Submission Results

Sequence Name: Not Available

GenBank Accession Number: PTVV01000022.1

GenInfo (GI) Number: 0000000000

Download Results: PTVV01000022.1.PHASTER.zip

gi|00000000|ref|PTVV01000022.1| Enterococcus faecium strain CVM N60365F 254348, gc%: 38.42%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
145.3Kbquestionable8063200524-245826 info_outlinePHAGE_Strept_9871_NC_031069(7)40.64%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|PTVV01000022.1| Enterococcus faecium strain CVM N60365F 254348, gc%: 38.42%

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 65 CDS

#CDS PositionBLAST HitE-ValueSequence
1200524..200557attL0.0Showinfo_outline
2complement(200649..201995)PHAGE_Strept_phiARI0468_1_NC_031929: rnaseH; CUN38_04870; phage(gi100048)3.18e-79Showinfo_outline
3complement(201992..202240)PHAGE_Lactob_PLE3_NC_031125: DNA polymerase; CUN38_04875; phage(gi100036)9.91e-11Showinfo_outline
4202467..202667hypothetical protein; CUN38_048800.0Showinfo_outline
5202778..202957hypothetical protein; CUN38_048850.0Showinfo_outline
6203040..203612hypothetical protein; CUN38_048900.0Showinfo_outline
7203799..204197hypothetical protein; CUN38_048950.0Showinfo_outline
8204219..204449hypothetical protein; CUN38_049000.0Showinfo_outline
9204651..204851hypothetical protein; CUN38_049050.0Showinfo_outline
10205047..205226hypothetical protein; CUN38_049100.0Showinfo_outline
11205409..205681hypothetical protein; CUN38_049150.0Showinfo_outline
12205684..205914hypothetical protein; CUN38_049200.0Showinfo_outline
13205914..206207hypothetical protein; CUN38_049250.0Showinfo_outline
14206204..206428hypothetical protein; CUN38_049300.0Showinfo_outline
15206441..207040PHAGE_Lister_A500_NC_009810: gp44; CUN38_04935; phage(gi157325003)2.75e-43Showinfo_outline
16207112..207483PHAGE_Lactob_Ldl1_NC_026609: antirepressor protein; CUN38_04940; phage(gi764162128)4.19e-17Showinfo_outline
17207566..208237PHAGE_Entero_vB_IME197_NC_028671: hypothetical protein; CUN38_04945; phage(gi966198984)4.12e-70Showinfo_outline
18208251..208613hypothetical protein; CUN38_049500.0Showinfo_outline
19208567..209454PHAGE_Edward_GF_2_NC_026611: putative DNA replication protein O; CUN38_04955; phage(gi764162309)1.70e-17Showinfo_outline
20209466..210773PHAGE_Lactob_iLp1308_NC_028911: DNA helicase; CUN38_04960; phage(gi971754954)2.60e-49Showinfo_outline
21210837..211091hypothetical protein; CUN38_049650.0Showinfo_outline
22211216..211461hypothetical protein; CUN38_049700.0Showinfo_outline
23211466..211717hypothetical protein; CUN38_049750.0Showinfo_outline
24212408..212821PHAGE_Lactoc_bIL286_NC_002667: SSB; CUN38_04980; phage(gi13095758)1.10e-21Showinfo_outline
25213055..213843PHAGE_Staphy_88_NC_007063: ORF019; CUN38_04985; phage(gi66396351)1.28e-77Showinfo_outline
26213836..214237PHAGE_Lister_A118_NC_003216: gp63; CUN38_04990; phage(gi16798850)1.55e-27Showinfo_outline
27214371..214574hypothetical protein; CUN38_049950.0Showinfo_outline
28214550..214747hypothetical protein; CUN38_050000.0Showinfo_outline
29214885..215133hypothetical protein; CUN38_050050.0Showinfo_outline
30215299..216519PHAGE_Oenoco_phi9805_NC_023559: hypothetical protein; CUN38_05010; phage(gi589286182)1.29e-54Showinfo_outline
31216649..217047PHAGE_Entero_vB_IME197_NC_028671: hypothetical protein; CUN38_05015; phage(gi966199005)7.78e-10Showinfo_outline
32217097..218329PHAGE_Lactob_Lj928_NC_005354: hypothetical protein; CUN38_05020; phage(gi41179314)0.0Showinfo_outline
33218342..219763PHAGE_Strept_9871_NC_031069: hypothetical protein; CUN38_05025; phage(gi100003)7.40e-151Showinfo_outline
34219885..220790PHAGE_Strept_9874_NC_031023: DNA topoisomerase II large subunit; CUN38_05030; phage(gi100005)7.79e-69Showinfo_outline
35220852..221493PHAGE_Strept_phiARI0131_1_NC_031901: hypothetical protein; CUN38_05035; phage(gi100020)1.30e-15Showinfo_outline
36221517..222416PHAGE_Staphy_Ipla5_NC_018281: major head protein; CUN38_05040; phage(gi399528901)8.73e-41Showinfo_outline
37222511..222837PHAGE_Strept_9874_NC_031023: hypothetical protein; CUN38_05045; phage(gi100009)9.78e-32Showinfo_outline
38222834..223130PHAGE_Strept_9874_NC_031023: hypothetical protein; CUN38_05050; phage(gi100010)3.41e-16Showinfo_outline
39223133..223471PHAGE_Strept_9874_NC_031023: hypothetical protein; CUN38_05055; phage(gi100011)1.10e-15Showinfo_outline
40223468..223881PHAGE_Strept_20617_NC_023503: hypothetical protein; CUN38_05060; phage(gi588295124)3.57e-22Showinfo_outline
41223883..224386PHAGE_Strept_20617_NC_023503: phage tail protein; CUN38_05065; phage(gi588295125)5.23e-44Showinfo_outline
42224440..224805PHAGE_Strept_Alq132_NC_013598: hypothetical protein; CUN38_05070; phage(gi273809741)1.33e-19Showinfo_outline
43224802..225182PHAGE_Lactob_PLE3_NC_031125: hypothetical protein; CUN38_05075; phage(gi100016)3.39e-18Showinfo_outline
44225182..228352PHAGE_Staphy_tp310_1_NC_009761: tail length tape measure protein; CUN38_05080; phage(gi156603936)1.32e-108Showinfo_outline
45228367..229128PHAGE_Strept_9871_NC_031069: hypothetical protein; CUN38_05085; phage(gi100016)2.30e-50Showinfo_outline
46229128..232121PHAGE_Strept_9872_NC_031094: hypothetical protein; CUN38_05090; phage(gi100017)0.0Showinfo_outline
47232139..233872PHAGE_Entero_vB_IME195_NC_028693: minor capsid protein; CUN38_05095; phage(gi966201263)2.43e-39Showinfo_outline
48233931..234668PHAGE_Entero_vB_IME195_NC_028693: hypothetical protein; CUN38_05100; phage(gi966201262)5.83e-43Showinfo_outline
49234697..235296PHAGE_Bacill_phi105_NC_004167: hypothetical protein; CUN38_05105; phage(gi22855015)2.11e-07Showinfo_outline
50237543..237947PHAGE_Entero_EFC_1_NC_025453: holin; CUN38_05110; phage(gi725950567)4.54e-13Showinfo_outline
51237947..238456PHAGE_Strept_phiARI0468_1_NC_031929: protector from prophage-induced early lysis; CUN38_05115; phage(gi100001)4.71e-72Showinfo_outline
52complement(239002..239211)hypothetical protein; CUN38_051200.0Showinfo_outline
53complement(239208..239630)hypothetical protein; CUN38_051250.0Showinfo_outline
54complement(239650..240423)PHAGE_Staphy_CNPx_NC_031241: RegA; CUN38_05130; phage(gi100039)3.35e-42Showinfo_outline
55complement(240602..240799)hypothetical protein; CUN38_051350.0Showinfo_outline
56complement(240882..241433)PHAGE_Lactob_Lv_1_NC_011801: antirepressor; CUN38_05140; phage(gi219563224)2.11e-38Showinfo_outline
57complement(241433..241795)PHAGE_Gordon_CarolAnn_NC_031118: rnaseH; CUN38_05145; phage(gi100048)1.96e-17Showinfo_outline
58complement(241812..242357)TIGR00730 family Rossman fold protein; CUN38_051500.0Showinfo_outline
59complement(242357..242599)hypothetical protein; CUN38_051550.0Showinfo_outline
60complement(242763..242999)hypothetical protein; CUN38_051600.0Showinfo_outline
61complement(243269..243661)hypothetical protein; CUN38_051650.0Showinfo_outline
62complement(243991..244317)PHAGE_Propio_B3_NC_041892: hypothetical protein; CUN38_05170; phage(gi100002)2.00e-13Showinfo_outline
63244339..244372attR0.0Showinfo_outline
64244438..244569aldo/keto reductase; CUN38_051750.0Showinfo_outline
65complement(244702..245826)PHAGE_Vibrio_pTD1_NC_041916: hypothetical protein; CUN38_05180; phage(gi100140)8.95e-07Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 254348 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