Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1994
  Reference Plasmid   1111525849736752_bin.2__k141_391381
  Reference Plasmid Size   6844
  Reference Plasmid GC Content   0.71
  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
M0022084 LMMIAPBD_00004 2565 4 Skin 0.57 protein_coding missense_variant MODERATE 287C>A Ala96Glu
M0022085 LMMIAPBD_00004 2576 4 Skin 0.57 protein_coding synonymous_variant LOW 298T>C Leu100Leu
M0022086 LMMIAPBD_00001 111 3 Skin 0.43 protein_coding synonymous_variant LOW 76C>T Leu26Leu
M0022087 LMMIAPBD_00001 203 3 Skin 0.43 protein_coding synonymous_variant LOW 168G>C Ala56Ala
M0022088 LMMIAPBD_00001 224 3 Skin 0.43 protein_coding synonymous_variant LOW 189C>G Leu63Leu
M0022089 LMMIAPBD_00001 269 3 Skin 0.43 protein_coding synonymous_variant LOW 234A>G Pro78Pro
M0022090 LMMIAPBD_00001 319 3 Skin 0.43 protein_coding missense_variant MODERATE 284G>A Arg95His
M0022091 LMMIAPBD_00001 440 3 Skin 0.43 protein_coding synonymous_variant LOW 405A>G Ala135Ala
M0022092 LMMIAPBD_00001 479 4 Skin 0.57 protein_coding synonymous_variant LOW 444T>C Asp148Asp
M0022093 LMMIAPBD_00001 582 4 Skin 0.57 protein_coding missense_variant MODERATE 547A>G Thr183Ala
M0022094 LMMIAPBD_00001 698 3 Skin 0.43 protein_coding synonymous_variant LOW 663G>A Glu221Glu
M0022095 LMMIAPBD_00001 850 4 Skin 0.57 protein_coding missense_variant MODERATE 815C>A Thr272Lys
M0022096 LMMIAPBD_00001 949 3 Skin 0.43 protein_coding missense_variant MODERATE 914G>A Gly305Glu
M0022097 LMMIAPBD_00001 951 3 Skin 0.43 protein_coding missense_variant MODERATE 916G>A Glu306Lys
M0022098 LMMIAPBD_00003 1859 4 Skin 0.57 protein_coding synonymous_variant LOW 156A>C Pro52Pro
M0022099 LMMIAPBD_00003 2108 3 Skin 0.43 protein_coding synonymous_variant LOW 405T>G Gly135Gly
M0022100 LMMIAPBD_00003 2129 3 Skin 0.43 protein_coding synonymous_variant LOW 426C>A Ala142Ala
M0022101 LMMIAPBD_00003 2240 3 Skin 0.43 protein_coding missense_variant MODERATE 537A>G Ile179Met
M0022102 LMMIAPBD_00004 2295 3 Skin 0.43 protein_coding missense_variant MODERATE 17T>A Val6Glu
M0022103 LMMIAPBD_00004 2424 3 Skin 0.43 protein_coding missense_variant MODERATE 146A>G Asp49Gly
M0022104 LMMIAPBD_00004 2680 3 Skin 0.43 protein_coding synonymous_variant LOW 402C>G Arg134Arg
M0022105 LMMIAPBD_00004 2745 3 Skin 0.43 protein_coding missense_variant MODERATE 467C>A Thr156Lys
M0022106 LMMIAPBD_00004 3010 3 Skin 0.43 protein_coding synonymous_variant LOW 732A>G Arg244Arg
M0022107 LMMIAPBD_00004 3191 4 Skin 0.57 protein_coding synonymous_variant LOW 913C>T Leu305Leu
M0022108 LMMIAPBD_00004 3287 4 Skin 0.57 protein_coding missense_variant MODERATE 1009C>T Pro337Ser
M0022109 LMMIAPBD_00004 3380 4 Skin 0.57 protein_coding missense_variant MODERATE 1102C>T Leu368Phe
M0022110 LMMIAPBD_00004 3455 3 Skin 0.43 protein_coding missense_variant MODERATE 1177G>C Asp393His
M0022111 LMMIAPBD_00005 3538 5 Skin 0.71 protein_coding upstream_gene_variant MODIFIER -10G>A None
M0022112 LMMIAPBD_00005 3539 5 Skin 0.71 protein_coding upstream_gene_variant MODIFIER -9G>A None
M0022113 LMMIAPBD_00005 3601 5 Skin 0.71 protein_coding synonymous_variant LOW 54C>G Ala18Ala
M0022114 LMMIAPBD_00005 3602 5 Skin 0.71 protein_coding missense_variant MODERATE 55G>C Val19Leu
M0022115 LMMIAPBD_00005 3604 5 Skin 0.71 protein_coding synonymous_variant LOW 57T>C Val19Val
M0022116 LMMIAPBD_00005 3616 5 Skin 0.71 protein_coding missense_variant MODERATE 69G>T Glu23Asp
M0022117 LMMIAPBD_00005 3619 5 Skin 0.71 protein_coding synonymous_variant LOW 72C>G Pro24Pro
M0022118 LMMIAPBD_00005 3634 5 Skin 0.71 protein_coding synonymous_variant LOW 87T>G Ala29Ala
M0022119 LMMIAPBD_00005 3676 5 Skin 0.71 protein_coding synonymous_variant LOW 129G>T Ala43Ala
M0022120 LMMIAPBD_00005 3685 5 Skin 0.71 protein_coding synonymous_variant LOW 138T>C Pro46Pro
M0022121 LMMIAPBD_00005 3900 4 Skin 0.57 protein_coding missense_variant MODERATE 353G>A Ser118Asn
M0022122 LMMIAPBD_00005 3964 3 Skin 0.43 protein_coding synonymous_variant LOW 417G>C Val139Val
M0022123 LMMIAPBD_00005 3973 4 Skin 0.57 protein_coding synonymous_variant LOW 426C>G Leu142Leu
M0022124 LMMIAPBD_00005 4015 4 Skin 0.57 protein_coding synonymous_variant LOW 468T>C Phe156Phe
M0022125 LMMIAPBD_00005 4198 3 Skin 0.43 protein_coding synonymous_variant LOW 651A>G Leu217Leu
M0022126 LMMIAPBD_00005 4210 3 Skin 0.43 protein_coding synonymous_variant LOW 663C>G Leu221Leu
M0022127 LMMIAPBD_00005 4268 4 Skin 0.57 protein_coding missense_variant MODERATE 721A>G Thr241Ala
M0022128 LMMIAPBD_00005 4324 3 Skin 0.43 protein_coding missense_variant MODERATE 777A>T Glu259Asp
M0022129 LMMIAPBD_00005 4326 3 Skin 0.43 protein_coding missense_variant MODERATE 779C>A Pro260Gln
M0022130 LMMIAPBD_00005 4328 3 Skin 0.43 protein_coding missense_variant MODERATE 781A>G Ile261Val
M0022131 LMMIAPBD_00001 4466 3 Skin 0.43 protein_coding downstream_gene_variant MODIFIER *3252T>C None
M0022132 LMMIAPBD_00001 4568 4 Skin 0.57 protein_coding downstream_gene_variant MODIFIER *3354T>C None
M0022133 LMMIAPBD_00001 4575 4 Skin 0.57 protein_coding downstream_gene_variant MODIFIER *3361T>C None
M0022134 LMMIAPBD_00001 4602 4 Skin 0.57 protein_coding downstream_gene_variant MODIFIER *3388T>C None
M0022135 LMMIAPBD_00001 4603 4 Skin 0.57 protein_coding downstream_gene_variant MODIFIER *3389A>C None
M0022136 LMMIAPBD_00001 4658 4 Skin 0.57 protein_coding downstream_gene_variant MODIFIER *3444A>C None
M0022137 LMMIAPBD_00001 4659 3 Skin 0.43 protein_coding downstream_gene_variant MODIFIER *3445T>C None
M0022138 LMMIAPBD_00001 4675 4 Skin 0.57 protein_coding downstream_gene_variant MODIFIER *3461T>C None
M0022139 LMMIAPBD_00005 3739 4 Skin 0.57 protein_coding synonymous_variant LOW 192G>C Gly64Gly
M0022140 LMMIAPBD_00001 4868 3 Skin 0.43 protein_coding downstream_gene_variant MODIFIER *3654T>C None
M0022141 LMMIAPBD_00001 4944 3 Skin 0.43 protein_coding downstream_gene_variant MODIFIER *3730A>G None
M0022142 LMMIAPBD_00001 5007 3 Skin 0.43 protein_coding downstream_gene_variant MODIFIER *3793G>A None
M0022143 LMMIAPBD_00001 5135 3 Skin 0.43 protein_coding downstream_gene_variant MODIFIER *3921G>A None
M0022144 LMMIAPBD_00001 5219 3 Skin 0.43 protein_coding downstream_gene_variant MODIFIER *4005A>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
LMMIAPBD_00005 QJD17592.1|GH23 76.6 3.13e-142 1 294 1 1





        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