Submission Results

Sequence Name: Not Available

GenBank Accession Number: CP133391.1

Download Results: CP133391.1.PHASTEST.zip

gi|00000000|ref|NC_000000| Klebsiella pneumoniae strain KLB_MDR_391377 plasmid p377C1, 122824, gc%: 49.44%

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
164.1Kbintact1507026524-90687 info_outlinePHAGE_Salmon_SSU5_NC_018843(52)50.31%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|CP133391.1| Klebsiella pneumoniae strain KLB_MDR_391377 plasmid p377C1, 122824, gc%: 49.44%

Download details as .txt file:detail.txt file_download

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

intact

Region 1, total 66 CDS

#CDS PositionBLAST HitE-ValueSequence
126524..29512PP_00026;transposase;phage;PHAGE_Salmon_SJ46_NC_0311290.0Show info_outline
229516..30076PP_00027;resolvase;phage;PHAGE_Salmon_SJ46_NC_0311295.65e-83Show info_outline
330386..30805PP_00028;methyl-accepting chemotaxis protein;phage;PHAGE_Salmon_SJ46_NC_0311293.67e-103Show info_outline
430862..31821PP_00029;transposase;phage;PHAGE_Salmon_SJ46_NC_0311293.97e-80Show info_outline
531856..31984PP_00030;extended-spectrum beta-lactamase CTX-M-27;phage;PHAGE_Salmon_SJ46_NC_0311291.08e-13Show info_outline
632027..32383PP_00031;extended-spectrum beta-lactamase CTX-M-27;phage;PHAGE_Salmon_SJ46_NC_0311291.19e-26Show info_outline
733001..34261PP_00032;hypothetical protein;phage;PHAGE_Salmon_SJ46_NC_0311292.09e-40Show info_outline
834447..35493PP_00033;aerotaxis sensor receptor protein;phage;PHAGE_Salmon_SJ46_NC_0311294.49e-73Show info_outline
935804..36019PP_00034;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.26e-32Show info_outline
1036003..36167PP_00035;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.2e-19Show info_outline
1136179..37501PP_00036;putative DNA ligase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1237501..37968PP_00037;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.26e-67Show info_outline
1338048..38836PP_00038;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.18e-92Show info_outline
1440343..41467PP_00040;putative DNA primase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1541615..42955PP_00041;putative DNA helicase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1643020..43745PP_00042;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.67e-162Show info_outline
1743928..44338PP_00043;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188438.66e-28Show info_outline
1844331..44765PP_00044;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.28e-27Show info_outline
1945170..45526PP_00046;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188436.66e-63Show info_outline
2045532..46197PP_00047;putative ParA family protein;phage;PHAGE_Salmon_SSU5_NC_0188431.4e-131Show info_outline
2146437..46958PP_00048;DNA ligase;phage;PHAGE_Serrat_2050HW_NC_0486683.53e-10Show info_outline
2247161..47412PP_00049;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.95e-34Show info_outline
2347415..48107PP_00050;putative endolysin;phage;PHAGE_Salmon_SSU5_NC_0188437.93e-156Show info_outline
2448121..48444PP_00051;putative holin;phage;PHAGE_Salmon_SSU5_NC_0188435.91e-70Show info_outline
2548541..50040PP_00052;tail fibers protein;phage;PHAGE_Escher_ECA2_NC_0477662.02e-36Show info_outline
2650093..52717PP_00053;Gp21;phage;PHAGE_Klebsi_phiKO2_NC_0058571.32e-140Show info_outline
2752674..55838PP_00054;Gp21;phage;PHAGE_Klebsi_phiKO2_NC_0058570.0Show info_outline
2856124..56666PP_00056;Gp21;phage;PHAGE_Klebsi_phiKO2_NC_0058571.54e-17Show info_outline
2956632..59058PP_00057;Gp21;phage;PHAGE_Klebsi_phiKO2_NC_0058574.25e-111Show info_outline
3059137..62256PP_00058;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3162273..62884PP_00059;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188431.73e-112Show info_outline
3262872..63669PP_00060;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188434.69e-175Show info_outline
3363662..64360PP_00061;putative minor tail protein L;phage;PHAGE_Salmon_SSU5_NC_0188431.01e-157Show info_outline
3464447..64782PP_00062;putative minor tail protein M;phage;PHAGE_Salmon_SSU5_NC_0188433.76e-67Show info_outline
3564826..69365PP_00063;putative tail tape measure protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3669373..69597PP_00064;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.2e-42Show info_outline
3769723..70040PP_00065;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.75e-64Show info_outline
3870102..70848PP_00066;putative tail protein;phage;PHAGE_Rhizob_RHEph10_NC_0342482.06e-24Show info_outline
3970916..71308PP_00067;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188433.26e-63Show info_outline
4071310..71783PP_00068;putative head-to-tail joining protein;phage;PHAGE_Rhizob_RHEph10_NC_0342481.73e-08Show info_outline
4171774..72118PP_00069;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188435.99e-73Show info_outline
4272216..73049PP_00070;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.41e-176Show info_outline
4373049..73482PP_00071;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188436.86e-49Show info_outline
4473530..73958PP_00072;tail assembly protein;phage;PHAGE_Salmon_SE4_NC_0487643.42e-22Show info_outline
4574037..74915PP_00073;putative major capsid protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4674942..75841PP_00074;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4775864..77437PP_00075;portal protein;phage;PHAGE_Pseudo_nickie_NC_0420912.5e-67Show info_outline
4877470..78726PP_00076;putative terminase large subunit;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4978729..79370PP_00077;putative DNA-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188432.24e-109Show info_outline
5079546..79812PP_00078;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.29e-41Show info_outline
5179822..80712PP_00079;putative ABC transporter ATP-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5280718..80972PP_00080;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.68e-53Show info_outline
5380965..81602PP_00081;putative ABC transporter ATP-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188433.13e-35Show info_outline
5481599..82267PP_00082;putative ParB-like nuclease domain-containing protein;phage;PHAGE_Salmon_SSU5_NC_0188431.18e-144Show info_outline
5582267..82971PP_00083;putative ParB-like nuclease domain-containing protein;phage;PHAGE_Salmon_SSU5_NC_0188432.63e-145Show info_outline
5683031..84590PP_00084;putative helicase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5784593..84868PP_00085;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.01e-39Show info_outline
5884919..85356PP_00086;hypothetical protein;phage;PHAGE_Escher_HK639_NC_0161583.38e-21Show info_outline
5985512..86042PP_00087;putative repressor of phase 1 flagellin;phage;PHAGE_Salmon_SSU5_NC_0188432.76e-92Show info_outline
6086676..87326PP_00088;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188436.43e-145Show info_outline
6187377..87580PP_00089;putative MIT family metal ion transporter CorA;phage;PHAGE_Salmon_SSU5_NC_0188438.67e-39Show info_outline
6288175..88657PP_00090;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188439.48e-85Show info_outline
6389269..89676PP_00092;Gp62;phage;PHAGE_Klebsi_phiKO2_NC_0058574.05e-31Show info_outline
6489796..90095PP_00093;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.56e-44Show info_outline
6590244..90456PP_00094;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.63e-32Show info_outline
6690469..90687PP_00095;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188437.28e-37Show info_outline

gi|00000000|ref|CP133391.1| Klebsiella pneumoniae strain KLB_MDR_391377 plasmid p377C1, 122824, gc%: 49.44%

Download details as .txt file:detail.txt file_download

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

Bacterial, total 57 CDS

#CDS PositionBLAST HitE-ValueSequence
1201..1418PP_00001; RepB family plasmid replication initiator protein0.0Showinfo_outline
21870..2082PP_00002; hypothetical protein0.0Showinfo_outline
32082..2696PP_00003; hypothetical protein0.0Showinfo_outline
42780..2956PP_00004; hypothetical protein0.0Showinfo_outline
53127..4149PP_00005; hypothetical protein0.0Showinfo_outline
64115..4474PP_00006; hypothetical protein0.0Showinfo_outline
74474..5418PP_00007; 5'-3' exonuclease H3TH domain-containing protein0.0Showinfo_outline
85479..6486PP_00008; regulator0.0Showinfo_outline
96606..7037PP_00009; hypothetical protein0.0Showinfo_outline
107202..7501PP_00010; lipoprotein0.0Showinfo_outline
117638..7892PP_00011; hypothetical protein0.0Showinfo_outline
128133..8558PP_00012; hypothetical protein0.0Showinfo_outline
138573..12090PP_00013; AAA family ATPase0.0Showinfo_outline
1412271..13503PP_00014; AAA family ATPase0.0Showinfo_outline
1513600..15885PP_00015; porphyrin biosynthesis protein0.0Showinfo_outline
1616488..16868PP_00016; XRE family transcriptional regulator0.0Showinfo_outline
1716863..17966PP_00017; site-specific integrase0.0Showinfo_outline
1818053..19540PP_00018; group II intron reverse transcriptase/maturase0.0Showinfo_outline
1920226..20585PP_00019; colicin E1 family microcin immunity protein0.0Showinfo_outline
2020650..21060PP_00020; type II toxin-antitoxin system YafO family toxin0.0Showinfo_outline
2121070..21675PP_00021; hypothetical protein0.0Showinfo_outline
2221770..22015PP_00022; GrxA family glutaredoxin0.0Showinfo_outline
2322146..22919PP_00023; phosphate starvation-inducible protein PhoH0.0Showinfo_outline
2423160..24749PP_00024; hypothetical protein0.0Showinfo_outline
2525041..25115tRNA-Asn0.0Showinfo_outline
2626044..26460PP_00025; hypothetical protein0.0Showinfo_outline
2792564..92749PP_00096; DUF262 domain-containing protein0.0Showinfo_outline
2892733..94430PP_00097; DUF262 domain-containing protein0.0Showinfo_outline
2994634..96190PP_00098; type I restriction-modification system subunit M0.0Showinfo_outline
3096187..97383PP_00099; restriction endonuclease subunit S0.0Showinfo_outline
3197459..100575PP_00100; AAA family ATPase0.0Showinfo_outline
32100637..100852PP_00101; hypothetical protein0.0Showinfo_outline
33100981..101559PP_00102; hypothetical protein0.0Showinfo_outline
34101687..101842PP_00103; DUF3927 family protein0.0Showinfo_outline
35101842..102266PP_00104; AAA family ATPase0.0Showinfo_outline
36102567..103199PP_00105; hypothetical protein0.0Showinfo_outline
37103253..103921PP_00106; ribonuclease HI0.0Showinfo_outline
38104449..104682PP_00107; hypothetical protein0.0Showinfo_outline
39104885..105478PP_00108; phage N-6-adenine-methyltransferase;phage N-6-adenine-methyltransferase0.0Showinfo_outline
40105663..106496PP_00109; hypothetical protein0.0Showinfo_outline
41106622..107179PP_00110; 3'-5' exonuclease0.0Showinfo_outline
42107189..107608PP_00111; hypothetical protein0.0Showinfo_outline
43107672..108316PP_00112; AAA family ATPase0.0Showinfo_outline
44108316..108786PP_00113; dihydrofolate reductase0.0Showinfo_outline
45108789..109184PP_00114; hypothetical protein0.0Showinfo_outline
46109204..110307PP_00115; thymidylate synthase0.0Showinfo_outline
47110501..111376PP_00116; nucleoside triphosphate pyrophosphohydrolase family protein0.0Showinfo_outline
48111454..112596PP_00117; class Ia ribonucleoside-diphosphate reductase subunit beta0.0Showinfo_outline
49112727..115030PP_00118; class 1a ribonucleoside-diphosphate reductase subunit alpha0.0Showinfo_outline
50115106..115675PP_00119; hypothetical protein0.0Showinfo_outline
51115685..116395PP_00120; hypothetical protein0.0Showinfo_outline
52116421..118338PP_00121; AAA family ATPase0.0Showinfo_outline
53118335..118568PP_00122; hypothetical protein0.0Showinfo_outline
54118568..119653PP_00123; metallophosphoesterase0.0Showinfo_outline
55120306..120650PP_00124; hypothetical protein0.0Showinfo_outline
56120673..121866PP_00125; DUF4041 domain-containing protein0.0Showinfo_outline
57122180..122824PP_00126; 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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