Submission Results

Sequence Name: Not Available

GenBank Accession Number: NZ_CP061391.1

Download Results: NZ_CP061391.1.PHASTEST.zip

gi|00000000|ref|NC_000000| Klebsiella pneumoniae strain NU-CRE195 plasmid pCRE-195-2, 112025, gc%: 48.75%

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
183.7Kbintact150851550-85307 info_outlinePHAGE_Salmon_SSU5_NC_018843(69)49.33%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_CP061391.1| Klebsiella pneumoniae strain NU-CRE195 plasmid pCRE-195-2, 112025, gc%: 48.75%

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 76 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
97182..7562PP_00010;hypothetical protein;phage;PHAGE_Entero_mEp460_NC_0197161.19e-58Show info_outline
107802..8227PP_00011;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.99e-82Show info_outline
118242..11760PP_00012;DNA polymerase III alpha subunit;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1211941..13173PP_00013;putative porphyrin biosynthetic protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1313270..15555PP_00014;putative porphyrin biosynthetic protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
1416157..16537PP_00015;hypothetical protein;phage;PHAGE_Rhizob_RHEph10_NC_0342489.35e-10Show info_outline
1516532..17632PP_00016;bacteriophage integrase protein;phage;PHAGE_Phage_Gifsy_1_NC_0103929.12e-23Show info_outline
1617881..18291PP_00017;hypothetical protein;phage;PHAGE_Escher_HK639_NC_0161587.3e-18Show info_outline
1719001..19246PP_00019;putative glutaredoxin;phage;PHAGE_Pseudo_OBP_NC_0165711.45e-14Show info_outline
1819243..19629PP_00020;hypothetical protein;phage;PHAGE_Shigel_Sf6_NC_0053442.58e-62Show info_outline
1919639..20415PP_00021;PhoH;phage;PHAGE_Erwini_PhiEaH1_NC_0236106.03e-120Show info_outline
2022605..22907PP_00023;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.23e-37Show info_outline
2122904..23056PP_00024;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188433.04e-24Show info_outline
2223053..23268PP_00025;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188438.95e-34Show info_outline
2323252..23416PP_00026;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.99e-18Show info_outline
2423428..24750PP_00027;putative DNA ligase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
2524750..25217PP_00028;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188433.81e-67Show info_outline
2625297..26085PP_00029;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.08e-92Show info_outline
2727584..28708PP_00031;putative DNA primase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
2828856..30196PP_00032;putative DNA helicase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
2930261..30986PP_00033;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188434.14e-162Show info_outline
3032919..33275PP_00035;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188435.51e-62Show info_outline
3133281..33946PP_00036;putative ParA family protein;phage;PHAGE_Salmon_SSU5_NC_0188434.12e-132Show info_outline
3235022..35273PP_00038;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.08e-35Show info_outline
3335276..35968PP_00039;putative endolysin;phage;PHAGE_Salmon_SSU5_NC_0188437.93e-156Show info_outline
3435982..36305PP_00040;putative holin;phage;PHAGE_Salmon_SSU5_NC_0188435.91e-70Show info_outline
3536401..37846PP_00041;tail fiber;phage;PHAGE_Klebsi_Sushi_NC_0287747.76e-49Show info_outline
3637899..50069PP_00042;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
3750086..50697PP_00043;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188433.37e-112Show info_outline
3850685..51482PP_00044;putative phage tail protein;phage;PHAGE_Salmon_SSU5_NC_0188437.72e-174Show info_outline
3951475..52173PP_00045;putative minor tail protein L;phage;PHAGE_Salmon_SSU5_NC_0188434.02e-158Show info_outline
4052260..52595PP_00046;putative minor tail protein M;phage;PHAGE_Salmon_SSU5_NC_0188433.72e-67Show info_outline
4152639..57174PP_00047;putative tail tape measure protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
4257182..57406PP_00048;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.2e-42Show info_outline
4357532..57849PP_00049;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.75e-64Show info_outline
4457911..58657PP_00050;putative tail protein;phage;PHAGE_Rhizob_RHEph10_NC_0342485.9e-25Show info_outline
4558725..59117PP_00051;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188433.26e-63Show info_outline
4659119..59592PP_00052;putative head-to-tail joining protein;phage;PHAGE_Rhizob_RHEph10_NC_0342481.73e-08Show info_outline
4759583..59927PP_00053;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.55e-72Show info_outline
4860025..60858PP_00054;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188437.74e-176Show info_outline
4960858..61292PP_00055;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188432.89e-84Show info_outline
5061340..61768PP_00056;tail assembly protein;phage;PHAGE_Salmon_SE4_NC_0487641.09e-20Show info_outline
5161846..62724PP_00057;putative major capsid protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5262751..63650PP_00058;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5363673..65247PP_00059;putative phage portal protein;phage;PHAGE_Rhizob_RHEph10_NC_0342482.15e-167Show info_outline
5465280..66536PP_00060;putative terminase large subunit;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5566539..67180PP_00061;putative DNA-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188432.03e-109Show info_outline
5667356..67622PP_00062;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.29e-41Show info_outline
5767632..68522PP_00063;putative ABC transporter ATP-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
5869060..69701PP_00065;putative ABC transporter ATP-binding protein;phage;PHAGE_Salmon_SSU5_NC_0188431.58e-149Show info_outline
5969698..70366PP_00066;putative ParB-like nuclease domain-containing protein;phage;PHAGE_Salmon_SSU5_NC_0188433.54e-145Show info_outline
6070366..71070PP_00067;putative ParB-like nuclease domain-containing protein;phage;PHAGE_Salmon_SSU5_NC_0188431.31e-145Show info_outline
6171130..72689PP_00068;putative helicase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline
6272692..72967PP_00069;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.39e-39Show info_outline
6373018..73455PP_00070;hypothetical protein;phage;PHAGE_Escher_HK639_NC_0161583.38e-21Show info_outline
6473611..74141PP_00071;putative repressor of phase 1 flagellin;phage;PHAGE_Salmon_SSU5_NC_0188432.76e-92Show info_outline
6574775..75425PP_00073;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188436.43e-145Show info_outline
6675476..75679PP_00074;putative MIT family metal ion transporter CorA;phage;PHAGE_Salmon_SSU5_NC_0188434.42e-39Show info_outline
6776272..76754PP_00075;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188433.92e-85Show info_outline
6876960..77241PP_00076;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188435.71e-54Show info_outline
6977368..77775PP_00077;Gp62;phage;PHAGE_Klebsi_phiKO2_NC_0058571.25e-31Show info_outline
7077895..78194PP_00078;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188438.55e-44Show info_outline
7178343..78555PP_00079;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188439.01e-33Show info_outline
7278568..78786PP_00080;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188435.03e-37Show info_outline
7379606..79875PP_00081;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.49e-17Show info_outline
7480338..80775PP_00082;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188431.48e-39Show info_outline
7582832..83533PP_00084;hypothetical protein;phage;PHAGE_Salmon_SSU5_NC_0188433.28e-105Show info_outline
7683622..85307PP_00085;putative DNA modification methylase;phage;PHAGE_Salmon_SSU5_NC_0188430.0Show info_outline

gi|00000000|ref|NZ_CP061391.1| Klebsiella pneumoniae strain NU-CRE195 plasmid pCRE-195-2, 112025, gc%: 48.75%

Download details as .txt file:detail.txt file_download

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

Bacterial, total 26 CDS

#CDS PositionBLAST HitE-ValueSequence
185697..87766PP_00086; P-loop ATPase, Sll1717 family0.0Showinfo_outline
287935..88429PP_00087; hypothetical protein0.0Showinfo_outline
388587..88859PP_00088; RNase H family protein0.0Showinfo_outline
489029..89976PP_00089; hypothetical protein0.0Showinfo_outline
589973..90641PP_00090; hypothetical protein0.0Showinfo_outline
691401..91634PP_00091; hypothetical protein0.0Showinfo_outline
791832..92425PP_00092; phage N-6-adenine-methyltransferase;phage N-6-adenine-methyltransferase0.0Showinfo_outline
892610..93443PP_00093; hypothetical protein0.0Showinfo_outline
993569..94117PP_00094; 3'-5' exonuclease0.0Showinfo_outline
1094114..94908PP_00095; hypothetical protein0.0Showinfo_outline
1194918..95337PP_00096; hypothetical protein0.0Showinfo_outline
1295401..96045PP_00097; AAA family ATPase0.0Showinfo_outline
1396045..96521PP_00098; trimethoprim-resistant dihydrofolate reductase DfrA500.0Showinfo_outline
1496518..96913PP_00099; hypothetical protein0.0Showinfo_outline
1596933..98036PP_00100; thymidylate synthase0.0Showinfo_outline
1698230..99105PP_00101; nucleoside triphosphate pyrophosphohydrolase family protein0.0Showinfo_outline
1799182..100324PP_00102; class Ia ribonucleoside-diphosphate reductase subunit beta0.0Showinfo_outline
18100455..102758PP_00103; class 1a ribonucleoside-diphosphate reductase subunit alpha0.0Showinfo_outline
19102834..103403PP_00104; hypothetical protein0.0Showinfo_outline
20103413..104123PP_00105; hypothetical protein0.0Showinfo_outline
21104149..106065PP_00106; AAA family ATPase0.0Showinfo_outline
22106062..106295PP_00107; hypothetical protein0.0Showinfo_outline
23106295..107380PP_00108; metallophosphoesterase0.0Showinfo_outline
24107581..108612PP_00109; IS630-like element ISEc33 family transposase0.0Showinfo_outline
25109188..110747PP_00110; DUF4041 domain-containing protein0.0Showinfo_outline
26111061..111705PP_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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