Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C788
  Reference Plasmid   NZ_CP062960.1
  Reference Plasmid Size   85021
  Reference Plasmid GC Content   0.52
  Reference Plasmid Mobility Type   non-mobilizable





Mutation sites in the plasmid cluster


The table lists mutations identified in the plasmid cluster.
Note: Mutations identified in this plasmid cluster are listed below. Click on a mutation ID to view full details..

mutid gname pos count tissue frequnt biotype consequence impact nucchange aachange
M0101155 PKGEILDM_00075 60994 3 Skin 0.30 protein_coding missense_variant MODERATE 973A>G Asn325Asp
M0101156 PKGEILDM_00075 61053 4 Skin 0.40 protein_coding missense_variant MODERATE 914G>A Gly305Asp
M0101157 PKGEILDM_00075 61082 4 Skin 0.40 protein_coding synonymous_variant LOW 885T>C Val295Val
M0101158 PKGEILDM_00075 61205 4 Skin 0.40 protein_coding synonymous_variant LOW 762T>C Asp254Asp
M0101159 PKGEILDM_00075 61218 4 Skin 0.40 protein_coding missense_variant MODERATE 749A>G Gln250Arg
M0101160 PKGEILDM_00075 61229 3 Skin 0.30 protein_coding synonymous_variant LOW 738G>A Thr246Thr
M0101161 PKGEILDM_00075 61402 4 Skin 0.40 protein_coding missense_variant MODERATE 565G>A Ala189Thr
M0101162 PKGEILDM_00075 61448 4 Skin 0.40 protein_coding synonymous_variant LOW 519T>C Val173Val
M0101163 PKGEILDM_00075 61638 4 Skin 0.40 protein_coding missense_variant MODERATE 329A>C Tyr110Ser
M0101164 PKGEILDM_00075 61697 4 Skin 0.40 protein_coding synonymous_variant LOW 270C>T Arg90Arg
M0101165 PKGEILDM_00075 61779 4 Skin 0.40 protein_coding missense_variant MODERATE 188A>G Asp63Gly
M0101166 PKGEILDM_00075 61827 4 Skin 0.40 protein_coding missense_variant MODERATE 140A>G Gln47Arg
M0101167 PKGEILDM_00076 61999 4 Skin 0.40 protein_coding synonymous_variant LOW 771T>C Thr257Thr
M0101168 PKGEILDM_00076 62021 3 Skin 0.30 protein_coding missense_variant MODERATE 749G>A Arg250Gln
M0101169 PKGEILDM_00076 62053 4 Skin 0.40 protein_coding synonymous_variant LOW 717T>C Gly239Gly
M0101170 PKGEILDM_00076 62152 4 Skin 0.40 protein_coding synonymous_variant LOW 618T>C Ala206Ala
M0101171 PKGEILDM_00076 62163 4 Skin 0.40 protein_coding missense_variant MODERATE 607C>G Leu203Val
M0101172 PKGEILDM_00076 62194 4 Skin 0.40 protein_coding synonymous_variant LOW 576A>G Val192Val
M0101173 PKGEILDM_00076 62260 4 Skin 0.40 protein_coding synonymous_variant LOW 510T>C Pro170Pro
M0101174 PKGEILDM_00076 62434 4 Skin 0.40 protein_coding synonymous_variant LOW 336T>C Cys112Cys
M0101175 PKGEILDM_00076 62488 4 Skin 0.40 protein_coding synonymous_variant LOW 282A>G Leu94Leu
M0101176 PKGEILDM_00076 62496 4 Skin 0.40 protein_coding synonymous_variant LOW 274T>C Leu92Leu
M0101177 PKGEILDM_00076 62541 4 Skin 0.40 protein_coding missense_variant MODERATE 229T>G Leu77Val
M0101178 PKGEILDM_00076 62578 4 Skin 0.40 protein_coding synonymous_variant LOW 192G>C Gly64Gly
M0101179 PKGEILDM_00076 62675 4 Skin 0.40 protein_coding missense_variant MODERATE 95A>G Tyr32Cys
M0101180 PKGEILDM_00076 62676 4 Skin 0.40 protein_coding missense_variant MODERATE 94T>C Tyr32His
M0101181 PKGEILDM_00076 62706 3 Skin 0.30 protein_coding missense_variant MODERATE 64G>A Ala22Thr
M0101182 PKGEILDM_00072 62778 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4715T>C None
M0101183 PKGEILDM_00072 62811 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -4748C>T None
M0101184 PKGEILDM_00072 62826 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4763T>G None
M0101185 PKGEILDM_00072 62849 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4786C>G None
M0101186 PKGEILDM_00072 62887 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4824T>C None
M0101187 PKGEILDM_00072 62957 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4894G>A None
M0101188 PKGEILDM_00072 62961 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4898C>T None
M0101189 PKGEILDM_00072 62962 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4899A>C None
M0101190 PKGEILDM_00072 63007 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4944A>G None
M0101191 PKGEILDM_00072 63019 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4956G>A None
M0101192 PKGEILDM_00077 63200 5 Skin 0.50 protein_coding synonymous_variant LOW 123T>C Gly41Gly
M0101193 PKGEILDM_00077 63275 5 Skin 0.50 protein_coding synonymous_variant LOW 198A>G Leu66Leu
M0101194 PKGEILDM_00077 63294 5 Skin 0.50 protein_coding missense_variant MODERATE 217A>G Asn73Asp
M0101195 PKGEILDM_00077 63434 5 Skin 0.50 protein_coding synonymous_variant LOW 357G>C Leu119Leu
M0101196 PKGEILDM_00077 63473 5 Skin 0.50 protein_coding synonymous_variant LOW 396T>G Ala132Ala
M0101197 PKGEILDM_00077 63518 5 Skin 0.50 protein_coding synonymous_variant LOW 441T>C Asn147Asn
M0101198 PKGEILDM_00077 63542 5 Skin 0.50 protein_coding synonymous_variant LOW 465T>C Pro155Pro
M0101199 PKGEILDM_00077 63549 5 Skin 0.50 protein_coding missense_variant MODERATE 472A>G Thr158Ala
M0101200 PKGEILDM_00077 63594 4 Skin 0.40 protein_coding missense_variant MODERATE 517A>G Thr173Ala
M0101201 PKGEILDM_00077 63605 5 Skin 0.50 protein_coding synonymous_variant LOW 528T>C Ser176Ser
M0101202 PKGEILDM_00077 63609 4 Skin 0.40 protein_coding missense_variant MODERATE 532A>G Thr178Ala
M0101203 PKGEILDM_00077 63643 4 Skin 0.40 protein_coding missense_variant MODERATE 566G>A Arg189His
M0101204 PKGEILDM_00073 63665 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -3319T>C None
M0101205 PKGEILDM_00073 63691 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -3345T>C None
M0101206 PKGEILDM_00073 63704 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -3358A>T None
M0101207 PKGEILDM_00073 63705 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -3359C>T None
M0101208 PKGEILDM_00073 63713 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -3367T>C None
M0101209 PKGEILDM_00078 63729 4 Skin 0.40 protein_coding missense_variant MODERATE 5C>T Thr2Ile
M0101210 PKGEILDM_00078 63730 5 Skin 0.50 protein_coding synonymous_variant LOW 6A>G Thr2Thr
M0101211 PKGEILDM_00078 63735 4 Skin 0.40 protein_coding missense_variant MODERATE 11C>G Ala4Gly
M0101212 PKGEILDM_00078 63736 4 Skin 0.40 protein_coding synonymous_variant LOW 12G>A Ala4Ala
M0101213 PKGEILDM_00078 63738 5 Skin 0.50 protein_coding missense_variant MODERATE 14C>T Ser5Phe
M0101214 PKGEILDM_00078 63791 5 Skin 0.50 protein_coding missense_variant MODERATE 67C>G Leu23Val
M0101215 PKGEILDM_00078 63794 5 Skin 0.50 protein_coding missense_variant MODERATE 70A>G Thr24Ala
M0101216 PKGEILDM_00078 63809 5 Skin 0.50 protein_coding missense_variant MODERATE 85A>G Asn29Asp
M0101217 PKGEILDM_00078 63833 5 Skin 0.50 protein_coding missense_variant MODERATE 109T>C Ser37Pro
M0101218 PKGEILDM_00078 63844 4 Skin 0.40 protein_coding synonymous_variant LOW 120C>T Ser40Ser
M0101219 PKGEILDM_00078 63905 5 Skin 0.50 protein_coding missense_variant MODERATE 181A>G Thr61Ala
M0101220 PKGEILDM_00078 63919 5 Skin 0.50 protein_coding synonymous_variant LOW 195C>T Ser65Ser
M0101221 PKGEILDM_00078 63955 5 Skin 0.50 protein_coding synonymous_variant LOW 231G>A Gly77Gly
M0101222 PKGEILDM_00078 64048 5 Skin 0.50 protein_coding synonymous_variant LOW 324T>C Ser108Ser
M0101223 PKGEILDM_00078 64078 5 Skin 0.50 protein_coding synonymous_variant LOW 354T>C Asn118Asn
M0101224 PKGEILDM_00078 64187 3 Skin 0.30 protein_coding missense_variant MODERATE 463A>T Thr155Ser
M0101225 PKGEILDM_00078 64228 4 Skin 0.40 protein_coding synonymous_variant LOW 504T>C Ile168Ile
M0101226 PKGEILDM_00078 64549 4 Skin 0.40 protein_coding synonymous_variant LOW 825A>G Pro275Pro
M0101227 PKGEILDM_00078 64654 3 Skin 0.30 protein_coding synonymous_variant LOW 930T>C Pro310Pro
M0101228 PKGEILDM_00078 64664 4 Skin 0.40 protein_coding missense_variant MODERATE 940T>C Trp314Arg
M0101229 PKGEILDM_00078 64690 4 Skin 0.40 protein_coding synonymous_variant LOW 966C>G Ser322Ser
M0101230 PKGEILDM_00078 64733 4 Skin 0.40 protein_coding missense_variant MODERATE 1009G>A Val337Ile
M0101231 PKGEILDM_00078 64795 4 Skin 0.40 protein_coding synonymous_variant LOW 1071T>C Thr357Thr
M0101232 PKGEILDM_00078 64800 4 Skin 0.40 protein_coding missense_variant MODERATE 1076A>G Asp359Gly
M0101233 PKGEILDM_00078 64815 3 Skin 0.30 protein_coding missense_variant MODERATE 1091G>A Arg364His
M0101234 PKGEILDM_00078 64838 4 Skin 0.40 protein_coding synonymous_variant LOW 1114C>T Leu372Leu
M0101235 PKGEILDM_00078 64902 4 Skin 0.40 protein_coding missense_variant MODERATE 1178G>A Gly393Asp
M0101236 PKGEILDM_00078 65008 4 Skin 0.40 protein_coding synonymous_variant LOW 1284T>C Gly428Gly
M0101237 PKGEILDM_00078 65129 4 Skin 0.40 protein_coding missense_variant MODERATE 1405G>C Gly469Arg
M0101238 PKGEILDM_00078 65130 4 Skin 0.40 protein_coding missense_variant MODERATE 1406G>A Gly469Glu
M0101239 PKGEILDM_00078 65131 4 Skin 0.40 protein_coding synonymous_variant LOW 1407G>C Gly469Gly
M0101240 PKGEILDM_00078 65158 4 Skin 0.40 protein_coding synonymous_variant LOW 1434T>C Ile478Ile
M0101241 PKGEILDM_00078 65164 4 Skin 0.40 protein_coding missense_variant MODERATE 1440G>C Glu480Asp
M0101242 PKGEILDM_00065 57345 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4126T>A None
M0101243 PKGEILDM_00065 57371 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4152G>C None
M0101244 PKGEILDM_00072 57436 4 Skin 0.40 protein_coding missense_variant MODERATE 628G>A Val210Ile
M0101245 PKGEILDM_00072 57554 4 Skin 0.40 protein_coding synonymous_variant LOW 510T>C Thr170Thr
M0101246 PKGEILDM_00072 57635 4 Skin 0.40 protein_coding synonymous_variant LOW 429C>A Gly143Gly
M0101247 PKGEILDM_00072 57665 4 Skin 0.40 protein_coding synonymous_variant LOW 399A>G Gly133Gly
M0101248 PKGEILDM_00072 57719 4 Skin 0.40 protein_coding synonymous_variant LOW 345T>C Asp115Asp
M0101249 PKGEILDM_00072 57884 4 Skin 0.40 protein_coding synonymous_variant LOW 180A>C Ile60Ile
M0101250 PKGEILDM_00072 57934 3 Skin 0.30 protein_coding missense_variant MODERATE 130C>G Pro44Ala
M0101251 PKGEILDM_00072 57994 4 Skin 0.40 protein_coding missense_variant MODERATE 70A>G Thr24Ala
M0101252 PKGEILDM_00072 58039 4 Skin 0.40 protein_coding missense_variant MODERATE 25A>G Thr9Ala
M0101253 PKGEILDM_00073 58147 4 Skin 0.40 protein_coding missense_variant MODERATE 2200G>A Ala734Thr
M0101254 PKGEILDM_00073 58157 3 Skin 0.30 protein_coding synonymous_variant LOW 2190A>G Lys730Lys
M0101255 PKGEILDM_00073 58205 4 Skin 0.40 protein_coding synonymous_variant LOW 2142A>G Leu714Leu
M0101256 PKGEILDM_00073 58280 4 Skin 0.40 protein_coding synonymous_variant LOW 2067T>C Phe689Phe
M0101257 PKGEILDM_00073 58295 4 Skin 0.40 protein_coding synonymous_variant LOW 2052T>C Leu684Leu
M0101258 PKGEILDM_00073 58300 4 Skin 0.40 protein_coding missense_variant MODERATE 2047A>G Met683Val
M0101259 PKGEILDM_00073 58312 3 Skin 0.30 protein_coding synonymous_variant LOW 2035T>C Leu679Leu
M0101260 PKGEILDM_00073 58313 4 Skin 0.40 protein_coding synonymous_variant LOW 2034A>G Pro678Pro
M0101261 PKGEILDM_00073 58700 3 Skin 0.30 protein_coding synonymous_variant LOW 1647T>C Ala549Ala
M0101262 PKGEILDM_00073 58842 3 Skin 0.30 protein_coding missense_variant MODERATE 1505T>C Ile502Thr
M0101263 PKGEILDM_00073 59084 3 Skin 0.30 protein_coding synonymous_variant LOW 1263A>G Ala421Ala
M0101264 PKGEILDM_00073 59186 3 Skin 0.30 protein_coding synonymous_variant LOW 1161T>C Ile387Ile
M0101265 PKGEILDM_00073 59279 3 Skin 0.30 protein_coding synonymous_variant LOW 1068C>G Val356Val
M0101266 PKGEILDM_00073 59313 3 Skin 0.30 protein_coding missense_variant MODERATE 1034A>G Asn345Ser
M0101267 PKGEILDM_00073 59579 3 Skin 0.30 protein_coding synonymous_variant LOW 768A>G Ala256Ala
M0101268 PKGEILDM_00073 59996 3 Skin 0.30 protein_coding synonymous_variant LOW 351T>C Ile117Ile
M0101269 PKGEILDM_00073 60008 3 Skin 0.30 protein_coding synonymous_variant LOW 339A>G Val113Val
M0101270 PKGEILDM_00073 60017 3 Skin 0.30 protein_coding synonymous_variant LOW 330T>C Ile110Ile
M0101271 PKGEILDM_00075 60889 3 Skin 0.30 protein_coding missense_variant MODERATE 1078A>G Thr360Ala
M0101272 PKGEILDM_00076 62074 3 Skin 0.30 protein_coding synonymous_variant LOW 696C>T Arg232Arg
M0101273 PKGEILDM_00076 62077 3 Skin 0.30 protein_coding missense_variant MODERATE 693A>C Glu231Asp






Analysis of virulence factors contributing to bacterial pathogenicity


This table presents virulence factors identified within the plasmid cluster.
      Note: Virulence factor analysis was performed using VFDB. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known virulence factors are listed.

Gene Name vf_gene_id vf_name identity evalue qstart qend query_coverage subject_coverage vf_category gene_description condition







        Analysis of biocide and heavy metal resistance genes to assess antimicrobial risk and environmental impact


This table presents biocides and heavy metals resistance genes identified within the plasmid cluster.
      Note: Analyzing biocide and heavy metal resistance genes based on BacMet to evaluate bacterial resistance risk and the potential impact of environmental heavy metal contamination. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, E-value < 1e-5) to known biocide and heavy metal resistance genes are listed.

Gene Name compound identity evalue qstart qend query_coverage subject_coverage group
PKGEILDM_00066 Cobalt (Co), Nickel (Ni) 84 1e-51 1 119 1.0000 0.9835 prediction






        Analyzing antimicrobial resistance genes to assess bacterial resistance to antibiotics and other antimicrobial agents


This table presents antimicrobial resistance genes identified within the plasmid cluster.
      Note: Antimicrobial resistance was performed using CARD. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known antimicrobial resistance genes are listed.

Gene Name aro_accession identity evalue qstart qend query_coverage subject_coverage drug_class amr_gene_family resistance_mechanism






Analysis of pathogenicity genes to explore pathogen-host interactions


This table presents host pathogen-host interactions within the plasmid cluster.
      Note: Analyzing pathogenicity-related genes using PHI-base to understand pathogen virulence mechanisms and their impact on host interactions. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e-5) to known pathogenicity-related genes are listed.

Gene Name phi_molconn_id host gene_name identity evalue qstart qend query_coverage subject_coverage host_descripton disease_name function phenotype_of_mutant






        Analyzing carbohydrate-active enzyme genes to uncover mechanisms of nutrient degradation


This table presents carbohydrate-active enzyme genes identified within the plasmid cluster.
      Note: Annotation of carbohydrate-active enzyme genes was performed using CAZy to explore mechanisms of nutrient breakdown and utilization. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known CAZyme genes are listed.

Gene Name cazy_id identity evalue qstart qend query_coverage subject_coverage





        Analyzing transport proteins to understand bacterial strategies for substrate uptake and detoxification


This table presents transport proteins within the plasmid cluster.
      Note: Investigation of transport proteins based on TCDB to uncover bacterial mechanisms of substrate transport and environmental detoxification. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known transport protein entries are listed.

Gene Name tcid identity evalue qstart qend query_coverage subject_coverage class_field class_term subclass subclass_term family family_term