Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2563
  Reference Plasmid   1111525849853748_bin.9__k141_64620
  Reference Plasmid Size   13708
  Reference Plasmid GC Content   0.66
  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
M0047306 CPJJMJKI_00002 1295 4 Skin 0.09 protein_coding synonymous_variant LOW 420A>G Glu140Glu
M0047307 CPJJMJKI_00002 1338 12 Skin 0.28 protein_coding missense_variant MODERATE 463A>G Ile155Val
M0047308 CPJJMJKI_00003 2776 18 Skin 0.42 protein_coding synonymous_variant LOW 474T>C Arg158Arg
M0047309 CPJJMJKI_00003 2785 18 Skin 0.42 protein_coding synonymous_variant LOW 483A>C Ala161Ala
M0047310 CPJJMJKI_00003 2787 18 Skin 0.42 protein_coding missense_variant MODERATE 485T>C Val162Ala
M0047311 CPJJMJKI_00003 2954 23 Skin 0.53 protein_coding missense_variant MODERATE 652A>G Ser218Gly
M0047312 CPJJMJKI_00003 2986 22 Skin 0.51 protein_coding synonymous_variant LOW 684G>A Pro228Pro
M0047313 CPJJMJKI_00003 3009 22 Skin 0.51 protein_coding missense_variant MODERATE 707G>C Gly236Ala
M0047314 CPJJMJKI_00003 3235 18 Skin 0.42 protein_coding synonymous_variant LOW 933G>A Glu311Glu
M0047315 CPJJMJKI_00003 3451 9 Skin 0.21 protein_coding synonymous_variant LOW 1149C>G Thr383Thr
M0047316 CPJJMJKI_00003 3511 10 Skin 0.23 protein_coding synonymous_variant LOW 1209G>A Arg403Arg
M0047317 CPJJMJKI_00003 3591 36 Skin 0.84 protein_coding missense_variant MODERATE 1289G>T Gly430Val
M0047318 CPJJMJKI_00003 3739 19 Skin 0.44 protein_coding synonymous_variant LOW 1437T>C Ala479Ala
M0047319 CPJJMJKI_00004 4105 29 Skin 0.67 protein_coding synonymous_variant LOW 81A>C Ala27Ala
M0047320 CPJJMJKI_00001 123 6 Skin 0.14 protein_coding stop_gained HIGH 61G>T Glu21*
M0047321 CPJJMJKI_00001 150 7 Skin 0.16 protein_coding missense_variant MODERATE 88G>C Ala30Pro
M0047322 CPJJMJKI_00002 491 5 Skin 0.12 protein_coding upstream_gene_variant MODIFIER -385A>G None
M0047323 CPJJMJKI_00002 1412 5 Skin 0.12 protein_coding synonymous_variant LOW 537G>A Val179Val
M0047324 CPJJMJKI_00002 1421 5 Skin 0.12 protein_coding synonymous_variant LOW 546A>G Val182Val
M0047325 CPJJMJKI_00002 1775 7 Skin 0.16 protein_coding synonymous_variant LOW 900A>G Thr300Thr
M0047326 CPJJMJKI_00002 1784 7 Skin 0.16 protein_coding synonymous_variant LOW 909G>C Val303Val
M0047327 CPJJMJKI_00002 1907 7 Skin 0.16 protein_coding synonymous_variant LOW 1032A>G Leu344Leu
M0047328 CPJJMJKI_00003 2839 12 Skin 0.28 protein_coding synonymous_variant LOW 537C>T Leu179Leu
M0047329 CPJJMJKI_00003 2849 12 Skin 0.28 protein_coding synonymous_variant LOW 547C>T Leu183Leu
M0047330 CPJJMJKI_00003 3649 11 Skin 0.26 protein_coding synonymous_variant LOW 1347C>T Ala449Ala
M0047331 CPJJMJKI_00003 3657 11 Skin 0.26 protein_coding missense_variant MODERATE 1355A>T Glu452Val
M0047332 CPJJMJKI_00006 5173 13 Skin 0.30 protein_coding synonymous_variant LOW 249T>C Gly83Gly
M0047333 CPJJMJKI_00006 5176 13 Skin 0.30 protein_coding synonymous_variant LOW 246T>C Phe82Phe
M0047334 CPJJMJKI_00006 5203 14 Skin 0.33 protein_coding synonymous_variant LOW 219T>C Ile73Ile
M0047335 CPJJMJKI_00006 5215 14 Skin 0.33 protein_coding synonymous_variant LOW 207C>T Ser69Ser
M0047336 CPJJMJKI_00007 5971 10 Skin 0.23 protein_coding synonymous_variant LOW 273G>A Gln91Gln
M0047337 CPJJMJKI_00007 5995 10 Skin 0.23 protein_coding synonymous_variant LOW 297C>T Ala99Ala
M0047338 CPJJMJKI_00007 5998 11 Skin 0.26 protein_coding synonymous_variant LOW 300T>C Ala100Ala
M0047339 CPJJMJKI_00007 6043 14 Skin 0.33 protein_coding synonymous_variant LOW 345A>G Glu115Glu
M0047340 CPJJMJKI_00007 6991 9 Skin 0.21 protein_coding synonymous_variant LOW 1293A>G Ala431Ala
M0047341 CPJJMJKI_00009 8456 3 Skin 0.07 protein_coding synonymous_variant LOW 195A>G Pro65Pro
M0047342 CPJJMJKI_00009 9947 3 Skin 0.07 protein_coding synonymous_variant LOW 1686G>T Pro562Pro
M0047343 CPJJMJKI_00010 10867 3 Skin 0.07 protein_coding synonymous_variant LOW 729T>C Asp243Asp
M0047344 CPJJMJKI_00010 10882 3 Skin 0.07 protein_coding synonymous_variant LOW 714T>C Arg238Arg
M0047345 CPJJMJKI_00001 161 3 Skin 0.07 protein_coding synonymous_variant LOW 99T>C Arg33Arg
M0047346 CPJJMJKI_00001 196 3 Skin 0.07 protein_coding missense_variant MODERATE 134G>A Ser45Asn
M0047347 CPJJMJKI_00001 203 3 Skin 0.07 protein_coding synonymous_variant LOW 141G>A Thr47Thr
M0047348 CPJJMJKI_00001 212 3 Skin 0.07 protein_coding synonymous_variant LOW 150G>A Pro50Pro
M0047349 CPJJMJKI_00001 230 3 Skin 0.07 protein_coding synonymous_variant LOW 168G>A Arg56Arg
M0047350 CPJJMJKI_00001 257 3 Skin 0.07 protein_coding synonymous_variant LOW 195C>T Ser65Ser
M0047351 CPJJMJKI_00001 314 3 Skin 0.07 protein_coding synonymous_variant LOW 252G>A Ala84Ala
M0047352 CPJJMJKI_00001 428 4 Skin 0.09 protein_coding synonymous_variant LOW 366C>T Asn122Asn
M0047353 CPJJMJKI_00002 783 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -93T>G None
M0047354 CPJJMJKI_00002 818 5 Skin 0.12 protein_coding upstream_gene_variant MODIFIER -58A>G None
M0047355 CPJJMJKI_00002 823 5 Skin 0.12 protein_coding upstream_gene_variant MODIFIER -53G>A None
M0047356 CPJJMJKI_00002 824 5 Skin 0.12 protein_coding upstream_gene_variant MODIFIER -52C>G None
M0047357 CPJJMJKI_00002 837 5 Skin 0.12 protein_coding upstream_gene_variant MODIFIER -39G>A None
M0047358 CPJJMJKI_00003 2395 7 Skin 0.16 protein_coding synonymous_variant LOW 93A>G Glu31Glu
M0047359 CPJJMJKI_00003 2644 10 Skin 0.23 protein_coding synonymous_variant LOW 342A>G Arg114Arg
M0047360 CPJJMJKI_00003 2647 7 Skin 0.16 protein_coding synonymous_variant LOW 345C>T Arg115Arg
M0047361 CPJJMJKI_00006 5076 8 Skin 0.19 protein_coding missense_variant MODERATE 346C>G His116Asp
M0047362 CPJJMJKI_00006 5398 13 Skin 0.30 protein_coding synonymous_variant LOW 24G>C Ala8Ala
M0047363 CPJJMJKI_00002 1472 4 Skin 0.09 protein_coding synonymous_variant LOW 597T>C Ala199Ala
M0047364 CPJJMJKI_00002 2000 3 Skin 0.07 protein_coding synonymous_variant LOW 1125G>A Glu375Glu
M0047365 CPJJMJKI_00002 2012 3 Skin 0.07 protein_coding synonymous_variant LOW 1137G>A Val379Val
M0047366 CPJJMJKI_00002 2021 3 Skin 0.07 protein_coding synonymous_variant LOW 1146T>C His382His
M0047367 CPJJMJKI_00002 1253 5 Skin 0.12 protein_coding synonymous_variant LOW 378C>A Ala126Ala
M0047368 CPJJMJKI_00002 1547 4 Skin 0.09 protein_coding synonymous_variant LOW 672A>C Val224Val
M0047369 CPJJMJKI_00002 1550 4 Skin 0.09 protein_coding synonymous_variant LOW 675C>T Gly225Gly
M0047370 CPJJMJKI_00004 4276 14 Skin 0.33 protein_coding synonymous_variant LOW 252A>C Val84Val
M0047371 CPJJMJKI_00005 4700 8 Skin 0.19 protein_coding synonymous_variant LOW 180T>C Phe60Phe
M0047372 CPJJMJKI_00005 5504 9 Skin 0.21 protein_coding upstream_gene_variant MODIFIER -625T>A None
M0047373 CPJJMJKI_00002 1202 4 Skin 0.09 protein_coding synonymous_variant LOW 327G>A Glu109Glu
M0047374 CPJJMJKI_00007 6517 10 Skin 0.23 protein_coding missense_variant MODERATE 819C>A Asn273Lys
M0047375 CPJJMJKI_00007 6901 3 Skin 0.07 protein_coding synonymous_variant LOW 1203T>C Tyr401Tyr
M0047376 CPJJMJKI_00007 6913 3 Skin 0.07 protein_coding synonymous_variant LOW 1215T>C Phe405Phe
M0047377 CPJJMJKI_00008 7921 3 Skin 0.07 protein_coding synonymous_variant LOW 744G>A Glu248Glu
M0047378 CPJJMJKI_00009 8522 6 Skin 0.14 protein_coding synonymous_variant LOW 261G>C Pro87Pro
M0047379 CPJJMJKI_00009 8567 4 Skin 0.09 protein_coding synonymous_variant LOW 306C>T Tyr102Tyr
M0047380 CPJJMJKI_00009 8720 4 Skin 0.09 protein_coding synonymous_variant LOW 459T>C His153His
M0047381 CPJJMJKI_00005 4924 8 Skin 0.19 protein_coding upstream_gene_variant MODIFIER -45C>T None
M0047382 CPJJMJKI_00008 7463 3 Skin 0.07 protein_coding missense_variant MODERATE 286A>C Lys96Gln
M0047383 CPJJMJKI_00008 7477 3 Skin 0.07 protein_coding synonymous_variant LOW 300C>G Ala100Ala
M0047384 CPJJMJKI_00008 7489 3 Skin 0.07 protein_coding synonymous_variant LOW 312T>C Asp104Asp
M0047385 CPJJMJKI_00008 7498 3 Skin 0.07 protein_coding synonymous_variant LOW 321C>G Ser107Ser
M0047386 CPJJMJKI_00008 7501 3 Skin 0.07 protein_coding synonymous_variant LOW 324A>T Gly108Gly
M0047387 CPJJMJKI_00008 7507 3 Skin 0.07 protein_coding synonymous_variant LOW 330T>C Gly110Gly
M0047388 CPJJMJKI_00008 7537 3 Skin 0.07 protein_coding synonymous_variant LOW 360T>C Asn120Asn
M0047389 CPJJMJKI_00008 7540 3 Skin 0.07 protein_coding synonymous_variant LOW 363G>A Glu121Glu
M0047390 CPJJMJKI_00008 7564 3 Skin 0.07 protein_coding synonymous_variant LOW 387A>G Glu129Glu
M0047391 CPJJMJKI_00008 7606 3 Skin 0.07 protein_coding synonymous_variant LOW 429G>A Glu143Glu
M0047392 CPJJMJKI_00008 7615 3 Skin 0.07 protein_coding synonymous_variant LOW 438C>A Pro146Pro
M0047393 CPJJMJKI_00008 7636 3 Skin 0.07 protein_coding synonymous_variant LOW 459C>T Asp153Asp
M0047394 CPJJMJKI_00009 8869 4 Skin 0.09 protein_coding missense_variant MODERATE 608G>C Gly203Ala
M0047395 CPJJMJKI_00009 8876 4 Skin 0.09 protein_coding synonymous_variant LOW 615C>G Leu205Leu
M0047396 CPJJMJKI_00009 8877 4 Skin 0.09 protein_coding synonymous_variant LOW 616T>C Leu206Leu
M0047397 CPJJMJKI_00009 8882 4 Skin 0.09 protein_coding missense_variant MODERATE 621C>A His207Gln
M0047398 CPJJMJKI_00009 8885 4 Skin 0.09 protein_coding synonymous_variant LOW 624T>C Asn208Asn
M0047399 CPJJMJKI_00009 8936 3 Skin 0.07 protein_coding synonymous_variant LOW 675A>G Glu225Glu
M0047400 CPJJMJKI_00009 8958 3 Skin 0.07 protein_coding missense_variant MODERATE 697G>T Ala233Ser
M0047401 CPJJMJKI_00009 8963 3 Skin 0.07 protein_coding synonymous_variant LOW 702T>C Ser234Ser
M0047402 CPJJMJKI_00008 7253 4 Skin 0.09 protein_coding synonymous_variant LOW 76T>C Leu26Leu
M0047403 CPJJMJKI_00003 2654 3 Skin 0.07 protein_coding synonymous_variant LOW 352C>T Leu118Leu
M0047404 CPJJMJKI_00008 7189 3 Skin 0.07 protein_coding synonymous_variant LOW 12G>A Ser4Ser
M0047405 CPJJMJKI_00008 7192 3 Skin 0.07 protein_coding synonymous_variant LOW 15C>T Asn5Asn
M0047406 CPJJMJKI_00008 7204 3 Skin 0.07 protein_coding synonymous_variant LOW 27A>C Ile9Ile






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
CPJJMJKI_00010 n-hexane [class: Alkane], p-xylene [class: Aromatic hydrocarbons] 94.3 8.4e-246 1 473 1.0000 1.0000 prediction






        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
CPJJMJKI_00011 2.A.6.2.6 77.7 9.9e-302 1 690 0.9900 1.7990 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.6 The Resistance-Nodulation-Cell Division (RND) Superfamily