Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C66
  Reference Plasmid   CP025889.1
  Reference Plasmid Size   85002
  Reference Plasmid GC Content   0.48
  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
M0143576 FOPEIDMI_00016 10684 4 Gut 0.16 protein_coding missense_variant MODERATE 269T>C Val90Ala
M0143577 FOPEIDMI_00043 31235 3 Gut 0.12 protein_coding synonymous_variant LOW 357A>G Leu119Leu
M0143578 FOPEIDMI_00047 35770 3 Gut 0.12 protein_coding missense_variant MODERATE 1033G>C Val345Leu
M0143579 FOPEIDMI_00048 35855 3 Gut 0.12 protein_coding synonymous_variant LOW 48A>G Leu16Leu
M0143580 FOPEIDMI_00048 36557 3 Gut 0.12 protein_coding synonymous_variant LOW 750C>T Pro250Pro






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
FOPEIDMI_00035 VFG042755 Adhesive fimbriae 70.5 2.6e-35 4 98 0.9596 0.9406 Adherence LngR prediction
FOPEIDMI_00037 VFG042772 Adhesive fimbriae 72.1 4.2e-58 1 147 1.0 1 Adherence CofT prediction
FOPEIDMI_00038 VFG042759 Adhesive fimbriae 75.5 2.3e-90 1 234 1.0 0.9915 Adherence LngA prediction
FOPEIDMI_00041 VFG042762 Adhesive fimbriae 85.7 3.7e-236 1 483 0.9959 0.9817 Adherence LngD prediction
FOPEIDMI_00045 VFG042780 Adhesive fimbriae 89.6 2.2e-239 67 509 0.8703 0.9977 Adherence CofH prediction
FOPEIDMI_00046 VFG042781 Adhesive fimbriae 87.1 8.3e-166 1 341 1.0 1 Adherence CofI prediction
FOPEIDMI_00057 VFG043747 Heat-stable toxin (ST) 88.9 2.2e-31 1 72 1.0 1 Exotoxin unknown protein prediction
FOPEIDMI_00065 VFG042471 Adhesive fimbriae 100 2.2e-133 1 238 1.0 1 Adherence periplasmic chaperone-like protein CsaA prediction
FOPEIDMI_00066 VFG042472 Adhesive fimbriae 100 7.4e-83 1 167 1.0 1 Adherence CS4 major fimbriae subunit CsaB prediction
FOPEIDMI_00067 VFG042473 Adhesive fimbriae 99.9 0 1 854 1.0 0.985 Adherence usher protein CsaC prediction
FOPEIDMI_00068 VFG042474 Adhesive fimbriae 100 6.5e-209 1 361 1.0 1 Adherence minor pilin protein CsaE prediction







        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
FOPEIDMI_00029 PHI:10179 tnpA 94.7 5.1e-86 1 152 1.0000 1.0000 rodents salmonellosis regulatory RNA/ transposase for IS200 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
FOPEIDMI_00067 1.B.11.4.1 95.4 0 2 854 0.9988 0.9816 1 Channels/Pores 1.B β-Barrel Porins 1.B.11 The Outer Membrane Fimbrial Usher Porin (FUP) Family
FOPEIDMI_00098 3.A.7.10.1 85 4.3e-243 1 459 0.9329 4.7813 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
FOPEIDMI_00100 3.A.7.10.1 76.3 8.5e-190 1 401 0.9032 4.1771 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family