Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1920
  Reference Plasmid   1111525849668387_bin.24__k141_770709
  Reference Plasmid Size   3682
  Reference Plasmid GC Content   0.55
  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
M0019766 PJACJNMD_00001 770 5 Skin 0.71 protein_coding synonymous_variant LOW 1266C>T Val422Val
M0019767 PJACJNMD_00001 824 5 Skin 0.71 protein_coding synonymous_variant LOW 1212T>C Tyr404Tyr
M0019768 PJACJNMD_00001 1106 4 Skin 0.57 protein_coding synonymous_variant LOW 930C>A Ala310Ala
M0019769 PJACJNMD_00001 1952 5 Skin 0.71 protein_coding synonymous_variant LOW 84C>T Ala28Ala
M0019770 PJACJNMD_00001 2047 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -12A>T None
M0019771 PJACJNMD_00001 2091 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -56A>G None
M0019772 PJACJNMD_00002 2637 6 Skin 0.86 protein_coding synonymous_variant LOW 405C>T Ala135Ala
M0019773 PJACJNMD_00002 2694 6 Skin 0.86 protein_coding synonymous_variant LOW 462C>T Arg154Arg
M0019774 PJACJNMD_00002 2700 5 Skin 0.71 protein_coding synonymous_variant LOW 468C>T Phe156Phe
M0019775 PJACJNMD_00002 2742 5 Skin 0.71 protein_coding synonymous_variant LOW 510C>T Ala170Ala
M0019776 PJACJNMD_00001 1367 5 Skin 0.71 protein_coding synonymous_variant LOW 669G>A Ala223Ala
M0019777 PJACJNMD_00002 2316 4 Skin 0.57 protein_coding synonymous_variant LOW 84G>A Thr28Thr
M0019778 PJACJNMD_00001 1551 3 Skin 0.43 protein_coding missense_variant MODERATE 485T>C Met162Thr
M0019779 PJACJNMD_00001 1574 3 Skin 0.43 protein_coding synonymous_variant LOW 462A>G Ser154Ser






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