Submission Results

Sequence Name: Not Available

GenBank Accession Number: 1026690756

GenInfo (GI) Number: 0000000000

Download Results: 1026690756.PHASTER.zip

gi|00000000|ref|LXOM01000030.1| Salmonella enterica strain CU013109 PROKKA_contig000031, whole 47160, gc%: 50.44%

Download summary as .txt file: summary.txt file_download

Total: 2 prophage regions have been identified, of which 1 regions are intact, 1 regions are incomplete, and 0 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
129.3Kbintact150333120-32451 info_outlinePHAGE_Phage_Gifsy_2_NC_010393(30)52.49%Show info_outline
222.5Kbincomplete301824624-47160 info_outlinePHAGE_Entero_mEp237_NC_019704(3)48.81%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|LXOM01000030.1| Salmonella enterica strain CU013109 PROKKA_contig000031, whole 47160, gc%: 50.44%

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
1complement(3120..3689)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage side tail fiber assembly protein; Lambda gpTfa analog; A7K97_03405; phage(gi169257321)3.29e-127Showinfo_outline
2complement(3689..6106)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage side tail fiber protein; Lambda gpStf (gpN) homolog; A7K97_03410; phage(gi169257320)0.0Showinfo_outline
3complement(6160..6402)PHAGE_Phage_Gifsy_2_NC_010393: hypothetical protein; A7K97_03415; phage(gi169257319)7.03e-53Showinfo_outline
4complement(6441..9793)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage tail fiber (host specificity) protein; Lambda gp J homolog; A7K97_03420; phage(gi169257317)0.0Showinfo_outline
5complement(9865..10569)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage tail tip assembly protein; Lambda gpI homolog; A7K97_03425; phage(gi169257316)1.35e-169Showinfo_outline
6complement(10473..11204)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage tail tip assembly protein; Lambda gpK homolog; A7K97_03430; phage(gi169257315)0.0Showinfo_outline
7complement(11214..11909)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage tail tip assembly protein; Lambda gpL homolog; A7K97_03435; phage(gi169257314)1.30e-172Showinfo_outline
811999..12532PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage virulence determinant; superoxide dismutase precursor; A7K97_03440; phage(gi169257313)8.32e-125Showinfo_outline
9complement(12649..13146)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage virulence determinant; Lom homolog; A7K97_03445; phage(gi169257312)3.30e-112Showinfo_outline
10complement(13245..13574)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage tail tip assembly protein; Lambda gpM homolog; A7K97_03450; phage(gi169257311)7.80e-77Showinfo_outline
11complement(13574..16627)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage tail tape measure protein; minor tail protein; Lambda gpH homolog; A7K97_03455; phage(gi169257310)0.0Showinfo_outline
12complement(16641..16904)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage tail assembly chapterone - part of G+G' frameshift hybrid protein; Lambda gpT homolog; A7K97_03460; phage(gi169257309)1.18e-55Showinfo_outline
13complement(16967..17365)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage tail assembly chaperone; Lambda gpG homolog; A7K97_03465; phage(gi169257308)9.07e-91Showinfo_outline
14complement(17411..18160)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage major tail protein; Lambda gpV homolog; A7K97_03470; phage(gi169257307)9.62e-179Showinfo_outline
15complement(18172..18573)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage tail shaft stabilization protein; Lambda gpU homolog; A7K97_03475; phage(gi169257306)1.24e-92Showinfo_outline
16complement(18570..19136)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage morphogenesis protein; Lambda gpZ homolog; A7K97_03480; phage(gi169257305)4.46e-134Showinfo_outline
17complement(19117..19416)PHAGE_Phage_Gifsy_2_NC_010393: conserved hypothetical bacteriophage protein; A7K97_03485; phage(gi169257304)4.66e-65Showinfo_outline
18complement(19409..19732)PHAGE_Phage_Gifsy_2_NC_010393: conserved hypothetical bacteriophage protein; A7K97_03490; phage(gi169257303)1.14e-69Showinfo_outline
19complement(19823..21865)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage Clp protease involved in capsid processing; A7K97_03495; phage(gi169257302)0.0Showinfo_outline
20complement(21828..23375)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage portal protein; A7K97_03500; phage(gi169257301)0.0Showinfo_outline
21complement(23372..23578)PHAGE_Phage_Gifsy_2_NC_010393: conserved hypothetical bacteriophage protein; A7K97_03505; phage(gi169257300)1.91e-41Showinfo_outline
22complement(23575..25629)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage DNA packaging protein; terminase, large subunit; A7K97_03510; phage(gi169257299)0.0Showinfo_outline
23complement(25670..26203)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage DNA packaging protein; terminase, small subunit; A7K97_03515; phage(gi169257298)2.65e-127Showinfo_outline
24complement(26411..26890)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage lysis protein; Lambda gpRz homolog; A7K97_03520; phage(gi169257297)8.64e-115Showinfo_outline
25complement(26908..27357)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage lysis protein; endolysin; lysozyme; A7K97_03525; phage(gi169257296)4.73e-106Showinfo_outline
26complement(27344..27679)PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage lysis protein; holin; A7K97_03530; phage(gi169257295)2.99e-75Showinfo_outline
2727949..28635PHAGE_Phage_Gifsy_2_NC_010393: bacteriophage virulence determinant; GtgA; A7K97_03535; phage(gi169257294)8.52e-169Showinfo_outline
2828996..29445PHAGE_Phage_Gifsy_2_NC_010393: hypothetical protein; A7K97_03540; phage(gi169257293)1.52e-105Showinfo_outline
29complement(29819..30343)hypothetical protein; A7K97_035450.0Showinfo_outline
30complement(30440..31129)PHAGE_Phage_Gifsy_1_NC_010392: bacteriophage antiterminator protein Q; A7K97_03550; phage(gi169257244)7.65e-112Showinfo_outline
31complement(31259..31486)PHAGE_Phage_Gifsy_2_NC_010393: NinG; A7K97_03555; phage(gi169257288)4.97e-12Showinfo_outline
32complement(31483..32082)PHAGE_Phage_Gifsy_2_NC_010393: hypothetical protein; A7K97_03560; phage(gi169257286)2.97e-70Showinfo_outline
33complement(32146..32451)PHAGE_Salmon_SPN3UB_NC_019545: hypothetical protein; A7K97_03565; phage(gi423262436)1.72e-10Showinfo_outline

Region 2, total 20 CDS

#CDS PositionBLAST HitE-ValueSequence
124624..24636attL0.0Showinfo_outline
235459..36589PHAGE_Bacill_SP_15_NC_031245: prohead protease; A7K97_03580; phage(gi100150)3.33e-22Showinfo_outline
336748..36900hypothetical protein; A7K97_035850.0Showinfo_outline
4complement(36876..37271)PHAGE_Shigel_Stx_NC_029120: LygF; A7K97_03590; phage(gi985761265)2.50e-24Showinfo_outline
5complement(37284..37745)PHAGE_Escher_TL_2011b_NC_019445: hypothetical protein; A7K97_03595; phage(gi418487647)6.60e-17Showinfo_outline
6complement(37738..38736)PHAGE_Escher_TL_2011b_NC_019445: hypothetical protein; A7K97_03600; phage(gi418487646)9.28e-38Showinfo_outline
7complement(38783..39277)hypothetical protein; A7K97_036050.0Showinfo_outline
8complement(39264..39518)PHAGE_Entero_mEpX1_NC_019709: prophage antirepressor; A7K97_03610; phage(gi428781916)1.84e-25Showinfo_outline
939617..40015PHAGE_Entero_mEpX1_NC_019709: prophage repressor; A7K97_03615; phage(gi428781915)3.60e-25Showinfo_outline
1040418..40684hypothetical protein; A7K97_036200.0Showinfo_outline
1141033..41308hypothetical protein; A7K97_036250.0Showinfo_outline
1241312..41518PHAGE_Cronob_phiES15_NC_018454: prophage Kil protein; A7K97_03630; phage(gi401817572)6.50e-16Showinfo_outline
1341594..41929hypothetical protein; A7K97_036350.0Showinfo_outline
1442070..44760PHAGE_Escher_TL_2011b_NC_019445: hypothetical protein; A7K97_03640; phage(gi418487642)2.29e-86Showinfo_outline
1544753..45583PHAGE_Salmon_epsilon15_NC_004775: RecT; A7K97_03645; phage(gi30387413)1.44e-103Showinfo_outline
1645630..45815hypothetical protein; A7K97_036500.0Showinfo_outline
1745914..46342hypothetical protein; A7K97_036550.0Showinfo_outline
1846303..46315attR0.0Showinfo_outline
1946403..46681excisionase; A7K97_036600.0Showinfo_outline
2046656..47160PHAGE_Entero_HK022_NC_002166: integrase; A7K97_03665; phage(gi9634144)6.91e-34Showinfo_outline
Click on a region to see details.
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)

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Length: 47160 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