Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2413
  Reference Plasmid   1111525849768046_bin.37__k141_194610
  Reference Plasmid Size   7121
  Reference Plasmid GC Content   0.41
  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
M0123620 HJEHMPBE_00001 310 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *155A>C None
M0123621 HJEHMPBE_00001 332 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *133T>C None
M0123622 HJEHMPBE_00001 348 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *117C>T None
M0123623 HJEHMPBE_00001 352 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *113A>G None
M0123624 HJEHMPBE_00001 356 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *109G>A None
M0123625 HJEHMPBE_00001 360 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *105C>T None
M0123626 HJEHMPBE_00001 365 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *100C>T None
M0123627 HJEHMPBE_00001 381 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *84T>C None
M0123628 HJEHMPBE_00001 454 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *11A>G None
M0123629 HJEHMPBE_00001 594 6 Oral 0.75 protein_coding synonymous_variant LOW 1635T>C Tyr545Tyr
M0123630 HJEHMPBE_00001 855 8 Oral 1.00 protein_coding synonymous_variant LOW 1374A>G Ala458Ala
M0123631 HJEHMPBE_00001 863 5 Oral 0.63 protein_coding missense_variant MODERATE 1366G>A Ala456Thr
M0123632 HJEHMPBE_00001 921 5 Oral 0.63 protein_coding synonymous_variant LOW 1308G>A Lys436Lys
M0123633 HJEHMPBE_00001 927 8 Oral 1.00 protein_coding synonymous_variant LOW 1302C>T Leu434Leu
M0123634 HJEHMPBE_00001 947 7 Oral 0.88 protein_coding missense_variant MODERATE 1282T>A Ser428Thr
M0123635 HJEHMPBE_00001 949 4 Oral 0.50 protein_coding missense_variant MODERATE 1280A>G Asn427Ser
M0123636 HJEHMPBE_00001 950 4 Oral 0.50 protein_coding missense_variant MODERATE 1279A>G Asn427Asp
M0123637 HJEHMPBE_00001 980 3 Oral 0.38 protein_coding synonymous_variant LOW 1249T>C Leu417Leu
M0123638 HJEHMPBE_00001 1026 6 Oral 0.75 protein_coding synonymous_variant LOW 1203C>T Arg401Arg
M0123639 HJEHMPBE_00001 1050 5 Oral 0.63 protein_coding synonymous_variant LOW 1179T>A Ala393Ala
M0123640 HJEHMPBE_00001 1512 7 Oral 0.88 protein_coding synonymous_variant LOW 717A>C Thr239Thr
M0123641 HJEHMPBE_00001 1515 6 Oral 0.75 protein_coding synonymous_variant LOW 714T>C Asp238Asp
M0123642 HJEHMPBE_00001 1530 8 Oral 1.00 protein_coding synonymous_variant LOW 699A>G Ala233Ala
M0123643 HJEHMPBE_00001 1596 7 Oral 0.88 protein_coding synonymous_variant LOW 633C>T Thr211Thr
M0123644 HJEHMPBE_00001 1632 5 Oral 0.63 protein_coding synonymous_variant LOW 597T>C Arg199Arg
M0123645 HJEHMPBE_00001 1673 6 Oral 0.75 protein_coding missense_variant MODERATE 556G>T Ala186Ser
M0123646 HJEHMPBE_00001 1742 4 Oral 0.50 protein_coding missense_variant MODERATE 487T>C Ser163Pro
M0123647 HJEHMPBE_00001 1773 8 Oral 1.00 protein_coding synonymous_variant LOW 456C>T Asp152Asp
M0123648 HJEHMPBE_00001 1839 8 Oral 1.00 protein_coding synonymous_variant LOW 390A>G Leu130Leu
M0123649 HJEHMPBE_00001 1872 8 Oral 1.00 protein_coding synonymous_variant LOW 357A>G Lys119Lys
M0123650 HJEHMPBE_00001 1933 4 Oral 0.50 protein_coding missense_variant MODERATE 296A>G Asn99Ser
M0123651 HJEHMPBE_00001 1967 6 Oral 0.75 protein_coding missense_variant MODERATE 262T>G Ser88Ala
M0123652 HJEHMPBE_00002 2548 8 Oral 1.00 protein_coding synonymous_variant LOW 2913T>C Asn971Asn
M0123653 HJEHMPBE_00002 2625 7 Oral 0.88 protein_coding missense_variant MODERATE 2836T>A Ser946Thr
M0123654 HJEHMPBE_00002 2836 6 Oral 0.75 protein_coding synonymous_variant LOW 2625C>T Gly875Gly
M0123655 HJEHMPBE_00002 2854 7 Oral 0.88 protein_coding synonymous_variant LOW 2607T>A Leu869Leu
M0123656 HJEHMPBE_00002 2856 5 Oral 0.63 protein_coding missense_variant MODERATE 2605C>T Leu869Phe
M0123657 HJEHMPBE_00002 2893 5 Oral 0.63 protein_coding synonymous_variant LOW 2568A>C Thr856Thr
M0123658 HJEHMPBE_00002 2894 5 Oral 0.63 protein_coding missense_variant MODERATE 2567C>G Thr856Arg
M0123659 HJEHMPBE_00002 2962 6 Oral 0.75 protein_coding synonymous_variant LOW 2499C>T Ile833Ile
M0123660 HJEHMPBE_00002 3043 4 Oral 0.50 protein_coding synonymous_variant LOW 2418T>C Cys806Cys
M0123661 HJEHMPBE_00002 3123 6 Oral 0.75 protein_coding missense_variant MODERATE 2338A>G Ser780Gly
M0123662 HJEHMPBE_00002 3138 4 Oral 0.50 protein_coding missense_variant MODERATE 2323G>T Ala775Ser
M0123663 HJEHMPBE_00002 3157 6 Oral 0.75 protein_coding synonymous_variant LOW 2304C>G Val768Val
M0123664 HJEHMPBE_00002 3343 6 Oral 0.75 protein_coding synonymous_variant LOW 2118T>C Asn706Asn
M0123665 HJEHMPBE_00002 3520 3 Oral 0.38 protein_coding synonymous_variant LOW 1941A>G Lys647Lys
M0123666 HJEHMPBE_00002 3564 7 Oral 0.88 protein_coding missense_variant MODERATE 1897C>G Leu633Val
M0123667 HJEHMPBE_00002 3571 3 Oral 0.38 protein_coding synonymous_variant LOW 1890T>C Arg630Arg
M0123668 HJEHMPBE_00002 3745 6 Oral 0.75 protein_coding synonymous_variant LOW 1716C>T Gly572Gly
M0123669 HJEHMPBE_00002 3892 5 Oral 0.63 protein_coding synonymous_variant LOW 1569G>A Val523Val
M0123670 HJEHMPBE_00002 3955 6 Oral 0.75 protein_coding synonymous_variant LOW 1506C>A Thr502Thr
M0123671 HJEHMPBE_00002 3988 7 Oral 0.88 protein_coding synonymous_variant LOW 1473A>G Pro491Pro
M0123672 HJEHMPBE_00002 3991 8 Oral 1.00 protein_coding synonymous_variant LOW 1470A>T Thr490Thr
M0123673 HJEHMPBE_00002 4078 3 Oral 0.38 protein_coding synonymous_variant LOW 1383T>C Phe461Phe
M0123674 HJEHMPBE_00002 4216 5 Oral 0.63 protein_coding synonymous_variant LOW 1245T>C His415His
M0123675 HJEHMPBE_00002 4363 6 Oral 0.75 protein_coding synonymous_variant LOW 1098A>G Ser366Ser
M0123676 HJEHMPBE_00002 4546 3 Oral 0.38 protein_coding synonymous_variant LOW 915C>T Tyr305Tyr
M0123677 HJEHMPBE_00002 4708 4 Oral 0.50 protein_coding synonymous_variant LOW 753T>A Leu251Leu
M0123678 HJEHMPBE_00002 4723 6 Oral 0.75 protein_coding synonymous_variant LOW 738A>T Thr246Thr
M0123679 HJEHMPBE_00002 4747 7 Oral 0.88 protein_coding synonymous_variant LOW 714A>G Ala238Ala
M0123680 HJEHMPBE_00002 4768 4 Oral 0.50 protein_coding synonymous_variant LOW 693A>C Ala231Ala
M0123681 HJEHMPBE_00002 4792 7 Oral 0.88 protein_coding synonymous_variant LOW 669A>G Val223Val
M0123682 HJEHMPBE_00002 4900 7 Oral 0.88 protein_coding synonymous_variant LOW 561T>C Asn187Asn
M0123683 HJEHMPBE_00002 5182 5 Oral 0.63 protein_coding synonymous_variant LOW 279A>G Gln93Gln
M0123684 HJEHMPBE_00002 5341 6 Oral 0.75 protein_coding synonymous_variant LOW 120T>C Ile40Ile
M0123685 HJEHMPBE_00002 5353 5 Oral 0.63 protein_coding synonymous_variant LOW 108C>A Ala36Ala
M0123686 HJEHMPBE_00002 5360 4 Oral 0.50 protein_coding missense_variant MODERATE 101C>T Ala34Val
M0123687 HJEHMPBE_00002 5367 4 Oral 0.50 protein_coding missense_variant MODERATE 94A>G Ile32Val
M0123688 HJEHMPBE_00002 5368 4 Oral 0.50 protein_coding synonymous_variant LOW 93C>T Asn31Asn
M0123689 HJEHMPBE_00002 5369 4 Oral 0.50 protein_coding missense_variant MODERATE 92A>C Asn31Thr
M0123690 HJEHMPBE_00002 5370 4 Oral 0.50 protein_coding missense_variant MODERATE 91A>G Asn31Asp
M0123691 HJEHMPBE_00002 5371 4 Oral 0.50 protein_coding synonymous_variant LOW 90T>C Pro30Pro
M0123692 HJEHMPBE_00002 5419 4 Oral 0.50 protein_coding synonymous_variant LOW 42T>C Asn14Asn
M0123693 HJEHMPBE_00001 5716 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -3488A>G None
M0123694 HJEHMPBE_00001 5721 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -3493T>A None
M0123695 HJEHMPBE_00001 5723 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -3495T>C None
M0123696 HJEHMPBE_00001 5797 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -3569T>A None
M0123697 HJEHMPBE_00001 5804 7 Oral 0.88 protein_coding upstream_gene_variant MODIFIER -3576C>T None
M0123698 HJEHMPBE_00003 5931 7 Oral 0.88 protein_coding missense_variant MODERATE 787C>T Leu263Phe
M0123699 HJEHMPBE_00003 5986 5 Oral 0.63 protein_coding synonymous_variant LOW 732A>G Leu244Leu
M0123700 HJEHMPBE_00003 6000 4 Oral 0.50 protein_coding missense_variant MODERATE 718G>A Val240Ile
M0123701 HJEHMPBE_00003 6003 7 Oral 0.88 protein_coding missense_variant MODERATE 715A>G Asn239Asp
M0123702 HJEHMPBE_00003 6223 3 Oral 0.38 protein_coding synonymous_variant LOW 495G>A Gln165Gln
M0123703 HJEHMPBE_00003 6247 5 Oral 0.63 protein_coding synonymous_variant LOW 471T>A Val157Val
M0123704 HJEHMPBE_00003 6279 6 Oral 0.75 protein_coding missense_variant MODERATE 439C>A His147Asn
M0123705 HJEHMPBE_00003 6484 7 Oral 0.88 protein_coding synonymous_variant LOW 234C>T Asn78Asn
M0123706 HJEHMPBE_00003 6579 3 Oral 0.38 protein_coding missense_variant MODERATE 139T>A Phe47Ile
M0123707 HJEHMPBE_00001 6747 7 Oral 0.88 protein_coding upstream_gene_variant MODIFIER -4519A>T None
M0123708 HJEHMPBE_00001 6786 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -4558T>C None
M0123709 HJEHMPBE_00001 6794 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -4566G>C None
M0123710 HJEHMPBE_00001 6842 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4614G>A None
M0123711 HJEHMPBE_00001 6848 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4620G>A None
M0123712 HJEHMPBE_00001 6878 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -4650T>C None
M0123713 HJEHMPBE_00001 6941 7 Oral 0.88 protein_coding upstream_gene_variant MODIFIER -4713A>G None
M0123714 HJEHMPBE_00001 6992 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -4764T>C None
M0123715 HJEHMPBE_00001 7073 7 Oral 0.88 protein_coding upstream_gene_variant MODIFIER -4845T>G None
M0123716 HJEHMPBE_00001 1791 5 Oral 0.63 protein_coding missense_variant MODERATE 438A>T Glu146Asp
M0123717 HJEHMPBE_00001 1854 5 Oral 0.63 protein_coding missense_variant MODERATE 375A>C Arg125Ser
M0123718 HJEHMPBE_00001 1856 5 Oral 0.63 protein_coding synonymous_variant LOW 373A>C Arg125Arg
M0123719 HJEHMPBE_00001 1881 5 Oral 0.63 protein_coding synonymous_variant LOW 348G>A Glu116Glu
M0123720 HJEHMPBE_00001 1891 5 Oral 0.63 protein_coding missense_variant MODERATE 338A>G Asn113Ser
M0123721 HJEHMPBE_00001 1919 5 Oral 0.63 protein_coding missense_variant MODERATE 310T>A Leu104Met
M0123722 HJEHMPBE_00001 1920 5 Oral 0.63 protein_coding synonymous_variant LOW 309C>T Phe103Phe
M0123723 HJEHMPBE_00002 3059 6 Oral 0.75 protein_coding missense_variant MODERATE 2402G>A Ser801Asn
M0123724 HJEHMPBE_00002 4126 4 Oral 0.50 protein_coding synonymous_variant LOW 1335G>A Leu445Leu
M0123725 HJEHMPBE_00002 4657 3 Oral 0.38 protein_coding synonymous_variant LOW 804C>T Pro268Pro
M0123726 HJEHMPBE_00002 4825 4 Oral 0.50 protein_coding synonymous_variant LOW 636G>A Leu212Leu
M0123727 HJEHMPBE_00002 4942 3 Oral 0.38 protein_coding synonymous_variant LOW 519G>A Ser173Ser
M0123728 HJEHMPBE_00001 963 3 Oral 0.38 protein_coding synonymous_variant LOW 1266A>C Ala422Ala
M0123729 HJEHMPBE_00002 3655 5 Oral 0.63 protein_coding synonymous_variant LOW 1806A>T Thr602Thr
M0123730 HJEHMPBE_00002 3769 4 Oral 0.50 protein_coding synonymous_variant LOW 1692A>G Ala564Ala
M0123731 HJEHMPBE_00002 4630 4 Oral 0.50 protein_coding synonymous_variant LOW 831A>G Ser277Ser
M0123732 HJEHMPBE_00002 5278 3 Oral 0.38 protein_coding synonymous_variant LOW 183T>C Pro61Pro
M0123733 HJEHMPBE_00001 5852 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -3624T>C None
M0123734 HJEHMPBE_00001 1548 3 Oral 0.38 protein_coding synonymous_variant LOW 681T>C Asn227Asn
M0123735 HJEHMPBE_00002 2986 3 Oral 0.38 protein_coding synonymous_variant LOW 2475G>A Lys825Lys
M0123736 HJEHMPBE_00002 5427 3 Oral 0.38 protein_coding missense_variant MODERATE 34C>A Arg12Ser
M0123737 HJEHMPBE_00001 5701 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -3473A>T None
M0123738 HJEHMPBE_00003 6271 3 Oral 0.38 protein_coding synonymous_variant LOW 447T>C Asp149Asp
M0123739 HJEHMPBE_00001 7060 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -4832C>T None
M0123740 HJEHMPBE_00001 1458 3 Oral 0.38 protein_coding synonymous_variant LOW 771C>T Asp257Asp






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