Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2576
  Reference Plasmid   1111525849853831_bin.4__k141_201516
  Reference Plasmid Size   18682
  Reference Plasmid GC Content   0.61
  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
M0047618 LJPDABFN_00002 2235 5 Skin 0.10 protein_coding synonymous_variant LOW 76T>C Leu26Leu
M0047619 LJPDABFN_00002 2801 5 Skin 0.10 protein_coding synonymous_variant LOW 642C>T Asp214Asp
M0047620 LJPDABFN_00001 244 9 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -282C>G None
M0047621 LJPDABFN_00001 585 3 Skin 0.06 protein_coding synonymous_variant LOW 60T>G Gly20Gly
M0047622 LJPDABFN_00001 591 3 Skin 0.06 protein_coding synonymous_variant LOW 66C>A Ile22Ile
M0047623 LJPDABFN_00001 877 3 Skin 0.06 protein_coding missense_variant MODERATE 352G>T Gly118Trp
M0047624 LJPDABFN_00003 3865 5 Skin 0.10 protein_coding missense_variant MODERATE 736G>A Ala246Thr
M0047625 LJPDABFN_00004 4341 5 Skin 0.10 protein_coding synonymous_variant LOW 117A>C Gly39Gly
M0047626 LJPDABFN_00004 5182 4 Skin 0.08 protein_coding missense_variant MODERATE 958A>G Ile320Val
M0047627 LJPDABFN_00004 5217 3 Skin 0.06 protein_coding synonymous_variant LOW 993C>T Ala331Ala
M0047628 LJPDABFN_00004 5399 3 Skin 0.06 protein_coding missense_variant MODERATE 1175C>T Ala392Val
M0047629 LJPDABFN_00004 5400 3 Skin 0.06 protein_coding synonymous_variant LOW 1176C>T Ala392Ala
M0047630 LJPDABFN_00004 5412 3 Skin 0.06 protein_coding synonymous_variant LOW 1188C>T Gly396Gly
M0047631 LJPDABFN_00004 5798 4 Skin 0.08 protein_coding missense_variant MODERATE 1574C>G Ala525Gly
M0047632 LJPDABFN_00006 7914 28 Skin 0.57 protein_coding synonymous_variant LOW 357C>T Ile119Ile
M0047633 LJPDABFN_00009 9927 4 Skin 0.08 protein_coding synonymous_variant LOW 165G>A Lys55Lys
M0047634 LJPDABFN_00014 12633 5 Skin 0.10 protein_coding synonymous_variant LOW 1500G>T Ala500Ala
M0047635 LJPDABFN_00001 375 4 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -151C>A None
M0047636 LJPDABFN_00001 376 4 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -150T>C None
M0047637 LJPDABFN_00001 404 4 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -122C>A None
M0047638 LJPDABFN_00001 454 5 Skin 0.10 protein_coding upstream_gene_variant MODIFIER -72C>A None
M0047639 LJPDABFN_00001 477 5 Skin 0.10 protein_coding upstream_gene_variant MODIFIER -49A>T None
M0047640 LJPDABFN_00004 4632 6 Skin 0.12 protein_coding synonymous_variant LOW 408A>G Pro136Pro
M0047641 LJPDABFN_00006 7488 8 Skin 0.16 protein_coding synonymous_variant LOW 783T>C Asp261Asp
M0047642 LJPDABFN_00001 62 7 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -464A>G None
M0047643 LJPDABFN_00002 2756 3 Skin 0.06 protein_coding synonymous_variant LOW 597T>C Thr199Thr
M0047644 LJPDABFN_00003 4038 6 Skin 0.12 protein_coding missense_variant MODERATE 909G>C Lys303Asn
M0047645 LJPDABFN_00008 9283 4 Skin 0.08 protein_coding synonymous_variant LOW 276C>G Arg92Arg
M0047646 LJPDABFN_00007 8612 3 Skin 0.06 protein_coding missense_variant MODERATE 293G>A Gly98Glu
M0047647 LJPDABFN_00006 8283 6 Skin 0.12 protein_coding upstream_gene_variant MODIFIER -13T>C None
M0047648 LJPDABFN_00016 15833 4 Skin 0.08 protein_coding synonymous_variant LOW 651T>C Asn217Asn
M0047649 LJPDABFN_00016 15839 4 Skin 0.08 protein_coding synonymous_variant LOW 657C>T Pro219Pro
M0047650 LJPDABFN_00005 6257 6 Skin 0.12 protein_coding synonymous_variant LOW 453G>A Ser151Ser
M0047651 LJPDABFN_00012 11787 6 Skin 0.12 protein_coding missense_variant MODERATE 136A>G Met46Val
M0047652 LJPDABFN_00004 4829 4 Skin 0.08 protein_coding missense_variant MODERATE 605G>A Arg202His
M0047653 LJPDABFN_00004 5298 4 Skin 0.08 protein_coding synonymous_variant LOW 1074G>A Thr358Thr
M0047654 LJPDABFN_00012 11681 3 Skin 0.06 protein_coding synonymous_variant LOW 30G>C Ala10Ala
M0047655 LJPDABFN_00005 6653 3 Skin 0.06 protein_coding synonymous_variant LOW 849A>G Pro283Pro
M0047656 LJPDABFN_00014 13230 3 Skin 0.06 protein_coding synonymous_variant LOW 903G>T Val301Val
M0047657 LJPDABFN_00014 13260 3 Skin 0.06 protein_coding synonymous_variant LOW 873T>C Gly291Gly






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





        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