Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2375
  Reference Plasmid   1111525849768046_bin.37__k141_130479
  Reference Plasmid Size   11518
  Reference Plasmid GC Content   0.39
  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
M0119944 BIIDNMLH_00001 478 3 Oral 0.38 protein_coding synonymous_variant LOW 246T>A Thr82Thr
M0119945 BIIDNMLH_00001 778 3 Oral 0.38 protein_coding synonymous_variant LOW 546A>G Lys182Lys
M0119946 BIIDNMLH_00001 787 4 Oral 0.50 protein_coding synonymous_variant LOW 555C>T Ala185Ala
M0119947 BIIDNMLH_00001 841 3 Oral 0.38 protein_coding synonymous_variant LOW 609G>A Gly203Gly
M0119948 BIIDNMLH_00001 898 3 Oral 0.38 protein_coding synonymous_variant LOW 666T>C Pro222Pro
M0119949 BIIDNMLH_00001 925 3 Oral 0.38 protein_coding synonymous_variant LOW 693T>C Phe231Phe
M0119950 BIIDNMLH_00001 931 3 Oral 0.38 protein_coding synonymous_variant LOW 699G>T Leu233Leu
M0119951 BIIDNMLH_00005 5732 3 Oral 0.38 protein_coding synonymous_variant LOW 549G>A Ser183Ser
M0119952 BIIDNMLH_00005 5786 3 Oral 0.38 protein_coding synonymous_variant LOW 495T>A Ile165Ile
M0119953 BIIDNMLH_00005 5788 6 Oral 0.75 protein_coding missense_variant MODERATE 493A>G Ile165Val
M0119954 BIIDNMLH_00005 5789 6 Oral 0.75 protein_coding synonymous_variant LOW 492A>G Ser164Ser
M0119955 BIIDNMLH_00005 5813 5 Oral 0.63 protein_coding synonymous_variant LOW 468T>C Gly156Gly
M0119956 BIIDNMLH_00005 5816 6 Oral 0.75 protein_coding synonymous_variant LOW 465T>C Asn155Asn
M0119957 BIIDNMLH_00005 5852 4 Oral 0.50 protein_coding synonymous_variant LOW 429A>T Thr143Thr
M0119958 BIIDNMLH_00005 5861 4 Oral 0.50 protein_coding synonymous_variant LOW 420T>G Ser140Ser
M0119959 BIIDNMLH_00005 5864 6 Oral 0.75 protein_coding synonymous_variant LOW 417T>A Gly139Gly
M0119960 BIIDNMLH_00005 5939 3 Oral 0.38 protein_coding synonymous_variant LOW 342C>T Leu114Leu
M0119961 BIIDNMLH_00005 5948 6 Oral 0.75 protein_coding synonymous_variant LOW 333T>C Asn111Asn
M0119962 BIIDNMLH_00005 6035 6 Oral 0.75 protein_coding synonymous_variant LOW 246T>C Gly82Gly
M0119963 BIIDNMLH_00005 6041 6 Oral 0.75 protein_coding synonymous_variant LOW 240G>A Lys80Lys
M0119964 BIIDNMLH_00005 6074 3 Oral 0.38 protein_coding synonymous_variant LOW 207C>T Leu69Leu
M0119965 BIIDNMLH_00005 6122 6 Oral 0.75 protein_coding synonymous_variant LOW 159T>C Ile53Ile
M0119966 BIIDNMLH_00005 6194 6 Oral 0.75 protein_coding synonymous_variant LOW 87C>T Phe29Phe
M0119967 BIIDNMLH_00005 6251 3 Oral 0.38 protein_coding synonymous_variant LOW 30C>T His10His
M0119968 BIIDNMLH_00003 6380 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -2896A>G None
M0119969 BIIDNMLH_00003 6466 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -2982A>G None
M0119970 BIIDNMLH_00003 6515 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -3031T>C None
M0119971 BIIDNMLH_00003 6584 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -3100G>T None
M0119972 BIIDNMLH_00003 6588 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -3104G>T None
M0119973 BIIDNMLH_00003 6645 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -3161T>C None
M0119974 BIIDNMLH_00003 6665 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -3181T>G None
M0119975 BIIDNMLH_00003 6667 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -3183C>T None
M0119976 BIIDNMLH_00006 6807 6 Oral 0.75 protein_coding synonymous_variant LOW 84T>G Ser28Ser
M0119977 BIIDNMLH_00006 6834 3 Oral 0.38 protein_coding synonymous_variant LOW 111T>A Thr37Thr
M0119978 BIIDNMLH_00006 6943 6 Oral 0.75 protein_coding synonymous_variant LOW 220C>T Leu74Leu
M0119979 BIIDNMLH_00006 7002 5 Oral 0.63 protein_coding synonymous_variant LOW 279C>T Ser93Ser
M0119980 BIIDNMLH_00006 7052 5 Oral 0.63 protein_coding missense_variant MODERATE 329A>G Lys110Arg
M0119981 BIIDNMLH_00007 7214 3 Oral 0.38 protein_coding synonymous_variant LOW 87T>A Thr29Thr
M0119982 BIIDNMLH_00007 7238 6 Oral 0.75 protein_coding synonymous_variant LOW 111A>C Ile37Ile
M0119983 BIIDNMLH_00007 7250 4 Oral 0.50 protein_coding synonymous_variant LOW 123T>A Ile41Ile
M0119984 BIIDNMLH_00007 7508 6 Oral 0.75 protein_coding synonymous_variant LOW 381G>A Ala127Ala
M0119985 BIIDNMLH_00007 7670 3 Oral 0.38 protein_coding synonymous_variant LOW 543G>A Gly181Gly
M0119986 BIIDNMLH_00007 7697 6 Oral 0.75 protein_coding synonymous_variant LOW 570T>C Ala190Ala
M0119987 BIIDNMLH_00007 7730 6 Oral 0.75 protein_coding synonymous_variant LOW 603T>C Pro201Pro
M0119988 BIIDNMLH_00007 7772 6 Oral 0.75 protein_coding synonymous_variant LOW 645C>T Gly215Gly
M0119989 BIIDNMLH_00003 7879 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -4395A>T None
M0119990 BIIDNMLH_00003 7904 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -4420C>T None
M0119991 BIIDNMLH_00003 7924 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4440G>A None
M0119992 BIIDNMLH_00008 8182 3 Oral 0.38 protein_coding synonymous_variant LOW 210G>T Val70Val
M0119993 BIIDNMLH_00008 8224 6 Oral 0.75 protein_coding synonymous_variant LOW 252C>T Asn84Asn
M0119994 BIIDNMLH_00008 8227 6 Oral 0.75 protein_coding synonymous_variant LOW 255T>A Ile85Ile
M0119995 BIIDNMLH_00008 8230 6 Oral 0.75 protein_coding synonymous_variant LOW 258T>C Asp86Asp
M0119996 BIIDNMLH_00008 8275 6 Oral 0.75 protein_coding synonymous_variant LOW 303T>C Asp101Asp
M0119997 BIIDNMLH_00008 8329 3 Oral 0.38 protein_coding synonymous_variant LOW 357A>G Thr119Thr
M0119998 BIIDNMLH_00008 8344 3 Oral 0.38 protein_coding synonymous_variant LOW 372T>C Gly124Gly
M0119999 BIIDNMLH_00008 8438 4 Oral 0.50 protein_coding synonymous_variant LOW 466C>T Leu156Leu
M0120000 BIIDNMLH_00008 8506 6 Oral 0.75 protein_coding synonymous_variant LOW 534T>C Val178Val
M0120001 BIIDNMLH_00008 8674 5 Oral 0.63 protein_coding synonymous_variant LOW 702G>C Ala234Ala
M0120002 BIIDNMLH_00008 8680 6 Oral 0.75 protein_coding synonymous_variant LOW 708T>C Tyr236Tyr
M0120003 BIIDNMLH_00008 8789 3 Oral 0.38 protein_coding missense_variant MODERATE 817T>C Tyr273His
M0120004 BIIDNMLH_00008 8971 3 Oral 0.38 protein_coding synonymous_variant LOW 999A>G Lys333Lys
M0120005 BIIDNMLH_00008 9191 6 Oral 0.75 protein_coding synonymous_variant LOW 1219A>C Arg407Arg
M0120006 BIIDNMLH_00008 9223 4 Oral 0.50 protein_coding synonymous_variant LOW 1251A>C Val417Val
M0120007 BIIDNMLH_00008 9286 6 Oral 0.75 protein_coding synonymous_variant LOW 1314C>G Gly438Gly
M0120008 BIIDNMLH_00008 9397 6 Oral 0.75 protein_coding synonymous_variant LOW 1425C>G Thr475Thr
M0120009 BIIDNMLH_00008 9473 6 Oral 0.75 protein_coding synonymous_variant LOW 1501C>T Leu501Leu
M0120010 BIIDNMLH_00008 9490 6 Oral 0.75 protein_coding synonymous_variant LOW 1518G>A Lys506Lys
M0120011 BIIDNMLH_00008 9550 3 Oral 0.38 protein_coding synonymous_variant LOW 1578C>G Thr526Thr
M0120012 BIIDNMLH_00008 9571 5 Oral 0.63 protein_coding synonymous_variant LOW 1599A>G Ser533Ser
M0120013 BIIDNMLH_00008 9601 4 Oral 0.50 protein_coding synonymous_variant LOW 1629G>A Pro543Pro
M0120014 BIIDNMLH_00008 9673 5 Oral 0.63 protein_coding synonymous_variant LOW 1701A>G Glu567Glu
M0120015 BIIDNMLH_00008 9727 5 Oral 0.63 protein_coding synonymous_variant LOW 1755T>C Tyr585Tyr
M0120016 BIIDNMLH_00008 9778 4 Oral 0.50 protein_coding synonymous_variant LOW 1806A>G Leu602Leu
M0120017 BIIDNMLH_00008 9865 6 Oral 0.75 protein_coding synonymous_variant LOW 1893T>C Gly631Gly
M0120018 BIIDNMLH_00008 9952 3 Oral 0.38 protein_coding synonymous_variant LOW 1980G>A Ser660Ser
M0120019 BIIDNMLH_00008 10057 6 Oral 0.75 protein_coding synonymous_variant LOW 2085G>A Leu695Leu
M0120020 BIIDNMLH_00008 10099 3 Oral 0.38 protein_coding synonymous_variant LOW 2127G>A Val709Val
M0120021 BIIDNMLH_00008 10123 6 Oral 0.75 protein_coding synonymous_variant LOW 2151C>T Ser717Ser
M0120022 BIIDNMLH_00008 10210 6 Oral 0.75 protein_coding synonymous_variant LOW 2238T>C Phe746Phe
M0120023 BIIDNMLH_00008 10213 6 Oral 0.75 protein_coding synonymous_variant LOW 2241T>A Thr747Thr
M0120024 BIIDNMLH_00008 10216 6 Oral 0.75 protein_coding synonymous_variant LOW 2244C>G Gly748Gly
M0120025 BIIDNMLH_00008 10231 6 Oral 0.75 protein_coding synonymous_variant LOW 2259T>C Gly753Gly
M0120026 BIIDNMLH_00008 10327 6 Oral 0.75 protein_coding synonymous_variant LOW 2355T>C Asn785Asn
M0120027 BIIDNMLH_00008 10471 3 Oral 0.38 protein_coding synonymous_variant LOW 2499C>T Asp833Asp
M0120028 BIIDNMLH_00008 10546 3 Oral 0.38 protein_coding synonymous_variant LOW 2574T>C Asp858Asp
M0120029 BIIDNMLH_00008 10694 3 Oral 0.38 protein_coding synonymous_variant LOW 2722T>C Leu908Leu
M0120030 BIIDNMLH_00008 10696 3 Oral 0.38 protein_coding missense_variant MODERATE 2724G>T Leu908Phe
M0120031 BIIDNMLH_00008 10906 5 Oral 0.63 protein_coding synonymous_variant LOW 2934T>C Arg978Arg
M0120032 BIIDNMLH_00008 10918 4 Oral 0.50 protein_coding synonymous_variant LOW 2946T>G Ala982Ala
M0120033 BIIDNMLH_00005 10982 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -4702T>C None
M0120034 BIIDNMLH_00005 11101 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -4821G>A None
M0120035 BIIDNMLH_00009 11310 4 Oral 0.50 protein_coding synonymous_variant LOW 159G>T Val53Val
M0120036 BIIDNMLH_00009 11334 5 Oral 0.63 protein_coding synonymous_variant LOW 183A>C Ala61Ala
M0120037 BIIDNMLH_00001 26 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -207C>A None
M0120038 BIIDNMLH_00001 169 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -64A>C None
M0120039 BIIDNMLH_00001 1405 3 Oral 0.38 protein_coding synonymous_variant LOW 1173T>A Ser391Ser
M0120040 BIIDNMLH_00001 1492 3 Oral 0.38 protein_coding synonymous_variant LOW 1260A>G Lys420Lys
M0120041 BIIDNMLH_00001 1688 3 Oral 0.38 protein_coding missense_variant MODERATE 1456T>C Tyr486His
M0120042 BIIDNMLH_00001 1723 3 Oral 0.38 protein_coding synonymous_variant LOW 1491T>C His497His
M0120043 BIIDNMLH_00001 1729 3 Oral 0.38 protein_coding synonymous_variant LOW 1497T>C Gly499Gly
M0120044 BIIDNMLH_00002 2144 3 Oral 0.38 protein_coding synonymous_variant LOW 336A>C Ile112Ile
M0120045 BIIDNMLH_00002 2156 3 Oral 0.38 protein_coding synonymous_variant LOW 348A>G Leu116Leu
M0120046 BIIDNMLH_00006 2306 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -4418T>C None
M0120047 BIIDNMLH_00006 2336 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -4388C>T None
M0120048 BIIDNMLH_00003 2462 3 Oral 0.38 protein_coding synonymous_variant LOW 1023T>C Arg341Arg
M0120049 BIIDNMLH_00003 2495 3 Oral 0.38 protein_coding synonymous_variant LOW 990T>C Tyr330Tyr
M0120050 BIIDNMLH_00003 5022 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -1538C>T None
M0120051 BIIDNMLH_00005 5077 3 Oral 0.38 protein_coding synonymous_variant LOW 1204C>T Leu402Leu
M0120052 BIIDNMLH_00005 5078 3 Oral 0.38 protein_coding synonymous_variant LOW 1203G>A Thr401Thr
M0120053 BIIDNMLH_00005 5108 3 Oral 0.38 protein_coding synonymous_variant LOW 1173T>C Ile391Ile
M0120054 BIIDNMLH_00005 5147 3 Oral 0.38 protein_coding synonymous_variant LOW 1134T>C Gly378Gly
M0120055 BIIDNMLH_00005 5213 3 Oral 0.38 protein_coding synonymous_variant LOW 1068G>A Leu356Leu
M0120056 BIIDNMLH_00005 5261 3 Oral 0.38 protein_coding synonymous_variant LOW 1020T>A Ile340Ile
M0120057 BIIDNMLH_00005 5462 3 Oral 0.38 protein_coding synonymous_variant LOW 819C>T Thr273Thr
M0120058 BIIDNMLH_00005 5768 3 Oral 0.38 protein_coding synonymous_variant LOW 513C>T Phe171Phe
M0120059 BIIDNMLH_00003 6386 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -2902T>C None
M0120060 BIIDNMLH_00003 6599 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -3115T>C None
M0120061 BIIDNMLH_00003 6600 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -3116T>A None
M0120062 BIIDNMLH_00006 6852 3 Oral 0.38 protein_coding missense_variant MODERATE 129T>A Asn43Lys
M0120063 BIIDNMLH_00006 6927 5 Oral 0.63 protein_coding synonymous_variant LOW 204A>G Pro68Pro
M0120064 BIIDNMLH_00006 7089 3 Oral 0.38 protein_coding synonymous_variant LOW 366T>C His122His
M0120065 BIIDNMLH_00003 7903 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -4419C>A None
M0120066 BIIDNMLH_00008 9328 3 Oral 0.38 protein_coding synonymous_variant LOW 1356G>A Lys452Lys
M0120067 BIIDNMLH_00008 9679 4 Oral 0.50 protein_coding synonymous_variant LOW 1707T>C Ala569Ala
M0120068 BIIDNMLH_00008 8806 3 Oral 0.38 protein_coding synonymous_variant LOW 834G>A Pro278Pro
M0120069 BIIDNMLH_00008 9086 3 Oral 0.38 protein_coding synonymous_variant LOW 1114C>A Arg372Arg
M0120070 BIIDNMLH_00008 9097 3 Oral 0.38 protein_coding synonymous_variant LOW 1125T>C Phe375Phe
M0120071 BIIDNMLH_00008 9253 3 Oral 0.38 protein_coding synonymous_variant LOW 1281G>T Ala427Ala
M0120072 BIIDNMLH_00008 9793 3 Oral 0.38 protein_coding synonymous_variant LOW 1821C>T Gly607Gly
M0120073 BIIDNMLH_00008 9799 4 Oral 0.50 protein_coding missense_variant MODERATE 1827C>G Asn609Lys
M0120074 BIIDNMLH_00008 9802 4 Oral 0.50 protein_coding synonymous_variant LOW 1830C>T Tyr610Tyr
M0120075 BIIDNMLH_00008 10000 3 Oral 0.38 protein_coding synonymous_variant LOW 2028A>G Ala676Ala
M0120076 BIIDNMLH_00008 10156 3 Oral 0.38 protein_coding synonymous_variant LOW 2184C>T Tyr728Tyr
M0120077 BIIDNMLH_00005 5666 3 Oral 0.38 protein_coding synonymous_variant LOW 615A>G Leu205Leu
M0120078 BIIDNMLH_00005 5747 3 Oral 0.38 protein_coding missense_variant MODERATE 534C>G Asp178Glu
M0120079 BIIDNMLH_00005 5873 3 Oral 0.38 protein_coding synonymous_variant LOW 408A>C Thr136Thr
M0120080 BIIDNMLH_00005 6125 3 Oral 0.38 protein_coding synonymous_variant LOW 156C>G Thr52Thr
M0120081 BIIDNMLH_00008 9136 3 Oral 0.38 protein_coding synonymous_variant LOW 1164A>G Lys388Lys






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