Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1163046632

GenInfo (GI) Number: 0000000000

Download Results:

gi|00000000|ref|CP020064.1| Klebsiella pneumoniae strain AR_0117 plasmid unitig_3, complete 83376, gc%: 54.03%

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
112.7Kbincomplete30138770-21481 info_outlinePHAGE_Salmon_SJ46_NC_031129(4)52.80%Show info_outline
226.4Kbincomplete403156252-82707 info_outlinePHAGE_Entero_P1_NC_005856(3)56.01%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|CP020064.1| Klebsiella pneumoniae strain AR_0117 plasmid unitig_3, complete 83376, gc%: 54.03%

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 13 CDS

#CDS PositionBLAST HitE-ValueSequence
18770..11667PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; AM364_28965; phage(gi100060)0.0Showinfo_outline
2complement(11763..12071)PHAGE_Entero_mEp213_NC_019720: hypothetical protein; AM364_28970; phage(gi428782634)2.27e-16Showinfo_outline
3complement(12068..12718)hypothetical protein; AM364_289750.0Showinfo_outline
4complement(12888..15893)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; AM364_28980; phage(gi100060)1.36e-131Showinfo_outline
516057..16614PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; AM364_28985; phage(gi100036)3.74e-27Showinfo_outline
616946..17044glycosyl transferase; AM364_289900.0Showinfo_outline
717001..17276PHAGE_Entero_P1_NC_005856: InsA; AM364_28995; phage(gi46401643)7.08e-63Showinfo_outline
817195..17698PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; AM364_29000; phage(gi557307573)1.15e-118Showinfo_outline
917700..18179PHAGE_Staphy_SPbeta_like_NC_029119: bifunctional AAC/APH; AM364_29005; phage(gi985761240)1.34e-10Showinfo_outline
1018249..19037ANT(3'')-Ia family aminoglycoside nucleotidyltransferase AadA1; AM364_290100.0Showinfo_outline
1119097..19921oxacillin-hydrolyzing class D beta-lactamase OXA-9; AM364_290150.0Showinfo_outline
1220157..20438PHAGE_Salmon_SJ46_NC_031129: prohead core protein protease; AM364_29020; phage(gi100061)4.72e-07Showinfo_outline
1320621..21481PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; AM364_29025; phage(gi100066)5.20e-57Showinfo_outline

Region 2, total 33 CDS

#CDS PositionBLAST HitE-ValueSequence
2complement(60171..61046)PHAGE_Marino_P12026_NC_018269: putative DNA modification methylase; AM364_29260; phage(gi399528347)4.59e-14Showinfo_outline
3complement(61095..61325)hypothetical protein; AM364_292650.0Showinfo_outline
4complement(61420..61647)hypothetical protein; AM364_292700.0Showinfo_outline
5complement(62463..62786)PHAGE_Rhodob_RcapNL_NC_020489: hypothetical protein; AM364_29275; phage(gi461475014)7.79e-15Showinfo_outline
6complement(62783..63511)plasmid SOS inhibition protein A; AM364_292800.0Showinfo_outline
7complement(63508..63939)plasmid SOS inhibition protein B; AM364_292850.0Showinfo_outline
8complement(63983..65983)PHAGE_Gordon_Hedwig_NC_031099: RNA polymerase binding protein; AM364_29290; phage(gi100054)1.01e-07Showinfo_outline
9complement(66052..66300)transcriptional regulator; AM364_292950.0Showinfo_outline
10complement(66350..66907)PHAGE_Xantho_vB_XveM_DIBBI_NC_017981: single-stranded DNA-binding protein; AM364_29300; phage(gi389060431)1.98e-63Showinfo_outline
11complement(66938..67027)single-stranded DNA-binding protein; AM364_293050.0Showinfo_outline
12complement(67422..67838)PHAGE_Entero_P1_NC_005856: Hot; AM364_29310; phage(gi46401721)1.03e-07Showinfo_outline
13complement(67998..68189)hypothetical protein; AM364_293150.0Showinfo_outline
14complement(68232..68738)PHAGE_Rhodoc_CosmicSans_NC_028677: ArdA; AM364_29320; phage(gi966199624)2.43e-11Showinfo_outline
15complement(68784..69518)PHAGE_Pseudo_YuA_NC_010116: hypothetical protein; AM364_29325; phage(gi162135127)6.29e-10Showinfo_outline
16complement(69637..70404)hypothetical protein; AM364_293300.0Showinfo_outline
17complement(70451..70861)hypothetical protein; AM364_293350.0Showinfo_outline
18complement(70907..71128)PHAGE_Entero_N15_NC_001901: gp50; AM364_29340; phage(gi9630517)1.81e-05Showinfo_outline
19complement(71128..71829)PHAGE_Staphy_Stau2_NC_030933: hypothetical protein; AM364_29345; phage(gi100063)3.04e-31Showinfo_outline
20complement(72031..72225)hypothetical protein; AM364_293500.0Showinfo_outline
21complement(72264..72494)hypothetical protein; AM364_293550.0Showinfo_outline
2272698..72943PHAGE_Yersin_PY54_NC_005069: hypothetical protein; AM364_29360; phage(gi33770564)1.03e-13Showinfo_outline
2372940..73389PHAGE_Cronob_ENT39118_NC_019934: protein umuD; AM364_29365; phage(gi431811072)5.19e-31Showinfo_outline
2473401..74675PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; AM364_29370; phage(gi431811050)0.0Showinfo_outline
25complement(74850..75077)hypothetical protein; AM364_293750.0Showinfo_outline
26complement(75122..75748)PHAGE_Rhizob_RHEph10_NC_034248: hypothetical protein; AM364_29380; phage(gi100154)8.50e-37Showinfo_outline
2776346..76966PHAGE_Clostr_phiCD27_NC_011398: putative phage site-specific recombinase; AM364_29385; phage(gi209901279)3.24e-06Showinfo_outline
2876986..77252hypothetical protein; AM364_293900.0Showinfo_outline
2977373..78326PROPHAGE_Escher_MG1655: predicted transposase; AM364_29395; phage(gi16131287)3.64e-112Showinfo_outline
30complement(78323..78934)hypothetical protein; AM364_294000.0Showinfo_outline
32complement(79252..79530)cytoplasmic protein; AM364_294050.0Showinfo_outline
33complement(79720..82707)PROPHAGE_Xantho_33913: Tn5041 transposase; AM364_29410; phage(gi21231545)3.70e-37Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 83376 bps
Phages: 2
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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