Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2588
  Reference Plasmid   1111525849854152_bin.12__k141_219237
  Reference Plasmid Size   7062
  Reference Plasmid GC Content   0.69
  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
M0048167 GFDAFFEI_00003 1620 8 Skin 0.62 protein_coding synonymous_variant LOW 129G>T Leu43Leu
M0048168 GFDAFFEI_00005 3237 8 Skin 0.62 protein_coding synonymous_variant LOW 48A>C Thr16Thr
M0048169 GFDAFFEI_00006 3841 7 Skin 0.54 protein_coding synonymous_variant LOW 174G>A Glu58Glu
M0048170 GFDAFFEI_00001 116 9 Skin 0.69 protein_coding synonymous_variant LOW 93T>C Ile31Ile
M0048171 GFDAFFEI_00001 131 3 Skin 0.23 protein_coding synonymous_variant LOW 108C>G Thr36Thr
M0048172 GFDAFFEI_00001 135 3 Skin 0.23 protein_coding synonymous_variant LOW 112T>C Leu38Leu
M0048173 GFDAFFEI_00001 140 3 Skin 0.23 protein_coding synonymous_variant LOW 117C>T Phe39Phe
M0048174 GFDAFFEI_00001 207 3 Skin 0.23 protein_coding synonymous_variant LOW 184A>C Arg62Arg
M0048175 GFDAFFEI_00001 230 3 Skin 0.23 protein_coding synonymous_variant LOW 207C>T Leu69Leu
M0048176 GFDAFFEI_00002 464 6 Skin 0.46 protein_coding synonymous_variant LOW 42C>G Val14Val
M0048177 GFDAFFEI_00002 482 4 Skin 0.31 protein_coding synonymous_variant LOW 60G>C Val20Val
M0048178 GFDAFFEI_00004 1513 3 Skin 0.23 protein_coding upstream_gene_variant MODIFIER -367G>A None
M0048179 GFDAFFEI_00004 1533 3 Skin 0.23 protein_coding upstream_gene_variant MODIFIER -347A>G None
M0048180 GFDAFFEI_00003 1569 3 Skin 0.23 protein_coding synonymous_variant LOW 180G>A Glu60Glu
M0048181 GFDAFFEI_00003 1605 3 Skin 0.23 protein_coding synonymous_variant LOW 144C>A Gly48Gly
M0048182 GFDAFFEI_00003 1644 3 Skin 0.23 protein_coding synonymous_variant LOW 105T>C Asp35Asp
M0048183 GFDAFFEI_00003 1689 3 Skin 0.23 protein_coding synonymous_variant LOW 60G>A Gln20Gln
M0048184 GFDAFFEI_00002 989 3 Skin 0.23 protein_coding synonymous_variant LOW 567G>C Pro189Pro
M0048185 GFDAFFEI_00007 5064 7 Skin 0.54 protein_coding missense_variant MODERATE 802C>A Pro268Thr
M0048186 GFDAFFEI_00007 5810 6 Skin 0.46 protein_coding synonymous_variant LOW 1548C>G Ala516Ala
M0048187 GFDAFFEI_00009 6892 3 Skin 0.23 protein_coding missense_variant MODERATE 98C>T Ala33Val
M0048188 GFDAFFEI_00009 6926 3 Skin 0.23 protein_coding synonymous_variant LOW 64C>A Arg22Arg
M0048189 GFDAFFEI_00009 6954 3 Skin 0.23 protein_coding synonymous_variant LOW 36A>G Ala12Ala
M0048190 GFDAFFEI_00009 6960 3 Skin 0.23 protein_coding synonymous_variant LOW 30T>A Val10Val
M0048191 GFDAFFEI_00009 6968 3 Skin 0.23 protein_coding missense_variant MODERATE 22C>G Leu8Val
M0048192 GFDAFFEI_00003 1868 3 Skin 0.23 protein_coding upstream_gene_variant MODIFIER -120T>C None
M0048193 GFDAFFEI_00005 3312 3 Skin 0.23 protein_coding synonymous_variant LOW 123G>C Pro41Pro
M0048194 GFDAFFEI_00005 3336 3 Skin 0.23 protein_coding synonymous_variant LOW 147G>C Arg49Arg
M0048195 GFDAFFEI_00005 3357 3 Skin 0.23 protein_coding synonymous_variant LOW 168T>C Ser56Ser
M0048196 GFDAFFEI_00007 5369 3 Skin 0.23 protein_coding synonymous_variant LOW 1107G>A Lys369Lys
M0048197 GFDAFFEI_00007 5891 3 Skin 0.23 protein_coding synonymous_variant LOW 1629T>C Asp543Asp
M0048198 GFDAFFEI_00007 5923 3 Skin 0.23 protein_coding missense_variant MODERATE 1661C>T Ala554Val
M0048199 GFDAFFEI_00001 44 5 Skin 0.38 protein_coding synonymous_variant LOW 21C>G Ser7Ser
M0048200 GFDAFFEI_00001 95 6 Skin 0.46 protein_coding synonymous_variant LOW 72G>T Ala24Ala






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