Submission Results

Sequence Name: Burkholderia mallei ATCC 10399, whole genome shotgun sequencing

GenBank Accession Number: AAHN00000000.2

GenInfo (GI) Number: 99031415

Download Results: AAHN00000000.2.PHASTER.zip

gi|99031415|ref|AAHN00000000| Burkholderia mallei ATCC 10399 whole genome .5933783, gc%: 68.46%

Download summary as .txt file: summary.txt file_download

Total: 4 prophage regions have been identified, of which 1 regions are intact, 1 regions are incomplete, and 2 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
16.7Kbquestionable8011154953-161694 info_outlinePROPHAGE_Xantho_3391363.54%Show info_outline
26.9Kbquestionable7082749386-2756349 info_outlinePHAGE_Burkho_265.16%Show info_outline
38.5Kbincomplete6095454883-5463447 info_outlinePROPHAGE_Xantho_3391365.97%Show info_outline
440.7Kbintact150525889257-5930037 info_outlinePROPHAGE_Xantho_3391363.54%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|99031415|ref|AAHN00000000| Burkholderia mallei ATCC 10399 whole genome [asmbl_id: NC_000000].5933783, gc%: 68.46%

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 11 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(154953..156155)PHAGE_Equid__9: envelope glycoprotein J; PP_00141; phage(gi216905924)1e-04Showinfo_outline
2complement(156166..156489)hypothetical protein BMA1084 [Burkholderia mallei ATCC 23344] gi|53724811|ref|YP_102777.1|; PP_001422e-56Showinfo_outline
3complement(156511..157341)PROPHAGE_Xantho_33913: IS1477 transposase; PP_00143; phage(gi77747809)4e-88Showinfo_outline
4complement(157368..157631)PROPHAGE_Xantho_33913: IS1477 transposase; PP_00144; phage(gi21230912)2e-27Showinfo_outline
5complement(157697..157897)hypothetical protein BPC006_I1797 [Burkholderia pseudomallei BPC006] gi|403518449|ref|YP_006652582.1|; PP_001453e-28Showinfo_outline
6complement(157938..158069)hypothetical protein GBP346_A1770 [Burkholderia pseudomallei MSHR346] gi|237812028|ref|YP_002896479.1|; PP_001473e-17Showinfo_outline
7158226..159452lipoprotein [Burkholderia mallei ATCC 23344] gi|53724814|ref|YP_102773.1|; PP_001460.0Showinfo_outline
8complement(159565..160137)PHAGE_Staphy_phiPV83: transposase; PP_00148; phage(gi9635722)8e-12Showinfo_outline
9160272..160535PROPHAGE_Xantho_33913: IS1477 transposase; PP_00149; phage(gi21230912)6e-28Showinfo_outline
10160562..161392PROPHAGE_Xantho_33913: IS1477 transposase; PP_00150; phage(gi77747809)4e-88Showinfo_outline
11161500..161694PHAGE_Ralsto_phiRSA1: transposase IRSO15-like; PP_00151; phage(gi145708108)4e-31Showinfo_outline

Region 2, total 11 CDS

#CDS PositionBLAST HitE-ValueSequence
12749386..2749907PROPHAGE_Escher_Sakai: ClpXP protease specificity-enhancing factor; PP_02766; phage(gi15833355)3e-24Showinfo_outline
22749801..2749812attL0.0Showinfo_outline
32749928..2750003tRNA0.0Showinfo_outline
4complement(2750060..2750299)PHAGE_Xylell_Xfas53: integrase; PP_02767; phage(gi273810420)2e-08Showinfo_outline
52750292..2750606PHAGE_Burkho_2: gp4, phage terminase, ATPase subunit; PP_02768; phage(gi134288710)1e-55Showinfo_outline
62750603..2751658PHAGE_Burkho_2: gp5, phage portal protein, pbsx family; PP_02769; phage(gi134288732)0.0Showinfo_outline
7complement(2751702..2752058)PHAGE_Burkho_2: gp6, putative addiction module antidote protein; PP_02770; phage(gi134288715)4e-60Showinfo_outline
8complement(2752061..2752375)PHAGE_Burkho_2: gp7, putative addiction module killer protein; PP_02771; phage(gi134288691)3e-54Showinfo_outline
92753165..2753428PROPHAGE_Xantho_33913: IS1477 transposase; PP_02772; phage(gi21230912)6e-28Showinfo_outline
102753452..2754285PROPHAGE_Xantho_33913: IS1477 transposase; PP_02773; phage(gi77747809)4e-88Showinfo_outline
112756349..2756360attR0.0Showinfo_outline

Region 3, total 10 CDS

#CDS PositionBLAST HitE-ValueSequence
15454883..5455146PROPHAGE_Xantho_33913: IS1477 transposase; PP_05581; phage(gi21230912)6e-28Showinfo_outline
25455173..5456003PROPHAGE_Xantho_33913: IS1477 transposase; PP_05582; phage(gi77747809)4e-88Showinfo_outline
3complement(5456014..5456622)phage-related integrase [Burkholderia pseudomallei K96243] gi|53718384|ref|YP_107370.1|; PP_055834e-103Showinfo_outline
4complement(5456707..5456783)tRNA0.0Showinfo_outline
5complement(5456885..5457028)hypothetical protein BPC006_I0798 [Burkholderia pseudomallei BPC006] gi|403517462|ref|YP_006651595.1|; PP_055843e-18Showinfo_outline
6complement(5457025..5458683)PHAGE_Burkho_phi1026b: gp59; PP_05585; phage(gi38707949)8e-46Showinfo_outline
7complement(5458906..5460423)PHAGE_Ectoca_1: EsV-1-65; PP_05587; phage(gi13242537)5e-12Showinfo_outline
8complement(5460447..5461220)PHAGE_Ectoca_1: EsV-1-65; PP_05586; phage(gi13242537)5e-06Showinfo_outline
95461394..5462464PROPHAGE_Escher_MG1655: DNA strand exchange and recombination protein with protease and nuclease activity; PP_05588; phage(gi16130606)2e-131Showinfo_outline
105462464..5463447PHAGE_Salmon_1: putative bacteriophage tail fiber protein; Lambda gpN homolog; PP_05589; phage(gi169257204)6e-05Showinfo_outline

Region 4, total 52 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(5889257..5890327)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06020; phage(gi77747809)2e-65Showinfo_outline
2complement(5890354..5890617)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06021; phage(gi21230912)2e-27Showinfo_outline
3complement(5890745..5892280)PHAGE_Staphy_phiPV83: transposase; PP_06022; phage(gi9635722)2e-12Showinfo_outline
45892304..5892669ABC transporter substrate-binding protein [Burkholderia pseudomallei MSHR346] gi|237812157|ref|YP_002896608.1|; PP_060231e-63Showinfo_outline
55892712..5893206PHAGE_Synech_S_CRM01: collagen triple helix repeat domain protein; PP_06024; phage(gi333798184)3e-15Showinfo_outline
65893301..5894680PHAGE_Staphy_phiPV83: transposase; PP_06025; phage(gi9635722)3e-12Showinfo_outline
7complement(5894705..5894995)hypothetical protein GBP346_A0050 [Burkholderia pseudomallei MSHR346] gi|237810328|ref|YP_002894779.1|; PP_060264e-50Showinfo_outline
8complement(5895047..5895769)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06028; phage(gi77747809)4e-80Showinfo_outline
9complement(5895748..5896074)major surface protein 3 [Burkholderia mallei NCTC 10247] gi|126446820|ref|YP_001078765.1|; PP_060272e-38Showinfo_outline
10complement(5896170..5896757)amylo-alpha-1,6-glucosidase [Burkholderia mallei NCTC 10247] gi|126445891|ref|YP_001078766.1|; PP_060302e-108Showinfo_outline
115896758..5897201PROPHAGE_Xantho_33913: IS1477 transposase; PP_06029; phage(gi21231080)4e-25Showinfo_outline
125897228..5898073PROPHAGE_Xantho_33913: IS1477 transposase; PP_06031; phage(gi77747809)3e-77Showinfo_outline
13complement(5898070..5900310)PHAGE_Staphy_phiPV83: transposase; PP_06032; phage(gi9635722)3e-10Showinfo_outline
145900345..5900548PROPHAGE_Xantho_33913: IS1477 transposase; PP_06033; phage(gi21230912)1e-19Showinfo_outline
155900575..5901318PROPHAGE_Xantho_33913: IS1477 transposase; PP_06034; phage(gi77747809)2e-83Showinfo_outline
16complement(5901294..5901425)hypothetical protein BMA10247_A1574 [Burkholderia mallei NCTC 10247] gi|126446383|ref|YP_001078757.1|; PP_060354e-13Showinfo_outline
17complement(5901640..5902350)hypothetical protein BMA10247_A1575 [Burkholderia mallei NCTC 10247] gi|126446788|ref|YP_001078758.1|; PP_060363e-139Showinfo_outline
185902422..5902547PROPHAGE_Xantho_33913: IS1477 transposase; PP_06037; phage(gi21230912)7e-07Showinfo_outline
195902574..5903560PROPHAGE_Xantho_33913: IS1477 transposase; PP_06038; phage(gi77747809)6e-88Showinfo_outline
20complement(5904245..5905078)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06039; phage(gi77747809)6e-63Showinfo_outline
21complement(5905105..5905368)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06040; phage(gi21230912)6e-28Showinfo_outline
225905473..5905736PROPHAGE_Xantho_33913: IS1477 transposase; PP_06041; phage(gi21230912)6e-28Showinfo_outline
23complement(5906433..5907185)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06042; phage(gi77747809)2e-75Showinfo_outline
24complement(5907212..5907337)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06043; phage(gi21230912)2e-06Showinfo_outline
255907386..5908453PHAGE_Burkho_KS14: gp36; PP_06044; phage(gi327198305)7e-142Showinfo_outline
265909409..5909714PROPHAGE_Xantho_33913: IS1477 transposase; PP_06045; phage(gi21230912)2e-28Showinfo_outline
275909741..5910586PROPHAGE_Xantho_33913: IS1477 transposase; PP_06046; phage(gi77747809)1e-76Showinfo_outline
28complement(5911415..5912041)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06047; phage(gi77747809)3e-58Showinfo_outline
29complement(5912068..5912331)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06048; phage(gi21230912)6e-28Showinfo_outline
305912410..5912694PROPHAGE_Xantho_33913: IS1477 transposase; PP_06049; phage(gi21230912)6e-28Showinfo_outline
315912730..5913602PROPHAGE_Xantho_33913: IS1477 transposase; PP_06050; phage(gi77747809)5e-58Showinfo_outline
325913575..5914267ISBma2, transposase [Burkholderia pseudomallei MSHR346] gi|237813256|ref|YP_002897707.1|; PP_060518e-126Showinfo_outline
335914301..5914456IS407A, transposase OrfA [Burkholderia mallei SAVP1] gi|121598162|ref|YP_991343.1|; PP_060522e-09Showinfo_outline
345914483..5916249PROPHAGE_Xantho_33913: IS1477 transposase; PP_06053; phage(gi77747809)2e-75Showinfo_outline
355916246..5916497PROPHAGE_Xantho_33913: IS1477 transposase; PP_06054; phage(gi21230912)3e-18Showinfo_outline
365916524..5917297PROPHAGE_Xantho_33913: IS1477 transposase; PP_06055; phage(gi77747809)1e-78Showinfo_outline
375917257..5917460PROPHAGE_Xantho_33913: IS1477 transposase; PP_06056; phage(gi21230912)1e-19Showinfo_outline
385917487..5919367PHAGE_Ralsto_phiRSA1: transposase IRSO15-like; PP_06057; phage(gi145708108)7e-171Showinfo_outline
39complement(5919964..5920977)PHAGE_Staphy_phiPV83: transposase; PP_06058; phage(gi9635722)8e-05Showinfo_outline
405921083..5921934PROPHAGE_Xantho_33913: IS1477 transposase; PP_06059; phage(gi77747809)4e-88Showinfo_outline
41complement(5922616..5922741)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06060; phage(gi21230912)2e-06Showinfo_outline
425922874..5923704PROPHAGE_Xantho_33913: IS1477 transposase; PP_06061; phage(gi77747809)4e-88Showinfo_outline
43complement(5923732..5924580)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06062; phage(gi77747809)4e-88Showinfo_outline
445924654..5925595PROPHAGE_Xantho_33913: IS1477 transposase; PP_06063; phage(gi77747809)2e-90Showinfo_outline
455925626..5925889PROPHAGE_Xantho_33913: IS1477 transposase; PP_06064; phage(gi21230912)6e-28Showinfo_outline
465925916..5926464PROPHAGE_Xantho_33913: IS1477 transposase; PP_06065; phage(gi77747809)1e-52Showinfo_outline
475926611..5927561PHAGE_Human__4: EBNA-1; PP_06066; phage(gi82503233)3e-07Showinfo_outline
48complement(5927802..5927990)hypothetical protein GBP346_A0220 [Burkholderia pseudomallei MSHR346] gi|237810496|ref|YP_002894947.1|; PP_060675e-29Showinfo_outline
495928028..5928354hypothetical protein BMA10247_A0417 [Burkholderia mallei NCTC 10247] gi|126447896|ref|YP_001077620.1|; PP_060681e-31Showinfo_outline
505928538..5928711hypothetical protein BMA10247_A0418 [Burkholderia mallei NCTC 10247] gi|126447412|ref|YP_001077621.1|; PP_060693e-19Showinfo_outline
51complement(5928937..5929050)methyl-accepting chemotaxis protein [Burkholderia thailandensis E264] gi|83718188|ref|YP_439660.1|; PP_060705e-11Showinfo_outline
52complement(5929051..5930037)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06071; phage(gi77747809)5e-67Showinfo_outline
Burkholderia mallei ATCC 10399 whole genome
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 5933783 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