Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2014
  Reference Plasmid   1111525849736979_bin.18__k141_31798
  Reference Plasmid Size   6169
  Reference Plasmid GC Content   0.71
  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
M0022455 ALIGDCEL_00001 1861 8 Skin 0.29 protein_coding synonymous_variant LOW 900T>C Gly300Gly
M0022456 ALIGDCEL_00001 1925 16 Skin 0.57 protein_coding missense_variant MODERATE 836G>A Gly279Glu
M0022457 ALIGDCEL_00001 1966 4 Skin 0.14 protein_coding synonymous_variant LOW 795C>T Tyr265Tyr
M0022458 ALIGDCEL_00001 2164 8 Skin 0.29 protein_coding synonymous_variant LOW 597C>T Gly199Gly
M0022459 ALIGDCEL_00001 2392 12 Skin 0.43 protein_coding synonymous_variant LOW 369G>C Val123Val
M0022460 ALIGDCEL_00001 2551 16 Skin 0.57 protein_coding synonymous_variant LOW 210T>C Gly70Gly
M0022461 ALIGDCEL_00001 2653 10 Skin 0.36 protein_coding synonymous_variant LOW 108T>A Gly36Gly
M0022462 ALIGDCEL_00001 2792 11 Skin 0.39 protein_coding upstream_gene_variant MODIFIER -32C>G None
M0022463 ALIGDCEL_00001 2806 19 Skin 0.68 protein_coding upstream_gene_variant MODIFIER -46C>T None
M0022464 ALIGDCEL_00001 2821 20 Skin 0.71 protein_coding upstream_gene_variant MODIFIER -61T>C None
M0022465 ALIGDCEL_00001 2892 19 Skin 0.68 protein_coding upstream_gene_variant MODIFIER -132G>A None
M0022466 ALIGDCEL_00002 3100 10 Skin 0.36 protein_coding synonymous_variant LOW 102C>T Ala34Ala
M0022467 ALIGDCEL_00004 3901 9 Skin 0.32 protein_coding synonymous_variant LOW 1239C>G Ala413Ala
M0022468 ALIGDCEL_00004 4477 8 Skin 0.29 protein_coding synonymous_variant LOW 663A>G Ala221Ala
M0022469 ALIGDCEL_00004 4498 19 Skin 0.68 protein_coding synonymous_variant LOW 642G>C Leu214Leu
M0022470 ALIGDCEL_00004 5130 3 Skin 0.11 protein_coding missense_variant MODERATE 10C>G Gln4Glu
M0022471 ALIGDCEL_00005 5292 7 Skin 0.25 protein_coding synonymous_variant LOW 870C>T His290His
M0022472 ALIGDCEL_00005 5400 14 Skin 0.50 protein_coding synonymous_variant LOW 762G>C Thr254Thr
M0022473 ALIGDCEL_00001 1849 3 Skin 0.11 protein_coding synonymous_variant LOW 912C>T Gly304Gly
M0022474 ALIGDCEL_00001 1915 13 Skin 0.46 protein_coding synonymous_variant LOW 846C>G Thr282Thr
M0022475 ALIGDCEL_00001 2265 4 Skin 0.14 protein_coding missense_variant MODERATE 496G>T Ala166Ser
M0022476 ALIGDCEL_00001 2269 6 Skin 0.21 protein_coding synonymous_variant LOW 492C>G Gly164Gly
M0022477 ALIGDCEL_00001 2270 7 Skin 0.25 protein_coding missense_variant MODERATE 491G>C Gly164Ala
M0022478 ALIGDCEL_00001 2272 4 Skin 0.14 protein_coding synonymous_variant LOW 489C>T Gly163Gly
M0022479 ALIGDCEL_00001 2293 9 Skin 0.32 protein_coding synonymous_variant LOW 468C>G Ala156Ala
M0022480 ALIGDCEL_00001 2308 14 Skin 0.50 protein_coding synonymous_variant LOW 453T>C Gly151Gly
M0022481 ALIGDCEL_00001 2572 8 Skin 0.29 protein_coding synonymous_variant LOW 189G>C Val63Val
M0022482 ALIGDCEL_00001 2731 9 Skin 0.32 protein_coding synonymous_variant LOW 30G>T Arg10Arg
M0022483 ALIGDCEL_00001 2843 5 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -83C>G None
M0022484 ALIGDCEL_00002 2971 8 Skin 0.29 protein_coding synonymous_variant LOW 231G>C Arg77Arg
M0022485 ALIGDCEL_00001 3281 14 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -521C>G None
M0022486 ALIGDCEL_00001 3376 4 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -616T>C None
M0022487 ALIGDCEL_00003 3387 17 Skin 0.61 protein_coding synonymous_variant LOW 237G>C Arg79Arg
M0022488 ALIGDCEL_00003 3408 17 Skin 0.61 protein_coding synonymous_variant LOW 216T>C Ala72Ala
M0022489 ALIGDCEL_00003 3412 17 Skin 0.61 protein_coding missense_variant MODERATE 212G>A Gly71Glu
M0022490 ALIGDCEL_00003 3522 9 Skin 0.32 protein_coding synonymous_variant LOW 102C>T Gly34Gly
M0022491 ALIGDCEL_00004 3646 4 Skin 0.14 protein_coding synonymous_variant LOW 1494G>C Pro498Pro
M0022492 ALIGDCEL_00004 3727 3 Skin 0.11 protein_coding synonymous_variant LOW 1413C>G Pro471Pro
M0022493 ALIGDCEL_00004 3742 13 Skin 0.46 protein_coding synonymous_variant LOW 1398G>A Glu466Glu
M0022494 ALIGDCEL_00004 3919 5 Skin 0.18 protein_coding missense_variant MODERATE 1221C>G Asp407Glu
M0022495 ALIGDCEL_00004 4009 15 Skin 0.54 protein_coding synonymous_variant LOW 1131C>T Gly377Gly
M0022496 ALIGDCEL_00004 4105 18 Skin 0.64 protein_coding missense_variant MODERATE 1035G>C Glu345Asp
M0022497 ALIGDCEL_00004 4288 6 Skin 0.21 protein_coding synonymous_variant LOW 852G>A Ala284Ala
M0022498 ALIGDCEL_00004 4576 17 Skin 0.61 protein_coding synonymous_variant LOW 564G>C Arg188Arg
M0022499 ALIGDCEL_00004 4735 6 Skin 0.21 protein_coding synonymous_variant LOW 405C>G Arg135Arg
M0022500 ALIGDCEL_00004 4852 4 Skin 0.14 protein_coding synonymous_variant LOW 288C>T Arg96Arg
M0022501 ALIGDCEL_00005 5206 18 Skin 0.64 protein_coding missense_variant MODERATE 956C>T Ala319Val
M0022502 ALIGDCEL_00005 5430 12 Skin 0.43 protein_coding synonymous_variant LOW 732C>G Gly244Gly
M0022503 ALIGDCEL_00005 5505 17 Skin 0.61 protein_coding synonymous_variant LOW 657T>C Asp219Asp
M0022504 ALIGDCEL_00005 5605 11 Skin 0.39 protein_coding missense_variant MODERATE 557C>A Ala186Glu
M0022505 ALIGDCEL_00005 5613 10 Skin 0.36 protein_coding synonymous_variant LOW 549C>G Val183Val
M0022506 ALIGDCEL_00005 5652 14 Skin 0.50 protein_coding missense_variant MODERATE 510G>C Glu170Asp
M0022507 ALIGDCEL_00005 5673 10 Skin 0.36 protein_coding synonymous_variant LOW 489T>C Arg163Arg
M0022508 ALIGDCEL_00005 5775 12 Skin 0.43 protein_coding synonymous_variant LOW 387G>C Arg129Arg
M0022509 ALIGDCEL_00005 5806 9 Skin 0.32 protein_coding missense_variant MODERATE 356C>A Pro119His
M0022510 ALIGDCEL_00005 6011 5 Skin 0.18 protein_coding missense_variant MODERATE 151G>T Ala51Ser
M0022511 ALIGDCEL_00005 6100 3 Skin 0.11 protein_coding missense_variant MODERATE 62A>C Glu21Ala
M0022512 ALIGDCEL_00005 6126 5 Skin 0.18 protein_coding synonymous_variant LOW 36T>C Pro12Pro
M0022513 ALIGDCEL_00001 1336 5 Skin 0.18 protein_coding synonymous_variant LOW 1425C>T Gly475Gly
M0022514 ALIGDCEL_00001 1376 9 Skin 0.32 protein_coding missense_variant MODERATE 1385G>A Gly462Glu
M0022515 ALIGDCEL_00001 1396 5 Skin 0.18 protein_coding synonymous_variant LOW 1365G>C Arg455Arg
M0022516 ALIGDCEL_00001 1624 7 Skin 0.25 protein_coding synonymous_variant LOW 1137C>G Thr379Thr
M0022517 ALIGDCEL_00001 1798 8 Skin 0.29 protein_coding synonymous_variant LOW 963G>C Leu321Leu
M0022518 ALIGDCEL_00001 2317 4 Skin 0.14 protein_coding synonymous_variant LOW 444C>T Gly148Gly
M0022519 ALIGDCEL_00001 2674 8 Skin 0.29 protein_coding synonymous_variant LOW 87C>T Gly29Gly
M0022520 ALIGDCEL_00003 3405 4 Skin 0.14 protein_coding missense_variant MODERATE 219T>G Asp73Glu
M0022521 ALIGDCEL_00004 4708 6 Skin 0.21 protein_coding synonymous_variant LOW 432G>A Ala144Ala
M0022522 ALIGDCEL_00005 5481 3 Skin 0.11 protein_coding missense_variant MODERATE 681C>G Asp227Glu
M0022523 ALIGDCEL_00005 5545 6 Skin 0.21 protein_coding missense_variant MODERATE 617C>T Ala206Val
M0022524 ALIGDCEL_00005 5799 5 Skin 0.18 protein_coding synonymous_variant LOW 363T>C Gly121Gly
M0022525 ALIGDCEL_00004 3949 4 Skin 0.14 protein_coding synonymous_variant LOW 1191C>T Ala397Ala
M0022526 ALIGDCEL_00004 4801 3 Skin 0.11 protein_coding missense_variant MODERATE 339G>C Glu113Asp
M0022527 ALIGDCEL_00004 4962 5 Skin 0.18 protein_coding missense_variant MODERATE 178A>G Thr60Ala
M0022528 ALIGDCEL_00005 5433 5 Skin 0.18 protein_coding synonymous_variant LOW 729C>G Arg243Arg
M0022529 ALIGDCEL_00005 5499 4 Skin 0.14 protein_coding synonymous_variant LOW 663C>T His221His
M0022530 ALIGDCEL_00005 5811 4 Skin 0.14 protein_coding synonymous_variant LOW 351C>T Arg117Arg
M0022531 ALIGDCEL_00005 5823 5 Skin 0.18 protein_coding synonymous_variant LOW 339T>G Gly113Gly
M0022532 ALIGDCEL_00001 162 4 Skin 0.14 protein_coding downstream_gene_variant MODIFIER *43G>C None
M0022533 ALIGDCEL_00001 202 3 Skin 0.11 protein_coding downstream_gene_variant MODIFIER *3C>T None
M0022534 ALIGDCEL_00001 209 4 Skin 0.14 protein_coding missense_variant MODERATE 2552C>T Ala851Val
M0022535 ALIGDCEL_00001 246 5 Skin 0.18 protein_coding missense_variant MODERATE 2515C>T Pro839Ser
M0022536 ALIGDCEL_00001 268 4 Skin 0.14 protein_coding synonymous_variant LOW 2493T>C Gly831Gly
M0022537 ALIGDCEL_00001 300 4 Skin 0.14 protein_coding missense_variant MODERATE 2461A>G Thr821Ala
M0022538 ALIGDCEL_00001 336 6 Skin 0.21 protein_coding missense_variant MODERATE 2425A>G Thr809Ala
M0022539 ALIGDCEL_00001 370 5 Skin 0.18 protein_coding synonymous_variant LOW 2391T>C Gly797Gly
M0022540 ALIGDCEL_00001 535 9 Skin 0.32 protein_coding synonymous_variant LOW 2226T>C Arg742Arg
M0022541 ALIGDCEL_00001 543 6 Skin 0.21 protein_coding missense_variant MODERATE 2218G>A Val740Ile
M0022542 ALIGDCEL_00001 561 8 Skin 0.29 protein_coding missense_variant MODERATE 2200C>G Gln734Glu
M0022543 ALIGDCEL_00001 847 9 Skin 0.32 protein_coding synonymous_variant LOW 1914G>C Leu638Leu
M0022544 ALIGDCEL_00001 961 7 Skin 0.25 protein_coding synonymous_variant LOW 1800C>T Gly600Gly
M0022545 ALIGDCEL_00001 1177 6 Skin 0.21 protein_coding synonymous_variant LOW 1584C>G Ala528Ala
M0022546 ALIGDCEL_00001 2290 7 Skin 0.25 protein_coding synonymous_variant LOW 471C>T Gly157Gly
M0022547 ALIGDCEL_00001 3287 10 Skin 0.36 protein_coding upstream_gene_variant MODIFIER -527A>G None
M0022548 ALIGDCEL_00003 3416 4 Skin 0.14 protein_coding missense_variant MODERATE 208C>A Pro70Thr
M0022549 ALIGDCEL_00003 3420 6 Skin 0.21 protein_coding synonymous_variant LOW 204A>C Gly68Gly
M0022550 ALIGDCEL_00003 3477 3 Skin 0.11 protein_coding synonymous_variant LOW 147G>C Arg49Arg
M0022551 ALIGDCEL_00004 4258 3 Skin 0.11 protein_coding synonymous_variant LOW 882C>G Arg294Arg
M0022552 ALIGDCEL_00005 5731 3 Skin 0.11 protein_coding missense_variant MODERATE 431G>A Arg144His
M0022553 ALIGDCEL_00005 5741 5 Skin 0.18 protein_coding synonymous_variant LOW 421C>A Arg141Arg
M0022554 ALIGDCEL_00001 439 5 Skin 0.18 protein_coding synonymous_variant LOW 2322T>C Gly774Gly
M0022555 ALIGDCEL_00001 475 5 Skin 0.18 protein_coding synonymous_variant LOW 2286G>A Glu762Glu
M0022556 ALIGDCEL_00001 610 3 Skin 0.11 protein_coding synonymous_variant LOW 2151T>C Arg717Arg
M0022557 ALIGDCEL_00001 1804 4 Skin 0.14 protein_coding synonymous_variant LOW 957T>C Gly319Gly
M0022558 ALIGDCEL_00001 1807 4 Skin 0.14 protein_coding synonymous_variant LOW 954C>G Arg318Arg
M0022559 ALIGDCEL_00001 1942 3 Skin 0.11 protein_coding synonymous_variant LOW 819G>C Leu273Leu
M0022560 ALIGDCEL_00001 138 3 Skin 0.11 protein_coding downstream_gene_variant MODIFIER *67T>C None
M0022561 ALIGDCEL_00001 1333 3 Skin 0.11 protein_coding synonymous_variant LOW 1428G>C Ala476Ala
M0022562 ALIGDCEL_00004 5068 3 Skin 0.11 protein_coding synonymous_variant LOW 72T>C Arg24Arg
M0022563 ALIGDCEL_00005 5631 3 Skin 0.11 protein_coding synonymous_variant LOW 531G>T Pro177Pro
M0022564 ALIGDCEL_00004 4091 3 Skin 0.11 protein_coding missense_variant MODERATE 1049C>T Thr350Met
M0022565 ALIGDCEL_00004 3778 8 Skin 0.29 protein_coding synonymous_variant LOW 1362C>G Ala454Ala
M0022566 ALIGDCEL_00001 3373 3 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -613C>T None
M0022567 ALIGDCEL_00003 3617 3 Skin 0.11 protein_coding missense_variant MODERATE 7G>C Asp3His
M0022568 ALIGDCEL_00004 4090 3 Skin 0.11 protein_coding synonymous_variant LOW 1050G>C Thr350Thr
M0022569 ALIGDCEL_00001 190 3 Skin 0.11 protein_coding downstream_gene_variant MODIFIER *15C>T None
M0022570 ALIGDCEL_00004 5044 3 Skin 0.11 protein_coding synonymous_variant LOW 96C>T Arg32Arg
M0022571 ALIGDCEL_00001 1645 3 Skin 0.11 protein_coding synonymous_variant LOW 1116G>A Ala372Ala
M0022572 ALIGDCEL_00001 1213 3 Skin 0.11 protein_coding missense_variant MODERATE 1548G>C Glu516Asp






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
ALIGDCEL_00001 ARO:3004957 73.7 0 1 836 0.9871 0.9906 pyrazine antibiotic pyrazinamide resistant clpC1 antibiotic target alteration






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