Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2731
  Reference Plasmid   1111525849861727_bin.16__k141_78565
  Reference Plasmid Size   5030
  Reference Plasmid GC Content   0.36
  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
M0132279 IGKAMJOK_00003 2789 7 Oral 0.88 protein_coding synonymous_variant LOW 936C>T His312His
M0132280 IGKAMJOK_00003 2918 6 Oral 0.75 protein_coding synonymous_variant LOW 807T>C Asn269Asn
M0132281 IGKAMJOK_00003 2978 4 Oral 0.50 protein_coding synonymous_variant LOW 747T>C Asp249Asp
M0132282 IGKAMJOK_00003 3008 3 Oral 0.38 protein_coding synonymous_variant LOW 717T>C Asp239Asp
M0132283 IGKAMJOK_00003 3431 7 Oral 0.88 protein_coding synonymous_variant LOW 294T>C Ala98Ala
M0132284 IGKAMJOK_00003 3617 7 Oral 0.88 protein_coding synonymous_variant LOW 108C>T Ile36Ile
M0132285 IGKAMJOK_00003 3638 7 Oral 0.88 protein_coding synonymous_variant LOW 87T>A Val29Val
M0132286 IGKAMJOK_00003 3656 7 Oral 0.88 protein_coding synonymous_variant LOW 69G>A Gly23Gly
M0132287 IGKAMJOK_00004 3997 6 Oral 0.75 protein_coding synonymous_variant LOW 996A>G Glu332Glu
M0132288 IGKAMJOK_00004 4063 6 Oral 0.75 protein_coding synonymous_variant LOW 930G>T Leu310Leu
M0132289 IGKAMJOK_00004 4075 6 Oral 0.75 protein_coding synonymous_variant LOW 918T>C Ile306Ile
M0132290 IGKAMJOK_00004 4108 6 Oral 0.75 protein_coding synonymous_variant LOW 885G>A Thr295Thr
M0132291 IGKAMJOK_00004 4127 4 Oral 0.50 protein_coding missense_variant MODERATE 866T>C Val289Ala
M0132292 IGKAMJOK_00004 4132 6 Oral 0.75 protein_coding synonymous_variant LOW 861T>C Pro287Pro
M0132293 IGKAMJOK_00004 4150 4 Oral 0.50 protein_coding synonymous_variant LOW 843C>T Ala281Ala
M0132294 IGKAMJOK_00004 4274 6 Oral 0.75 protein_coding missense_variant MODERATE 719A>T Gln240Leu
M0132295 IGKAMJOK_00004 4318 3 Oral 0.38 protein_coding synonymous_variant LOW 675T>C Asp225Asp
M0132296 IGKAMJOK_00004 4331 6 Oral 0.75 protein_coding missense_variant MODERATE 662T>C Val221Ala
M0132297 IGKAMJOK_00004 4339 6 Oral 0.75 protein_coding synonymous_variant LOW 654A>G Leu218Leu
M0132298 IGKAMJOK_00004 4362 6 Oral 0.75 protein_coding missense_variant MODERATE 631T>A Phe211Ile
M0132299 IGKAMJOK_00004 4417 5 Oral 0.63 protein_coding synonymous_variant LOW 576A>G Glu192Glu
M0132300 IGKAMJOK_00004 4435 5 Oral 0.63 protein_coding synonymous_variant LOW 558T>C Arg186Arg
M0132301 IGKAMJOK_00004 4441 6 Oral 0.75 protein_coding synonymous_variant LOW 552T>C Ser184Ser
M0132302 IGKAMJOK_00004 4448 6 Oral 0.75 protein_coding missense_variant MODERATE 545A>G Asp182Gly
M0132303 IGKAMJOK_00004 4485 4 Oral 0.50 protein_coding missense_variant MODERATE 508A>G Thr170Ala
M0132304 IGKAMJOK_00004 4509 6 Oral 0.75 protein_coding synonymous_variant LOW 484T>C Leu162Leu
M0132305 IGKAMJOK_00004 4514 6 Oral 0.75 protein_coding missense_variant MODERATE 479T>G Ile160Ser
M0132306 IGKAMJOK_00004 4561 3 Oral 0.38 protein_coding synonymous_variant LOW 432C>T Tyr144Tyr
M0132307 IGKAMJOK_00004 4562 4 Oral 0.50 protein_coding missense_variant MODERATE 431A>G Tyr144Cys
M0132308 IGKAMJOK_00004 4564 4 Oral 0.50 protein_coding synonymous_variant LOW 429A>T Leu143Leu
M0132309 IGKAMJOK_00004 4592 4 Oral 0.50 protein_coding missense_variant MODERATE 401A>G Tyr134Cys
M0132310 IGKAMJOK_00004 4594 3 Oral 0.38 protein_coding synonymous_variant LOW 399C>T Ile133Ile
M0132311 IGKAMJOK_00004 4605 3 Oral 0.38 protein_coding missense_variant MODERATE 388G>A Ala130Thr
M0132312 IGKAMJOK_00004 4617 3 Oral 0.38 protein_coding missense_variant MODERATE 376A>T Ser126Cys
M0132313 IGKAMJOK_00004 4626 3 Oral 0.38 protein_coding missense_variant MODERATE 367G>A Val123Ile
M0132314 IGKAMJOK_00004 4641 4 Oral 0.50 protein_coding missense_variant MODERATE 352G>A Val118Ile
M0132315 IGKAMJOK_00004 4653 4 Oral 0.50 protein_coding missense_variant MODERATE 340A>G Thr114Ala
M0132316 IGKAMJOK_00004 4661 4 Oral 0.50 protein_coding missense_variant MODERATE 332T>G Ile111Ser
M0132317 IGKAMJOK_00004 4692 4 Oral 0.50 protein_coding missense_variant MODERATE 301A>G Ser101Gly
M0132318 IGKAMJOK_00004 4756 4 Oral 0.50 protein_coding synonymous_variant LOW 237T>C Asn79Asn
M0132319 IGKAMJOK_00004 4809 4 Oral 0.50 protein_coding missense_variant MODERATE 184G>T Val62Leu
M0132320 IGKAMJOK_00004 4846 4 Oral 0.50 protein_coding synonymous_variant LOW 147T>C Ile49Ile
M0132321 IGKAMJOK_00004 4898 3 Oral 0.38 protein_coding missense_variant MODERATE 95C>T Ala32Val
M0132322 IGKAMJOK_00004 4899 3 Oral 0.38 protein_coding missense_variant MODERATE 94G>C Ala32Pro
M0132323 IGKAMJOK_00004 4906 3 Oral 0.38 protein_coding synonymous_variant LOW 87G>A Gln29Gln
M0132324 IGKAMJOK_00004 4912 3 Oral 0.38 protein_coding synonymous_variant LOW 81C>A Ile27Ile
M0132325 IGKAMJOK_00004 4915 3 Oral 0.38 protein_coding missense_variant MODERATE 78A>T Leu26Phe
M0132326 IGKAMJOK_00002 1390 6 Oral 0.75 protein_coding synonymous_variant LOW 879G>A Glu293Glu
M0132327 IGKAMJOK_00002 1492 7 Oral 0.88 protein_coding missense_variant MODERATE 777C>A His259Gln
M0132328 IGKAMJOK_00002 1507 5 Oral 0.63 protein_coding synonymous_variant LOW 762C>T Gly254Gly
M0132329 IGKAMJOK_00002 1702 7 Oral 0.88 protein_coding synonymous_variant LOW 567C>T Asp189Asp
M0132330 IGKAMJOK_00002 1705 7 Oral 0.88 protein_coding synonymous_variant LOW 564T>C Cys188Cys
M0132331 IGKAMJOK_00002 1888 7 Oral 0.88 protein_coding synonymous_variant LOW 381T>A Thr127Thr
M0132332 IGKAMJOK_00002 1897 4 Oral 0.50 protein_coding synonymous_variant LOW 372G>A Gln124Gln
M0132333 IGKAMJOK_00002 1900 7 Oral 0.88 protein_coding synonymous_variant LOW 369A>G Gly123Gly
M0132334 IGKAMJOK_00002 1981 4 Oral 0.50 protein_coding synonymous_variant LOW 288G>A Ser96Ser
M0132335 IGKAMJOK_00002 1993 4 Oral 0.50 protein_coding synonymous_variant LOW 276A>T Thr92Thr
M0132336 IGKAMJOK_00002 2008 7 Oral 0.88 protein_coding synonymous_variant LOW 261C>T Val87Val
M0132337 IGKAMJOK_00002 2074 6 Oral 0.75 protein_coding synonymous_variant LOW 195T>A Ala65Ala
M0132338 IGKAMJOK_00002 2080 4 Oral 0.50 protein_coding synonymous_variant LOW 189T>C Asp63Asp
M0132339 IGKAMJOK_00003 2315 6 Oral 0.75 protein_coding synonymous_variant LOW 1410G>A Glu470Glu
M0132340 IGKAMJOK_00003 2351 5 Oral 0.63 protein_coding synonymous_variant LOW 1374T>A Pro458Pro
M0132341 IGKAMJOK_00003 2372 3 Oral 0.38 protein_coding synonymous_variant LOW 1353G>A Val451Val
M0132342 IGKAMJOK_00003 2420 5 Oral 0.63 protein_coding synonymous_variant LOW 1305A>G Gln435Gln
M0132343 IGKAMJOK_00003 2459 4 Oral 0.50 protein_coding synonymous_variant LOW 1266T>A Pro422Pro
M0132344 IGKAMJOK_00003 2477 6 Oral 0.75 protein_coding synonymous_variant LOW 1248C>T Thr416Thr
M0132345 IGKAMJOK_00003 2552 6 Oral 0.75 protein_coding synonymous_variant LOW 1173T>C Ile391Ile
M0132346 IGKAMJOK_00003 2567 5 Oral 0.63 protein_coding synonymous_variant LOW 1158G>A Leu386Leu
M0132347 IGKAMJOK_00003 2675 3 Oral 0.38 protein_coding synonymous_variant LOW 1050C>T Val350Val
M0132348 IGKAMJOK_00003 2684 5 Oral 0.63 protein_coding synonymous_variant LOW 1041A>G Ala347Ala
M0132349 IGKAMJOK_00003 2717 6 Oral 0.75 protein_coding synonymous_variant LOW 1008T>A Thr336Thr
M0132350 IGKAMJOK_00003 2731 6 Oral 0.75 protein_coding synonymous_variant LOW 994C>T Leu332Leu
M0132351 IGKAMJOK_00003 2837 4 Oral 0.50 protein_coding synonymous_variant LOW 888A>G Lys296Lys
M0132352 IGKAMJOK_00003 2897 3 Oral 0.38 protein_coding synonymous_variant LOW 828T>A Pro276Pro
M0132353 IGKAMJOK_00003 2900 5 Oral 0.63 protein_coding synonymous_variant LOW 825A>G Leu275Leu
M0132354 IGKAMJOK_00003 3125 3 Oral 0.38 protein_coding synonymous_variant LOW 600C>T Asn200Asn
M0132355 IGKAMJOK_00003 3224 4 Oral 0.50 protein_coding synonymous_variant LOW 501G>A Gly167Gly
M0132356 IGKAMJOK_00003 3377 3 Oral 0.38 protein_coding synonymous_variant LOW 348T>A Pro116Pro
M0132357 IGKAMJOK_00003 3643 4 Oral 0.50 protein_coding synonymous_variant LOW 82C>A Arg28Arg
M0132358 IGKAMJOK_00004 3757 5 Oral 0.63 protein_coding synonymous_variant LOW 1236C>G Gly412Gly
M0132359 IGKAMJOK_00004 3841 4 Oral 0.50 protein_coding synonymous_variant LOW 1152A>C Gly384Gly
M0132360 IGKAMJOK_00004 3952 3 Oral 0.38 protein_coding synonymous_variant LOW 1041T>C Tyr347Tyr
M0132361 IGKAMJOK_00004 3994 3 Oral 0.38 protein_coding synonymous_variant LOW 999A>G Leu333Leu
M0132362 IGKAMJOK_00004 4081 4 Oral 0.50 protein_coding synonymous_variant LOW 912T>C Phe304Phe
M0132363 IGKAMJOK_00004 4152 3 Oral 0.38 protein_coding missense_variant MODERATE 841G>A Ala281Thr
M0132364 IGKAMJOK_00004 4210 3 Oral 0.38 protein_coding synonymous_variant LOW 783A>G Val261Val
M0132365 IGKAMJOK_00004 4234 3 Oral 0.38 protein_coding synonymous_variant LOW 759G>A Gln253Gln
M0132366 IGKAMJOK_00004 4313 3 Oral 0.38 protein_coding missense_variant MODERATE 680C>T Ala227Val
M0132367 IGKAMJOK_00004 4317 4 Oral 0.50 protein_coding missense_variant MODERATE 676G>A Ala226Thr
M0132368 IGKAMJOK_00004 4360 3 Oral 0.38 protein_coding missense_variant MODERATE 633T>A Phe211Leu
M0132369 IGKAMJOK_00001 512 4 Oral 0.50 protein_coding synonymous_variant LOW 492T>A Pro164Pro
M0132370 IGKAMJOK_00001 548 4 Oral 0.50 protein_coding synonymous_variant LOW 456T>C His152His
M0132371 IGKAMJOK_00001 601 4 Oral 0.50 protein_coding missense_variant MODERATE 403A>G Ile135Val
M0132372 IGKAMJOK_00001 704 4 Oral 0.50 protein_coding synonymous_variant LOW 300A>G Glu100Glu
M0132373 IGKAMJOK_00001 725 3 Oral 0.38 protein_coding synonymous_variant LOW 279T>C Arg93Arg
M0132374 IGKAMJOK_00001 728 3 Oral 0.38 protein_coding synonymous_variant LOW 276C>T Asp92Asp
M0132375 IGKAMJOK_00001 791 3 Oral 0.38 protein_coding synonymous_variant LOW 213T>A Ser71Ser
M0132376 IGKAMJOK_00001 800 3 Oral 0.38 protein_coding missense_variant MODERATE 204T>A Asp68Glu
M0132377 IGKAMJOK_00001 843 3 Oral 0.38 protein_coding missense_variant MODERATE 161G>A Arg54Lys
M0132378 IGKAMJOK_00001 918 4 Oral 0.50 protein_coding missense_variant MODERATE 86T>A Phe29Tyr
M0132379 IGKAMJOK_00001 930 4 Oral 0.50 protein_coding missense_variant MODERATE 74A>C Asn25Thr
M0132380 IGKAMJOK_00001 1127 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -124G>T None
M0132381 IGKAMJOK_00001 1128 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -125A>G None
M0132382 IGKAMJOK_00001 1145 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -142G>A None
M0132383 IGKAMJOK_00002 1378 5 Oral 0.63 protein_coding synonymous_variant LOW 891A>G Gln297Gln
M0132384 IGKAMJOK_00002 1384 3 Oral 0.38 protein_coding synonymous_variant LOW 885A>C Gly295Gly
M0132385 IGKAMJOK_00002 1393 3 Oral 0.38 protein_coding synonymous_variant LOW 876T>C Tyr292Tyr
M0132386 IGKAMJOK_00002 1401 3 Oral 0.38 protein_coding missense_variant MODERATE 868C>T His290Tyr
M0132387 IGKAMJOK_00002 1435 3 Oral 0.38 protein_coding synonymous_variant LOW 834T>C Asn278Asn
M0132388 IGKAMJOK_00002 1477 3 Oral 0.38 protein_coding synonymous_variant LOW 792T>C Asn264Asn
M0132389 IGKAMJOK_00002 1537 3 Oral 0.38 protein_coding synonymous_variant LOW 732A>G Glu244Glu
M0132390 IGKAMJOK_00002 1624 3 Oral 0.38 protein_coding missense_variant MODERATE 645C>G Asp215Glu
M0132391 IGKAMJOK_00002 1696 3 Oral 0.38 protein_coding synonymous_variant LOW 573T>C Gly191Gly
M0132392 IGKAMJOK_00002 1735 3 Oral 0.38 protein_coding synonymous_variant LOW 534A>T Ala178Ala
M0132393 IGKAMJOK_00002 1738 3 Oral 0.38 protein_coding synonymous_variant LOW 531T>C Asp177Asp
M0132394 IGKAMJOK_00002 1762 3 Oral 0.38 protein_coding synonymous_variant LOW 507C>G Thr169Thr
M0132395 IGKAMJOK_00002 1765 3 Oral 0.38 protein_coding synonymous_variant LOW 504C>T Ser168Ser
M0132396 IGKAMJOK_00002 1774 3 Oral 0.38 protein_coding synonymous_variant LOW 495T>A Gly165Gly
M0132397 IGKAMJOK_00002 1780 4 Oral 0.50 protein_coding synonymous_variant LOW 489C>T Ile163Ile
M0132398 IGKAMJOK_00002 1821 3 Oral 0.38 protein_coding synonymous_variant LOW 448T>C Leu150Leu
M0132399 IGKAMJOK_00002 1825 3 Oral 0.38 protein_coding synonymous_variant LOW 444T>C Tyr148Tyr
M0132400 IGKAMJOK_00002 1834 3 Oral 0.38 protein_coding synonymous_variant LOW 435C>T Asn145Asn
M0132401 IGKAMJOK_00002 1861 3 Oral 0.38 protein_coding synonymous_variant LOW 408C>T Ser136Ser
M0132402 IGKAMJOK_00002 1864 3 Oral 0.38 protein_coding synonymous_variant LOW 405T>C Thr135Thr
M0132403 IGKAMJOK_00002 1867 3 Oral 0.38 protein_coding synonymous_variant LOW 402C>T Ile134Ile
M0132404 IGKAMJOK_00001 2293 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -1290A>T None
M0132405 IGKAMJOK_00003 2313 4 Oral 0.50 protein_coding missense_variant MODERATE 1412G>A Arg471Lys
M0132406 IGKAMJOK_00003 2342 3 Oral 0.38 protein_coding synonymous_variant LOW 1383A>G Pro461Pro
M0132407 IGKAMJOK_00003 2921 3 Oral 0.38 protein_coding synonymous_variant LOW 804C>T Cys268Cys
M0132408 IGKAMJOK_00001 554 3 Oral 0.38 protein_coding synonymous_variant LOW 450T>C Cys150Cys
M0132409 IGKAMJOK_00001 563 3 Oral 0.38 protein_coding synonymous_variant LOW 441C>T Cys147Cys






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