Submission Results

Sequence Name: Not Available

GenBank Accession Number: JAOECB010000009.1

Download Results: JAOECB010000009.1.PHASTEST.zip

gi|00000000|ref|NC_000000| Klebsiella grimontii strain GD04070 9, whole genome shotgun 177920, gc%: 55.08%

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
138.4Kbquestionable702018818-57290 info_outlinePHAGE_Klebsi_ST15_OXA48phi14.1_NC_049454(7)52.82%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|JAOECB010000009.1| Klebsiella grimontii strain GD04070 9, whole genome shotgun 177920, gc%: 55.08%

Download details as .txt file:detail.txt file_download

Integrase
Repressor
Regulatory protein
Phage-like protein
Endonuclease
Hypothetical protein
Portal protein
Transposase
Tail protein

questionable

Region 1, total 13 CDS

#CDS PositionBLAST HitE-ValueSequence
133374..33535PP_00030;tyrosine-type recombinase/integrase;phage;PHAGE_Klebsi_4LV2017_NC_0478181.64e-25Show info_outline
236145..36735PP_00033;repressor protein CI;phage;PHAGE_Klebsi_ST437_OXA245phi4.2_NC_0494492.7e-52Show info_outline
337085..37594PP_00035;regulatory protein CII;phage;PHAGE_Klebsi_ST13_OXA48phi12.1_NC_0494532.28e-98Show info_outline
437602..37769PP_00036;DUF2724 domain-containing protein;phage;PHAGE_Salmon_SEN8_NC_0477534.22e-27Show info_outline
537838..38068PP_00037;replication endonuclease;phage;PHAGE_Klebsi_ST13_OXA48phi12.1_NC_0494531.29e-33Show info_outline
638183..38368PP_00038;hypothetical protein;phage;PHAGE_Klebsi_ST15_OXA48phi14.1_NC_0494541.19e-11Show info_outline
738648..40081PP_00039;SEFIR domain protein;phage;PHAGE_Klebsi_ST15_OXA48phi14.1_NC_0494540.0Show info_outline
840119..40307PP_00040;portal protein;phage;PHAGE_Klebsi_ST15_OXA48phi14.1_NC_0494541.96e-26Show info_outline
940367..40783PP_00041;ISxcC1 transposase;phage;PROPHAGE_Xantho_339135.44e-54Show info_outline
1040798..41534PP_00042;portal protein;phage;PHAGE_Klebsi_ST437_OXA245phi4.1_NC_0494482.59e-97Show info_outline
1141889..42341PP_00044;tail protein;phage;PHAGE_Salmon_Fels_2_NC_0104632.59e-80Show info_outline
1242409..42612PP_00045;P2 gpOgr-like protein (acttivation of late gene expression);phage;PHAGE_Salmon_Fels_2_NC_0104631.65e-27Show info_outline
1345564..45827PP_00049;glutaredoxin;phage;PHAGE_Pectob_CBB_NC_0418783.83e-19Show info_outline

gi|00000000|ref|JAOECB010000009.1| Klebsiella grimontii strain GD04070 9, whole genome shotgun 177920, gc%: 55.08%

Download details as .txt file:detail.txt file_download

Non phage-like protein

Bacterial, total 112 CDS

#CDS PositionBLAST HitE-ValueSequence
11..1697PP_00001; alpha-glucosidase0.0Showinfo_outline
21713..3014PP_00002; MFS transporter0.0Showinfo_outline
33312..4385PP_00003; LacI family transcriptional regulator0.0Showinfo_outline
44382..5647PP_00004; DUF1479 domain-containing protein0.0Showinfo_outline
55784..6599PP_00005; Cof-type HAD-IIB family hydrolase0.0Showinfo_outline
66809..9241PP_00006; formate C-acetyltransferase/glycerol dehydratase family glycyl radical enzyme0.0Showinfo_outline
79246..10145PP_00007; glycyl-radical enzyme activating protein0.0Showinfo_outline
810298..11053PP_00008; molybdopterin-synthase adenylyltransferase MoeB0.0Showinfo_outline
911053..12288PP_00009; molybdopterin molybdotransferase MoeA0.0Showinfo_outline
1012466..13407PP_00010; beta-aspartyl-peptidase0.0Showinfo_outline
1113420..15273PP_00011; glutathione ABC transporter ATP-binding protein GsiA0.0Showinfo_outline
1215311..16849PP_00012; glutathione ABC transporter substrate-binding protein GsiB0.0Showinfo_outline
1316902..17822PP_00013; glutathione ABC transporter permease GsiC0.0Showinfo_outline
1417824..18735PP_00014; glutathione ABC transporter permease GsiD0.0Showinfo_outline
1557307..58038PP_00062; ABC transporter substrate-binding protein ArtJ0.0Showinfo_outline
1658212..58880PP_00063; arginine ABC transporter permease ArtM0.0Showinfo_outline
1758880..59596PP_00064; arginine ABC transporter permease ArtQ0.0Showinfo_outline
1859603..60334PP_00065; arginine ABC transporter substrate-binding protein0.0Showinfo_outline
1960354..61082PP_00066; arginine ABC transporter ATP-binding protein ArtP0.0Showinfo_outline
2061310..61825PP_00067; lipoprotein0.0Showinfo_outline
2161943..62266PP_00068; heavy metal-binding domain-containing protein0.0Showinfo_outline
2262263..63093PP_00069; N-acetylmuramoyl-L-alanine amidase0.0Showinfo_outline
2363090..64103PP_00070; NAD(P)-dependent oxidoreductase0.0Showinfo_outline
2464200..65633PP_00071; SDR family oxidoreductase0.0Showinfo_outline
2565644..66645PP_00072; low-specificity L-threonine aldolase0.0Showinfo_outline
2666800..68518PP_00073; ubiquinone-dependent pyruvate dehydrogenase0.0Showinfo_outline
2768670..69104PP_00074; DoxX family protein0.0Showinfo_outline
2869144..70112PP_00075; NADH oxidoreductase0.0Showinfo_outline
2970124..71776PP_00076; hydroxylamine reductase0.0Showinfo_outline
3071922..72821PP_00077; lysine exporter LysO family protein0.0Showinfo_outline
3172946..73641PP_00078; aquaporin Z0.0Showinfo_outline
3274026..75684PP_00079; ATP-dependent endonuclease0.0Showinfo_outline
3375857..76972PP_00080; macrolide transporter subunit MacA0.0Showinfo_outline
3476969..78915PP_00081; macrolide ABC transporter ATP-binding protein/permease MacB0.0Showinfo_outline
3578984..79214PP_00082; cold shock-like protein CspD0.0Showinfo_outline
3679539..79856PP_00083; ATP-dependent Clp protease adapter ClpS0.0Showinfo_outline
3779887..82169PP_00084; ATP-dependent Clp protease ATP-binding subunit ClpA0.0Showinfo_outline
3882308..82526PP_00085; translation initiation factor IF-10.0Showinfo_outline
3982806..83510PP_00086; leucyl/phenylalanyl-tRNA--protein transferase0.0Showinfo_outline
4083549..85270PP_00087; cysteine/glutathione ABC transporter ATP-binding protein/permease CydC0.0Showinfo_outline
4185271..87037PP_00088; cysteine/glutathione ABC transporter permease/ATP-binding protein CydD0.0Showinfo_outline
4287152..88120PP_00089; thioredoxin-disulfide reductase0.0Showinfo_outline
4388652..89146PP_00090; leucine-responsive transcriptional regulator Lrp0.0Showinfo_outline
4489282..93328PP_00091; DNA translocase FtsK0.0Showinfo_outline
4593450..94061PP_00092; outer membrane lipoprotein chaperone LolA0.0Showinfo_outline
4694070..95413PP_00093; replication-associated recombination protein RarA0.0Showinfo_outline
4795504..96796PP_00094; serine--tRNA ligase0.0Showinfo_outline
4896997..99435PP_00095; dimethylsulfoxide reductase subunit A0.0Showinfo_outline
4999446..100063PP_00096; dimethylsulfoxide reductase subunit B0.0Showinfo_outline
50100065..100928PP_00097; dimethyl sulfoxide reductase anchor subunit0.0Showinfo_outline
51101203..102351PP_00098; MFS transporter0.0Showinfo_outline
52102394..102831PP_00099; PTS sugar transporter subunit IIA0.0Showinfo_outline
53102874..103785PP_00100; transketolase0.0Showinfo_outline
54103785..104582PP_00101; transketolase0.0Showinfo_outline
55104595..105860PP_00102; PTS transporter subunit IIC0.0Showinfo_outline
56105878..106153PP_00103; PTS sugar transporter subunit IIB0.0Showinfo_outline
57106276..107133PP_00104; MurR/RpiR family transcriptional regulator0.0Showinfo_outline
58107187..107927PP_00105; pyruvate formate lyase 1-activating protein0.0Showinfo_outline
59108131..110413PP_00106; formate C-acetyltransferase0.0Showinfo_outline
60110465..111322PP_00107; formate transporter FocA0.0Showinfo_outline
61111706..113466PP_00108; 30S ribosomal protein S12 methylthiotransferase accessory factor YcaO0.0Showinfo_outline
62113581..114273PP_00109; DUF421 domain-containing protein0.0Showinfo_outline
63114460..115548PP_00110; 3-phosphoserine/phosphohydroxythreonine transaminase0.0Showinfo_outline
64115621..116904PP_00111; 3-phosphoshikimate 1-carboxyvinyltransferase0.0Showinfo_outline
65117052..117819PP_00112; M48 family metallopeptidase0.0Showinfo_outline
66117991..118674PP_00113; (d)CMP kinase0.0Showinfo_outline
67118812..120485PP_00114; 30S ribosomal protein S10.0Showinfo_outline
68120636..120923PP_00115; integration host factor subunit beta0.0Showinfo_outline
69121139..123394PP_00116; ComEC family protein0.0Showinfo_outline
70123440..125188PP_00117; lipid A ABC transporter ATP-binding protein/permease MsbA0.0Showinfo_outline
71125185..126165PP_00118; tetraacyldisaccharide 4'-kinase0.0Showinfo_outline
72126212..127441PP_00119; winged helix-turn-helix domain-containing protein0.0Showinfo_outline
73127494..127676PP_00120; protein YcaR0.0Showinfo_outline
74127673..128419PP_00121; 3-deoxy-manno-octulosonate cytidylyltransferase0.0Showinfo_outline
75128561..129454PP_00122; YcbJ family phosphotransferase0.0Showinfo_outline
76129431..130210PP_00123; envelope biogenesis factor ElyC0.0Showinfo_outline
77130332..131118PP_00124; tRNA uridine 5-oxyacetic acid(34) methyltransferase CmoM0.0Showinfo_outline
78131115..132437PP_00125; chromosome partition protein MukF0.0Showinfo_outline
79132418..133122PP_00126; chromosome partition protein MukE0.0Showinfo_outline
80133122..137570PP_00127; chromosome partition protein MukB0.0Showinfo_outline
81137754..139547PP_00128; L,D-transpeptidase0.0Showinfo_outline
82139848..140399PP_00129; YcbK family protein0.0Showinfo_outline
83140413..141060PP_00130; MBL fold metallo-hydrolase0.0Showinfo_outline
84141121..142311PP_00131; aspartate/tyrosine/aromatic aminotransferase0.0Showinfo_outline
85142499..143581PP_00132; porin0.0Showinfo_outline
86144176..145576PP_00133; asparagine--tRNA ligase0.0Showinfo_outline
87145880..147082PP_00134; nicotinate phosphoribosyltransferase0.0Showinfo_outline
88147411..150026PP_00135; aminopeptidase N0.0Showinfo_outline
89150093..150866PP_00136; aliphatic sulfonates ABC transporter ATP-binding protein0.0Showinfo_outline
90150863..151654PP_00137; aliphatic sulfonate ABC transporter permease SsuC0.0Showinfo_outline
91151711..152286PP_00138; NADPH-dependent FMN reductase0.0Showinfo_outline
92152535..153545PP_00139; quinone-dependent dihydroorotate dehydrogenase0.0Showinfo_outline
93153714..154256PP_00140; cell division protein ZapC0.0Showinfo_outline
94154253..155362PP_00141; YcbX family protein0.0Showinfo_outline
95155461..157566PP_00142; bifunctional 23S rRNA (guanine(2069)-N(7))-methyltransferase RlmK/23S rRNA (guanine(2445)-N(2))-methyltransferase RlmL0.0Showinfo_outline
96157579..159486PP_00143; ABC transporter ATP-binding protein0.0Showinfo_outline
97159501..160769PP_00144; membrane integrity-associated transporter subunit PqiA0.0Showinfo_outline
98160759..162396PP_00145; intermembrane transport protein PqiB0.0Showinfo_outline
99162396..162959PP_00146; membrane integrity-associated transporter subunit PqiC0.0Showinfo_outline
100163216..163383PP_00147; ribosome modulation factor0.0Showinfo_outline
101163449..163967PP_00148; bifunctional 3-hydroxydecanoyl-ACP dehydratase/trans-2-decenoyl-ACP isomerase0.0Showinfo_outline
102164037..165794PP_00149; Lon protease family protein0.0Showinfo_outline
103165980..166432PP_00150; macrodomain Ter protein MatP0.0Showinfo_outline
104166528..167598PP_00151; porin OmpA0.0Showinfo_outline
105167952..168461PP_00152; cell division inhibitor SulA0.0Showinfo_outline
106168924..169547PP_00153; TfoX/Sxy family DNA transformation protein0.0Showinfo_outline
107169535..171670PP_00154; YccS family putative transporter0.0Showinfo_outline
108171688..172134PP_00155; YccF domain-containing protein0.0Showinfo_outline
109172257..174311PP_00156; DNA helicase IV0.0Showinfo_outline
110174340..174798PP_00157; methylglyoxal synthase0.0Showinfo_outline
111174953..175366PP_00158; CoA-binding protein0.0Showinfo_outline
112175969..177920PP_00159; Ig-like domain-containing 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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