Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2383
  Reference Plasmid   1111525849768046_bin.37__k141_148751
  Reference Plasmid Size   2358
  Reference Plasmid GC Content   0.39
  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
M0120583 LFHDIJDD_00001 347 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *906T>C None
M0120584 LFHDIJDD_00001 395 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *858G>A None
M0120585 LFHDIJDD_00001 416 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *837C>T None
M0120586 LFHDIJDD_00001 506 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *747T>G None
M0120587 LFHDIJDD_00001 530 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *723T>A None
M0120588 LFHDIJDD_00001 659 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *594A>G None
M0120589 LFHDIJDD_00001 764 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *489T>C None
M0120590 LFHDIJDD_00001 896 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *357A>C None
M0120591 LFHDIJDD_00001 959 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *294T>A None
M0120592 LFHDIJDD_00001 965 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *288T>C None
M0120593 LFHDIJDD_00001 974 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *279C>T None
M0120594 LFHDIJDD_00001 983 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *270A>G None
M0120595 LFHDIJDD_00001 1034 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *219T>A None
M0120596 LFHDIJDD_00001 1100 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *153A>G None
M0120597 LFHDIJDD_00001 1133 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *120T>A None
M0120598 LFHDIJDD_00001 1163 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *90C>T None
M0120599 LFHDIJDD_00001 1166 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *87A>G None
M0120600 LFHDIJDD_00001 1221 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *32G>T None
M0120601 LFHDIJDD_00001 1243 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *10C>A None
M0120602 LFHDIJDD_00001 1247 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *6G>A None
M0120603 LFHDIJDD_00001 1248 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *5A>G None
M0120604 LFHDIJDD_00001 1325 4 Oral 0.80 protein_coding synonymous_variant LOW 846A>T Ala282Ala
M0120605 LFHDIJDD_00001 1459 5 Oral 1.00 protein_coding missense_variant MODERATE 712A>G Thr238Ala
M0120606 LFHDIJDD_00001 1523 5 Oral 1.00 protein_coding synonymous_variant LOW 648T>C Gly216Gly
M0120607 LFHDIJDD_00001 1556 3 Oral 0.60 protein_coding synonymous_variant LOW 615C>T Ile205Ile
M0120608 LFHDIJDD_00001 1559 3 Oral 0.60 protein_coding synonymous_variant LOW 612C>T Ser204Ser
M0120609 LFHDIJDD_00001 1566 3 Oral 0.60 protein_coding missense_variant MODERATE 605C>T Thr202Ile
M0120610 LFHDIJDD_00001 1574 3 Oral 0.60 protein_coding synonymous_variant LOW 597T>A Pro199Pro
M0120611 LFHDIJDD_00001 1583 4 Oral 0.80 protein_coding synonymous_variant LOW 588A>T Pro196Pro
M0120612 LFHDIJDD_00001 1595 3 Oral 0.60 protein_coding synonymous_variant LOW 576G>A Ser192Ser
M0120613 LFHDIJDD_00001 1611 5 Oral 1.00 protein_coding missense_variant MODERATE 560T>A Leu187Gln
M0120614 LFHDIJDD_00001 1625 5 Oral 1.00 protein_coding synonymous_variant LOW 546T>C Ser182Ser
M0120615 LFHDIJDD_00001 1667 4 Oral 0.80 protein_coding synonymous_variant LOW 504A>G Glu168Glu
M0120616 LFHDIJDD_00001 1715 5 Oral 1.00 protein_coding synonymous_variant LOW 456A>G Lys152Lys
M0120617 LFHDIJDD_00001 1748 4 Oral 0.80 protein_coding synonymous_variant LOW 423A>C Gly141Gly
M0120618 LFHDIJDD_00001 1754 5 Oral 1.00 protein_coding synonymous_variant LOW 417C>T Ala139Ala
M0120619 LFHDIJDD_00001 1775 3 Oral 0.60 protein_coding synonymous_variant LOW 396T>C Gly132Gly
M0120620 LFHDIJDD_00001 1865 5 Oral 1.00 protein_coding synonymous_variant LOW 306T>C Asn102Asn
M0120621 LFHDIJDD_00001 2105 5 Oral 1.00 protein_coding synonymous_variant LOW 66G>A Glu22Glu
M0120622 LFHDIJDD_00001 2202 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -32T>C None
M0120623 LFHDIJDD_00001 2203 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -33T>C None
M0120624 LFHDIJDD_00001 2274 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -104A>G None
M0120625 LFHDIJDD_00001 251 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *1002G>A None
M0120626 LFHDIJDD_00001 2024 4 Oral 0.80 protein_coding synonymous_variant LOW 147G>A Ala49Ala
M0120627 LFHDIJDD_00001 2066 4 Oral 0.80 protein_coding synonymous_variant LOW 105A>G Lys35Lys






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