Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2384
  Reference Plasmid   1111525849768046_bin.37__k141_14891
  Reference Plasmid Size   5592
  Reference Plasmid GC Content   0.34
  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
M0120628 HCLMCOON_00001 710 3 Oral 0.38 protein_coding synonymous_variant LOW 675T>C Ile225Ile
M0120629 HCLMCOON_00001 731 3 Oral 0.38 protein_coding synonymous_variant LOW 696C>T Gly232Gly
M0120630 HCLMCOON_00001 824 3 Oral 0.38 protein_coding synonymous_variant LOW 789C>A Ser263Ser
M0120631 HCLMCOON_00001 968 4 Oral 0.50 protein_coding synonymous_variant LOW 933C>T Ser311Ser
M0120632 HCLMCOON_00001 998 4 Oral 0.50 protein_coding synonymous_variant LOW 963T>C Asn321Asn
M0120633 HCLMCOON_00001 1049 3 Oral 0.38 protein_coding missense_variant MODERATE 1014C>G Asp338Glu
M0120634 HCLMCOON_00001 1079 4 Oral 0.50 protein_coding synonymous_variant LOW 1044G>A Glu348Glu
M0120635 HCLMCOON_00001 1095 4 Oral 0.50 protein_coding missense_variant MODERATE 1060A>T Ser354Cys
M0120636 HCLMCOON_00001 1137 3 Oral 0.38 protein_coding missense_variant MODERATE 1102A>G Lys368Glu
M0120637 HCLMCOON_00001 1138 3 Oral 0.38 protein_coding missense_variant MODERATE 1103A>C Lys368Thr
M0120638 HCLMCOON_00001 1139 3 Oral 0.38 protein_coding missense_variant MODERATE 1104G>T Lys368Asn
M0120639 HCLMCOON_00001 1145 3 Oral 0.38 protein_coding synonymous_variant LOW 1110G>A Lys370Lys
M0120640 HCLMCOON_00001 1202 4 Oral 0.50 protein_coding synonymous_variant LOW 1167C>T Asp389Asp
M0120641 HCLMCOON_00001 1211 4 Oral 0.50 protein_coding synonymous_variant LOW 1176T>C Asn392Asn
M0120642 HCLMCOON_00001 1226 4 Oral 0.50 protein_coding synonymous_variant LOW 1191G>T Ala397Ala
M0120643 HCLMCOON_00001 1247 4 Oral 0.50 protein_coding synonymous_variant LOW 1212A>G Lys404Lys
M0120644 HCLMCOON_00001 1250 4 Oral 0.50 protein_coding synonymous_variant LOW 1215C>T Ser405Ser
M0120645 HCLMCOON_00001 1277 3 Oral 0.38 protein_coding synonymous_variant LOW 1242T>C Thr414Thr
M0120646 HCLMCOON_00001 1280 3 Oral 0.38 protein_coding synonymous_variant LOW 1245G>A Glu415Glu
M0120647 HCLMCOON_00001 1346 5 Oral 0.63 protein_coding synonymous_variant LOW 1311A>G Thr437Thr
M0120648 HCLMCOON_00001 1363 5 Oral 0.63 protein_coding missense_variant MODERATE 1328A>C Tyr443Ser
M0120649 HCLMCOON_00001 1375 5 Oral 0.63 protein_coding missense_variant MODERATE 1340C>A Ala447Glu
M0120650 HCLMCOON_00001 1424 4 Oral 0.50 protein_coding missense_variant MODERATE 1389A>T Lys463Asn
M0120651 HCLMCOON_00001 1454 5 Oral 0.63 protein_coding synonymous_variant LOW 1419A>G Glu473Glu
M0120652 HCLMCOON_00001 1466 5 Oral 0.63 protein_coding synonymous_variant LOW 1431T>A Val477Val
M0120653 HCLMCOON_00001 1469 3 Oral 0.38 protein_coding synonymous_variant LOW 1434G>A Glu478Glu
M0120654 HCLMCOON_00001 1613 5 Oral 0.63 protein_coding synonymous_variant LOW 1578T>C Gly526Gly
M0120655 HCLMCOON_00001 1656 3 Oral 0.38 protein_coding missense_variant MODERATE 1621A>G Thr541Ala
M0120656 HCLMCOON_00002 1801 5 Oral 0.63 protein_coding synonymous_variant LOW 66C>T Asp22Asp
M0120657 HCLMCOON_00002 1867 5 Oral 0.63 protein_coding synonymous_variant LOW 132A>T Ala44Ala
M0120658 HCLMCOON_00002 1882 5 Oral 0.63 protein_coding missense_variant MODERATE 147T>G Cys49Trp
M0120659 HCLMCOON_00002 1960 3 Oral 0.38 protein_coding synonymous_variant LOW 225A>G Val75Val
M0120660 HCLMCOON_00002 1963 5 Oral 0.63 protein_coding synonymous_variant LOW 228T>C Cys76Cys
M0120661 HCLMCOON_00002 1975 5 Oral 0.63 protein_coding synonymous_variant LOW 240C>T Arg80Arg
M0120662 HCLMCOON_00002 1984 5 Oral 0.63 protein_coding synonymous_variant LOW 249A>T Thr83Thr
M0120663 HCLMCOON_00002 2014 4 Oral 0.50 protein_coding synonymous_variant LOW 279T>C Asp93Asp
M0120664 HCLMCOON_00002 2017 3 Oral 0.38 protein_coding synonymous_variant LOW 282T>C His94His
M0120665 HCLMCOON_00002 2025 3 Oral 0.38 protein_coding missense_variant MODERATE 290A>G Asn97Ser
M0120666 HCLMCOON_00002 2047 3 Oral 0.38 protein_coding synonymous_variant LOW 312A>T Ser104Ser
M0120667 HCLMCOON_00002 2149 4 Oral 0.50 protein_coding synonymous_variant LOW 414A>G Gln138Gln
M0120668 HCLMCOON_00002 2191 4 Oral 0.50 protein_coding synonymous_variant LOW 456T>C Asp152Asp
M0120669 HCLMCOON_00002 2206 4 Oral 0.50 protein_coding synonymous_variant LOW 471A>G Glu157Glu
M0120670 HCLMCOON_00002 2209 4 Oral 0.50 protein_coding synonymous_variant LOW 474T>A Leu158Leu
M0120671 HCLMCOON_00002 2334 3 Oral 0.38 protein_coding missense_variant MODERATE 599A>C Asn200Thr
M0120672 HCLMCOON_00002 2437 4 Oral 0.50 protein_coding missense_variant MODERATE 702T>A His234Gln
M0120673 HCLMCOON_00002 2458 4 Oral 0.50 protein_coding synonymous_variant LOW 723A>G Lys241Lys
M0120674 HCLMCOON_00002 2473 4 Oral 0.50 protein_coding synonymous_variant LOW 738C>T Asn246Asn
M0120675 HCLMCOON_00002 2692 3 Oral 0.38 protein_coding synonymous_variant LOW 957C>T Cys319Cys
M0120676 HCLMCOON_00002 2707 4 Oral 0.50 protein_coding synonymous_variant LOW 972A>G Leu324Leu
M0120677 HCLMCOON_00002 2710 4 Oral 0.50 protein_coding synonymous_variant LOW 975G>C Pro325Pro
M0120678 HCLMCOON_00002 2785 3 Oral 0.38 protein_coding synonymous_variant LOW 1050C>T His350His
M0120679 HCLMCOON_00002 2881 4 Oral 0.50 protein_coding synonymous_variant LOW 1146A>T Leu382Leu
M0120680 HCLMCOON_00002 2921 3 Oral 0.38 protein_coding missense_variant MODERATE 1186G>A Glu396Lys
M0120681 HCLMCOON_00002 2938 3 Oral 0.38 protein_coding synonymous_variant LOW 1203G>A Leu401Leu
M0120682 HCLMCOON_00002 2942 4 Oral 0.50 protein_coding missense_variant MODERATE 1207T>G Tyr403Asp
M0120683 HCLMCOON_00002 2944 4 Oral 0.50 protein_coding stop_gained HIGH 1209T>A Tyr403*
M0120684 HCLMCOON_00002 2955 4 Oral 0.50 protein_coding missense_variant MODERATE 1220T>A Phe407Tyr
M0120685 HCLMCOON_00002 2983 5 Oral 0.63 protein_coding synonymous_variant LOW 1248C>A Ile416Ile
M0120686 HCLMCOON_00002 2992 4 Oral 0.50 protein_coding synonymous_variant LOW 1257T>C Cys419Cys
M0120687 HCLMCOON_00002 3001 4 Oral 0.50 protein_coding synonymous_variant LOW 1266G>A Lys422Lys
M0120688 HCLMCOON_00002 3094 4 Oral 0.50 protein_coding synonymous_variant LOW 1359C>A Thr453Thr
M0120689 HCLMCOON_00002 3106 4 Oral 0.50 protein_coding synonymous_variant LOW 1371T>C Asn457Asn
M0120690 HCLMCOON_00002 3196 4 Oral 0.50 protein_coding synonymous_variant LOW 1461C>T Asp487Asp
M0120691 HCLMCOON_00002 3202 4 Oral 0.50 protein_coding synonymous_variant LOW 1467G>A Val489Val
M0120692 HCLMCOON_00002 3265 4 Oral 0.50 protein_coding synonymous_variant LOW 1530T>A Pro510Pro
M0120693 HCLMCOON_00002 3295 4 Oral 0.50 protein_coding synonymous_variant LOW 1560C>A Leu520Leu
M0120694 HCLMCOON_00002 3313 4 Oral 0.50 protein_coding synonymous_variant LOW 1578C>T Asp526Asp
M0120695 HCLMCOON_00002 3332 4 Oral 0.50 protein_coding missense_variant MODERATE 1597A>G Ile533Val
M0120696 HCLMCOON_00002 3337 3 Oral 0.38 protein_coding synonymous_variant LOW 1602G>A Ser534Ser
M0120697 HCLMCOON_00002 3365 4 Oral 0.50 protein_coding missense_variant MODERATE 1630A>C Ile544Leu
M0120698 HCLMCOON_00002 3484 4 Oral 0.50 protein_coding synonymous_variant LOW 1749C>T Asp583Asp
M0120699 HCLMCOON_00002 3532 4 Oral 0.50 protein_coding synonymous_variant LOW 1797A>G Glu599Glu
M0120700 HCLMCOON_00002 3595 5 Oral 0.63 protein_coding synonymous_variant LOW 1860A>G Leu620Leu
M0120701 HCLMCOON_00002 3682 3 Oral 0.38 protein_coding synonymous_variant LOW 1947G>A Lys649Lys
M0120702 HCLMCOON_00002 3694 4 Oral 0.50 protein_coding synonymous_variant LOW 1959A>G Ser653Ser
M0120703 HCLMCOON_00001 4989 5 Oral 0.63 protein_coding downstream_gene_variant MODIFIER *3250T>C None
M0120704 HCLMCOON_00001 5420 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *3681A>T None
M0120705 HCLMCOON_00001 5468 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *3729A>G None
M0120706 HCLMCOON_00002 3751 3 Oral 0.38 protein_coding synonymous_variant LOW 2016G>T Gly672Gly
M0120707 HCLMCOON_00002 3754 3 Oral 0.38 protein_coding synonymous_variant LOW 2019T>C Ile673Ile
M0120708 HCLMCOON_00002 3853 4 Oral 0.50 protein_coding synonymous_variant LOW 2118T>C Asp706Asp
M0120709 HCLMCOON_00002 3865 4 Oral 0.50 protein_coding synonymous_variant LOW 2130T>C Val710Val
M0120710 HCLMCOON_00002 3934 4 Oral 0.50 protein_coding synonymous_variant LOW 2199C>T Ala733Ala
M0120711 HCLMCOON_00002 4111 4 Oral 0.50 protein_coding synonymous_variant LOW 2376A>G Ser792Ser
M0120712 HCLMCOON_00002 4120 3 Oral 0.38 protein_coding synonymous_variant LOW 2385C>T Ser795Ser
M0120713 HCLMCOON_00002 4139 3 Oral 0.38 protein_coding missense_variant MODERATE 2404T>A Leu802Ile
M0120714 HCLMCOON_00002 4179 3 Oral 0.38 protein_coding missense_variant MODERATE 2444A>G His815Arg
M0120715 HCLMCOON_00002 4239 3 Oral 0.38 protein_coding missense_variant MODERATE 2504T>C Leu835Ser
M0120716 HCLMCOON_00002 4503 5 Oral 0.63 protein_coding missense_variant MODERATE 2768A>G Glu923Gly
M0120717 HCLMCOON_00002 4540 3 Oral 0.38 protein_coding synonymous_variant LOW 2805T>C Phe935Phe
M0120718 HCLMCOON_00002 4576 4 Oral 0.50 protein_coding synonymous_variant LOW 2841T>C Cys947Cys
M0120719 HCLMCOON_00001 4675 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *2936C>G None
M0120720 HCLMCOON_00001 4708 5 Oral 0.63 protein_coding downstream_gene_variant MODIFIER *2969T>A None
M0120721 HCLMCOON_00001 4710 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *2971T>A None
M0120722 HCLMCOON_00001 4712 5 Oral 0.63 protein_coding downstream_gene_variant MODIFIER *2973T>A None
M0120723 HCLMCOON_00001 4770 5 Oral 0.63 protein_coding downstream_gene_variant MODIFIER *3031A>T None
M0120724 HCLMCOON_00001 4782 5 Oral 0.63 protein_coding downstream_gene_variant MODIFIER *3043T>A None
M0120725 HCLMCOON_00001 4866 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *3127T>C None
M0120726 HCLMCOON_00001 4901 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *3162T>G None
M0120727 HCLMCOON_00002 2980 3 Oral 0.38 protein_coding synonymous_variant LOW 1245A>G Gln415Gln
M0120728 HCLMCOON_00002 4626 3 Oral 0.38 protein_coding missense_variant MODERATE 2891G>C Ser964Thr






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