Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2474
  Reference Plasmid   1111525849768046_bin.37__k141_90719
  Reference Plasmid Size   6367
  Reference Plasmid GC Content   0.35
  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
M0128829 ADBFOKCM_00002 1574 7 Oral 0.54 protein_coding synonymous_variant LOW 732C>T Pro244Pro
M0128830 ADBFOKCM_00003 2115 7 Oral 0.54 protein_coding synonymous_variant LOW 108T>C Phe36Phe
M0128831 ADBFOKCM_00003 2169 3 Oral 0.23 protein_coding synonymous_variant LOW 162G>A Gln54Gln
M0128832 ADBFOKCM_00003 2261 8 Oral 0.62 protein_coding missense_variant MODERATE 254T>C Val85Ala
M0128833 ADBFOKCM_00003 2340 3 Oral 0.23 protein_coding missense_variant MODERATE 333C>G Asn111Lys
M0128834 ADBFOKCM_00003 2397 8 Oral 0.62 protein_coding synonymous_variant LOW 390T>A Pro130Pro
M0128835 ADBFOKCM_00003 2421 8 Oral 0.62 protein_coding synonymous_variant LOW 414G>A Gly138Gly
M0128836 ADBFOKCM_00003 2442 8 Oral 0.62 protein_coding synonymous_variant LOW 435A>T Ala145Ala
M0128837 ADBFOKCM_00003 2571 7 Oral 0.54 protein_coding synonymous_variant LOW 564A>G Ala188Ala
M0128838 ADBFOKCM_00003 2592 7 Oral 0.54 protein_coding synonymous_variant LOW 585A>G Ala195Ala
M0128839 ADBFOKCM_00003 2616 7 Oral 0.54 protein_coding synonymous_variant LOW 609C>T Asp203Asp
M0128840 ADBFOKCM_00004 2805 8 Oral 0.62 protein_coding synonymous_variant LOW 60C>T Asn20Asn
M0128841 ADBFOKCM_00004 2916 7 Oral 0.54 protein_coding synonymous_variant LOW 171C>T Asn57Asn
M0128842 ADBFOKCM_00004 2982 7 Oral 0.54 protein_coding synonymous_variant LOW 237G>A Val79Val
M0128843 ADBFOKCM_00004 3057 8 Oral 0.62 protein_coding synonymous_variant LOW 312G>A Val104Val
M0128844 ADBFOKCM_00004 3096 7 Oral 0.54 protein_coding synonymous_variant LOW 351T>A Gly117Gly
M0128845 ADBFOKCM_00004 3123 8 Oral 0.62 protein_coding synonymous_variant LOW 378T>C Asn126Asn
M0128846 ADBFOKCM_00004 3144 8 Oral 0.62 protein_coding synonymous_variant LOW 399C>A Leu133Leu
M0128847 ADBFOKCM_00004 3159 8 Oral 0.62 protein_coding synonymous_variant LOW 414T>C Asn138Asn
M0128848 ADBFOKCM_00004 3180 8 Oral 0.62 protein_coding synonymous_variant LOW 435C>A Ile145Ile
M0128849 ADBFOKCM_00005 3490 5 Oral 0.38 protein_coding synonymous_variant LOW 117A>G Leu39Leu
M0128850 ADBFOKCM_00005 3628 8 Oral 0.62 protein_coding synonymous_variant LOW 255G>A Ala85Ala
M0128851 ADBFOKCM_00005 3663 8 Oral 0.62 protein_coding missense_variant MODERATE 290T>C Val97Ala
M0128852 ADBFOKCM_00005 3688 6 Oral 0.46 protein_coding synonymous_variant LOW 315G>A Leu105Leu
M0128853 ADBFOKCM_00006 4180 3 Oral 0.23 protein_coding synonymous_variant LOW 153G>A Gln51Gln
M0128854 ADBFOKCM_00006 4267 3 Oral 0.23 protein_coding synonymous_variant LOW 240G>A Lys80Lys
M0128855 ADBFOKCM_00006 4447 6 Oral 0.46 protein_coding synonymous_variant LOW 420C>T Asn140Asn
M0128856 ADBFOKCM_00006 4546 8 Oral 0.62 protein_coding synonymous_variant LOW 519A>T Pro173Pro
M0128857 ADBFOKCM_00006 4603 4 Oral 0.31 protein_coding missense_variant MODERATE 576G>T Glu192Asp
M0128858 ADBFOKCM_00006 4633 7 Oral 0.54 protein_coding synonymous_variant LOW 606C>A Ile202Ile
M0128859 ADBFOKCM_00006 4678 5 Oral 0.38 protein_coding synonymous_variant LOW 651T>C Tyr217Tyr
M0128860 ADBFOKCM_00006 4711 8 Oral 0.62 protein_coding synonymous_variant LOW 684T>C Arg228Arg
M0128861 ADBFOKCM_00006 4726 8 Oral 0.62 protein_coding synonymous_variant LOW 699C>T Val233Val
M0128862 ADBFOKCM_00006 4825 6 Oral 0.46 protein_coding synonymous_variant LOW 798G>A Gly266Gly
M0128863 ADBFOKCM_00006 4933 5 Oral 0.38 protein_coding synonymous_variant LOW 906T>C Ala302Ala
M0128864 ADBFOKCM_00006 5029 8 Oral 0.62 protein_coding synonymous_variant LOW 1002A>G Glu334Glu
M0128865 ADBFOKCM_00006 5050 8 Oral 0.62 protein_coding synonymous_variant LOW 1023A>G Lys341Lys
M0128866 ADBFOKCM_00006 5155 7 Oral 0.54 protein_coding synonymous_variant LOW 1128T>C Tyr376Tyr
M0128867 ADBFOKCM_00001 5431 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4636A>T None
M0128868 ADBFOKCM_00001 5444 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4649A>C None
M0128869 ADBFOKCM_00001 5454 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4659A>G None
M0128870 ADBFOKCM_00001 5472 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4677G>T None
M0128871 ADBFOKCM_00001 5473 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4678G>T None
M0128872 ADBFOKCM_00001 5521 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4726T>C None
M0128873 ADBFOKCM_00001 5545 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4750G>C None
M0128874 ADBFOKCM_00001 66 6 Oral 0.46 protein_coding upstream_gene_variant MODIFIER -94A>C None
M0128875 ADBFOKCM_00001 435 6 Oral 0.46 protein_coding synonymous_variant LOW 276T>C Gly92Gly
M0128876 ADBFOKCM_00001 465 4 Oral 0.31 protein_coding synonymous_variant LOW 306A>T Ile102Ile
M0128877 ADBFOKCM_00001 477 6 Oral 0.46 protein_coding synonymous_variant LOW 318T>C Phe106Phe
M0128878 ADBFOKCM_00001 501 4 Oral 0.31 protein_coding synonymous_variant LOW 342C>T Ser114Ser
M0128879 ADBFOKCM_00002 821 6 Oral 0.46 protein_coding upstream_gene_variant MODIFIER -22A>G None
M0128880 ADBFOKCM_00002 1175 3 Oral 0.23 protein_coding synonymous_variant LOW 333A>T Ala111Ala
M0128881 ADBFOKCM_00002 1253 6 Oral 0.46 protein_coding synonymous_variant LOW 411A>C Ile137Ile
M0128882 ADBFOKCM_00002 1274 3 Oral 0.23 protein_coding synonymous_variant LOW 432A>T Pro144Pro
M0128883 ADBFOKCM_00002 1279 3 Oral 0.23 protein_coding missense_variant MODERATE 437G>A Ser146Asn
M0128884 ADBFOKCM_00002 1283 3 Oral 0.23 protein_coding synonymous_variant LOW 441C>T Cys147Cys
M0128885 ADBFOKCM_00002 1322 6 Oral 0.46 protein_coding synonymous_variant LOW 480A>C Val160Val
M0128886 ADBFOKCM_00002 1373 3 Oral 0.23 protein_coding synonymous_variant LOW 531T>A Val177Val
M0128887 ADBFOKCM_00002 1478 6 Oral 0.46 protein_coding synonymous_variant LOW 636T>G Leu212Leu
M0128888 ADBFOKCM_00003 2376 3 Oral 0.23 protein_coding synonymous_variant LOW 369T>C Gly123Gly
M0128889 ADBFOKCM_00003 2379 3 Oral 0.23 protein_coding synonymous_variant LOW 372A>G Lys124Lys
M0128890 ADBFOKCM_00003 2439 5 Oral 0.38 protein_coding synonymous_variant LOW 432A>T Ile144Ile
M0128891 ADBFOKCM_00003 2472 5 Oral 0.38 protein_coding synonymous_variant LOW 465T>C Gly155Gly
M0128892 ADBFOKCM_00003 2484 5 Oral 0.38 protein_coding synonymous_variant LOW 477C>T Asn159Asn
M0128893 ADBFOKCM_00003 2499 5 Oral 0.38 protein_coding synonymous_variant LOW 492T>C Thr164Thr
M0128894 ADBFOKCM_00003 2541 5 Oral 0.38 protein_coding synonymous_variant LOW 534A>G Gln178Gln
M0128895 ADBFOKCM_00003 2556 5 Oral 0.38 protein_coding synonymous_variant LOW 549C>T Asn183Asn
M0128896 ADBFOKCM_00003 2562 5 Oral 0.38 protein_coding synonymous_variant LOW 555T>C His185His
M0128897 ADBFOKCM_00005 3583 3 Oral 0.23 protein_coding synonymous_variant LOW 210C>T Ile70Ile
M0128898 ADBFOKCM_00005 3880 3 Oral 0.23 protein_coding synonymous_variant LOW 507T>A Ala169Ala
M0128899 ADBFOKCM_00006 4150 3 Oral 0.23 protein_coding synonymous_variant LOW 123T>C Ile41Ile
M0128900 ADBFOKCM_00006 4198 3 Oral 0.23 protein_coding synonymous_variant LOW 171T>C Asn57Asn
M0128901 ADBFOKCM_00006 4366 3 Oral 0.23 protein_coding synonymous_variant LOW 339T>C Cys113Cys
M0128902 ADBFOKCM_00006 5272 7 Oral 0.54 protein_coding synonymous_variant LOW 1245A>G Glu415Glu
M0128903 ADBFOKCM_00006 5275 7 Oral 0.54 protein_coding synonymous_variant LOW 1248T>C Ser416Ser
M0128904 ADBFOKCM_00001 5312 7 Oral 0.54 protein_coding downstream_gene_variant MODIFIER *4517A>C None
M0128905 ADBFOKCM_00001 5341 6 Oral 0.46 protein_coding downstream_gene_variant MODIFIER *4546T>C None
M0128906 ADBFOKCM_00001 5679 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4884G>A None
M0128907 ADBFOKCM_00002 5956 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *3953G>A None
M0128908 ADBFOKCM_00001 201 4 Oral 0.31 protein_coding synonymous_variant LOW 42G>A Leu14Leu
M0128909 ADBFOKCM_00001 280 3 Oral 0.23 protein_coding missense_variant MODERATE 121G>A Val41Ile
M0128910 ADBFOKCM_00001 708 4 Oral 0.31 protein_coding synonymous_variant LOW 549G>A Ala183Ala
M0128911 ADBFOKCM_00001 5308 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4513G>A None
M0128912 ADBFOKCM_00001 5310 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4515G>A None
M0128913 ADBFOKCM_00001 5328 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4533G>T None
M0128914 ADBFOKCM_00001 5355 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4560A>G None
M0128915 ADBFOKCM_00001 5359 3 Oral 0.23 protein_coding downstream_gene_variant MODIFIER *4564C>T None
M0128916 ADBFOKCM_00002 6031 4 Oral 0.31 protein_coding downstream_gene_variant MODIFIER *4028T>C None
M0128917 ADBFOKCM_00007 6058 4 Oral 0.31 protein_coding synonymous_variant LOW 183A>G Gln61Gln
M0128918 ADBFOKCM_00007 6247 4 Oral 0.31 protein_coding upstream_gene_variant MODIFIER -7G>T None
M0128919 ADBFOKCM_00002 1325 3 Oral 0.23 protein_coding synonymous_variant LOW 483T>C Ile161Ile
M0128920 ADBFOKCM_00002 1511 3 Oral 0.23 protein_coding synonymous_variant LOW 669C>A Gly223Gly
M0128921 ADBFOKCM_00002 1613 3 Oral 0.23 protein_coding synonymous_variant LOW 771A>T Ile257Ile
M0128922 ADBFOKCM_00005 3562 3 Oral 0.23 protein_coding synonymous_variant LOW 189G>A Val63Val
M0128923 ADBFOKCM_00005 3700 3 Oral 0.23 protein_coding synonymous_variant LOW 327T>A Leu109Leu
M0128924 ADBFOKCM_00005 3781 3 Oral 0.23 protein_coding synonymous_variant LOW 408T>C Asp136Asp






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