Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C559
  Reference Plasmid   NZ_CP031162.1
  Reference Plasmid Size   31268
  Reference Plasmid GC Content   0.60
  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
M0094349 EPIMKJAF_00039 30374 6 Skin 0.16 protein_coding missense_variant MODERATE 812G>A Arg271Lys
M0094350 EPIMKJAF_00039 30840 8 Skin 0.21 protein_coding missense_variant MODERATE 346T>G Phe116Val
M0094351 EPIMKJAF_00005 3024 10 Skin 0.26 protein_coding synonymous_variant LOW 2362C>T Leu788Leu
M0094352 EPIMKJAF_00005 3031 13 Skin 0.34 protein_coding synonymous_variant LOW 2355G>A Leu785Leu
M0094353 EPIMKJAF_00005 3054 12 Skin 0.32 protein_coding missense_variant MODERATE 2332C>G Leu778Val
M0094354 EPIMKJAF_00005 3175 11 Skin 0.29 protein_coding synonymous_variant LOW 2211C>G Val737Val
M0094355 EPIMKJAF_00005 3184 6 Skin 0.16 protein_coding synonymous_variant LOW 2202G>C Ser734Ser
M0094356 EPIMKJAF_00005 3192 7 Skin 0.18 protein_coding missense_variant MODERATE 2194G>C Glu732Gln
M0094357 EPIMKJAF_00005 3196 7 Skin 0.18 protein_coding synonymous_variant LOW 2190C>G Leu730Leu
M0094358 EPIMKJAF_00005 3199 7 Skin 0.18 protein_coding synonymous_variant LOW 2187A>G Glu729Glu
M0094359 EPIMKJAF_00005 3212 7 Skin 0.18 protein_coding missense_variant MODERATE 2174C>T Thr725Ile
M0094360 EPIMKJAF_00005 4256 14 Skin 0.37 protein_coding missense_variant MODERATE 1130A>G Glu377Gly
M0094361 EPIMKJAF_00005 4860 4 Skin 0.11 protein_coding missense_variant MODERATE 526G>A Glu176Lys
M0094362 EPIMKJAF_00006 5546 8 Skin 0.21 protein_coding synonymous_variant LOW 408G>C Leu136Leu
M0094363 EPIMKJAF_00006 5861 3 Skin 0.08 protein_coding synonymous_variant LOW 93G>A Glu31Glu
M0094364 EPIMKJAF_00003 2243 6 Skin 0.16 protein_coding missense_variant MODERATE 11T>C Met4Thr
M0094365 EPIMKJAF_00004 2273 6 Skin 0.16 protein_coding missense_variant MODERATE 610G>C Asp204His
M0094366 EPIMKJAF_00004 2280 6 Skin 0.16 protein_coding synonymous_variant LOW 603T>G Ala201Ala
M0094367 EPIMKJAF_00004 2301 6 Skin 0.16 protein_coding synonymous_variant LOW 582T>C Ile194Ile
M0094368 EPIMKJAF_00004 2375 3 Skin 0.08 protein_coding synonymous_variant LOW 508T>C Leu170Leu
M0094369 EPIMKJAF_00004 2652 19 Skin 0.50 protein_coding synonymous_variant LOW 231T>C Ile77Ile
M0094370 EPIMKJAF_00004 2482 6 Skin 0.16 protein_coding missense_variant MODERATE 401G>A Arg134Lys
M0094371 EPIMKJAF_00004 2484 6 Skin 0.16 protein_coding synonymous_variant LOW 399C>G Leu133Leu
M0094372 EPIMKJAF_00004 2487 6 Skin 0.16 protein_coding missense_variant MODERATE 396G>C Leu132Phe
M0094373 EPIMKJAF_00004 2489 6 Skin 0.16 protein_coding synonymous_variant LOW 394T>C Leu132Leu
M0094374 EPIMKJAF_00004 2490 6 Skin 0.16 protein_coding synonymous_variant LOW 393G>C Arg131Arg
M0094375 EPIMKJAF_00004 2491 6 Skin 0.16 protein_coding missense_variant MODERATE 392G>A Arg131Gln
M0094376 EPIMKJAF_00004 2505 4 Skin 0.11 protein_coding synonymous_variant LOW 378C>T Asn126Asn
M0094377 EPIMKJAF_00004 2511 5 Skin 0.13 protein_coding synonymous_variant LOW 372G>C Ala124Ala
M0094378 EPIMKJAF_00004 2514 5 Skin 0.13 protein_coding synonymous_variant LOW 369G>A Ala123Ala
M0094379 EPIMKJAF_00004 2520 5 Skin 0.13 protein_coding synonymous_variant LOW 363C>G Val121Val
M0094380 EPIMKJAF_00004 2526 5 Skin 0.13 protein_coding synonymous_variant LOW 357C>G Ala119Ala
M0094381 EPIMKJAF_00004 2531 5 Skin 0.13 protein_coding missense_variant MODERATE 352G>A Val118Met
M0094382 EPIMKJAF_00005 4309 5 Skin 0.13 protein_coding synonymous_variant LOW 1077C>G Val359Val
M0094383 EPIMKJAF_00005 4312 5 Skin 0.13 protein_coding synonymous_variant LOW 1074G>C Pro358Pro
M0094384 EPIMKJAF_00005 4314 5 Skin 0.13 protein_coding missense_variant MODERATE 1072C>A Pro358Thr
M0094385 EPIMKJAF_00005 4315 5 Skin 0.13 protein_coding synonymous_variant LOW 1071T>C Asp357Asp
M0094386 EPIMKJAF_00005 4323 7 Skin 0.18 protein_coding missense_variant MODERATE 1063C>G Pro355Ala
M0094387 EPIMKJAF_00005 4326 6 Skin 0.16 protein_coding missense_variant MODERATE 1060C>A Arg354Ser
M0094388 EPIMKJAF_00005 4339 5 Skin 0.13 protein_coding synonymous_variant LOW 1047G>C Val349Val
M0094389 EPIMKJAF_00005 4351 5 Skin 0.13 protein_coding synonymous_variant LOW 1035C>G Thr345Thr
M0094390 EPIMKJAF_00005 4621 3 Skin 0.08 protein_coding synonymous_variant LOW 765G>T Gly255Gly
M0094391 EPIMKJAF_00006 5821 9 Skin 0.24 protein_coding missense_variant MODERATE 133G>A Ala45Thr
M0094392 EPIMKJAF_00005 5179 3 Skin 0.08 protein_coding synonymous_variant LOW 207T>C Arg69Arg
M0094393 EPIMKJAF_00005 5185 3 Skin 0.08 protein_coding synonymous_variant LOW 201G>C Thr67Thr
M0094394 EPIMKJAF_00005 5263 8 Skin 0.21 protein_coding synonymous_variant LOW 123C>A Pro41Pro
M0094395 EPIMKJAF_00005 5266 8 Skin 0.21 protein_coding synonymous_variant LOW 120G>T Ala40Ala
M0094396 EPIMKJAF_00002 1822 3 Skin 0.08 protein_coding missense_variant MODERATE 130C>G Leu44Val
M0094397 EPIMKJAF_00005 5030 3 Skin 0.08 protein_coding missense_variant MODERATE 356A>G Lys119Arg
M0094398 EPIMKJAF_00005 5038 3 Skin 0.08 protein_coding missense_variant MODERATE 348T>A Ser116Arg
M0094399 EPIMKJAF_00005 5040 3 Skin 0.08 protein_coding missense_variant MODERATE 346A>G Ser116Gly
M0094400 EPIMKJAF_00005 5041 3 Skin 0.08 protein_coding synonymous_variant LOW 345C>A Val115Val
M0094401 EPIMKJAF_00005 5044 3 Skin 0.08 protein_coding synonymous_variant LOW 342C>A Gly114Gly
M0094402 EPIMKJAF_00005 5047 3 Skin 0.08 protein_coding synonymous_variant LOW 339G>T Pro113Pro
M0094403 EPIMKJAF_00005 5049 3 Skin 0.08 protein_coding missense_variant MODERATE 337C>G Pro113Ala
M0094404 EPIMKJAF_00005 5053 3 Skin 0.08 protein_coding synonymous_variant LOW 333A>C Arg111Arg
M0094405 EPIMKJAF_00005 5056 3 Skin 0.08 protein_coding synonymous_variant LOW 330G>T Thr110Thr
M0094406 EPIMKJAF_00005 5059 3 Skin 0.08 protein_coding synonymous_variant LOW 327C>G Val109Val
M0094407 EPIMKJAF_00005 5062 3 Skin 0.08 protein_coding synonymous_variant LOW 324C>G Val108Val
M0094408 EPIMKJAF_00005 5071 6 Skin 0.16 protein_coding synonymous_variant LOW 315T>G Val105Val
M0094409 EPIMKJAF_00005 5326 3 Skin 0.08 protein_coding synonymous_variant LOW 60T>C Asp20Asp
M0094410 EPIMKJAF_00006 5537 3 Skin 0.08 protein_coding synonymous_variant LOW 417T>G Val139Val
M0094411 EPIMKJAF_00003 2011 4 Skin 0.11 protein_coding synonymous_variant LOW 243C>T Phe81Phe
M0094412 EPIMKJAF_00003 2014 4 Skin 0.11 protein_coding synonymous_variant LOW 240G>C Ala80Ala
M0094413 EPIMKJAF_00003 2018 4 Skin 0.11 protein_coding missense_variant MODERATE 236A>G Gln79Arg
M0094414 EPIMKJAF_00003 2033 3 Skin 0.08 protein_coding missense_variant MODERATE 221T>C Val74Ala
M0094415 EPIMKJAF_00003 2034 3 Skin 0.08 protein_coding missense_variant MODERATE 220G>A Val74Ile
M0094416 EPIMKJAF_00003 2038 3 Skin 0.08 protein_coding synonymous_variant LOW 216A>G Pro72Pro
M0094417 EPIMKJAF_00004 2772 5 Skin 0.13 protein_coding synonymous_variant LOW 111T>G Ala37Ala
M0094418 EPIMKJAF_00004 2778 4 Skin 0.11 protein_coding synonymous_variant LOW 105T>C Ser35Ser
M0094419 EPIMKJAF_00004 2780 4 Skin 0.11 protein_coding missense_variant MODERATE 103T>G Ser35Ala
M0094420 EPIMKJAF_00004 2787 3 Skin 0.08 protein_coding synonymous_variant LOW 96T>C Leu32Leu
M0094421 EPIMKJAF_00004 2799 3 Skin 0.08 protein_coding synonymous_variant LOW 84C>G Leu28Leu
M0094422 EPIMKJAF_00004 2802 3 Skin 0.08 protein_coding synonymous_variant LOW 81G>C Val27Val
M0094423 EPIMKJAF_00004 2814 3 Skin 0.08 protein_coding synonymous_variant LOW 69T>C Ile23Ile
M0094424 EPIMKJAF_00004 2817 3 Skin 0.08 protein_coding synonymous_variant LOW 66G>C Arg22Arg
M0094425 EPIMKJAF_00004 2826 3 Skin 0.08 protein_coding synonymous_variant LOW 57A>C Ala19Ala
M0094426 EPIMKJAF_00004 2829 3 Skin 0.08 protein_coding synonymous_variant LOW 54C>G Ala18Ala
M0094427 EPIMKJAF_00004 2836 3 Skin 0.08 protein_coding missense_variant MODERATE 47G>A Ser16Asn
M0094428 EPIMKJAF_00005 5121 3 Skin 0.08 protein_coding synonymous_variant LOW 265C>T Leu89Leu






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
EPIMKJAF_00004 2.A.4.4.7 79.1 4.1e-78 7 202 0.9378 0.9289 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.4 The Cation Diffusion Facilitator (CDF) Family