Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3142
  Reference Plasmid   MET0246_bin.3__k81_3176
  Reference Plasmid Size   4179
  Reference Plasmid GC Content   0.30
  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
M0076387 AFGAAEGE_00001 101 4 Skin 0.57 protein_coding missense_variant MODERATE 65T>C Leu22Pro
M0076388 AFGAAEGE_00001 117 3 Skin 0.43 protein_coding synonymous_variant LOW 81T>A Thr27Thr
M0076389 AFGAAEGE_00001 318 3 Skin 0.43 protein_coding synonymous_variant LOW 282G>A Ser94Ser
M0076390 AFGAAEGE_00001 338 4 Skin 0.57 protein_coding missense_variant MODERATE 302C>T Ala101Val
M0076391 AFGAAEGE_00001 354 3 Skin 0.43 protein_coding synonymous_variant LOW 318T>C Ala106Ala
M0076392 AFGAAEGE_00001 367 4 Skin 0.57 protein_coding synonymous_variant LOW 331C>T Leu111Leu
M0076393 AFGAAEGE_00001 426 3 Skin 0.43 protein_coding synonymous_variant LOW 390C>T Ser130Ser
M0076394 AFGAAEGE_00001 486 6 Skin 0.86 protein_coding synonymous_variant LOW 450C>T Asn150Asn
M0076395 AFGAAEGE_00001 669 5 Skin 0.71 protein_coding synonymous_variant LOW 633G>A Lys211Lys
M0076396 AFGAAEGE_00001 672 4 Skin 0.57 protein_coding synonymous_variant LOW 636T>C Asn212Asn
M0076397 AFGAAEGE_00001 754 3 Skin 0.43 protein_coding missense_variant MODERATE 718T>A Phe240Ile
M0076398 AFGAAEGE_00001 755 3 Skin 0.43 protein_coding missense_variant MODERATE 719T>C Phe240Ser
M0076399 AFGAAEGE_00001 818 6 Skin 0.86 protein_coding missense_variant MODERATE 782C>G Ser261Cys
M0076400 AFGAAEGE_00001 865 4 Skin 0.57 protein_coding missense_variant MODERATE 829G>T Asp277Tyr
M0076401 AFGAAEGE_00001 866 4 Skin 0.57 protein_coding missense_variant MODERATE 830A>C Asp277Ala
M0076402 AFGAAEGE_00001 1185 4 Skin 0.57 protein_coding synonymous_variant LOW 1149A>G Glu383Glu
M0076403 AFGAAEGE_00001 1440 4 Skin 0.57 protein_coding synonymous_variant LOW 1404A>G Val468Val
M0076404 AFGAAEGE_00001 1446 6 Skin 0.86 protein_coding synonymous_variant LOW 1410C>T Val470Val
M0076405 AFGAAEGE_00001 1449 6 Skin 0.86 protein_coding synonymous_variant LOW 1413C>T Asp471Asp
M0076406 AFGAAEGE_00001 1528 4 Skin 0.57 protein_coding missense_variant MODERATE 1492A>G Asn498Asp
M0076407 AFGAAEGE_00001 1707 6 Skin 0.86 protein_coding missense_variant MODERATE 1671T>A Asn557Lys
M0076408 AFGAAEGE_00001 1809 4 Skin 0.57 protein_coding synonymous_variant LOW 1773G>A Val591Val
M0076409 AFGAAEGE_00001 1840 4 Skin 0.57 protein_coding synonymous_variant LOW 1804T>C Leu602Leu
M0076410 AFGAAEGE_00001 1885 4 Skin 0.57 protein_coding missense_variant MODERATE 1849A>G Ile617Val
M0076411 AFGAAEGE_00001 1901 6 Skin 0.86 protein_coding missense_variant MODERATE 1865G>A Arg622Gln
M0076412 AFGAAEGE_00001 1938 4 Skin 0.57 protein_coding synonymous_variant LOW 1902G>A Leu634Leu
M0076413 AFGAAEGE_00001 1965 3 Skin 0.43 protein_coding synonymous_variant LOW 1929T>A Gly643Gly
M0076414 AFGAAEGE_00001 1992 3 Skin 0.43 protein_coding synonymous_variant LOW 1956G>T Gly652Gly
M0076415 AFGAAEGE_00001 1997 6 Skin 0.86 protein_coding missense_variant MODERATE 1961T>A Phe654Tyr
M0076416 AFGAAEGE_00001 2015 3 Skin 0.43 protein_coding missense_variant MODERATE 1979A>G Asn660Ser
M0076417 AFGAAEGE_00001 2049 4 Skin 0.57 protein_coding synonymous_variant LOW 2013A>T Thr671Thr
M0076418 AFGAAEGE_00001 2190 4 Skin 0.57 protein_coding synonymous_variant LOW 2154G>A Pro718Pro
M0076419 AFGAAEGE_00002 2304 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -163G>A None
M0076420 AFGAAEGE_00002 2327 5 Skin 0.71 protein_coding upstream_gene_variant MODIFIER -140T>C None
M0076421 AFGAAEGE_00002 2372 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -95G>A None
M0076422 AFGAAEGE_00001 614 5 Skin 0.71 protein_coding missense_variant MODERATE 578C>A Ala193Glu






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