Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1150881362

GenInfo (GI) Number: 0000000000

Download Results:

gi|00000000|ref|CP014299.1| Klebsiella pneumoniae strain KP38731 plasmid unnamed3, complete 39287, gc%: 54.63%

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
115Kbincomplete4018548-15633 info_outlinePHAGE_Salmon_SJ46_NC_031129(4)55.54%Show info_outline
219.9Kbincomplete602114654-34636 info_outlinePHAGE_Entero_P1_NC_005856(4)53.11%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|CP014299.1| Klebsiella pneumoniae strain KP38731 plasmid unnamed3, complete 39287, gc%: 54.63%

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 20 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(548..1312)PROPHAGE_Brucel_1330: transposase, putative; AXK16_00015; phage(gi23502708)3.18e-55Showinfo_outline
3complement(1539..1844)PadR family transcriptional regulator; AXK16_000200.0Showinfo_outline
4complement(1855..3060)chromate transporter; AXK16_000250.0Showinfo_outline
5complement(3216..3419)hypothetical protein; AXK16_000300.0Showinfo_outline
6complement(3547..4386)dihydropteroate synthase; AXK16_000350.0Showinfo_outline
7complement(4380..4727)PHAGE_Acinet_Acj61_NC_014661: putative quaternary ammonium compound-resistance protein qacE; AXK16_00040; phage(gi311992758)9.11e-09Showinfo_outline
8complement(4950..5402)rifampin ADP-ribosylating transferase ARR-2; AXK16_000450.0Showinfo_outline
9complement(5487..6119)type B chloramphenicol O-acetyltransferase; AXK16_000500.0Showinfo_outline
10complement(6257..7132)class D beta-lactamase; AXK16_000550.0Showinfo_outline
11complement(7218..7817)PHAGE_Staphy_SPbeta_like_NC_029119: bifunctional AAC/APH; AXK16_00060; phage(gi985761240)4.91e-16Showinfo_outline
128064..9077PHAGE_Mycoba_Shipwreck_NC_031261: hypothetical protein; AXK16_00065; phage(gi100032)1.61e-11Showinfo_outline
149352..9630transposase; AXK16_000700.0Showinfo_outline
15complement(9650..9817)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; AXK16_00075; phage(gi100062)4.93e-33Showinfo_outline
169806..10366PHAGE_Salmon_SJ46_NC_031129: prohead core protein protease; AXK16_00080; phage(gi100061)3.52e-83Showinfo_outline
1710370..13336PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; AXK16_00085; phage(gi100060)0.0Showinfo_outline
18complement(13369..13623)PHAGE_Salmon_SJ46_NC_031129: sigma factor for late transcription; AXK16_00090; phage(gi100065)9.00e-49Showinfo_outline
1914184..14570hypothetical protein; AXK16_000950.0Showinfo_outline
20complement(14710..15633)PHAGE_Salmon_SJ46_NC_031129: sigma factor for late transcription; AXK16_00100; phage(gi100065)0.0Showinfo_outline

Region 2, total 25 CDS

#CDS PositionBLAST HitE-ValueSequence
3complement(17399..17902)PHAGE_Shigel_SfIV_NC_022749: IS1 transposase B; AXK16_00110; phage(gi557307573)4.57e-109Showinfo_outline
4complement(18248..19258)PHAGE_Pseudo_phi3_NC_030940: hypothetical protein; AXK16_00115; phage(gi100001)3.98e-23Showinfo_outline
5complement(19370..19564)reverse transcriptase; AXK16_001200.0Showinfo_outline
620141..20572PHAGE_Cronob_ENT39118_NC_019934: protein umuD; AXK16_00125; phage(gi431811072)5.32e-34Showinfo_outline
720572..21842PHAGE_Cronob_ENT39118_NC_019934: DNA polymerase; AXK16_00130; phage(gi431811050)2.42e-69Showinfo_outline
8complement(21924..22898)PHAGE_Entero_P1_NC_005856: ParB; AXK16_00135; phage(gi46401681)3.41e-115Showinfo_outline
9complement(22898..24103)PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; AXK16_00140; phage(gi100009)0.0Showinfo_outline
1024518..24787hypothetical protein; AXK16_001450.0Showinfo_outline
11complement(24963..25829)PHAGE_Burkho_KS14_NC_015273: gp37; AXK16_00150; phage(gi327198306)1.71e-17Showinfo_outline
1226359..26462hypothetical protein; AXK16_001550.0Showinfo_outline
1326591..26848hypothetical protein; AXK16_001600.0Showinfo_outline
14complement(26906..27682)PHAGE_Mycoba_Squirty_NC_026588: non-functional integrase; AXK16_00165; phage(gi764159894)5.08e-08Showinfo_outline
15complement(27679..28422)hypothetical protein; AXK16_001700.0Showinfo_outline
1628536..28718hypothetical protein; AXK16_001750.0Showinfo_outline
1729395..29625virulence factor; AXK16_001800.0Showinfo_outline
1829622..30038twitching motility protein PilT; AXK16_001850.0Showinfo_outline
2030242..30526PHAGE_Shigel_SfIV_NC_022749: ISEhe3 orfA; AXK16_00190; phage(gi557307550)5.75e-22Showinfo_outline
2130574..31161PHAGE_Shigel_SfIV_NC_022749: ISEhe3 orfB; AXK16_00195; phage(gi557307549)3.13e-59Showinfo_outline
2231380..32456transposase; AXK16_002000.0Showinfo_outline
24complement(33343..33879)PROPHAGE_Xantho_33913: Tn5041 transposase; AXK16_00205; phage(gi21231545)3.81e-25Showinfo_outline
2533932..34636PROPHAGE_Brucel_1330: transposase, putative; AXK16_00210; phage(gi23502708)5.08e-53Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 39287 bps
Phages: 2
Click on a region in the genome above to show details here.
Viewer Options
Click on a sequence to see details.
Viewer Options
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