Submission Results

Sequence Name: Not Available

GenBank Accession Number: VFIZ01000001.1

GenInfo (GI) Number: 0000000000

Download Results: VFIZ01000001.1.PHASTER.zip

gi|00000000|ref|VFIZ01000001.1| Clostridium perfringens strain Type D contig_1, whole genome 3366449, gc%: 28.30%

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
133.1Kbintact130391822187-1855347 info_outlinePHAGE_Clostr_phi3626_NC_003524(21)26.78%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|VFIZ01000001.1| Clostridium perfringens strain Type D contig_1, whole genome 3366449, gc%: 28.30%

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 43 CDS

#CDS PositionBLAST HitE-ValueSequence
11822187..1822204attL0.0Showinfo_outline
21822207..1822218attL0.0Showinfo_outline
3complement(1824330..1825385)PHAGE_Clostr_phi3626_NC_003524: endolysin; FJM09_07780; phage(gi20065983)6.97e-57Showinfo_outline
4complement(1825435..1825872)PHAGE_Clostr_vB_CpeS_CP51_NC_021325: putative holin; FJM09_07785; phage(gi509140062)2.01e-71Showinfo_outline
5complement(1825913..1827547)PHAGE_Clostr_phiCT19406C_NC_029006: endopeptidase/tail protein; FJM09_07790; phage(gi971821559)2.96e-118Showinfo_outline
6complement(1827558..1828106)PHAGE_Entero_E_3_NC_028795: major tail protein; FJM09_07795; phage(gi971744012)9.35e-05Showinfo_outline
7complement(1828106..1828810)PHAGE_Clostr_phi3626_NC_003524: Gp14 protein; FJM09_07800; phage(gi20065977)6.08e-31Showinfo_outline
8complement(1828824..1831781)PHAGE_Clostr_phi3626_NC_003524: putative tape-measure protein; FJM09_07805; phage(gi20065976)0.0Showinfo_outline
9complement(1832332..1832649)PHAGE_Clostr_phi3626_NC_003524: Gp12 protein; FJM09_07810; phage(gi20065975)1.06e-24Showinfo_outline
10complement(1832746..1833351)PHAGE_Clostr_phi3626_NC_003524: major tail protein; FJM09_07815; phage(gi20065974)3.42e-89Showinfo_outline
11complement(1833373..1833663)PHAGE_Clostr_phi3626_NC_003524: Gp10 protein; FJM09_07820; phage(gi20065973)9.05e-38Showinfo_outline
12complement(1833728..1834171)PHAGE_Clostr_phi3626_NC_003524: Gp9 protein; FJM09_07825; phage(gi20065972)7.05e-71Showinfo_outline
13complement(1834172..1834498)PHAGE_Clostr_phi3626_NC_003524: Gp8 protein; FJM09_07830; phage(gi20065971)1.49e-45Showinfo_outline
14complement(1834491..1834769)PHAGE_Clostr_phi3626_NC_003524: Gp7 protein; FJM09_07835; phage(gi20065970)1.24e-43Showinfo_outline
15complement(1834788..1836017)PHAGE_Clostr_phi3626_NC_003524: major capsid protein; FJM09_07840; phage(gi20065969)0.0Showinfo_outline
16complement(1836059..1836664)PHAGE_Clostr_phi3626_NC_003524: putative prohead protease; FJM09_07845; phage(gi20065968)4.01e-129Showinfo_outline
17complement(1836654..1837901)PHAGE_Clostr_phi3626_NC_003524: putative portal protein; FJM09_07850; phage(gi20065966)0.0Showinfo_outline
18complement(1837902..1839641)PHAGE_Clostr_phi3626_NC_003524: putative terminase large subunit; FJM09_07855; phage(gi20065965)0.0Showinfo_outline
19complement(1839634..1840137)PHAGE_Clostr_phi3626_NC_003524: putative terminase small subunit; FJM09_07860; phage(gi20065964)2.79e-103Showinfo_outline
20complement(1840237..1840659)PHAGE_Clostr_phi3626_NC_003524: Gp50 protein; FJM09_07865; phage(gi20066012)1.15e-71Showinfo_outline
21complement(1840652..1841392)hypothetical protein; FJM09_078700.0Showinfo_outline
22complement(1841567..1842115)PHAGE_Clostr_phi3626_NC_003524: putative recombinase; FJM09_07875; phage(gi20066008)1.38e-97Showinfo_outline
23complement(1842227..1842733)hypothetical protein; FJM09_078800.0Showinfo_outline
24complement(1842726..1843091)DUF1878 domain-containing protein; FJM09_078850.0Showinfo_outline
25complement(1843184..1843369)hypothetical protein; FJM09_078900.0Showinfo_outline
26complement(1843532..1843993)PHAGE_Clostr_phiCD27_NC_011398: hypothetical protein; FJM09_07895; phage(gi209901307)8.17e-15Showinfo_outline
27complement(1844123..1844887)PHAGE_Clostr_phiCD119_NC_007917: hypothetical protein; FJM09_07900; phage(gi90592700)3.14e-91Showinfo_outline
28complement(1844899..1845174)PHAGE_Clostr_phi3626_NC_003524: Gp41 protein; FJM09_07905; phage(gi20066004)5.12e-42Showinfo_outline
29complement(1845217..1845606)PHAGE_Clostr_phi3626_NC_003524: putative single stranded DNA binding protein; FJM09_07910; phage(gi20066002)2.54e-58Showinfo_outline
30complement(1845779..1847062)PHAGE_Clostr_phi3626_NC_003524: putative helicase; FJM09_07915; phage(gi20065998)0.0Showinfo_outline
31complement(1847073..1847834)PHAGE_Clostr_phi3626_NC_003524: Gp34 protein; FJM09_07920; phage(gi20065997)5.31e-128Showinfo_outline
32complement(1848033..1848212)PHAGE_Clostr_PhiS63_NC_017978: gp28; FJM09_07925; phage(gi388570672)1.04e-15Showinfo_outline
33complement(1848238..1848468)hypothetical protein; FJM09_079300.0Showinfo_outline
34complement(1848474..1848971)transcriptional regulator; FJM09_079350.0Showinfo_outline
35complement(1849026..1849217)PHAGE_Bacill_Waukesha92_NC_025424: repressor protein; FJM09_07940; phage(gi712912387)7.75e-08Showinfo_outline
361849382..1849732PHAGE_Lister_vB_LmoS_188_NC_028871: Cro/CI family XRE family transcriptional regulator; FJM09_07945; phage(gi971750830)1.47e-14Showinfo_outline
371849759..1850718hypothetical protein; FJM09_079500.0Showinfo_outline
38complement(1850794..1852515)DUF2326 domain-containing protein; FJM09_079550.0Showinfo_outline
39complement(1852506..1852754)hypothetical protein; FJM09_079600.0Showinfo_outline
401852804..1852815attR0.0Showinfo_outline
411852907..1853404PHAGE_Clostr_phi3626_NC_003524: Gp23 protein; FJM09_07965; phage(gi20065986)2.40e-10Showinfo_outline
421853417..1854925PHAGE_Strept_K13_NC_024357: phage integrase protein; FJM09_07970; phage(gi658307286)1.16e-27Showinfo_outline
431855347..1855364attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 3366449 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