Submission Results

Sequence Name: Not Available

GenBank Accession Number: JBJGCL010000005.1

Download Results: JBJGCL010000005.1.PHASTEST.zip

gi|00000000|ref|NC_000000| Klebsiella pneumoniae strain JZ68 5, whole genome shotgun 80540, gc%: 52.36%

Download summary as .txt file:summary.txt file_download

Total:2 prophage regions have been identified, of which 2 regions are intact, 0 regions are incomplete, and 0 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
126.3Kbintact150341519-27825 info_outlinePHAGE_Sodali_phiSG1_NC_007902(3)51.43%Show info_outline
231.9Kbintact1402648246-80176 info_outlinePHAGE_Escher_RCS47_NC_042128(4)52.86%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|JBJGCL010000005.1| Klebsiella pneumoniae strain JZ68 5, whole genome shotgun 80540, gc%: 52.36%

Download details as .txt file:detail.txt file_download

Phage-like protein
Transposase
Integrase
Hypothetical protein

intact

Region 1, total 19 CDS

#CDS PositionBLAST HitE-ValueSequence
11519..2145PP_00002;ParA-like protein;phage;PHAGE_Sodali_phiSG1_NC_0079021.43e-30Show info_outline
22970..3658PP_00004;ISSod1, transposase OrfA;phage;PROPHAGE_Shewan_MR-11.01e-08Show info_outline
34331..5839PP_00005;reverse transcriptase;phage;PHAGE_Pseudo_phi3_NC_0309403.51e-48Show info_outline
45920..6108PP_00006;putative transposase OrfB;phage;PHAGE_Shigel_Sf6_NC_0053441.02e-33Show info_outline
57474..7782PP_00008;putative transposase OrfB;phage;PHAGE_Shigel_Sf6_NC_0053446.2e-67Show info_outline
67757..8107PP_00009;non-functional integrase;phage;PHAGE_Mycoba_Squirty_NC_0265881.4e-07Show info_outline
78170..8874PP_00010;transposase IS26;phage;PHAGE_Escher_RCS47_NC_0421283.1e-175Show info_outline
810467..11021PP_00013;bifunctional AAC/APH;phage;PHAGE_Staphy_SPbeta_like_NC_0291196.91e-16Show info_outline
911165..11869PP_00014;transposase IS26;phage;PHAGE_Escher_RCS47_NC_0421283.1e-175Show info_outline
1013899..15008PP_00017;zinc-containing alcohol dehydrogenase superfamily protein;phage;PHAGE_Synech_S_SM2_NC_0152794.08e-35Show info_outline
1115498..16202PP_00019;transposase IS26;phage;PHAGE_Escher_RCS47_NC_0421283.1e-175Show info_outline
1216309..17169PP_00020;hypothetical protein;phage;PHAGE_Bacill_SPbeta_NC_0018845.43e-25Show info_outline
1317816..18972PP_00022;putative transposase OrfB;phage;PHAGE_Shigel_Sf6_NC_0053449.7e-32Show info_outline
1418918..19622PP_00023;transposase IS26;phage;PHAGE_Escher_RCS47_NC_0421283.1e-175Show info_outline
1521016..21147PP_00026;transposase;phage;PHAGE_Sodali_phiSG1_NC_0079025.82e-07Show info_outline
1623391..23747PP_00030;transposase IS1;phage;PHAGE_Escher_RCS47_NC_0421281.43e-47Show info_outline
1724016..24771PP_00031;gp37;phage;PHAGE_Burkho_KS14_NC_0152738.25e-11Show info_outline
1825305..25772PP_00032;transposase IS1;phage;PHAGE_Escher_RCS47_NC_0421287.54e-69Show info_outline
1927121..27825PP_00035;transposase IS26;phage;PHAGE_Escher_RCS47_NC_0421283.1e-175Show info_outline

intact

Region 2, total 19 CDS

#CDS PositionBLAST HitE-ValueSequence
159313..60563PP_00075;transposase, putative;phage;PROPHAGE_Brucel_13301.53e-33Show info_outline
260628..60999PP_00076;transposase IS26;phage;PHAGE_Escher_RCS47_NC_0421281.34e-88Show info_outline
361149..62009PP_00077;Beta-lactamase SHV-2;phage;PHAGE_Escher_RCS47_NC_0421281.27e-134Show info_outline
462192..62749PP_00078;site-specific recombinase;phage;PHAGE_Salmon_SJ46_NC_0311296.02e-27Show info_outline
563313..64575PP_00080;hypothetical protein;phage;PHAGE_Salmon_SJ46_NC_0311295.13e-53Show info_outline
664831..65706PP_00081;extended-spectrum beta-lactamase CTX-M-27;phage;PHAGE_Salmon_SJ46_NC_0311292.58e-170Show info_outline
766099..67499PP_00083;transposase;phage;PHAGE_Salmon_SJ46_NC_0311294.79e-32Show info_outline
867556..68260PP_00084;transposase IS26;phage;PHAGE_Escher_RCS47_NC_0421283.1e-175Show info_outline
968328..69128PP_00085;transposase;phage;PHAGE_Salmon_SJ46_NC_0311297.62e-39Show info_outline
1069235..69939PP_00086;transposase IS26;phage;PHAGE_Escher_RCS47_NC_0421283.1e-175Show info_outline
1170432..71445PP_00087;integrase;phage;PHAGE_Mycoba_Butters_NC_0210613.3e-12Show info_outline
1271601..72074PP_00088;dihydrofolate reductase;phage;PHAGE_Bacill_Blue_NC_0310565.31e-23Show info_outline
1372704..73468PP_00091;transposase IS26;phage;PHAGE_Escher_RCS47_NC_0421282.6e-104Show info_outline
1473735..74943PP_00093;gp45;phage;PHAGE_Burkho_KL3_NC_0152661.85e-40Show info_outline
1574977..76410PP_00094;gp47;phage;PHAGE_Burkho_KL3_NC_0152667.59e-132Show info_outline
1676509..76781PP_00095;transposase IS1;phage;PHAGE_Escher_RCS47_NC_0421287.02e-55Show info_outline
1777540..78244PP_00098;transposase IS26;phage;PHAGE_Escher_RCS47_NC_0421283.1e-175Show info_outline
1878342..79462PP_00099;IS1477 transposase;phage;PROPHAGE_Xantho_339134.01e-103Show info_outline
1979521..80147PP_00100;DNA polymerase;phage;PHAGE_Cronob_ENT39118_NC_0199342.72e-95Show info_outline

gi|00000000|ref|JBJGCL010000005.1| Klebsiella pneumoniae strain JZ68 5, whole genome shotgun 80540, gc%: 52.36%

Download details as .txt file:detail.txt file_download

Non phage-like protein
Hypothetical protein

Bacterial, total 22 CDS

#CDS PositionBLAST HitE-ValueSequence
119..894PP_00001; RepB family plasmid replication initiator protein0.0Showinfo_outline
229251..29937PP_00036; NYN domain-containing protein0.0Showinfo_outline
330075..30812PP_00037; hypothetical protein0.0Showinfo_outline
431332..32801PP_00038; HNH endonuclease0.0Showinfo_outline
533558..34160PP_00039; recombinase family protein0.0Showinfo_outline
634151..34855PP_00040; IS6-like element IS26 family transposase0.0Showinfo_outline
734966..35202PP_00041; broad-spectrum mercury transporter MerE0.0Showinfo_outline
835199..35564PP_00042; mercury resistance co-regulator MerD0.0Showinfo_outline
935582..37267PP_00043; mercury(II) reductase0.0Showinfo_outline
1037306..37731PP_00044; organomercurial transporter MerC0.0Showinfo_outline
1137759..38034PP_00045; mercury resistance system periplasmic binding protein MerP0.0Showinfo_outline
1238050..38415PP_00046; mercuric ion transporter MerT0.0Showinfo_outline
1338487..38942PP_00047; Hg(II)-responsive transcriptional regulator0.0Showinfo_outline
1438976..39209PP_00048; DUF4113 domain-containing protein0.0Showinfo_outline
1539202..39729PP_00049; phospholipase D family protein0.0Showinfo_outline
1639762..40193PP_00050; hypothetical protein0.0Showinfo_outline
1740673..41638PP_00051; ArdC family protein0.0Showinfo_outline
1842108..43595PP_00052; group II intron reverse transcriptase/maturase0.0Showinfo_outline
1944001..44432PP_00053; translesion error-prone DNA polymerase V autoproteolytic subunit0.0Showinfo_outline
2044432..45703PP_00054; Y-family DNA polymerase0.0Showinfo_outline
2145785..46759PP_00055; ParB family protein0.0Showinfo_outline
2246759..47964PP_00056; AAA family ATPase0.0Showinfo_outline

Phage Genes

Bacterial Genes

Phage Regions

GC Skew

GC Content

lock_open

Phage Genes

Bacterial Genes

Phage Regions

GC Skew

GC Content

lock_open
Click on a region or gene to view details

We require the use of cookies for essential features like storing your previously submitted PHASTEST queries. Rejecting the usage of cookies will result in certain features being disabled. By clicking ACCEPT or continuing to use the website you are agreeing to our use of cookies.

ACCEPT