Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C54
  Reference Plasmid   CP003669.1
  Reference Plasmid Size   4374
  Reference Plasmid GC Content   0.32
  Reference Plasmid Mobility Type   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
M0143101 CBFEMBHN_00001 78 3 Gut 0.75 protein_coding synonymous_variant LOW 42C>T Asn14Asn
M0143102 CBFEMBHN_00001 108 3 Gut 0.75 protein_coding synonymous_variant LOW 72G>A Glu24Glu
M0143103 CBFEMBHN_00001 114 3 Gut 0.75 protein_coding synonymous_variant LOW 78T>A Gly26Gly
M0143104 CBFEMBHN_00001 150 3 Gut 0.75 protein_coding missense_variant MODERATE 114T>G Phe38Leu
M0143105 CBFEMBHN_00001 168 3 Gut 0.75 protein_coding synonymous_variant LOW 132T>C Asp44Asp
M0143106 CBFEMBHN_00001 237 3 Gut 0.75 protein_coding synonymous_variant LOW 201T>C Ala67Ala
M0143107 CBFEMBHN_00001 259 3 Gut 0.75 protein_coding missense_variant MODERATE 223G>T Asp75Tyr
M0143108 CBFEMBHN_00001 333 3 Gut 0.75 protein_coding synonymous_variant LOW 297T>C Ser99Ser
M0143109 CBFEMBHN_00001 349 3 Gut 0.75 protein_coding missense_variant MODERATE 313G>A Glu105Lys
M0143110 CBFEMBHN_00001 352 3 Gut 0.75 protein_coding missense_variant MODERATE 316A>G Lys106Glu
M0143111 CBFEMBHN_00001 378 3 Gut 0.75 protein_coding synonymous_variant LOW 342A>G Arg114Arg
M0143112 CBFEMBHN_00001 462 3 Gut 0.75 protein_coding synonymous_variant LOW 426T>G Ala142Ala
M0143113 CBFEMBHN_00001 510 3 Gut 0.75 protein_coding synonymous_variant LOW 474G>A Glu158Glu
M0143114 CBFEMBHN_00001 511 3 Gut 0.75 protein_coding synonymous_variant LOW 475C>A Arg159Arg
M0143115 CBFEMBHN_00001 512 3 Gut 0.75 protein_coding missense_variant MODERATE 476G>A Arg159Gln
M0143116 CBFEMBHN_00001 540 4 Gut 1.00 protein_coding synonymous_variant LOW 504A>G Gln168Gln
M0143117 CBFEMBHN_00001 579 4 Gut 1.00 protein_coding synonymous_variant LOW 543G>A Glu181Glu
M0143118 CBFEMBHN_00002 739 4 Gut 1.00 protein_coding synonymous_variant LOW 36C>T Gly12Gly
M0143119 CBFEMBHN_00002 751 4 Gut 1.00 protein_coding missense_variant MODERATE 48A>T Gln16His
M0143120 CBFEMBHN_00002 757 4 Gut 1.00 protein_coding missense_variant MODERATE 54T>G Asp18Glu
M0143121 CBFEMBHN_00002 806 4 Gut 1.00 protein_coding synonymous_variant LOW 103C>T Leu35Leu
M0143122 CBFEMBHN_00002 826 4 Gut 1.00 protein_coding synonymous_variant LOW 123G>A Arg41Arg
M0143123 CBFEMBHN_00002 854 4 Gut 1.00 protein_coding missense_variant MODERATE 151A>G Lys51Glu
M0143124 CBFEMBHN_00002 925 4 Gut 1.00 protein_coding synonymous_variant LOW 222G>A Gly74Gly
M0143125 CBFEMBHN_00002 928 4 Gut 1.00 protein_coding missense_variant MODERATE 225A>T Leu75Phe
M0143126 CBFEMBHN_00002 937 4 Gut 1.00 protein_coding missense_variant MODERATE 234A>G Ile78Met
M0143127 CBFEMBHN_00002 938 4 Gut 1.00 protein_coding missense_variant MODERATE 235A>T Ile79Leu
M0143128 CBFEMBHN_00002 979 4 Gut 1.00 protein_coding synonymous_variant LOW 276T>C Gly92Gly
M0143129 CBFEMBHN_00002 1015 4 Gut 1.00 protein_coding synonymous_variant LOW 312G>A Leu104Leu
M0143130 CBFEMBHN_00002 1033 4 Gut 1.00 protein_coding synonymous_variant LOW 330C>T Ser110Ser
M0143131 CBFEMBHN_00002 1067 4 Gut 1.00 protein_coding missense_variant MODERATE 364G>A Val122Ile
M0143132 CBFEMBHN_00005 2206 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -40G>A None
M0143133 CBFEMBHN_00005 2283 4 Gut 1.00 protein_coding missense_variant MODERATE 38G>A Arg13Lys
M0143134 CBFEMBHN_00005 2863 4 Gut 1.00 protein_coding synonymous_variant LOW 618T>C His206His
M0143135 CBFEMBHN_00006 3274 4 Gut 1.00 protein_coding missense_variant MODERATE 79T>G Ser27Ala
M0143136 CBFEMBHN_00007 3566 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -216G>T None
M0143137 CBFEMBHN_00007 3622 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -160A>G None
M0143138 CBFEMBHN_00007 3627 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -155C>A None
M0143139 CBFEMBHN_00007 3632 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -150A>G None
M0143140 CBFEMBHN_00007 3633 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -149T>A None
M0143141 CBFEMBHN_00007 3636 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -146A>T None
M0143142 CBFEMBHN_00007 3637 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -145T>C None
M0143143 CBFEMBHN_00007 3642 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -140G>T None
M0143144 CBFEMBHN_00007 3657 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -125C>T None
M0143145 CBFEMBHN_00007 3673 4 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -109G>T None
M0143146 CBFEMBHN_00007 3833 3 Gut 0.75 protein_coding missense_variant MODERATE 52C>A Gln18Lys
M0143147 CBFEMBHN_00007 4057 4 Gut 1.00 protein_coding synonymous_variant LOW 276G>T Ala92Ala
M0143148 CBFEMBHN_00001 4349 3 Gut 0.75 protein_coding downstream_gene_variant MODIFIER *3614C>G 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