Submission Results

Sequence Name: Bacteriophage Pf1 5 and 8 genes for ssDNA binding protein and major

GenBank Accession Number: X52107.1

GenInfo (GI) Number: 14829

Download Results: X52107.1.PHASTER.zip

gi|14829|ref|X52107.1| Bacteriophage Pf1 5 and 8 genes for ssDNA binding protein and .7349, gc%: 61.49%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
17.1Kbintact150141-7147 info_outlinePHAGE_Pseudo_Pf1_NC_001331(14)61.94%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|14829|ref|X52107.1| Bacteriophage Pf1 5 and 8 genes for ssDNA binding protein and [asmbl_id: NC_000000].7349, gc%: 61.49%

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 16 CDS

#CDS PositionBLAST HitE-ValueSequence
11..435PHAGE_Pseudo_Pf1_NC_001331: ssDNA binding protein; -; phage(gi9625367)8e-79Showinfo_outline
2139..150attL0.0Showinfo_outline
3452..544PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p02; -; phage(gi9625368)4e-11Showinfo_outline
4557..808PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p03; -; phage(gi9625369)4e-43Showinfo_outline
5821..1069PHAGE_Pseudo_Pf1_NC_001331: major coat protein; -; phage(gi9625370)9e-39Showinfo_outline
61221..2534PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p05; -; phage(gi9625371)0.0Showinfo_outline
72539..2964PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p06; -; phage(gi9625372)7e-78Showinfo_outline
82900..4174PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p07; -; phage(gi9625373)0.0Showinfo_outline
94404..5696PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p08; -; phage(gi9625374)0.0Showinfo_outline
105466..5477attR0.0Showinfo_outline
115693..5995PHAGE_Pseudo_Pf1_NC_001331: putative integrase; -; phage(gi9625375)2e-54Showinfo_outline
126037..6309PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p10; -; phage(gi9625376)2e-47Showinfo_outline
136302..6517PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p11; -; phage(gi9625377)3e-37Showinfo_outline
146514..6825PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p12; -; phage(gi9625378)2e-56Showinfo_outline
156521..6811PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p13; -; phage(gi9625379)6e-59Showinfo_outline
166815..7147PHAGE_Pseudo_Pf1_NC_001331: hypothetical protein Pf1p14; -; phage(gi9625380)2e-57Showinfo_outline
Bacteriophage Pf1 5 and 8 genes for ssDNA binding protein and
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 7349 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