Submission Results

Sequence Name: Not Available

GenBank Accession Number: VODN01000002.1

GenInfo (GI) Number: 0000000000

Download Results: VODN01000002.1.PHASTER.zip

gi|00000000|ref|VODN01000002.1| Enterococcus casseliflavus strain J4 J4_MSG4841_contig_2, whole 524720, gc%: 42.77%

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
145.7Kbintact1105379430-125168 info_outlinePHAGE_Bacill_BCJA1c_NC_006557(9)42.89%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|VODN01000002.1| Enterococcus casseliflavus strain J4 J4_MSG4841_contig_2, whole 524720, gc%: 42.77%

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 55 CDS

#CDS PositionBLAST HitE-ValueSequence
179430..79639PHAGE_Lister_LP_HM00113468_NC_049900: hypothetical protein; FQS90_03305; phage(gi100038)8.73e-12Showinfo_outline
2complement(79882..80925)PHAGE_Bacill_Mgbh1_NC_041879: hypothetical protein; FQS90_03310; phage(gi100035)2.89e-54Showinfo_outline
3complement(80943..81206)PHAGE_Entero_vB_IME197_NC_028671: hypothetical protein; FQS90_03315; phage(gi966199011)2.30e-40Showinfo_outline
4complement(81242..81742)phage holin family protein; FQS90_033200.0Showinfo_outline
5complement(81768..81905)XkdX family protein; FQS90_033250.0Showinfo_outline
6complement(81898..82221)hypothetical protein; FQS90_033300.0Showinfo_outline
7complement(82218..83639)PHAGE_Bacill_phi105_NC_048631: hypothetical protein; FQS90_03335; phage(gi100020)1.54e-06Showinfo_outline
8complement(83653..83874)PHAGE_Lactob_iA2_NC_028830: hypothetical protein; FQS90_03340; phage(gi971747646)3.91e-10Showinfo_outline
9complement(83861..84301)PHAGE_Strept_315.4_NC_004587: hypothetical protein; FQS90_03345; phage(gi28876326)9.24e-14Showinfo_outline
10complement(84298..87474)PHAGE_Strept_315.4_NC_004587: hypothetical protein; FQS90_03350; phage(gi28876329)9.30e-54Showinfo_outline
11complement(87471..88229)PHAGE_Clostr_phiCT19406C_NC_029006: tail protein; FQS90_03355; phage(gi971821558)7.28e-16Showinfo_outline
1288004..88016attL0.0Showinfo_outline
13complement(88226..92884)PHAGE_Entero_vB_IME197_NC_028671: tail length tape-measure protein; FQS90_03360; phage(gi966199024)3.28e-79Showinfo_outline
14complement(92871..93452)PHAGE_Strept_PH15_NC_010945: hypothetical protein; FQS90_03365; phage(gi190151461)3.79e-34Showinfo_outline
15complement(93457..93852)PHAGE_Strept_MM1_NC_003050: hypothetical protein; FQS90_03370; phage(gi15088784)6.19e-06Showinfo_outline
16complement(93892..94410)PHAGE_Strept_MM1_NC_003050: putative major tail shaft protein; FQS90_03375; phage(gi15088783)2.65e-42Showinfo_outline
17complement(94411..94809)PHAGE_Bacill_BCJA1c_NC_006557: hypothetical protein; FQS90_03380; phage(gi56694913)7.80e-19Showinfo_outline
18complement(94809..95174)PHAGE_Bacill_BCJA1c_NC_006557: hypothetical protein; FQS90_03385; phage(gi56694912)3.54e-19Showinfo_outline
19complement(95174..95509)PHAGE_Bacill_BCJA1c_NC_006557: hypothetical protein; FQS90_03390; phage(gi56694911)2.68e-06Showinfo_outline
20complement(95506..95961)PHAGE_Bacill_BCJA1c_NC_006557: hypothetical protein; FQS90_03395; phage(gi56694910)1.18e-21Showinfo_outline
21complement(95991..97100)PHAGE_Lister_A118_NC_003216: major capsid protein; FQS90_03400; phage(gi16798789)6.62e-151Showinfo_outline
22complement(97113..97679)PHAGE_Lister_vB_LmoS_293_NC_028929: capsid scaffolding protein; FQS90_03405; phage(gi971756881)3.20e-25Showinfo_outline
23complement(97762..98910)PHAGE_Bacill_BCJA1c_NC_006557: hypothetical protein; FQS90_03410; phage(gi56694905)5.16e-62Showinfo_outline
24complement(98915..100498)PHAGE_Bacill_BCJA1c_NC_006557: portal; FQS90_03415; phage(gi56694903)4.58e-141Showinfo_outline
25complement(100510..101826)PHAGE_Bacill_BCJA1c_NC_006557: terminase large subunit; FQS90_03420; phage(gi56694902)0.0Showinfo_outline
26complement(101823..102533)PHAGE_Anoxyb_A403_NC_048701: hypothetical protein; FQS90_03425; phage(gi100018)3.05e-55Showinfo_outline
27complement(102899..103420)PHAGE_Bacill_BCJA1c_NC_006557: hypothetical protein; FQS90_03430; phage(gi56694895)6.92e-05Showinfo_outline
28complement(103422..104804)PHAGE_Staphy_3A_NC_007053: ORF009; FQS90_03435; phage(gi66395597)1.67e-165Showinfo_outline
29complement(104785..105081)PHAGE_Burkho_BcepC6B_NC_005887: hypothetical protein; FQS90_03440; phage(gi48697220)3.95e-29Showinfo_outline
30complement(105394..107814)PHAGE_Clostr_phiCT453A_NC_028991: hypothetical protein; FQS90_03445; phage(gi100019)0.0Showinfo_outline
31complement(107834..109828)PHAGE_Clostr_phiCT453A_NC_028991: hypothetical protein; FQS90_03450; phage(gi100018)0.0Showinfo_outline
32complement(109818..110606)PHAGE_Crocei_P2559Y_NC_023614: hypothetical protein; FQS90_03455; phage(gi589893852)1.58e-41Showinfo_outline
33complement(110637..110906)XRE family transcriptional regulator; FQS90_034600.0Showinfo_outline
34complement(110945..111268)PHAGE_Entero_EF62phi_NC_017732: hypothetical protein; FQS90_03465; phage(gi384519768)2.26e-33Showinfo_outline
35complement(111309..111530)PHAGE_Entero_vB_IME197_NC_028671: hypothetical protein; FQS90_03470; phage(gi966198995)8.19e-07Showinfo_outline
36111719..111904hypothetical protein; FQS90_034750.0Showinfo_outline
37complement(111966..112175)hypothetical protein; FQS90_034800.0Showinfo_outline
38complement(112186..112575)PHAGE_Lactoc_bIL309_NC_002668: Orf34; FQS90_03485; phage(gi13095839)1.68e-36Showinfo_outline
39complement(112816..113988)PHAGE_Clostr_phiCT453A_NC_028991: hypothetical protein; FQS90_03490; phage(gi100016)2.83e-88Showinfo_outline
40complement(113985..114365)hypothetical protein; FQS90_034950.0Showinfo_outline
41complement(114529..115122)PHAGE_Geobac_E3_NC_029073: putative DNA polymerase III beta clamp subunit; FQS90_03500; phage(gi985758511)1.44e-10Showinfo_outline
42complement(115148..115420)hypothetical protein; FQS90_035050.0Showinfo_outline
43complement(115541..115771)hypothetical protein; FQS90_035100.0Showinfo_outline
44complement(115932..116696)PHAGE_Lactob_LJ_NC_048680: hypothetical protein; FQS90_03515; phage(gi100064)1.47e-74Showinfo_outline
45complement(116693..116917)hypothetical protein; FQS90_035200.0Showinfo_outline
46complement(116936..117121)PHAGE_Bacill_BCJA1c_NC_006557: cro; FQS90_03525; phage(gi56694875)7.71e-16Showinfo_outline
47117426..117776PHAGE_Lister_LP_HM00113468_NC_049900: u-spanin; FQS90_03530; phage(gi100032)1.10e-29Showinfo_outline
48117786..118211PHAGE_Strept_315.5_NC_004588: putative cI-like repressor, metallo-prtoeinase motif; FQS90_03535; phage(gi28876433)5.96e-08Showinfo_outline
49118401..118856PHAGE_Entero_phiFL1A_NC_013646: hypothetical protein; FQS90_03540; phage(gi281416384)5.22e-29Showinfo_outline
50118731..118743attR0.0Showinfo_outline
51118944..120065PHAGE_Entero_phiEf11_NC_013696: phage integrase protein; FQS90_03545; phage(gi282598730)3.85e-85Showinfo_outline
52complement(120150..121919)PHAGE_Bacill_SPbeta_NC_001884: ABC transporter; FQS90_03550; phage(gi9630145)1.24e-31Showinfo_outline
53complement(121922..123631)PHAGE_Bacill_SPbeta_NC_001884: ABC transporter; FQS90_03555; phage(gi9630145)2.43e-29Showinfo_outline
54complement(123861..124262)MmcQ/YjbR family DNA-binding protein; FQS90_035600.0Showinfo_outline
55complement(124551..125168)PHAGE_Entero_EFLK1_NC_029026: peptidoglycan-binding LysM; FQS90_03565; phage(gi971766958)2.22e-45Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 524720 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