Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1025728921

GenInfo (GI) Number: 0000000000

Download Results:

gi||ref|KT896504.1| Klebsiella pneumoniae strain I11 plasmid pKPSH11, complete 186474, gc%: 51.48%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
117.1Kbincomplete602462486-79627 info_outlinePHAGE_Salmon_SJ46_NC_031129(4)51.92%Show info_outline
226.4Kbquestionable802278675-105127 info_outlinePHAGE_Microc_MaMV_DC_NC_029002(2)54.59%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|KT896504.1| Klebsiella pneumoniae strain I11 plasmid pKPSH11, complete 186474, gc%: 51.48%

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 26 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(62486..62662)PHAGE_Salmon_epsilon15_NC_004775: integrase; PP_00092; phage(gi30387406)2.12e-10Showinfo_outline
262867..62983hypothetical; PP_000930.0Showinfo_outline
362992..63807hypothetical; PP_000940.0Showinfo_outline
563868..64671hypothetical; PP_000950.0Showinfo_outline
664671..65507hypothetical; PP_000960.0Showinfo_outline
7complement(65479..66018)hypothetical; PP_000970.0Showinfo_outline
8complement(66228..67088)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; PP_00098; phage(gi100066)5.20e-57Showinfo_outline
9complement(67271..67828)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; PP_00099; phage(gi100036)2.13e-27Showinfo_outline
1067992..68210hypothetical; PP_001000.0Showinfo_outline
1168392..69654PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; PP_00101; phage(gi100067)3.19e-53Showinfo_outline
1269635..69757hypothetical; PP_001020.0Showinfo_outline
1369910..70785PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; PP_00103; phage(gi100066)1.60e-170Showinfo_outline
14complement(70832..71104)hypothetical; PP_001040.0Showinfo_outline
1571424..73973PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; PP_00105; phage(gi100060)2.01e-113Showinfo_outline
1674043..74165PROPHAGE_Brucel_1330: transposase, putative; PP_00106; phage(gi23502708)6.14e-10Showinfo_outline
17complement(74119..74241)hypothetical; PP_001070.0Showinfo_outline
1874242..74499hypothetical; PP_001080.0Showinfo_outline
1974687..74803hypothetical; PP_001090.0Showinfo_outline
20complement(75073..75360)PHAGE_Bacill_SPbeta_NC_001884: putative DNase/RNase endonuclease; PP_00110; phage(gi9630131)9.62e-09Showinfo_outline
2275822..76214PROPHAGE_Pseudo_KT2440: ISPpu15, transposase Orf2; PP_00111; phage(gi26990787)5.97e-21Showinfo_outline
2376279..76653hypothetical; PP_001120.0Showinfo_outline
2476677..77240hypothetical; PP_001130.0Showinfo_outline
25complement(77491..78636)PHAGE_Stx2_c_1717_NC_011357: transposase; PP_00114; phage(gi209447153)2.52e-91Showinfo_outline
26complement(78779..79627)PHAGE_Shigel_Sf6_NC_005344: putative transposase OrfB; PP_00115; phage(gi41057343)1.70e-32Showinfo_outline

Region 2, total 24 CDS

#CDS PositionBLAST HitE-ValueSequence
289005..89505PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; PP_00129; phage(gi100060)1.13e-83Showinfo_outline
389511..89627PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; PP_00130; phage(gi100060)4.06e-12Showinfo_outline
4complement(89624..90229)PHAGE_Clostr_vB_CpeS_CP51_NC_021325: putative resolvase; PP_00131; phage(gi509140089)3.61e-22Showinfo_outline
590324..93221PROPHAGE_Xantho_33913: Tn5041 transposase; PP_00132; phage(gi21231545)3.03e-34Showinfo_outline
693223..95058PROPHAGE_Xantho_306: Tn5044 transposase; PP_00133; phage(gi21243163)8.70e-98Showinfo_outline
795110..95535hypothetical; PP_001340.0Showinfo_outline
895629..96273PHAGE_Microc_MaMV_DC_NC_029002: hypothetical protein; PP_00135; phage(gi971764756)1.18e-17Showinfo_outline
9complement(96365..97048)PHAGE_Escher_ECML_117_NC_025441: putative 3-oxoacyl-(acyl-carrier-protein) reductase; PP_00136; phage(gi725950210)9.34e-07Showinfo_outline
10complement(97146..97289)PROPHAGE_Brucel_1330: transposase, putative; PP_00137; phage(gi23502708)6.53e-14Showinfo_outline
1197280..97417hypothetical; PP_001380.0Showinfo_outline
12complement(97582..97782)hypothetical; PP_001390.0Showinfo_outline
13complement(97835..98848)PHAGE_Mycoba_Butters_NC_021061: integrase; PP_00140; phage(gi479336499)2.05e-12Showinfo_outline
1499004..99477PHAGE_Bacill_Blue_NC_031056: hypothetical protein; PP_00141; phage(gi100007)1.04e-22Showinfo_outline
1599556..99714hypothetical; PP_001420.0Showinfo_outline
1699698..99964hypothetical; PP_001430.0Showinfo_outline
17100107..100871PROPHAGE_Brucel_1330: transposase, putative; PP_00144; phage(gi23502708)3.18e-55Showinfo_outline
18101003..101125hypothetical; PP_001450.0Showinfo_outline
19101132..102346PHAGE_Burkho_KL3_NC_015266: gp45; PP_00146; phage(gi327198090)1.14e-40Showinfo_outline
20complement(102380..103813)PHAGE_Burkho_KL3_NC_015266: gp47; PP_00147; phage(gi327198092)4.72e-132Showinfo_outline
21complement(103888..104064)hypothetical; PP_001480.0Showinfo_outline
23complement(104280..104984)PROPHAGE_Brucel_1330: transposase, putative; PP_00149; phage(gi23502708)1.98e-53Showinfo_outline
24complement(104981..105127)PROPHAGE_Brucel_1330: transposase, putative; PP_00150; phage(gi23502708)3.55e-14Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 186474 bps
Phages: 2
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Portal Protein
Coat Protein
Tail Shaft
Attachment Site
Phage-like Protein
Hypotheical Protein
Fiber Protein
Plate Protein

Download data as .txt file: png_input file_download