Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1040719028

GenInfo (GI) Number: 0000000000

Download Results: 1040719028.PHASTER.zip

gi|00000000|ref|LC155908.1| Klebsiella pneumoniae plasmid pKUN4843_1 DNA, complete sequence, 38744, gc%: 55.86%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
134.9Kbintact110392680-37650 info_outlinePHAGE_Salmon_SJ46_NC_031129(5)55.43%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|LC155908.1| Klebsiella pneumoniae plasmid pKUN4843_1 DNA, complete sequence, 38744, gc%: 55.86%

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 45 CDS

#CDS PositionBLAST HitE-ValueSequence
12680..2694attL0.0Showinfo_outline
22680..2694attL0.0Showinfo_outline
32726..3448PROPHAGE_Brucel_1330: transposase, putative; -; phage(gi23502708)2.53e-53Showinfo_outline
43488..4942PROPHAGE_Xantho_33913: Tn5041 transposase; -; phage(gi21231545)3.16e-48Showinfo_outline
5complement(5274..5924)Transcriptional regulator TetR family; -0.0Showinfo_outline
66102..7229tetracycline efflux protein TetA; -0.0Showinfo_outline
7complement(7261..8145)permease of the drug metabolite transporter DMT superfamily; -0.0Showinfo_outline
8complement(8283..8690)amidases related to nicotinamidase; -0.0Showinfo_outline
98634..10430PROPHAGE_Xantho_33913: Tn5041 transposase; -; phage(gi21231545)1.06e-47Showinfo_outline
10complement(10427..10696)PHAGE_Entero_HK022_NC_002166: IS903 transposase; -; phage(gi9634149)6.81e-38Showinfo_outline
1111277..11663hypothetical protein; -0.0Showinfo_outline
1211747..11764attL0.0Showinfo_outline
13complement(11803..12771)PHAGE_Entero_HK022_NC_002166: IS903 transposase; -; phage(gi9634149)0.0Showinfo_outline
1413286..14425hypothetical protein; -0.0Showinfo_outline
15complement(14676..15053)PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; -; phage(gi557307573)4.85e-75Showinfo_outline
16complement(15525..16499)PHAGE_Pseudo_phi3_NC_030940: hypothetical protein; -; phage(gi100001)4.54e-23Showinfo_outline
17complement(16647..17009)retron-type RNA-directed DNA polymerase; -0.0Showinfo_outline
1817418..17849PHAGE_Cronob_ENT39118_NC_019934: protein umuD; -; phage(gi431811072)5.32e-34Showinfo_outline
1917849..19120PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; -; phage(gi431811050)0.0Showinfo_outline
20complement(19202..20176)PHAGE_Entero_P1_NC_005856: ParB; -; phage(gi46401681)3.41e-115Showinfo_outline
21complement(20176..21381)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; -; phage(gi100009)0.0Showinfo_outline
2221392..21538hypothetical protein; -0.0Showinfo_outline
2321535..21681hypothetical protein; -0.0Showinfo_outline
2421796..22065hypothetical protein; -0.0Showinfo_outline
25complement(22242..22964)PHAGE_Burkho_KS14_NC_015273: gp37; -; phage(gi327198306)1.47e-17Showinfo_outline
2623870..24127hypothetical protein; -0.0Showinfo_outline
27complement(24185..24961)PHAGE_Mycoba_Squirty_NC_026588: non-functional integrase; -; phage(gi764159894)5.08e-08Showinfo_outline
28complement(24958..25701)hypothetical protein; -0.0Showinfo_outline
29complement(25752..26102)hypothetical protein; -0.0Showinfo_outline
3026675..26905virulence-associated protein vagC; -0.0Showinfo_outline
3126902..27318VagD; -0.0Showinfo_outline
3227360..27377attR0.0Showinfo_outline
3327522..27806PHAGE_Shigel_SfIV_NC_022749: ISEhe3 orfA; -; phage(gi557307550)5.75e-22Showinfo_outline
3427854..28441PHAGE_Shigel_SfIV_NC_022749: ISEhe3 orfB; -; phage(gi557307549)3.13e-59Showinfo_outline
3528660..29736mobile element protein; -0.0Showinfo_outline
36complement(29711..29899)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; -; phage(gi100060)1.51e-08Showinfo_outline
37complement(30145..30264)hypothetical protein; -0.0Showinfo_outline
38complement(30405..30977)PROPHAGE_Xantho_33913: Tn5041 transposase; -; phage(gi21231545)6.13e-27Showinfo_outline
3930998..31012attR0.0Showinfo_outline
40complement(31051..31773)PROPHAGE_Brucel_1330: transposase, putative; -; phage(gi23502708)2.53e-53Showinfo_outline
41complement(31802..32290)chromate transport protein ChrA; -0.0Showinfo_outline
42complement(32445..32648)similar to puromycin N-acetyltransferase; -0.0Showinfo_outline
43complement(32776..33615)dihydropteroate synthase; -0.0Showinfo_outline
44complement(33609..33956)PHAGE_Acinet_Acj61_NC_014661: putative quaternary ammonium compound-resistance protein qacE; -; phage(gi311992758)9.11e-09Showinfo_outline
4537650..37664attR0.0Showinfo_outline
Klebsiella pneumoniae plasmid pKUN4843_1 DNA, complete sequence
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 38744 bps
Phages: 1
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Click on a region in the genome above to show details here.
Viewer Options
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