Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C996
  Reference Plasmid   NZ_CP091007.1
  Reference Plasmid Size   43056
  Reference Plasmid GC Content   0.28
  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
M0106075 OJPHMNKP_00060 42459 3 Skin 0.02 protein_coding synonymous_variant LOW 285T>C Ile95Ile
M0106076 OJPHMNKP_00039 31851 6 Skin 0.04 protein_coding upstream_gene_variant MODIFIER -4352T>A None
M0106077 OJPHMNKP_00039 31855 5 Skin 0.03 protein_coding upstream_gene_variant MODIFIER -4356C>T None
M0106078 OJPHMNKP_00039 31891 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -4392A>G None
M0106079 OJPHMNKP_00044 32417 13 Skin 0.08 protein_coding missense_variant MODERATE 16T>C Tyr6His
M0106080 OJPHMNKP_00043 34283 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -2821G>T None
M0106081 OJPHMNKP_00051 36416 4 Skin 0.02 protein_coding synonymous_variant LOW 423A>C Ile141Ile
M0106082 OJPHMNKP_00036 25140 3 Skin 0.02 protein_coding synonymous_variant LOW 462T>C Pro154Pro
M0106083 OJPHMNKP_00043 30435 3 Skin 0.02 protein_coding missense_variant MODERATE 1028T>C Ile343Thr
M0106084 OJPHMNKP_00043 30962 5 Skin 0.03 protein_coding synonymous_variant LOW 501A>G Lys167Lys
M0106085 OJPHMNKP_00043 30967 5 Skin 0.03 protein_coding missense_variant MODERATE 496A>G Lys166Glu
M0106086 OJPHMNKP_00043 31133 4 Skin 0.02 protein_coding missense_variant MODERATE 330T>G Asn110Lys
M0106087 OJPHMNKP_00043 31173 4 Skin 0.02 protein_coding missense_variant MODERATE 290A>G Asn97Ser
M0106088 OJPHMNKP_00043 31283 3 Skin 0.02 protein_coding synonymous_variant LOW 180T>C Asn60Asn
M0106089 OJPHMNKP_00043 31298 3 Skin 0.02 protein_coding synonymous_variant LOW 165T>A Thr55Thr
M0106090 OJPHMNKP_00043 31364 3 Skin 0.02 protein_coding synonymous_variant LOW 99T>C Ser33Ser
M0106091 OJPHMNKP_00038 31548 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -4753G>A None
M0106092 OJPHMNKP_00049 35116 12 Skin 0.07 protein_coding missense_variant MODERATE 446C>A Pro149Gln
M0106093 OJPHMNKP_00058 41521 3 Skin 0.02 protein_coding synonymous_variant LOW 306C>T Leu102Leu
M0106094 OJPHMNKP_00058 41559 3 Skin 0.02 protein_coding missense_variant MODERATE 268C>T Pro90Ser
M0106095 OJPHMNKP_00058 41567 4 Skin 0.02 protein_coding missense_variant MODERATE 260G>T Arg87Leu
M0106096 OJPHMNKP_00058 41582 3 Skin 0.02 protein_coding missense_variant MODERATE 245C>T Thr82Ile
M0106097 OJPHMNKP_00058 41584 3 Skin 0.02 protein_coding synonymous_variant LOW 243T>C Phe81Phe
M0106098 OJPHMNKP_00058 41586 3 Skin 0.02 protein_coding missense_variant MODERATE 241T>G Phe81Val
M0106099 OJPHMNKP_00058 41589 3 Skin 0.02 protein_coding missense_variant MODERATE 238A>G Ser80Gly
M0106100 OJPHMNKP_00058 41590 3 Skin 0.02 protein_coding synonymous_variant LOW 237C>T Ser79Ser
M0106101 OJPHMNKP_00058 41604 3 Skin 0.02 protein_coding missense_variant MODERATE 223G>A Val75Ile
M0106102 OJPHMNKP_00058 41624 3 Skin 0.02 protein_coding missense_variant MODERATE 203A>G Glu68Gly
M0106103 OJPHMNKP_00058 41671 3 Skin 0.02 protein_coding synonymous_variant LOW 156A>G Val52Val
M0106104 OJPHMNKP_00058 41691 3 Skin 0.02 protein_coding synonymous_variant LOW 136C>T Leu46Leu
M0106105 OJPHMNKP_00058 41698 3 Skin 0.02 protein_coding synonymous_variant LOW 129T>C His43His
M0106106 OJPHMNKP_00058 41725 3 Skin 0.02 protein_coding synonymous_variant LOW 102T>C Phe34Phe
M0106107 OJPHMNKP_00058 41731 3 Skin 0.02 protein_coding synonymous_variant LOW 96T>A Leu32Leu
M0106108 OJPHMNKP_00058 41740 3 Skin 0.02 protein_coding synonymous_variant LOW 87T>C Phe29Phe
M0106109 OJPHMNKP_00058 41794 4 Skin 0.02 protein_coding synonymous_variant LOW 33C>T Asn11Asn
M0106110 OJPHMNKP_00058 41800 4 Skin 0.02 protein_coding synonymous_variant LOW 27C>T Ser9Ser
M0106111 OJPHMNKP_00058 41804 4 Skin 0.02 protein_coding missense_variant MODERATE 23A>T Glu8Val
M0106112 OJPHMNKP_00058 41821 4 Skin 0.02 protein_coding synonymous_variant LOW 6T>C His2His
M0106113 OJPHMNKP_00058 41823 4 Skin 0.02 protein_coding missense_variant MODERATE 4C>T His2Tyr
M0106114 OJPHMNKP_00052 41840 4 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -3873G>A None
M0106115 OJPHMNKP_00059 41876 4 Skin 0.02 protein_coding stop_lost&splice_region_variant HIGH 245G>C Ter82Serext*?
M0106116 OJPHMNKP_00059 42000 3 Skin 0.02 protein_coding missense_variant MODERATE 121A>G Met41Val
M0106117 OJPHMNKP_00052 42169 4 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -4202A>T None
M0106118 OJPHMNKP_00060 42198 4 Skin 0.02 protein_coding synonymous_variant LOW 546C>T Asn182Asn
M0106119 OJPHMNKP_00060 42240 4 Skin 0.02 protein_coding synonymous_variant LOW 504T>A Ala168Ala
M0106120 OJPHMNKP_00060 42246 4 Skin 0.02 protein_coding synonymous_variant LOW 498A>C Ala166Ala
M0106121 OJPHMNKP_00060 42333 4 Skin 0.02 protein_coding synonymous_variant LOW 411T>C Ile137Ile
M0106122 OJPHMNKP_00060 42335 3 Skin 0.02 protein_coding missense_variant MODERATE 409A>G Ile137Val
M0106123 OJPHMNKP_00060 42339 3 Skin 0.02 protein_coding synonymous_variant LOW 405A>G Gly135Gly
M0106124 OJPHMNKP_00060 42555 4 Skin 0.02 protein_coding synonymous_variant LOW 189G>A Lys63Lys
M0106125 OJPHMNKP_00060 42591 4 Skin 0.02 protein_coding synonymous_variant LOW 153G>A Glu51Glu
M0106126 OJPHMNKP_00060 42636 4 Skin 0.02 protein_coding synonymous_variant LOW 108A>G Val36Val
M0106127 OJPHMNKP_00043 34443 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -2981C>A None
M0106128 OJPHMNKP_00043 34547 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -3085T>C None
M0106129 OJPHMNKP_00043 34617 4 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -3155T>C None
M0106130 OJPHMNKP_00043 34641 4 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -3179G>A None
M0106131 OJPHMNKP_00049 34815 3 Skin 0.02 protein_coding synonymous_variant LOW 145C>T Leu49Leu
M0106132 OJPHMNKP_00049 35055 3 Skin 0.02 protein_coding missense_variant MODERATE 385C>T Pro129Ser
M0106133 OJPHMNKP_00049 35154 3 Skin 0.02 protein_coding missense_variant MODERATE 484G>T Gly162Cys
M0106134 OJPHMNKP_00049 35241 3 Skin 0.02 protein_coding missense_variant MODERATE 571T>A Tyr191Asn
M0106135 OJPHMNKP_00049 35257 3 Skin 0.02 protein_coding missense_variant MODERATE 587T>C Met196Thr
M0106136 OJPHMNKP_00049 35365 6 Skin 0.04 protein_coding missense_variant MODERATE 695G>A Arg232His
M0106137 OJPHMNKP_00049 35522 3 Skin 0.02 protein_coding synonymous_variant LOW 852C>A Leu284Leu
M0106138 OJPHMNKP_00049 35574 4 Skin 0.02 protein_coding missense_variant MODERATE 904A>C Lys302Gln
M0106139 OJPHMNKP_00060 42546 3 Skin 0.02 protein_coding synonymous_variant LOW 198T>C Arg66Arg
M0106140 OJPHMNKP_00011 4900 3 Skin 0.02 protein_coding synonymous_variant LOW 201A>T Ile67Ile
M0106141 OJPHMNKP_00011 4910 3 Skin 0.02 protein_coding synonymous_variant LOW 211C>T Leu71Leu
M0106142 OJPHMNKP_00011 4927 3 Skin 0.02 protein_coding synonymous_variant LOW 228C>T Phe76Phe
M0106143 OJPHMNKP_00011 4934 3 Skin 0.02 protein_coding synonymous_variant LOW 235C>T Leu79Leu
M0106144 OJPHMNKP_00011 5002 3 Skin 0.02 protein_coding synonymous_variant LOW 303T>C Asp101Asp
M0106145 OJPHMNKP_00011 5005 3 Skin 0.02 protein_coding synonymous_variant LOW 306A>G Leu102Leu
M0106146 OJPHMNKP_00011 5015 3 Skin 0.02 protein_coding missense_variant MODERATE 316T>A Phe106Ile
M0106147 OJPHMNKP_00011 5046 3 Skin 0.02 protein_coding missense_variant MODERATE 347G>A Arg116Lys
M0106148 OJPHMNKP_00013 7763 4 Skin 0.02 protein_coding missense_variant MODERATE 839G>A Arg280Gln
M0106149 OJPHMNKP_00035 24338 3 Skin 0.02 protein_coding synonymous_variant LOW 570T>G Gly190Gly
M0106150 OJPHMNKP_00003 1528 3 Skin 0.02 protein_coding synonymous_variant LOW 87G>A Thr29Thr
M0106151 OJPHMNKP_00003 1559 3 Skin 0.02 protein_coding missense_variant MODERATE 56A>G His19Arg
M0106152 OJPHMNKP_00007 2696 4 Skin 0.02 protein_coding missense_variant MODERATE 127G>A Asp43Asn
M0106153 OJPHMNKP_00008 2802 3 Skin 0.02 protein_coding missense_variant MODERATE 127A>G Ile43Val
M0106154 OJPHMNKP_00048 33923 5 Skin 0.03 protein_coding synonymous_variant LOW 246C>T Tyr82Tyr
M0106155 OJPHMNKP_00021 16427 4 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -3637A>G None
M0106156 OJPHMNKP_00047 33096 4 Skin 0.02 protein_coding synonymous_variant LOW 267G>A Glu89Glu
M0106157 OJPHMNKP_00047 33165 3 Skin 0.02 protein_coding synonymous_variant LOW 198G>A Leu66Leu
M0106158 OJPHMNKP_00047 33188 3 Skin 0.02 protein_coding synonymous_variant LOW 175C>A Arg59Arg
M0106159 OJPHMNKP_00047 33226 3 Skin 0.02 protein_coding missense_variant MODERATE 137G>A Ser46Asn
M0106160 OJPHMNKP_00047 33285 3 Skin 0.02 protein_coding synonymous_variant LOW 78C>T Asn26Asn
M0106161 OJPHMNKP_00047 33306 3 Skin 0.02 protein_coding synonymous_variant LOW 57A>C Ser19Ser
M0106162 OJPHMNKP_00043 33366 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -1904G>A None
M0106163 OJPHMNKP_00048 33395 3 Skin 0.02 protein_coding synonymous_variant LOW 774A>G Lys258Lys
M0106164 OJPHMNKP_00048 33545 4 Skin 0.02 protein_coding synonymous_variant LOW 624G>A Glu208Glu
M0106165 OJPHMNKP_00048 33559 4 Skin 0.02 protein_coding missense_variant MODERATE 610A>C Lys204Gln
M0106166 OJPHMNKP_00048 33610 3 Skin 0.02 protein_coding synonymous_variant LOW 559T>C Leu187Leu
M0106167 OJPHMNKP_00048 33716 3 Skin 0.02 protein_coding synonymous_variant LOW 453T>A Ala151Ala
M0106168 OJPHMNKP_00048 33797 3 Skin 0.02 protein_coding synonymous_variant LOW 372C>T Asp124Asp
M0106169 OJPHMNKP_00048 33818 4 Skin 0.02 protein_coding synonymous_variant LOW 351A>G Gln117Gln
M0106170 OJPHMNKP_00048 33827 3 Skin 0.02 protein_coding synonymous_variant LOW 342C>T Asn114Asn
M0106171 OJPHMNKP_00048 33836 3 Skin 0.02 protein_coding missense_variant MODERATE 333A>T Glu111Asp
M0106172 OJPHMNKP_00048 33848 3 Skin 0.02 protein_coding missense_variant MODERATE 321A>G Ile107Met
M0106173 OJPHMNKP_00048 33866 3 Skin 0.02 protein_coding synonymous_variant LOW 303A>G Leu101Leu
M0106174 OJPHMNKP_00048 33896 3 Skin 0.02 protein_coding synonymous_variant LOW 273A>G Val91Val
M0106175 OJPHMNKP_00048 34052 4 Skin 0.02 protein_coding synonymous_variant LOW 117T>C Asp39Asp
M0106176 OJPHMNKP_00043 34173 4 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -2711G>T None
M0106177 OJPHMNKP_00049 35314 3 Skin 0.02 protein_coding missense_variant MODERATE 644T>C Ile215Thr
M0106178 OJPHMNKP_00051 36293 3 Skin 0.02 protein_coding synonymous_variant LOW 300C>T Cys100Cys
M0106179 OJPHMNKP_00004 1632 3 Skin 0.02 protein_coding splice_region_variant&stop_retained_variant LOW 266A>G Ter89Ter
M0106180 OJPHMNKP_00004 1651 4 Skin 0.02 protein_coding missense_variant MODERATE 247A>G Thr83Ala
M0106181 OJPHMNKP_00004 1786 8 Skin 0.05 protein_coding missense_variant MODERATE 112A>G Asn38Asp
M0106182 OJPHMNKP_00004 1847 3 Skin 0.02 protein_coding missense_variant MODERATE 51G>T Lys17Asn
M0106183 OJPHMNKP_00004 1874 3 Skin 0.02 protein_coding synonymous_variant LOW 24T>A Ile8Ile
M0106184 OJPHMNKP_00002 2268 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -1120T>C None
M0106185 OJPHMNKP_00002 2284 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -1136C>T None
M0106186 OJPHMNKP_00002 2287 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -1139A>G None
M0106187 OJPHMNKP_00002 2293 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -1145C>T None
M0106188 OJPHMNKP_00002 2300 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -1152C>T None
M0106189 OJPHMNKP_00006 2353 4 Skin 0.02 protein_coding missense_variant MODERATE 37G>C Gly13Arg
M0106190 OJPHMNKP_00006 2430 3 Skin 0.02 protein_coding synonymous_variant LOW 114A>G Thr38Thr
M0106191 OJPHMNKP_00006 2459 4 Skin 0.02 protein_coding missense_variant MODERATE 143G>A Arg48Gln
M0106192 OJPHMNKP_00006 2470 4 Skin 0.02 protein_coding missense_variant MODERATE 154A>G Asn52Asp
M0106193 OJPHMNKP_00006 2482 3 Skin 0.02 protein_coding missense_variant MODERATE 166G>A Ala56Thr
M0106194 OJPHMNKP_00006 2494 3 Skin 0.02 protein_coding missense_variant MODERATE 178T>A Ser60Thr
M0106195 OJPHMNKP_00006 2505 3 Skin 0.02 protein_coding synonymous_variant LOW 189T>C Asp63Asp
M0106196 OJPHMNKP_00006 2506 3 Skin 0.02 protein_coding missense_variant MODERATE 190A>G Asn64Asp
M0106197 OJPHMNKP_00006 2514 3 Skin 0.02 protein_coding synonymous_variant LOW 198C>T Leu66Leu
M0106198 OJPHMNKP_00006 2521 3 Skin 0.02 protein_coding synonymous_variant LOW 205C>T Leu69Leu
M0106199 OJPHMNKP_00006 2549 3 Skin 0.02 protein_coding missense_variant MODERATE 233T>C Ile78Thr
M0106200 OJPHMNKP_00006 2550 3 Skin 0.02 protein_coding synonymous_variant LOW 234T>A Ile78Ile
M0106201 OJPHMNKP_00007 2574 3 Skin 0.02 protein_coding missense_variant MODERATE 5A>C Asn2Thr
M0106202 OJPHMNKP_00007 2587 3 Skin 0.02 protein_coding synonymous_variant LOW 18A>G Gln6Gln
M0106203 OJPHMNKP_00006 848 5 Skin 0.03 protein_coding upstream_gene_variant MODIFIER -1469A>G None
M0106204 OJPHMNKP_00002 1190 3 Skin 0.02 protein_coding upstream_gene_variant MODIFIER -42T>G None
M0106205 OJPHMNKP_00043 31034 3 Skin 0.02 protein_coding synonymous_variant LOW 429C>T Asn143Asn
M0106206 OJPHMNKP_00043 31083 4 Skin 0.02 protein_coding missense_variant MODERATE 380T>C Ile127Thr
M0106207 OJPHMNKP_00012 5296 3 Skin 0.02 protein_coding missense_variant MODERATE 202A>G Arg68Gly
M0106208 OJPHMNKP_00012 5715 3 Skin 0.02 protein_coding synonymous_variant LOW 621T>G Pro207Pro
M0106209 OJPHMNKP_00012 5818 3 Skin 0.02 protein_coding missense_variant MODERATE 724G>A Val242Ile
M0106210 OJPHMNKP_00006 379 5 Skin 0.03 protein_coding upstream_gene_variant MODIFIER -1938A>C None
M0106211 OJPHMNKP_00001 46 3 Skin 0.02 protein_coding synonymous_variant LOW 46T>C Leu16Leu
M0106212 OJPHMNKP_00001 102 4 Skin 0.02 protein_coding synonymous_variant LOW 102T>C Phe34Phe
M0106213 OJPHMNKP_00001 192 3 Skin 0.02 protein_coding synonymous_variant LOW 192C>T Gly64Gly
M0106214 OJPHMNKP_00015 9437 3 Skin 0.02 protein_coding synonymous_variant LOW 279G>A Arg93Arg






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






        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
OJPHMNKP_00018 PHI:6324 StpC 74.3 5.6e-53 6 149 0.9664 1.0000 birds skin infection; food poisoning; respiratory disease cysteine protease unaffected pathogenicity
OJPHMNKP_00036 PHI:6324 StpC 83.5 1.7e-104 1 230 1.0000 1.0000 birds skin infection; food poisoning; respiratory disease cysteine protease unaffected pathogenicity
ACPKNJEH_00018 PHI:6324 StpC 74.3 5.6e-53 6 149 0.9664 1.0000 birds skin infection; food poisoning; respiratory disease cysteine protease unaffected pathogenicity
ACPKNJEH_00036 PHI:6324 StpC 83.5 1.7e-104 1 230 1.0000 1.0000 birds skin infection; food poisoning; respiratory disease cysteine protease unaffected pathogenicity






        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