Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2403
  Reference Plasmid   1111525849768046_bin.37__k141_18278
  Reference Plasmid Size   9437
  Reference Plasmid GC Content   0.40
  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
M0122665 NJNEHNHB_00003 2678 4 Oral 0.50 protein_coding synonymous_variant LOW 1141C>T Leu381Leu
M0122666 NJNEHNHB_00003 2739 5 Oral 0.63 protein_coding synonymous_variant LOW 1080T>C Ala360Ala
M0122667 NJNEHNHB_00003 3015 5 Oral 0.63 protein_coding synonymous_variant LOW 804C>T Leu268Leu
M0122668 NJNEHNHB_00003 3042 5 Oral 0.63 protein_coding synonymous_variant LOW 777G>A Ala259Ala
M0122669 NJNEHNHB_00003 3312 3 Oral 0.38 protein_coding synonymous_variant LOW 507C>T Ser169Ser
M0122670 NJNEHNHB_00003 3333 5 Oral 0.63 protein_coding synonymous_variant LOW 486T>C Gly162Gly
M0122671 NJNEHNHB_00003 3381 3 Oral 0.38 protein_coding synonymous_variant LOW 438T>C Ile146Ile
M0122672 NJNEHNHB_00003 3387 4 Oral 0.50 protein_coding synonymous_variant LOW 432T>G Val144Val
M0122673 NJNEHNHB_00004 3872 3 Oral 0.38 protein_coding synonymous_variant LOW 471C>T Ala157Ala
M0122674 NJNEHNHB_00004 3875 4 Oral 0.50 protein_coding synonymous_variant LOW 468C>T Asp156Asp
M0122675 NJNEHNHB_00004 3935 5 Oral 0.63 protein_coding synonymous_variant LOW 408G>A Glu136Glu
M0122676 NJNEHNHB_00004 3997 4 Oral 0.50 protein_coding missense_variant MODERATE 346G>A Asp116Asn
M0122677 NJNEHNHB_00004 4025 4 Oral 0.50 protein_coding synonymous_variant LOW 318T>A Gly106Gly
M0122678 NJNEHNHB_00004 4136 5 Oral 0.63 protein_coding synonymous_variant LOW 207A>G Glu69Glu
M0122679 NJNEHNHB_00002 4349 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -1826G>A None
M0122680 NJNEHNHB_00005 4389 3 Oral 0.38 protein_coding synonymous_variant LOW 1281C>T Leu427Leu
M0122681 NJNEHNHB_00005 4428 5 Oral 0.63 protein_coding synonymous_variant LOW 1242T>C Asp414Asp
M0122682 NJNEHNHB_00005 4461 5 Oral 0.63 protein_coding synonymous_variant LOW 1209G>A Gly403Gly
M0122683 NJNEHNHB_00005 4599 3 Oral 0.38 protein_coding synonymous_variant LOW 1071T>C Ala357Ala
M0122684 NJNEHNHB_00005 4701 4 Oral 0.50 protein_coding synonymous_variant LOW 969A>G Val323Val
M0122685 NJNEHNHB_00005 4857 4 Oral 0.50 protein_coding synonymous_variant LOW 813T>C Asp271Asp
M0122686 NJNEHNHB_00005 4860 4 Oral 0.50 protein_coding synonymous_variant LOW 810T>C Pro270Pro
M0122687 NJNEHNHB_00005 4890 5 Oral 0.63 protein_coding synonymous_variant LOW 780T>C Asn260Asn
M0122688 NJNEHNHB_00005 4896 5 Oral 0.63 protein_coding synonymous_variant LOW 774T>C Ile258Ile
M0122689 NJNEHNHB_00005 4899 5 Oral 0.63 protein_coding synonymous_variant LOW 771T>C Thr257Thr
M0122690 NJNEHNHB_00005 5052 4 Oral 0.50 protein_coding synonymous_variant LOW 618T>C Asn206Asn
M0122691 NJNEHNHB_00006 5758 4 Oral 0.50 protein_coding missense_variant MODERATE 510A>T Glu170Asp
M0122692 NJNEHNHB_00006 6067 4 Oral 0.50 protein_coding synonymous_variant LOW 201A>G Lys67Lys
M0122693 NJNEHNHB_00006 6172 4 Oral 0.50 protein_coding synonymous_variant LOW 96A>G Val32Val
M0122694 NJNEHNHB_00006 6175 3 Oral 0.38 protein_coding synonymous_variant LOW 93A>T Ala31Ala
M0122695 NJNEHNHB_00002 6325 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3802A>C None
M0122696 NJNEHNHB_00002 6326 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3803T>C None
M0122697 NJNEHNHB_00002 6343 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -3820A>C None
M0122698 NJNEHNHB_00002 6350 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -3827C>T None
M0122699 NJNEHNHB_00007 6474 4 Oral 0.50 protein_coding synonymous_variant LOW 576A>G Lys192Lys
M0122700 NJNEHNHB_00007 6627 4 Oral 0.50 protein_coding synonymous_variant LOW 423T>A Arg141Arg
M0122701 NJNEHNHB_00007 6717 5 Oral 0.63 protein_coding synonymous_variant LOW 333T>C Asn111Asn
M0122702 NJNEHNHB_00007 6822 5 Oral 0.63 protein_coding synonymous_variant LOW 228G>A Gly76Gly
M0122703 NJNEHNHB_00007 6837 4 Oral 0.50 protein_coding synonymous_variant LOW 213T>A Thr71Thr
M0122704 NJNEHNHB_00007 6939 3 Oral 0.38 protein_coding synonymous_variant LOW 111T>C Ala37Ala
M0122705 NJNEHNHB_00008 7316 3 Oral 0.38 protein_coding missense_variant MODERATE 70G>A Val24Ile
M0122706 NJNEHNHB_00008 7407 5 Oral 0.63 protein_coding missense_variant MODERATE 161T>C Phe54Ser
M0122707 NJNEHNHB_00008 7510 4 Oral 0.50 protein_coding synonymous_variant LOW 264T>C Tyr88Tyr
M0122708 NJNEHNHB_00008 7511 4 Oral 0.50 protein_coding missense_variant MODERATE 265C>G Gln89Glu
M0122709 NJNEHNHB_00008 7557 5 Oral 0.63 protein_coding missense_variant MODERATE 311C>A Thr104Lys
M0122710 NJNEHNHB_00008 7594 5 Oral 0.63 protein_coding synonymous_variant LOW 348G>T Val116Val
M0122711 NJNEHNHB_00008 7600 4 Oral 0.50 protein_coding synonymous_variant LOW 354T>C Thr118Thr
M0122712 NJNEHNHB_00008 7601 5 Oral 0.63 protein_coding synonymous_variant LOW 355A>C Arg119Arg
M0122713 NJNEHNHB_00008 7678 4 Oral 0.50 protein_coding synonymous_variant LOW 432T>C Phe144Phe
M0122714 NJNEHNHB_00008 7687 5 Oral 0.63 protein_coding synonymous_variant LOW 441T>C Phe147Phe
M0122715 NJNEHNHB_00008 7840 4 Oral 0.50 protein_coding synonymous_variant LOW 594T>G Val198Val
M0122716 NJNEHNHB_00008 7873 3 Oral 0.38 protein_coding synonymous_variant LOW 627G>C Leu209Leu
M0122717 NJNEHNHB_00008 7945 4 Oral 0.50 protein_coding missense_variant MODERATE 699G>T Met233Ile
M0122718 NJNEHNHB_00008 7951 3 Oral 0.38 protein_coding synonymous_variant LOW 705T>G Thr235Thr
M0122719 NJNEHNHB_00008 8032 3 Oral 0.38 protein_coding synonymous_variant LOW 786A>T Ser262Ser
M0122720 NJNEHNHB_00008 8065 3 Oral 0.38 protein_coding synonymous_variant LOW 819A>T Val273Val
M0122721 NJNEHNHB_00008 8114 3 Oral 0.38 protein_coding missense_variant MODERATE 868G>A Val290Met
M0122722 NJNEHNHB_00008 8116 3 Oral 0.38 protein_coding synonymous_variant LOW 870G>A Val290Val
M0122723 NJNEHNHB_00003 8131 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4313A>C None
M0122724 NJNEHNHB_00009 8199 4 Oral 0.50 protein_coding synonymous_variant LOW 66A>G Leu22Leu
M0122725 NJNEHNHB_00009 8218 3 Oral 0.38 protein_coding missense_variant MODERATE 85C>A Gln29Lys
M0122726 NJNEHNHB_00009 8316 3 Oral 0.38 protein_coding synonymous_variant LOW 183C>A Ala61Ala
M0122727 NJNEHNHB_00009 8388 3 Oral 0.38 protein_coding synonymous_variant LOW 255A>G Ser85Ser
M0122728 NJNEHNHB_00009 8418 3 Oral 0.38 protein_coding synonymous_variant LOW 285G>A Gln95Gln
M0122729 NJNEHNHB_00009 8442 3 Oral 0.38 protein_coding synonymous_variant LOW 309G>A Val103Val
M0122730 NJNEHNHB_00009 8537 4 Oral 0.50 protein_coding missense_variant MODERATE 404C>T Ala135Val
M0122731 NJNEHNHB_00009 8568 4 Oral 0.50 protein_coding synonymous_variant LOW 435T>C Ile145Ile
M0122732 NJNEHNHB_00009 8623 4 Oral 0.50 protein_coding missense_variant MODERATE 490A>G Ile164Val
M0122733 NJNEHNHB_00009 8651 3 Oral 0.38 protein_coding missense_variant MODERATE 518T>C Ile173Thr
M0122734 NJNEHNHB_00009 8662 3 Oral 0.38 protein_coding missense_variant MODERATE 529A>G Lys177Glu
M0122735 NJNEHNHB_00010 8769 3 Oral 0.38 protein_coding synonymous_variant LOW 54C>T His18His
M0122736 NJNEHNHB_00010 8823 3 Oral 0.38 protein_coding synonymous_variant LOW 108T>A Leu36Leu
M0122737 NJNEHNHB_00001 1021 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *88G>A None
M0122738 NJNEHNHB_00001 1076 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *143G>A None
M0122739 NJNEHNHB_00001 1091 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *158A>G None
M0122740 NJNEHNHB_00001 1109 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *176G>A None
M0122741 NJNEHNHB_00001 1118 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *185A>G None
M0122742 NJNEHNHB_00002 1203 4 Oral 0.50 protein_coding synonymous_variant LOW 1321T>C Leu441Leu
M0122743 NJNEHNHB_00002 1270 5 Oral 0.63 protein_coding synonymous_variant LOW 1254A>C Ile418Ile
M0122744 NJNEHNHB_00002 1531 5 Oral 0.63 protein_coding missense_variant MODERATE 993T>A Phe331Leu
M0122745 NJNEHNHB_00002 1603 5 Oral 0.63 protein_coding synonymous_variant LOW 921T>C Asp307Asp
M0122746 NJNEHNHB_00002 1720 5 Oral 0.63 protein_coding synonymous_variant LOW 804T>C Asp268Asp
M0122747 NJNEHNHB_00002 1783 5 Oral 0.63 protein_coding synonymous_variant LOW 741A>G Lys247Lys
M0122748 NJNEHNHB_00002 1951 3 Oral 0.38 protein_coding synonymous_variant LOW 573C>T Arg191Arg
M0122749 NJNEHNHB_00002 2236 3 Oral 0.38 protein_coding synonymous_variant LOW 288A>G Glu96Glu
M0122750 NJNEHNHB_00002 2314 5 Oral 0.63 protein_coding synonymous_variant LOW 210C>T Gly70Gly
M0122751 NJNEHNHB_00002 2609 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -86C>A None
M0122752 NJNEHNHB_00002 2615 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -92T>C None
M0122753 NJNEHNHB_00003 2880 3 Oral 0.38 protein_coding synonymous_variant LOW 939G>A Ala313Ala
M0122754 NJNEHNHB_00003 3501 4 Oral 0.50 protein_coding synonymous_variant LOW 318C>T Gly106Gly
M0122755 NJNEHNHB_00003 3546 4 Oral 0.50 protein_coding synonymous_variant LOW 273T>A Ala91Ala
M0122756 NJNEHNHB_00004 4003 3 Oral 0.38 protein_coding missense_variant MODERATE 340T>A Ser114Thr
M0122757 NJNEHNHB_00004 4004 3 Oral 0.38 protein_coding synonymous_variant LOW 339G>A Gln113Gln
M0122758 NJNEHNHB_00002 1234 3 Oral 0.38 protein_coding synonymous_variant LOW 1290T>A Val430Val
M0122759 NJNEHNHB_00002 1813 3 Oral 0.38 protein_coding synonymous_variant LOW 711A>G Ala237Ala
M0122760 NJNEHNHB_00002 2616 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -93C>T None
M0122761 NJNEHNHB_00003 3144 3 Oral 0.38 protein_coding synonymous_variant LOW 675T>G Ala225Ala
M0122762 NJNEHNHB_00005 5058 3 Oral 0.38 protein_coding synonymous_variant LOW 612T>C Leu204Leu
M0122763 NJNEHNHB_00005 5069 3 Oral 0.38 protein_coding synonymous_variant LOW 601T>C Leu201Leu
M0122764 NJNEHNHB_00005 5399 3 Oral 0.38 protein_coding missense_variant MODERATE 271C>A Gln91Lys
M0122765 NJNEHNHB_00005 5400 3 Oral 0.38 protein_coding synonymous_variant LOW 270G>A Val90Val
M0122766 NJNEHNHB_00005 5425 3 Oral 0.38 protein_coding missense_variant MODERATE 245G>A Gly82Asp
M0122767 NJNEHNHB_00005 5436 3 Oral 0.38 protein_coding missense_variant MODERATE 234G>C Lys78Asn
M0122768 NJNEHNHB_00005 5607 3 Oral 0.38 protein_coding synonymous_variant LOW 63A>C Ala21Ala
M0122769 NJNEHNHB_00005 5637 4 Oral 0.50 protein_coding synonymous_variant LOW 33T>A Pro11Pro
M0122770 NJNEHNHB_00007 6507 3 Oral 0.38 protein_coding synonymous_variant LOW 543A>G Ala181Ala
M0122771 NJNEHNHB_00001 570 3 Oral 0.38 protein_coding synonymous_variant LOW 105A>G Lys35Lys
M0122772 NJNEHNHB_00001 605 3 Oral 0.38 protein_coding missense_variant MODERATE 140A>G Asp47Gly
M0122773 NJNEHNHB_00001 606 3 Oral 0.38 protein_coding synonymous_variant LOW 141T>C Asp47Asp
M0122774 NJNEHNHB_00001 627 3 Oral 0.38 protein_coding synonymous_variant LOW 162T>C Thr54Thr
M0122775 NJNEHNHB_00001 696 3 Oral 0.38 protein_coding synonymous_variant LOW 231G>A Gly77Gly
M0122776 NJNEHNHB_00001 755 3 Oral 0.38 protein_coding missense_variant MODERATE 290T>C Val97Ala
M0122777 NJNEHNHB_00001 841 3 Oral 0.38 protein_coding missense_variant MODERATE 376T>G Tyr126Asp
M0122778 NJNEHNHB_00001 976 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *43G>A None
M0122779 NJNEHNHB_00002 1411 3 Oral 0.38 protein_coding synonymous_variant LOW 1113T>A Ala371Ala
M0122780 NJNEHNHB_00002 1423 3 Oral 0.38 protein_coding synonymous_variant LOW 1101T>C Phe367Phe
M0122781 NJNEHNHB_00002 2262 3 Oral 0.38 protein_coding synonymous_variant LOW 262C>T Leu88Leu
M0122782 NJNEHNHB_00006 6151 3 Oral 0.38 protein_coding synonymous_variant LOW 117G>A Glu39Glu
M0122783 NJNEHNHB_00008 7489 3 Oral 0.38 protein_coding synonymous_variant LOW 243T>C Ala81Ala






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