Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1356
  Reference Plasmid   NZ_LR883052.1
  Reference Plasmid Size   82909
  Reference Plasmid GC Content   0.49
  Reference Plasmid Mobility Type   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
M0207099 HNEIMGFJ_00087 62126 3 Gut 0.30 protein_coding synonymous_variant LOW 714T>C Arg238Arg
M0207100 HNEIMGFJ_00081 62186 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -4876G>A None
M0207101 HNEIMGFJ_00081 62189 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -4879C>A None
M0207102 HNEIMGFJ_00081 62192 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -4882C>T None
M0207103 HNEIMGFJ_00081 62196 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -4886T>C None
M0207104 HNEIMGFJ_00081 62198 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -4888A>T None
M0207105 HNEIMGFJ_00081 62221 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -4911T>A None
M0207106 HNEIMGFJ_00088 62239 3 Gut 0.30 protein_coding synonymous_variant LOW 558T>C Arg186Arg
M0207107 HNEIMGFJ_00088 62263 3 Gut 0.30 protein_coding synonymous_variant LOW 534C>T Val178Val
M0207108 HNEIMGFJ_00088 62268 3 Gut 0.30 protein_coding missense_variant MODERATE 529G>C Asp177His
M0207109 HNEIMGFJ_00088 62307 3 Gut 0.30 protein_coding missense_variant MODERATE 490G>A Val164Ile
M0207110 HNEIMGFJ_00088 62329 3 Gut 0.30 protein_coding missense_variant MODERATE 468T>G Asp156Glu
M0207111 HNEIMGFJ_00088 62341 3 Gut 0.30 protein_coding synonymous_variant LOW 456G>A Pro152Pro
M0207112 HNEIMGFJ_00088 62350 3 Gut 0.30 protein_coding synonymous_variant LOW 447G>C Leu149Leu
M0207113 HNEIMGFJ_00088 62374 3 Gut 0.30 protein_coding synonymous_variant LOW 423C>T Gly141Gly
M0207114 HNEIMGFJ_00088 62385 3 Gut 0.30 protein_coding synonymous_variant LOW 412T>C Leu138Leu
M0207115 HNEIMGFJ_00088 62395 3 Gut 0.30 protein_coding synonymous_variant LOW 402T>C Ala134Ala
M0207116 HNEIMGFJ_00088 62428 3 Gut 0.30 protein_coding synonymous_variant LOW 369T>C Ser123Ser






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
HNEIMGFJ_00003 VFG042755 Adhesive fimbriae 100 1.5e-54 1 101 1.0 1 Adherence LngR prediction
HNEIMGFJ_00004 VFG042756 Adhesive fimbriae 100 2.4e-169 1 298 1.0 1 Adherence LngS prediction
HNEIMGFJ_00005 VFG042757 Adhesive fimbriae 100 5.5e-82 1 147 1.0 1 Adherence LngT prediction
HNEIMGFJ_00006 VFG042758 Adhesive fimbriae 100 5.6e-35 1 73 1.0 1 Adherence LngX2 prediction
HNEIMGFJ_00007 VFG042759 Adhesive fimbriae 98.7 1e-122 1 236 1.0 1 Adherence LngA prediction
HNEIMGFJ_00008 VFG042760 Adhesive fimbriae 100 1.2e-301 1 523 1.0 1 Adherence LngB prediction
HNEIMGFJ_00009 VFG042761 Adhesive fimbriae 100 2.4e-71 1 137 1.0 1 Adherence LngC prediction
HNEIMGFJ_00010 VFG042762 Adhesive fimbriae 100 3e-270 1 485 1.0 0.9858 Adherence LngD prediction
HNEIMGFJ_00011 VFG042763 Adhesive fimbriae 100 2.5e-103 1 186 1.0 1 Adherence LngE prediction
HNEIMGFJ_00012 VFG042764 Adhesive fimbriae 100 4.7e-143 1 256 0.9309 0.9961 Adherence LngF prediction
HNEIMGFJ_00013 VFG042765 Adhesive fimbriae 100 3e-81 1 161 1.0 1 Adherence LngG prediction
HNEIMGFJ_00014 VFG042766 Adhesive fimbriae 100 1.1e-262 67 510 0.8706 1 Adherence LngH prediction
HNEIMGFJ_00015 VFG042781 Adhesive fimbriae 95.9 2.3e-179 1 341 1.0 1 Adherence CofI prediction
HNEIMGFJ_00016 VFG042768 Adhesive fimbriae 99.5 2.2e-220 1 373 1.0 1 Adherence LngJ prediction
HNEIMGFJ_00017 VFG042769 Adhesive fimbriae 100 5.7e-160 1 284 1.0 1 Adherence LngP prediction







        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
HNEIMGFJ_00005 AOT35488.1|GH23 100 7.36e-104 1 147 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