Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2862
  Reference Plasmid   DP1807004436_bin.4__NODE_752_length_6718_cov_0.720351
  Reference Plasmid Size   6718
  Reference Plasmid GC Content   0.65
  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
M0064454 MLICNCCL_00001 602 4 Skin 1.00 protein_coding upstream_gene_variant MODIFIER -268C>T None
M0064455 MLICNCCL_00001 691 4 Skin 1.00 protein_coding upstream_gene_variant MODIFIER -179C>T None
M0064456 MLICNCCL_00001 696 4 Skin 1.00 protein_coding upstream_gene_variant MODIFIER -174G>A None
M0064457 MLICNCCL_00001 1151 3 Skin 0.75 protein_coding synonymous_variant LOW 282C>T Asp94Asp
M0064458 MLICNCCL_00001 1202 3 Skin 0.75 protein_coding synonymous_variant LOW 333A>G Ala111Ala
M0064459 MLICNCCL_00001 1220 3 Skin 0.75 protein_coding synonymous_variant LOW 351G>T Gly117Gly
M0064460 MLICNCCL_00001 1223 3 Skin 0.75 protein_coding synonymous_variant LOW 354T>C His118His
M0064461 MLICNCCL_00001 1952 3 Skin 0.75 protein_coding synonymous_variant LOW 1083A>G Ala361Ala
M0064462 MLICNCCL_00001 1961 3 Skin 0.75 protein_coding synonymous_variant LOW 1092G>T Ala364Ala
M0064463 MLICNCCL_00001 1967 3 Skin 0.75 protein_coding synonymous_variant LOW 1098G>C Thr366Thr
M0064464 MLICNCCL_00001 1995 3 Skin 0.75 protein_coding missense_variant MODERATE 1126T>A Ser376Thr
M0064465 MLICNCCL_00001 1996 3 Skin 0.75 protein_coding missense_variant MODERATE 1127C>G Ser376Cys
M0064466 MLICNCCL_00001 2276 3 Skin 0.75 protein_coding synonymous_variant LOW 1407G>C Leu469Leu
M0064467 MLICNCCL_00001 2360 4 Skin 1.00 protein_coding synonymous_variant LOW 1491T>A Ala497Ala
M0064468 MLICNCCL_00001 701 3 Skin 0.75 protein_coding upstream_gene_variant MODIFIER -169A>G None
M0064469 MLICNCCL_00001 702 3 Skin 0.75 protein_coding upstream_gene_variant MODIFIER -168G>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