Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1110961487

GenInfo (GI) Number: 0000000000

Download Results: 1110961487.PHASTER.zip

gi|00000000|ref|CP018316.1| Klebsiella pneumoniae strain Kp_Goe_822579 plasmid pKp_Goe_579-4, 61012, gc%: 51.36%

Download summary as .txt file: summary.txt file_download

Total: 4 prophage regions have been identified, of which 0 regions are intact, 3 regions are incomplete, and 1 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
15.6Kbincomplete3086098-11732 info_outlinePHAGE_Entero_N15_NC_001901(2)52.26%Show info_outline
222.2Kbincomplete501611861-34085 info_outlinePHAGE_Entero_P1_NC_005856(5)50.50%Show info_outline
315.9Kbquestionable701938382-54372 info_outlinePHAGE_Salmon_SJ46_NC_031129(5)49.32%Show info_outline
44.5Kbincomplete30555184-59779 info_outlinePHAGE_Staphy_SPbeta_like_NC_029119(2)53.79%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|CP018316.1| Klebsiella pneumoniae strain Kp_Goe_822579 plasmid pKp_Goe_579-4, 61012, gc%: 51.36%

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
16098..7894PROPHAGE_Xantho_33913: Tn5041 transposase; BB744_05604; phage(gi21231545)1.54e-47Showinfo_outline
27984..8460PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; BB744_05605; phage(gi431811050)5.77e-50Showinfo_outline
3complement(8607..8888)PHAGE_Entero_N15_NC_001901: gp48; BB744_05606; phage(gi9630515)3.83e-15Showinfo_outline
4complement(8869..9198)PHAGE_Entero_N15_NC_001901: gp49; BB744_05607; phage(gi9630516)6.92e-24Showinfo_outline
59434..10090hypothetical protein; BB744_056080.0Showinfo_outline
6complement(10025..10402)PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; BB744_05609; phage(gi557307573)3.45e-87Showinfo_outline
7complement(10447..10722)PHAGE_Entero_P1_NC_005856: InsA; BB744_05610; phage(gi46401643)7.08e-63Showinfo_outline
8complement(10773..11732)PHAGE_Bacill_SPbeta_NC_001884: ABC transporter; BB744_05611; phage(gi9630145)2.18e-15Showinfo_outline

Region 2, total 18 CDS

#CDS PositionBLAST HitE-ValueSequence
111861..11872attL0.0Showinfo_outline
216938..17714PHAGE_Mycoba_Squirty_NC_026588: non-functional integrase; BB744_05618; phage(gi764159894)5.08e-08Showinfo_outline
3complement(17772..18029)hypothetical protein; BB744_056190.0Showinfo_outline
418797..19663PHAGE_Burkho_KS14_NC_015273: gp37; BB744_05620; phage(gi327198306)1.71e-17Showinfo_outline
5complement(19840..20109)hypothetical protein; BB744_056210.0Showinfo_outline
620524..21729PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BB744_05622; phage(gi100009)0.0Showinfo_outline
721729..22703PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BB744_05623; phage(gi100010)1.82e-116Showinfo_outline
8complement(22785..24056)PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; BB744_05624; phage(gi431811050)0.0Showinfo_outline
9complement(24056..24487)PHAGE_Cronob_ENT39118_NC_019934: protein umuD; BB744_05625; phage(gi431811072)5.32e-34Showinfo_outline
1024896..26380PHAGE_Pseudo_phi3_NC_030940: hypothetical protein; BB744_05627; phage(gi100001)4.60e-37Showinfo_outline
1126532..26807PHAGE_Entero_P1_NC_005856: InsA; BB744_05628; phage(gi46401643)1.90e-60Showinfo_outline
1226852..27229PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; BB744_05629; phage(gi557307573)4.85e-75Showinfo_outline
13complement(27358..27909)hypothetical protein; BB744_056300.0Showinfo_outline
14complement(28740..29579)PROPHAGE_Xantho_33913: Tn5041 transposase; BB744_05631; phage(gi21231545)3.09e-41Showinfo_outline
15complement(29589..31055)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BB744_05632; phage(gi100060)6.58e-72Showinfo_outline
16complement(31103..31807)PROPHAGE_Brucel_1330: transposase, putative; BB744_05633; phage(gi23502708)1.16e-53Showinfo_outline
1731832..33082PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BB744_05634; phage(gi100067)3.77e-53Showinfo_outline
1834085..34096attR0.0Showinfo_outline

Region 3, total 19 CDS

#CDS PositionBLAST HitE-ValueSequence
138382..39305PHAGE_Entero_HK022_NC_002166: IS903 transposase; BB744_05643; phage(gi9634149)0.0Showinfo_outline
240107..40229hypothetical protein; BB744_056440.0Showinfo_outline
340243..40368PROPHAGE_Xantho_33913: IS1477 transposase; BB744_05645; phage(gi21231080)8.16e-09Showinfo_outline
440401..41225PROPHAGE_Xantho_33913: IS1477 transposase; BB744_05647; phage(gi77747809)1.06e-99Showinfo_outline
541567..41920hypothetical protein; BB744_056480.0Showinfo_outline
6complement(41945..44494)PROPHAGE_Xantho_33913: Tn5041 transposase; BB744_05649; phage(gi21231545)4.75e-31Showinfo_outline
7complement(44799..45119)hypothetical protein; BB744_056500.0Showinfo_outline
8complement(45133..46008)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BB744_05651; phage(gi100066)1.60e-170Showinfo_outline
9complement(46161..46283)hypothetical protein; BB744_056520.0Showinfo_outline
10complement(46264..47526)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BB744_05653; phage(gi100067)3.30e-53Showinfo_outline
11complement(47708..47926)Transposase, TnpA family; BB744_056540.0Showinfo_outline
1248090..48647PHAGE_Salisa_1_NC_017983: hypothetical protein; BB744_05655; phage(gi388570712)1.21e-29Showinfo_outline
1348830..49690PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BB744_05656; phage(gi100066)5.20e-57Showinfo_outline
14complement(49829..50044)PROPHAGE_Shigel_301: insertion element IS2 transposase InsD; BB744_05657; phage(gi24111655)1.08e-27Showinfo_outline
1550203..50370hypothetical protein; BB744_056580.0Showinfo_outline
16complement(50377..50568)PROPHAGE_Escher_CFT073: transposase insC; BB744_05659; phage(gi26250372)1.46e-22Showinfo_outline
1750936..51592PHAGE_Microc_MaMV_DC_NC_029002: hypothetical protein; BB744_05660; phage(gi971764756)5.37e-16Showinfo_outline
18complement(52372..53763)hypothetical protein; BB744_056610.0Showinfo_outline
19complement(53800..54372)PHAGE_Ralsto_RSM3_NC_011399: hypothetical protein; BB744_05662; phage(gi209901327)5.91e-26Showinfo_outline

Region 4, total 5 CDS

#CDS PositionBLAST HitE-ValueSequence
155184..55810PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; BB744_05664; phage(gi431811050)1.29e-61Showinfo_outline
2complement(55958..57298)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BB744_05665; phage(gi100068)3.41e-72Showinfo_outline
3complement(57422..58126)PROPHAGE_Brucel_1330: transposase, putative; BB744_05666; phage(gi23502708)1.98e-53Showinfo_outline
4complement(58138..58674)PHAGE_Burkho_KS14_NC_015273: gp6; BB744_05667; phage(gi327198275)1.26e-62Showinfo_outline
5complement(59015..59779)PROPHAGE_Brucel_1330: transposase, putative; BB744_05668; phage(gi23502708)3.18e-55Showinfo_outline
Klebsiella pneumoniae strain Kp_Goe_822579 plasmid pKp_Goe_579-4
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 61012 bps
Phages: 4
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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