Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1228
  Reference Plasmid   NZ_CP137610.1
  Reference Plasmid Size   35582
  Reference Plasmid GC Content   0.35
  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
M0200480 NHCMBEBA_00004 3000 3 Gut 1.00 protein_coding synonymous_variant LOW 663G>A Glu221Glu
M0200481 NHCMBEBA_00006 3957 3 Gut 1.00 protein_coding missense_variant MODERATE 886C>A Leu296Met
M0200482 NHCMBEBA_00006 5798 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -956T>C None
M0200483 NHCMBEBA_00009 6980 3 Gut 1.00 protein_coding missense_variant MODERATE 974G>A Gly325Glu
M0200484 NHCMBEBA_00009 7555 3 Gut 1.00 protein_coding synonymous_variant LOW 399T>C His133His
M0200485 NHCMBEBA_00009 7558 3 Gut 1.00 protein_coding synonymous_variant LOW 396T>C Pro132Pro
M0200486 NHCMBEBA_00009 7564 3 Gut 1.00 protein_coding synonymous_variant LOW 390T>C Gly130Gly
M0200487 NHCMBEBA_00009 7570 3 Gut 1.00 protein_coding synonymous_variant LOW 384A>T Gly128Gly
M0200488 NHCMBEBA_00006 8325 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3483A>G None
M0200489 NHCMBEBA_00010 8497 3 Gut 1.00 protein_coding synonymous_variant LOW 42A>G Lys14Lys
M0200490 NHCMBEBA_00013 10174 3 Gut 1.00 protein_coding start_lost HIGH 3G>A Met1?






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
NHCMBEBA_00028 ARO:3007019 98.9 1.060000000021e-313 1 469 1.0000 1.0000 phenicol antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
NHCMBEBA_00030 ARO:3004470 99.1 0 1 541 1.0000 0.9982 tetracycline antibiotic Miscellaneous ABC-F subfamily ATP-binding cassette ribosomal protection proteins antibiotic target protection






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
NHCMBEBA_00028 2.A.1.3.46 99.6 3.6e-247 1 469 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)