Submission Results

Sequence Name: Not Available

GenBank Accession Number: SUND01000007.1

GenInfo (GI) Number: 0000000000

Download Results:

gi|00000000|ref|SUND01000007.1| Bacillus sp. XXST-01 NODE_7_length_198768_cov_50.559505, whole 198768, gc%: 39.77%

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
141.7Kbintact1303156349-98054 info_outlinePHAGE_Paenib_Harrison_NC_028746(4)40.82%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|SUND01000007.1| Bacillus sp. XXST-01 NODE_7_length_198768_cov_50.559505, whole 198768, gc%: 39.77%

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 33 CDS

#CDS PositionBLAST HitE-ValueSequence
2complement(68949..69362)PHAGE_Entero_phiFL1A_NC_013646: integrase; FAR12_10185; phage(gi281416324)5.78e-05Showinfo_outline
3complement(69363..70928)PHAGE_Bacill_WBeta_NC_007734: putative site-specific recombinase; FAR12_10190; phage(gi85701406)7.36e-40Showinfo_outline
4complement(70990..71229)hypothetical protein; FAR12_101950.0Showinfo_outline
5complement(71409..72110)PHAGE_Bacill_SIOphi_NC_042133: hypothetical protein; FAR12_10200; phage(gi100038)5.76e-06Showinfo_outline
6complement(72128..73627)hypothetical protein; FAR12_102050.0Showinfo_outline
7complement(73624..74064)PHAGE_Bacill_WBeta_NC_007734: phage holin; FAR12_10210; phage(gi85701395)2.87e-34Showinfo_outline
9complement(74141..76495)hypothetical protein; FAR12_102150.0Showinfo_outline
10complement(76509..77012)PHAGE_Paenib_Shelly_NC_041909: hypothetical protein; FAR12_10220; phage(gi100017)4.81e-30Showinfo_outline
11complement(77028..78965)PHAGE_Paenib_Shelly_NC_041909: hypothetical protein; FAR12_10225; phage(gi100016)5.33e-46Showinfo_outline
12complement(78968..79819)PHAGE_Clostr_phiCD6356_NC_015262: putative phage tail protein; FAR12_10230; phage(gi326536863)5.85e-48Showinfo_outline
13complement(79833..82253)PHAGE_Microb_Ilzat_NC_042111: hypothetical protein; FAR12_10235; phage(gi100017)1.11e-137Showinfo_outline
14complement(82456..82842)hypothetical protein; FAR12_102400.0Showinfo_outline
15complement(82854..83444)PHAGE_Paenib_Harrison_NC_028746: major tail protein; FAR12_10245; phage(gi971482321)3.09e-26Showinfo_outline
16complement(83448..83789)hypothetical protein; FAR12_102500.0Showinfo_outline
17complement(83786..84217)HK97 gp10 family phage protein; FAR12_102550.0Showinfo_outline
18complement(84223..84558)head-tail adaptor protein; FAR12_102600.0Showinfo_outline
19complement(84560..84880)phage gp6-like head-tail connector protein; FAR12_102650.0Showinfo_outline
20complement(84907..85119)PHAGE_Entero_4MG_NC_022968: putative phage head fiber protein; FAR12_10270; phage(gi563397517)2.66e-10Showinfo_outline
21complement(85132..86325)PHAGE_Entero_phiP27_NC_003356: putative major capsid protein; FAR12_10275; phage(gi18249904)5.63e-46Showinfo_outline
22complement(86345..87034)PHAGE_Geobac_E2_NC_009552: putative Clp peptidase; FAR12_10280; phage(gi148747731)1.05e-57Showinfo_outline
23complement(87035..88279)PHAGE_Klebsi_phiKO2_NC_005857: putative portal protein; FAR12_10285; phage(gi46402090)6.75e-86Showinfo_outline
24complement(88323..89927)PHAGE_Gordon_Zirinka_NC_031097: hypothetical protein; FAR12_10290; phage(gi100002)3.51e-105Showinfo_outline
25complement(90016..90204)DUF5049 domain-containing protein; FAR12_102950.0Showinfo_outline
26complement(90283..90510)PHAGE_Bacill_SP_15_NC_031245: hypothetical protein; FAR12_10300; phage(gi100310)4.67e-07Showinfo_outline
27complement(90507..91199)virulence protein; FAR12_103050.0Showinfo_outline
28complement(91300..93459)PHAGE_Entero_P1_NC_005856: Dmt; FAR12_10310; phage(gi46401691)7.71e-30Showinfo_outline
29complement(93452..94216)PHAGE_Lactob_Lj771_NC_010179: putative adenine methyltransferase; FAR12_10315; phage(gi163932178)9.28e-73Showinfo_outline
3094490..94741PHAGE_Paenib_Shelly_NC_041909: membrane-associated initiation of head vertex; FAR12_10320; phage(gi100034)2.38e-34Showinfo_outline
3194898..96405IS21 family transposase; FAR12_103250.0Showinfo_outline
3296405..97126ATP-binding protein; FAR12_103300.0Showinfo_outline
3397158..98054PHAGE_Paenib_Shelly_NC_041909: replication and recombination DNA helicase; FAR12_10335; phage(gi100033)3.60e-112Showinfo_outline
Bacillus sp. XXST-01 NODE_7_length_198768_cov_50
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 198768 bps
Phages: 1
Click on a region in the genome above to show details here.
Viewer Options
Click on a sequence to see details.
Portal Protein
Coat Protein
Tail Shaft
Attachment Site
Phage-like Protein
Hypotheical Protein
Fiber Protein
Plate Protein

Download data as .txt file: png_input file_download