Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1604
  Reference Plasmid   1111525849480988_bin.6__k141_98379
  Reference Plasmid Size   22042
  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
M0008369 LPPEPKGK_00003 2619 3 Skin 0.25 protein_coding missense_variant MODERATE 88A>C Lys30Gln
M0008370 LPPEPKGK_00003 2681 4 Skin 0.33 protein_coding missense_variant MODERATE 26G>C Arg9Pro
M0008371 LPPEPKGK_00001 3984 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3244C>G None
M0008372 LPPEPKGK_00001 3986 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3246C>T None
M0008373 LPPEPKGK_00004 3397 4 Skin 0.33 protein_coding missense_variant MODERATE 308C>T Ser103Leu
M0008374 LPPEPKGK_00006 4449 4 Skin 0.33 protein_coding synonymous_variant LOW 147G>T Pro49Pro
M0008375 LPPEPKGK_00006 4554 4 Skin 0.33 protein_coding synonymous_variant LOW 42G>C Ala14Ala
M0008376 LPPEPKGK_00006 4557 4 Skin 0.33 protein_coding synonymous_variant LOW 39T>C Pro13Pro
M0008377 LPPEPKGK_00006 4560 4 Skin 0.33 protein_coding synonymous_variant LOW 36C>A Gly12Gly
M0008378 LPPEPKGK_00006 4563 4 Skin 0.33 protein_coding synonymous_variant LOW 33A>C Pro11Pro
M0008379 LPPEPKGK_00006 4564 4 Skin 0.33 protein_coding missense_variant MODERATE 32C>A Pro11Gln
M0008380 LPPEPKGK_00002 1153 4 Skin 0.33 protein_coding missense_variant MODERATE 346A>C Lys116Gln
M0008381 LPPEPKGK_00002 1247 4 Skin 0.33 protein_coding missense_variant MODERATE 440G>C Gly147Ala
M0008382 LPPEPKGK_00002 1503 4 Skin 0.33 protein_coding synonymous_variant LOW 696A>G Val232Val
M0008383 LPPEPKGK_00002 1530 4 Skin 0.33 protein_coding synonymous_variant LOW 723T>G Ala241Ala
M0008384 LPPEPKGK_00002 1608 4 Skin 0.33 protein_coding synonymous_variant LOW 801C>T Ile267Ile
M0008385 LPPEPKGK_00002 1689 4 Skin 0.33 protein_coding synonymous_variant LOW 882C>G Pro294Pro
M0008386 LPPEPKGK_00002 1832 5 Skin 0.42 protein_coding missense_variant MODERATE 1025C>T Ala342Val
M0008387 LPPEPKGK_00001 4014 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -3274G>A None
M0008388 LPPEPKGK_00001 805 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -65A>G None
M0008389 LPPEPKGK_00001 807 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -67G>C None
M0008390 LPPEPKGK_00002 817 3 Skin 0.25 protein_coding missense_variant MODERATE 10G>A Ala4Thr
M0008391 LPPEPKGK_00002 837 3 Skin 0.25 protein_coding synonymous_variant LOW 30G>A Ala10Ala
M0008392 LPPEPKGK_00002 858 3 Skin 0.25 protein_coding synonymous_variant LOW 51T>C Val17Val
M0008393 LPPEPKGK_00002 872 3 Skin 0.25 protein_coding missense_variant MODERATE 65T>C Val22Ala
M0008394 LPPEPKGK_00002 891 3 Skin 0.25 protein_coding synonymous_variant LOW 84G>T Thr28Thr
M0008395 LPPEPKGK_00002 1032 4 Skin 0.33 protein_coding synonymous_variant LOW 225G>A Gln75Gln
M0008396 LPPEPKGK_00002 1083 4 Skin 0.33 protein_coding synonymous_variant LOW 276T>C Asp92Asp
M0008397 LPPEPKGK_00016 14843 3 Skin 0.25 protein_coding missense_variant MODERATE 215T>A Val72Glu
M0008398 LPPEPKGK_00017 16088 3 Skin 0.25 protein_coding missense_variant MODERATE 433C>G Arg145Gly
M0008399 LPPEPKGK_00017 16111 3 Skin 0.25 protein_coding missense_variant MODERATE 410G>A Gly137Asp
M0008400 LPPEPKGK_00017 16121 3 Skin 0.25 protein_coding missense_variant MODERATE 400G>T Val134Phe
M0008401 LPPEPKGK_00017 16159 3 Skin 0.25 protein_coding missense_variant MODERATE 362C>A Ala121Glu
M0008402 LPPEPKGK_00018 16956 3 Skin 0.25 protein_coding synonymous_variant LOW 180A>G Leu60Leu
M0008403 LPPEPKGK_00017 17181 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -661A>G None
M0008404 LPPEPKGK_00020 18887 3 Skin 0.25 protein_coding missense_variant MODERATE 1145A>C Asp382Ala
M0008405 LPPEPKGK_00002 1013 3 Skin 0.25 protein_coding missense_variant MODERATE 206C>T Pro69Leu






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