Submission Results

Sequence Name: Not Available

GenBank Accession Number: UFYC01000001.1

GenInfo (GI) Number: 0000000000

Download Results: UFYC01000001.1.PHASTER.zip

gi|00000000|ref|UFYC01000001.1| Corynebacterium renale strain NCTC11142 genome assembly, contig: 2392216, gc%: 59.16%

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
112.8Kbincomplete20201105076-1117961 info_outlinePHAGE_Coryne_Poushou_NC_042139(3)55.56%Show info_outline
221.3Kbincomplete10281119577-1140888 info_outlinePHAGE_Gordon_Emalyn_NC_031234(4)56.41%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|UFYC01000001.1| Corynebacterium renale strain NCTC11142 genome assembly, contig: 2392216, gc%: 59.16%

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 20 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(1105076..1105576)PHAGE_Coryne_Poushou_NC_042139: hypothetical protein; NCTC11142_01047; phage(gi100007)1.32e-07Showinfo_outline
2complement(1105731..1105973)Uncharacterised protein; NCTC11142_010480.0Showinfo_outline
3complement(1105966..1106580)PHAGE_Coryne_Poushou_NC_042139: DNA topoisomerase II large subunit; NCTC11142_01049; phage(gi100005)1.72e-09Showinfo_outline
4complement(1106665..1107150)Uncharacterised protein; NCTC11142_010500.0Showinfo_outline
5complement(1107143..1107253)Uncharacterised protein; NCTC11142_010510.0Showinfo_outline
6complement(1107343..1107528)Uncharacterised protein; NCTC11142_010520.0Showinfo_outline
7complement(1107556..1107948)Uncharacterised protein; NCTC11142_010530.0Showinfo_outline
8complement(1108041..1108361)Uncharacterised protein; NCTC11142_010540.0Showinfo_outline
9complement(1108365..1109939)PHAGE_Gordon_Nyceirae_NC_031004: hypothetical protein; NCTC11142_01055; phage(gi100008)7.46e-31Showinfo_outline
10complement(1109961..1110398)PHAGE_Mycoba_JC27_NC_042320: hypothetical protein; NCTC11142_01056; phage(gi100014)1.39e-16Showinfo_outline
11complement(1110371..1110808)PHAGE_Mycoba_Goose_NC_042340: hypothetical protein; NCTC11142_01057; phage(gi100012)1.94e-12Showinfo_outline
12complement(1111437..1111739)Uncharacterised protein; NCTC11142_010580.0Showinfo_outline
13complement(1111715..1112191)PHAGE_Coryne_Poushou_NC_042139: hypothetical protein; NCTC11142_01059; phage(gi100027)2.92e-16Showinfo_outline
14complement(1112202..1112540)Uncharacterised protein; NCTC11142_010600.0Showinfo_outline
15complement(1112540..1113370)PHAGE_Gordon_Soups_NC_030698: hypothetical protein; NCTC11142_01061; phage(gi100009)4.04e-62Showinfo_outline
16complement(1113389..1113769)Uncharacterised protein; NCTC11142_010620.0Showinfo_outline
171114000..1114107Uncharacterised protein; NCTC11142_010630.0Showinfo_outline
181114187..1114309Uncharacterised protein; NCTC11142_010640.0Showinfo_outline
191114313..1114555PHAGE_Rhodoc_REQ2_NC_016652: hypothetical protein; NCTC11142_01065; phage(gi372449852)2.79e-20Showinfo_outline
20complement(1114560..1117961)PHAGE_Strept_20617_NC_023503: phage capsid and scaffold protein; NCTC11142_01066; phage(gi588295130)1.91e-45Showinfo_outline

Region 2, total 29 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(1119577..1125024)PHAGE_Lactob_iA2_NC_028830: tape-measure; NCTC11142_01069; phage(gi971747642)2.81e-88Showinfo_outline
2complement(1125040..1125531)PHAGE_Gordon_Cozz_NC_030941: hypothetical protein; NCTC11142_01070; phage(gi100014)1.64e-08Showinfo_outline
3complement(1125474..1125749)PHAGE_Gordon_Cozz_NC_030941: hypothetical protein; NCTC11142_01071; phage(gi100015)2.08e-15Showinfo_outline
4complement(1125838..1126428)PHAGE_Gordon_Emalyn_NC_031234: hypothetical protein; NCTC11142_01072; phage(gi100012)2.99e-31Showinfo_outline
5complement(1126479..1126850)PHAGE_Strept_VWB_NC_005345: ORF6; NCTC11142_01073; phage(gi41057258)1.46e-07Showinfo_outline
6complement(1126843..1127124)Uncharacterised protein; NCTC11142_010740.0Showinfo_outline
7complement(1127125..1127469)Uncharacterised protein; NCTC11142_010750.0Showinfo_outline
8complement(1127475..1127939)PHAGE_Mycoba_Sneeze_NC_031102: hypothetical protein; NCTC11142_01076; phage(gi100009)2.31e-25Showinfo_outline
9complement(1127959..1128909)PHAGE_Gordon_Emalyn_NC_031234: hypothetical protein; NCTC11142_01077; phage(gi100007)4.36e-119Showinfo_outline
10complement(1128941..1129447)PHAGE_Mycoba_Mozy_NC_042323: hypothetical protein; NCTC11142_01078; phage(gi100006)1.31e-07Showinfo_outline
11complement(1129612..1129875)Uncharacterised protein; NCTC11142_010790.0Showinfo_outline
12complement(1129886..1131142)PHAGE_Mycoba_Mozy_NC_042323: DNA topoisomerase II large subunit; NCTC11142_01080; phage(gi100005)1.06e-10Showinfo_outline
13complement(1131117..1132514)PHAGE_Gordon_Emalyn_NC_031234: DNA topoisomerase medium subunit; NCTC11142_01081; phage(gi100004)1.29e-90Showinfo_outline
14complement(1132514..1133968)PHAGE_Propio_PAC1_NC_028967: hypothetical protein; NCTC11142_01082; phage(gi971761604)1.70e-79Showinfo_outline
15complement(1133972..1134370)Uncharacterised protein; NCTC11142_010830.0Showinfo_outline
16complement(1134498..1134770)PHAGE_Strept_Samisti12_NC_042012: hypothetical protein; NCTC11142_01084; phage(gi100038)3.17e-09Showinfo_outline
17complement(1134789..1134862)tRNA0.0Showinfo_outline
18complement(1134954..1135154)PHAGE_Mycoba_Phrann_NC_031266: hypothetical protein; NCTC11142_01086; phage(gi100030)8.96e-06Showinfo_outline
19complement(1135167..1136072)PHAGE_Lister_vB_LmoS_188_NC_028871: hypothetical protein; NCTC11142_01087; phage(gi971750825)1.64e-09Showinfo_outline
20complement(1136074..1136715)Uncharacterised protein; NCTC11142_010880.0Showinfo_outline
21complement(1136708..1137079)PHAGE_Mycoba_Phrann_NC_031266: hypothetical protein; NCTC11142_01089; phage(gi100051)8.36e-44Showinfo_outline
22complement(1137054..1137221)Uncharacterised protein; NCTC11142_010900.0Showinfo_outline
23complement(1137238..1137510)Uncharacterised protein; NCTC11142_010910.0Showinfo_outline
24complement(1137510..1137776)Uncharacterised protein; NCTC11142_010920.0Showinfo_outline
25complement(1137787..1138263)PHAGE_Gordon_Gsput1_NC_030932: dsDNA binding protein; NCTC11142_01093; phage(gi100047)1.70e-18Showinfo_outline
26complement(1138251..1138733)Uncharacterised protein; NCTC11142_010940.0Showinfo_outline
27complement(1138730..1139515)PHAGE_Arthro_Abidatro_NC_042002: late promoter transcription; NCTC11142_01095; phage(gi100046)2.70e-45Showinfo_outline
28complement(1139841..1140185)PHAGE_Mycoba_Gardann_NC_031124: RNA ligase 1; NCTC11142_01096; phage(gi100066)1.25e-13Showinfo_outline
29complement(1140130..1140888)PHAGE_Mycoba_Eureka_NC_041850: hypothetical protein; NCTC11142_01097; phage(gi100067)3.08e-35Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 2392216 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