Submission Results

Sequence Name: Not Available

GenBank Accession Number: PSQF01000002.1

GenInfo (GI) Number: 0000000000

Download Results: PSQF01000002.1.PHASTER.zip

gi|00000000|ref|PSQF01000002.1| Subdoligranulum sp. APC924/74 NODE_2_length_154964_cov_740.809, 154964, gc%: 54.47%

Download summary as .txt file: summary.txt file_download

Total: 1 prophage regions have been identified, of which 0 regions are intact, 0 regions are incomplete, and 1 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
135.9Kbquestionable70311106-37073 info_outlinePHAGE_Entero_phiFL4A_NC_013644(5)57.17%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|PSQF01000002.1| Subdoligranulum sp. APC924/74 NODE_2_length_154964_cov_740.809, 154964, gc%: 54.47%

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
11106..1582PHAGE_Bacill_G_NC_023719: gp514; C4885_01205; phage(gi593777969)1.85e-12Showinfo_outline
21607..2515PHAGE_Bacill_G_NC_023719: gp234; C4885_01210; phage(gi593777690)5.34e-44Showinfo_outline
3complement(2566..2769)hypothetical protein; C4885_012150.0Showinfo_outline
4complement(2747..4330)PHAGE_Clostr_phiCD146_NC_028958: Minor capsid protein; C4885_01220; phage(gi971820159)3.27e-51Showinfo_outline
5complement(4457..6037)PHAGE_Clostr_phiCD38_2_NC_015568: minor capsid protein; C4885_01225; phage(gi333798110)6.01e-74Showinfo_outline
64571..4585attL0.0Showinfo_outline
7complement(6034..7335)PHAGE_Clostr_phiCP39_O_NC_011318: large terminase; C4885_01230; phage(gi208429857)2.64e-84Showinfo_outline
8complement(7253..7696)PHAGE_Lactob_Lj771_NC_010179: small terminase subunit; C4885_01235; phage(gi163932180)8.69e-14Showinfo_outline
9complement(7762..9015)PHAGE_Strept_EJ_1_NC_005294: transferase; C4885_01240; phage(gi39653711)3.50e-136Showinfo_outline
10complement(9379..9675)hypothetical protein; C4885_012450.0Showinfo_outline
11complement(9675..10376)hypothetical protein; C4885_012500.0Showinfo_outline
12complement(10443..10940)RNase III inhibitor; C4885_012550.0Showinfo_outline
13complement(11019..11750)PHAGE_Strept_phiARI0468_4_NC_031915: DNA primase subunit; C4885_01260; phage(gi100025)6.95e-38Showinfo_outline
14complement(11929..12174)hypothetical protein; C4885_012650.0Showinfo_outline
15complement(12332..13813)PHAGE_Entero_phiFL4A_NC_013644: DNA helicase; C4885_01270; phage(gi281416462)8.99e-147Showinfo_outline
16complement(13842..14063)PHAGE_Crocei_P2559Y_NC_023614: VRR-NUC domain protein; C4885_01275; phage(gi589893855)1.26e-13Showinfo_outline
17complement(14298..16709)PHAGE_Entero_phiFL4A_NC_013644: VirE domain protein; C4885_01280; phage(gi281416460)0.0Showinfo_outline
18complement(16722..17015)hypothetical protein; C4885_012850.0Showinfo_outline
19complement(16978..17307)hypothetical protein; C4885_012900.0Showinfo_outline
20complement(17465..17725)hypothetical protein; C4885_012950.0Showinfo_outline
21complement(17727..18326)hypothetical protein; C4885_013000.0Showinfo_outline
22complement(18495..18977)hypothetical protein; C4885_013050.0Showinfo_outline
23complement(18990..20981)PHAGE_Entero_phiFL4A_NC_013644: DNA polymerase; C4885_01310; phage(gi281416455)2.21e-173Showinfo_outline
24complement(21002..21586)PHAGE_Crocei_P2559Y_NC_023614: hypothetical protein; C4885_01315; phage(gi589893852)3.49e-37Showinfo_outline
25complement(21583..22782)PHAGE_Entero_phiFL4A_NC_013644: hypothetical protein; C4885_01320; phage(gi281416449)1.14e-78Showinfo_outline
26complement(22739..23188)hypothetical protein; C4885_013250.0Showinfo_outline
27complement(23181..23579)PHAGE_Entero_phiFL4A_NC_013644: hypothetical protein; C4885_01330; phage(gi281416448)6.66e-05Showinfo_outline
28complement(23579..23800)hypothetical protein; C4885_013350.0Showinfo_outline
29complement(23951..24166)hypothetical protein; C4885_013400.0Showinfo_outline
30complement(24182..24367)hypothetical protein; C4885_013450.0Showinfo_outline
3124627..24962PHAGE_Cronob_phiES15_NC_018454: putative transcriptional repressor DicA; C4885_01350; phage(gi401817574)9.85e-05Showinfo_outline
3225154..26242PROPHAGE_Oceano_HTE831: integrase; C4885_01355; phage(gi23097608)5.05e-22Showinfo_outline
3337073..37087attR0.0Showinfo_outline
Subdoligranulum sp. APC924/74 NODE_2_length_154964_cov_740.809
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 154964 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