Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1132369713

GenInfo (GI) Number: 0000000000

Download Results: 1132369713.PHASTER.zip

gi|00000000|ref|CP015394.1| Klebsiella pneumoniae strain CR14 plasmid pCR14_2, complete 154343, gc%: 51.72%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
124.7Kbquestionable9029110630-135350 info_outlinePHAGE_Salmon_SJ46_NC_031129(3)52.62%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|CP015394.1| Klebsiella pneumoniae strain CR14 plasmid pCR14_2, complete 154343, gc%: 51.72%

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 29 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(110630..111643)PHAGE_Mycoba_Butters_NC_021061: integrase; A6P37_28940; phage(gi479336499)2.30e-12Showinfo_outline
2111745..112347PHAGE_Staphy_SPbeta_like_NC_029119: bifunctional AAC/APH; A6P37_28945; phage(gi985761240)4.51e-16Showinfo_outline
3112429..113256class D beta-lactamase; A6P37_289500.0Showinfo_outline
4complement(113454..113579)hypothetical protein; A6P37_289550.0Showinfo_outline
5113712..114059PHAGE_Acinet_Acj61_NC_014661: putative quaternary ammonium compound-resistance protein qacE; A6P37_28960; phage(gi311992758)9.11e-09Showinfo_outline
6114053..114892sulfonamide-resistant dihydropteroate synthase Sul1; A6P37_289650.0Showinfo_outline
7115291..116838transposase; A6P37_289700.0Showinfo_outline
8117337..118212PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; A6P37_28975; phage(gi100066)7.16e-170Showinfo_outline
9119296..119643PHAGE_Acinet_Acj61_NC_014661: putative quaternary ammonium compound-resistance protein qacE; A6P37_28980; phage(gi311992758)9.11e-09Showinfo_outline
10119637..120476sulfonamide-resistant dihydropteroate synthase Sul1; A6P37_289850.0Showinfo_outline
11120604..121104acetyltransferase; A6P37_289900.0Showinfo_outline
12complement(121280..121588)PHAGE_Entero_fiAA91_ss_NC_022750: IS21 transposition protein; A6P37_28995; phage(gi557307613)2.79e-23Showinfo_outline
13complement(121622..124630)PROPHAGE_Xantho_33913: Tn5041 transposase; A6P37_29000; phage(gi21231545)2.34e-33Showinfo_outline
14124794..125351PHAGE_Salisa_1_NC_017983: hypothetical protein; A6P37_29005; phage(gi388570712)1.21e-29Showinfo_outline
15125534..126394PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; A6P37_29010; phage(gi100066)5.20e-57Showinfo_outline
16126536..127396PHAGE_Bacill_SPbeta_NC_001884: hypothetical protein; A6P37_29015; phage(gi9630129)3.38e-25Showinfo_outline
17127409..127702hypothetical protein; A6P37_290200.0Showinfo_outline
18127755..128066transposase; A6P37_290250.0Showinfo_outline
19128063..128893PHAGE_Shigel_Sf6_NC_005344: putative transposase OrfB; A6P37_29030; phage(gi41057343)2.39e-32Showinfo_outline
20complement(128959..129144)PHAGE_Sinorh_phiLM21_NC_029046: hypothetical protein; A6P37_29035; phage(gi981221103)8.84e-07Showinfo_outline
21complement(129417..129968)hypothetical protein; A6P37_290400.0Showinfo_outline
22complement(130036..130425)PROPHAGE_Brucel_1330: IS5 family transposase orfB; A6P37_29045; phage(gi23501423)7.14e-36Showinfo_outline
23complement(130446..130796)PROPHAGE_Brucel_1330: IS5 family transposase orfA; A6P37_29050; phage(gi23501422)1.77e-39Showinfo_outline
24complement(131200..132132)PROPHAGE_Escher_MG1655: IS5 transposase and trans-activator; A6P37_29055; phage(gi16129935)3.94e-121Showinfo_outline
25132400..132735hypothetical protein; A6P37_290600.0Showinfo_outline
26132902..133354hypothetical protein; A6P37_290650.0Showinfo_outline
27complement(133370..133972)hypothetical protein; A6P37_290700.0Showinfo_outline
28134195..134515hypothetical protein; A6P37_290750.0Showinfo_outline
29134814..135350PHAGE_Nitrin_1M3_16_NC_024217: hypothetical protein; A6P37_29080; phage(gi643655172)1.20e-05Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 154343 bps
Phages: 1
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Click on a region in the genome above to show details here.
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Click on a sequence to see details.
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