Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C12
  Reference Plasmid   1111525849645752_bin.45__k141_123753
  Reference Plasmid Size   18719
  Reference Plasmid GC Content   0.37
  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
M0017306 AFPGGPFC_00007 5078 4 Skin 0.57 protein_coding synonymous_variant LOW 459T>C Gly153Gly
M0017307 AFPGGPFC_00007 5090 4 Skin 0.57 protein_coding synonymous_variant LOW 471G>A Lys157Lys
M0017308 AFPGGPFC_00007 5114 4 Skin 0.57 protein_coding synonymous_variant LOW 495C>T Tyr165Tyr
M0017309 AFPGGPFC_00007 5120 4 Skin 0.57 protein_coding synonymous_variant LOW 501T>A Thr167Thr
M0017310 AFPGGPFC_00007 5138 4 Skin 0.57 protein_coding synonymous_variant LOW 519T>C Ser173Ser
M0017311 AFPGGPFC_00007 5141 4 Skin 0.57 protein_coding synonymous_variant LOW 522C>T Tyr174Tyr
M0017312 AFPGGPFC_00007 5954 4 Skin 0.57 protein_coding synonymous_variant LOW 1335G>A Pro445Pro
M0017313 AFPGGPFC_00005 6010 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -2163C>T None
M0017314 AFPGGPFC_00009 6262 4 Skin 0.57 protein_coding missense_variant MODERATE 1102G>A Glu368Lys
M0017315 AFPGGPFC_00009 6554 4 Skin 0.57 protein_coding synonymous_variant LOW 810C>T Gly270Gly
M0017316 AFPGGPFC_00009 7018 4 Skin 0.57 protein_coding missense_variant MODERATE 346G>A Ala116Thr
M0017317 AFPGGPFC_00010 7667 5 Skin 0.71 protein_coding missense_variant MODERATE 964C>G Pro322Ala
M0017318 AFPGGPFC_00010 8441 5 Skin 0.71 protein_coding missense_variant MODERATE 190G>A Ala64Thr
M0017319 AFPGGPFC_00011 9401 5 Skin 0.71 protein_coding synonymous_variant LOW 495T>C Gly165Gly
M0017320 AFPGGPFC_00012 10147 4 Skin 0.57 protein_coding missense_variant MODERATE 803G>A Gly268Asp
M0017321 AFPGGPFC_00009 6337 3 Skin 0.43 protein_coding missense_variant MODERATE 1027C>T His343Tyr
M0017322 AFPGGPFC_00013 11030 3 Skin 0.43 protein_coding synonymous_variant LOW 336T>C Asp112Asp
M0017323 AFPGGPFC_00009 11370 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -4007G>C None
M0017324 AFPGGPFC_00009 11598 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -4235G>A None
M0017325 AFPGGPFC_00015 12306 3 Skin 0.43 protein_coding missense_variant MODERATE 346C>A Pro116Thr
M0017326 AFPGGPFC_00017 14452 3 Skin 0.43 protein_coding synonymous_variant LOW 1536A>G Leu512Leu
M0017327 AFPGGPFC_00017 15007 3 Skin 0.43 protein_coding synonymous_variant LOW 981C>T Pro327Pro
M0017328 AFPGGPFC_00017 15127 3 Skin 0.43 protein_coding synonymous_variant LOW 861A>G Arg287Arg
M0017329 AFPGGPFC_00017 15142 3 Skin 0.43 protein_coding synonymous_variant LOW 846T>C Thr282Thr
M0141168 AFPGGPFC_00010 7667 5 Vaginal 0.83 protein_coding missense_variant MODERATE 964C>G Pro322Ala
M0141169 AFPGGPFC_00010 8441 4 Vaginal 0.67 protein_coding missense_variant MODERATE 190G>A Ala64Thr
M0141170 AFPGGPFC_00011 9401 4 Vaginal 0.67 protein_coding synonymous_variant LOW 495T>C Gly165Gly
M0141171 AFPGGPFC_00013 11030 4 Vaginal 0.67 protein_coding synonymous_variant LOW 336T>C Asp112Asp
M0141172 AFPGGPFC_00009 11370 4 Vaginal 0.67 protein_coding upstream_gene_variant MODIFIER -4007G>C None
M0141173 AFPGGPFC_00009 11598 4 Vaginal 0.67 protein_coding upstream_gene_variant MODIFIER -4235G>A None
M0141174 AFPGGPFC_00015 12306 4 Vaginal 0.67 protein_coding missense_variant MODERATE 346C>A Pro116Thr
M0141175 AFPGGPFC_00017 14452 3 Vaginal 0.50 protein_coding synonymous_variant LOW 1536A>G Leu512Leu
M0141176 AFPGGPFC_00017 15007 3 Vaginal 0.50 protein_coding synonymous_variant LOW 981C>T Pro327Pro
M0141177 AFPGGPFC_00017 15127 3 Vaginal 0.50 protein_coding synonymous_variant LOW 861A>G Arg287Arg
M0141178 AFPGGPFC_00017 15142 3 Vaginal 0.50 protein_coding synonymous_variant LOW 846T>C Thr282Thr
M0141179 AFPGGPFC_00007 5078 3 Vaginal 0.50 protein_coding synonymous_variant LOW 459T>C Gly153Gly
M0141180 AFPGGPFC_00007 5090 3 Vaginal 0.50 protein_coding synonymous_variant LOW 471G>A Lys157Lys
M0141181 AFPGGPFC_00007 5114 3 Vaginal 0.50 protein_coding synonymous_variant LOW 495C>T Tyr165Tyr
M0141182 AFPGGPFC_00007 5120 3 Vaginal 0.50 protein_coding synonymous_variant LOW 501T>A Thr167Thr
M0141183 AFPGGPFC_00007 5138 3 Vaginal 0.50 protein_coding synonymous_variant LOW 519T>C Ser173Ser
M0141184 AFPGGPFC_00007 5141 3 Vaginal 0.50 protein_coding synonymous_variant LOW 522C>T Tyr174Tyr
M0141185 AFPGGPFC_00007 5954 3 Vaginal 0.50 protein_coding synonymous_variant LOW 1335G>A Pro445Pro
M0141186 AFPGGPFC_00005 6010 4 Vaginal 0.67 protein_coding upstream_gene_variant MODIFIER -2163C>T None
M0141187 AFPGGPFC_00009 6554 3 Vaginal 0.50 protein_coding synonymous_variant LOW 810C>T Gly270Gly
M0141188 AFPGGPFC_00009 7018 3 Vaginal 0.50 protein_coding missense_variant MODERATE 346G>A Ala116Thr






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