Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2265
  Reference Plasmid   1111525849758568_bin.24__k141_564733
  Reference Plasmid Size   14644
  Reference Plasmid GC Content   0.53
  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
M0032037 LODAGNIE_00012 9669 8 Skin 0.38 protein_coding synonymous_variant LOW 483C>T Asn161Asn
M0032038 LODAGNIE_00008 5287 4 Skin 0.19 protein_coding stop_gained HIGH 655G>T Gly219*
M0032039 LODAGNIE_00016 13235 3 Skin 0.14 protein_coding missense_variant MODERATE 433C>T Arg145Cys
M0032040 LODAGNIE_00008 5840 3 Skin 0.14 protein_coding synonymous_variant LOW 102T>G Ser34Ser
M0032041 LODAGNIE_00008 5853 3 Skin 0.14 protein_coding missense_variant MODERATE 89G>A Ser30Asn
M0032042 LODAGNIE_00008 5867 3 Skin 0.14 protein_coding synonymous_variant LOW 75C>T Ser25Ser
M0032043 LODAGNIE_00008 5882 3 Skin 0.14 protein_coding synonymous_variant LOW 60T>C Phe20Phe
M0032044 LODAGNIE_00008 5885 3 Skin 0.14 protein_coding synonymous_variant LOW 57C>T Asn19Asn
M0032045 LODAGNIE_00008 5909 4 Skin 0.19 protein_coding synonymous_variant LOW 33A>G Ala11Ala






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
LODAGNIE_00016 8.A.1.7.1 72.7 2.6e-121 1 311 1.0000 1.0000 8 Accessory Factors Involved in Transport 8.A Auxiliary transport proteins 8.A.1 The Membrane Fusion Protein (MFP) Family
LODAGNIE_00017 8.A.48.1.2 83.6 4.5e-26 1 67 1.0000 0.7444 8 Accessory Factors Involved in Transport 8.A Auxiliary transport proteins 8.A.48 The Putative Auxiliary Aromatic Acid Exporter (AaeX) Family