Submission Results

Sequence Name: Bifidobacterium longum DJO10A, whole genome shotgun sequencing

GenBank Accession Number: AABM00000000.2

GenInfo (GI) Number: 29269556

Download Results: AABM00000000.2.PHASTER.zip

gi|29269556|ref|AABM00000000| Bifidobacterium longum DJO10A Blon_1, whole genome shotgun .2375286, gc%: 59.07%

Download summary as .txt file: summary.txt file_download

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

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
124.5Kbincomplete3035817151-841704 info_outlinePHAGE_Mycoba_Angel63.92%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|29269556|ref|AABM00000000| Bifidobacterium longum DJO10A Blon_1, whole genome shotgun [asmbl_id: NC_000000].2375286, gc%: 59.07%

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 36 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(817151..820879)PHAGE_Bacill_BCJA1c: host specificity protein; PP_00736; phage(gi56694921)5e-23Showinfo_outline
2complement(820890..821672)hypothetical protein BBPR_0924 [Bifidobacterium bifidum PRL2010] gi|311064313|ref|YP_003971038.1|; PP_007375e-46Showinfo_outline
3complement(821691..824759)PHAGE_Lactoc_712: tail tape measure; PP_00738; phage(gi115315588)4e-79Showinfo_outline
4complement(824761..825153)hypothetical protein Jden_2318 [Jonesia denitrificans DSM 20603] gi|256833529|ref|YP_003162256.1|; PP_007404e-08Showinfo_outline
5complement(825165..825485)hypothetical protein Blon_1822 [Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222] gi|213692689|ref|YP_002323275.1|; PP_007392e-17Showinfo_outline
6825536..825898hypothetical; PP_007410.0Showinfo_outline
7complement(826072..826437)hypothetical protein Blon_1820 [Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222] gi|213692687|ref|YP_002323273.1|; PP_007421e-17Showinfo_outline
8complement(826434..826709)PHAGE_Strept_3: hypothetical protein SpyM3_1109; PP_00743; phage(gi28876279)3e-05Showinfo_outline
9complement(826721..827056)PHAGE_Lactoc_r1t: hypothetical protein r1tp34; PP_00744; phage(gi23455753)1e-06Showinfo_outline
10complement(827053..827505)PHAGE_Lactoc_r1t: hypothetical protein r1tp33; PP_00745; phage(gi23455752)5e-10Showinfo_outline
11complement(827517..827831)PHAGE_Cronob_vB_CsaM_GAP31: hypothetical protein; PP_00747; phage(gi414086853)1e-08Showinfo_outline
12complement(827831..828736)PHAGE_Mycoba_Angel: gp7; PP_00746; phage(gi239590018)2e-38Showinfo_outline
13complement(828782..829315)PHAGE_Propio_P104A: putative head assembly scaffold; PP_00748; phage(gi410491555)2e-05Showinfo_outline
14complement(829426..830586)PHAGE_Mycoba_Ramsey: gp5; PP_00749; phage(gi206600186)2e-05Showinfo_outline
15complement(830705..832228)PHAGE_Mycoba_Angel: gp3; PP_00750; phage(gi239590014)3e-42Showinfo_outline
16complement(832228..833661)PHAGE_Mycoba_Angel: gp2; PP_00751; phage(gi239590013)2e-81Showinfo_outline
17complement(833645..833935)PHAGE_Mycoba_TM4: hypothetical protein TM4_gp3; PP_00752; phage(gi18496889)7e-10Showinfo_outline
18complement(834023..834316)PHAGE_Mycoba_Angel: gp60; PP_00753; phage(gi239590069)8e-07Showinfo_outline
19complement(834524..834622)tRNA0.0Showinfo_outline
20complement(834719..835561)PHAGE_Mycoba_Brujita: gp66; PP_00754; phage(gi206599610)2e-05Showinfo_outline
21complement(835706..835891)hypothetical; PP_007550.0Showinfo_outline
22complement(835888..836118)hypothetical; PP_007560.0Showinfo_outline
23complement(836140..836346)PHAGE_Mycoba_Tweety: gp57; PP_00757; phage(gi157311246)1e-07Showinfo_outline
24complement(836350..836595)hypothetical; PP_007580.0Showinfo_outline
25complement(836592..836789)hypothetical; PP_007600.0Showinfo_outline
26complement(836786..836917)hypothetical protein Blon_1125 [Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222] gi|213692007|ref|YP_002322593.1|; PP_007591e-06Showinfo_outline
27complement(837028..837357)hypothetical protein BLIF_1051 [Bifidobacterium longum subsp. infantis 157F] gi|322689237|ref|YP_004208971.1|; PP_007614e-11Showinfo_outline
28complement(837354..837539)hypothetical; PP_007620.0Showinfo_outline
29complement(837680..837862)hypothetical; PP_007630.0Showinfo_outline
30complement(837954..838322)PHAGE_Salico_CGphi29: hypothetical protein; PP_00764; phage(gi472340215)2e-11Showinfo_outline
31complement(838319..838963)oligoribonuclease Orn [Bifidobacterium bifidum PRL2010] gi|311064284|ref|YP_003971009.1|; PP_007651e-27Showinfo_outline
32complement(838960..839379)PHAGE_Mycoba_Wildcat: gp77; PP_00766; phage(gi109521514)3e-12Showinfo_outline
33complement(839355..840371)PHAGE_Entero_BA14: gp17; PP_00767; phage(gi194100295)6e-05Showinfo_outline
34840407..840628hypothetical; PP_007680.0Showinfo_outline
35complement(840714..841151)hypothetical; PP_007690.0Showinfo_outline
36complement(841165..841704)PHAGE_Microb_Min1: single-stranded DNA-binding protein; PP_00770; phage(gi149882804)9e-44Showinfo_outline
Bifidobacterium longum DJO10A Blon_1, whole genome shotgun
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 2375286 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