Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2428
  Reference Plasmid   1111525849768046_bin.37__k141_224083
  Reference Plasmid Size   2246
  Reference Plasmid GC Content   0.41
  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
M0125196 KPHECPGH_00001 141 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *918A>G None
M0125197 KPHECPGH_00001 177 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *882T>A None
M0125198 KPHECPGH_00001 630 6 Oral 0.75 protein_coding downstream_gene_variant MODIFIER *429T>C None
M0125199 KPHECPGH_00001 651 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *408G>T None
M0125200 KPHECPGH_00001 660 6 Oral 0.75 protein_coding downstream_gene_variant MODIFIER *399A>G None
M0125201 KPHECPGH_00001 897 8 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *162A>G None
M0125202 KPHECPGH_00001 936 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *123G>T None
M0125203 KPHECPGH_00001 1100 6 Oral 0.75 protein_coding missense_variant MODERATE 100A>G Ile34Val
M0125204 KPHECPGH_00001 1422 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -223A>T None
M0125205 KPHECPGH_00001 1434 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -235G>A None
M0125206 KPHECPGH_00001 1512 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -313G>A None
M0125207 KPHECPGH_00001 1743 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -544A>G None
M0125208 KPHECPGH_00001 1943 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -744C>G None
M0125209 KPHECPGH_00001 2127 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -928A>G None
M0125210 KPHECPGH_00001 2151 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -952C>T None
M0125211 KPHECPGH_00001 2189 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -990T>C None
M0125212 KPHECPGH_00001 1650 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -451A>G None
M0125213 KPHECPGH_00001 1799 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -600T>C None
M0125214 KPHECPGH_00001 1824 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -625A>T None
M0125215 KPHECPGH_00001 384 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *675A>G None
M0125216 KPHECPGH_00001 432 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *627A>G None
M0125217 KPHECPGH_00001 657 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *402G>A None
M0125218 KPHECPGH_00001 1167 3 Oral 0.38 protein_coding synonymous_variant LOW 33G>A Lys11Lys
M0125219 KPHECPGH_00001 1956 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -757G>A None
M0125220 KPHECPGH_00001 933 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *126A>T None
M0125221 KPHECPGH_00001 930 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *129C>T None
M0125222 KPHECPGH_00001 1541 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -342A>T None
M0125223 KPHECPGH_00001 1629 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -430G>A None
M0125224 KPHECPGH_00001 1632 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -433G>A None
M0125225 KPHECPGH_00001 1633 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -434T>G None






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