Submission Results

Sequence Name: Not Available

GenBank Accession Number: VHRC01000003.1

GenInfo (GI) Number: 0000000000

Download Results: VHRC01000003.1.PHASTER.zip

gi|00000000|ref|VHRC01000003.1| Enterococcus faecalis strain R49 183251, gc%: 36.93%

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
130.5Kbintact130441-30509 info_outlinePHAGE_Lister_LP_101_NC_024387(9)35.41%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|VHRC01000003.1| Enterococcus faecalis strain R49 183251, gc%: 36.93%

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 47 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(1..465)PHAGE_Entero_phiFL4A_NC_013644: tail protein; FKY83_04380; phage(gi281416483)3.01e-23Showinfo_outline
2complement(465..5213)PHAGE_Strept_phi3396_NC_009018: putative phage-related tail tape measure protein; FKY83_04385; phage(gi126011107)0.0Showinfo_outline
3803..814attL0.0Showinfo_outline
4complement(5435..5782)PHAGE_Entero_IME_EFm5_NC_028826: putative tail tape measure chaperone protein; FKY83_04390; phage(gi971746938)3.63e-06Showinfo_outline
5complement(5838..6311)PHAGE_Entero_phiEf11_NC_013696: putative phage major tail protein; FKY83_04395; phage(gi282598736)2.47e-21Showinfo_outline
6complement(6385..6978)PHAGE_Lister_LP_101_NC_024387: major tail protein; FKY83_04400; phage(gi658607821)5.20e-24Showinfo_outline
7complement(7011..7430)PHAGE_Lister_LP_101_NC_024387: hypothetical protein; FKY83_04405; phage(gi658607820)4.77e-24Showinfo_outline
8complement(7427..7819)PHAGE_Strept_315.1_NC_004584: hypothetical protein; FKY83_04410; phage(gi28876182)4.15e-11Showinfo_outline
9complement(7816..8190)PHAGE_Lister_LP_101_NC_024387: hypothetical protein; FKY83_04415; phage(gi658607818)6.16e-35Showinfo_outline
10complement(8177..8482)PHAGE_Lister_LP_101_NC_024387: hypothetical protein; FKY83_04420; phage(gi658607817)9.50e-13Showinfo_outline
11complement(8560..9705)PHAGE_Lister_LP_101_NC_024387: major capsid protein; FKY83_04425; phage(gi658607815)2.56e-147Showinfo_outline
12complement(9732..10505)PHAGE_Lister_LP_101_NC_024387: Clp protease-like protein; FKY83_04430; phage(gi658607814)2.54e-67Showinfo_outline
13complement(10477..11652)PHAGE_Staphy_P954_NC_013195: HK97 family phage portal protein; FKY83_04435; phage(gi257136404)8.42e-107Showinfo_outline
14complement(11868..13508)PHAGE_Lister_LP_101_NC_024387: terminase large subunit; FKY83_04440; phage(gi658607812)0.0Showinfo_outline
15complement(13505..13858)PHAGE_Staphy_23MRA_NC_028775: hypothetical protein; FKY83_04445; phage(gi971742325)7.07e-43Showinfo_outline
16complement(14014..14280)hypothetical protein; FKY83_044500.0Showinfo_outline
17complement(14277..15002)hypothetical protein; FKY83_044550.0Showinfo_outline
18complement(14993..15304)PHAGE_Lister_LP_101_NC_024387: putative HNH homing endonuclease; FKY83_04460; phage(gi658607880)1.29e-26Showinfo_outline
19complement(15297..15611)hypothetical protein; FKY83_044650.0Showinfo_outline
20complement(15749..15820)tRNA0.0Showinfo_outline
21complement(16061..16591)PHAGE_Brocho_NF5_NC_015252: gp53; FKY83_04475; phage(gi327197638)5.27e-15Showinfo_outline
22complement(16683..16877)PHAGE_Entero_vB_IME197_NC_028671: hypothetical protein; FKY83_04480; phage(gi966199000)3.65e-32Showinfo_outline
23complement(16878..17285)PHAGE_Lister_LP_101_NC_024387: DUF1642 domain-containing protein; FKY83_04485; phage(gi658607852)9.67e-14Showinfo_outline
24complement(17282..17539)PHAGE_Entero_phiFL2A_NC_013643: hypothetical protein; FKY83_04490; phage(gi281416518)3.09e-52Showinfo_outline
25complement(17536..18009)PHAGE_Entero_ECP3_NC_027335: hypothetical protein; FKY83_04495; phage(gi849120069)9.24e-33Showinfo_outline
26complement(18006..18422)PHAGE_Entero_phiEf11_NC_013696: hypothetical protein; FKY83_04500; phage(gi282598710)6.54e-56Showinfo_outline
27complement(18439..19194)N-6 DNA methylase; FKY83_045050.0Showinfo_outline
28complement(19252..20112)PHAGE_Bacill_Shbh1_NC_030925: hypothetical protein; FKY83_04510; phage(gi100076)6.97e-22Showinfo_outline
29complement(20202..20507)PHAGE_Entero_phiFL1A_NC_013646: DNA binding protein; FKY83_04515; phage(gi281416342)1.79e-52Showinfo_outline
30complement(20526..20981)hypothetical protein; FKY83_045200.0Showinfo_outline
31complement(20978..21232)hypothetical protein; FKY83_045250.0Showinfo_outline
32complement(21235..21747)PHAGE_Bacill_phi4J1_NC_029008: recombination protein U; FKY83_04530; phage(gi971821636)3.05e-09Showinfo_outline
33complement(21725..22057)hypothetical protein; FKY83_045350.0Showinfo_outline
34complement(22054..22869)PHAGE_Clostr_phiSM101_NC_008265: hypothetical protein; FKY83_04540; phage(gi110804073)1.54e-31Showinfo_outline
35complement(23096..23848)PHAGE_Strept_phiBHN167_NC_022791: phage protein; FKY83_04545; phage(gi557745663)3.10e-59Showinfo_outline
36complement(23868..24326)PHAGE_Entero_EFC_1_NC_025453: replication terminator protein; FKY83_04550; phage(gi725950528)1.83e-34Showinfo_outline
37complement(24383..24661)PHAGE_Clostr_phiCT453A_NC_028991: hypothetical protein; FKY83_04555; phage(gi100011)9.95e-20Showinfo_outline
38complement(24655..24882)PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; FKY83_04560; phage(gi281416337)1.92e-18Showinfo_outline
39complement(24879..25193)PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; FKY83_04565; phage(gi281416336)3.10e-11Showinfo_outline
40complement(25655..25876)hypothetical protein; FKY83_045700.0Showinfo_outline
4126134..26724hypothetical protein; FKY83_045750.0Showinfo_outline
42complement(27040..27285)PHAGE_Staphy_2638A_NC_007051: ORF052; FKY83_04580; phage(gi66395489)2.40e-17Showinfo_outline
4327433..27891PHAGE_Staphy_Ipla7_NC_018284: repressor; FKY83_04585; phage(gi399529150)1.53e-30Showinfo_outline
4427909..28373PHAGE_Entero_vB_IME197_NC_028671: hypothetical protein; FKY83_04590; phage(gi966198972)4.02e-32Showinfo_outline
4528455..29036hypothetical protein; FKY83_045950.0Showinfo_outline
4628948..28959attR0.0Showinfo_outline
4729097..30509PHAGE_Entero_EFC_1_NC_025453: site-specific integrase; FKY83_04600; phage(gi725950572)2.01e-121Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 183251 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