Submission Results

Sequence Name: Not Available

GenBank Accession Number: NZ_JAQODC010000024.1

Download Results: NZ_JAQODC010000024.1.PHASTEST.zip

gi|00000000|ref|NC_000000| Enterobacter cloacae strain 2202985 L_24_consensus, whole genome 46349, gc%: 50.70%

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
127.7Kbquestionable8033836-28579 info_outlinePHAGE_Escher_500465_1_NC_049342(18)49.46%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|NZ_JAQODC010000024.1| Enterobacter cloacae strain 2202985 L_24_consensus, whole genome 46349, gc%: 50.70%

Download details as .txt file:detail.txt file_download

Integrase
Phage-like protein
Regulatory protein
Hypothetical protein
Replication protein
Portal protein
Terminase
Tail protein
Membrane protein

questionable

Region 1, total 31 CDS

#CDS PositionBLAST HitE-ValueSequence
1836..2542PP_00002;putative integrase;phage;PROPHAGE_Escher_Sakai1.64e-22Show info_outline
23892..4905PP_00004;site-specific integrase;phage;PHAGE_Klebsi_ST437_OXA245phi4.1_NC_0494480.0Show info_outline
34908..5540PP_00005;P2 CI-like protein;phage;PHAGE_Salmon_Fels_2_NC_0104631.08e-133Show info_outline
45657..5899PP_00006;Rha family transcriptional regulator;phage;PHAGE_Klebsi_ST15_OXA48phi14.1_NC_0494541.01e-52Show info_outline
55932..6441PP_00007;regulatory CII family protein;phage;PHAGE_Salmon_SEN8_NC_0477534.88e-109Show info_outline
66449..6649PP_00008;DUF2724 domain-containing protein;phage;PHAGE_Salmon_SEN8_NC_0477531.18e-31Show info_outline
76613..6954PP_00009;hypothetical protein;phage;PHAGE_Klebsi_ST13_OXA48phi12.1_NC_0494536.13e-70Show info_outline
87043..7249PP_00010;hypothetical protein;phage;PHAGE_Salmon_SEN1_NC_0290031.3e-24Show info_outline
97249..7476PP_00011;TraR/DksA family transcriptional regulator;phage;PHAGE_Klebsi_ST437_OXA245phi4.1_NC_0494489.5e-47Show info_outline
107473..8324PP_00012;DNA adenine methylase;phage;PHAGE_Klebsi_ST437_OXA245phi4.1_NC_0494485.57e-146Show info_outline
118321..9151PP_00013;hypothetical protein;phage;PHAGE_Salmon_SW9_NC_0494594.0e-163Show info_outline
129148..11502PP_00014;replication protein;phage;PHAGE_Salmon_SEN8_NC_0477530.0Show info_outline
1311660..11848PP_00015;hypothetical protein;phage;PHAGE_Salmon_SEN8_NC_0477532.86e-35Show info_outline
1411858..12091PP_00016;DNA damage inducible protein;phage;PHAGE_Klebsi_ST15_OXA48phi14.1_NC_0494543.46e-45Show info_outline
1513442..14875PP_00018;SEFIR domain protein;phage;PHAGE_Klebsi_ST15_OXA48phi14.1_NC_0494540.0Show info_outline
1614910..15962PP_00019;portal protein;phage;PHAGE_Klebsi_ST13_OXA48phi12.1_NC_0494530.0Show info_outline
1715962..16858PP_00020;terminase, oxidoreductase;phage;PHAGE_Klebsi_ST13_OXA48phi12.1_NC_0494530.0Show info_outline
1816897..17184PP_00021;tail tape measure protein;phage;PHAGE_Salmon_SEN8_NC_0477535.87e-33Show info_outline
1917184..17669PP_00022;tail protein;phage;PHAGE_Salmon_RE_2010_NC_0194881.82e-108Show info_outline
2017666..18757PP_00023;tail protein;phage;PHAGE_Salmon_Fels_2_NC_0104630.0Show info_outline
2118835..19053PP_00024;P2 gpOgr-like protein (acttivation of late gene expression);phage;PHAGE_Salmon_Fels_2_NC_0104631.31e-45Show info_outline
2219621..20103PP_00025;SsrA-binding protein;phage;PHAGE_Klebsi_ST437_OXA245phi4.1_NC_0494486.69e-109Show info_outline
2320260..20697PP_00026;type II toxin-antitoxin system toxin RatA;phage;PHAGE_Escher_500465_1_NC_0493426.48e-95Show info_outline
2420687..20974PP_00027;RnfH family protein;phage;PHAGE_Escher_500465_1_NC_0493421.08e-49Show info_outline
2521084..21422PP_00028;outer membrane protein assembly factor BamE;phage;PHAGE_Escher_500465_1_NC_0493426.74e-74Show info_outline
2621561..23222PP_00029;DNA repair protein RecN;phage;PHAGE_Escher_500465_1_NC_0493420.0Show info_outline
2723308..24186PP_00030;DNA repair protein RecN;phage;PHAGE_Escher_500465_1_NC_0493420.0Show info_outline
2824309..24902PP_00031;heat shock protein;phage;PHAGE_Escher_500465_1_NC_0493427.85e-51Show info_outline
2924955..26241PP_00032;HlyC/CorC family transporter;phage;PHAGE_Escher_500465_1_NC_0493420.0Show info_outline
3026260..27051PP_00033;inner membrane protein YpjD;phage;PHAGE_Escher_500465_1_NC_0493423.37e-161Show info_outline
3127218..28579PP_00034;signal recognition particle protein;phage;PHAGE_Escher_500465_1_NC_0493420.0Show info_outline

gi|00000000|ref|NZ_JAQODC010000024.1| Enterobacter cloacae strain 2202985 L_24_consensus, whole genome 46349, gc%: 50.70%

Download details as .txt file:detail.txt file_download

Hypothetical protein
Non phage-like protein

Bacterial, total 21 CDS

#CDS PositionBLAST HitE-ValueSequence
175..839PP_00001; hypothetical protein0.0Showinfo_outline
228696..28944PP_00035; 30S ribosomal protein S160.0Showinfo_outline
328960..29499PP_00036; ribosome maturation factor RimM0.0Showinfo_outline
429531..30298PP_00037; tRNA (guanosine(37)-N1)-methyltransferase TrmD0.0Showinfo_outline
530342..30689PP_00038; 50S ribosomal protein L190.0Showinfo_outline
630822..31226PP_00039; DUF2946 domain-containing protein0.0Showinfo_outline
731264..32634PP_00040; PepSY domain-containing protein0.0Showinfo_outline
832637..33122PP_00041; OmpA family protein0.0Showinfo_outline
933135..34355PP_00042; diguanylate cyclase DgcN0.0Showinfo_outline
1034348..34836PP_00043; YfiR family protein0.0Showinfo_outline
1135038..35412PP_00044; DUF2799 domain-containing protein0.0Showinfo_outline
1235627..36697PP_00045; 3-deoxy-7-phosphoheptulonate synthase AroF0.0Showinfo_outline
1336708..37829PP_00046; bifunctional chorismate mutase/prephenate dehydrogenase0.0Showinfo_outline
1437890..38762PP_00047; SMP-30/gluconolactonase/LRE family protein0.0Showinfo_outline
1538759..39919PP_00048; bifunctional chorismate mutase/prephenate dehydratase0.0Showinfo_outline
1640027..40074PP_00049; pheA operon leader peptide PheL0.0Showinfo_outline
1740179..40520PP_00050; ribosome-associated translation inhibitor RaiA0.0Showinfo_outline
1840789..41526PP_00051; outer membrane protein assembly factor BamD0.0Showinfo_outline
1941658..42638PP_00052; 23S rRNA pseudouridine(1911/1915/1917) synthase RluD0.0Showinfo_outline
2042635..43366PP_00053; purine nucleoside phosphorylase YfiH0.0Showinfo_outline
2143496..46069PP_00054; ATP-dependent chaperone ClpB0.0Showinfo_outline

Phage Genes

Bacterial Genes

Phage Regions

GC Skew

GC Content

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Phage Genes

Bacterial Genes

Phage Regions

GC Skew

GC Content

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Click on a region or gene to view details

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