Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1800
  Reference Plasmid   1111525849645395_bin.11__k141_623981
  Reference Plasmid Size   15838
  Reference Plasmid GC Content   0.68
  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
M0016188 JMMHILCP_00007 9909 5 Skin 0.36 protein_coding missense_variant MODERATE 1120A>G Thr374Ala
M0016189 JMMHILCP_00007 9914 5 Skin 0.36 protein_coding synonymous_variant LOW 1125C>G Pro375Pro
M0016190 JMMHILCP_00007 9917 5 Skin 0.36 protein_coding synonymous_variant LOW 1128T>C Leu376Leu
M0016191 JMMHILCP_00007 9923 5 Skin 0.36 protein_coding synonymous_variant LOW 1134G>C Ala378Ala
M0016192 JMMHILCP_00007 9941 5 Skin 0.36 protein_coding synonymous_variant LOW 1152G>T Arg384Arg
M0016193 JMMHILCP_00007 9950 5 Skin 0.36 protein_coding missense_variant MODERATE 1161C>G His387Gln
M0016194 JMMHILCP_00007 9956 5 Skin 0.36 protein_coding synonymous_variant LOW 1167T>G Ala389Ala
M0016195 JMMHILCP_00007 9957 5 Skin 0.36 protein_coding synonymous_variant LOW 1168C>T Leu390Leu
M0016196 JMMHILCP_00007 9965 5 Skin 0.36 protein_coding synonymous_variant LOW 1176G>T Leu392Leu
M0016197 JMMHILCP_00007 9966 5 Skin 0.36 protein_coding missense_variant MODERATE 1177T>G Leu393Val
M0016198 JMMHILCP_00007 9996 4 Skin 0.29 protein_coding synonymous_variant LOW 1207C>T Leu403Leu
M0016199 JMMHILCP_00007 10009 4 Skin 0.29 protein_coding missense_variant MODERATE 1220T>C Leu407Pro
M0016200 JMMHILCP_00007 10013 5 Skin 0.36 protein_coding synonymous_variant LOW 1224G>C Gly408Gly
M0016201 JMMHILCP_00007 10021 4 Skin 0.29 protein_coding missense_variant MODERATE 1232A>C Glu411Ala
M0016202 JMMHILCP_00007 10025 5 Skin 0.36 protein_coding synonymous_variant LOW 1236G>C Val412Val
M0016203 JMMHILCP_00007 10032 5 Skin 0.36 protein_coding synonymous_variant LOW 1243T>C Leu415Leu
M0016204 JMMHILCP_00008 10351 6 Skin 0.43 protein_coding synonymous_variant LOW 1170C>T Cys390Cys
M0016205 JMMHILCP_00008 10366 7 Skin 0.50 protein_coding synonymous_variant LOW 1155C>T Gly385Gly
M0016206 JMMHILCP_00008 10372 7 Skin 0.50 protein_coding synonymous_variant LOW 1149C>G Pro383Pro
M0016207 JMMHILCP_00008 10384 7 Skin 0.50 protein_coding synonymous_variant LOW 1137C>G Leu379Leu
M0016208 JMMHILCP_00008 10409 7 Skin 0.50 protein_coding missense_variant MODERATE 1112G>A Arg371Lys
M0016209 JMMHILCP_00008 10414 6 Skin 0.43 protein_coding synonymous_variant LOW 1107C>T Asp369Asp
M0016210 JMMHILCP_00008 10429 7 Skin 0.50 protein_coding synonymous_variant LOW 1092T>C Phe364Phe
M0016211 JMMHILCP_00008 10438 6 Skin 0.43 protein_coding synonymous_variant LOW 1083T>C Val361Val
M0016212 JMMHILCP_00008 10441 6 Skin 0.43 protein_coding synonymous_variant LOW 1080C>G Arg360Arg
M0016213 JMMHILCP_00008 10444 6 Skin 0.43 protein_coding synonymous_variant LOW 1077C>A Gly359Gly
M0016214 JMMHILCP_00008 10452 6 Skin 0.43 protein_coding missense_variant MODERATE 1069G>A Asp357Asn
M0016215 JMMHILCP_00008 10453 6 Skin 0.43 protein_coding missense_variant MODERATE 1068G>C Glu356Asp
M0016216 JMMHILCP_00008 10480 6 Skin 0.43 protein_coding synonymous_variant LOW 1041G>A Gln347Gln
M0016217 JMMHILCP_00008 10498 6 Skin 0.43 protein_coding synonymous_variant LOW 1023C>T Gly341Gly
M0016218 JMMHILCP_00008 10516 6 Skin 0.43 protein_coding synonymous_variant LOW 1005G>C Leu335Leu
M0016219 JMMHILCP_00008 10531 6 Skin 0.43 protein_coding missense_variant MODERATE 990G>C Glu330Asp
M0016220 JMMHILCP_00008 10549 6 Skin 0.43 protein_coding synonymous_variant LOW 972G>A Glu324Glu
M0016221 JMMHILCP_00008 10564 6 Skin 0.43 protein_coding synonymous_variant LOW 957C>G Leu319Leu
M0016222 JMMHILCP_00008 10585 6 Skin 0.43 protein_coding synonymous_variant LOW 936C>T Gly312Gly
M0016223 JMMHILCP_00008 10594 6 Skin 0.43 protein_coding synonymous_variant LOW 927G>C Arg309Arg
M0016224 JMMHILCP_00008 10606 6 Skin 0.43 protein_coding synonymous_variant LOW 915T>C Asn305Asn
M0016225 JMMHILCP_00008 10624 6 Skin 0.43 protein_coding synonymous_variant LOW 897G>A Glu299Glu
M0016226 JMMHILCP_00008 10630 6 Skin 0.43 protein_coding synonymous_variant LOW 891C>T Asp297Asp
M0016227 JMMHILCP_00008 10648 6 Skin 0.43 protein_coding synonymous_variant LOW 873C>T Arg291Arg
M0016228 JMMHILCP_00008 10699 4 Skin 0.29 protein_coding synonymous_variant LOW 822C>G Ser274Ser
M0016229 JMMHILCP_00008 10735 6 Skin 0.43 protein_coding synonymous_variant LOW 786A>G Gly262Gly
M0016230 JMMHILCP_00008 10816 6 Skin 0.43 protein_coding synonymous_variant LOW 705T>G Val235Val
M0016231 JMMHILCP_00008 10849 6 Skin 0.43 protein_coding synonymous_variant LOW 672C>T His224His
M0016232 JMMHILCP_00008 10861 6 Skin 0.43 protein_coding synonymous_variant LOW 660C>G Gly220Gly
M0016233 JMMHILCP_00008 10868 6 Skin 0.43 protein_coding missense_variant MODERATE 653C>G Ala218Gly
M0016234 JMMHILCP_00008 10888 6 Skin 0.43 protein_coding synonymous_variant LOW 633A>C Val211Val
M0016235 JMMHILCP_00008 10891 6 Skin 0.43 protein_coding synonymous_variant LOW 630C>G Leu210Leu
M0016236 JMMHILCP_00008 10982 5 Skin 0.36 protein_coding missense_variant MODERATE 539G>C Ser180Thr
M0016237 JMMHILCP_00008 11037 5 Skin 0.36 protein_coding missense_variant MODERATE 484A>G Ile162Val
M0016238 JMMHILCP_00008 11062 5 Skin 0.36 protein_coding synonymous_variant LOW 459G>C Val153Val
M0016239 JMMHILCP_00008 11068 5 Skin 0.36 protein_coding synonymous_variant LOW 453A>G Thr151Thr
M0016240 JMMHILCP_00008 11083 5 Skin 0.36 protein_coding synonymous_variant LOW 438T>C Val146Val
M0016241 JMMHILCP_00008 11104 5 Skin 0.36 protein_coding synonymous_variant LOW 417G>A Pro139Pro
M0016242 JMMHILCP_00008 11147 5 Skin 0.36 protein_coding missense_variant MODERATE 374C>G Pro125Arg
M0016243 JMMHILCP_00008 11148 5 Skin 0.36 protein_coding missense_variant MODERATE 373C>A Pro125Thr
M0016244 JMMHILCP_00008 11167 5 Skin 0.36 protein_coding synonymous_variant LOW 354C>T Gly118Gly
M0016245 JMMHILCP_00008 11176 5 Skin 0.36 protein_coding synonymous_variant LOW 345T>C Asp115Asp
M0016246 JMMHILCP_00008 11287 6 Skin 0.43 protein_coding synonymous_variant LOW 234A>G Gln78Gln
M0016247 JMMHILCP_00008 11290 4 Skin 0.29 protein_coding synonymous_variant LOW 231C>A Gly77Gly
M0016248 JMMHILCP_00008 11293 4 Skin 0.29 protein_coding synonymous_variant LOW 228G>C Pro76Pro
M0016249 JMMHILCP_00008 11305 6 Skin 0.43 protein_coding synonymous_variant LOW 216T>C Gly72Gly
M0016250 JMMHILCP_00009 11763 6 Skin 0.43 protein_coding missense_variant MODERATE 61C>T Leu21Phe
M0016251 JMMHILCP_00009 11879 5 Skin 0.36 protein_coding synonymous_variant LOW 177C>G Gly59Gly
M0016252 JMMHILCP_00009 11924 3 Skin 0.21 protein_coding synonymous_variant LOW 222C>T Phe74Phe
M0016253 JMMHILCP_00009 11934 6 Skin 0.43 protein_coding synonymous_variant LOW 232A>C Arg78Arg
M0016254 JMMHILCP_00009 12047 3 Skin 0.21 protein_coding synonymous_variant LOW 345T>G Gly115Gly
M0016255 JMMHILCP_00009 12065 3 Skin 0.21 protein_coding synonymous_variant LOW 363C>T Leu121Leu
M0016256 JMMHILCP_00010 12157 4 Skin 0.29 protein_coding synonymous_variant LOW 24G>A Ala8Ala
M0016257 JMMHILCP_00001 362 5 Skin 0.36 protein_coding missense_variant MODERATE 299G>T Arg100Leu
M0016258 JMMHILCP_00008 11364 5 Skin 0.36 protein_coding synonymous_variant LOW 157T>C Leu53Leu
M0016259 JMMHILCP_00008 11372 3 Skin 0.21 protein_coding missense_variant MODERATE 149T>G Met50Arg
M0016260 JMMHILCP_00008 11386 5 Skin 0.36 protein_coding synonymous_variant LOW 135T>C Ala45Ala
M0016261 JMMHILCP_00008 11409 5 Skin 0.36 protein_coding missense_variant MODERATE 112G>A Ala38Thr
M0016262 JMMHILCP_00008 11422 4 Skin 0.29 protein_coding synonymous_variant LOW 99T>C Tyr33Tyr
M0016263 JMMHILCP_00009 11807 3 Skin 0.21 protein_coding synonymous_variant LOW 105C>T Ala35Ala
M0016264 JMMHILCP_00010 12178 3 Skin 0.21 protein_coding synonymous_variant LOW 45G>C Leu15Leu
M0016265 JMMHILCP_00010 12550 3 Skin 0.21 protein_coding synonymous_variant LOW 417T>G Val139Val
M0016266 JMMHILCP_00010 12229 4 Skin 0.29 protein_coding synonymous_variant LOW 96C>T Asn32Asn
M0016267 JMMHILCP_00010 12289 3 Skin 0.21 protein_coding synonymous_variant LOW 156G>A Ala52Ala
M0016268 JMMHILCP_00010 12313 4 Skin 0.29 protein_coding synonymous_variant LOW 180G>C Thr60Thr
M0016269 JMMHILCP_00010 12322 4 Skin 0.29 protein_coding synonymous_variant LOW 189T>C Ala63Ala






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






        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
JMMHILCP_00011 QYF88331.1|CE20 85.4 0 30 661 0.9518 0.9768





        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