gi146329949)3e-12Showinfo_outline
10complement(3790088..3790753)PHAGE_Cellul_phiSM: queuosine biosynthesis protein QueC; PP_03890; phage(gi472342216)5e-41Showinfo_outline
113792475..3793176PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0001; PP_03891; phage(gi72537677)7e-136Showinfo_outline
12complement(3794427..3794693)PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0048; PP_03892; phage(gi117676336)3e-48Showinfo_outline
13complement(3794659..3794931)PHAGE_Burkho_phi52237: pANL56; PP_03893; phage(gi72537723)1e-47Showinfo_outline
14complement(3795038..3796093)PHAGE_Burkho_phi52237: pbsx family phage portal protein; PP_03894; phage(gi72537722)0.0Showinfo_outline
15complement(3796090..3797859)PHAGE_Burkho_phi52237: phage terminase ATPase subunit; PP_03895; phage(gi72537721)0.0Showinfo_outline
163798003..3798812PHAGE_Burkho_phi52237: phage capsid scaffolding protein; PP_03896; phage(gi72537720)4e-152Showinfo_outline
173798846..3799859PHAGE_Burkho_phi52237: P2 family phage major capsid protein; PP_03897; phage(gi72537718)0.0Showinfo_outline
183799856..3800545PHAGE_Burkho_phi52237: phage small terminase subunit; PP_03898; phage(gi72537717)3e-123Showinfo_outline
193800645..3801124PHAGE_Burkho_phi52237: phage head completion protein; PP_03899; phage(gi117676339)3e-85Showinfo_outline
203801124..3801375PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0052; PP_03900; phage(gi117676332)3e-42Showinfo_outline
213801372..3801578PHAGE_Burkho_phi52237: putative bacteriophage tail protein X; PP_03901; phage(gi117676338)3e-33Showinfo_outline
223801593..3801937PHAGE_Burkho_phi52237: putative bacteriophage membrane protein; PP_03902; phage(gi72537713)3e-56Showinfo_outline
233801939..3802211PHAGE_Burkho_phi52237: putative bacteriophage membrane protein; PP_03903; phage(gi72537712)1e-44Showinfo_outline
243802208..3803020PHAGE_Burkho_phi52237: gp28-like protein; PP_03904; phage(gi72537711)3e-152Showinfo_outline
253803017..3803457PHAGE_Burkho_phi52237: putative bacteriophage protein; PP_03905; phage(gi72537710)2e-77Showinfo_outline
263803411..3803569PHAGE_Burkho_phi52237: LysC; PP_03906; phage(gi72537709)3e-25Showinfo_outline
273803634..3803978PHAGE_Burkho_phiE202: gp40, P2 phage tail completion protein R (GpR); PP_03907; phage(gi134288754)7e-61Showinfo_outline
283803975..3804442PHAGE_Burkho_phi52237: phage tail completion protein; PP_03908; phage(gi72537708)1e-82Showinfo_outline
29complement(3805265..3806041)PHAGE_Burkho_phi52237: DNA methylase; PP_03909; phage(gi72537706)2e-151Showinfo_outline
303806215..3806895PHAGE_Burkho_phi52237: phage baseplate assembly protein; PP_03910; phage(gi72537705)7e-128Showinfo_outline
313806901..3807254PHAGE_Burkho_phi52237: phage baseplate assembly protein; PP_03911; phage(gi72537704)1e-61Showinfo_outline
323807251..3808156PHAGE_Burkho_phi52237: bacteriophage baseplate assembly protein J; PP_03912; phage(gi72537703)2e-166Showinfo_outline
333808149..3808703PHAGE_Burkho_phi52237: phage tail protein I; PP_03913; phage(gi72537702)3e-103Showinfo_outline
343808705..3811077PHAGE_Burkho_phi52237: bacteriophage protein; PP_03914; phage(gi72537701)0.0Showinfo_outline
353811094..3811765PHAGE_Burkho_phi52237: bacteriophage-acquired protein; PP_03915; phage(gi72537700)1e-133Showinfo_outline
363811821..3812993PHAGE_Burkho_phi52237: phage tail sheath protein; PP_03916; phage(gi72537699)0.0Showinfo_outline
373813009..3813518PHAGE_Burkho_phi52237: phage major tail tube protein; PP_03917; phage(gi72537698)3e-95Showinfo_outline
383813576..3813920PHAGE_Burkho_phi52237: phage tail protein E; PP_03918; phage(gi72537697)2e-59Showinfo_outline
393813929..3814042PHAGE_Burkho_phiE202: gp27, phage tail protein, P2 GpE family; PP_03919; phage(gi134288776)1e-15Showinfo_outline
403814045..3817005PHAGE_Burkho_phi52237: bacteriophage membrane protein; PP_03920; phage(gi117676337)0.0Showinfo_outline
413817029..3817448PHAGE_Burkho_phi52237: fels-2 prophage protein; PP_03921; phage(gi72537695)2e-75Showinfo_outline
423817448..3818548PHAGE_Burkho_phi52237: bacteriophage late control gene D protein; PP_03922; phage(gi72537694)0.0Showinfo_outline
43complement(3818562..3818987)hypothetical protein BP1026B_I0141 [Burkholderia pseudomallei 1026b] gi|386860263|ref|YP_006273212.1|; PP_039236e-75Showinfo_outline
443819599..3819760hypothetical; PP_039240.0Showinfo_outline
45complement(3820203..3820490)PHAGE_Burkho_phi52237: helix-turn-helix domain protein; PP_03925; phage(gi72537692)8e-49Showinfo_outline
463820745..3820981PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0015; PP_03926; phage(gi72537691)4e-38Showinfo_outline
473821117..3821281PHAGE_Burkho_KS5: gp9; PP_03927; phage(gi327198007)2e-16Showinfo_outline
483821332..3821517PHAGE_Burkho_phi52237: putative phage transcriptional activator Ogr/Delta; PP_03928; phage(gi72537689)1e-30Showinfo_outline
493821603..3822148PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0012; PP_03929; phage(gi72537688)3e-99Showinfo_outline
503822164..3822382PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0011; PP_03930; phage(gi72537687)6e-36Showinfo_outline
513822388..3822585PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0009; PP_03931; phage(gi72537686)1e-31Showinfo_outline
523822629..3822823PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0051; PP_03932; phage(gi117676331)4e-30Showinfo_outline
533822827..3823066PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0007; PP_03933; phage(gi117676334)1e-38Showinfo_outline
543823235..3823441PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0050; PP_03934; phage(gi117676330)3e-36Showinfo_outline
553823435..3823803PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0006; PP_03935; phage(gi117676335)1e-65Showinfo_outline
563823800..3824054PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0005; PP_03936; phage(gi72537681)5e-43Showinfo_outline
573824066..3826858PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0004; PP_03937; phage(gi72537680)0.0Showinfo_outline
583827501..3827512attR0.0Showinfo_outline
593827726..3828856PHAGE_Burkho_phi52237: prophage integrase; PP_03938; phage(gi72537678)0.0Showinfo_outline

Region 3, total 10 CDS

#CDS PositionBLAST HitE-ValueSequence
14442782..4442793attL0.0Showinfo_outline
2complement(4452027..4453010)PHAGE_Salmon_1: putative bacteriophage tail fiber protein; Lambda gpN homolog; PP_04592; phage(gi169257204)6e-05Showinfo_outline
3complement(4453010..4454080)PROPHAGE_Escher_MG1655: DNA strand exchange and recombination protein with protease and nuclease activity; PP_04593; phage(gi16130606)2e-131Showinfo_outline
44454254..4455027PHAGE_Ectoca_1: EsV-1-65; PP_04594; phage(gi13242537)5e-06Showinfo_outline
54455051..4456607PHAGE_Ectoca_1: EsV-1-65; PP_04595; phage(gi13242537)7e-12Showinfo_outline
64456830..4458488PHAGE_Burkho_phi1026b: gp59; PP_04596; phage(gi38707949)3e-46Showinfo_outline
74458485..4458691hypothetical protein GBP346_A0732 [Burkholderia pseudomallei MSHR346] gi|237811005|ref|YP_002895456.1|; PP_045971e-17Showinfo_outline
84458502..4458513attR0.0Showinfo_outline
94458729..4458805tRNA0.0Showinfo_outline
104458890..4460248PROPHAGE_Xantho_306: phage-related integrase; PP_04598; phage(gi21242262)6e-23Showinfo_outline

Region 4, total 21 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(4600035..4601276)PHAGE_Cronob_vB_CsaM_GAP32: long tail fiber proximal subunit; PP_04721; phage(gi414087138)8e-05Showinfo_outline
2complement(4601304..4602146)PHAGE_Burkho_BcepC6B: hypothetical membrane-localized protein; PP_04724; phage(gi48697209)3e-09Showinfo_outline
34601869..4601880attL0.0Showinfo_outline
4complement(4602200..4602583)flagellar basal body rod protein FlgC [Burkholderia pseudomallei MSHR346] gi|237810459|ref|YP_002894910.1|; PP_047222e-65Showinfo_outline
54602552..4602671hypothetical protein BPC006_I0263 [Burkholderia pseudomallei BPC006] gi|403516929|ref|YP_006651062.1|; PP_047238e-16Showinfo_outline
6complement(4602709..4603200)flagellar basal body rod protein FlgB [Burkholderia pseudomallei 1106a] gi|126451866|ref|YP_001064561.1|; PP_047256e-86Showinfo_outline
74603502..4603852PHAGE_Human__4: EBNA-1; PP_04726; phage(gi82503233)2e-06Showinfo_outline
84604312..4604836PHAGE_Burkho_BcepC6B: putative DNA polymerase III protein; PP_04727; phage(gi48697221)3e-23Showinfo_outline
94604947..4606128PHAGE_Ralsto_RSL1: unnamed protein product; PP_04728; phage(gi189426859)8e-134Showinfo_outline
104606128..4606619PHAGE_Burkho_Bcep176: gp7; PP_04729; phage(gi77864632)7e-40Showinfo_outline
114606622..4607572PHAGE_Sinorh_PBC5: hypothetical protein PBC5p75; PP_04730; phage(gi18071268)2e-26Showinfo_outline
124607569..4607697hypothetical; PP_047310.0Showinfo_outline
134607694..4608764PHAGE_Ralsto_RSL1: unnamed protein product; PP_04732; phage(gi189427053)6e-41Showinfo_outline
144608761..4609162PHAGE_Mycoba_Che9c: gp69; PP_04733; phage(gi29566175)3e-11Showinfo_outline
154609621..4609890hypothetical; PP_047340.0Showinfo_outline
164609887..4610249hypothetical protein Bcep1808_7685 [Burkholderia vietnamiensis G4] gi|134287439|ref|YP_001109606.1|; PP_047354e-10Showinfo_outline
174610246..4610473hypothetical; PP_047360.0Showinfo_outline
184610521..4610682hypothetical; PP_047370.0Showinfo_outline
194610703..4610942PHAGE_Cronob_phiES15: putative excisionase; PP_04738; phage(gi401817567)2e-05Showinfo_outline
204610715..4610726attR0.0Showinfo_outline
214610908..4612143PHAGE_Cronob_phiES15: putative integrase; PP_04739; phage(gi401817566)9e-65Showinfo_outline
Burkholderia pseudomallei Pasteur 52237 whole
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 7347086 bps
Phages: 4
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Lysis
Terminase
Portal Protein
Protease
Coat Protein
Tail Shaft
Attachment Site
Integrase
Phage-like Protein
Hypotheical Protein
Other
Transposase
Fiber Protein
Plate Protein
tRNA

Download data as .txt file: png_input file_download