Submission Results

Sequence Name: Fusobacterium nucleatum subsp. vincentii ATCC 49256, whole genome

GenBank Accession Number: AABF00000000.1

GenInfo (GI) Number: 27888233

Download Results: AABF00000000.1.PHASTER.zip

gi|27888233|ref|AABF00000000.1| Fusobacterium nucleatum subsp. vincentii ATCC 49256 , .2118259, gc%: 27.33%

Download summary as .txt file: summary.txt file_download

Total: 2 prophage regions have been identified, of which 0 regions are intact, 1 regions are incomplete, and 1 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
126.5Kbquestionable70191681451-1708009 info_outlinePHAGE_Clostr_CD11930.34%Show info_outline
25.6Kbincomplete5072000131-2005761 info_outlinePHAGE_Staphy_phiPV8326.09%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|27888233|ref|AABF00000000.1| Fusobacterium nucleatum subsp. vincentii ATCC 49256 , [asmbl_id: NC_000000].2118259, gc%: 27.33%

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 21 CDS

#CDS PositionBLAST HitE-ValueSequence
11681451..1681462attL0.0Showinfo_outline
2complement(1681833..1682807)PHAGE_Clostr_st: XerC/D family recombinase; FNV0808; phage(gi80159790)4e-28Showinfo_outline
31682856..1683170hypothetical protein; FNV08090.0Showinfo_outline
4complement(1683172..1683564)hypothetical protein; FNV08100.0Showinfo_outline
51683620..1683859hypothetical protein; FNV08110.0Showinfo_outline
6complement(1683849..1684196)hypothetical protein; FNV08120.0Showinfo_outline
71684231..1684512hypothetical protein; FNV08130.0Showinfo_outline
8complement(1684516..1684848)hypothetical protein; FNV08140.0Showinfo_outline
91684832..1685116hypothetical protein; FNV08150.0Showinfo_outline
10complement(1685120..1685785)hypothetical protein; FNV08160.0Showinfo_outline
11complement(1685867..1687672)PHAGE_Clostr_CD119: putative head protein; FNV0621; phage(gi90592642)3e-46Showinfo_outline
12complement(1687656..1688972)PHAGE_Clostr_phi8074_B1: putative phage portal protein; FNV0622; phage(gi431810361)3e-81Showinfo_outline
13complement(1688985..1690124)PHAGE_Clostr_CD119: putative terminase large subunit; FNV0623; phage(gi90592639)5e-73Showinfo_outline
14complement(1690194..1690394)PHAGE_Clostr_CD119: putative terminase small subunit; FNV0624; phage(gi90592638)9e-16Showinfo_outline
15complement(1690411..1690803)PHAGE_Lactoc_ul36: putative terminase small subunit; FNV0625; phage(gi21716107)1e-16Showinfo_outline
16complement(1691338..1691679)hypothetical protein; FNV06260.0Showinfo_outline
17complement(1691727..1692122)PHAGE_Aeromo_65: hypothetical protein; FNV0627; phage(gi326536446)3e-06Showinfo_outline
181692412..1692705hypothetical protein; FNV04500.0Showinfo_outline
191692590..1693156hypothetical protein; FNV04510.0Showinfo_outline
201693153..1693668PHAGE_Lactob_LP65: hypothetical protein LP65_gp086; FNV0452; phage(gi56693134)1e-11Showinfo_outline
211708009..1708020attR0.0Showinfo_outline

Region 2, total 7 CDS

#CDS PositionBLAST HitE-ValueSequence
12000131..2000520PHAGE_Erwini_phiEaH2: phage tail assembly-like protein; FNV0146; phage(gi431810647)9e-08Showinfo_outline
2complement(2000625..2001251)PHAGE_Staphy_phiPVL108: putative transposase; FNV0147; phage(gi119443708)9e-13Showinfo_outline
3complement(2001202..2001489)PHAGE_Staphy_phiPV83: transposase; FNV0148; phage(gi9635722)6e-22Showinfo_outline
4complement(2001413..2001733)PHAGE_Staphy_phiPV83: transposase; FNV0149; phage(gi9635722)7e-08Showinfo_outline
52001945..2003399PHAGE_Amsact_: hypothetical protein AMV156; FNV0227; phage(gi9964470)2e-07Showinfo_outline
62003541..2004623PHAGE_Parame_AR158: hypothetical protein AR158_C785L; FNV0103; phage(gi157953975)1e-09Showinfo_outline
7complement(2005423..2005761)PHAGE_Strept_phiSASD1: gp4; FNV0289; phage(gi298103512)1e-05Showinfo_outline
Fusobacterium nucleatum subsp. vincentii ATCC 49256 ,
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 2118259 bps
Phages: 2
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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