Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1026687083

GenInfo (GI) Number: 0000000000

Download Results: 1026687083.PHASTER.zip

gi|00000000|ref|LXOM01000223.1| Salmonella enterica strain CU013109 PROKKA_contig000225, whole 262516, gc%: 51.83%

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
142.9Kbquestionable8853177147-220122 info_outlinePHAGE_Salmon_SEN8_NC_047753(29)51.45%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|LXOM01000223.1| Salmonella enterica strain CU013109 PROKKA_contig000225, whole 262516, gc%: 51.83%

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 55 CDS

#CDS PositionBLAST HitE-ValueSequence
1complement(177147..180803)PHAGE_Bacill_SPbeta_NC_001884: ABC transporter; A7K97_22280; phage(gi9630145)9.39e-25Showinfo_outline
2complement(180884..181999)glycosyl transferase; A7K97_222850.0Showinfo_outline
3complement(182625..183020)PROPHAGE_Salmon_Ty2: transposase; A7K97_22290; phage(gi29143766)1.08e-87Showinfo_outline
4183084..183350PROPHAGE_Salmon_LT2: transposase; A7K97_22295; phage(gi16766077)4.73e-58Showinfo_outline
5183497..184195PROPHAGE_Xantho_33913: ISxcC1 transposase; A7K97_22300; phage(gi21231060)2.05e-100Showinfo_outline
6complement(184251..184439)hypothetical protein; A7K97_223050.0Showinfo_outline
7complement(184991..185794)PHAGE_Mannhe_phiMHaA1_NC_008201: hypothetical bacteriophage protein; A7K97_22310; phage(gi109289966)1.00e-74Showinfo_outline
8complement(186193..186786)hypothetical protein; A7K97_223150.0Showinfo_outline
9186880..186928attL0.0Showinfo_outline
10complement(187046..188071)PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22320; phage(gi100036)0.0Showinfo_outline
11complement(188075..188707)PHAGE_Klebsi_ST437_OXA245phi4.1_NC_049448: primase; A7K97_22325; phage(gi100047)1.38e-95Showinfo_outline
12188824..189063PHAGE_Klebsi_ST15_OXA48phi14.1_NC_049454: hypothetical protein; A7K97_22330; phage(gi100003)2.59e-53Showinfo_outline
13189099..189609PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22335; phage(gi100039)1.94e-87Showinfo_outline
14189617..189850PHAGE_Klebsi_ST437_OXA245phi4.2_NC_049449: hypothetical protein; A7K97_22340; phage(gi100023)3.49e-17Showinfo_outline
15complement(189798..190256)hypothetical protein; A7K97_223450.0Showinfo_outline
16190476..190817PHAGE_Klebsi_ST13_OXA48phi12.1_NC_049453: HNH endonuclease; A7K97_22350; phage(gi100046)6.80e-68Showinfo_outline
17190885..191118PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22355; phage(gi100042)2.39e-27Showinfo_outline
18191118..191345PHAGE_Klebsi_ST437_OXA245phi4.1_NC_049448: DNA adenine methyltransferase; A7K97_22360; phage(gi100041)8.08e-49Showinfo_outline
19191342..192199PHAGE_Klebsi_4LV2017_NC_047818: hypothetical protein; A7K97_22365; phage(gi100007)0.0Showinfo_outline
20192196..194592PHAGE_Klebsi_4LV2017_NC_047818: hypothetical protein; A7K97_22370; phage(gi100008)0.0Showinfo_outline
21194748..194936PHAGE_Salmon_SEN8_NC_047753: primase; A7K97_22375; phage(gi100047)7.69e-38Showinfo_outline
22complement(195005..195304)hypothetical protein; A7K97_223800.0Showinfo_outline
23complement(195415..196221)hypothetical protein; A7K97_223850.0Showinfo_outline
24196495..196677PHAGE_Klebsi_ST13_OXA48phi12.1_NC_049453: hypothetical protein; A7K97_22390; phage(gi100038)5.07e-14Showinfo_outline
25196714..197868PHAGE_Klebsi_ST16_OXA48phi5.4_NC_049450: hypothetical protein; A7K97_22395; phage(gi100038)2.04e-27Showinfo_outline
26197873..198651hypothetical protein; A7K97_224000.0Showinfo_outline
27complement(198648..199679)PHAGE_Klebsi_ST437_OXA245phi4.2_NC_049449: hypothetical protein; A7K97_22405; phage(gi100013)0.0Showinfo_outline
28complement(199679..201445)PHAGE_Klebsi_ST437_OXA245phi4.2_NC_049449: hypothetical protein; A7K97_22410; phage(gi100012)0.0Showinfo_outline
29201588..202421PHAGE_Escher_500465_1_NC_049342: hypothetical protein; A7K97_22415; phage(gi100015)0.0Showinfo_outline
30202438..203496PHAGE_Klebsi_4LV2017_NC_047818: hypothetical protein; A7K97_22420; phage(gi100015)0.0Showinfo_outline
31203500..204150PHAGE_Klebsi_4LV2017_NC_047818: hypothetical protein; A7K97_22425; phage(gi100016)1.06e-154Showinfo_outline
32204246..204710PHAGE_Escher_500465_1_NC_049342: hypothetical protein; A7K97_22430; phage(gi100018)3.42e-111Showinfo_outline
33204710..204913PHAGE_Escher_500465_1_NC_049342: hypothetical protein; A7K97_22435; phage(gi100019)4.93e-44Showinfo_outline
34204917..205132PHAGE_Escher_500465_1_NC_049342: hypothetical protein; A7K97_22440; phage(gi100020)2.46e-45Showinfo_outline
35205113..205625PHAGE_Escher_500465_1_NC_049342: hypothetical protein; A7K97_22445; phage(gi100021)1.12e-121Showinfo_outline
36205627..206004PHAGE_Klebsi_4LV2017_NC_047818: hypothetical protein; A7K97_22450; phage(gi100021)1.47e-80Showinfo_outline
37206001..206429PHAGE_Klebsi_4LV2017_NC_047818: hypothetical protein; A7K97_22455; phage(gi100022)1.71e-79Showinfo_outline
38206525..206956PHAGE_Klebsi_4LV2017_NC_047818: hypothetical protein; A7K97_22460; phage(gi100023)5.03e-101Showinfo_outline
39206949..207395PHAGE_Klebsi_4LV2017_NC_047818: hypothetical protein; A7K97_22465; phage(gi100024)9.44e-96Showinfo_outline
40complement(207422..208288)PHAGE_Klebsi_ST437_OXA245phi4.1_NC_049448: hypothetical protein; A7K97_22470; phage(gi100018)1.57e-108Showinfo_outline
41208384..208962PHAGE_Escher_500465_1_NC_049342: hypothetical protein; A7K97_22475; phage(gi100027)3.59e-127Showinfo_outline
42208959..209318PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22480; phage(gi100019)5.03e-74Showinfo_outline
43209305..210213PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22485; phage(gi100020)0.0Showinfo_outline
44210206..210811PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22490; phage(gi100021)8.77e-143Showinfo_outline
45210808..212493PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22495; phage(gi100022)7.00e-148Showinfo_outline
46212496..213023PHAGE_Cronob_ESSI_2_NC_047854: hypothetical protein; A7K97_22500; phage(gi100006)3.85e-29Showinfo_outline
47213154..214326PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22505; phage(gi100028)0.0Showinfo_outline
48214336..214851PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22510; phage(gi100029)4.31e-120Showinfo_outline
49214906..215208PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22515; phage(gi100030)1.87e-63Showinfo_outline
50215223..215342PHAGE_Salmon_SEN8_NC_047753: hypothetical protein; A7K97_22520; phage(gi100031)3.64e-21Showinfo_outline
51215335..218142PHAGE_Salmon_SEN8_NC_047753: u-spanin; A7K97_22525; phage(gi100032)0.0Showinfo_outline
52218139..218624PHAGE_Salmon_SEN8_NC_047753: endolysin; A7K97_22530; phage(gi100033)3.01e-112Showinfo_outline
53218621..219721PHAGE_Salmon_SEN8_NC_047753: holin; A7K97_22535; phage(gi100034)0.0Showinfo_outline
54219790..220008PHAGE_Escher_500465_1_NC_049342: hypothetical protein; A7K97_22540; phage(gi100043)6.06e-36Showinfo_outline
55220122..220170attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 262516 bps
Phages: 1
arrow_upwardarrow_upwardarrow_upward
Click on a region in the genome above to show details here.
Viewer Options
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