Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2104
  Reference Plasmid   1111525849742850_bin.20__k141_983465
  Reference Plasmid Size   23641
  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
M0141270 HKLPNBDC_00008 7762 3 Vaginal 0.50 protein_coding synonymous_variant LOW 2325C>T Ile775Ile
M0141271 HKLPNBDC_00008 7840 3 Vaginal 0.50 protein_coding synonymous_variant LOW 2403G>T Ala801Ala
M0141272 HKLPNBDC_00008 7846 3 Vaginal 0.50 protein_coding synonymous_variant LOW 2409C>T Ala803Ala
M0141273 HKLPNBDC_00008 7951 3 Vaginal 0.50 protein_coding synonymous_variant LOW 2514T>C Ser838Ser
M0141274 HKLPNBDC_00008 7999 3 Vaginal 0.50 protein_coding synonymous_variant LOW 2562A>G Leu854Leu
M0141275 HKLPNBDC_00008 8170 3 Vaginal 0.50 protein_coding synonymous_variant LOW 2733T>C Gly911Gly
M0141276 HKLPNBDC_00009 8578 3 Vaginal 0.50 protein_coding synonymous_variant LOW 192T>C Ser64Ser
M0141277 HKLPNBDC_00009 8593 3 Vaginal 0.50 protein_coding synonymous_variant LOW 207T>C Gly69Gly
M0141278 HKLPNBDC_00009 8710 3 Vaginal 0.50 protein_coding synonymous_variant LOW 324A>C Pro108Pro
M0141279 HKLPNBDC_00009 8719 3 Vaginal 0.50 protein_coding synonymous_variant LOW 333T>C Ile111Ile
M0141280 HKLPNBDC_00009 8722 3 Vaginal 0.50 protein_coding synonymous_variant LOW 336T>C Val112Val
M0141281 HKLPNBDC_00009 8836 3 Vaginal 0.50 protein_coding synonymous_variant LOW 450G>A Thr150Thr
M0141282 HKLPNBDC_00009 8846 3 Vaginal 0.50 protein_coding synonymous_variant LOW 460T>C Leu154Leu
M0141283 HKLPNBDC_00009 8851 3 Vaginal 0.50 protein_coding synonymous_variant LOW 465G>T Ser155Ser
M0141284 HKLPNBDC_00009 8863 3 Vaginal 0.50 protein_coding synonymous_variant LOW 477T>A Val159Val
M0141285 HKLPNBDC_00009 9091 3 Vaginal 0.50 protein_coding synonymous_variant LOW 705G>A Lys235Lys
M0141286 HKLPNBDC_00009 9109 3 Vaginal 0.50 protein_coding synonymous_variant LOW 723C>T Ile241Ile
M0141287 HKLPNBDC_00009 9136 3 Vaginal 0.50 protein_coding synonymous_variant LOW 750T>C Ser250Ser
M0141288 HKLPNBDC_00009 9191 3 Vaginal 0.50 protein_coding missense_variant MODERATE 805C>A Leu269Ile
M0141289 HKLPNBDC_00009 9400 3 Vaginal 0.50 protein_coding synonymous_variant LOW 1014T>A Thr338Thr
M0141290 HKLPNBDC_00009 9431 3 Vaginal 0.50 protein_coding missense_variant MODERATE 1045G>A Ala349Thr
M0141291 HKLPNBDC_00009 9432 3 Vaginal 0.50 protein_coding missense_variant MODERATE 1046C>A Ala349Glu
M0141292 HKLPNBDC_00009 9435 3 Vaginal 0.50 protein_coding missense_variant MODERATE 1049A>C Asn350Thr
M0141293 HKLPNBDC_00009 9538 3 Vaginal 0.50 protein_coding synonymous_variant LOW 1152A>G Glu384Glu






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