Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1606
  Reference Plasmid   1111525849481190_bin.14__k141_64553
  Reference Plasmid Size   3243
  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
M0008413 LOGFNJMM_00002 630 4 Skin 0.33 protein_coding synonymous_variant LOW 1134T>C Ala378Ala
M0008414 LOGFNJMM_00002 1116 9 Skin 0.75 protein_coding synonymous_variant LOW 648A>G Ala216Ala
M0008415 LOGFNJMM_00002 1362 7 Skin 0.58 protein_coding synonymous_variant LOW 402T>C Val134Val
M0008416 LOGFNJMM_00002 1731 11 Skin 0.92 protein_coding synonymous_variant LOW 33T>C Ile11Ile
M0008417 LOGFNJMM_00002 1837 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -74G>C None
M0008418 LOGFNJMM_00002 1851 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -88C>G None
M0008419 LOGFNJMM_00003 2958 6 Skin 0.50 protein_coding missense_variant MODERATE 251T>A Met84Lys
M0008420 LOGFNJMM_00003 2984 5 Skin 0.42 protein_coding synonymous_variant LOW 225A>G Lys75Lys
M0008421 LOGFNJMM_00003 2987 5 Skin 0.42 protein_coding synonymous_variant LOW 222A>G Glu74Glu
M0008422 LOGFNJMM_00002 1431 7 Skin 0.58 protein_coding synonymous_variant LOW 333A>T Arg111Arg
M0008423 LOGFNJMM_00002 1482 7 Skin 0.58 protein_coding synonymous_variant LOW 282T>C Pro94Pro
M0008424 LOGFNJMM_00003 2282 4 Skin 0.33 protein_coding synonymous_variant LOW 927G>A Glu309Glu
M0008425 LOGFNJMM_00003 2330 5 Skin 0.42 protein_coding synonymous_variant LOW 879C>A Arg293Arg
M0008426 LOGFNJMM_00003 2838 4 Skin 0.33 protein_coding missense_variant MODERATE 371A>G Asp124Gly
M0008427 LOGFNJMM_00003 2846 4 Skin 0.33 protein_coding synonymous_variant LOW 363T>C Arg121Arg
M0008428 LOGFNJMM_00002 768 5 Skin 0.42 protein_coding missense_variant MODERATE 996T>G His332Gln
M0008429 LOGFNJMM_00002 837 6 Skin 0.50 protein_coding synonymous_variant LOW 927T>C Gly309Gly
M0008430 LOGFNJMM_00002 861 6 Skin 0.50 protein_coding synonymous_variant LOW 903T>C Asp301Asp
M0008431 LOGFNJMM_00002 867 6 Skin 0.50 protein_coding synonymous_variant LOW 897T>C Asn299Asn
M0008432 LOGFNJMM_00002 1638 7 Skin 0.58 protein_coding synonymous_variant LOW 126C>T Tyr42Tyr
M0008433 LOGFNJMM_00003 2504 4 Skin 0.33 protein_coding synonymous_variant LOW 705G>A Pro235Pro
M0008434 LOGFNJMM_00003 2645 6 Skin 0.50 protein_coding synonymous_variant LOW 564C>T Asn188Asn
M0008435 LOGFNJMM_00003 2677 6 Skin 0.50 protein_coding missense_variant MODERATE 532T>G Leu178Val
M0008436 LOGFNJMM_00003 2714 7 Skin 0.58 protein_coding synonymous_variant LOW 495T>C Asn165Asn
M0008437 LOGFNJMM_00003 3059 7 Skin 0.58 protein_coding synonymous_variant LOW 150G>C Ala50Ala
M0008438 LOGFNJMM_00003 3077 7 Skin 0.58 protein_coding synonymous_variant LOW 132C>T Leu44Leu






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