Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2257
  Reference Plasmid   1111525849758379_bin.3__k141_107575
  Reference Plasmid Size   16801
  Reference Plasmid GC Content   0.67
  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
M0031962 PCFBHMEN_00011 16411 4 Skin 0.31 protein_coding synonymous_variant LOW 243C>G Val81Val
M0031963 PCFBHMEN_00011 16415 4 Skin 0.31 protein_coding missense_variant MODERATE 239A>G Asn80Ser
M0031964 PCFBHMEN_00011 16435 4 Skin 0.31 protein_coding synonymous_variant LOW 219C>T Asp73Asp
M0031965 PCFBHMEN_00011 16450 4 Skin 0.31 protein_coding synonymous_variant LOW 204G>C Val68Val
M0031966 PCFBHMEN_00011 16453 4 Skin 0.31 protein_coding synonymous_variant LOW 201C>T Tyr67Tyr
M0031967 PCFBHMEN_00011 16464 4 Skin 0.31 protein_coding missense_variant MODERATE 190A>C Lys64Gln
M0031968 PCFBHMEN_00011 16495 4 Skin 0.31 protein_coding synonymous_variant LOW 159T>C Asp53Asp
M0031969 PCFBHMEN_00011 16510 4 Skin 0.31 protein_coding synonymous_variant LOW 144C>T Gly48Gly
M0031970 PCFBHMEN_00011 16531 4 Skin 0.31 protein_coding synonymous_variant LOW 123C>T Thr41Thr
M0031971 PCFBHMEN_00011 16540 4 Skin 0.31 protein_coding synonymous_variant LOW 114C>T Gly38Gly
M0031972 PCFBHMEN_00011 16552 4 Skin 0.31 protein_coding synonymous_variant LOW 102G>C Pro34Pro
M0031973 PCFBHMEN_00011 16580 4 Skin 0.31 protein_coding missense_variant MODERATE 74C>G Ala25Gly
M0031974 PCFBHMEN_00011 16639 4 Skin 0.31 protein_coding synonymous_variant LOW 15T>C Asn5Asn
M0031975 PCFBHMEN_00009 16660 4 Skin 0.31 protein_coding upstream_gene_variant MODIFIER -2203T>C None
M0031976 PCFBHMEN_00002 301 5 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -41C>A None
M0031977 PCFBHMEN_00002 311 5 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -31T>C None
M0031978 PCFBHMEN_00002 317 5 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -25C>A None
M0031979 PCFBHMEN_00002 351 6 Skin 0.46 protein_coding missense_variant MODERATE 10C>T Leu4Phe
M0031980 PCFBHMEN_00001 171 4 Skin 0.31 protein_coding missense_variant MODERATE 122A>G Asn41Ser
M0031981 PCFBHMEN_00002 274 4 Skin 0.31 protein_coding upstream_gene_variant MODIFIER -68C>T None
M0031982 PCFBHMEN_00002 297 4 Skin 0.31 protein_coding upstream_gene_variant MODIFIER -45G>A None
M0031983 PCFBHMEN_00002 302 4 Skin 0.31 protein_coding upstream_gene_variant MODIFIER -40T>C None
M0031984 PCFBHMEN_00002 320 4 Skin 0.31 protein_coding upstream_gene_variant MODIFIER -22T>C None
M0031985 PCFBHMEN_00002 563 5 Skin 0.38 protein_coding synonymous_variant LOW 222C>A Ala74Ala






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
PCFBHMEN_00007 UUS15652.1|GT0 97.8 0 1 715 1 1





        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