Submission Results

Sequence Name: Bacillus thuringiensis serovar israelensis ATCC 35646 sq1940, whole

GenBank Accession Number: AAJM01000002.1

GenInfo (GI) Number: 74494143

Download Results: AAJM01000002.1.PHASTER.zip

gi|00000000|ref|NC_000000| Bacillus thuringiensis serovar israelensis ATCC 35646 sq1940, whole .104714, gc%: 33.86%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
117Kbincomplete50920945-38006 info_outlinePHAGE_Staphy_SPbeta_like_NC_029119(2)33.98%Show info_outline
229.9Kbincomplete201825101-55094 info_outlinePHAGE_Staphy_SpaA1_NC_018277(5)33.44%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|NC_000000| Bacillus thuringiensis serovar israelensis ATCC 35646 sq1940, whole [asmbl_id: NC_000000].104714, gc%: 33.86%

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 13 CDS

#CDS PositionBLAST HitE-ValueSequence
120945..20964attL0.0Showinfo_outline
2complement(20947..21336)PHAGE_Staphy_SPbeta_like_NC_029119: integrase core domain protein; RBTH_07762; phage(gi985761246)1.10e-24Showinfo_outline
3complement(21415..21633)PHAGE_Staphy_SPbeta_like_NC_029119: integrase core domain protein; RBTH_07763; phage(gi985761246)1.30e-22Showinfo_outline
421881..22456hypothetical protein; RBTH_077640.0Showinfo_outline
522903..23274PHAGE_Burkho_AH2_NC_018283: hypothetical protein; RBTH_07765; phage(gi399529078)1.52e-14Showinfo_outline
623555..23566attL0.0Showinfo_outline
723667..24053PHAGE_Staphy_SpaA1_NC_018277: Zn-finger protein fused to HTH domain; RBTH_07766; phage(gi399498916)2.21e-17Showinfo_outline
8complement(24169..24885)PROPHAGE_Brucel_1330: transposase, putative; RBTH_07767; phage(gi23502708)3.61e-52Showinfo_outline
925301..26260Pesticidial crystal protein cry15Aa; RBTH_077690.0Showinfo_outline
1026417..27328Pesticidial crystal protein cry15Aa; RBTH_077700.0Showinfo_outline
11complement(27468..30485)PROPHAGE_Xantho_33913: Tn5041 transposase; RBTH_07771; phage(gi21231545)1.27e-31Showinfo_outline
1232968..32979attR0.0Showinfo_outline
1338006..38025attR0.0Showinfo_outline

Region 2, total 20 CDS

#CDS PositionBLAST HitE-ValueSequence
125101..25115attL0.0Showinfo_outline
2complement(30557..30784)PHAGE_Prochl_P_SSP7_NC_006882: phage-related integrase; RBTH_07772; phage(gi61806413)3.21e-06Showinfo_outline
331933..32601PHAGE_Salmon_SJ46_NC_031129: hypothetical protein; RBTH_07774; phage(gi100036)4.04e-23Showinfo_outline
4complement(33001..34041)1-phosphatidylinositol phosphodiesterase precursor; RBTH_077750.0Showinfo_outline
5complement(34445..34999)hypothetical protein; RBTH_077760.0Showinfo_outline
6complement(35437..36492)Fic family protein; RBTH_077770.0Showinfo_outline
7complement(36723..37064)hypothetical protein; RBTH_077780.0Showinfo_outline
8complement(37046..37492)hypothetical protein; RBTH_077790.0Showinfo_outline
9complement(38402..38815)hypothetical protein; RBTH_077800.0Showinfo_outline
10complement(38846..39268)PHAGE_Bacill_phi4J1_NC_029008: hypothetical protein; RBTH_07781; phage(gi971821597)1.35e-19Showinfo_outline
11complement(39594..39965)PHAGE_Burkho_AH2_NC_018283: hypothetical protein; RBTH_07782; phage(gi399529078)2.54e-14Showinfo_outline
12complement(40243..40461)Hypothetical protein; RBTH_077830.0Showinfo_outline
13complement(40592..41656)hypothetical protein; RBTH_077840.0Showinfo_outline
14complement(41783..42640)hypothetical protein; RBTH_077850.0Showinfo_outline
1542898..43335PHAGE_Bacill_PfEFR_5_NC_031055: hypothetical protein; RBTH_07786; phage(gi100026)1.07e-62Showinfo_outline
1643346..43669PHAGE_Bacill_PfEFR_5_NC_031055: hypothetical protein; RBTH_07787; phage(gi100027)1.68e-44Showinfo_outline
1743763..44845PHAGE_Bacill_PfEFR_5_NC_031055: hypothetical protein; RBTH_07788; phage(gi100028)4.82e-179Showinfo_outline
1844832..45482PHAGE_Bacill_PfEFR_5_NC_031055: hypothetical protein; RBTH_07789; phage(gi100029)1.09e-100Showinfo_outline
19complement(45511..45732)PHAGE_Staphy_SpaA1_NC_018277: XRE family transcriptional regulator; RBTH_07790; phage(gi399498887)2.51e-16Showinfo_outline
2055094..55108attR0.0Showinfo_outline
Bacillus thuringiensis serovar israelensis ATCC 35646 sq1940, whole
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 104714 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