Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1659
  Reference Plasmid   1111525849485004_bin.26__k141_332834
  Reference Plasmid Size   13948
  Reference Plasmid GC Content   0.39
  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
M0010226 DEMPDIHO_00001 172 3 Skin 0.75 protein_coding synonymous_variant LOW 150T>C Asp50Asp
M0010227 DEMPDIHO_00001 187 3 Skin 0.75 protein_coding synonymous_variant LOW 165T>A Val55Val
M0010228 DEMPDIHO_00001 248 3 Skin 0.75 protein_coding synonymous_variant LOW 226T>C Leu76Leu
M0010229 DEMPDIHO_00002 287 3 Skin 0.75 protein_coding synonymous_variant LOW 33A>G Pro11Pro
M0010230 DEMPDIHO_00002 725 3 Skin 0.75 protein_coding synonymous_variant LOW 471A>G Leu157Leu
M0010231 DEMPDIHO_00004 2250 3 Skin 0.75 protein_coding missense_variant MODERATE 136G>A Val46Ile
M0010232 DEMPDIHO_00004 2318 3 Skin 0.75 protein_coding synonymous_variant LOW 204A>G Gln68Gln
M0010233 DEMPDIHO_00004 2321 3 Skin 0.75 protein_coding synonymous_variant LOW 207C>T Gly69Gly
M0010234 DEMPDIHO_00004 2357 3 Skin 0.75 protein_coding synonymous_variant LOW 243A>T Ile81Ile
M0010235 DEMPDIHO_00004 2417 3 Skin 0.75 protein_coding synonymous_variant LOW 303C>T Tyr101Tyr
M0010236 DEMPDIHO_00004 2468 3 Skin 0.75 protein_coding synonymous_variant LOW 354T>C Ile118Ile
M0010237 DEMPDIHO_00004 2480 3 Skin 0.75 protein_coding synonymous_variant LOW 366A>G Leu122Leu
M0010238 DEMPDIHO_00004 2483 3 Skin 0.75 protein_coding synonymous_variant LOW 369T>C Asp123Asp
M0010239 DEMPDIHO_00004 2603 3 Skin 0.75 protein_coding synonymous_variant LOW 489A>G Glu163Glu
M0010240 DEMPDIHO_00004 2745 3 Skin 0.75 protein_coding synonymous_variant LOW 631T>C Leu211Leu
M0010241 DEMPDIHO_00004 2807 3 Skin 0.75 protein_coding synonymous_variant LOW 693A>G Val231Val
M0010242 DEMPDIHO_00005 2835 3 Skin 0.75 protein_coding synonymous_variant LOW 24T>C Asp8Asp
M0010243 DEMPDIHO_00005 3031 3 Skin 0.75 protein_coding missense_variant MODERATE 220A>G Ile74Val
M0010244 DEMPDIHO_00005 3147 3 Skin 0.75 protein_coding synonymous_variant LOW 336C>T Ser112Ser
M0010245 DEMPDIHO_00005 3216 3 Skin 0.75 protein_coding synonymous_variant LOW 405T>C Ser135Ser
M0010246 DEMPDIHO_00005 3282 3 Skin 0.75 protein_coding synonymous_variant LOW 471A>G Leu157Leu






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
DEMPDIHO_00006 PHI:124080 AdcA 71.6 2e-203 1 501 1.0000 1.0000 rodents streptococcal toxic shock syndrome Zn-binding lipoproteins reduced virulence






        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
DEMPDIHO_00004 3.A.1.15.3 98.3 7e-135 1 234 1.0000 0.7524 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
DEMPDIHO_00005 3.A.1.15.3 98.5 1.6e-127 1 268 1.0000 0.8617 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
DEMPDIHO_00006 3.A.1.15.3 97.6 5.5e-286 1 501 1.0000 1.6109 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily