Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2697
  Reference Plasmid   1111525849860954_bin.16__k141_368636
  Reference Plasmid Size   5938
  Reference Plasmid GC Content   0.61
  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
M0131006 NCKBDLKP_00004 3661 5 Oral 0.56 protein_coding synonymous_variant LOW 330A>G Ala110Ala
M0131007 NCKBDLKP_00004 3688 7 Oral 0.78 protein_coding synonymous_variant LOW 357A>G Gln119Gln
M0131008 NCKBDLKP_00004 3712 6 Oral 0.67 protein_coding synonymous_variant LOW 381A>T Gly127Gly
M0131009 NCKBDLKP_00004 3736 7 Oral 0.78 protein_coding synonymous_variant LOW 405A>G Thr135Thr
M0131010 NCKBDLKP_00004 3802 6 Oral 0.67 protein_coding synonymous_variant LOW 471C>T Ala157Ala
M0131011 NCKBDLKP_00004 3832 5 Oral 0.56 protein_coding synonymous_variant LOW 501C>T Thr167Thr
M0131012 NCKBDLKP_00004 3848 3 Oral 0.33 protein_coding synonymous_variant LOW 517T>C Leu173Leu
M0131013 NCKBDLKP_00004 3868 5 Oral 0.56 protein_coding synonymous_variant LOW 537T>C Gly179Gly
M0131014 NCKBDLKP_00004 3874 5 Oral 0.56 protein_coding synonymous_variant LOW 543C>T His181His
M0131015 NCKBDLKP_00004 3877 6 Oral 0.67 protein_coding synonymous_variant LOW 546T>C Gly182Gly
M0131016 NCKBDLKP_00004 3922 7 Oral 0.78 protein_coding synonymous_variant LOW 591A>G Ala197Ala
M0131017 NCKBDLKP_00004 4012 3 Oral 0.33 protein_coding synonymous_variant LOW 681C>G Thr227Thr
M0131018 NCKBDLKP_00004 4034 3 Oral 0.33 protein_coding missense_variant MODERATE 703C>A Leu235Met
M0131019 NCKBDLKP_00004 4066 7 Oral 0.78 protein_coding synonymous_variant LOW 735A>G Leu245Leu
M0131020 NCKBDLKP_00004 4081 7 Oral 0.78 protein_coding synonymous_variant LOW 750A>C Arg250Arg
M0131021 NCKBDLKP_00004 4219 5 Oral 0.56 protein_coding synonymous_variant LOW 888C>T Phe296Phe
M0131022 NCKBDLKP_00004 4226 4 Oral 0.44 protein_coding synonymous_variant LOW 895C>T Leu299Leu
M0131023 NCKBDLKP_00004 4252 5 Oral 0.56 protein_coding synonymous_variant LOW 921T>C Thr307Thr
M0131024 NCKBDLKP_00004 4255 5 Oral 0.56 protein_coding synonymous_variant LOW 924C>G Leu308Leu
M0131025 NCKBDLKP_00004 4256 6 Oral 0.67 protein_coding missense_variant MODERATE 925G>T Ala309Ser
M0131026 NCKBDLKP_00004 4258 5 Oral 0.56 protein_coding synonymous_variant LOW 927C>T Ala309Ala
M0131027 NCKBDLKP_00004 4261 4 Oral 0.44 protein_coding synonymous_variant LOW 930C>T Arg310Arg
M0131028 NCKBDLKP_00004 4264 6 Oral 0.67 protein_coding synonymous_variant LOW 933T>C Ser311Ser
M0131029 NCKBDLKP_00004 4294 5 Oral 0.56 protein_coding synonymous_variant LOW 963C>T Leu321Leu
M0131030 NCKBDLKP_00004 4300 5 Oral 0.56 protein_coding synonymous_variant LOW 969C>T Gly323Gly
M0131031 NCKBDLKP_00004 4321 4 Oral 0.44 protein_coding synonymous_variant LOW 990C>T Ser330Ser
M0131032 NCKBDLKP_00004 4336 5 Oral 0.56 protein_coding synonymous_variant LOW 1005T>A Arg335Arg
M0131033 NCKBDLKP_00004 4390 4 Oral 0.44 protein_coding synonymous_variant LOW 1059T>C Gly353Gly
M0131034 NCKBDLKP_00005 4444 3 Oral 0.33 protein_coding missense_variant MODERATE 7A>G Thr3Ala
M0131035 NCKBDLKP_00005 4551 5 Oral 0.56 protein_coding synonymous_variant LOW 114C>T Val38Val
M0131036 NCKBDLKP_00005 4569 5 Oral 0.56 protein_coding synonymous_variant LOW 132T>C Ala44Ala
M0131037 NCKBDLKP_00005 4575 3 Oral 0.33 protein_coding synonymous_variant LOW 138C>T Gly46Gly
M0131038 NCKBDLKP_00005 4641 5 Oral 0.56 protein_coding synonymous_variant LOW 204T>C Asp68Asp
M0131039 NCKBDLKP_00005 4680 6 Oral 0.67 protein_coding synonymous_variant LOW 243T>C Ala81Ala
M0131040 NCKBDLKP_00005 4686 6 Oral 0.67 protein_coding synonymous_variant LOW 249T>C Ile83Ile
M0131041 NCKBDLKP_00005 4719 5 Oral 0.56 protein_coding synonymous_variant LOW 282G>T Pro94Pro
M0131042 NCKBDLKP_00005 4791 4 Oral 0.44 protein_coding synonymous_variant LOW 354C>T Ser118Ser
M0131043 NCKBDLKP_00005 4806 6 Oral 0.67 protein_coding synonymous_variant LOW 369A>C Arg123Arg
M0131044 NCKBDLKP_00005 4851 6 Oral 0.67 protein_coding synonymous_variant LOW 414G>T Ala138Ala
M0131045 NCKBDLKP_00005 4965 6 Oral 0.67 protein_coding synonymous_variant LOW 528T>C Asp176Asp
M0131046 NCKBDLKP_00005 5019 6 Oral 0.67 protein_coding synonymous_variant LOW 582C>G Gly194Gly
M0131047 NCKBDLKP_00005 5025 5 Oral 0.56 protein_coding synonymous_variant LOW 588T>G Thr196Thr
M0131048 NCKBDLKP_00005 5115 5 Oral 0.56 protein_coding synonymous_variant LOW 678T>C Gly226Gly
M0131049 NCKBDLKP_00005 5127 5 Oral 0.56 protein_coding synonymous_variant LOW 690A>G Ala230Ala
M0131050 NCKBDLKP_00005 5148 3 Oral 0.33 protein_coding synonymous_variant LOW 711T>C Ile237Ile
M0131051 NCKBDLKP_00005 5190 4 Oral 0.44 protein_coding synonymous_variant LOW 753G>A Pro251Pro
M0131052 NCKBDLKP_00005 5196 7 Oral 0.78 protein_coding synonymous_variant LOW 759C>T Thr253Thr
M0131053 NCKBDLKP_00005 5199 3 Oral 0.33 protein_coding synonymous_variant LOW 762T>C Gly254Gly
M0131054 NCKBDLKP_00005 5211 6 Oral 0.67 protein_coding synonymous_variant LOW 774G>T Val258Val
M0131055 NCKBDLKP_00005 5223 7 Oral 0.78 protein_coding synonymous_variant LOW 786A>G Glu262Glu
M0131056 NCKBDLKP_00005 5232 8 Oral 0.89 protein_coding synonymous_variant LOW 795G>A Thr265Thr
M0131057 NCKBDLKP_00005 5277 6 Oral 0.67 protein_coding synonymous_variant LOW 840G>A Glu280Glu
M0131058 NCKBDLKP_00001 5308 5 Oral 0.56 protein_coding downstream_gene_variant MODIFIER *4436T>A None
M0131059 NCKBDLKP_00001 5330 8 Oral 0.89 protein_coding downstream_gene_variant MODIFIER *4458C>G None
M0131060 NCKBDLKP_00005 4621 3 Oral 0.33 protein_coding missense_variant MODERATE 184G>C Glu62Gln
M0131061 NCKBDLKP_00001 5520 4 Oral 0.44 protein_coding downstream_gene_variant MODIFIER *4648T>C None
M0131062 NCKBDLKP_00001 5521 4 Oral 0.44 protein_coding downstream_gene_variant MODIFIER *4649A>G None
M0131063 NCKBDLKP_00004 3547 3 Oral 0.33 protein_coding missense_variant MODERATE 216T>G Asn72Lys
M0131064 NCKBDLKP_00004 3559 3 Oral 0.33 protein_coding missense_variant MODERATE 228T>G Asp76Glu
M0131065 NCKBDLKP_00004 3577 5 Oral 0.56 protein_coding synonymous_variant LOW 246A>G Leu82Leu
M0131066 NCKBDLKP_00004 3730 3 Oral 0.33 protein_coding synonymous_variant LOW 399T>C Gly133Gly
M0131067 NCKBDLKP_00004 3775 3 Oral 0.33 protein_coding synonymous_variant LOW 444G>C Val148Val
M0131068 NCKBDLKP_00004 3808 3 Oral 0.33 protein_coding synonymous_variant LOW 477C>T Gly159Gly
M0131069 NCKBDLKP_00004 3862 3 Oral 0.33 protein_coding synonymous_variant LOW 531C>T Arg177Arg
M0131070 NCKBDLKP_00005 4812 3 Oral 0.33 protein_coding synonymous_variant LOW 375C>T Cys125Cys
M0131071 NCKBDLKP_00005 4878 4 Oral 0.44 protein_coding synonymous_variant LOW 441C>T Gly147Gly
M0131072 NCKBDLKP_00002 1066 4 Oral 0.44 protein_coding upstream_gene_variant MODIFIER -17C>A None
M0131073 NCKBDLKP_00002 1104 4 Oral 0.44 protein_coding missense_variant MODERATE 22T>G Ser8Ala
M0131074 NCKBDLKP_00002 1337 3 Oral 0.33 protein_coding synonymous_variant LOW 255T>C Asp85Asp
M0131075 NCKBDLKP_00002 1523 4 Oral 0.44 protein_coding synonymous_variant LOW 441T>C Thr147Thr
M0131076 NCKBDLKP_00002 2021 4 Oral 0.44 protein_coding synonymous_variant LOW 939G>T Val313Val
M0131077 NCKBDLKP_00002 2027 4 Oral 0.44 protein_coding synonymous_variant LOW 945T>C Thr315Thr
M0131078 NCKBDLKP_00002 2033 4 Oral 0.44 protein_coding synonymous_variant LOW 951C>T Thr317Thr
M0131079 NCKBDLKP_00002 2045 3 Oral 0.33 protein_coding synonymous_variant LOW 963C>G Ala321Ala
M0131080 NCKBDLKP_00003 2127 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -138A>T None
M0131081 NCKBDLKP_00003 2228 4 Oral 0.44 protein_coding upstream_gene_variant MODIFIER -37A>G None
M0131082 NCKBDLKP_00003 2768 4 Oral 0.44 protein_coding synonymous_variant LOW 504C>T Ile168Ile
M0131083 NCKBDLKP_00003 2822 3 Oral 0.33 protein_coding synonymous_variant LOW 558G>A Ala186Ala
M0131084 NCKBDLKP_00003 3026 3 Oral 0.33 protein_coding synonymous_variant LOW 762T>G Val254Val
M0131085 NCKBDLKP_00003 3122 4 Oral 0.44 protein_coding synonymous_variant LOW 858A>G Val286Val
M0131086 NCKBDLKP_00003 3186 4 Oral 0.44 protein_coding missense_variant MODERATE 922G>T Val308Leu
M0131087 NCKBDLKP_00003 3263 5 Oral 0.56 protein_coding synonymous_variant LOW 999C>T Ile333Ile
M0131088 NCKBDLKP_00004 3415 4 Oral 0.44 protein_coding synonymous_variant LOW 84C>T Gly28Gly
M0131089 NCKBDLKP_00002 1946 3 Oral 0.33 protein_coding synonymous_variant LOW 864G>A Ala288Ala
M0131090 NCKBDLKP_00002 1949 3 Oral 0.33 protein_coding synonymous_variant LOW 867C>T Ser289Ser
M0131091 NCKBDLKP_00002 2078 3 Oral 0.33 protein_coding synonymous_variant LOW 996G>A Val332Val
M0131092 NCKBDLKP_00002 2082 3 Oral 0.33 protein_coding missense_variant MODERATE 1000G>A Val334Met
M0131093 NCKBDLKP_00002 2084 3 Oral 0.33 protein_coding synonymous_variant LOW 1002G>T Val334Val
M0131094 NCKBDLKP_00002 2089 3 Oral 0.33 protein_coding missense_variant MODERATE 1007C>G Ala336Gly
M0131095 NCKBDLKP_00003 2202 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -63T>C None
M0131096 NCKBDLKP_00003 2423 3 Oral 0.33 protein_coding synonymous_variant LOW 159A>G Gly53Gly
M0131097 NCKBDLKP_00003 2546 3 Oral 0.33 protein_coding synonymous_variant LOW 282C>G Ala94Ala
M0131098 NCKBDLKP_00003 2555 3 Oral 0.33 protein_coding synonymous_variant LOW 291G>T Ala97Ala
M0131099 NCKBDLKP_00003 2609 3 Oral 0.33 protein_coding synonymous_variant LOW 345T>C Gly115Gly
M0131100 NCKBDLKP_00003 2829 3 Oral 0.33 protein_coding synonymous_variant LOW 565T>C Leu189Leu
M0131101 NCKBDLKP_00003 2912 3 Oral 0.33 protein_coding synonymous_variant LOW 648T>G Ala216Ala
M0131102 NCKBDLKP_00003 2960 3 Oral 0.33 protein_coding synonymous_variant LOW 696C>T Phe232Phe
M0131103 NCKBDLKP_00003 3077 3 Oral 0.33 protein_coding synonymous_variant LOW 813T>G Ala271Ala
M0131104 NCKBDLKP_00004 3364 3 Oral 0.33 protein_coding synonymous_variant LOW 33C>T Thr11Thr
M0131105 NCKBDLKP_00004 3374 3 Oral 0.33 protein_coding missense_variant MODERATE 43C>T Pro15Ser
M0131106 NCKBDLKP_00001 5365 3 Oral 0.33 protein_coding downstream_gene_variant MODIFIER *4493C>T None






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