Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2466
  Reference Plasmid   1111525849768046_bin.37__k141_74488
  Reference Plasmid Size   1971
  Reference Plasmid GC Content   0.38
  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
M0128209 NNKPFIJK_00001 125 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *122C>T None
M0128210 NNKPFIJK_00001 292 4 Oral 0.50 protein_coding synonymous_variant LOW 633G>A Glu211Glu
M0128211 NNKPFIJK_00001 316 4 Oral 0.50 protein_coding synonymous_variant LOW 609T>C Asp203Asp
M0128212 NNKPFIJK_00001 673 7 Oral 0.88 protein_coding synonymous_variant LOW 252A>G Glu84Glu
M0128213 NNKPFIJK_00001 700 5 Oral 0.63 protein_coding synonymous_variant LOW 225A>G Leu75Leu
M0128214 NNKPFIJK_00001 954 8 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -30T>C None
M0128215 NNKPFIJK_00001 1026 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -102G>A None
M0128216 NNKPFIJK_00002 1053 6 Oral 0.75 protein_coding missense_variant MODERATE 214T>C Cys72Arg
M0128217 NNKPFIJK_00002 1084 4 Oral 0.50 protein_coding synonymous_variant LOW 183A>T Gly61Gly
M0128218 NNKPFIJK_00002 1128 8 Oral 1.00 protein_coding missense_variant MODERATE 139A>C Asn47His
M0128219 NNKPFIJK_00002 1224 4 Oral 0.50 protein_coding missense_variant MODERATE 43A>G Thr15Ala
M0128220 NNKPFIJK_00002 1244 8 Oral 1.00 protein_coding missense_variant MODERATE 23T>C Val8Ala
M0128221 NNKPFIJK_00002 1246 8 Oral 1.00 protein_coding synonymous_variant LOW 21C>T Ile7Ile
M0128222 NNKPFIJK_00003 1377 3 Oral 0.38 protein_coding synonymous_variant LOW 228T>C Tyr76Tyr
M0128223 NNKPFIJK_00003 1566 3 Oral 0.38 protein_coding synonymous_variant LOW 39G>A Val13Val
M0128224 NNKPFIJK_00004 1784 5 Oral 0.63 protein_coding synonymous_variant LOW 159C>T Asn53Asn
M0128225 NNKPFIJK_00004 1806 7 Oral 0.88 protein_coding missense_variant MODERATE 137T>C Met46Thr
M0128226 NNKPFIJK_00004 1822 6 Oral 0.75 protein_coding missense_variant MODERATE 121G>A Val41Met
M0128227 NNKPFIJK_00004 1823 7 Oral 0.88 protein_coding synonymous_variant LOW 120C>T Asp40Asp
M0128228 NNKPFIJK_00004 1856 4 Oral 0.50 protein_coding synonymous_variant LOW 87T>A Gly29Gly
M0128229 NNKPFIJK_00004 1877 8 Oral 1.00 protein_coding synonymous_variant LOW 66T>C Asp22Asp
M0128230 NNKPFIJK_00004 1880 7 Oral 0.88 protein_coding synonymous_variant LOW 63T>C Tyr21Tyr
M0128231 NNKPFIJK_00004 1883 8 Oral 1.00 protein_coding synonymous_variant LOW 60T>C Ser20Ser
M0128232 NNKPFIJK_00001 718 4 Oral 0.50 protein_coding synonymous_variant LOW 207C>T Tyr69Tyr
M0128233 NNKPFIJK_00001 745 5 Oral 0.63 protein_coding synonymous_variant LOW 180C>T Leu60Leu
M0128234 NNKPFIJK_00001 751 5 Oral 0.63 protein_coding synonymous_variant LOW 174A>G Thr58Thr
M0128235 NNKPFIJK_00001 830 5 Oral 0.63 protein_coding missense_variant MODERATE 95G>C Ser32Thr
M0128236 NNKPFIJK_00001 841 5 Oral 0.63 protein_coding synonymous_variant LOW 84C>T Pro28Pro
M0128237 NNKPFIJK_00001 871 5 Oral 0.63 protein_coding synonymous_variant LOW 54A>G Ser18Ser
M0128238 NNKPFIJK_00002 1087 6 Oral 0.75 protein_coding synonymous_variant LOW 180G>A Lys60Lys
M0128239 NNKPFIJK_00004 1687 7 Oral 0.88 protein_coding missense_variant MODERATE 256A>G Met86Val
M0128240 NNKPFIJK_00001 1948 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -1024A>G None
M0128241 NNKPFIJK_00001 177 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *70G>A None
M0128242 NNKPFIJK_00001 451 5 Oral 0.63 protein_coding synonymous_variant LOW 474A>G Val158Val
M0128243 NNKPFIJK_00001 870 3 Oral 0.38 protein_coding missense_variant MODERATE 55G>C Glu19Gln
M0128244 NNKPFIJK_00001 913 3 Oral 0.38 protein_coding synonymous_variant LOW 12C>T Tyr4Tyr
M0128245 NNKPFIJK_00001 981 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -57C>A None
M0128246 NNKPFIJK_00001 987 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -63C>T None
M0128247 NNKPFIJK_00002 1150 3 Oral 0.38 protein_coding missense_variant MODERATE 117G>T Lys39Asn






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