Submission Results

Sequence Name: Burkholderia mallei 10399, whole genome shotgun sequencing project.

GenBank Accession Number: AAHN00000000.1

GenInfo (GI) Number: 89888599

Download Results: AAHN00000000.1.PHASTER.zip

gi||ref|| Burkholderia mallei 10399, whole genome shotgun sequencing [asmbl_id: NC_000000].6151788, gc%: 68.41%

Download summary as .txt file: summary.txt file_download

Total: 3 prophage regions have been identified, of which 1 regions are intact, 2 regions are incomplete, and 0 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
14.9Kbincomplete6074058203-4063102 info_outlinePHAGE_Burkho_phiE12_2_NC_009236(4)63.55%Show info_outline
240.9Kbintact150525889391-5930312 info_outlinePHAGE_Synech_S_CRM01_NC_015569(2)63.45%Show info_outline
34.9Kbincomplete6086018947-6023846 info_outlinePHAGE_Burkho_phiE12_2_NC_009236(4)63.55%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||ref|| Burkholderia mallei 10399, whole genome shotgun sequencing [asmbl_id: NC_000000].6151788, gc%: 68.41%

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 8 CDS

#CDS PositionBLAST HitE-ValueSequence
14058203..4058724PROPHAGE_Escher_Sakai: ClpXP protease specificity-enhancing factor; PP_04120; phage(gi15833355)6.87e-28Showinfo_outline
24058745..4058820tRNA0.0Showinfo_outline
34059109..4059423PHAGE_Burkho_phiE12_2_NC_009236: gp4, phage terminase, ATPase subunit; PP_04121; phage(gi134288710)3.72e-67Showinfo_outline
44059420..4060475PHAGE_Burkho_phiE12_2_NC_009236: gp5, phage portal protein, pbsx family; PP_04122; phage(gi134288732)0.0Showinfo_outline
5complement(4060519..4060875)PHAGE_Burkho_phiE12_2_NC_009236: gp6, putative addiction module antidote protein; PP_04123; phage(gi134288715)2.89e-79Showinfo_outline
6complement(4060878..4061192)PHAGE_Burkho_phiE12_2_NC_009236: gp7, putative addiction module killer protein; PP_04124; phage(gi134288691)3.18e-69Showinfo_outline
74061982..4062245PROPHAGE_Xantho_33913: IS1477 transposase; PP_04125; phage(gi21230912)3.47e-36Showinfo_outline
84062272..4063102PROPHAGE_Xantho_33913: IS1477 transposase; PP_04126; phage(gi77747809)1.09e-110Showinfo_outline

Region 2, total 52 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(5889391..5890461)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06017; phage(gi77747809)7.25e-80Showinfo_outline
2complement(5890488..5890751)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06018; phage(gi21230912)1.07e-35Showinfo_outline
3complement(5890879..5892414)PHAGE_Staphy_phiPV83_NC_002486: transposase; PP_06019; phage(gi9635722)2.38e-13Showinfo_outline
45892438..5892803hypothetical; PP_060200.0Showinfo_outline
55892846..5893340PHAGE_Synech_S_CRM01_NC_015569: collagen triple helix repeat domain protein; PP_06021; phage(gi333798184)9.20e-22Showinfo_outline
65893435..5894814PHAGE_Staphy_phiPV83_NC_002486: transposase; PP_06022; phage(gi9635722)3.32e-13Showinfo_outline
7complement(5894839..5895129)hypothetical; PP_060230.0Showinfo_outline
8complement(5895181..5895903)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06025; phage(gi77747809)1.59e-100Showinfo_outline
9complement(5895882..5896208)hypothetical; PP_060240.0Showinfo_outline
10complement(5896304..5896891)hypothetical; PP_060270.0Showinfo_outline
115896892..5897335PROPHAGE_Xantho_33913: IS1477 transposase; PP_06026; phage(gi21231080)5.45e-32Showinfo_outline
125897362..5898207PROPHAGE_Xantho_33913: IS1477 transposase; PP_06028; phage(gi77747809)1.82e-96Showinfo_outline
13complement(5898204..5900444)PHAGE_Staphy_phiPV83_NC_002486: transposase; PP_06029; phage(gi9635722)4.76e-11Showinfo_outline
145900479..5900682PROPHAGE_Xantho_33913: IS1477 transposase; PP_06030; phage(gi21230912)1.04e-25Showinfo_outline
155900709..5901452PROPHAGE_Xantho_33913: IS1477 transposase; PP_06031; phage(gi77747809)1.74e-104Showinfo_outline
16complement(5901428..5901559)hypothetical; PP_060320.0Showinfo_outline
17complement(5901774..5902469)hypothetical; PP_060330.0Showinfo_outline
185902556..5902681PROPHAGE_Xantho_33913: IS1477 transposase; PP_06034; phage(gi21230912)9.79e-09Showinfo_outline
195902708..5903694PROPHAGE_Xantho_33913: IS1477 transposase; PP_06035; phage(gi77747809)3.18e-109Showinfo_outline
20complement(5904379..5905212)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06036; phage(gi77747809)3.32e-77Showinfo_outline
21complement(5905239..5905502)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06037; phage(gi21230912)3.47e-36Showinfo_outline
225905607..5905870PROPHAGE_Xantho_33913: IS1477 transposase; PP_06038; phage(gi21230912)3.47e-36Showinfo_outline
23complement(5906567..5907319)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06039; phage(gi77747809)5.93e-95Showinfo_outline
24complement(5907346..5907549)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06040; phage(gi21230912)1.04e-25Showinfo_outline
255907583..5908587PHAGE_Burkho_KS14_NC_015273: gp36; PP_06041; phage(gi327198305)3.11e-179Showinfo_outline
265909543..5909848PROPHAGE_Xantho_33913: IS1477 transposase; PP_06042; phage(gi21230912)1.98e-36Showinfo_outline
275909875..5910720PROPHAGE_Xantho_33913: IS1477 transposase; PP_06043; phage(gi77747809)4.57e-95Showinfo_outline
28complement(5911549..5912175)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06044; phage(gi77747809)2.62e-71Showinfo_outline
29complement(5912202..5912465)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06045; phage(gi21230912)3.47e-36Showinfo_outline
305912544..5912828PROPHAGE_Xantho_33913: IS1477 transposase; PP_06046; phage(gi21230912)2.54e-36Showinfo_outline
315912864..5913736PROPHAGE_Xantho_33913: IS1477 transposase; PP_06047; phage(gi77747809)2.40e-70Showinfo_outline
325913709..5914401hypothetical; PP_060480.0Showinfo_outline
335914435..5914590hypothetical; PP_060490.0Showinfo_outline
345914617..5916383PROPHAGE_Xantho_33913: IS1477 transposase; PP_06050; phage(gi77747809)3.42e-91Showinfo_outline
355916380..5916631PROPHAGE_Xantho_33913: IS1477 transposase; PP_06051; phage(gi21230912)2.13e-23Showinfo_outline
365916658..5917431PROPHAGE_Xantho_33913: IS1477 transposase; PP_06052; phage(gi77747809)1.08e-98Showinfo_outline
375917391..5917594PROPHAGE_Xantho_33913: IS1477 transposase; PP_06053; phage(gi21230912)1.04e-25Showinfo_outline
385917621..5919501PHAGE_Ralsto_RSA1_NC_009382: transposase IRSO15-like; PP_06054; phage(gi145708108)0.0Showinfo_outline
39complement(5920098..5921114)hypothetical; PP_060550.0Showinfo_outline
405921217..5922068PROPHAGE_Xantho_33913: IS1477 transposase; PP_06056; phage(gi77747809)1.54e-110Showinfo_outline
41complement(5922750..5922875)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06057; phage(gi21230912)3.80e-08Showinfo_outline
425923008..5923838PROPHAGE_Xantho_33913: IS1477 transposase; PP_06058; phage(gi77747809)1.09e-110Showinfo_outline
43complement(5923866..5924714)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06059; phage(gi77747809)1.82e-110Showinfo_outline
445924788..5925729PROPHAGE_Xantho_33913: IS1477 transposase; PP_06060; phage(gi77747809)7.15e-113Showinfo_outline
455925760..5926023PROPHAGE_Xantho_33913: IS1477 transposase; PP_06061; phage(gi21230912)3.47e-36Showinfo_outline
465926050..5926598PROPHAGE_Xantho_33913: IS1477 transposase; PP_06062; phage(gi77747809)5.13e-64Showinfo_outline
475926739..5927695hypothetical; PP_060630.0Showinfo_outline
48complement(5927936..5928124)hypothetical; PP_060640.0Showinfo_outline
495928201..5928488hypothetical; PP_060650.0Showinfo_outline
505928696..5928845hypothetical; PP_060660.0Showinfo_outline
51complement(5929071..5929184)hypothetical; PP_060670.0Showinfo_outline
52complement(5929185..5930312)PROPHAGE_Xantho_33913: IS1477 transposase; PP_06068; phage(gi77747809)2.40e-83Showinfo_outline

Region 3, total 9 CDS

#CDS PositionBLAST HitE-ValueSequence
16018947..6019468PROPHAGE_Escher_Sakai: ClpXP protease specificity-enhancing factor; PP_06157; phage(gi15833355)6.87e-28Showinfo_outline
26019489..6019564tRNA0.0Showinfo_outline
36019684..6019824hypothetical; PP_061580.0Showinfo_outline
46019853..6020167PHAGE_Burkho_phiE12_2_NC_009236: gp4, phage terminase, ATPase subunit; PP_06159; phage(gi134288710)3.72e-67Showinfo_outline
56020164..6021219PHAGE_Burkho_phiE12_2_NC_009236: gp5, phage portal protein, pbsx family; PP_06160; phage(gi134288732)0.0Showinfo_outline
6complement(6021263..6021619)PHAGE_Burkho_phiE12_2_NC_009236: gp6, putative addiction module antidote protein; PP_06161; phage(gi134288715)2.89e-79Showinfo_outline
7complement(6021622..6021936)PHAGE_Burkho_phiE12_2_NC_009236: gp7, putative addiction module killer protein; PP_06162; phage(gi134288691)3.18e-69Showinfo_outline
86022726..6022989PROPHAGE_Xantho_33913: IS1477 transposase; PP_06163; phage(gi21230912)3.47e-36Showinfo_outline
96023013..6023846PROPHAGE_Xantho_33913: IS1477 transposase; PP_06164; phage(gi77747809)1.15e-110Showinfo_outline
Burkholderia mallei 10399, whole genome shotgun sequencing
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 6151788 bps
Phages: 3
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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