Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1093006935

GenInfo (GI) Number: 0000000000

Download Results:

gi|00000000|ref|CP012429.1| Klebsiella pneumoniae strain KP5 plasmid pSg1-3, complete 46883, gc%: 54.13%

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
145.8Kbintact11047112-46002 info_outlinePHAGE_Klebsi_phiKO2_NC_005857(44)54.30%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|CP012429.1| Klebsiella pneumoniae strain KP5 plasmid pSg1-3, complete 46883, gc%: 54.13%

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 47 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(112..447)PHAGE_Entero_N15_NC_001901: gp35; ACG94_27560; phage(gi9630505)1.05e-49Showinfo_outline
2complement(434..640)hypothetical protein; ACG94_275650.0Showinfo_outline
3complement(633..4637)PHAGE_Klebsi_phiKO2_NC_005857: Gp35; ACG94_27570; phage(gi46402121)0.0Showinfo_outline
4complement(4889..5497)PHAGE_Klebsi_phiKO2_NC_005857: Gp36; ACG94_27575; phage(gi46402122)7.25e-138Showinfo_outline
55578..5787PHAGE_Klebsi_phiKO2_NC_005857: Gp37; ACG94_27580; phage(gi46402123)5.70e-41Showinfo_outline
65777..6514PHAGE_Klebsi_phiKO2_NC_005857: lambda Q-like transcription antiterminator; ACG94_27585; phage(gi46402124)2.83e-157Showinfo_outline
76402..6716PHAGE_Yersin_PY54_NC_005069: hypothetical protein; ACG94_27590; phage(gi33770552)4.79e-28Showinfo_outline
86926..7534PHAGE_Klebsi_phiKO2_NC_005857: Gp39; ACG94_27595; phage(gi46402125)5.77e-132Showinfo_outline
97662..7994PHAGE_Klebsi_phiKO2_NC_005857: Gp41; ACG94_27600; phage(gi46402127)1.81e-59Showinfo_outline
107995..8288PHAGE_Klebsi_phiKO2_NC_005857: Gp43; ACG94_27605; phage(gi46402129)2.05e-56Showinfo_outline
118619..8945PHAGE_Klebsi_phiKO2_NC_005857: Gp45; ACG94_27615; phage(gi46402131)1.40e-62Showinfo_outline
128966..9193PHAGE_Klebsi_phiKO2_NC_005857: Gp46; ACG94_27620; phage(gi46402132)1.91e-34Showinfo_outline
139297..9500PHAGE_Klebsi_phiKO2_NC_005857: Gp47; ACG94_27625; phage(gi46402133)4.57e-29Showinfo_outline
14complement(9545..9832)PHAGE_Klebsi_phiKO2_NC_005857: Gp48; ACG94_27630; phage(gi46402134)1.50e-61Showinfo_outline
15complement(9832..10140)PHAGE_Klebsi_phiKO2_NC_005857: Gp49; ACG94_27635; phage(gi46402135)2.48e-63Showinfo_outline
1610311..10532PHAGE_Klebsi_phiKO2_NC_005857: Gp50; ACG94_27640; phage(gi46402136)4.18e-38Showinfo_outline
1710544..10771PHAGE_Klebsi_phiKO2_NC_005857: Gp51; ACG94_27645; phage(gi46402137)3.56e-41Showinfo_outline
1811089..12150PHAGE_Klebsi_phiKO2_NC_005857: putative DNA adenine methylase; ACG94_27650; phage(gi46402138)0.0Showinfo_outline
1912209..12520PHAGE_Klebsi_phiKO2_NC_005857: Gp53; ACG94_27655; phage(gi46402139)6.25e-59Showinfo_outline
2012517..13008PHAGE_Klebsi_phiKO2_NC_005857: Gp54; ACG94_27660; phage(gi46402140)5.93e-109Showinfo_outline
2113025..13501PHAGE_Klebsi_phiKO2_NC_005857: Gp55; ACG94_27665; phage(gi46402141)1.20e-86Showinfo_outline
2213755..14054PHAGE_Klebsi_phiKO2_NC_005857: Gp58; ACG94_27670; phage(gi46402144)7.87e-69Showinfo_outline
2314224..14586PHAGE_Klebsi_phiKO2_NC_005857: Gp60; ACG94_27675; phage(gi46402146)4.43e-79Showinfo_outline
2414583..14867PHAGE_Klebsi_phiKO2_NC_005857: Gp61; ACG94_27680; phage(gi46402147)1.49e-07Showinfo_outline
2514867..15295PHAGE_Klebsi_phiKO2_NC_005857: Gp62; ACG94_27685; phage(gi46402148)2.21e-55Showinfo_outline
2615381..15581PHAGE_Klebsi_phiKO2_NC_005857: Gp64; ACG94_27690; phage(gi46402150)5.51e-38Showinfo_outline
2715712..16146PHAGE_Klebsi_phiKO2_NC_005857: putative small terminase subunit; ACG94_27695; phage(gi46402087)7.67e-100Showinfo_outline
2816181..17890PHAGE_Klebsi_phiKO2_NC_005857: putative large terminase subunit; ACG94_27700; phage(gi46402088)0.0Showinfo_outline
2917884..18063PHAGE_Klebsi_phiKO2_NC_005857: Gp3; ACG94_27705; phage(gi46402089)3.14e-24Showinfo_outline
3018063..19322PHAGE_Klebsi_phiKO2_NC_005857: putative portal protein; ACG94_27710; phage(gi46402090)0.0Showinfo_outline
3119359..20279PHAGE_Klebsi_phiKO2_NC_005857: putative head maturation protease; ACG94_27715; phage(gi46402091)0.0Showinfo_outline
3220357..21643PHAGE_Klebsi_phiKO2_NC_005857: major capsid head protein precursor; ACG94_27720; phage(gi46402092)0.0Showinfo_outline
3321703..22017PHAGE_Klebsi_phiKO2_NC_005857: Gp7; ACG94_27725; phage(gi46402093)3.93e-29Showinfo_outline
3421998..22315PHAGE_Klebsi_phiKO2_NC_005857: Gp8; ACG94_27730; phage(gi46402094)1.49e-62Showinfo_outline
3522312..22650PHAGE_Klebsi_phiKO2_NC_005857: Gp9; ACG94_27735; phage(gi46402095)8.25e-72Showinfo_outline
3622631..23020PHAGE_Klebsi_phiKO2_NC_005857: Gp10; ACG94_27740; phage(gi46402096)5.13e-78Showinfo_outline
3723017..23418PHAGE_Klebsi_phiKO2_NC_005857: Gp11; ACG94_27745; phage(gi46402097)1.15e-87Showinfo_outline
3823450..23911PHAGE_Klebsi_phiKO2_NC_005857: major tail shaft subunit; ACG94_27750; phage(gi46402098)2.21e-88Showinfo_outline
3923969..24334PHAGE_Klebsi_phiKO2_NC_005857: putative tail assembly chaperone; ACG94_27755; phage(gi46402099)8.81e-73Showinfo_outline
4024567..27902PHAGE_Klebsi_phiKO2_NC_005857: putative tapemeasure protein; ACG94_27760; phage(gi46402101)0.0Showinfo_outline
4127902..28240PHAGE_Klebsi_phiKO2_NC_005857: Gp16; ACG94_27765; phage(gi46402102)8.62e-73Showinfo_outline
4228237..28992PHAGE_Klebsi_phiKO2_NC_005857: Gp17; ACG94_27770; phage(gi46402103)5.93e-159Showinfo_outline
4328994..29704PHAGE_Klebsi_phiKO2_NC_005857: Gp18; ACG94_27775; phage(gi46402104)5.68e-166Showinfo_outline
4430102..30713PHAGE_Klebsi_phiKO2_NC_005857: Gp20; ACG94_27780; phage(gi46402106)1.15e-96Showinfo_outline
4530776..43438PHAGE_Klebsi_phiKO2_NC_005857: Gp21; ACG94_27785; phage(gi46402107)0.0Showinfo_outline
4643507..45006PHAGE_Klebsi_Sushi_NC_028774: tail fiber; ACG94_27790; phage(gi971742192)5.12e-21Showinfo_outline
47complement(45085..46002)PHAGE_Klebsi_phiKO2_NC_005857: Gp24; ACG94_27795; phage(gi46402110)0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 46883 bps
Phages: 1
Click on a region in the genome above to show details here.
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Click on a sequence to see details.
Portal Protein
Coat Protein
Tail Shaft
Attachment Site
Phage-like Protein
Hypotheical Protein
Fiber Protein
Plate Protein

Download data as .txt file: png_input file_download