Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3088
  Reference Plasmid   MET0107_bin.1__k81_1235
  Reference Plasmid Size   13921
  Reference Plasmid GC Content   0.33
  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
M0074211 HCLKNPAL_00001 236 3 Skin 0.60 protein_coding synonymous_variant LOW 1263A>C Thr421Thr
M0074212 HCLKNPAL_00001 296 3 Skin 0.60 protein_coding synonymous_variant LOW 1203T>C Gly401Gly
M0074213 HCLKNPAL_00001 361 3 Skin 0.60 protein_coding missense_variant MODERATE 1138G>A Asp380Asn
M0074214 HCLKNPAL_00001 362 3 Skin 0.60 protein_coding synonymous_variant LOW 1137T>C Tyr379Tyr
M0074215 HCLKNPAL_00001 368 3 Skin 0.60 protein_coding synonymous_variant LOW 1131T>A Val377Val
M0074216 HCLKNPAL_00001 386 3 Skin 0.60 protein_coding missense_variant MODERATE 1113G>C Glu371Asp
M0074217 HCLKNPAL_00001 479 3 Skin 0.60 protein_coding synonymous_variant LOW 1020G>A Glu340Glu
M0074218 HCLKNPAL_00001 482 3 Skin 0.60 protein_coding synonymous_variant LOW 1017T>C Gly339Gly
M0074219 HCLKNPAL_00001 632 3 Skin 0.60 protein_coding synonymous_variant LOW 867C>T Ala289Ala
M0074220 HCLKNPAL_00001 668 3 Skin 0.60 protein_coding synonymous_variant LOW 831G>C Gly277Gly
M0074221 HCLKNPAL_00001 713 3 Skin 0.60 protein_coding synonymous_variant LOW 786T>A Pro262Pro
M0074222 HCLKNPAL_00001 854 3 Skin 0.60 protein_coding synonymous_variant LOW 645G>A Thr215Thr
M0074223 HCLKNPAL_00001 875 3 Skin 0.60 protein_coding synonymous_variant LOW 624T>A Pro208Pro
M0074224 HCLKNPAL_00001 908 3 Skin 0.60 protein_coding synonymous_variant LOW 591A>T Gly197Gly
M0074225 HCLKNPAL_00001 923 3 Skin 0.60 protein_coding synonymous_variant LOW 576T>C Phe192Phe
M0074226 HCLKNPAL_00001 927 3 Skin 0.60 protein_coding missense_variant MODERATE 572A>C Lys191Thr
M0074227 HCLKNPAL_00001 977 3 Skin 0.60 protein_coding synonymous_variant LOW 522T>C Phe174Phe
M0074228 HCLKNPAL_00001 1145 3 Skin 0.60 protein_coding synonymous_variant LOW 354A>T Ile118Ile
M0074229 HCLKNPAL_00001 1190 3 Skin 0.60 protein_coding synonymous_variant LOW 309C>T Asp103Asp
M0074230 HCLKNPAL_00001 1292 3 Skin 0.60 protein_coding synonymous_variant LOW 207A>C Ile69Ile
M0074231 HCLKNPAL_00001 1492 3 Skin 0.60 protein_coding missense_variant MODERATE 7G>C Val3Leu
M0074232 HCLKNPAL_00001 1510 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -12C>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