Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3251
  Reference Plasmid   MET0654_bin.1__k81_32023
  Reference Plasmid Size   41119
  Reference Plasmid GC Content   0.42
  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
M0082016 CDOJOOBD_00012 10487 7 Skin 0.70 protein_coding synonymous_variant LOW 114T>C Phe38Phe
M0082017 CDOJOOBD_00007 7171 3 Skin 0.30 protein_coding synonymous_variant LOW 333T>C Ala111Ala
M0082018 CDOJOOBD_00007 7174 3 Skin 0.30 protein_coding synonymous_variant LOW 330A>G Val110Val
M0082019 CDOJOOBD_00007 7177 3 Skin 0.30 protein_coding synonymous_variant LOW 327A>T Ile109Ile
M0082020 CDOJOOBD_00007 7192 3 Skin 0.30 protein_coding synonymous_variant LOW 312T>C Thr104Thr
M0082021 CDOJOOBD_00007 7398 3 Skin 0.30 protein_coding missense_variant MODERATE 106G>C Glu36Gln
M0082022 CDOJOOBD_00008 7675 3 Skin 0.30 protein_coding synonymous_variant LOW 597A>G Ser199Ser
M0082023 CDOJOOBD_00008 7807 3 Skin 0.30 protein_coding synonymous_variant LOW 465T>C Thr155Thr
M0082024 CDOJOOBD_00008 7813 3 Skin 0.30 protein_coding synonymous_variant LOW 459A>T Val153Val
M0082025 CDOJOOBD_00008 8038 3 Skin 0.30 protein_coding synonymous_variant LOW 234A>G Glu78Glu
M0082026 CDOJOOBD_00008 8104 3 Skin 0.30 protein_coding synonymous_variant LOW 168T>C Ala56Ala
M0082027 CDOJOOBD_00008 8140 3 Skin 0.30 protein_coding synonymous_variant LOW 132A>G Glu44Glu
M0082028 CDOJOOBD_00005 8357 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -1997A>C None
M0082029 CDOJOOBD_00009 8760 3 Skin 0.30 protein_coding synonymous_variant LOW 201C>A Ser67Ser
M0082030 CDOJOOBD_00009 8764 3 Skin 0.30 protein_coding synonymous_variant LOW 205T>C Leu69Leu
M0082031 CDOJOOBD_00009 8769 3 Skin 0.30 protein_coding synonymous_variant LOW 210A>G Leu70Leu
M0082032 CDOJOOBD_00009 8772 3 Skin 0.30 protein_coding synonymous_variant LOW 213T>C Asp71Asp
M0082033 CDOJOOBD_00009 9057 3 Skin 0.30 protein_coding synonymous_variant LOW 498G>A Val166Val
M0082034 CDOJOOBD_00009 9063 3 Skin 0.30 protein_coding synonymous_variant LOW 504T>C Tyr168Tyr
M0082035 CDOJOOBD_00009 9066 3 Skin 0.30 protein_coding synonymous_variant LOW 507T>C Asp169Asp
M0082036 CDOJOOBD_00009 9081 3 Skin 0.30 protein_coding synonymous_variant LOW 522C>T Asp174Asp
M0082037 CDOJOOBD_00010 9817 3 Skin 0.30 protein_coding synonymous_variant LOW 264A>G Lys88Lys
M0082038 CDOJOOBD_00011 10280 3 Skin 0.30 protein_coding synonymous_variant LOW 237A>G Arg79Arg
M0082039 CDOJOOBD_00012 10469 3 Skin 0.30 protein_coding synonymous_variant LOW 96C>T Ala32Ala
M0082040 CDOJOOBD_00012 10493 3 Skin 0.30 protein_coding synonymous_variant LOW 120T>A Ala40Ala
M0082041 CDOJOOBD_00012 10499 3 Skin 0.30 protein_coding synonymous_variant LOW 126C>T Leu42Leu
M0082042 CDOJOOBD_00012 10503 3 Skin 0.30 protein_coding synonymous_variant LOW 130C>T Leu44Leu
M0082043 CDOJOOBD_00012 10568 3 Skin 0.30 protein_coding synonymous_variant LOW 195T>C Ala65Ala
M0082044 CDOJOOBD_00012 10569 3 Skin 0.30 protein_coding missense_variant MODERATE 196T>A Leu66Met
M0082045 CDOJOOBD_00012 11519 3 Skin 0.30 protein_coding synonymous_variant LOW 1146T>C Thr382Thr
M0082046 CDOJOOBD_00006 11790 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4896C>A None
M0082047 CDOJOOBD_00006 11827 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4933T>C None
M0082048 CDOJOOBD_00006 11862 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4968T>G None
M0082049 CDOJOOBD_00006 11865 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4971T>C None
M0082050 CDOJOOBD_00006 11871 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4977T>C None
M0082051 CDOJOOBD_00006 11881 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -4987T>C None
M0082052 CDOJOOBD_00007 12004 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -4501G>A None
M0082053 CDOJOOBD_00013 12167 3 Skin 0.30 protein_coding synonymous_variant LOW 121T>C Leu41Leu
M0082054 CDOJOOBD_00013 12176 3 Skin 0.30 protein_coding synonymous_variant LOW 130T>C Leu44Leu
M0082055 CDOJOOBD_00013 12178 3 Skin 0.30 protein_coding synonymous_variant LOW 132G>A Leu44Leu
M0082056 CDOJOOBD_00013 12196 3 Skin 0.30 protein_coding synonymous_variant LOW 150G>A Glu50Glu
M0082057 CDOJOOBD_00013 12214 4 Skin 0.40 protein_coding synonymous_variant LOW 168C>T Asn56Asn
M0082058 CDOJOOBD_00013 12232 3 Skin 0.30 protein_coding synonymous_variant LOW 186T>C Pro62Pro
M0082059 CDOJOOBD_00006 11826 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -4932C>T None
M0082060 CDOJOOBD_00006 11837 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -4943A>T None
M0082061 CDOJOOBD_00006 11852 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -4958A>T None






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





        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