Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3400
  Reference Plasmid   MGYG000303790__MGYG000303790_23
  Reference Plasmid Size   25791
  Reference Plasmid GC Content   0.52
  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
M0142150 AHAAINGH_00010 8020 3 Vaginal 0.50 protein_coding missense_variant MODERATE 16G>A Val6Met
M0142151 AHAAINGH_00006 8208 3 Vaginal 0.50 protein_coding upstream_gene_variant MODIFIER -3545T>C None
M0142152 AHAAINGH_00006 8287 3 Vaginal 0.50 protein_coding upstream_gene_variant MODIFIER -3624C>T None
M0142153 AHAAINGH_00006 8467 3 Vaginal 0.50 protein_coding upstream_gene_variant MODIFIER -3804A>C None
M0142154 AHAAINGH_00006 8578 3 Vaginal 0.50 protein_coding upstream_gene_variant MODIFIER -3915A>G None
M0142155 AHAAINGH_00006 9433 3 Vaginal 0.50 protein_coding upstream_gene_variant MODIFIER -4770T>G None
M0142156 AHAAINGH_00013 10639 3 Vaginal 0.50 protein_coding synonymous_variant LOW 846T>A Pro282Pro
M0142157 AHAAINGH_00013 10819 3 Vaginal 0.50 protein_coding synonymous_variant LOW 666A>G Arg222Arg
M0142158 AHAAINGH_00013 10926 3 Vaginal 0.50 protein_coding synonymous_variant LOW 559T>C Leu187Leu
M0142159 AHAAINGH_00014 12172 3 Vaginal 0.50 protein_coding synonymous_variant LOW 231T>C Thr77Thr
M0142160 AHAAINGH_00014 12378 3 Vaginal 0.50 protein_coding missense_variant MODERATE 25G>A Ala9Thr
M0142161 AHAAINGH_00015 12693 3 Vaginal 0.50 protein_coding synonymous_variant LOW 1848A>G Leu616Leu
M0142162 AHAAINGH_00015 14315 3 Vaginal 0.50 protein_coding missense_variant MODERATE 226A>G Arg76Gly
M0142163 AHAAINGH_00015 14415 4 Vaginal 0.67 protein_coding synonymous_variant LOW 126A>G Glu42Glu
M0142164 AHAAINGH_00015 14470 3 Vaginal 0.50 protein_coding missense_variant MODERATE 71C>A Ala24Glu
M0142165 AHAAINGH_00016 14847 3 Vaginal 0.50 protein_coding synonymous_variant LOW 690A>G Gln230Gln
M0142166 AHAAINGH_00016 15090 4 Vaginal 0.67 protein_coding synonymous_variant LOW 447C>A Ser149Ser
M0142167 AHAAINGH_00018 17650 4 Vaginal 0.67 protein_coding synonymous_variant LOW 132A>G Leu44Leu
M0142168 AHAAINGH_00018 17729 4 Vaginal 0.67 protein_coding synonymous_variant LOW 211T>C Leu71Leu
M0142169 AHAAINGH_00018 17749 4 Vaginal 0.67 protein_coding synonymous_variant LOW 231T>C Arg77Arg
M0142170 AHAAINGH_00018 17945 3 Vaginal 0.50 protein_coding missense_variant MODERATE 427A>G Thr143Ala
M0142171 AHAAINGH_00019 18443 3 Vaginal 0.50 protein_coding missense_variant MODERATE 1408C>T Arg470Cys
M0142172 AHAAINGH_00019 18461 4 Vaginal 0.67 protein_coding missense_variant MODERATE 1390T>C Cys464Arg
M0142173 AHAAINGH_00019 18478 4 Vaginal 0.67 protein_coding missense_variant MODERATE 1373T>G Ile458Ser
M0142174 AHAAINGH_00019 18703 3 Vaginal 0.50 protein_coding missense_variant MODERATE 1148G>A Arg383Gln
M0142175 AHAAINGH_00019 18934 4 Vaginal 0.67 protein_coding missense_variant MODERATE 917A>C Asn306Thr
M0142176 AHAAINGH_00019 18993 4 Vaginal 0.67 protein_coding synonymous_variant LOW 858T>C Arg286Arg
M0142177 AHAAINGH_00019 19287 3 Vaginal 0.50 protein_coding synonymous_variant LOW 564G>A Val188Val
M0142178 AHAAINGH_00019 19535 4 Vaginal 0.67 protein_coding missense_variant MODERATE 316T>C Tyr106His
M0142179 AHAAINGH_00019 19543 4 Vaginal 0.67 protein_coding missense_variant MODERATE 308G>A Ser103Asn
M0142180 AHAAINGH_00020 20209 3 Vaginal 0.50 protein_coding synonymous_variant LOW 615C>T Ser205Ser
M0142181 AHAAINGH_00020 20567 4 Vaginal 0.67 protein_coding missense_variant MODERATE 257G>A Arg86Lys
M0142182 AHAAINGH_00021 21002 4 Vaginal 0.67 protein_coding synonymous_variant LOW 810C>T Ser270Ser
M0142183 AHAAINGH_00015 14196 3 Vaginal 0.50 protein_coding synonymous_variant LOW 345T>C Arg115Arg
M0142184 AHAAINGH_00018 17809 3 Vaginal 0.50 protein_coding synonymous_variant LOW 291T>C Ala97Ala






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
AHAAINGH_00023 QQT13605.1|GH112 70.3 0 4 746 0.9907 0.9933





        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