Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1513
  Reference Plasmid   1111525849478674_bin.14__k141_44097
  Reference Plasmid Size   7272
  Reference Plasmid GC Content   0.69
  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
M0002310 APHOGIPM_00003 3541 6 Skin 0.75 protein_coding synonymous_variant LOW 882C>G Ala294Ala
M0002311 APHOGIPM_00003 3701 6 Skin 0.75 protein_coding missense_variant MODERATE 1042C>A Gln348Lys
M0002312 APHOGIPM_00003 3994 6 Skin 0.75 protein_coding synonymous_variant LOW 1335T>C Gly445Gly
M0002313 APHOGIPM_00003 4225 6 Skin 0.75 protein_coding synonymous_variant LOW 1566G>C Val522Val
M0002314 APHOGIPM_00003 4234 6 Skin 0.75 protein_coding synonymous_variant LOW 1575A>G Gln525Gln
M0002315 APHOGIPM_00003 4255 6 Skin 0.75 protein_coding synonymous_variant LOW 1596A>G Glu532Glu
M0002316 APHOGIPM_00001 4692 5 Skin 0.63 protein_coding downstream_gene_variant MODIFIER *3228C>T None
M0002317 APHOGIPM_00001 4702 6 Skin 0.75 protein_coding downstream_gene_variant MODIFIER *3238T>C None
M0002318 APHOGIPM_00003 2571 4 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -89T>C None
M0002319 APHOGIPM_00003 2974 5 Skin 0.63 protein_coding synonymous_variant LOW 315A>C Thr105Thr
M0002320 APHOGIPM_00001 4785 3 Skin 0.38 protein_coding downstream_gene_variant MODIFIER *3321C>T None
M0002321 APHOGIPM_00001 4790 3 Skin 0.38 protein_coding downstream_gene_variant MODIFIER *3326T>G None
M0002322 APHOGIPM_00006 6471 3 Skin 0.38 protein_coding missense_variant MODERATE 766G>C Val256Leu
M0002323 APHOGIPM_00006 6644 3 Skin 0.38 protein_coding missense_variant MODERATE 593T>C Leu198Pro






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
APHOGIPM_00002 ACO46318.1|GT2 77.7 4.27e-113 8 220 0.9682 0.9862





        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