Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C946
  Reference Plasmid   NZ_CP082880.1
  Reference Plasmid Size   25043
  Reference Plasmid GC Content   0.29
  Reference Plasmid Mobility Type   conjugative





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
M0189480 HMGBHFIM_00003 2356 3 Gut 1.00 protein_coding synonymous_variant LOW 1428G>A Thr476Thr
M0189481 HMGBHFIM_00011 6925 3 Gut 1.00 protein_coding synonymous_variant LOW 67C>T Leu23Leu
M0189482 HMGBHFIM_00004 6997 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3676G>A None
M0189483 HMGBHFIM_00012 7019 3 Gut 1.00 protein_coding missense_variant MODERATE 1807G>A Val603Ile
M0189484 HMGBHFIM_00012 7029 3 Gut 1.00 protein_coding synonymous_variant LOW 1797A>G Leu599Leu
M0189485 HMGBHFIM_00012 7032 3 Gut 1.00 protein_coding synonymous_variant LOW 1794A>G Thr598Thr
M0189486 HMGBHFIM_00012 7033 3 Gut 1.00 protein_coding missense_variant MODERATE 1793C>T Thr598Ile
M0189487 HMGBHFIM_00012 7050 3 Gut 1.00 protein_coding missense_variant MODERATE 1776A>T Leu592Phe
M0189488 HMGBHFIM_00012 7051 3 Gut 1.00 protein_coding missense_variant MODERATE 1775T>C Leu592Ser
M0189489 HMGBHFIM_00012 7053 3 Gut 1.00 protein_coding synonymous_variant LOW 1773T>C Phe591Phe
M0189490 HMGBHFIM_00012 8026 3 Gut 1.00 protein_coding missense_variant MODERATE 800G>C Gly267Ala
M0189491 HMGBHFIM_00012 8028 3 Gut 1.00 protein_coding synonymous_variant LOW 798G>A Ala266Ala
M0189492 HMGBHFIM_00012 8031 3 Gut 1.00 protein_coding synonymous_variant LOW 795G>A Glu265Glu
M0189493 HMGBHFIM_00012 8043 3 Gut 1.00 protein_coding synonymous_variant LOW 783C>T Tyr261Tyr
M0189494 HMGBHFIM_00012 8048 3 Gut 1.00 protein_coding missense_variant MODERATE 778T>G Ser260Ala
M0189495 HMGBHFIM_00012 8049 3 Gut 1.00 protein_coding synonymous_variant LOW 777C>A Thr259Thr
M0189496 HMGBHFIM_00012 8055 3 Gut 1.00 protein_coding synonymous_variant LOW 771T>A Gly257Gly
M0189497 HMGBHFIM_00012 8079 3 Gut 1.00 protein_coding synonymous_variant LOW 747G>T Thr249Thr
M0189498 HMGBHFIM_00012 8145 3 Gut 1.00 protein_coding synonymous_variant LOW 681G>A Leu227Leu
M0189499 HMGBHFIM_00012 8151 3 Gut 1.00 protein_coding synonymous_variant LOW 675C>A Ile225Ile
M0189500 HMGBHFIM_00012 8268 3 Gut 1.00 protein_coding synonymous_variant LOW 558C>T Gly186Gly
M0189501 HMGBHFIM_00012 8277 3 Gut 1.00 protein_coding synonymous_variant LOW 549C>T Asp183Asp
M0189502 HMGBHFIM_00012 8283 3 Gut 1.00 protein_coding synonymous_variant LOW 543A>T Ile181Ile
M0189503 HMGBHFIM_00012 8289 3 Gut 1.00 protein_coding synonymous_variant LOW 537T>A Ala179Ala
M0189504 HMGBHFIM_00012 8292 3 Gut 1.00 protein_coding synonymous_variant LOW 534C>T Ser178Ser
M0189505 HMGBHFIM_00012 8295 3 Gut 1.00 protein_coding synonymous_variant LOW 531A>G Glu177Glu
M0189506 HMGBHFIM_00012 8298 3 Gut 1.00 protein_coding synonymous_variant LOW 528C>A Gly176Gly
M0189507 HMGBHFIM_00012 8299 3 Gut 1.00 protein_coding missense_variant MODERATE 527G>A Gly176Asp
M0189508 HMGBHFIM_00012 8304 3 Gut 1.00 protein_coding synonymous_variant LOW 522T>C Ser174Ser
M0189509 HMGBHFIM_00012 8310 3 Gut 1.00 protein_coding synonymous_variant LOW 516C>T Leu172Leu
M0189510 HMGBHFIM_00012 8316 3 Gut 1.00 protein_coding synonymous_variant LOW 510C>T Pro170Pro






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
HMGBHFIM_00017 ALV00800.1|GH23 100 6.13e-124 1 181 1 1





        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