Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3223
  Reference Plasmid   MET0487_bin.1__k81_69361
  Reference Plasmid Size   5843
  Reference Plasmid GC Content   0.59
  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
M0133587 IOHFOKIE_00001 384 3 Oral 0.38 protein_coding synonymous_variant LOW 93G>T Val31Val
M0133588 IOHFOKIE_00001 403 3 Oral 0.38 protein_coding missense_variant MODERATE 112T>C Cys38Arg
M0133589 IOHFOKIE_00001 480 3 Oral 0.38 protein_coding synonymous_variant LOW 189T>A Ala63Ala
M0133590 IOHFOKIE_00001 621 3 Oral 0.38 protein_coding synonymous_variant LOW 330T>G Leu110Leu
M0133591 IOHFOKIE_00001 657 3 Oral 0.38 protein_coding synonymous_variant LOW 366C>T Pro122Pro
M0133592 IOHFOKIE_00001 660 3 Oral 0.38 protein_coding synonymous_variant LOW 369A>T Ala123Ala
M0133593 IOHFOKIE_00001 663 3 Oral 0.38 protein_coding synonymous_variant LOW 372C>A Val124Val
M0133594 IOHFOKIE_00001 669 3 Oral 0.38 protein_coding synonymous_variant LOW 378C>A Ala126Ala
M0133595 IOHFOKIE_00001 674 3 Oral 0.38 protein_coding missense_variant MODERATE 383G>C Cys128Ser
M0133596 IOHFOKIE_00001 675 3 Oral 0.38 protein_coding missense_variant MODERATE 384T>G Cys128Trp
M0133597 IOHFOKIE_00001 832 3 Oral 0.38 protein_coding missense_variant MODERATE 541G>T Val181Phe
M0133598 IOHFOKIE_00001 858 3 Oral 0.38 protein_coding synonymous_variant LOW 567T>C Ile189Ile
M0133599 IOHFOKIE_00001 921 3 Oral 0.38 protein_coding synonymous_variant LOW 630T>C Asp210Asp
M0133600 IOHFOKIE_00001 924 3 Oral 0.38 protein_coding synonymous_variant LOW 633T>C Gly211Gly
M0133601 IOHFOKIE_00001 1416 4 Oral 0.50 protein_coding synonymous_variant LOW 1125C>T Ile375Ile
M0133602 IOHFOKIE_00001 1431 4 Oral 0.50 protein_coding synonymous_variant LOW 1140T>C Val380Val
M0133603 IOHFOKIE_00001 1521 3 Oral 0.38 protein_coding synonymous_variant LOW 1230T>A Ala410Ala
M0133604 IOHFOKIE_00001 1530 3 Oral 0.38 protein_coding synonymous_variant LOW 1239T>C Ser413Ser
M0133605 IOHFOKIE_00001 1555 3 Oral 0.38 protein_coding missense_variant MODERATE 1264G>T Ala422Ser
M0133606 IOHFOKIE_00001 1557 3 Oral 0.38 protein_coding synonymous_variant LOW 1266A>C Ala422Ala
M0133607 IOHFOKIE_00001 1560 3 Oral 0.38 protein_coding synonymous_variant LOW 1269G>C Leu423Leu
M0133608 IOHFOKIE_00001 1740 3 Oral 0.38 protein_coding synonymous_variant LOW 1449C>T Val483Val
M0133609 IOHFOKIE_00001 1805 4 Oral 0.50 protein_coding missense_variant MODERATE 1514C>A Pro505His
M0133610 IOHFOKIE_00002 1944 4 Oral 0.50 protein_coding synonymous_variant LOW 60C>T Val20Val
M0133611 IOHFOKIE_00002 1986 5 Oral 0.63 protein_coding synonymous_variant LOW 102C>T Gly34Gly
M0133612 IOHFOKIE_00002 2217 4 Oral 0.50 protein_coding synonymous_variant LOW 333C>A Ala111Ala
M0133613 IOHFOKIE_00002 2232 4 Oral 0.50 protein_coding synonymous_variant LOW 348C>T Gly116Gly
M0133614 IOHFOKIE_00002 2280 4 Oral 0.50 protein_coding synonymous_variant LOW 396T>C Ser132Ser
M0133615 IOHFOKIE_00002 2283 4 Oral 0.50 protein_coding synonymous_variant LOW 399T>C Val133Val
M0133616 IOHFOKIE_00002 2286 4 Oral 0.50 protein_coding synonymous_variant LOW 402T>C Ser134Ser
M0133617 IOHFOKIE_00002 2293 4 Oral 0.50 protein_coding missense_variant MODERATE 409T>G Phe137Val
M0133618 IOHFOKIE_00002 2294 4 Oral 0.50 protein_coding missense_variant MODERATE 410T>G Phe137Cys
M0133619 IOHFOKIE_00002 2299 5 Oral 0.63 protein_coding missense_variant MODERATE 415C>G Pro139Ala
M0133620 IOHFOKIE_00002 2310 4 Oral 0.50 protein_coding synonymous_variant LOW 426T>C Val142Val
M0133621 IOHFOKIE_00002 2325 5 Oral 0.63 protein_coding synonymous_variant LOW 441T>C Gly147Gly
M0133622 IOHFOKIE_00002 2355 5 Oral 0.63 protein_coding missense_variant MODERATE 471G>C Glu157Asp
M0133623 IOHFOKIE_00002 2361 5 Oral 0.63 protein_coding synonymous_variant LOW 477C>T Gly159Gly
M0133624 IOHFOKIE_00002 2385 4 Oral 0.50 protein_coding synonymous_variant LOW 501A>T Ala167Ala
M0133625 IOHFOKIE_00002 2478 3 Oral 0.38 protein_coding synonymous_variant LOW 594T>C Gly198Gly
M0133626 IOHFOKIE_00002 2481 3 Oral 0.38 protein_coding synonymous_variant LOW 597C>T Asp199Asp
M0133627 IOHFOKIE_00002 2487 3 Oral 0.38 protein_coding synonymous_variant LOW 603C>T Arg201Arg
M0133628 IOHFOKIE_00002 2488 4 Oral 0.50 protein_coding missense_variant MODERATE 604C>G His202Asp
M0133629 IOHFOKIE_00002 2518 4 Oral 0.50 protein_coding missense_variant MODERATE 634T>G Ser212Ala
M0133630 IOHFOKIE_00002 2557 5 Oral 0.63 protein_coding missense_variant MODERATE 673A>G Thr225Ala
M0133631 IOHFOKIE_00002 2559 5 Oral 0.63 protein_coding synonymous_variant LOW 675C>A Thr225Thr
M0133632 IOHFOKIE_00002 2584 4 Oral 0.50 protein_coding missense_variant MODERATE 700G>A Val234Ile
M0133633 IOHFOKIE_00002 2862 4 Oral 0.50 protein_coding synonymous_variant LOW 978T>A Ala326Ala
M0133634 IOHFOKIE_00002 2913 4 Oral 0.50 protein_coding synonymous_variant LOW 1029G>A Glu343Glu
M0133635 IOHFOKIE_00002 2916 3 Oral 0.38 protein_coding synonymous_variant LOW 1032T>A Ala344Ala
M0133636 IOHFOKIE_00003 2973 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -215G>A None
M0133637 IOHFOKIE_00003 2982 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -206A>G None
M0133638 IOHFOKIE_00003 3370 3 Oral 0.38 protein_coding synonymous_variant LOW 183C>T Phe61Phe
M0133639 IOHFOKIE_00003 3469 3 Oral 0.38 protein_coding synonymous_variant LOW 282A>G Gln94Gln
M0133640 IOHFOKIE_00003 3772 3 Oral 0.38 protein_coding synonymous_variant LOW 585T>C Ser195Ser
M0133641 IOHFOKIE_00003 3775 3 Oral 0.38 protein_coding synonymous_variant LOW 588T>C Thr196Thr
M0133642 IOHFOKIE_00003 3784 3 Oral 0.38 protein_coding synonymous_variant LOW 597T>C Gly199Gly
M0133643 IOHFOKIE_00003 3787 3 Oral 0.38 protein_coding synonymous_variant LOW 600C>T Asn200Asn
M0133644 IOHFOKIE_00003 3923 3 Oral 0.38 protein_coding missense_variant MODERATE 736A>G Asn246Asp
M0133645 IOHFOKIE_00004 4217 3 Oral 0.38 protein_coding missense_variant MODERATE 13T>A Ser5Thr
M0133646 IOHFOKIE_00004 4219 3 Oral 0.38 protein_coding synonymous_variant LOW 15A>G Ser5Ser
M0133647 IOHFOKIE_00004 4220 3 Oral 0.38 protein_coding missense_variant MODERATE 16C>A Gln6Lys
M0133648 IOHFOKIE_00004 4222 3 Oral 0.38 protein_coding synonymous_variant LOW 18G>A Gln6Gln
M0133649 IOHFOKIE_00004 4237 3 Oral 0.38 protein_coding synonymous_variant LOW 33T>G Gly11Gly
M0133650 IOHFOKIE_00004 4369 3 Oral 0.38 protein_coding synonymous_variant LOW 165A>G Gln55Gln
M0133651 IOHFOKIE_00004 4411 4 Oral 0.50 protein_coding synonymous_variant LOW 207C>A Arg69Arg
M0133652 IOHFOKIE_00004 4435 4 Oral 0.50 protein_coding synonymous_variant LOW 231C>T Ile77Ile
M0133653 IOHFOKIE_00004 4558 3 Oral 0.38 protein_coding synonymous_variant LOW 354T>C Ile118Ile
M0133654 IOHFOKIE_00004 4561 4 Oral 0.50 protein_coding synonymous_variant LOW 357C>T Ile119Ile
M0133655 IOHFOKIE_00004 4588 4 Oral 0.50 protein_coding missense_variant MODERATE 384C>G Asp128Glu
M0133656 IOHFOKIE_00004 4597 4 Oral 0.50 protein_coding synonymous_variant LOW 393A>G Leu131Leu
M0133657 IOHFOKIE_00004 4603 4 Oral 0.50 protein_coding synonymous_variant LOW 399A>G Leu133Leu
M0133658 IOHFOKIE_00004 4615 4 Oral 0.50 protein_coding synonymous_variant LOW 411G>C Leu137Leu
M0133659 IOHFOKIE_00004 4621 3 Oral 0.38 protein_coding synonymous_variant LOW 417A>G Leu139Leu
M0133660 IOHFOKIE_00004 4708 3 Oral 0.38 protein_coding synonymous_variant LOW 504G>A Glu168Glu
M0133661 IOHFOKIE_00004 4789 3 Oral 0.38 protein_coding synonymous_variant LOW 585T>C Arg195Arg
M0133662 IOHFOKIE_00004 4921 3 Oral 0.38 protein_coding synonymous_variant LOW 717A>G Glu239Glu
M0133663 IOHFOKIE_00004 4925 3 Oral 0.38 protein_coding missense_variant MODERATE 721G>T Ala241Ser
M0133664 IOHFOKIE_00004 4930 4 Oral 0.50 protein_coding synonymous_variant LOW 726C>T Val242Val
M0133665 IOHFOKIE_00004 4936 3 Oral 0.38 protein_coding synonymous_variant LOW 732C>T Asn244Asn
M0133666 IOHFOKIE_00004 4972 3 Oral 0.38 protein_coding synonymous_variant LOW 768C>T Thr256Thr
M0133667 IOHFOKIE_00004 4975 3 Oral 0.38 protein_coding synonymous_variant LOW 771C>T Ser257Ser
M0133668 IOHFOKIE_00004 5076 4 Oral 0.50 protein_coding missense_variant MODERATE 872T>G Ile291Ser
M0133669 IOHFOKIE_00001 5499 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *3636C>T None
M0133670 IOHFOKIE_00001 5550 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *3687G>C None
M0133671 IOHFOKIE_00001 5598 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *3735T>G None
M0133672 IOHFOKIE_00001 1644 3 Oral 0.38 protein_coding synonymous_variant LOW 1353T>C Thr451Thr
M0133673 IOHFOKIE_00002 2104 4 Oral 0.50 protein_coding missense_variant MODERATE 220A>T Thr74Ser
M0133674 IOHFOKIE_00002 2109 4 Oral 0.50 protein_coding synonymous_variant LOW 225T>C Gly75Gly
M0133675 IOHFOKIE_00002 2115 3 Oral 0.38 protein_coding synonymous_variant LOW 231A>T Ala77Ala
M0133676 IOHFOKIE_00002 2119 3 Oral 0.38 protein_coding missense_variant MODERATE 235C>A Leu79Met
M0133677 IOHFOKIE_00002 2121 3 Oral 0.38 protein_coding synonymous_variant LOW 237G>C Leu79Leu
M0133678 IOHFOKIE_00002 2127 3 Oral 0.38 protein_coding synonymous_variant LOW 243T>A Ala81Ala
M0133679 IOHFOKIE_00002 2673 4 Oral 0.50 protein_coding synonymous_variant LOW 789A>T Ala263Ala
M0133680 IOHFOKIE_00002 1972 3 Oral 0.38 protein_coding missense_variant MODERATE 88C>A Leu30Met
M0133681 IOHFOKIE_00002 1977 3 Oral 0.38 protein_coding synonymous_variant LOW 93C>T Ile31Ile
M0133682 IOHFOKIE_00002 1992 3 Oral 0.38 protein_coding synonymous_variant LOW 108C>T Asp36Asp
M0133683 IOHFOKIE_00002 1998 3 Oral 0.38 protein_coding synonymous_variant LOW 114C>T Gly38Gly
M0133684 IOHFOKIE_00002 2027 3 Oral 0.38 protein_coding missense_variant MODERATE 143C>G Thr48Ser
M0133685 IOHFOKIE_00004 4453 3 Oral 0.38 protein_coding synonymous_variant LOW 249G>T Ala83Ala
M0133686 IOHFOKIE_00004 4525 3 Oral 0.38 protein_coding synonymous_variant LOW 321C>T Gly107Gly






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