Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1061911188

GenInfo (GI) Number: 0000000000

Download Results: 1061911188.PHASTER.zip

gi|00000000|ref|NZ_LYZC01000006.1| Klebsiella pneumoniae strain 1194 map unlocalized plasmid unnamed5 9588, gc%: 49.06%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
16.7Kbincomplete40131-6724 info_outlinePHAGE_Shigel_Sf6_NC_005344(2)50.24%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|NZ_LYZC01000006.1| Klebsiella pneumoniae strain 1194 map unlocalized plasmid unnamed5 9588, gc%: 49.06%

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
1complement(1..230)PROPHAGE_Brucel_1330: transposase, putative; A9X66_RS02410; phage(gi23502708)1.37e-17Showinfo_outline
2255..494resolvase; A9X66_RS024150.0Showinfo_outline
3complement(542..738)PHAGE_Shigel_Sf6_NC_005344: putative transposase OrfB; A9X66_RS30985; phage(gi41057343)1.60e-38Showinfo_outline
4complement(794..1870)IS110 family transposase; A9X66_RS024200.0Showinfo_outline
5complement(1792..1992)hypothetical protein; A9X66_RS290550.0Showinfo_outline
6complement(2152..2331)PHAGE_Shigel_SfII_NC_021857: hypothetical protein; A9X66_RS29060; phage(gi526244689)1.79e-34Showinfo_outline
7complement(2412..3920)PHAGE_Pseudo_phi3_NC_030940: hypothetical protein; A9X66_RS02425; phage(gi100001)2.19e-48Showinfo_outline
83889..4314hypothetical protein; A9X66_RS290650.0Showinfo_outline
94229..4666hypothetical protein; A9X66_RS290700.0Showinfo_outline
10complement(4593..5281)PHAGE_Shigel_SfII_NC_021857: hypothetical protein; A9X66_RS30990; phage(gi526244690)1.62e-64Showinfo_outline
11complement(5250..5438)hypothetical protein; A9X66_RS290800.0Showinfo_outline
12complement(5799..5978)hypothetical protein; A9X66_RS309950.0Showinfo_outline
13complement(6098..6724)PHAGE_Sodali_phiSG1_NC_007902: ParA-like protein; A9X66_RS02440; phage(gi89886027)8.89e-31Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 9588 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