Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C401
  Reference Plasmid   NZ_CP005089.1
  Reference Plasmid Size   53908
  Reference Plasmid GC Content   0.61
  Reference Plasmid Mobility Type   conjugative





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
M0087058 NJFKPONP_00009 8448 9 Skin 0.43 protein_coding missense_variant MODERATE 319A>T Ile107Phe
M0087059 NJFKPONP_00011 8477 9 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -1574C>G None
M0087060 NJFKPONP_00011 8520 9 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -1531C>A None
M0087061 NJFKPONP_00011 8571 9 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -1480C>A None
M0087062 NJFKPONP_00011 8578 9 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -1473T>G None
M0087063 NJFKPONP_00011 8579 9 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -1472C>G None
M0087064 NJFKPONP_00011 8585 9 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -1466C>T None
M0087065 NJFKPONP_00011 8682 9 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -1369G>A None
M0087066 NJFKPONP_00010 8917 8 Skin 0.38 protein_coding synonymous_variant LOW 966C>G Ala322Ala
M0087067 NJFKPONP_00010 8923 8 Skin 0.38 protein_coding synonymous_variant LOW 960A>G Glu320Glu
M0087068 NJFKPONP_00010 9061 8 Skin 0.38 protein_coding synonymous_variant LOW 822T>C Phe274Phe
M0087069 NJFKPONP_00010 9070 8 Skin 0.38 protein_coding synonymous_variant LOW 813T>A Ala271Ala
M0087070 NJFKPONP_00010 9418 11 Skin 0.52 protein_coding synonymous_variant LOW 465A>G Arg155Arg
M0087071 NJFKPONP_00010 9429 8 Skin 0.38 protein_coding synonymous_variant LOW 454A>C Arg152Arg
M0087072 NJFKPONP_00010 9442 9 Skin 0.43 protein_coding synonymous_variant LOW 441G>A Glu147Glu
M0087073 NJFKPONP_00010 9451 8 Skin 0.38 protein_coding synonymous_variant LOW 432C>T Ser144Ser
M0087074 NJFKPONP_00010 9511 10 Skin 0.48 protein_coding synonymous_variant LOW 372A>G Gly124Gly
M0087075 NJFKPONP_00010 9598 9 Skin 0.43 protein_coding synonymous_variant LOW 285A>C Thr95Thr
M0087076 NJFKPONP_00010 9607 10 Skin 0.48 protein_coding synonymous_variant LOW 276T>C Asp92Asp
M0087077 NJFKPONP_00010 9766 8 Skin 0.38 protein_coding synonymous_variant LOW 117A>G Leu39Leu
M0087078 NJFKPONP_00010 9781 8 Skin 0.38 protein_coding synonymous_variant LOW 102C>G Ala34Ala
M0087079 NJFKPONP_00010 9799 7 Skin 0.33 protein_coding synonymous_variant LOW 84T>C Ala28Ala
M0087080 NJFKPONP_00010 9883 8 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -1A>C None
M0087081 NJFKPONP_00011 8727 8 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -1324G>A None
M0087082 NJFKPONP_00010 8777 7 Skin 0.33 protein_coding missense_variant MODERATE 1106T>C Val369Ala
M0087083 NJFKPONP_00010 8797 8 Skin 0.38 protein_coding synonymous_variant LOW 1086G>A Leu362Leu
M0087084 NJFKPONP_00010 9675 4 Skin 0.19 protein_coding missense_variant MODERATE 208G>A Ala70Thr
M0087085 NJFKPONP_00010 9680 3 Skin 0.14 protein_coding missense_variant MODERATE 203C>T Pro68Leu
M0087086 NJFKPONP_00010 9520 4 Skin 0.19 protein_coding synonymous_variant LOW 363A>C Ala121Ala
M0087087 NJFKPONP_00010 9535 3 Skin 0.14 protein_coding synonymous_variant LOW 348G>C Arg116Arg
M0087088 NJFKPONP_00010 9334 3 Skin 0.14 protein_coding synonymous_variant LOW 549C>T Val183Val
M0087089 NJFKPONP_00010 9433 3 Skin 0.14 protein_coding synonymous_variant LOW 450G>A Ala150Ala






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
NJFKPONP_00056 QUM74730.1|GH23 100 1.15e-150 1 221 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