Submission Results

Sequence Name: Not Available

GenBank Accession Number: CP146193.1

Download Results: CP146193.1.PHASTEST.zip

gi|00000000|ref|NC_000000| Klebsiella pneumoniae strain kp1 plasmid unnamedC, complete 112792, gc%: 48.98%

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
189.3Kbintact150801550-90868 info_outlinePHAGE_Salmon_SSU5_NC_018843(64)48.85%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|CP146193.1| Klebsiella pneumoniae strain kp1 plasmid unnamedC, complete 112792, gc%: 48.98%

Download details as .txt file:detail.txt file_download

Phage-like protein
Hypothetical protein
Integrase
DNA Helicase
Holin
Fiber protein
Tail protein
Head protein
Portal protein
Terminase
Repressor

intact

Region 1, total 72 CDS

#CDS PositionBLAST HitE-ValueSequence
11550..1762PP_00001;putative Cre-associated protein;phage;PHAGE_Salmon_SSU5_NC_0188431.92e-36Show info_outline
21762..2097PP_00002;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188433.68e-46Show info_outline
32460..2636PP_00003;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.24e-16Show info_outline
42807..3883PP_00004;putative RecA-like recombinase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
53886..4152PP_00005;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188433.33e-49Show info_outline
64152..5096PP_00006;DNA polymerase I;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
75157..6164PP_00007;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
86284..6715PP_00008;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.02e-91Show info_outline
97191..7571PP_00010;hypothetical protein;phage;PHAGE_Entero_mEp460_NC_0197161.19e-58Show info_outline
107811..8236PP_00011;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.99e-82Show info_outline
118251..11769PP_00012;DNA polymerase III alpha subunit;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1211950..13182PP_00013;putative porphyrin biosynthetic protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1313279..15564PP_00014;putative porphyrin biosynthetic protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1416167..16547PP_00015;hypothetical protein;phage;PHAGE_Rhizob_RHEph10_NC_0342489.35e-10Show info_outline
1516542..17642PP_00016;bacteriophage integrase protein;phage;PHAGE_Phage_Gifsy_1_NC_0103922.67e-23Show info_outline
1618416..18826PP_00018;hypothetical protein;phage;PHAGE_Escher_HK639_NC_0161586.24e-17Show info_outline
1719536..19781PP_00020;putative glutaredoxin;phage;PHAGE_Pseudo_OBP_NC_0165716.31e-15Show info_outline
1819912..20685PP_00021;PhoH;phage;PHAGE_Erwini_PhiEaH1_NC_0236101.02e-118Show info_outline
1924375..24590PP_00024;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.26e-32Show info_outline
2024574..24738PP_00025;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.2e-19Show info_outline
2124750..26072PP_00026;putative DNA ligase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
2226072..26539PP_00027;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.26e-67Show info_outline
2326619..27407PP_00028;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.18e-92Show info_outline
2428914..30038PP_00030;putative DNA primase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
2530186..31526PP_00031;putative DNA helicase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
2631591..32316PP_00032;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.67e-162Show info_outline
2732499..32909PP_00033;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188438.66e-28Show info_outline
2832902..33336PP_00034;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.28e-27Show info_outline
2933744..34100PP_00036;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188436.66e-63Show info_outline
3034106..34771PP_00037;putative ParA family protein;phage;PHAGE_Salmon_SSU5_NC_0188431.4e-131Show info_outline
3135011..35532PP_00038;DNA ligase;phage;PHAGE_Serrat_2050HW_NC_0486683.53e-10Show info_outline
3235735..35986PP_00039;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.95e-34Show info_outline
3335989..36681PP_00040;putative endolysin;phage;PHAGE_Salmon_SSU5_NC_0188437.93e-156Show info_outline
3436695..37018PP_00041;putative holin;phage;PHAGE_Salmon_SSU5_NC_0188435.91e-70Show info_outline
3537115..38614PP_00042;tail fibers protein;phage;PHAGE_Escher_ECA2_NC_0477662.02e-36Show info_outline
3638667..50837PP_00043;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3750854..51465PP_00044;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188431.73e-112Show info_outline
3851453..52250PP_00045;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188434.69e-175Show info_outline
3952243..52941PP_00046;putative minor tail protein L;phage;PHAGE_Salmon_SSU5_NC_0188434.02e-158Show info_outline
4053028..53363PP_00047;putative minor tail protein M;phage;PHAGE_Salmon_SSU5_NC_0188433.76e-67Show info_outline
4153407..57945PP_00048;putative tail tape measure protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4257953..58177PP_00049;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.2e-42Show info_outline
4358303..58620PP_00050;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.75e-64Show info_outline
4458682..59428PP_00051;putative tail protein;phage;PHAGE_Rhizob_RHEph10_NC_0342482.06e-24Show info_outline
4559496..59888PP_00052;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188433.26e-63Show info_outline
4659890..60363PP_00053;putative head-to-tail joining protein;phage;PHAGE_Rhizob_RHEph10_NC_0342481.73e-08Show info_outline
4760354..60698PP_00054;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188435.99e-73Show info_outline
4860796..61629PP_00055;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.41e-176Show info_outline
4961629..62063PP_00056;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.83e-84Show info_outline
5062111..62539PP_00057;tail assembly protein;phage;PHAGE_Salmon_SE4_NC_0487643.42e-22Show info_outline
5162618..63496PP_00058;putative major capsid protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5263523..64422PP_00059;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5364445..66019PP_00060;putative phage portal protein;phage;PHAGE_Rhizob_RHEph10_NC_0342481.26e-166Show info_outline
5466052..67308PP_00061;putative terminase large subunit;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5567311..67952PP_00062;putative DNA-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188432.24e-109Show info_outline
5668128..68394PP_00063;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.29e-41Show info_outline
5768404..69294PP_00064;putative ABC transporter ATP-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5869300..69554PP_00065;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.68e-53Show info_outline
5969547..70185PP_00066;putative ABC transporter ATP-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188435.69e-151Show info_outline
6070182..70850PP_00067;putative ParB-like nuclease domain-containing protein;phage;PHAGE_Salmon_SSU5_NC_0188431.18e-144Show info_outline
6170850..71554PP_00068;putative ParB-like nuclease domain-containing protein;phage;PHAGE_Salmon_SSU5_NC_0188432.63e-145Show info_outline
6271614..73173PP_00069;putative helicase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
6373176..73451PP_00070;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.01e-39Show info_outline
6473502..73939PP_00071;hypothetical protein;phage;PHAGE_Escher_HK639_NC_0161583.38e-21Show info_outline
6574095..74625PP_00072;putative repressor of phase 1 flagellin;phage;PHAGE_Salmon_SSU5_NC_0188432.76e-92Show info_outline
6675259..75909PP_00073;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188436.43e-145Show info_outline
6775960..76163PP_00074;putative MIT family metal ion transporter CorA;phage;PHAGE_Salmon_SSU5_NC_0188438.67e-39Show info_outline
6876758..77240PP_00075;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188439.48e-85Show info_outline
6977852..78259PP_00077;Gp62;phage;PHAGE_Klebsi_phiKO2_NC_0058574.05e-31Show info_outline
7078379..78678PP_00078;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.56e-44Show info_outline
7178827..79039PP_00079;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.63e-32Show info_outline
7279052..79270PP_00080;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188437.28e-37Show info_outline

gi|00000000|ref|CP146193.1| Klebsiella pneumoniae strain kp1 plasmid unnamedC, complete 112792, gc%: 48.98%

Download details as .txt file:detail.txt file_download

Hypothetical protein
Non phage-like protein
phage N-6-adenine-methyltransferase

Bacterial, total 24 CDS

#CDS PositionBLAST HitE-ValueSequence
190628..91206PP_00088; hypothetical protein0.0Showinfo_outline
291334..91489PP_00089; DUF3927 family protein0.0Showinfo_outline
391489..91914PP_00090; tellurite/colicin resistance protein0.0Showinfo_outline
492215..92847PP_00091; hypothetical protein0.0Showinfo_outline
592901..93569PP_00092; ribonuclease HI0.0Showinfo_outline
694099..94332PP_00093; hypothetical protein0.0Showinfo_outline
794535..95128PP_00094; phage N-6-adenine-methyltransferase;phage N-6-adenine-methyltransferase0.0Showinfo_outline
895313..96146PP_00095; hypothetical protein0.0Showinfo_outline
996272..96829PP_00096; 3'-5' exonuclease0.0Showinfo_outline
1096839..97258PP_00097; hypothetical protein0.0Showinfo_outline
1197322..97966PP_00098; AAA family ATPase0.0Showinfo_outline
1297966..98436PP_00099; dihydrofolate reductase0.0Showinfo_outline
1398439..98834PP_00100; hypothetical protein0.0Showinfo_outline
1498854..99957PP_00101; thymidylate synthase0.0Showinfo_outline
15100151..101026PP_00102; nucleoside triphosphate pyrophosphohydrolase family protein0.0Showinfo_outline
16101104..102246PP_00103; class Ia ribonucleoside-diphosphate reductase subunit beta0.0Showinfo_outline
17102377..104680PP_00104; class 1a ribonucleoside-diphosphate reductase subunit alpha0.0Showinfo_outline
18104756..105325PP_00105; hypothetical protein0.0Showinfo_outline
19105335..106045PP_00106; hypothetical protein0.0Showinfo_outline
20106071..107987PP_00107; AAA family ATPase0.0Showinfo_outline
21107984..108217PP_00108; hypothetical protein0.0Showinfo_outline
22108217..109302PP_00109; metallophosphoesterase0.0Showinfo_outline
23109955..111514PP_00110; DUF4041 domain-containing protein0.0Showinfo_outline
24111828..112472PP_00111; hypothetical protein0.0Showinfo_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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