Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1043440313

GenInfo (GI) Number: 0000000000

Download Results: 1043440313.PHASTER.zip

gi|00000000|ref|KU318421.1| Klebsiella pneumoniae strain KP04 plasmid pKP04VIM, complete 274659, gc%: 46.82%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
111.1Kbincomplete3021108119-119291 info_outlinePHAGE_Salmon_SSU5_NC_018843(3)46.30%Show info_outline
225.7Kbincomplete3013148882-174616 info_outlinePHAGE_Entero_933W_NC_000924(2)47.98%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|KU318421.1| Klebsiella pneumoniae strain KP04 plasmid pKP04VIM, complete 274659, gc%: 46.82%

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 21 CDS

#CDS PositionBLAST HitE-ValueSequence
1108119..108988PHAGE_Marino_P12026_NC_018269: putative DNA modification methylase; -; phage(gi399528347)3.14e-13Showinfo_outline
2109042..109362PHAGE_Salmon_SSU5_NC_018843: hypothetical protein; -; phage(gi410491515)5.17e-38Showinfo_outline
3109443..109757hypothetical protein; -0.0Showinfo_outline
4110044..110247PHAGE_Entero_mEp460_NC_019716: hypothetical protein; -; phage(gi428782347)6.32e-22Showinfo_outline
5110290..110901hypothetical protein; -0.0Showinfo_outline
6110966..111211PHAGE_Entero_mEp460_NC_019716: hypothetical protein; -; phage(gi428782346)7.42e-26Showinfo_outline
7111358..111546hypothetical protein; -0.0Showinfo_outline
8111539..112273PHAGE_Salmon_epsilon34_NC_011976: EaD-like protein; -; phage(gi221328645)4.80e-19Showinfo_outline
9112539..112763PHAGE_Salmon_II_E1_NC_010495: hypothetical protein; -; phage(gi170676296)8.63e-14Showinfo_outline
10112767..113840PHAGE_Burkho_BcepNY3_NC_009604: BcepNY3gp60; -; phage(gi149882961)2.89e-22Showinfo_outline
11113841..114164PHAGE_Erwini_phiEt88_NC_015295: hypothetical protein; -; phage(gi327198613)3.34e-19Showinfo_outline
12114257..114664PHAGE_Salmon_SPN3UB_NC_019545: putative Eaa protein; -; phage(gi423262432)3.77e-23Showinfo_outline
13114712..114945PHAGE_Escher_ECML_117_NC_025441: hypothetical protein; -; phage(gi725950145)2.09e-07Showinfo_outline
14114945..115145hypothetical protein; -0.0Showinfo_outline
15115435..115647PHAGE_Salmon_SSU5_NC_018843: hypothetical protein; -; phage(gi410491522)1.83e-17Showinfo_outline
16115904..116536hypothetical protein; -0.0Showinfo_outline
17116576..117097PHAGE_Klebsi_Matisse_NC_028750: baseplate wedge subunit; -; phage(gi100179)5.74e-44Showinfo_outline
18117190..117495hypothetical protein; -0.0Showinfo_outline
19117729..118049hypothetical protein; -0.0Showinfo_outline
20118139..118573phage tail protein; -0.0Showinfo_outline
21118659..119291PHAGE_Caulob_CcrColossus_NC_019406: putative methyltransferase; -; phage(gi414088386)5.48e-35Showinfo_outline

Region 2, total 17 CDS

#CDS PositionBLAST HitE-ValueSequence
1148882..148893attL0.0Showinfo_outline
2149660..149673attL0.0Showinfo_outline
3complement(157536..158240)PROPHAGE_Brucel_1330: transposase, putative; -; phage(gi23502708)1.98e-53Showinfo_outline
4158290..158303attR0.0Showinfo_outline
5158388..158963integrase; -0.0Showinfo_outline
6159102..160145hypothetical protein; -0.0Showinfo_outline
7160142..161875thiamine biosynthesis protein ThiF; -0.0Showinfo_outline
8161868..162338hypothetical protein; -0.0Showinfo_outline
9162347..163414hypothetical protein; -0.0Showinfo_outline
10163924..165717PHAGE_Entero_P2_NC_001895: Old; -; phage(gi9630369)3.46e-18Showinfo_outline
11166271..166627PHAGE_Cronob_ENT39118_NC_019934: protein umuD; -; phage(gi431811072)2.05e-22Showinfo_outline
12166636..167910PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; -; phage(gi431811050)0.0Showinfo_outline
13167974..169008PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; -; phage(gi431811050)5.61e-133Showinfo_outline
14169094..169411hypothetical protein; -0.0Showinfo_outline
15complement(169622..170701)PHAGE_Spirop_SkV1_CR2_3x_NC_009987: hypothetical protein; -; phage(gi160688404)1.08e-08Showinfo_outline
16170773..170934PHAGE_Entero_933W_NC_000924: host killer protein; -; phage(gi9632541)2.42e-06Showinfo_outline
17174616..174627attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 274659 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