Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2123
  Reference Plasmid   1111525849743011_bin.19_new__k141_583061
  Reference Plasmid Size   17440
  Reference Plasmid GC Content   0.66
  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
M0025512 JPFJKLGJ_00010 7516 7 Skin 0.35 protein_coding synonymous_variant LOW 570G>C Val190Val
M0025513 JPFJKLGJ_00010 7540 7 Skin 0.35 protein_coding synonymous_variant LOW 546A>G Ala182Ala
M0025514 JPFJKLGJ_00012 9584 3 Skin 0.15 protein_coding synonymous_variant LOW 1902G>C Ala634Ala
M0025515 JPFJKLGJ_00012 9605 3 Skin 0.15 protein_coding synonymous_variant LOW 1881C>T Ala627Ala
M0025516 JPFJKLGJ_00012 9626 3 Skin 0.15 protein_coding synonymous_variant LOW 1860T>C Thr620Thr
M0025517 JPFJKLGJ_00012 9674 4 Skin 0.20 protein_coding synonymous_variant LOW 1812T>G Leu604Leu
M0025518 JPFJKLGJ_00012 9677 4 Skin 0.20 protein_coding synonymous_variant LOW 1809A>G Glu603Glu
M0025519 JPFJKLGJ_00012 9680 4 Skin 0.20 protein_coding synonymous_variant LOW 1806G>T Gly602Gly
M0025520 JPFJKLGJ_00012 9694 4 Skin 0.20 protein_coding synonymous_variant LOW 1792C>T Leu598Leu
M0025521 JPFJKLGJ_00012 9707 4 Skin 0.20 protein_coding synonymous_variant LOW 1779G>T Ser593Ser
M0025522 JPFJKLGJ_00012 9734 4 Skin 0.20 protein_coding synonymous_variant LOW 1752A>G Ala584Ala
M0025523 JPFJKLGJ_00014 13113 10 Skin 0.50 protein_coding missense_variant MODERATE 345C>G Asp115Glu
M0025524 JPFJKLGJ_00014 13137 9 Skin 0.45 protein_coding synonymous_variant LOW 369C>G Arg123Arg
M0025525 JPFJKLGJ_00014 13155 9 Skin 0.45 protein_coding synonymous_variant LOW 387G>C Pro129Pro
M0025526 JPFJKLGJ_00014 13161 9 Skin 0.45 protein_coding synonymous_variant LOW 393C>A Gly131Gly
M0025527 JPFJKLGJ_00014 13164 9 Skin 0.45 protein_coding synonymous_variant LOW 396C>G Leu132Leu
M0025528 JPFJKLGJ_00014 13170 9 Skin 0.45 protein_coding synonymous_variant LOW 402A>G Glu134Glu
M0025529 JPFJKLGJ_00014 13179 9 Skin 0.45 protein_coding synonymous_variant LOW 411T>C Asp137Asp
M0025530 JPFJKLGJ_00014 13185 9 Skin 0.45 protein_coding synonymous_variant LOW 417G>A Val139Val
M0025531 JPFJKLGJ_00014 13224 9 Skin 0.45 protein_coding synonymous_variant LOW 456C>G Pro152Pro
M0025532 JPFJKLGJ_00014 13242 9 Skin 0.45 protein_coding synonymous_variant LOW 474T>C Arg158Arg
M0025533 JPFJKLGJ_00014 13278 9 Skin 0.45 protein_coding synonymous_variant LOW 510G>A Lys170Lys
M0025534 JPFJKLGJ_00014 13281 9 Skin 0.45 protein_coding synonymous_variant LOW 513A>G Ser171Ser
M0025535 JPFJKLGJ_00014 13323 9 Skin 0.45 protein_coding synonymous_variant LOW 555T>C Asp185Asp
M0025536 JPFJKLGJ_00014 13327 9 Skin 0.45 protein_coding synonymous_variant LOW 559A>C Arg187Arg
M0025537 JPFJKLGJ_00014 13329 9 Skin 0.45 protein_coding missense_variant MODERATE 561G>C Arg187Ser
M0025538 JPFJKLGJ_00014 13353 9 Skin 0.45 protein_coding synonymous_variant LOW 585C>G Leu195Leu
M0025539 JPFJKLGJ_00014 13356 9 Skin 0.45 protein_coding synonymous_variant LOW 588A>G Glu196Glu
M0025540 JPFJKLGJ_00014 13357 9 Skin 0.45 protein_coding missense_variant MODERATE 589G>T Ala197Ser
M0025541 JPFJKLGJ_00014 13380 8 Skin 0.40 protein_coding synonymous_variant LOW 612C>T Ile204Ile
M0025542 JPFJKLGJ_00018 14742 9 Skin 0.45 protein_coding missense_variant MODERATE 425T>C Val142Ala






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