Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1093006881

GenInfo (GI) Number: 0000000000

Download Results:

gi|00000000|ref|CP012428.1| Klebsiella pneumoniae strain KP5 plasmid pSg1-2, complete 54744, gc%: 48.86%

Download summary as .txt file: summary.txt file_download

Total: 3 prophage regions have been identified, of which 0 regions are intact, 2 regions are incomplete, and 1 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
17Kbincomplete506940-7973 info_outlinePHAGE_Bacill_BMBtpLA_NC_028748(1)49.82%Show info_outline
221.6Kbincomplete60139438-31040 info_outlinePHAGE_Entero_N15_NC_001901(2)49.46%Show info_outline
318.7Kbquestionable801731040-49827 info_outlinePHAGE_Entero_P1_NC_005856(2)45.65%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|CP012428.1| Klebsiella pneumoniae strain KP5 plasmid pSg1-2, complete 54744, gc%: 48.86%

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 6 CDS

#CDS PositionBLAST HitE-ValueSequence
1940..1206PROPHAGE_Xantho_306: Tn5044 transposase; ACG94_27260; phage(gi21243163)1.74e-34Showinfo_outline
21399..1665PROPHAGE_Xantho_306: Tn5044 transposase; ACG94_27265; phage(gi21243163)1.20e-21Showinfo_outline
31862..2098PROPHAGE_Xantho_306: Tn5044 transposase; ACG94_27270; phage(gi21243163)7.94e-27Showinfo_outline
4complement(3821..4669)PHAGE_Burkho_phi1026b_NC_005284: gp58; ACG94_27275; phage(gi38707948)3.18e-21Showinfo_outline
54802..5689PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; ACG94_27280; phage(gi100066)2.34e-154Showinfo_outline
66993..7973PHAGE_Bacill_BMBtpLA_NC_028748: IS5 transposase and trans-activator; ACG94_27285; phage(gi971482498)0.0Showinfo_outline

Region 2, total 17 CDS

#CDS PositionBLAST HitE-ValueSequence
29501..10205PROPHAGE_Brucel_1330: transposase, putative; ACG94_27305; phage(gi23502708)1.16e-53Showinfo_outline
411052..11231transcriptional regulator; ACG94_273150.0Showinfo_outline
5complement(11190..12203)PHAGE_Mycoba_Butters_NC_021061: integrase; ACG94_27320; phage(gi479336499)2.35e-12Showinfo_outline
612359..12832PHAGE_Bacill_Blue_NC_031056: hypothetical protein; ACG94_27325; phage(gi100007)3.31e-23Showinfo_outline
713053..13319mobilization protein; ACG94_273300.0Showinfo_outline
813462..14226PROPHAGE_Brucel_1330: transposase, putative; ACG94_27335; phage(gi23502708)3.18e-55Showinfo_outline
914493..15701PHAGE_Burkho_KL3_NC_015266: gp45; ACG94_27340; phage(gi327198090)1.15e-40Showinfo_outline
10complement(15735..17168)PHAGE_Burkho_KL3_NC_015266: gp47; ACG94_27345; phage(gi327198092)4.72e-132Showinfo_outline
1117273..17539PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; ACG94_27350; phage(gi557307573)5.16e-53Showinfo_outline
12complement(17761..18372)TetR family transcriptional regulator; ACG94_273550.0Showinfo_outline
1318450..19154PROPHAGE_Brucel_1330: transposase, putative; ACG94_27360; phage(gi23502708)1.98e-53Showinfo_outline
15complement(20552..21517)PHAGE_Yersin_PY54_NC_005069: partitioning protein SpyB; ACG94_27370; phage(gi33770536)7.48e-117Showinfo_outline
16complement(21517..22683)PHAGE_Klebsi_phiKO2_NC_005857: plasmid partition protein SopA; ACG94_27375; phage(gi46402111)0.0Showinfo_outline

Region 3, total 19 CDS

#CDS PositionBLAST HitE-ValueSequence
2complement(31092..31796)PROPHAGE_Brucel_1330: transposase, putative; ACG94_27410; phage(gi23502708)1.16e-53Showinfo_outline
331787..32614PHAGE_Burkho_KS14_NC_015273: gp37; ACG94_27415; phage(gi327198306)5.16e-18Showinfo_outline
432681..33223DNA replication protein; ACG94_274200.0Showinfo_outline
5complement(33582..34466)macrolide 2'-phosphotransferase; ACG94_274250.0Showinfo_outline
6complement(34522..35997)PHAGE_Bacill_G_NC_023719: gp245; ACG94_27430; phage(gi593777701)2.03e-13Showinfo_outline
7complement(36396..37571)PHAGE_Shigel_SfII_NC_021857: transposase; ACG94_27435; phage(gi526244660)2.75e-56Showinfo_outline
837629..37814hypothetical protein; ACG94_274400.0Showinfo_outline
9complement(38296..39069)16S rRNA methyltransferase; ACG94_274450.0Showinfo_outline
1039384..39659PHAGE_Entero_P1_NC_005856: InsA; ACG94_27450; phage(gi46401643)3.35e-60Showinfo_outline
1139578..40081PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; ACG94_27455; phage(gi557307573)1.14e-110Showinfo_outline
1241389..41640PROPHAGE_Xantho_306: Tn5044 transposase; ACG94_27470; phage(gi21243163)3.92e-28Showinfo_outline
1341634..41924PROPHAGE_Xantho_306: Tn5044 transposase; ACG94_27475; phage(gi21243163)1.07e-45Showinfo_outline
1442241..42477PROPHAGE_Xantho_306: Tn5044 transposase; ACG94_27480; phage(gi21243163)7.94e-27Showinfo_outline
15complement(43130..43480)hypothetical protein; ACG94_274850.0Showinfo_outline
16complement(44183..45058)PHAGE_Burkho_phi1026b_NC_005284: gp58; ACG94_27490; phage(gi38707948)6.21e-25Showinfo_outline
1745191..46078PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; ACG94_27495; phage(gi100066)2.34e-154Showinfo_outline
1847382..48362PHAGE_Bacill_BMBtpLA_NC_028748: IS5 transposase and trans-activator; ACG94_27500; phage(gi971482498)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: 54744 bps
Phages: 3
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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