Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2870
  Reference Plasmid   DP1807004557_bin.4__NODE_309_length_5258_cov_0.329521
  Reference Plasmid Size   5258
  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
M0064824 LCLKIPDH_00005 3718 7 Skin 0.50 protein_coding synonymous_variant LOW 777A>G Pro259Pro
M0064825 LCLKIPDH_00005 3731 7 Skin 0.50 protein_coding missense_variant MODERATE 790G>A Val264Ile
M0064826 LCLKIPDH_00005 3769 7 Skin 0.50 protein_coding missense_variant MODERATE 828G>C Arg276Ser
M0064827 LCLKIPDH_00006 3813 7 Skin 0.50 protein_coding synonymous_variant LOW 1335T>C Phe445Phe
M0064828 LCLKIPDH_00006 3834 7 Skin 0.50 protein_coding synonymous_variant LOW 1314G>A Glu438Glu
M0064829 LCLKIPDH_00006 3864 7 Skin 0.50 protein_coding synonymous_variant LOW 1284C>T Asp428Asp
M0064830 LCLKIPDH_00006 3912 7 Skin 0.50 protein_coding synonymous_variant LOW 1236G>C Gly412Gly
M0064831 LCLKIPDH_00006 3927 7 Skin 0.50 protein_coding synonymous_variant LOW 1221A>G Val407Val
M0064832 LCLKIPDH_00006 3933 7 Skin 0.50 protein_coding synonymous_variant LOW 1215C>T His405His
M0064833 LCLKIPDH_00006 3936 7 Skin 0.50 protein_coding synonymous_variant LOW 1212A>G Gly404Gly
M0064834 LCLKIPDH_00006 3950 7 Skin 0.50 protein_coding synonymous_variant LOW 1198T>C Leu400Leu
M0064835 LCLKIPDH_00006 3951 7 Skin 0.50 protein_coding synonymous_variant LOW 1197C>T Asn399Asn
M0064836 LCLKIPDH_00006 4017 7 Skin 0.50 protein_coding synonymous_variant LOW 1131C>T Arg377Arg
M0064837 LCLKIPDH_00006 4070 7 Skin 0.50 protein_coding synonymous_variant LOW 1078T>C Leu360Leu
M0064838 LCLKIPDH_00006 4071 7 Skin 0.50 protein_coding synonymous_variant LOW 1077A>T Arg359Arg
M0064839 LCLKIPDH_00006 4084 7 Skin 0.50 protein_coding missense_variant MODERATE 1064G>A Arg355His
M0064840 LCLKIPDH_00006 4356 3 Skin 0.21 protein_coding synonymous_variant LOW 792T>C Gly264Gly
M0064841 LCLKIPDH_00006 4362 3 Skin 0.21 protein_coding synonymous_variant LOW 786A>G Ala262Ala
M0064842 LCLKIPDH_00006 4386 3 Skin 0.21 protein_coding synonymous_variant LOW 762T>C Ala254Ala
M0064843 LCLKIPDH_00006 4413 3 Skin 0.21 protein_coding missense_variant MODERATE 735C>G Phe245Leu
M0064844 LCLKIPDH_00006 4425 3 Skin 0.21 protein_coding synonymous_variant LOW 723T>C Asp241Asp
M0064845 LCLKIPDH_00006 4505 4 Skin 0.29 protein_coding synonymous_variant LOW 643T>C Leu215Leu
M0064846 LCLKIPDH_00006 4519 4 Skin 0.29 protein_coding missense_variant MODERATE 629G>A Arg210His
M0064847 LCLKIPDH_00006 4521 4 Skin 0.29 protein_coding synonymous_variant LOW 627G>A Val209Val
M0064848 LCLKIPDH_00006 4530 4 Skin 0.29 protein_coding synonymous_variant LOW 618C>T Gly206Gly
M0064849 LCLKIPDH_00006 4546 4 Skin 0.29 protein_coding missense_variant MODERATE 602A>G His201Arg
M0064850 LCLKIPDH_00006 4563 4 Skin 0.29 protein_coding synonymous_variant LOW 585A>G Val195Val
M0064851 LCLKIPDH_00006 4605 4 Skin 0.29 protein_coding synonymous_variant LOW 543G>A Ser181Ser
M0064852 LCLKIPDH_00006 4781 4 Skin 0.29 protein_coding synonymous_variant LOW 367T>C Leu123Leu
M0064853 LCLKIPDH_00006 4784 4 Skin 0.29 protein_coding missense_variant MODERATE 364G>C Val122Leu
M0064854 LCLKIPDH_00006 4872 4 Skin 0.29 protein_coding synonymous_variant LOW 276C>G Gly92Gly
M0064855 LCLKIPDH_00006 4893 4 Skin 0.29 protein_coding synonymous_variant LOW 255A>G Leu85Leu
M0064856 LCLKIPDH_00006 4902 4 Skin 0.29 protein_coding synonymous_variant LOW 246C>T Arg82Arg
M0064857 LCLKIPDH_00006 4924 4 Skin 0.29 protein_coding missense_variant MODERATE 224T>C Leu75Ser
M0064858 LCLKIPDH_00006 5031 4 Skin 0.29 protein_coding synonymous_variant LOW 117T>C His39His
M0064859 LCLKIPDH_00006 5094 4 Skin 0.29 protein_coding synonymous_variant LOW 54T>C Asp18Asp
M0064860 LCLKIPDH_00006 5133 4 Skin 0.29 protein_coding synonymous_variant LOW 15C>T Gly5Gly
M0064861 LCLKIPDH_00002 5150 4 Skin 0.29 protein_coding upstream_gene_variant MODIFIER -2876C>T None
M0064862 LCLKIPDH_00001 44 12 Skin 0.86 protein_coding missense_variant MODERATE 8C>T Ala3Val
M0064863 LCLKIPDH_00002 1685 7 Skin 0.50 protein_coding missense_variant MODERATE 590G>T Ser197Ile
M0064864 LCLKIPDH_00005 3349 4 Skin 0.29 protein_coding synonymous_variant LOW 408G>A Ala136Ala
M0064865 LCLKIPDH_00005 3289 4 Skin 0.29 protein_coding synonymous_variant LOW 348G>A Leu116Leu






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