Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1715
  Reference Plasmid   1111525849638712_bin.19__k141_203788
  Reference Plasmid Size   3066
  Reference Plasmid GC Content   0.67
  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
M0012149 MAHIGADE_00002 318 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -148G>C None
M0012150 MAHIGADE_00002 394 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -72G>T None
M0012151 MAHIGADE_00002 454 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -12T>G None
M0012152 MAHIGADE_00002 462 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -4T>C None
M0012153 MAHIGADE_00002 472 3 Skin 0.60 protein_coding missense_variant MODERATE 7C>G Leu3Val
M0012154 MAHIGADE_00002 520 3 Skin 0.60 protein_coding missense_variant MODERATE 55C>G Leu19Val
M0012155 MAHIGADE_00002 521 3 Skin 0.60 protein_coding missense_variant MODERATE 56T>C Leu19Pro
M0012156 MAHIGADE_00002 832 3 Skin 0.60 protein_coding missense_variant MODERATE 367A>G Asn123Asp
M0012157 MAHIGADE_00002 1120 4 Skin 0.80 protein_coding missense_variant MODERATE 655C>A Pro219Thr
M0012158 MAHIGADE_00002 1125 4 Skin 0.80 protein_coding missense_variant MODERATE 660G>C Glu220Asp
M0012159 MAHIGADE_00003 1655 3 Skin 0.60 protein_coding synonymous_variant LOW 231T>C Phe77Phe
M0012160 MAHIGADE_00003 1710 5 Skin 1.00 protein_coding synonymous_variant LOW 286T>C Leu96Leu
M0012161 MAHIGADE_00003 1865 4 Skin 0.80 protein_coding synonymous_variant LOW 441C>T Ile147Ile
M0012162 MAHIGADE_00003 1931 4 Skin 0.80 protein_coding synonymous_variant LOW 507T>C Ile169Ile
M0012163 MAHIGADE_00003 1991 3 Skin 0.60 protein_coding synonymous_variant LOW 567G>C Val189Val
M0012164 MAHIGADE_00003 1994 3 Skin 0.60 protein_coding synonymous_variant LOW 570C>T Tyr190Tyr
M0012165 MAHIGADE_00004 2095 3 Skin 0.60 protein_coding synonymous_variant LOW 9A>C Ala3Ala
M0012166 MAHIGADE_00004 2121 3 Skin 0.60 protein_coding missense_variant MODERATE 35C>T Ala12Val
M0012167 MAHIGADE_00004 2122 3 Skin 0.60 protein_coding synonymous_variant LOW 36G>C Ala12Ala
M0012168 MAHIGADE_00004 2131 3 Skin 0.60 protein_coding synonymous_variant LOW 45C>G Pro15Pro
M0012169 MAHIGADE_00004 2264 3 Skin 0.60 protein_coding missense_variant MODERATE 178T>G Tyr60Asp
M0012170 MAHIGADE_00004 2311 4 Skin 0.80 protein_coding synonymous_variant LOW 225A>C Gly75Gly
M0012171 MAHIGADE_00004 2465 3 Skin 0.60 protein_coding missense_variant MODERATE 379C>T His127Tyr
M0012172 MAHIGADE_00004 2524 4 Skin 0.80 protein_coding synonymous_variant LOW 438A>C Gly146Gly
M0012173 MAHIGADE_00004 2591 4 Skin 0.80 protein_coding missense_variant MODERATE 505G>T Ala169Ser
M0012174 MAHIGADE_00004 2640 4 Skin 0.80 protein_coding missense_variant MODERATE 554C>T Ala185Val
M0012175 MAHIGADE_00004 2675 4 Skin 0.80 protein_coding missense_variant MODERATE 589T>C Tyr197His
M0012176 MAHIGADE_00004 2177 3 Skin 0.60 protein_coding missense_variant MODERATE 91C>G Pro31Ala






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