Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1114568913

GenInfo (GI) Number: 0000000000

Download Results:

gi|00000000|ref|CP018354.1| Klebsiella pneumoniae strain CAV1453 plasmid pCAV1453-46, complete 45742, gc%: 53.26%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
118.5Kbintact100273048-21614 info_outlinePHAGE_Staphy_SPbeta_like_NC_029119(3)53.34%Show info_outline
231.1Kbintact1001814328-45505 info_outlinePHAGE_Salmon_SJ46_NC_031129(6)54.28%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|00000000|ref|CP018354.1| Klebsiella pneumoniae strain CAV1453 plasmid pCAV1453-46, complete 45742, gc%: 53.26%

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 27 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(3048..3752)PROPHAGE_Brucel_1330: transposase, putative; AGG69_00135; phage(gi23502708)1.98e-53Showinfo_outline
2complement(3764..4033)aminoglycoside resistance protein; AGG69_001400.0Showinfo_outline
3complement(4103..4708)PHAGE_Staphy_SPbeta_like_NC_029119: bifunctional AAC/APH; AGG69_00145; phage(gi985761240)4.80e-16Showinfo_outline
4complement(4891..5448)PHAGE_Salisa_1_NC_017983: hypothetical protein; AGG69_00150; phage(gi388570712)1.47e-29Showinfo_outline
55610..8615PROPHAGE_Xantho_33913: Tn5041 transposase; AGG69_00155; phage(gi21231545)2.14e-31Showinfo_outline
68608..8829hypothetical protein; AGG69_001600.0Showinfo_outline
7complement(8887..9663)PHAGE_Mycoba_Squirty_NC_026588: non-functional integrase; AGG69_00165; phage(gi764159894)5.08e-08Showinfo_outline
8complement(9660..10403)hypothetical protein; AGG69_001700.0Showinfo_outline
9complement(10454..10804)hypothetical protein; AGG69_001750.0Showinfo_outline
10complement(10948..11394)hypothetical protein; AGG69_001800.0Showinfo_outline
1111378..11608antitoxin; AGG69_001850.0Showinfo_outline
1211605..12021VapC toxin family PIN domain ribonuclease; AGG69_001900.0Showinfo_outline
1312225..12509PHAGE_Shigel_SfIV_NC_022749: ISEhe3 orfA; AGG69_00195; phage(gi557307550)5.75e-22Showinfo_outline
1412557..13144PHAGE_Shigel_SfIV_NC_022749: ISEhe3 orfB; AGG69_00200; phage(gi557307549)3.13e-59Showinfo_outline
1513241..13441transposase; AGG69_002050.0Showinfo_outline
1613363..14439IS110 family transposase; AGG69_002100.0Showinfo_outline
17complement(14810..15028)hypothetical protein; AGG69_002150.0Showinfo_outline
18complement(15326..16027)PROPHAGE_Xantho_33913: Tn5041 transposase; AGG69_00220; phage(gi21231545)6.78e-31Showinfo_outline
1916269..17021PROPHAGE_Brucel_1330: transposase, putative; AGG69_00225; phage(gi23502708)1.36e-50Showinfo_outline
20complement(16787..17437)PHAGE_Bacill_SPbeta_NC_001884: hypothetical protein; AGG69_00230; phage(gi9630129)1.68e-36Showinfo_outline
21complement(17443..18468)hypothetical protein; AGG69_002350.0Showinfo_outline
22complement(18455..18676)hypothetical protein; AGG69_002400.0Showinfo_outline
23complement(18697..19473)PHAGE_Bacill_SPbeta_NC_001884: hypothetical protein; AGG69_00245; phage(gi9630129)1.44e-19Showinfo_outline
2419589..20293PROPHAGE_Brucel_1330: transposase, putative; AGG69_00250; phage(gi23502708)1.16e-53Showinfo_outline
25complement(20239..20352)transposase; AGG69_002550.0Showinfo_outline
2620366..20605macrolide transporter; AGG69_002600.0Showinfo_outline
2720751..21614PHAGE_Prochl_P_TIM68_NC_028955: hypothetical protein; AGG69_00265; phage(gi971760361)4.10e-10Showinfo_outline

Region 2, total 20 CDS

#CDS PositionBLAST HitE-ValueSequence
2complement(28797..29639)PHAGE_Mycoba_Bactobuster_NC_031279: prohead core protein protease; AGG69_00315; phage(gi100061)3.91e-07Showinfo_outline
329806..30819PHAGE_Mycoba_Butters_NC_021061: integrase; AGG69_00320; phage(gi479336499)2.05e-12Showinfo_outline
4complement(30778..30957)transcriptional regulator; AGG69_003250.0Showinfo_outline
531022..31372transposase; AGG69_003300.0Showinfo_outline
6complement(31392..31559)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; AGG69_00335; phage(gi100062)4.93e-33Showinfo_outline
731548..32108PHAGE_Salmon_SJ46_NC_031129: prohead core protein protease; AGG69_00340; phage(gi100061)3.52e-83Showinfo_outline
832112..35078PROPHAGE_Xantho_33913: Tn5041 transposase; AGG69_00345; phage(gi21231545)1.63e-46Showinfo_outline
9complement(35111..35344)PHAGE_Entero_HK022_NC_002166: IS903 transposase; AGG69_00350; phage(gi9634149)6.39e-38Showinfo_outline
1035926..36312hypothetical protein; AGG69_003550.0Showinfo_outline
11complement(36452..37375)PHAGE_Entero_HK022_NC_002166: IS903 transposase; AGG69_00360; phage(gi9634149)0.0Showinfo_outline
1237656..37733hypothetical protein; AGG69_003650.0Showinfo_outline
13complement(38823..39131)PHAGE_Burkho_KS14_NC_015273: gp37; AGG69_00370; phage(gi327198306)3.26e-08Showinfo_outline
14complement(39141..39644)PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; AGG69_00375; phage(gi557307573)4.57e-109Showinfo_outline
15complement(39563..39838)PHAGE_Entero_P1_NC_005856: InsA; AGG69_00380; phage(gi46401643)1.90e-60Showinfo_outline
16complement(39990..41474)PHAGE_Pseudo_phi3_NC_030940: hypothetical protein; AGG69_00385; phage(gi100001)1.95e-36Showinfo_outline
1741883..42314PHAGE_Cronob_ENT39118_NC_019934: protein umuD; AGG69_00390; phage(gi431811072)5.32e-34Showinfo_outline
1842314..43585PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; AGG69_00395; phage(gi431811050)0.0Showinfo_outline
19complement(43667..44641)PHAGE_Entero_P1_NC_005856: ParB; AGG69_00400; phage(gi46401681)3.41e-115Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 45742 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