Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2440
  Reference Plasmid   1111525849768046_bin.37__k141_35522
  Reference Plasmid Size   8557
  Reference Plasmid GC Content   0.38
  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
M0125980 ALDJIGFK_00001 145 3 Oral 0.30 protein_coding synonymous_variant LOW 105T>C Thr35Thr
M0125981 ALDJIGFK_00001 190 3 Oral 0.30 protein_coding synonymous_variant LOW 150C>T Pro50Pro
M0125982 ALDJIGFK_00001 192 3 Oral 0.30 protein_coding missense_variant MODERATE 152A>C Glu51Ala
M0125983 ALDJIGFK_00001 295 4 Oral 0.40 protein_coding synonymous_variant LOW 255T>C Leu85Leu
M0125984 ALDJIGFK_00001 313 4 Oral 0.40 protein_coding synonymous_variant LOW 273T>C Asp91Asp
M0125985 ALDJIGFK_00001 342 4 Oral 0.40 protein_coding missense_variant MODERATE 302A>G Asn101Ser
M0125986 ALDJIGFK_00001 436 3 Oral 0.30 protein_coding missense_variant MODERATE 396C>A Asp132Glu
M0125987 ALDJIGFK_00001 443 4 Oral 0.40 protein_coding missense_variant MODERATE 403C>A Gln135Lys
M0125988 ALDJIGFK_00001 481 4 Oral 0.40 protein_coding synonymous_variant LOW 441T>C Gly147Gly
M0125989 ALDJIGFK_00001 571 3 Oral 0.30 protein_coding synonymous_variant LOW 531T>C Asn177Asn
M0125990 ALDJIGFK_00001 576 5 Oral 0.50 protein_coding missense_variant MODERATE 536T>A Val179Asp
M0125991 ALDJIGFK_00001 577 5 Oral 0.50 protein_coding synonymous_variant LOW 537T>C Val179Val
M0125992 ALDJIGFK_00001 587 5 Oral 0.50 protein_coding missense_variant MODERATE 547A>T Asn183Tyr
M0125993 ALDJIGFK_00001 597 4 Oral 0.40 protein_coding missense_variant MODERATE 557A>G Asn186Ser
M0125994 ALDJIGFK_00001 619 3 Oral 0.30 protein_coding synonymous_variant LOW 579A>G Glu193Glu
M0125995 ALDJIGFK_00001 625 3 Oral 0.30 protein_coding synonymous_variant LOW 585T>C Phe195Phe
M0125996 ALDJIGFK_00001 664 4 Oral 0.40 protein_coding synonymous_variant LOW 624G>T Val208Val
M0125997 ALDJIGFK_00001 691 3 Oral 0.30 protein_coding synonymous_variant LOW 651C>T Arg217Arg
M0125998 ALDJIGFK_00001 709 4 Oral 0.40 protein_coding synonymous_variant LOW 669G>A Val223Val
M0125999 ALDJIGFK_00001 715 4 Oral 0.40 protein_coding synonymous_variant LOW 675G>A Arg225Arg
M0126000 ALDJIGFK_00001 778 3 Oral 0.30 protein_coding synonymous_variant LOW 738T>A Gly246Gly
M0126001 ALDJIGFK_00001 865 4 Oral 0.40 protein_coding synonymous_variant LOW 825C>A Ala275Ala
M0126002 ALDJIGFK_00001 892 4 Oral 0.40 protein_coding synonymous_variant LOW 852T>C Phe284Phe
M0126003 ALDJIGFK_00001 1030 5 Oral 0.50 protein_coding synonymous_variant LOW 990A>C Gly330Gly
M0126004 ALDJIGFK_00001 1108 3 Oral 0.30 protein_coding synonymous_variant LOW 1068T>C Tyr356Tyr
M0126005 ALDJIGFK_00001 1156 3 Oral 0.30 protein_coding synonymous_variant LOW 1116T>C Asn372Asn
M0126006 ALDJIGFK_00001 1192 3 Oral 0.30 protein_coding synonymous_variant LOW 1152C>T His384His
M0126007 ALDJIGFK_00001 1462 4 Oral 0.40 protein_coding synonymous_variant LOW 1422T>C Asn474Asn
M0126008 ALDJIGFK_00001 1499 4 Oral 0.40 protein_coding missense_variant MODERATE 1459T>G Ser487Ala
M0126009 ALDJIGFK_00001 1519 4 Oral 0.40 protein_coding synonymous_variant LOW 1479T>A Thr493Thr
M0126010 ALDJIGFK_00001 1552 3 Oral 0.30 protein_coding synonymous_variant LOW 1512C>T Asp504Asp
M0126011 ALDJIGFK_00001 1609 3 Oral 0.30 protein_coding synonymous_variant LOW 1569A>G Glu523Glu
M0126012 ALDJIGFK_00002 1628 4 Oral 0.40 protein_coding upstream_gene_variant MODIFIER -530G>A None
M0126013 ALDJIGFK_00002 1663 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -495C>T None
M0126014 ALDJIGFK_00002 1666 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -492A>T None
M0126015 ALDJIGFK_00002 1669 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -489C>A None
M0126016 ALDJIGFK_00002 1681 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -477A>G None
M0126017 ALDJIGFK_00002 1682 4 Oral 0.40 protein_coding upstream_gene_variant MODIFIER -476T>G None
M0126018 ALDJIGFK_00002 1683 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -475A>C None
M0126019 ALDJIGFK_00002 1699 4 Oral 0.40 protein_coding upstream_gene_variant MODIFIER -459G>A None
M0126020 ALDJIGFK_00002 1719 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -439A>T None
M0126021 ALDJIGFK_00002 2017 4 Oral 0.40 protein_coding upstream_gene_variant MODIFIER -141G>C None
M0126022 ALDJIGFK_00002 2019 4 Oral 0.40 protein_coding upstream_gene_variant MODIFIER -139T>C None
M0126023 ALDJIGFK_00002 2070 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -88G>A None
M0126024 ALDJIGFK_00002 2389 7 Oral 0.70 protein_coding missense_variant MODERATE 232A>G Met78Val
M0126025 ALDJIGFK_00002 2910 7 Oral 0.70 protein_coding synonymous_variant LOW 753T>C Asn251Asn
M0126026 ALDJIGFK_00002 3009 7 Oral 0.70 protein_coding synonymous_variant LOW 852T>C Asp284Asp
M0126027 ALDJIGFK_00002 3286 6 Oral 0.60 protein_coding missense_variant MODERATE 1129A>G Thr377Ala
M0126028 ALDJIGFK_00002 3302 7 Oral 0.70 protein_coding missense_variant MODERATE 1145C>T Ala382Val
M0126029 ALDJIGFK_00002 3492 3 Oral 0.30 protein_coding synonymous_variant LOW 1335C>T Thr445Thr
M0126030 ALDJIGFK_00002 3540 4 Oral 0.40 protein_coding synonymous_variant LOW 1383T>C Asp461Asp
M0126031 ALDJIGFK_00002 3630 4 Oral 0.40 protein_coding synonymous_variant LOW 1473T>C Ser491Ser
M0126032 ALDJIGFK_00002 3636 3 Oral 0.30 protein_coding synonymous_variant LOW 1479C>T Ser493Ser
M0126033 ALDJIGFK_00002 3801 6 Oral 0.60 protein_coding synonymous_variant LOW 1644T>C Ser548Ser
M0126034 ALDJIGFK_00002 3897 8 Oral 0.80 protein_coding missense_variant MODERATE 1740A>C Glu580Asp
M0126035 ALDJIGFK_00002 4011 7 Oral 0.70 protein_coding synonymous_variant LOW 1854A>C Val618Val
M0126036 ALDJIGFK_00002 4035 5 Oral 0.50 protein_coding synonymous_variant LOW 1878C>T Phe626Phe
M0126037 ALDJIGFK_00002 4152 3 Oral 0.30 protein_coding synonymous_variant LOW 1995T>A Gly665Gly
M0126038 ALDJIGFK_00002 4222 7 Oral 0.70 protein_coding missense_variant MODERATE 2065A>C Asn689His
M0126039 ALDJIGFK_00002 4335 6 Oral 0.60 protein_coding synonymous_variant LOW 2178C>T Asn726Asn
M0126040 ALDJIGFK_00002 4367 5 Oral 0.50 protein_coding missense_variant MODERATE 2210C>T Pro737Leu
M0126041 ALDJIGFK_00002 4387 5 Oral 0.50 protein_coding missense_variant MODERATE 2230G>A Val744Met
M0126042 ALDJIGFK_00002 4389 5 Oral 0.50 protein_coding synonymous_variant LOW 2232G>A Val744Val
M0126043 ALDJIGFK_00002 4611 6 Oral 0.60 protein_coding synonymous_variant LOW 2454C>T Asn818Asn
M0126044 ALDJIGFK_00002 4623 3 Oral 0.30 protein_coding synonymous_variant LOW 2466T>C Tyr822Tyr
M0126045 ALDJIGFK_00002 4684 6 Oral 0.60 protein_coding missense_variant MODERATE 2527T>A Ser843Thr
M0126046 ALDJIGFK_00003 4968 5 Oral 0.50 protein_coding synonymous_variant LOW 258A>C Ile86Ile
M0126047 ALDJIGFK_00003 4981 7 Oral 0.70 protein_coding missense_variant MODERATE 271A>G Thr91Ala
M0126048 ALDJIGFK_00003 5315 7 Oral 0.70 protein_coding missense_variant MODERATE 605C>G Thr202Ser
M0126049 ALDJIGFK_00003 5424 7 Oral 0.70 protein_coding synonymous_variant LOW 714A>G Val238Val
M0126050 ALDJIGFK_00001 739 3 Oral 0.30 protein_coding synonymous_variant LOW 699A>G Val233Val
M0126051 ALDJIGFK_00001 883 4 Oral 0.40 protein_coding synonymous_variant LOW 843T>C Asn281Asn
M0126052 ALDJIGFK_00002 2550 6 Oral 0.60 protein_coding synonymous_variant LOW 393T>C Asn131Asn
M0126053 ALDJIGFK_00002 2565 3 Oral 0.30 protein_coding synonymous_variant LOW 408C>A Pro136Pro
M0126054 ALDJIGFK_00002 2751 5 Oral 0.50 protein_coding synonymous_variant LOW 594C>T Tyr198Tyr
M0126055 ALDJIGFK_00002 2940 5 Oral 0.50 protein_coding synonymous_variant LOW 783C>T Tyr261Tyr
M0126056 ALDJIGFK_00002 3288 5 Oral 0.50 protein_coding synonymous_variant LOW 1131T>A Thr377Thr
M0126057 ALDJIGFK_00002 3999 3 Oral 0.30 protein_coding synonymous_variant LOW 1842T>A Ala614Ala
M0126058 ALDJIGFK_00002 4098 5 Oral 0.50 protein_coding synonymous_variant LOW 1941G>A Val647Val
M0126059 ALDJIGFK_00002 4129 3 Oral 0.30 protein_coding missense_variant MODERATE 1972G>A Ala658Thr
M0126060 ALDJIGFK_00002 4413 3 Oral 0.30 protein_coding synonymous_variant LOW 2256C>T Asp752Asp
M0126061 ALDJIGFK_00002 4416 3 Oral 0.30 protein_coding synonymous_variant LOW 2259C>T Ser753Ser
M0126062 ALDJIGFK_00002 4545 6 Oral 0.60 protein_coding synonymous_variant LOW 2388T>C Leu796Leu
M0126063 ALDJIGFK_00002 4551 6 Oral 0.60 protein_coding synonymous_variant LOW 2394T>C Asn798Asn
M0126064 ALDJIGFK_00003 5172 4 Oral 0.40 protein_coding synonymous_variant LOW 462C>T Arg154Arg
M0126065 ALDJIGFK_00003 5196 5 Oral 0.50 protein_coding synonymous_variant LOW 486G>A Lys162Lys
M0126066 ALDJIGFK_00004 5698 4 Oral 0.40 protein_coding missense_variant MODERATE 116T>C Ile39Thr
M0126067 ALDJIGFK_00004 6362 3 Oral 0.30 protein_coding synonymous_variant LOW 780A>G Lys260Lys
M0126068 ALDJIGFK_00004 6389 3 Oral 0.30 protein_coding synonymous_variant LOW 807T>A Gly269Gly
M0126069 ALDJIGFK_00004 6779 6 Oral 0.60 protein_coding synonymous_variant LOW 1197A>T Ile399Ile
M0126070 ALDJIGFK_00004 6818 5 Oral 0.50 protein_coding synonymous_variant LOW 1236T>A Thr412Thr
M0126071 ALDJIGFK_00004 6821 4 Oral 0.40 protein_coding synonymous_variant LOW 1239C>A Gly413Gly
M0126072 ALDJIGFK_00006 7383 6 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -333T>G None
M0126073 ALDJIGFK_00006 7391 4 Oral 0.40 protein_coding upstream_gene_variant MODIFIER -325T>C None
M0126074 ALDJIGFK_00006 7402 6 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -314T>A None
M0126075 ALDJIGFK_00006 7482 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -234C>T None
M0126076 ALDJIGFK_00006 7483 6 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -233T>G None
M0126077 ALDJIGFK_00006 7501 5 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -215C>T None
M0126078 ALDJIGFK_00006 7513 6 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -203G>C None
M0126079 ALDJIGFK_00006 7518 6 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -198G>A None
M0126080 ALDJIGFK_00006 7531 5 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -185C>T None
M0126081 ALDJIGFK_00006 7548 6 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -168A>T None
M0126082 ALDJIGFK_00006 7552 5 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -164C>G None
M0126083 ALDJIGFK_00006 7591 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -125C>A None
M0126084 ALDJIGFK_00006 7602 5 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -114C>A None
M0126085 ALDJIGFK_00006 7619 4 Oral 0.40 protein_coding upstream_gene_variant MODIFIER -97A>G None
M0126086 ALDJIGFK_00006 7630 4 Oral 0.40 protein_coding upstream_gene_variant MODIFIER -86T>A None
M0126087 ALDJIGFK_00006 7659 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -57C>A None
M0126088 ALDJIGFK_00006 7721 4 Oral 0.40 protein_coding synonymous_variant LOW 6A>G Lys2Lys
M0126089 ALDJIGFK_00006 7846 6 Oral 0.60 protein_coding missense_variant MODERATE 131T>C Ile44Thr
M0126090 ALDJIGFK_00006 7847 6 Oral 0.60 protein_coding synonymous_variant LOW 132A>T Ile44Ile
M0126091 ALDJIGFK_00006 7910 4 Oral 0.40 protein_coding synonymous_variant LOW 195T>A Val65Val
M0126092 ALDJIGFK_00006 7925 3 Oral 0.30 protein_coding synonymous_variant LOW 210A>G Thr70Thr
M0126093 ALDJIGFK_00006 8006 4 Oral 0.40 protein_coding synonymous_variant LOW 291T>C Arg97Arg
M0126094 ALDJIGFK_00006 8063 3 Oral 0.30 protein_coding synonymous_variant LOW 348T>C Tyr116Tyr
M0126095 ALDJIGFK_00006 8180 5 Oral 0.50 protein_coding synonymous_variant LOW 465G>A Ala155Ala
M0126096 ALDJIGFK_00002 4277 3 Oral 0.30 protein_coding missense_variant MODERATE 2120C>T Ala707Val
M0126097 ALDJIGFK_00003 5208 4 Oral 0.40 protein_coding missense_variant MODERATE 498T>A Asn166Lys
M0126098 ALDJIGFK_00003 5274 4 Oral 0.40 protein_coding synonymous_variant LOW 564A>T Leu188Leu
M0126099 ALDJIGFK_00004 5948 3 Oral 0.30 protein_coding synonymous_variant LOW 366C>T Thr122Thr
M0126100 ALDJIGFK_00004 6245 3 Oral 0.30 protein_coding synonymous_variant LOW 663C>T Ser221Ser
M0126101 ALDJIGFK_00004 6371 4 Oral 0.40 protein_coding synonymous_variant LOW 789T>C Asp263Asp
M0126102 ALDJIGFK_00006 7386 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -330T>G None
M0126103 ALDJIGFK_00006 7481 5 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -235C>T None
M0126104 ALDJIGFK_00006 8072 4 Oral 0.40 protein_coding synonymous_variant LOW 357C>T Asp119Asp
M0126105 ALDJIGFK_00006 8279 4 Oral 0.40 protein_coding synonymous_variant LOW 564A>T Ala188Ala
M0126106 ALDJIGFK_00006 8408 4 Oral 0.40 protein_coding synonymous_variant LOW 693T>C Leu231Leu
M0126107 ALDJIGFK_00006 8426 3 Oral 0.30 protein_coding synonymous_variant LOW 711A>G Val237Val
M0126108 ALDJIGFK_00001 1045 3 Oral 0.30 protein_coding synonymous_variant LOW 1005T>A Pro335Pro
M0126109 ALDJIGFK_00001 1531 3 Oral 0.30 protein_coding synonymous_variant LOW 1491C>T Asn497Asn
M0126110 ALDJIGFK_00002 1908 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -250T>C None
M0126111 ALDJIGFK_00002 1909 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -249T>A None
M0126112 ALDJIGFK_00002 1961 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -197A>T None
M0126113 ALDJIGFK_00002 2041 3 Oral 0.30 protein_coding upstream_gene_variant MODIFIER -117C>T None
M0126114 ALDJIGFK_00002 2228 3 Oral 0.30 protein_coding missense_variant MODERATE 71G>A Ser24Asn
M0126115 ALDJIGFK_00002 2535 3 Oral 0.30 protein_coding synonymous_variant LOW 378A>G Leu126Leu
M0126116 ALDJIGFK_00002 4548 3 Oral 0.30 protein_coding synonymous_variant LOW 2391C>T Asn797Asn
M0126117 ALDJIGFK_00004 6677 3 Oral 0.30 protein_coding synonymous_variant LOW 1095C>T Asn365Asn
M0126118 ALDJIGFK_00006 7914 4 Oral 0.40 protein_coding missense_variant MODERATE 199A>G Ile67Val






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