Submission Results

Sequence Name: Not Available

GenBank Accession Number: X92945.2

GenInfo (GI) Number: 0000000000

Download Results: X92945.2.PHASTER.zip

gi|00000000|ref|X92945.2| Enterococcus faecalis plasmid pRE25 DNA. 50237, gc%: 34.05%

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
117.7Kbintact1002032115-49907 info_outlinePHAGE_Bacter_Sitara_NC_028854(2)35.13%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|X92945.2| Enterococcus faecalis plasmid pRE25 DNA. 50237, gc%: 34.05%

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 24 CDS

#CDS PositionBLAST HitE-ValueSequence
132115..32126attL0.0Showinfo_outline
234451..34475attL0.0Showinfo_outline
335137..35823PHAGE_Staphy_SPbeta_like_NC_029119: integrase core domain protein; -; phage(gi985761246)1.13e-90Showinfo_outline
436346..37215hypothetical protein; -0.0Showinfo_outline
537296..37721hypothetical protein; -0.0Showinfo_outline
637965..38873aminoglycoside 6-adenylyltranserase; -0.0Showinfo_outline
738870..39412PHAGE_Cronob_CR5_NC_021531: putative ribosomal-protein-alanine N-acetyltransferase; -; phage(gi514051406)9.87e-06Showinfo_outline
839505..40299aminoglycoside phosphotransferase type III; -0.0Showinfo_outline
940575..41147hypothetical protein; -0.0Showinfo_outline
1041445..42341PHAGE_Lactob_Lb_NC_047983: minor tail protein; -; phage(gi100055)3.57e-23Showinfo_outline
1142344..42368attR0.0Showinfo_outline
1242666..42938hypothetical protein; -0.0Showinfo_outline
1342940..43149hypothetical protein; -0.0Showinfo_outline
1443219..43905PHAGE_Staphy_SPbeta_like_NC_029119: integrase core domain protein; -; phage(gi985761246)1.13e-90Showinfo_outline
1544103..44708putative cell filamentation protein; -0.0Showinfo_outline
1644724..45296PHAGE_Clostr_phiCD38_2_NC_015568: recombinase/resolvase; -; phage(gi333798162)1.76e-49Showinfo_outline
17complement(45769..46311)PHAGE_Lactob_phiAT3_NC_005893: putative transposase OrfB; -; phage(gi48697274)4.16e-65Showinfo_outline
18complement(46442..47604)PHAGE_Bacter_Diva_NC_028788: transposase-like protein; -; phage(gi971743572)2.08e-82Showinfo_outline
19complement(46442..47278)PHAGE_Bacter_Diva_NC_028788: transposase-like protein; -; phage(gi971743572)1.60e-80Showinfo_outline
20complement(47314..47604)PHAGE_Paenib_PBL1c_NC_048689: holin; -; phage(gi100034)4.10e-33Showinfo_outline
21complement(48010..48264)PHAGE_Lactob_phiAT3_NC_005893: putative transposase A; -; phage(gi48697273)8.23e-11Showinfo_outline
22complement(48457..48732)putative PrgO protein; -0.0Showinfo_outline
23complement(48704..49657)PHAGE_Lactob_Lb_NC_047983: minor tail protein; -; phage(gi100055)2.53e-22Showinfo_outline
2449907..49918attR0.0Showinfo_outline
Enterococcus faecalis plasmid pRE25 DNA
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 50237 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