Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C678
  Reference Plasmid   NZ_CP046304.1
  Reference Plasmid Size   23366
  Reference Plasmid GC Content   0.28
  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
M0097301 IMFNAMEH_00006 8973 3 Skin 0.15 protein_coding missense_variant MODERATE 1745T>A Phe582Tyr
M0097302 IMFNAMEH_00008 10420 3 Skin 0.15 protein_coding synonymous_variant LOW 186A>G Val62Val
M0097303 IMFNAMEH_00008 10544 3 Skin 0.15 protein_coding missense_variant MODERATE 310A>G Ser104Gly
M0097304 IMFNAMEH_00011 12141 3 Skin 0.15 protein_coding synonymous_variant LOW 813T>C Ser271Ser
M0097305 IMFNAMEH_00011 12303 5 Skin 0.25 protein_coding synonymous_variant LOW 651T>C Ala217Ala
M0097306 IMFNAMEH_00011 12354 4 Skin 0.20 protein_coding synonymous_variant LOW 600A>G Leu200Leu
M0097307 IMFNAMEH_00011 12411 4 Skin 0.20 protein_coding synonymous_variant LOW 543G>T Gly181Gly
M0097308 IMFNAMEH_00011 12417 4 Skin 0.20 protein_coding synonymous_variant LOW 537C>T Pro179Pro
M0097309 IMFNAMEH_00011 12575 4 Skin 0.20 protein_coding missense_variant MODERATE 379A>G Ile127Val
M0097310 IMFNAMEH_00011 12621 5 Skin 0.25 protein_coding synonymous_variant LOW 333T>G Thr111Thr
M0097311 IMFNAMEH_00011 12645 4 Skin 0.20 protein_coding synonymous_variant LOW 309G>A Arg103Arg
M0097312 IMFNAMEH_00011 12696 5 Skin 0.25 protein_coding missense_variant MODERATE 258T>G Ile86Met
M0097313 IMFNAMEH_00011 12195 3 Skin 0.15 protein_coding missense_variant MODERATE 759A>C Lys253Asn
M0097314 IMFNAMEH_00011 12229 3 Skin 0.15 protein_coding missense_variant MODERATE 725G>A Ser242Asn
M0097315 IMFNAMEH_00011 12279 4 Skin 0.20 protein_coding synonymous_variant LOW 675T>C Phe225Phe
M0097316 IMFNAMEH_00011 12749 3 Skin 0.15 protein_coding synonymous_variant LOW 205C>T Leu69Leu
M0097317 IMFNAMEH_00011 12791 3 Skin 0.15 protein_coding missense_variant MODERATE 163G>A Glu55Lys
M0097318 IMFNAMEH_00011 12819 3 Skin 0.15 protein_coding synonymous_variant LOW 135T>C Thr45Thr
M0097319 IMFNAMEH_00011 12833 3 Skin 0.15 protein_coding missense_variant MODERATE 121T>C Tyr41His
M0097320 IMFNAMEH_00011 12906 3 Skin 0.15 protein_coding missense_variant MODERATE 48C>A Asn16Lys
M0097321 IMFNAMEH_00011 12910 3 Skin 0.15 protein_coding missense_variant MODERATE 44G>T Gly15Val
M0097322 IMFNAMEH_00012 13104 5 Skin 0.25 protein_coding missense_variant MODERATE 149G>A Gly50Glu
M0097323 IMFNAMEH_00012 13135 5 Skin 0.25 protein_coding missense_variant MODERATE 118G>A Glu40Lys
M0097324 IMFNAMEH_00012 13198 3 Skin 0.15 protein_coding missense_variant MODERATE 55G>A Ala19Thr
M0097325 IMFNAMEH_00012 13213 5 Skin 0.25 protein_coding missense_variant MODERATE 40A>G Thr14Ala
M0097326 IMFNAMEH_00012 13240 3 Skin 0.15 protein_coding missense_variant MODERATE 13T>G Ser5Ala
M0097327 IMFNAMEH_00011 13283 5 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -330A>T None
M0097328 IMFNAMEH_00008 10816 3 Skin 0.15 protein_coding synonymous_variant LOW 582A>G Leu194Leu
M0097329 IMFNAMEH_00009 11115 3 Skin 0.15 protein_coding synonymous_variant LOW 132G>T Pro44Pro
M0097330 IMFNAMEH_00009 11521 3 Skin 0.15 protein_coding missense_variant MODERATE 538A>G Ile180Val
M0097331 IMFNAMEH_00010 11820 3 Skin 0.15 protein_coding synonymous_variant LOW 93C>T Asn31Asn
M0097332 IMFNAMEH_00001 2132 3 Skin 0.15 protein_coding upstream_gene_variant MODIFIER -1056T>C None
M0097333 IMFNAMEH_00003 2597 3 Skin 0.15 protein_coding synonymous_variant LOW 528A>C Gly176Gly
M0097334 IMFNAMEH_00003 2771 3 Skin 0.15 protein_coding synonymous_variant LOW 354T>C Phe118Phe
M0097335 IMFNAMEH_00003 2854 3 Skin 0.15 protein_coding missense_variant MODERATE 271T>C Tyr91His
M0097336 IMFNAMEH_00005 5753 3 Skin 0.15 protein_coding synonymous_variant LOW 1300C>T Leu434Leu
M0097337 IMFNAMEH_00015 15732 3 Skin 0.15 protein_coding missense_variant MODERATE 536G>A Arg179Lys
M0097338 IMFNAMEH_00015 15921 3 Skin 0.15 protein_coding missense_variant MODERATE 725A>G Asp242Gly






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
IMFNAMEH_00004 1.C.21.1.8 100 2.6e-27 1 57 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.21 The Lacticin 481 (Lacticin 481) Family
IMFNAMEH_00006 3.A.1.111.7 98.7 0 1 694 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
IMFNAMEH_00007 3.A.1.124.3 97.9 7.9e-155 1 289 0.9570 0.9931 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
IMFNAMEH_00008 3.A.1.124.3 98 5.4e-125 1 250 1.0000 0.8591 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
IMFNAMEH_00009 3.A.1.124.3 97.1 2e-124 1 245 1.0000 0.8419 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
IMFNAMEH_00010 9.B.351.1.1 98.9 1.8e-38 1 92 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.351 The Lantibiotic Immunity Protein (LIP) Family