Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3289
  Reference Plasmid   MET0837_bin.4__k81_52180
  Reference Plasmid Size   12807
  Reference Plasmid GC Content   0.61
  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
M0084350 ADPLFGJC_00002 1946 3 Skin 0.43 protein_coding missense_variant MODERATE 1174T>A Leu392Met
M0084351 ADPLFGJC_00002 1958 3 Skin 0.43 protein_coding missense_variant MODERATE 1162A>G Thr388Ala
M0084352 ADPLFGJC_00002 2135 3 Skin 0.43 protein_coding missense_variant MODERATE 985A>G Lys329Glu
M0084353 ADPLFGJC_00002 2147 3 Skin 0.43 protein_coding missense_variant MODERATE 973G>A Glu325Lys
M0084354 ADPLFGJC_00002 2319 3 Skin 0.43 protein_coding synonymous_variant LOW 801A>C Thr267Thr
M0084355 ADPLFGJC_00002 2403 3 Skin 0.43 protein_coding synonymous_variant LOW 717A>G Gln239Gln
M0084356 ADPLFGJC_00002 2563 4 Skin 0.57 protein_coding missense_variant MODERATE 557G>A Gly186Asp
M0084357 ADPLFGJC_00002 2989 3 Skin 0.43 protein_coding missense_variant MODERATE 131C>A Ala44Asp
M0084358 ADPLFGJC_00003 3313 4 Skin 0.57 protein_coding missense_variant MODERATE 31C>G Leu11Val
M0084359 ADPLFGJC_00003 3441 4 Skin 0.57 protein_coding synonymous_variant LOW 159G>T Pro53Pro
M0084360 ADPLFGJC_00003 3901 4 Skin 0.57 protein_coding missense_variant MODERATE 619G>A Val207Ile
M0084361 ADPLFGJC_00003 4173 4 Skin 0.57 protein_coding synonymous_variant LOW 891T>C His297His
M0084362 ADPLFGJC_00003 4215 3 Skin 0.43 protein_coding synonymous_variant LOW 933T>C Arg311Arg
M0084363 ADPLFGJC_00003 4245 4 Skin 0.57 protein_coding synonymous_variant LOW 963C>T Asp321Asp
M0084364 ADPLFGJC_00003 4281 3 Skin 0.43 protein_coding synonymous_variant LOW 999T>C Pro333Pro
M0084365 ADPLFGJC_00003 4290 3 Skin 0.43 protein_coding synonymous_variant LOW 1008A>C Thr336Thr
M0084366 ADPLFGJC_00003 4297 3 Skin 0.43 protein_coding synonymous_variant LOW 1015T>C Leu339Leu
M0084367 ADPLFGJC_00003 4317 3 Skin 0.43 protein_coding synonymous_variant LOW 1035T>C Gly345Gly
M0084368 ADPLFGJC_00003 4642 3 Skin 0.43 protein_coding synonymous_variant LOW 1360T>C Leu454Leu
M0084369 ADPLFGJC_00003 4724 3 Skin 0.43 protein_coding missense_variant MODERATE 1442C>T Ala481Val
M0084370 ADPLFGJC_00003 4813 3 Skin 0.43 protein_coding synonymous_variant LOW 1531T>C Leu511Leu
M0084371 ADPLFGJC_00003 4839 3 Skin 0.43 protein_coding synonymous_variant LOW 1557T>C Val519Val
M0084372 ADPLFGJC_00004 5070 3 Skin 0.43 protein_coding synonymous_variant LOW 129T>C Pro43Pro
M0084373 ADPLFGJC_00004 5170 3 Skin 0.43 protein_coding missense_variant MODERATE 229T>C Phe77Leu
M0084374 ADPLFGJC_00004 5193 3 Skin 0.43 protein_coding synonymous_variant LOW 252G>C Ser84Ser
M0084375 ADPLFGJC_00005 6229 3 Skin 0.43 protein_coding synonymous_variant LOW 282T>C Ile94Ile
M0084376 ADPLFGJC_00005 6307 3 Skin 0.43 protein_coding synonymous_variant LOW 360T>C Ile120Ile
M0084377 ADPLFGJC_00005 6445 3 Skin 0.43 protein_coding synonymous_variant LOW 498T>C Ser166Ser
M0084378 ADPLFGJC_00005 6508 3 Skin 0.43 protein_coding synonymous_variant LOW 561C>T Ile187Ile
M0084379 ADPLFGJC_00006 6807 3 Skin 0.43 protein_coding synonymous_variant LOW 48C>T Ala16Ala
M0084380 ADPLFGJC_00006 6846 3 Skin 0.43 protein_coding synonymous_variant LOW 87A>G Glu29Glu
M0084381 ADPLFGJC_00006 6852 3 Skin 0.43 protein_coding missense_variant MODERATE 93A>C Lys31Asn
M0084382 ADPLFGJC_00006 7104 3 Skin 0.43 protein_coding synonymous_variant LOW 345G>C Gly115Gly
M0084383 ADPLFGJC_00006 7162 3 Skin 0.43 protein_coding synonymous_variant LOW 403C>T Leu135Leu
M0084384 ADPLFGJC_00006 7468 3 Skin 0.43 protein_coding missense_variant MODERATE 709A>G Ile237Val
M0084385 ADPLFGJC_00006 7470 3 Skin 0.43 protein_coding synonymous_variant LOW 711A>C Ile237Ile
M0084386 ADPLFGJC_00006 7476 3 Skin 0.43 protein_coding synonymous_variant LOW 717T>C Ala239Ala
M0084387 ADPLFGJC_00006 7506 3 Skin 0.43 protein_coding synonymous_variant LOW 747T>C Tyr249Tyr
M0084388 ADPLFGJC_00006 7509 3 Skin 0.43 protein_coding synonymous_variant LOW 750T>C Ser250Ser
M0084389 ADPLFGJC_00006 7573 4 Skin 0.57 protein_coding missense_variant MODERATE 814A>G Met272Val
M0084390 ADPLFGJC_00006 7596 3 Skin 0.43 protein_coding missense_variant MODERATE 837A>C Gln279His
M0084391 ADPLFGJC_00006 7673 4 Skin 0.57 protein_coding missense_variant MODERATE 914T>C Phe305Ser
M0084392 ADPLFGJC_00006 7689 4 Skin 0.57 protein_coding synonymous_variant LOW 930T>C Thr310Thr
M0084393 ADPLFGJC_00006 7820 3 Skin 0.43 protein_coding missense_variant MODERATE 1061A>G His354Arg
M0084394 ADPLFGJC_00006 7827 3 Skin 0.43 protein_coding synonymous_variant LOW 1068T>C Arg356Arg
M0084395 ADPLFGJC_00006 7943 4 Skin 0.57 protein_coding missense_variant MODERATE 1184G>A Arg395Lys
M0084396 ADPLFGJC_00006 8206 4 Skin 0.57 protein_coding synonymous_variant LOW 1447T>C Leu483Leu
M0084397 ADPLFGJC_00006 8238 4 Skin 0.57 protein_coding synonymous_variant LOW 1479C>T Val493Val
M0084398 ADPLFGJC_00006 8365 3 Skin 0.43 protein_coding synonymous_variant LOW 1606T>C Leu536Leu
M0084399 ADPLFGJC_00007 8435 4 Skin 0.57 protein_coding synonymous_variant LOW 24T>C Leu8Leu
M0084400 ADPLFGJC_00007 8590 4 Skin 0.57 protein_coding missense_variant MODERATE 179C>T Thr60Ile
M0084401 ADPLFGJC_00007 8596 4 Skin 0.57 protein_coding missense_variant MODERATE 185G>A Arg62Gln
M0084402 ADPLFGJC_00007 8628 3 Skin 0.43 protein_coding synonymous_variant LOW 217C>T Leu73Leu
M0084403 ADPLFGJC_00007 8636 3 Skin 0.43 protein_coding missense_variant MODERATE 225C>A Asp75Glu
M0084404 ADPLFGJC_00007 8717 4 Skin 0.57 protein_coding synonymous_variant LOW 306G>T Gly102Gly
M0084405 ADPLFGJC_00007 8804 3 Skin 0.43 protein_coding synonymous_variant LOW 393C>T Ala131Ala
M0084406 ADPLFGJC_00007 9005 5 Skin 0.71 protein_coding synonymous_variant LOW 594T>G Pro198Pro
M0084407 ADPLFGJC_00007 9056 3 Skin 0.43 protein_coding synonymous_variant LOW 645T>C Asp215Asp
M0084408 ADPLFGJC_00007 9065 5 Skin 0.71 protein_coding synonymous_variant LOW 654T>C Val218Val
M0084409 ADPLFGJC_00007 9068 4 Skin 0.57 protein_coding synonymous_variant LOW 657T>C Asn219Asn
M0084410 ADPLFGJC_00007 9254 6 Skin 0.86 protein_coding synonymous_variant LOW 843C>T Gly281Gly
M0084411 ADPLFGJC_00007 9497 3 Skin 0.43 protein_coding synonymous_variant LOW 1086G>T Ala362Ala
M0084412 ADPLFGJC_00007 9509 6 Skin 0.86 protein_coding synonymous_variant LOW 1098A>G Ala366Ala
M0084413 ADPLFGJC_00007 9524 5 Skin 0.71 protein_coding synonymous_variant LOW 1113A>G Glu371Glu
M0084414 ADPLFGJC_00007 9527 4 Skin 0.57 protein_coding synonymous_variant LOW 1116A>G Gln372Gln
M0084415 ADPLFGJC_00008 9637 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -55C>G None
M0084416 ADPLFGJC_00008 9647 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -45G>C None
M0084417 ADPLFGJC_00008 9649 6 Skin 0.86 protein_coding upstream_gene_variant MODIFIER -43G>C None
M0084418 ADPLFGJC_00008 9662 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -30G>C None
M0084419 ADPLFGJC_00008 9787 3 Skin 0.43 protein_coding synonymous_variant LOW 96C>T Gly32Gly
M0084420 ADPLFGJC_00008 9838 3 Skin 0.43 protein_coding synonymous_variant LOW 147A>G Gly49Gly
M0084421 ADPLFGJC_00008 9841 3 Skin 0.43 protein_coding synonymous_variant LOW 150G>T Arg50Arg
M0084422 ADPLFGJC_00008 9850 4 Skin 0.57 protein_coding synonymous_variant LOW 159A>G Ala53Ala
M0084423 ADPLFGJC_00008 9863 3 Skin 0.43 protein_coding missense_variant MODERATE 172G>T Ala58Ser
M0084424 ADPLFGJC_00008 9865 3 Skin 0.43 protein_coding synonymous_variant LOW 174G>A Ala58Ala
M0084425 ADPLFGJC_00008 9870 3 Skin 0.43 protein_coding missense_variant MODERATE 179C>T Ser60Phe
M0084426 ADPLFGJC_00008 9877 3 Skin 0.43 protein_coding synonymous_variant LOW 186T>C Thr62Thr
M0084427 ADPLFGJC_00008 9893 4 Skin 0.57 protein_coding missense_variant MODERATE 202C>T Leu68Phe
M0084428 ADPLFGJC_00008 9895 4 Skin 0.57 protein_coding synonymous_variant LOW 204C>G Leu68Leu
M0084429 ADPLFGJC_00008 9922 4 Skin 0.57 protein_coding synonymous_variant LOW 231G>A Lys77Lys
M0084430 ADPLFGJC_00008 10015 5 Skin 0.71 protein_coding synonymous_variant LOW 324T>C Arg108Arg
M0084431 ADPLFGJC_00008 10048 4 Skin 0.57 protein_coding synonymous_variant LOW 357A>T Ala119Ala
M0084432 ADPLFGJC_00008 10234 5 Skin 0.71 protein_coding synonymous_variant LOW 543C>T Ala181Ala
M0084433 ADPLFGJC_00008 10255 4 Skin 0.57 protein_coding synonymous_variant LOW 564G>T Pro188Pro
M0084434 ADPLFGJC_00008 10303 4 Skin 0.57 protein_coding synonymous_variant LOW 612A>G Pro204Pro
M0084435 ADPLFGJC_00008 10348 3 Skin 0.43 protein_coding synonymous_variant LOW 657C>T Pro219Pro
M0084436 ADPLFGJC_00009 10456 5 Skin 0.71 protein_coding upstream_gene_variant MODIFIER -6T>C None
M0084437 ADPLFGJC_00009 10814 4 Skin 0.57 protein_coding missense_variant MODERATE 353T>C Val118Ala
M0084438 ADPLFGJC_00009 10878 4 Skin 0.57 protein_coding synonymous_variant LOW 417T>C Ile139Ile
M0084439 ADPLFGJC_00009 10893 4 Skin 0.57 protein_coding synonymous_variant LOW 432A>C Thr144Thr
M0084440 ADPLFGJC_00009 10920 4 Skin 0.57 protein_coding synonymous_variant LOW 459T>G Ser153Ser
M0084441 ADPLFGJC_00009 11004 3 Skin 0.43 protein_coding synonymous_variant LOW 543T>C Tyr181Tyr
M0084442 ADPLFGJC_00009 11034 4 Skin 0.57 protein_coding synonymous_variant LOW 573T>C Ser191Ser
M0084443 ADPLFGJC_00009 11064 3 Skin 0.43 protein_coding synonymous_variant LOW 603A>G Glu201Glu
M0084444 ADPLFGJC_00009 11073 3 Skin 0.43 protein_coding synonymous_variant LOW 612C>T Leu204Leu
M0084445 ADPLFGJC_00009 11074 3 Skin 0.43 protein_coding synonymous_variant LOW 613C>T Leu205Leu
M0084446 ADPLFGJC_00009 11082 3 Skin 0.43 protein_coding synonymous_variant LOW 621C>G Val207Val
M0084447 ADPLFGJC_00009 11109 3 Skin 0.43 protein_coding synonymous_variant LOW 648T>C Phe216Phe
M0084448 ADPLFGJC_00002 2482 3 Skin 0.43 protein_coding missense_variant MODERATE 638C>T Thr213Ile
M0084449 ADPLFGJC_00002 2535 3 Skin 0.43 protein_coding synonymous_variant LOW 585C>T Ala195Ala
M0084450 ADPLFGJC_00003 3394 3 Skin 0.43 protein_coding missense_variant MODERATE 112G>A Val38Met
M0084451 ADPLFGJC_00003 3465 3 Skin 0.43 protein_coding synonymous_variant LOW 183G>T Gly61Gly
M0084452 ADPLFGJC_00003 4023 3 Skin 0.43 protein_coding synonymous_variant LOW 741T>C Leu247Leu
M0084453 ADPLFGJC_00003 4032 3 Skin 0.43 protein_coding synonymous_variant LOW 750G>A Glu250Glu
M0084454 ADPLFGJC_00003 4233 3 Skin 0.43 protein_coding synonymous_variant LOW 951T>C Ala317Ala
M0084455 ADPLFGJC_00006 7677 3 Skin 0.43 protein_coding synonymous_variant LOW 918G>A Val306Val
M0084456 ADPLFGJC_00007 8610 3 Skin 0.43 protein_coding missense_variant MODERATE 199A>G Thr67Ala
M0084457 ADPLFGJC_00007 8777 3 Skin 0.43 protein_coding synonymous_variant LOW 366A>G Ala122Ala
M0084458 ADPLFGJC_00007 8840 3 Skin 0.43 protein_coding synonymous_variant LOW 429A>G Gly143Gly
M0084459 ADPLFGJC_00007 8864 4 Skin 0.57 protein_coding synonymous_variant LOW 453T>C Ser151Ser
M0084460 ADPLFGJC_00007 9029 3 Skin 0.43 protein_coding synonymous_variant LOW 618A>G Thr206Thr
M0084461 ADPLFGJC_00007 9158 3 Skin 0.43 protein_coding synonymous_variant LOW 747T>C Arg249Arg
M0084462 ADPLFGJC_00008 9665 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -27A>G None
M0084463 ADPLFGJC_00008 9733 5 Skin 0.71 protein_coding synonymous_variant LOW 42A>G Glu14Glu
M0084464 ADPLFGJC_00008 9740 5 Skin 0.71 protein_coding missense_variant MODERATE 49A>G Thr17Ala
M0084465 ADPLFGJC_00007 9194 3 Skin 0.43 protein_coding synonymous_variant LOW 783C>T Asp261Asp
M0084466 ADPLFGJC_00007 9335 3 Skin 0.43 protein_coding synonymous_variant LOW 924C>T His308His
M0084467 ADPLFGJC_00008 9829 3 Skin 0.43 protein_coding synonymous_variant LOW 138T>C Tyr46Tyr
M0084468 ADPLFGJC_00008 9932 3 Skin 0.43 protein_coding synonymous_variant LOW 241C>T Leu81Leu
M0084469 ADPLFGJC_00008 9934 3 Skin 0.43 protein_coding synonymous_variant LOW 243A>G Leu81Leu
M0084470 ADPLFGJC_00008 9940 3 Skin 0.43 protein_coding synonymous_variant LOW 249C>T Arg83Arg
M0084471 ADPLFGJC_00008 9967 4 Skin 0.57 protein_coding synonymous_variant LOW 276G>A Ala92Ala
M0084472 ADPLFGJC_00008 9970 4 Skin 0.57 protein_coding synonymous_variant LOW 279A>G Arg93Arg
M0084473 ADPLFGJC_00008 10039 3 Skin 0.43 protein_coding synonymous_variant LOW 348C>T His116His
M0084474 ADPLFGJC_00008 10180 3 Skin 0.43 protein_coding synonymous_variant LOW 489A>T Ala163Ala
M0084475 ADPLFGJC_00008 10405 3 Skin 0.43 protein_coding synonymous_variant LOW 714G>A Lys238Lys
M0084476 ADPLFGJC_00009 10419 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -43A>G None
M0084477 ADPLFGJC_00009 10437 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -25G>A None
M0084478 ADPLFGJC_00009 10451 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -11G>A None
M0084479 ADPLFGJC_00009 10487 3 Skin 0.43 protein_coding missense_variant MODERATE 26A>C Asn9Thr
M0084480 ADPLFGJC_00009 10503 4 Skin 0.57 protein_coding synonymous_variant LOW 42G>A Lys14Lys
M0084481 ADPLFGJC_00009 10734 3 Skin 0.43 protein_coding synonymous_variant LOW 273G>T Leu91Leu
M0084482 ADPLFGJC_00009 10781 3 Skin 0.43 protein_coding missense_variant MODERATE 320A>C Asp107Ala
M0084483 ADPLFGJC_00009 10845 3 Skin 0.43 protein_coding synonymous_variant LOW 384G>A Leu128Leu
M0084484 ADPLFGJC_00009 10854 3 Skin 0.43 protein_coding synonymous_variant LOW 393T>C Ser131Ser
M0084485 ADPLFGJC_00009 10857 3 Skin 0.43 protein_coding missense_variant MODERATE 396G>T Glu132Asp
M0084486 ADPLFGJC_00009 10866 3 Skin 0.43 protein_coding synonymous_variant LOW 405C>T Phe135Phe
M0084487 ADPLFGJC_00009 10869 3 Skin 0.43 protein_coding synonymous_variant LOW 408C>G Ala136Ala
M0084488 ADPLFGJC_00009 10938 3 Skin 0.43 protein_coding synonymous_variant LOW 477A>G Val159Val
M0084489 ADPLFGJC_00008 10390 3 Skin 0.43 protein_coding synonymous_variant LOW 699A>G Glu233Glu
M0084490 ADPLFGJC_00008 10391 3 Skin 0.43 protein_coding synonymous_variant LOW 700C>T Leu234Leu






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