Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1026690135

GenInfo (GI) Number: 0000000000

Download Results: 1026690135.PHASTER.zip

gi|00000000|ref|LXOM01000035.1| Salmonella enterica strain CU013109 PROKKA_contig000036, whole 377186, gc%: 50.27%

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
163Kbintact15054313898-376941 info_outlinePHAGE_Salmon_118970_sal3_NC_031940(63)47.93%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|LXOM01000035.1| Salmonella enterica strain CU013109 PROKKA_contig000036, whole 377186, gc%: 50.27%

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 60 CDS

#CDS PositionBLAST HitE-ValueSequence
1313898..313909attL0.0Showinfo_outline
2324704..324718attL0.0Showinfo_outline
3325419..326426PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06610; phage(gi23505470)0.0Showinfo_outline
4complement(326711..327280)PHAGE_Salmon_ST64B_NC_004313: Probable tail fiber assembly protein; A7K97_06615; phage(gi23505469)2.01e-138Showinfo_outline
5complement(327280..328842)PHAGE_Salmon_ST64B_NC_004313: tail protein; A7K97_06620; phage(gi23505468)0.0Showinfo_outline
6complement(328829..329416)PHAGE_Salmon_ST64B_NC_004313: putative tail protein; A7K97_06625; phage(gi23505467)1.06e-144Showinfo_outline
7complement(329419..330498)PHAGE_Salmon_118970_sal3_NC_031940: putative SSB protein; A7K97_06630; phage(gi100096)0.0Showinfo_outline
8complement(330491..330904)PHAGE_Salmon_ST64B_NC_004313: putative tail protein; A7K97_06635; phage(gi23505464)5.35e-96Showinfo_outline
9complement(330909..331442)PHAGE_Salmon_ST64B_NC_004313: putative base plate assembly protein; A7K97_06640; phage(gi23505463)3.30e-129Showinfo_outline
10complement(331435..332499)PHAGE_Salmon_ST64B_NC_004313: Tail protein; A7K97_06645; phage(gi23505462)0.0Showinfo_outline
11complement(332496..333836)PHAGE_Salmon_ST64B_NC_004313: tail/DNA circulation protein; A7K97_06650; phage(gi23505461)0.0Showinfo_outline
12complement(333870..335798)PHAGE_Salmon_ST64B_NC_004313: tail protein; A7K97_06655; phage(gi23505460)0.0Showinfo_outline
13complement(335883..336209)PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06660; phage(gi23505501)2.83e-73Showinfo_outline
14complement(336206..336562)PHAGE_Salmon_ST64B_NC_004313: Tail tube protein; A7K97_06665; phage(gi23505459)3.20e-83Showinfo_outline
15complement(336562..338058)PHAGE_Salmon_ST64B_NC_004313: Tail Sheath protein; A7K97_06670; phage(gi23505458)0.0Showinfo_outline
16complement(338216..338776)PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06675; phage(gi23505456)8.27e-136Showinfo_outline
17complement(338773..339285)PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06680; phage(gi23505455)6.51e-121Showinfo_outline
18complement(339257..339661)PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06685; phage(gi23505454)7.19e-95Showinfo_outline
19complement(339658..339981)PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06690; phage(gi23505453)4.05e-73Showinfo_outline
20complement(339984..340184)PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06695; phage(gi23505452)1.38e-41Showinfo_outline
21complement(340235..341440)PHAGE_Salmon_ST64B_NC_004313: Major capsid protein precursor; A7K97_06700; phage(gi23505451)0.0Showinfo_outline
22complement(341455..342105)PHAGE_Salmon_ST64B_NC_004313: Pro-head protease; A7K97_06705; phage(gi23505450)5.45e-153Showinfo_outline
23complement(342083..343323)PHAGE_Salmon_ST64B_NC_004313: Portal Protein; A7K97_06710; phage(gi23505449)0.0Showinfo_outline
24complement(343323..343505)PHAGE_Salmon_ST64B_NC_004313: putative integral membrane protein; A7K97_06715; phage(gi23505448)6.74e-35Showinfo_outline
25complement(343517..345250)PHAGE_Salmon_ST64B_NC_004313: Terminase large subunit; A7K97_06720; phage(gi23505447)0.0Showinfo_outline
26complement(345247..345741)PHAGE_Salmon_ST64B_NC_004313: terminase small subunit; A7K97_06725; phage(gi23505446)1.84e-117Showinfo_outline
27complement(345868..346218)PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06730; phage(gi23505500)9.63e-78Showinfo_outline
28complement(347306..347698)PHAGE_Entero_SfV_NC_003444: putative Rz lytic protein; A7K97_06735; phage(gi19549038)1.45e-83Showinfo_outline
29complement(347682..348158)PHAGE_Entero_SfV_NC_003444: lysin; A7K97_06740; phage(gi19549037)7.14e-111Showinfo_outline
30complement(348162..348515)PHAGE_Salmon_ST64B_NC_004313: lysis protein (holin); A7K97_06745; phage(gi23505495)5.34e-28Showinfo_outline
31348971..349198hypothetical protein; A7K97_067500.0Showinfo_outline
32complement(349178..349930)PHAGE_Salmon_118970_sal3_NC_031940: capsid decoration protein; A7K97_06755; phage(gi100066)1.20e-174Showinfo_outline
33complement(349944..350933)PHAGE_Salmon_118970_sal3_NC_031940: recombination endonuclease subunit D12; A7K97_06760; phage(gi100127)0.0Showinfo_outline
34complement(350941..351801)PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06765; phage(gi23505490)0.0Showinfo_outline
35complement(351818..352207)PHAGE_Salmon_ST64B_NC_004313: holiday-junction resolvase; A7K97_06770; phage(gi23505489)3.10e-84Showinfo_outline
36complement(352216..353097)PHAGE_Salmon_118970_sal3_NC_031940: hypothetical protein; A7K97_06775; phage(gi100061)0.0Showinfo_outline
37complement(353094..353567)PHAGE_Salmon_ST64B_NC_004313: putative transcriptional activator; A7K97_06780; phage(gi23505487)7.90e-39Showinfo_outline
38complement(353564..354538)PHAGE_Salmon_118970_sal3_NC_031940: hypothetical protein; A7K97_06785; phage(gi100059)0.0Showinfo_outline
39complement(354535..354759)PHAGE_Salmon_118970_sal3_NC_031940: DNA polymerase III alpha subunit; A7K97_06790; phage(gi100121)2.03e-50Showinfo_outline
40complement(354756..355898)PHAGE_Salmon_ST64B_NC_004313: putative antirepressor; A7K97_06795; phage(gi23505485)0.0Showinfo_outline
41complement(355895..356449)PHAGE_Salmon_118970_sal3_NC_031940: hypothetical protein; A7K97_06800; phage(gi100118)1.68e-133Showinfo_outline
42complement(356478..356702)PHAGE_Salmon_ST64B_NC_004313: DNA binding protein; A7K97_06805; phage(gi23505483)7.23e-49Showinfo_outline
43356800..357495PHAGE_Salmon_ST64B_NC_004313: regulatory protein; A7K97_06810; phage(gi23505482)1.30e-168Showinfo_outline
44complement(357834..358118)hypothetical protein; A7K97_068150.0Showinfo_outline
45complement(358259..358504)hypothetical protein; A7K97_068200.0Showinfo_outline
46359041..359412PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06825; phage(gi23505481)9.73e-86Showinfo_outline
47359470..360297PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06830; phage(gi23505480)0.0Showinfo_outline
48360434..360973PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06835; phage(gi23505479)3.55e-129Showinfo_outline
49361044..361781PHAGE_Salmon_SEN22_NC_028696: hypothetical protein; A7K97_06840; phage(gi966201341)2.67e-104Showinfo_outline
50361781..362254PHAGE_Gordon_Nymphadora_NC_031061: capsid maturation protease; A7K97_06845; phage(gi100067)2.15e-66Showinfo_outline
51362258..363007PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06850; phage(gi23505475)1.61e-21Showinfo_outline
52363004..363573PHAGE_Salmon_ST64B_NC_004313: Endodeoxyribonuclease; A7K97_06855; phage(gi23505474)3.92e-131Showinfo_outline
53363613..363840PHAGE_Salmon_ST64B_NC_004313: hypothetical protein; A7K97_06860; phage(gi23505473)5.18e-50Showinfo_outline
54363842..364831PHAGE_Salmon_ST64B_NC_004313: Integrase protein; A7K97_06865; phage(gi23505472)0.0Showinfo_outline
55complement(364945..365034)tRNA0.0Showinfo_outline
56364992..365006attR0.0Showinfo_outline
57365123..365920protein MtfA; A7K97_068750.0Showinfo_outline
58366021..366096tRNA0.0Showinfo_outline
59366276..367550PROPHAGE_Shigel_301: putative P4-type integrase; A7K97_06885; phage(gi24114228)2.80e-178Showinfo_outline
60376941..376952attR0.0Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

Viewer Options
Length: 377186 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