Submission Results

Sequence Name: Not Available

GenBank Accession Number: RKPT01000003.1

GenInfo (GI) Number: 0000000000

Download Results: RKPT01000003.1.PHASTER.zip

gi|00000000|ref|RKPT01000003.1| Enterococcus faecalis strain P12 C A7 2815_3, whole genome shotgun 392733, gc%: 38.64%

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
143Kbintact12056326463-369509 info_outlinePHAGE_Bacill_phBC6A52_NC_004821(11)35.57%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|RKPT01000003.1| Enterococcus faecalis strain P12 C A7 2815_3, whole genome shotgun 392733, gc%: 38.64%

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 58 CDS

#CDS PositionBLAST HitE-ValueSequence
1326463..327119PHAGE_Synech_S_CAM9_NC_031922: ATP-dependent Clp protease; EGX00_08855; phage(gi100182)1.23e-06Showinfo_outline
2327151..327726DNA repair protein RadC; EGX00_088600.0Showinfo_outline
3327710..327722attL0.0Showinfo_outline
4complement(327748..329115)PHAGE_Entero_phiFL1A_NC_013646: integrase; EGX00_08865; phage(gi281416324)0.0Showinfo_outline
5complement(329218..329763)PHAGE_Bacill_vB_BhaS_171_NC_030904: recombination protein; EGX00_08870; phage(gi100049)2.25e-18Showinfo_outline
6complement(329784..330422)PHAGE_Entero_phiFL4A_NC_013644: hypothetical protein; EGX00_08875; phage(gi281416437)2.71e-10Showinfo_outline
7complement(330437..330790)PHAGE_Lister_LP_HM00113468_NC_049900: u-spanin; EGX00_08880; phage(gi100032)7.04e-32Showinfo_outline
8331091..331267PHAGE_Entero_phiFL2A_NC_013643: hypothetical protein; EGX00_08885; phage(gi281416496)2.88e-18Showinfo_outline
9331389..331607aspartate decarboxylase; EGX00_088900.0Showinfo_outline
10331604..331783PHAGE_Entero_vB_IME197_NC_028671: hypothetical protein; EGX00_08895; phage(gi966198978)1.95e-24Showinfo_outline
11332006..332200PHAGE_Entero_phiFL4A_NC_013644: hypothetical protein; EGX00_08900; phage(gi281416445)7.34e-35Showinfo_outline
12332204..332752PHAGE_Flavob_vB_FspS_morran9_1_NC_048836: hypothetical protein; EGX00_08905; phage(gi100017)1.24e-51Showinfo_outline
13332908..333108hypothetical protein; EGX00_089100.0Showinfo_outline
14333105..333398PHAGE_Thermo_THSA_485A_NC_018264: VRR-NUC domain-containing protein; EGX00_08915; phage(gi397912645)7.08e-20Showinfo_outline
15333388..334584PHAGE_Entero_IME_EF4_NC_023551: helicase; EGX00_08920; phage(gi589893008)8.04e-32Showinfo_outline
16334590..335150PHAGE_Entero_vB_IME197_NC_028671: hypothetical protein; EGX00_08925; phage(gi966198998)7.35e-41Showinfo_outline
17335313..336224PHAGE_Lister_A006_NC_009815: gp41; EGX00_08930; phage(gi157325458)7.11e-16Showinfo_outline
18336226..336444hypothetical protein; EGX00_089350.0Showinfo_outline
19336441..337361PHAGE_Strept_phiARI0460_1_NC_031913: holin; EGX00_08940; phage(gi100034)1.54e-80Showinfo_outline
20337412..337924PHAGE_Lactob_PLE2_NC_031036: hypothetical protein; EGX00_08945; phage(gi100042)3.28e-31Showinfo_outline
21337985..338617PHAGE_Bacill_Blue_NC_031056: major tail protein; EGX00_08950; phage(gi100145)2.10e-126Showinfo_outline
22338637..340199PHAGE_Entero_IME_EFm5_NC_028826: DNA polymerase; EGX00_08955; phage(gi971746927)2.00e-27Showinfo_outline
23complement(340196..340948)PHAGE_Strept_SM1_NC_004996: gp7; EGX00_08960; phage(gi32469438)4.65e-08Showinfo_outline
24341023..342876PHAGE_Lister_P35_NC_009814: gp34; EGX00_08965; phage(gi157325399)2.54e-42Showinfo_outline
25343255..343599PHAGE_Staphy_37_NC_007055: ORF044; EGX00_08970; phage(gi66395771)9.04e-20Showinfo_outline
26343729..344016hypothetical protein; EGX00_089750.0Showinfo_outline
27344009..344392PHAGE_Bacill_phBC6A52_NC_004821: endonuclease; EGX00_08980; phage(gi31415846)1.85e-19Showinfo_outline
28344496..344954PHAGE_Bacill_phBC6A52_NC_004821: Terminase small subunit; EGX00_08985; phage(gi31415847)3.16e-28Showinfo_outline
29344951..346684PHAGE_Bacill_phBC6A52_NC_004821: Terminase large subunit; EGX00_08990; phage(gi31415848)0.0Showinfo_outline
30346685..347872PHAGE_Bacill_phBC6A52_NC_004821: Portal protein; EGX00_08995; phage(gi31415850)1.81e-97Showinfo_outline
31347856..348440PHAGE_Staphy_StB20_like_NC_028821: prohead protease; EGX00_09000; phage(gi971746490)6.89e-32Showinfo_outline
32348440..349771PHAGE_Bacill_phBC6A52_NC_004821: prohead protease; EGX00_09005; phage(gi31415852)2.32e-82Showinfo_outline
33349774..350061PHAGE_Bacill_phBC6A52_NC_004821: hypothetical protein; EGX00_09010; phage(gi31415853)1.82e-16Showinfo_outline
34350021..350347PHAGE_Bacill_phBC6A52_NC_004821: hypothetical protein; EGX00_09015; phage(gi31415854)1.29e-09Showinfo_outline
35350337..350675PHAGE_Bacill_phBC6A52_NC_004821: hypothetical protein; EGX00_09020; phage(gi31415855)6.17e-25Showinfo_outline
36350665..351021PHAGE_Bacill_phBC6A52_NC_004821: hypothetical protein; EGX00_09025; phage(gi31415856)4.40e-19Showinfo_outline
37351018..351671PHAGE_Lactob_iA2_NC_028830: major tail protein; EGX00_09030; phage(gi971747639)2.36e-35Showinfo_outline
38351671..352111PHAGE_Bacill_phBC6A52_NC_004821: hypothetical protein; EGX00_09035; phage(gi31415858)1.70e-39Showinfo_outline
39352321..354690PHAGE_Bacill_phBC6A52_NC_004821: hypothetical protein; EGX00_09040; phage(gi31415859)2.47e-62Showinfo_outline
40354693..355397PHAGE_Clostr_phiCT19406C_NC_029006: tail protein; EGX00_09045; phage(gi971821558)2.08e-05Showinfo_outline
41355394..358138PHAGE_Strept_9871_NC_031069: hypothetical protein; EGX00_09050; phage(gi100017)4.73e-113Showinfo_outline
42358153..359067PHAGE_Lactoc_bIL285_NC_002666: Orf55; EGX00_09055; phage(gi13095735)1.72e-15Showinfo_outline
43359060..359377hypothetical protein; EGX00_090600.0Showinfo_outline
44359370..359687hypothetical protein; EGX00_090650.0Showinfo_outline
45359687..360238hypothetical protein; EGX00_090700.0Showinfo_outline
46360253..360627hypothetical protein; EGX00_090750.0Showinfo_outline
47360627..360764XkdX family protein; EGX00_090800.0Showinfo_outline
48360799..361020PHAGE_Entero_phiFL3A_NC_013648: hypothetical protein; EGX00_09085; phage(gi281416274)3.16e-46Showinfo_outline
49361013..361246PHAGE_Entero_phiFL3A_NC_013648: holin; EGX00_09090; phage(gi281416275)5.67e-45Showinfo_outline
50361247..362509PHAGE_Entero_phiFL3A_NC_013648: endolysin; EGX00_09095; phage(gi281416276)0.0Showinfo_outline
51362534..362737DNA repair protein; EGX00_091000.0Showinfo_outline
52362574..362586attR0.0Showinfo_outline
53362891..363091PHAGE_Vibrio_1.026.O._10N.222.49.C7_NC_049430: portal protein; EGX00_09105; phage(gi100069)5.10e-09Showinfo_outline
54complement(363200..364882)PHAGE_Bacter_Lily_NC_028841: beta-lactamase-like hydrolase; EGX00_09110; phage(gi971748306)2.18e-05Showinfo_outline
55complement(364884..365096)DUF1447 family protein; EGX00_091150.0Showinfo_outline
56complement(365401..365787)DUF454 domain-containing protein; EGX00_091200.0Showinfo_outline
57366016..367743PHAGE_Bacill_SPbeta_NC_001884: ABC transporter; EGX00_09125; phage(gi9630145)4.86e-28Showinfo_outline
58367740..369509PHAGE_Bacill_SPbeta_NC_001884: ABC transporter; EGX00_09130; phage(gi9630145)4.60e-32Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 392733 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