Submission Results

Sequence Name: Not Available

GenBank Accession Number: RKPJ01000002.1

GenInfo (GI) Number: 0000000000

Download Results: RKPJ01000002.1.PHASTER.zip

gi|00000000|ref|RKPJ01000002.1| Enterococcus faecalis strain P3 CL A14 2831_2, whole genome 575205, gc%: 36.99%

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
133.3Kbintact130471-33391 info_outlinePHAGE_Entero_phiFL1A_NC_013646(9)33.66%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|RKPJ01000002.1| Enterococcus faecalis strain P3 CL A14 2831_2, whole genome 575205, gc%: 36.99%

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 50 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(1..256)PHAGE_Entero_EFDG1_NC_029009: hypothetical protein; EGW96_04400; phage(gi971765243)2.40e-05Showinfo_outline
2complement(256..543)PHAGE_Weisse_phiYS61_NC_018270: putative tail fiber protein; EGW96_04405; phage(gi399528395)8.04e-06Showinfo_outline
3complement(540..1136)PHAGE_Ralsto_RSL1_NC_010811: hypothetical protein; EGW96_04410; phage(gi189426961)2.58e-09Showinfo_outline
4complement(1129..2010)PHAGE_Lactoc_Tuc2009_NC_002703: minor structural protein 4; EGW96_04415; phage(gi13487850)9.01e-18Showinfo_outline
5complement(2029..4821)PHAGE_Lister_LP_030_2_NC_021539: putative tail endopeptidase; EGW96_04420; phage(gi514051949)3.49e-78Showinfo_outline
63094..3105attL0.0Showinfo_outline
7complement(4818..5552)PHAGE_Lister_LP_030_2_NC_021539: putative tail component protein; EGW96_04425; phage(gi514051948)1.01e-18Showinfo_outline
8complement(5542..8466)PHAGE_Strept_9871_NC_031069: hypothetical protein; EGW96_04430; phage(gi100015)1.78e-119Showinfo_outline
9complement(8687..9037)hypothetical protein; EGW96_044350.0Showinfo_outline
10complement(9090..9938)PHAGE_Bacill_PfEFR_4_NC_048641: hypothetical protein; EGW96_04440; phage(gi100014)2.78e-17Showinfo_outline
11complement(9939..10313)hypothetical protein; EGW96_044450.0Showinfo_outline
12complement(10316..10714)PHAGE_Clostr_phiCT453A_NC_028991: putative phosphoesterase; EGW96_04450; phage(gi100037)1.68e-07Showinfo_outline
13complement(10707..11075)PHAGE_Brevib_Jimmer1_NC_029104: head joining protein; EGW96_04455; phage(gi985760807)1.48e-06Showinfo_outline
14complement(11072..11416)hypothetical protein; EGW96_044600.0Showinfo_outline
15complement(11430..11612)hypothetical protein; EGW96_044650.0Showinfo_outline
16complement(11641..12528)PHAGE_Mycoba_Bernal13_NC_024135: major capsid protein; EGW96_04470; phage(gi640883695)1.14e-13Showinfo_outline
17complement(12542..13165)DUF4355 domain-containing protein; EGW96_044750.0Showinfo_outline
18complement(13383..13703)hypothetical protein; EGW96_044800.0Showinfo_outline
19complement(13768..13989)hypothetical protein; EGW96_044850.0Showinfo_outline
20complement(13986..15743)PHAGE_Entero_phiFL1A_NC_013646: phage head protein; EGW96_04490; phage(gi281416365)4.41e-17Showinfo_outline
21complement(15718..17205)PHAGE_Deep_s_D6E_NC_019544: portal protein; EGW96_04495; phage(gi423262330)6.39e-44Showinfo_outline
22complement(17217..18506)PHAGE_Entero_vB_IME197_NC_028671: terminase large subunit; EGW96_04500; phage(gi966199006)0.0Showinfo_outline
23complement(18478..19281)PHAGE_Entero_phiFL1A_NC_013646: terminase small subunit; EGW96_04505; phage(gi281416361)3.39e-159Showinfo_outline
24complement(19328..20050)PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; EGW96_04510; phage(gi281416360)1.30e-172Showinfo_outline
25complement(20439..20999)hypothetical protein; EGW96_045150.0Showinfo_outline
26complement(21029..21982)PHAGE_Aeriba_AP45_NC_048651: hypothetical protein; EGW96_04520; phage(gi100035)2.33e-17Showinfo_outline
27complement(22241..22312)tRNA0.0Showinfo_outline
28complement(22484..22686)hypothetical protein; EGW96_045300.0Showinfo_outline
29complement(22692..23108)PHAGE_Entero_phiFL1A_NC_013646: transcriptional regulator ArpU family; EGW96_04535; phage(gi281416357)2.66e-92Showinfo_outline
30complement(23476..23736)hypothetical protein; EGW96_045400.0Showinfo_outline
31complement(24015..24440)PHAGE_Entero_phiFL1A_NC_013646: resolvase; EGW96_04545; phage(gi281416343)6.23e-79Showinfo_outline
32complement(24458..24757)PHAGE_Entero_phiFL1A_NC_013646: DNA binding protein; EGW96_04550; phage(gi281416342)1.30e-58Showinfo_outline
33complement(24758..25060)PHAGE_Entero_phiFL3A_NC_013648: hypothetical protein; EGW96_04555; phage(gi281416234)5.84e-66Showinfo_outline
34complement(25057..25917)PHAGE_Lactob_PL_1_NC_022757: hypothetical protein; EGW96_04560; phage(gi557308027)3.14e-36Showinfo_outline
35complement(25917..26117)hypothetical protein; EGW96_045650.0Showinfo_outline
36complement(26122..26763)PHAGE_Lactob_PL_1_NC_022757: hypothetical protein; EGW96_04570; phage(gi557308025)5.45e-41Showinfo_outline
37complement(26768..27502)PHAGE_Staphy_Ipla5_NC_018281: recombination protein; EGW96_04575; phage(gi399528935)3.06e-24Showinfo_outline
38complement(27495..27812)hypothetical protein; EGW96_045800.0Showinfo_outline
39complement(27898..28011)PHAGE_Entero_phiEf11_NC_013696: hypothetical protein; EGW96_04585; phage(gi282598721)1.05e-11Showinfo_outline
40complement(28008..28346)PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; EGW96_04590; phage(gi281416336)1.61e-10Showinfo_outline
41complement(28383..28592)PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; EGW96_04595; phage(gi281416334)3.06e-27Showinfo_outline
4228647..28835DUF1508 domain-containing protein; EGW96_046000.0Showinfo_outline
43complement(28861..29583)PHAGE_Entero_phiFL1A_NC_013646: anti-repressor protein; EGW96_04605; phage(gi281416331)1.11e-57Showinfo_outline
44complement(29606..29917)hypothetical protein; EGW96_046100.0Showinfo_outline
45complement(29929..30120)PHAGE_Strept_phiARI0746_NC_031907: hypothetical protein; EGW96_04615; phage(gi100038)2.17e-08Showinfo_outline
4630416..30757PHAGE_Lister_2389_NC_003291: Rep protein; EGW96_04620; phage(gi17488532)3.81e-23Showinfo_outline
4730762..31412PHAGE_Entero_phiFL4A_NC_013644: hypothetical protein; EGW96_04625; phage(gi281416437)1.17e-10Showinfo_outline
4831523..32137PHAGE_Lactob_phiadh_NC_000896: hypothetical protein; EGW96_04630; phage(gi9633003)4.56e-21Showinfo_outline
4931844..31855attR0.0Showinfo_outline
5032243..33391PHAGE_Bacill_phi4B1_NC_028886: site-specific recombinase; EGW96_04635; phage(gi971821285)1.47e-42Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 575205 bps
Phages: 1
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Click on a region in the genome above to show details here.
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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