Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1142877895

GenInfo (GI) Number: 0000000000

Download Results: 1142877895.PHASTER.zip

gi|00000000|ref|CP017287.1| Klebsiella variicola strain GJ3 plasmid pKPGJ-3c, complete 73385, gc%: 53.97%

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
132Kbquestionable90281915-33955 info_outlinePHAGE_Salmon_SJ46_NC_031129(6)54.85%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|CP017287.1| Klebsiella variicola strain GJ3 plasmid pKPGJ-3c, complete 73385, gc%: 53.97%

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 36 CDS

#CDS PositionBLAST HitE-ValueSequence
11915..1927attL0.0Showinfo_outline
210685..11389PROPHAGE_Brucel_1330: transposase, putative; BBD65_27350; phage(gi23502708)5.08e-53Showinfo_outline
311428..11441attL0.0Showinfo_outline
411428..11441attL0.0Showinfo_outline
511431..11442attL0.0Showinfo_outline
611511..12416Mph(A) family macrolide 2'-phosphotransferase; BBD65_273550.0Showinfo_outline
712413..13651MFS transporter; BBD65_273600.0Showinfo_outline
813651..14235macrolide 2'-phosphotransferase; BBD65_273650.0Showinfo_outline
9complement(14728..15492)PROPHAGE_Brucel_1330: transposase, putative; BBD65_27370; phage(gi23502708)3.18e-55Showinfo_outline
10complement(15719..16024)PadR family transcriptional regulator; BBD65_273750.0Showinfo_outline
11complement(16035..17240)chromate transporter; BBD65_273800.0Showinfo_outline
1217573..17827replication protein; BBD65_273850.0Showinfo_outline
1318132..18989incFII family plasmid replication initiator RepA; BBD65_273900.0Showinfo_outline
1419928..20581hypothetical protein; BBD65_273950.0Showinfo_outline
1520674..20931antitoxin; BBD65_274000.0Showinfo_outline
1620933..21265PHAGE_Lactob_Lj771_NC_010179: MazF-like protein; BBD65_27405; phage(gi163932202)2.22e-13Showinfo_outline
1721708..21935PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; BBD65_27410; phage(gi557307573)1.61e-47Showinfo_outline
18complement(21965..22498)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BBD65_27415; phage(gi100060)1.60e-32Showinfo_outline
19complement(22576..23280)PROPHAGE_Brucel_1330: transposase, putative; BBD65_27420; phage(gi23502708)1.98e-53Showinfo_outline
2023281..23541PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BBD65_27425; phage(gi100067)1.02e-38Showinfo_outline
2123791..24666PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BBD65_27430; phage(gi100066)0.0Showinfo_outline
2224746..25669PHAGE_Salmon_SJ46_NC_031129: sigma factor for late transcription; BBD65_27435; phage(gi100065)0.0Showinfo_outline
2325726..26823PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BBD65_27440; phage(gi100064)0.0Showinfo_outline
2426853..27035hypothetical protein; BBD65_274450.0Showinfo_outline
25complement(27420..28124)PROPHAGE_Brucel_1330: transposase, putative; BBD65_27450; phage(gi23502708)1.98e-53Showinfo_outline
2628177..28188attR0.0Showinfo_outline
2728510..28926PHAGE_Bacill_Gamma_NC_007458: fosfomycin resistance protein; BBD65_27455; phage(gi77020174)2.46e-13Showinfo_outline
28complement(28931..29449)hypothetical protein; BBD65_274600.0Showinfo_outline
29complement(29515..30219)PROPHAGE_Brucel_1330: transposase, putative; BBD65_27465; phage(gi23502708)1.98e-53Showinfo_outline
3030269..30282attR0.0Showinfo_outline
3130455..31012PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BBD65_27470; phage(gi100036)2.13e-27Showinfo_outline
3231195..32055PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; BBD65_27475; phage(gi100066)8.20e-58Showinfo_outline
33complement(32398..32769)ANT(3'') family aminoglycoside nucleotidyltransferase; BBD65_274800.0Showinfo_outline
34complement(32822..33526)PROPHAGE_Brucel_1330: transposase, putative; BBD65_27485; phage(gi23502708)1.16e-53Showinfo_outline
3533576..33589attR0.0Showinfo_outline
3633955..33967attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 73385 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