Submission Results

Sequence Name: Not Available

GenBank Accession Number: VRTX01000001.1

GenInfo (GI) Number: 0000000000

Download Results: VRTX01000001.1.PHASTER.zip

gi|00000000|ref|VRTX01000001.1| Bacillus amyloliquefaciens strain FadWe 946429, gc%: 46.89%

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
189.4Kbintact15093856730-946159 info_outlinePHAGE_Paenib_Tripp_NC_028930(30)47.39%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|VRTX01000001.1| Bacillus amyloliquefaciens strain FadWe 946429, gc%: 46.89%

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 97 CDS

#CDS PositionBLAST HitE-ValueSequence
1856730..856741attL0.0Showinfo_outline
2860899..861957PHAGE_Thermu_P7426_NC_009804: phage XerD-like integrase; FVD39_04390; phage(gi157265417)3.42e-18Showinfo_outline
3862104..863051hypothetical protein; FVD39_043950.0Showinfo_outline
4863048..863467PHAGE_Paenib_Tripp_NC_028930: DNA binding-like protein; FVD39_04400; phage(gi971757002)4.68e-34Showinfo_outline
5863854..864177PHAGE_Bacill_vB_BceM_Bc431v3_NC_020873: hypothetical protein; FVD39_04405; phage(gi472437464)1.65e-15Showinfo_outline
6864350..864685PHAGE_Bacill_SIOphi_NC_042133: hypothetical protein; FVD39_04410; phage(gi100063)1.15e-16Showinfo_outline
7864685..864930hypothetical protein; FVD39_044150.0Showinfo_outline
8864914..865297PHAGE_Bacill_vB_BsuM_Goe3_NC_048652: hypothetical protein; FVD39_04420; phage(gi100196)2.53e-06Showinfo_outline
9865284..865652PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04425; phage(gi971757006)3.09e-16Showinfo_outline
10865680..866528PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04430; phage(gi971757037)1.18e-32Showinfo_outline
11866714..866893hypothetical protein; FVD39_044350.0Showinfo_outline
12866886..867665PHAGE_Paenib_Tripp_NC_028930: DNA replication protein; FVD39_04440; phage(gi971757010)6.98e-92Showinfo_outline
13867662..868189hypothetical protein; FVD39_044450.0Showinfo_outline
14868186..868851PHAGE_Pectob_PPWS2_NC_048103: hypothetical protein; FVD39_04450; phage(gi100038)4.91e-06Showinfo_outline
15868932..870326PHAGE_Bacill_Mgbh1_NC_041879: exonuclease; FVD39_04455; phage(gi100048)1.69e-126Showinfo_outline
16870448..871443PHAGE_Paenib_Tripp_NC_028930: DNA primase; FVD39_04460; phage(gi971757012)1.29e-69Showinfo_outline
17complement(871460..871705)PHAGE_Bacill_SPbeta_NC_001884: hypothetical protein; FVD39_04465; phage(gi9630214)6.02e-13Showinfo_outline
18871855..873081PHAGE_Bacill_WBeta_NC_007734: conserved phage protein; FVD39_04470; phage(gi85701407)6.62e-78Showinfo_outline
19873182..873193attL0.0Showinfo_outline
20873391..873999PHAGE_Bacill_Mgbh1_NC_041879: tail fiber protein; FVD39_04475; phage(gi100052)5.27e-20Showinfo_outline
21874294..874812PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04480; phage(gi971757014)2.10e-06Showinfo_outline
22875050..875820PHAGE_Paenib_Tripp_NC_028930: single-stranded DNA-binding protein; FVD39_04485; phage(gi971757015)6.59e-64Showinfo_outline
23875855..876289PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04490; phage(gi971757019)3.34e-31Showinfo_outline
24876290..877558PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04495; phage(gi971757022)3.25e-06Showinfo_outline
25877548..877727hypothetical protein; FVD39_045000.0Showinfo_outline
26877923..880730PHAGE_Paenib_Tripp_NC_028930: DNA polymerase; FVD39_04505; phage(gi971757023)4.83e-105Showinfo_outline
27880731..881027hypothetical protein; FVD39_045100.0Showinfo_outline
28881024..882079PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04515; phage(gi971757028)1.73e-95Showinfo_outline
29882079..882393PHAGE_Pectob_CBB_NC_041878: baseplate protein; FVD39_04520; phage(gi100417)1.48e-17Showinfo_outline
30882390..882923PHAGE_Paenib_Tripp_NC_028930: resolvase; FVD39_04525; phage(gi971757029)3.97e-14Showinfo_outline
31882923..883285PHAGE_Staphy_ROSA_NC_007058: ORF033; FVD39_04530; phage(gi66395997)5.09e-22Showinfo_outline
32883290..883529hypothetical protein; FVD39_045350.0Showinfo_outline
33883526..883711hypothetical protein; FVD39_045400.0Showinfo_outline
34883905..884261PHAGE_Bacill_Mgbh1_NC_041879: hypothetical protein; FVD39_04545; phage(gi100062)3.86e-41Showinfo_outline
35884245..885039PHAGE_Bacill_BSP38_NC_048726: D11 protein; FVD39_04550; phage(gi100126)8.10e-155Showinfo_outline
36885191..885922PHAGE_Bacill_SPG24_NC_030903: hypothetical protein; FVD39_04555; phage(gi100024)4.91e-116Showinfo_outline
37885984..887300PHAGE_Bacill_SIOphi_NC_042133: hypothetical protein; FVD39_04560; phage(gi100179)0.0Showinfo_outline
38887480..888445PHAGE_Bacill_SP_10_NC_019487: ribonucleoside reductase beta subunit; FVD39_04565; phage(gi418489619)0.0Showinfo_outline
39888668..889210PHAGE_Bacill_250_NC_029024: deoxyuridine 5'-triphosphate nucleotidohydrolase; FVD39_04570; phage(gi971766646)4.61e-52Showinfo_outline
40889211..889435PHAGE_Bacill_SIOphi_NC_042133: hypothetical protein; FVD39_04575; phage(gi100178)5.62e-16Showinfo_outline
41889432..890127PHAGE_Bacill_Riggi_NC_022765: thymidylate synthase; FVD39_04580; phage(gi568191014)4.88e-110Showinfo_outline
42890154..890699PHAGE_Bacill_Moonbeam_NC_027374: capsid maturation protease; FVD39_04585; phage(gi100067)4.00e-22Showinfo_outline
43890899..891900hypothetical protein; FVD39_045900.0Showinfo_outline
44891897..892466PHAGE_Bacill_B5S_NC_047736: hypothetical protein; FVD39_04595; phage(gi100017)5.57e-45Showinfo_outline
45892463..893680PHAGE_Thermu_P7426_NC_009804: C5 cytosine-specific DNA methylase; FVD39_04600; phage(gi157265426)9.58e-48Showinfo_outline
46complement(893656..894054)PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04605; phage(gi971757039)3.00e-05Showinfo_outline
47894135..894701PHAGE_Bacill_Moonbeam_NC_027374: ATP-dependent Clp protease; FVD39_04610; phage(gi100182)6.12e-29Showinfo_outline
48894694..895084PHAGE_Paenib_Tripp_NC_028930: SigK-like protein; FVD39_04615; phage(gi971757041)6.28e-24Showinfo_outline
49895077..895565PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04620; phage(gi971757042)2.39e-26Showinfo_outline
50895653..896453PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04625; phage(gi971757046)5.34e-94Showinfo_outline
51complement(896574..896753)hypothetical protein; FVD39_046300.0Showinfo_outline
52complement(896884..897321)PHAGE_Bacill_PM1_NC_020883: hypothetical protein; FVD39_04635; phage(gi472438291)2.57e-29Showinfo_outline
53complement(897427..897627)hypothetical protein; FVD39_046400.0Showinfo_outline
54complement(898041..899804)PHAGE_Bacill_SP_10_NC_019487: hypothetical protein; FVD39_04645; phage(gi418489526)7.22e-179Showinfo_outline
55complement(899804..900601)PHAGE_Bacill_SPbeta_NC_001884: hypothetical protein; FVD39_04650; phage(gi9630246)5.08e-76Showinfo_outline
56900732..900956helix-turn-helix transcriptional regulator; FVD39_046550.0Showinfo_outline
57901056..902078PHAGE_Staphy_phiN315_NC_004740: probable ss-1,3-N-acetylglucosaminyltransferase; FVD39_04660; phage(gi30043988)5.22e-22Showinfo_outline
58903300..903581PHAGE_Mycoba_Tortellini_NC_041888: hypothetical protein; FVD39_04665; phage(gi100064)1.18e-24Showinfo_outline
59903964..904164hypothetical protein; FVD39_046700.0Showinfo_outline
60904184..904447PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04675; phage(gi971757045)1.47e-07Showinfo_outline
61904447..904743hypothetical protein; FVD39_046800.0Showinfo_outline
62complement(904948..905496)PHAGE_Bacill_BtCS33_NC_018085: integrase; FVD39_04685; phage(gi392972759)3.34e-45Showinfo_outline
63905579..907333PHAGE_Paenib_Tripp_NC_028930: terminase large subunit; FVD39_04690; phage(gi971756961)5.33e-124Showinfo_outline
64907350..907781PHAGE_Bacill_phBC6A51_NC_004820: hypothetical protein; FVD39_04695; phage(gi31415784)5.20e-35Showinfo_outline
65907784..909415PHAGE_Paenib_Tripp_NC_028930: portal protein; FVD39_04700; phage(gi971756962)7.37e-62Showinfo_outline
66909415..910239PHAGE_Paenib_Tripp_NC_028930: minor capsid protein; FVD39_04705; phage(gi971756963)4.73e-96Showinfo_outline
67910330..911001PHAGE_Paenib_Tripp_NC_028930: scaffold protein; FVD39_04710; phage(gi971756965)1.82e-32Showinfo_outline
68911013..912119PHAGE_Bacill_phBC6A51_NC_004820: hypothetical protein; FVD39_04715; phage(gi31415788)1.49e-114Showinfo_outline
69912169..912423PHAGE_Weisse_phiYS61_NC_018270: putative tail fiber protein; FVD39_04720; phage(gi399528395)1.12e-05Showinfo_outline
70912426..912644hypothetical protein; FVD39_047250.0Showinfo_outline
71912658..913044PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04730; phage(gi971756967)4.89e-27Showinfo_outline
72913060..913380PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04735; phage(gi971756968)1.74e-24Showinfo_outline
73913377..913784PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04740; phage(gi971756969)3.26e-42Showinfo_outline
74913791..914180PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04745; phage(gi971756970)2.66e-27Showinfo_outline
75914205..914759PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04750; phage(gi971756971)1.19e-62Showinfo_outline
76914818..915189PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04755; phage(gi971756972)2.29e-23Showinfo_outline
77915285..915521PHAGE_Paenib_Tripp_NC_028930: hypothetical protein; FVD39_04760; phage(gi971756973)5.17e-05Showinfo_outline
78915522..916130PHAGE_Paenib_Tripp_NC_028930: tape measure; FVD39_04765; phage(gi971756974)9.82e-39Showinfo_outline
79916231..916992PHAGE_Bacill_PBS1_NC_043027: hypothetical protein; FVD39_04770; phage(gi100270)8.30e-46Showinfo_outline
80917172..919418PHAGE_Paenib_Tripp_NC_028930: tape measure; FVD39_04775; phage(gi971756974)2.97e-111Showinfo_outline
81919425..920849PHAGE_Lister_vB_LmoS_188_NC_028871: holin-like putative tail component protein; FVD39_04780; phage(gi971750814)1.06e-42Showinfo_outline
82920861..922261PHAGE_Lister_LP_030_3_NC_024384: putative tail endopeptidase; FVD39_04785; phage(gi658607677)1.77e-23Showinfo_outline
83922276..924840PHAGE_Bacill_phi105_NC_048631: hypothetical protein; FVD39_04790; phage(gi100019)0.0Showinfo_outline
84924886..926436PHAGE_Bacill_PM1_NC_020883: hypothetical protein; FVD39_04795; phage(gi472438325)6.04e-77Showinfo_outline
85926451..926720PHAGE_Bacill_PM1_NC_020883: hypothetical protein; FVD39_04800; phage(gi472438326)2.57e-13Showinfo_outline
86926721..926909PHAGE_Bacill_PM1_NC_020883: hypothetical protein; FVD39_04805; phage(gi472438327)3.72e-10Showinfo_outline
87926913..927122PHAGE_Bacill_SPbeta_NC_001884: possibly involved in bacteriocin production or immunity; FVD39_04810; phage(gi9630150)3.74e-21Showinfo_outline
88927203..928141PHAGE_Bacill_phi105_NC_048631: hypothetical protein; FVD39_04815; phage(gi100024)1.15e-116Showinfo_outline
89928162..928419PHAGE_Staphy_IME_SA4_NC_029025: holin; FVD39_04820; phage(gi971766707)1.29e-06Showinfo_outline
90928512..929072hypothetical protein; FVD39_048250.0Showinfo_outline
91complement(929088..929423)PHAGE_Bacill_SPbeta_NC_001884: hypothetical protein; FVD39_04830; phage(gi9630141)1.40e-16Showinfo_outline
92complement(929483..929689)PHAGE_Bacill_SIOphi_NC_042133: hypothetical protein; FVD39_04835; phage(gi100114)4.63e-11Showinfo_outline
93929826..930617PHAGE_Bacill_WBeta_NC_007734: conserved phage protein; FVD39_04840; phage(gi85701405)3.63e-20Showinfo_outline
94complement(930920..931123)hypothetical protein; FVD39_048450.0Showinfo_outline
95931511..932641PHAGE_Bacill_phi105_NC_048631: hypothetical protein; FVD39_04850; phage(gi100028)3.78e-25Showinfo_outline
96941783..941794attR0.0Showinfo_outline
97946159..946170attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 946429 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