Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1036566529

GenInfo (GI) Number: 0000000000

Download Results: 1036566529.PHASTER.zip

gi|00000000|ref|CP015131.1| Klebsiella pneumoniae strain Kpn555 plasmid pKPN-7c3, complete 142858, gc%: 52.45%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
120.3Kbincomplete601633199-53586 info_outlinePHAGE_Sodali_phiSG1_NC_007902(2)50.50%Show info_outline
227Kbintact1001050847-77912 info_outlinePHAGE_Stx2_c_1717_NC_011357(4)48.19%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|CP015131.1| Klebsiella pneumoniae strain Kpn555 plasmid pKPN-7c3, complete 142858, gc%: 52.45%

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 20 CDS

#CDS PositionBLAST HitE-ValueSequence
133199..33210attL0.0Showinfo_outline
2complement(36888..37109)PHAGE_Entero_N15_NC_001901: gp50; WM92_26635; phage(gi9630517)3.45e-05Showinfo_outline
3complement(37110..37793)PHAGE_Staphy_Stau2_NC_030933: hypothetical protein; WM92_26640; phage(gi100063)3.86e-28Showinfo_outline
4complement(38177..39103)hypothetical protein; WM92_266450.0Showinfo_outline
5complement(39498..40718)PROPHAGE_Escher_CFT073: transposase; WM92_26650; phage(gi26249432)4.33e-113Showinfo_outline
6complement(40737..41255)hypothetical protein; WM92_266550.0Showinfo_outline
741390..41638PHAGE_Sodali_phiSG1_NC_007902: ImpC protein; WM92_26660; phage(gi89886014)8.40e-20Showinfo_outline
841635..42072PHAGE_Cronob_ENT39118_NC_019934: protein umuD; WM92_26665; phage(gi431811072)1.77e-26Showinfo_outline
942072..43064PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; WM92_26670; phage(gi431811050)1.56e-131Showinfo_outline
1043195..44367PHAGE_Entero_fiAA91_ss_NC_022750: IS21 transposase; WM92_26675; phage(gi557307612)0.0Showinfo_outline
1144367..45164PROPHAGE_Escher_CFT073: transposase/IS protein; WM92_26680; phage(gi26248359)1.71e-70Showinfo_outline
1245244..45477PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; WM92_26685; phage(gi431811050)1.60e-24Showinfo_outline
13complement(45482..45874)plasmid stability protein; WM92_266900.0Showinfo_outline
14complement(45879..46850)PHAGE_Entero_P88_NC_026014: recombinase; WM92_26695; phage(gi744692717)3.93e-74Showinfo_outline
1546972..46983attL0.0Showinfo_outline
1647079..47723PHAGE_Sodali_phiSG1_NC_007902: ParA-like protein; WM92_26700; phage(gi89886027)3.91e-20Showinfo_outline
1747717..47992CopG family transcriptional regulator; WM92_267050.0Showinfo_outline
18complement(48130..48939)PHAGE_Mycoba_Squirty_NC_026588: non-functional integrase; WM92_26710; phage(gi764159894)6.99e-07Showinfo_outline
1950766..50777attR0.0Showinfo_outline
2053586..53597attR0.0Showinfo_outline

Region 2, total 12 CDS

#CDS PositionBLAST HitE-ValueSequence
150847..50859attL0.0Showinfo_outline
2complement(62601..63209)PHAGE_Stx2_c_1717_NC_011357: transposase; WM92_26760; phage(gi209447153)9.50e-129Showinfo_outline
3complement(63277..64056)PROPHAGE_Escher_CFT073: transposase/IS protein; WM92_26765; phage(gi26248359)0.0Showinfo_outline
4complement(64056..65078)PROPHAGE_Escher_CFT073: transposase; WM92_26770; phage(gi26248360)0.0Showinfo_outline
5complement(65164..66109)PHAGE_Stx2_c_1717_NC_011357: transposase; WM92_26775; phage(gi209447153)2.14e-30Showinfo_outline
6complement(66158..66505)PHAGE_Stx2_c_1717_NC_011357: transposase; WM92_26780; phage(gi209447152)1.81e-76Showinfo_outline
7complement(66502..66906)PHAGE_Stx2_c_1717_NC_011357: truncated transposase; WM92_26785; phage(gi209447151)6.69e-42Showinfo_outline
8complement(66935..67324)PROPHAGE_Escher_EDL933: IS629 transposase; WM92_26790; phage(gi15803526)2.73e-74Showinfo_outline
9complement(67408..68916)PHAGE_Pseudo_phi3_NC_030940: hypothetical protein; WM92_26795; phage(gi100001)3.74e-48Showinfo_outline
10complement(69523..70002)PROPHAGE_Escher_CFT073: transposase IS629; WM92_26800; phage(gi26250986)1.13e-91Showinfo_outline
11complement(70002..70328)PHAGE_Stx2_c_1717_NC_011357: putative transposase; WM92_26805; phage(gi209447180)3.02e-73Showinfo_outline
1277912..77924attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 142858 bps
Phages: 2
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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