Submission Results

Sequence Name: Not Available

GenBank Accession Number: CP166074.1

Download Results: CP166074.1.PHASTEST.zip

gi|00000000|ref|NC_000000| Klebsiella pneumoniae strain SIDKP002 plasmid pKPHS1, complete 122802, gc%: 49.47%

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
164.1Kbintact1506826524-90665 info_outlinePHAGE_Salmon_SSU5_NC_018843(52)50.37%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|CP166074.1| Klebsiella pneumoniae strain SIDKP002 plasmid pKPHS1, complete 122802, gc%: 49.47%

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 65 CDS

#CDS PositionBLAST HitE-ValueSequence
126524..29490PP_00026;transposase;phage;PHAGE_Salmon_SJ46_NC_0311290.0Show info_outline
229494..30054PP_00027;resolvase;phage;PHAGE_Salmon_SJ46_NC_0311295.65e-83Show info_outline
330364..30783PP_00028;methyl-accepting chemotaxis protein;phage;PHAGE_Salmon_SJ46_NC_0311293.67e-103Show info_outline
430840..31808PP_00029;transposase;phage;PHAGE_Salmon_SJ46_NC_0311290.0Show info_outline
531810..32718PP_00030;extended-spectrum beta-lactamase CTX-M-27;phage;PHAGE_Salmon_SJ46_NC_0311290.0Show info_outline
632968..34230PP_00031;hypothetical protein;phage;PHAGE_Salmon_SJ46_NC_0311295.13e-53Show info_outline
734416..35462PP_00032;aerotaxis sensor receptor protein;phage;PHAGE_Salmon_SJ46_NC_0311294.49e-73Show info_outline
835773..35988PP_00033;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.26e-32Show info_outline
935972..36136PP_00034;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.2e-19Show info_outline
1036148..37470PP_00035;putative DNA ligase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1137470..37937PP_00036;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.26e-67Show info_outline
1238017..38805PP_00037;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.18e-92Show info_outline
1340312..41436PP_00039;putative DNA primase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1441584..42924PP_00040;putative DNA helicase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1542989..43714PP_00041;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.67e-162Show info_outline
1643897..44307PP_00042;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188438.66e-28Show info_outline
1744300..44734PP_00043;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.28e-27Show info_outline
1845139..45495PP_00045;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188436.66e-63Show info_outline
1945501..46166PP_00046;putative ParA family protein;phage;PHAGE_Salmon_SSU5_NC_0188431.4e-131Show info_outline
2046406..46927PP_00047;DNA ligase;phage;PHAGE_Serrat_2050HW_NC_0486683.53e-10Show info_outline
2147130..47381PP_00048;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.95e-34Show info_outline
2247384..48076PP_00049;putative endolysin;phage;PHAGE_Salmon_SSU5_NC_0188437.93e-156Show info_outline
2348090..48413PP_00050;putative holin;phage;PHAGE_Salmon_SSU5_NC_0188435.91e-70Show info_outline
2448510..50009PP_00051;tail fibers protein;phage;PHAGE_Escher_ECA2_NC_0477662.02e-36Show info_outline
2550062..52521PP_00052;Gp21;phage;PHAGE_Klebsi_phiKO2_NC_0058574.57e-139Show info_outline
2652572..55166PP_00053;Gp21;phage;PHAGE_Klebsi_phiKO2_NC_0058570.0Show info_outline
2755394..56644PP_00054;Gp21;phage;PHAGE_Klebsi_phiKO2_NC_0058574.94e-25Show info_outline
2856610..59036PP_00055;Gp21;phage;PHAGE_Klebsi_phiKO2_NC_0058574.25e-111Show info_outline
2959115..62234PP_00056;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3062251..62862PP_00057;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188431.73e-112Show info_outline
3162850..63647PP_00058;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188434.69e-175Show info_outline
3263640..64338PP_00059;putative minor tail protein L;phage;PHAGE_Salmon_SSU5_NC_0188431.01e-157Show info_outline
3364425..64760PP_00060;putative minor tail protein M;phage;PHAGE_Salmon_SSU5_NC_0188433.76e-67Show info_outline
3464804..69343PP_00061;putative tail tape measure protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3569351..69575PP_00062;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.2e-42Show info_outline
3669701..70018PP_00063;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.75e-64Show info_outline
3770080..70826PP_00064;putative tail protein;phage;PHAGE_Rhizob_RHEph10_NC_0342482.06e-24Show info_outline
3870894..71286PP_00065;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188433.26e-63Show info_outline
3971288..71761PP_00066;putative head-to-tail joining protein;phage;PHAGE_Rhizob_RHEph10_NC_0342481.73e-08Show info_outline
4071752..72096PP_00067;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188435.99e-73Show info_outline
4172194..73027PP_00068;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.41e-176Show info_outline
4273027..73460PP_00069;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188436.86e-49Show info_outline
4373508..73936PP_00070;tail assembly protein;phage;PHAGE_Salmon_SE4_NC_0487643.42e-22Show info_outline
4474015..74893PP_00071;putative major capsid protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4574920..75819PP_00072;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4675842..77415PP_00073;portal protein;phage;PHAGE_Pseudo_nickie_NC_0420912.5e-67Show info_outline
4777448..78704PP_00074;putative terminase large subunit;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4878707..79348PP_00075;putative DNA-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188432.24e-109Show info_outline
4979524..79790PP_00076;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.29e-41Show info_outline
5079800..80690PP_00077;putative ABC transporter ATP-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5180696..80950PP_00078;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.68e-53Show info_outline
5280943..81580PP_00079;putative ABC transporter ATP-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188433.13e-35Show info_outline
5381577..82245PP_00080;putative ParB-like nuclease domain-containing protein;phage;PHAGE_Salmon_SSU5_NC_0188431.18e-144Show info_outline
5482245..82949PP_00081;putative ParB-like nuclease domain-containing protein;phage;PHAGE_Salmon_SSU5_NC_0188432.63e-145Show info_outline
5583009..84568PP_00082;putative helicase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5684571..84846PP_00083;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.01e-39Show info_outline
5784897..85334PP_00084;hypothetical protein;phage;PHAGE_Escher_HK639_NC_0161583.38e-21Show info_outline
5885490..86020PP_00085;putative repressor of phase 1 flagellin;phage;PHAGE_Salmon_SSU5_NC_0188432.76e-92Show info_outline
5986654..87304PP_00086;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188436.43e-145Show info_outline
6087355..87558PP_00087;putative MIT family metal ion transporter CorA;phage;PHAGE_Salmon_SSU5_NC_0188438.67e-39Show info_outline
6188153..88635PP_00088;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188439.48e-85Show info_outline
6289247..89654PP_00090;Gp62;phage;PHAGE_Klebsi_phiKO2_NC_0058574.05e-31Show info_outline
6389774..90073PP_00091;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.56e-44Show info_outline
6490222..90434PP_00092;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.63e-32Show info_outline
6590447..90665PP_00093;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188437.28e-37Show info_outline

gi|00000000|ref|CP166074.1| Klebsiella pneumoniae strain SIDKP002 plasmid pKPHS1, complete 122802, gc%: 49.47%

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..2417PP_00003; hypothetical protein0.0Showinfo_outline
42780..2956PP_00004; hypothetical protein0.0Showinfo_outline
53127..4149PP_00005; recombinase RecA0.0Showinfo_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; tyrosine-type recombinase/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
2792542..92727PP_00094; DUF262 domain-containing protein0.0Showinfo_outline
2892711..94408PP_00095; DUF262 domain-containing protein0.0Showinfo_outline
2994612..96168PP_00096; type I restriction-modification system subunit M0.0Showinfo_outline
3096165..97361PP_00097; restriction endonuclease subunit S0.0Showinfo_outline
3197437..100553PP_00098; AAA family ATPase0.0Showinfo_outline
32100615..100830PP_00099; hypothetical protein0.0Showinfo_outline
33100959..101537PP_00100; hypothetical protein0.0Showinfo_outline
34101665..101820PP_00101; DUF3927 family protein0.0Showinfo_outline
35101820..102244PP_00102; AAA family ATPase0.0Showinfo_outline
36102545..103177PP_00103; hypothetical protein0.0Showinfo_outline
37103231..103899PP_00104; ribonuclease HI0.0Showinfo_outline
38104427..104660PP_00105; hypothetical protein0.0Showinfo_outline
39104863..105456PP_00106; phage N-6-adenine-methyltransferase;phage N-6-adenine-methyltransferase0.0Showinfo_outline
40105641..106474PP_00107; hypothetical protein0.0Showinfo_outline
41106600..107157PP_00108; exonuclease domain-containing protein0.0Showinfo_outline
42107167..107586PP_00109; hypothetical protein0.0Showinfo_outline
43107650..108294PP_00110; AAA family ATPase0.0Showinfo_outline
44108294..108764PP_00111; trimethoprim-resistant dihydrofolate reductase DfrA500.0Showinfo_outline
45108767..109162PP_00112; hypothetical protein0.0Showinfo_outline
46109182..110285PP_00113; thymidylate synthase0.0Showinfo_outline
47110479..111354PP_00114; phosphoribosyl-ATP pyrophosphohydrolase0.0Showinfo_outline
48111432..112574PP_00115; class Ia ribonucleoside-diphosphate reductase subunit beta0.0Showinfo_outline
49112705..115008PP_00116; class 1a ribonucleoside-diphosphate reductase subunit alpha0.0Showinfo_outline
50115084..115653PP_00117; hypothetical protein0.0Showinfo_outline
51115663..116373PP_00118; hypothetical protein0.0Showinfo_outline
52116399..118316PP_00119; AAA family ATPase0.0Showinfo_outline
53118313..118546PP_00120; hypothetical protein0.0Showinfo_outline
54118546..119631PP_00121; exonuclease SbcCD subunit D0.0Showinfo_outline
55120284..120628PP_00122; hypothetical protein0.0Showinfo_outline
56120651..121844PP_00123; DUF4041 domain-containing protein0.0Showinfo_outline
57122158..122802PP_00124; 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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