Submission Results

Sequence Name: Burkholderia pseudomallei 1655, whole genome shotgun sequencing

GenBank Accession Number: AAHR00000000.2

GenInfo (GI) Number: 99032800

Download Results: AAHR00000000.2.PHASTER.zip

gi|99032800|ref|AAHR00000000| Burkholderia pseudomallei 1655 whole genome .7029727, gc%: 68.00%

Download summary as .txt file: summary.txt file_download

Total: 5 prophage regions have been identified, of which 1 regions are intact, 3 regions are incomplete, and 1 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
138Kbintact15048612205-650257 info_outlinePHAGE_Burkho_phiE20265.06%Show info_outline
213Kbincomplete4072223747-2236804 info_outlinePHAGE_Ectoca_165.77%Show info_outline
39.1Kbquestionable7083683138-3692279 info_outlinePROPHAGE_Ralsto_GMI100059.30%Show info_outline
45.6Kbincomplete5063818093-3823758 info_outlinePHAGE_Burkho_261.45%Show info_outline
55Kbincomplete4094829171-4834230 info_outlinePHAGE_Burkho_260.20%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|99032800|ref|AAHR00000000| Burkholderia pseudomallei 1655 whole genome [asmbl_id: NC_000000].7029727, gc%: 68.00%

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 51 CDS

#CDS PositionBLAST HitE-ValueSequence
1612205..612247attL0.0Showinfo_outline
2complement(614636..614908)PHAGE_Burkho_phiE202: gp7, pANL12; PP_00661; phage(gi134288781)2e-49Showinfo_outline
3complement(614868..615140)PHAGE_Burkho_phiE202: gp6, pANL56; PP_00662; phage(gi134288760)1e-47Showinfo_outline
4complement(615247..616302)PHAGE_Burkho_phiE202: gp5, phage portal protein, pbsx family; PP_00663; phage(gi134288763)0.0Showinfo_outline
5complement(616299..618068)PHAGE_Burkho_phiE202: gp4, phage terminase, ATPase subunit; PP_00664; phage(gi134288784)0.0Showinfo_outline
6618212..619021PHAGE_Burkho_phiE202: gp3, phage capsid scaffolding protein (GPO); PP_00665; phage(gi134288755)2e-149Showinfo_outline
7619055..620068PHAGE_Burkho_phiE202: gp2, phage major capsid protein, P2 family; PP_00666; phage(gi134288740)0.0Showinfo_outline
8620065..620754PHAGE_Burkho_phiE202: gp1, phage terminase, endonuclease subunit; PP_00667; phage(gi134288748)8e-122Showinfo_outline
9620854..621333PHAGE_Burkho_phiE202: gp48, phage head completion protein (GPL); PP_00668; phage(gi134288751)5e-85Showinfo_outline
10621333..621584PHAGE_Burkho_phiE202: gp47, hypothetical protein; PP_00669; phage(gi134288766)7e-42Showinfo_outline
11621581..621787PHAGE_Burkho_phiE202: gp46, phage Tail Protein X; PP_00670; phage(gi134288782)3e-33Showinfo_outline
12621802..622146PHAGE_Burkho_phiE202: gp45, putative bacteriophage membrane protein; PP_00671; phage(gi134288749)4e-56Showinfo_outline
13622148..622420PHAGE_Burkho_phiE202: gp44, putative bacteriophage membrane protein; PP_00672; phage(gi134288752)1e-44Showinfo_outline
14622417..623229PHAGE_Burkho_phiE202: gp43, bacteriophage-acquired protein; PP_00673; phage(gi134288769)8e-151Showinfo_outline
15623226..623666PHAGE_Burkho_phiE202: gp42, protein LysB; PP_00674; phage(gi134288770)1e-67Showinfo_outline
16623620..623778PHAGE_Burkho_phiE202: gp41, LysC; PP_00675; phage(gi134288745)1e-24Showinfo_outline
17623771..624187PHAGE_Burkho_phiE202: gp40, P2 phage tail completion protein R (GpR); PP_00676; phage(gi134288754)6e-74Showinfo_outline
18624184..624651PHAGE_Burkho_phiE202: gp39, phage virion morphogenesis protein; PP_00677; phage(gi134288746)9e-79Showinfo_outline
19complement(625659..626462)PHAGE_Burkho_phiE202: gp37, DNA methylase; PP_00678; phage(gi134288786)7e-139Showinfo_outline
20626603..627283PHAGE_Burkho_phiE202: gp36, gpV; PP_00679; phage(gi134288750)3e-126Showinfo_outline
21627289..627642PHAGE_Burkho_phiE202: gp35, phage baseplate assembly protein; PP_00680; phage(gi134288768)3e-61Showinfo_outline
22627639..628544PHAGE_Burkho_phiE202: gp34, phage baseplate assembly protein; PP_00681; phage(gi134288785)7e-167Showinfo_outline
23628546..629091PHAGE_Burkho_phiE202: gp33, phage tail protein I; PP_00682; phage(gi134288744)1e-98Showinfo_outline
24629102..631465PHAGE_Burkho_phiE202: gp32, bacteriophage protein; PP_00683; phage(gi134288773)0.0Showinfo_outline
25631482..632153PHAGE_Burkho_phiE202: gp31, bacteriophage-acquired protein; PP_00684; phage(gi134288758)2e-132Showinfo_outline
26632209..633381PHAGE_Burkho_phiE202: gp30, phage tail sheath protein; PP_00685; phage(gi134288772)0.0Showinfo_outline
27633403..633906PHAGE_Burkho_phiE202: gp29, phage major tail tube protein; PP_00686; phage(gi134288759)5e-94Showinfo_outline
28633964..634308PHAGE_Burkho_phiE202: gp28, phage tail protein E; PP_00687; phage(gi134288780)8e-59Showinfo_outline
29634317..634430PHAGE_Burkho_phiE202: gp27, phage tail protein, P2 GpE family; PP_00688; phage(gi134288776)1e-15Showinfo_outline
30634433..637393PHAGE_Burkho_phiE202: gp26, bacteriophage membrane protein; PP_00689; phage(gi134288775)0.0Showinfo_outline
31637417..637836PHAGE_Burkho_phiE202: gp25, fels-2 prophage protein; PP_00690; phage(gi134288777)2e-74Showinfo_outline
32637836..638933PHAGE_Burkho_phiE202: gp24, fels-2 prophage protein; PP_00691; phage(gi134288767)0.0Showinfo_outline
33complement(638941..639441)PHAGE_Mannhe_phiMHaA1: hypothetical protein MhaA1p34; PP_00692; phage(gi109289969)7e-06Showinfo_outline
34639487..639627hypothetical; PP_006930.0Showinfo_outline
35complement(640286..640621)PHAGE_Burkho_phiE202: gp21; PP_00694; phage(gi134288765)5e-17Showinfo_outline
36640828..641064PHAGE_Burkho_phiE202: gp20, conserved hypothetical protein; PP_00695; phage(gi134288764)1e-32Showinfo_outline
37641200..641364PHAGE_Burkho_KS5: gp9; PP_00696; phage(gi327198007)2e-16Showinfo_outline
38641352..641600PHAGE_Burkho_phiE202: gp19, conserved hypothetical protein; PP_00697; phage(gi134288771)2e-42Showinfo_outline
39641686..642231PHAGE_Burkho_phi52237: hypothetical protein BPSphi5223_0012; PP_00698; phage(gi72537688)3e-99Showinfo_outline
40642247..642465PHAGE_Burkho_phiE202: gp18, conserved hypothetical protein; PP_00699; phage(gi134288761)3e-31Showinfo_outline
41642471..642668PHAGE_Burkho_phiE202: gp17, conserved hypothetical protein; PP_00700; phage(gi134288774)1e-31Showinfo_outline
42642712..642906PHAGE_Burkho_phiE202: gp16, conserved hypothetical protein; PP_00701; phage(gi134288756)4e-30Showinfo_outline
43642910..643149PHAGE_Burkho_phiE202: gp15, conserved hypothetical protein; PP_00702; phage(gi134288742)1e-37Showinfo_outline
44643318..643524PHAGE_Burkho_phiE202: gp14, conserved hypothetical protein; PP_00703; phage(gi134288778)3e-36Showinfo_outline
45643527..643886PHAGE_Burkho_phiE202: gp13, conserved hypothetical protein; PP_00704; phage(gi134288783)3e-64Showinfo_outline
46643883..644137PHAGE_Burkho_phiE202: gp12, hypothetical protein; PP_00705; phage(gi134288787)4e-42Showinfo_outline
47644149..646941PHAGE_Burkho_phiE202: gp11, conserved hypothetical protein; PP_00706; phage(gi134288779)0.0Showinfo_outline
48647831..648940PHAGE_Burkho_phiE202: gp10, site-specific recombinase, phage integrase family; PP_00707; phage(gi134288747)5e-80Showinfo_outline
49complement(649006..649081)tRNA0.0Showinfo_outline
50649008..649050attR0.0Showinfo_outline
51649430..650257PHAGE_Cronob_ESP2949_1: tail fiber; PP_00708; phage(gi422935481)3e-06Showinfo_outline

Region 2, total 10 CDS

#CDS PositionBLAST HitE-ValueSequence
12223747..2223759attL0.0Showinfo_outline
2complement(2228624..2229607)PHAGE_Salmon_1: putative bacteriophage tail fiber protein; Lambda gpN homolog; PP_02293; phage(gi169257204)6e-05Showinfo_outline
3complement(2229607..2230677)PROPHAGE_Escher_MG1655: DNA strand exchange and recombination protein with protease and nuclease activity; PP_02294; phage(gi16130606)2e-131Showinfo_outline
42230872..2231624PHAGE_Ectoca_1: EsV-1-65; PP_02295; phage(gi13242537)5e-06Showinfo_outline
52231648..2233204PHAGE_Ectoca_1: EsV-1-65; PP_02296; phage(gi13242537)5e-12Showinfo_outline
62233427..2235085PHAGE_Burkho_phi1026b: gp59; PP_02297; phage(gi38707949)3e-46Showinfo_outline
72235091..2235225hypothetical protein BURPS668_0806 [Burkholderia pseudomallei 668] gi|126438614|ref|YP_001057857.1|; PP_022987e-18Showinfo_outline
82235157..2235169attR0.0Showinfo_outline
92235327..2235403tRNA0.0Showinfo_outline
102235485..2236804PROPHAGE_Escher_Sakai: putative integrase; PP_02299; phage(gi15834496)6e-22Showinfo_outline

Region 3, total 8 CDS

#CDS PositionBLAST HitE-ValueSequence
13683138..3685342PHAGE_Entero_01: Putative tail fiber protein; PP_03799; phage(gi38707850)7e-05Showinfo_outline
23685385..3686068hypothetical protein BMASAVP1_1608 [Burkholderia mallei SAVP1] gi|121596656|ref|YP_991202.1|; PP_038003e-115Showinfo_outline
33686028..3687875PROPHAGE_Ralsto_GMI1000: ISRSO12-transposase ORFB protein; PP_03801; phage(gi17546158)7e-21Showinfo_outline
43688136..3688843PROPHAGE_Ralsto_GMI1000: ISRSO12-transposase ORFB protein; PP_03802; phage(gi17546158)4e-66Showinfo_outline
5complement(3689321..3690580)PHAGE_Cronob_vB_CsaM_GAP31: putative tail fiber protein; PP_03803; phage(gi414086879)6e-06Showinfo_outline
63690679..3690828hypothetical; PP_038040.0Showinfo_outline
73691099..3691392PROPHAGE_Shewan_MR-1: ISSod1, transposase OrfA; PP_03805; phage(gi24373865)2e-10Showinfo_outline
83691389..3692279PROPHAGE_Escher_CFT073: transposase insF; PP_03806; phage(gi26249410)5e-63Showinfo_outline

Region 4, total 9 CDS

#CDS PositionBLAST HitE-ValueSequence
13818093..3818620PROPHAGE_Escher_Sakai: ClpXP protease specificity-enhancing factor; PP_03947; phage(gi15833355)2e-24Showinfo_outline
23818641..3818716tRNA0.0Showinfo_outline
33818672..3818710attL0.0Showinfo_outline
4complement(3818793..3819032)PHAGE_Xylell_Xfas53: integrase; PP_03948; phage(gi273810420)2e-08Showinfo_outline
53819025..3819339PHAGE_Burkho_2: gp4, phage terminase, ATPase subunit; PP_03949; phage(gi134288710)1e-55Showinfo_outline
63819336..3820391PHAGE_Burkho_2: gp5, phage portal protein, pbsx family; PP_03950; phage(gi134288732)0.0Showinfo_outline
7complement(3820435..3820797)PHAGE_Burkho_2: gp6, putative addiction module antidote protein; PP_03951; phage(gi134288715)4e-60Showinfo_outline
8complement(3820794..3821108)PHAGE_Burkho_2: gp7, putative addiction module killer protein; PP_03953; phage(gi134288691)4e-54Showinfo_outline
93823758..3823796attR0.0Showinfo_outline

Region 5, total 9 CDS

#CDS PositionBLAST HitE-ValueSequence
14829171..4830148PHAGE_Lactoc_P087: putative cysteine synthase; PP_05017; phage(gi229605000)2e-34Showinfo_outline
24830253..4830738prolyl-tRNA synthetase [Burkholderia mallei SAVP1] gi|121596696|ref|YP_989635.1|; PP_050198e-88Showinfo_outline
3complement(4831366..4832034)isochorismatase [Pectobacterium atrosepticum SCRI1043] gi|50121311|ref|YP_050478.1|; PP_050202e-92Showinfo_outline
44832329..4832634HxlR family transcriptional regulator [Methanosaeta concilii GP6] gi|330508362|ref|YP_004384790.1|; PP_050214e-12Showinfo_outline
5complement(4832717..4833007)PROPHAGE_Escher_CFT073: transposase IS629; PP_05022; phage(gi26250986)1e-06Showinfo_outline
64833154..4833414PROPHAGE_Xantho_33913: IS1477 transposase; PP_05023; phage(gi21230912)3e-23Showinfo_outline
74833472..4833678PHAGE_Burkho_2: gp7, putative addiction module killer protein; PP_05024; phage(gi134288691)1e-30Showinfo_outline
84833681..4834037PHAGE_Burkho_2: gp6, putative addiction module antidote protein; PP_05025; phage(gi134288715)4e-60Showinfo_outline
9complement(4834081..4834230)PHAGE_Burkho_2: gp5, phage portal protein, pbsx family; PP_05026; phage(gi134288732)5e-09Showinfo_outline
Burkholderia pseudomallei 1655 whole genome
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 7029727 bps
Phages: 5
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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