Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2096
  Reference Plasmid   1111525849742797_bin.26__k141_261502
  Reference Plasmid Size   27076
  Reference Plasmid GC Content   0.57
  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
M0024681 KNAGGOLH_00001 379 9 Skin 0.23 protein_coding synonymous_variant LOW 354G>C Ala118Ala
M0024682 KNAGGOLH_00001 380 9 Skin 0.23 protein_coding synonymous_variant LOW 355C>T Leu119Leu
M0024683 KNAGGOLH_00001 403 9 Skin 0.23 protein_coding synonymous_variant LOW 378G>A Gln126Gln
M0024684 KNAGGOLH_00001 409 9 Skin 0.23 protein_coding synonymous_variant LOW 384C>A Val128Val
M0024685 KNAGGOLH_00001 430 9 Skin 0.23 protein_coding synonymous_variant LOW 405A>C Ala135Ala
M0024686 KNAGGOLH_00001 450 9 Skin 0.23 protein_coding missense_variant MODERATE 425G>A Ser142Asn
M0024687 KNAGGOLH_00001 451 9 Skin 0.23 protein_coding synonymous_variant LOW 426C>T Ser142Ser
M0024688 KNAGGOLH_00001 454 9 Skin 0.23 protein_coding synonymous_variant LOW 429T>C Thr143Thr
M0024689 KNAGGOLH_00001 487 9 Skin 0.23 protein_coding synonymous_variant LOW 462C>A Ala154Ala
M0024690 KNAGGOLH_00001 491 9 Skin 0.23 protein_coding synonymous_variant LOW 466T>C Leu156Leu
M0024691 KNAGGOLH_00001 502 9 Skin 0.23 protein_coding synonymous_variant LOW 477C>G Val159Val
M0024692 KNAGGOLH_00001 503 9 Skin 0.23 protein_coding synonymous_variant LOW 478T>C Leu160Leu
M0024693 KNAGGOLH_00001 509 9 Skin 0.23 protein_coding synonymous_variant LOW 484C>T Leu162Leu
M0024694 KNAGGOLH_00001 514 9 Skin 0.23 protein_coding synonymous_variant LOW 489A>T Arg163Arg
M0024695 KNAGGOLH_00001 518 9 Skin 0.23 protein_coding synonymous_variant LOW 493C>T Leu165Leu
M0024696 KNAGGOLH_00001 550 9 Skin 0.23 protein_coding synonymous_variant LOW 525A>T Ala175Ala
M0024697 KNAGGOLH_00004 3840 3 Skin 0.08 protein_coding missense_variant MODERATE 76A>T Met26Leu
M0024698 KNAGGOLH_00004 3862 3 Skin 0.08 protein_coding synonymous_variant LOW 54C>T Gly18Gly
M0024699 KNAGGOLH_00004 3864 3 Skin 0.08 protein_coding missense_variant MODERATE 52G>A Gly18Ser
M0024700 KNAGGOLH_00004 3894 3 Skin 0.08 protein_coding missense_variant MODERATE 22G>A Glu8Lys
M0024701 KNAGGOLH_00011 12209 3 Skin 0.08 protein_coding missense_variant MODERATE 1089T>A Phe363Leu
M0024702 KNAGGOLH_00013 14169 3 Skin 0.08 protein_coding synonymous_variant LOW 156T>A Ala52Ala
M0024703 KNAGGOLH_00013 14193 3 Skin 0.08 protein_coding synonymous_variant LOW 180C>T Ile60Ile
M0024704 KNAGGOLH_00013 14214 3 Skin 0.08 protein_coding synonymous_variant LOW 201G>A Glu67Glu
M0024705 KNAGGOLH_00013 14238 3 Skin 0.08 protein_coding synonymous_variant LOW 225G>C Leu75Leu
M0024706 KNAGGOLH_00013 14247 3 Skin 0.08 protein_coding synonymous_variant LOW 234T>G Arg78Arg
M0024707 KNAGGOLH_00003 2968 3 Skin 0.08 protein_coding synonymous_variant LOW 651A>G Leu217Leu
M0024708 KNAGGOLH_00003 2970 3 Skin 0.08 protein_coding synonymous_variant LOW 649T>C Leu217Leu
M0024709 KNAGGOLH_00003 2977 3 Skin 0.08 protein_coding synonymous_variant LOW 642T>A Thr214Thr
M0024710 KNAGGOLH_00003 2980 3 Skin 0.08 protein_coding synonymous_variant LOW 639A>T Pro213Pro
M0024711 KNAGGOLH_00003 2986 3 Skin 0.08 protein_coding synonymous_variant LOW 633G>T Val211Val
M0024712 KNAGGOLH_00003 2989 3 Skin 0.08 protein_coding synonymous_variant LOW 630C>A Pro210Pro
M0024713 KNAGGOLH_00015 15791 3 Skin 0.08 protein_coding missense_variant MODERATE 409T>C Tyr137His






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
KNAGGOLH_00009 PHI:9150 speB 87.5 1.3e-160 1 304 0.9935 0.9935 birds colibacillosis agmatinase reduced virulence






        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
KNAGGOLH_00001 3.A.1.14.3 70.1 7.3e-240 1 613 0.9984 2.0642 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily