Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2246
  Reference Plasmid   1111525849755644_bin.49__k141_284961
  Reference Plasmid Size   6726
  Reference Plasmid GC Content   0.54
  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
M0031595 COKAELAN_00001 926 4 Skin 0.44 protein_coding synonymous_variant LOW 105G>T Val35Val
M0031596 COKAELAN_00001 956 4 Skin 0.44 protein_coding synonymous_variant LOW 135C>T Arg45Arg
M0031597 COKAELAN_00002 2059 6 Skin 0.67 protein_coding synonymous_variant LOW 624A>G Leu208Leu
M0031598 COKAELAN_00002 2119 4 Skin 0.44 protein_coding synonymous_variant LOW 684C>T Gly228Gly
M0031599 COKAELAN_00004 3786 3 Skin 0.33 protein_coding synonymous_variant LOW 112T>C Leu38Leu
M0031600 COKAELAN_00005 4332 9 Skin 1.00 protein_coding missense_variant MODERATE 640T>C Cys214Arg
M0031601 COKAELAN_00005 4846 3 Skin 0.33 protein_coding synonymous_variant LOW 126A>G Pro42Pro
M0031602 COKAELAN_00006 5452 3 Skin 0.33 protein_coding synonymous_variant LOW 978G>A Leu326Leu
M0031603 COKAELAN_00006 5702 4 Skin 0.44 protein_coding missense_variant MODERATE 728G>T Arg243Leu
M0031604 COKAELAN_00006 5731 5 Skin 0.56 protein_coding synonymous_variant LOW 699T>G Leu233Leu
M0031605 COKAELAN_00006 6073 3 Skin 0.33 protein_coding synonymous_variant LOW 357C>G Leu119Leu
M0031606 COKAELAN_00006 6076 3 Skin 0.33 protein_coding synonymous_variant LOW 354A>G Ala118Ala
M0031607 COKAELAN_00006 6135 3 Skin 0.33 protein_coding synonymous_variant LOW 295T>C Leu99Leu
M0031608 COKAELAN_00006 6169 3 Skin 0.33 protein_coding synonymous_variant LOW 261A>C Ser87Ser






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
COKAELAN_00002 PHI:10048 fumC 84.4 4.6e-231 1 463 0.9957 0.9914 rodents salmonellosis fumarate hydratase class II 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
COKAELAN_00006 2.A.1.36.1 75.8 4.3e-170 19 418 0.9281 0.9592 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)