Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3419
  Reference Plasmid   SRR2005712_bin.1__k91_3056
  Reference Plasmid Size   28023
  Reference Plasmid GC Content   0.32
  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
M0117264 GALCOAGH_00012 12976 5 Skin 0.42 protein_coding missense_variant MODERATE 304A>C Ile102Leu
M0117265 GALCOAGH_00012 13002 5 Skin 0.42 protein_coding missense_variant MODERATE 278C>T Thr93Ile
M0117266 GALCOAGH_00012 13117 5 Skin 0.42 protein_coding missense_variant MODERATE 163A>T Ile55Phe
M0117267 GALCOAGH_00012 13253 6 Skin 0.50 protein_coding synonymous_variant LOW 27C>T Phe9Phe
M0117268 GALCOAGH_00008 13366 6 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -3696T>C None
M0117269 GALCOAGH_00008 13387 6 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -3717A>C None
M0117270 GALCOAGH_00013 13530 6 Skin 0.50 protein_coding missense_variant MODERATE 614A>G Asn205Ser
M0117271 GALCOAGH_00013 13809 6 Skin 0.50 protein_coding missense_variant MODERATE 335T>C Val112Ala
M0117272 GALCOAGH_00013 13837 6 Skin 0.50 protein_coding missense_variant MODERATE 307A>G Thr103Ala
M0117273 GALCOAGH_00013 13949 6 Skin 0.50 protein_coding synonymous_variant LOW 195C>T Tyr65Tyr
M0117274 GALCOAGH_00013 14014 6 Skin 0.50 protein_coding missense_variant MODERATE 130A>G Asn44Asp
M0117275 GALCOAGH_00013 14056 6 Skin 0.50 protein_coding missense_variant MODERATE 88C>A Arg30Ser
M0117276 GALCOAGH_00013 14076 6 Skin 0.50 protein_coding missense_variant MODERATE 68G>A Arg23His
M0117277 GALCOAGH_00013 14119 6 Skin 0.50 protein_coding missense_variant MODERATE 25G>A Asp9Asn
M0117278 GALCOAGH_00014 14200 5 Skin 0.42 protein_coding stop_gained HIGH 1138C>T Gln380*
M0117279 GALCOAGH_00014 14232 5 Skin 0.42 protein_coding missense_variant MODERATE 1106C>A Thr369Asn
M0117280 GALCOAGH_00014 14282 6 Skin 0.50 protein_coding synonymous_variant LOW 1056A>G Glu352Glu
M0117281 GALCOAGH_00014 14316 6 Skin 0.50 protein_coding missense_variant MODERATE 1022A>T Tyr341Phe
M0117282 GALCOAGH_00014 14317 6 Skin 0.50 protein_coding missense_variant MODERATE 1021T>A Tyr341Asn
M0117283 GALCOAGH_00014 14388 6 Skin 0.50 protein_coding missense_variant MODERATE 950C>A Ala317Asp
M0117284 GALCOAGH_00014 14440 6 Skin 0.50 protein_coding stop_gained HIGH 898A>T Lys300*
M0117285 GALCOAGH_00014 14456 6 Skin 0.50 protein_coding synonymous_variant LOW 882T>C Val294Val
M0117286 GALCOAGH_00014 14520 6 Skin 0.50 protein_coding missense_variant MODERATE 818C>T Pro273Leu
M0117287 GALCOAGH_00014 14571 6 Skin 0.50 protein_coding missense_variant MODERATE 767C>T Ala256Val
M0117288 GALCOAGH_00014 14649 5 Skin 0.42 protein_coding missense_variant MODERATE 689C>A Ser230Tyr
M0117289 GALCOAGH_00014 14690 5 Skin 0.42 protein_coding synonymous_variant LOW 648G>T Pro216Pro
M0117290 GALCOAGH_00014 14703 5 Skin 0.42 protein_coding missense_variant MODERATE 635T>C Val212Ala
M0117291 GALCOAGH_00014 14707 5 Skin 0.42 protein_coding missense_variant MODERATE 631G>A Ala211Thr
M0117292 GALCOAGH_00014 14721 5 Skin 0.42 protein_coding missense_variant MODERATE 617G>A Gly206Asp
M0117293 GALCOAGH_00014 14728 5 Skin 0.42 protein_coding missense_variant MODERATE 610C>T Leu204Phe
M0117294 GALCOAGH_00014 14751 5 Skin 0.42 protein_coding missense_variant MODERATE 587C>T Ala196Val
M0117295 GALCOAGH_00014 14774 5 Skin 0.42 protein_coding synonymous_variant LOW 564A>G Lys188Lys
M0117296 GALCOAGH_00014 14878 5 Skin 0.42 protein_coding missense_variant MODERATE 460G>C Ala154Pro
M0117297 GALCOAGH_00014 14913 5 Skin 0.42 protein_coding missense_variant MODERATE 425G>A Ser142Asn
M0117298 GALCOAGH_00014 14945 5 Skin 0.42 protein_coding missense_variant MODERATE 393C>G Asn131Lys
M0117299 GALCOAGH_00014 14997 5 Skin 0.42 protein_coding missense_variant MODERATE 341G>A Cys114Tyr
M0117300 GALCOAGH_00014 15127 5 Skin 0.42 protein_coding missense_variant MODERATE 211G>A Val71Ile
M0117301 GALCOAGH_00014 15169 5 Skin 0.42 protein_coding missense_variant MODERATE 169G>A Ala57Thr
M0117302 GALCOAGH_00014 15223 5 Skin 0.42 protein_coding missense_variant MODERATE 115C>A His39Asn
M0117303 GALCOAGH_00014 15316 5 Skin 0.42 protein_coding missense_variant MODERATE 22A>G Ile8Val
M0117304 GALCOAGH_00010 15351 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -3949A>C None
M0117305 GALCOAGH_00010 15358 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -3956G>A None
M0117306 GALCOAGH_00010 15380 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -3978C>A None
M0117307 GALCOAGH_00010 15395 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -3993G>A None
M0117308 GALCOAGH_00006 9869 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3834C>T None
M0117309 GALCOAGH_00009 9970 4 Skin 0.33 protein_coding missense_variant MODERATE 98C>T Pro33Leu
M0117310 GALCOAGH_00009 10089 4 Skin 0.33 protein_coding missense_variant MODERATE 217G>A Glu73Lys
M0117311 GALCOAGH_00009 10265 4 Skin 0.33 protein_coding missense_variant MODERATE 393G>C Trp131Cys
M0117312 GALCOAGH_00009 10281 4 Skin 0.33 protein_coding missense_variant MODERATE 409G>A Ala137Thr
M0117313 GALCOAGH_00009 10283 4 Skin 0.33 protein_coding synonymous_variant LOW 411T>A Ala137Ala
M0117314 GALCOAGH_00009 10300 4 Skin 0.33 protein_coding missense_variant MODERATE 428G>A Arg143Gln
M0117315 GALCOAGH_00009 10305 4 Skin 0.33 protein_coding missense_variant MODERATE 433G>A Glu145Lys
M0117316 GALCOAGH_00009 10333 4 Skin 0.33 protein_coding missense_variant MODERATE 461C>G Ala154Gly
M0117317 GALCOAGH_00009 10341 4 Skin 0.33 protein_coding stop_gained HIGH 469C>T Gln157*
M0117318 GALCOAGH_00009 10357 4 Skin 0.33 protein_coding missense_variant MODERATE 485C>T Thr162Ile
M0117319 GALCOAGH_00009 10393 4 Skin 0.33 protein_coding missense_variant MODERATE 521A>G Asn174Ser
M0117320 GALCOAGH_00009 10586 4 Skin 0.33 protein_coding missense_variant MODERATE 714G>A Met238Ile
M0117321 GALCOAGH_00009 10718 4 Skin 0.33 protein_coding synonymous_variant LOW 846C>T His282His
M0117322 GALCOAGH_00010 10829 4 Skin 0.33 protein_coding missense_variant MODERATE 574T>G Ser192Ala
M0117323 GALCOAGH_00010 10831 4 Skin 0.33 protein_coding missense_variant MODERATE 572G>A Ser191Asn
M0117324 GALCOAGH_00010 10920 4 Skin 0.33 protein_coding synonymous_variant LOW 483G>T Arg161Arg
M0117325 GALCOAGH_00010 10949 4 Skin 0.33 protein_coding missense_variant MODERATE 454T>C Tyr152His
M0117326 GALCOAGH_00010 11042 4 Skin 0.33 protein_coding missense_variant MODERATE 361C>G Pro121Ala
M0117327 GALCOAGH_00010 11140 4 Skin 0.33 protein_coding missense_variant MODERATE 263G>A Arg88His
M0117328 GALCOAGH_00010 11196 4 Skin 0.33 protein_coding synonymous_variant LOW 207C>T His69His
M0117329 GALCOAGH_00010 11220 4 Skin 0.33 protein_coding synonymous_variant LOW 183C>T His61His
M0117330 GALCOAGH_00010 11273 4 Skin 0.33 protein_coding missense_variant MODERATE 130G>A Val44Met
M0117331 GALCOAGH_00010 11294 4 Skin 0.33 protein_coding missense_variant MODERATE 109C>T Pro37Ser
M0117332 GALCOAGH_00010 11348 4 Skin 0.33 protein_coding missense_variant MODERATE 55A>G Ile19Val
M0117333 GALCOAGH_00008 11487 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -1817A>G None
M0117334 GALCOAGH_00008 11517 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -1847T>C None
M0117335 GALCOAGH_00011 11610 4 Skin 0.33 protein_coding synonymous_variant LOW 51T>C Tyr17Tyr
M0117336 GALCOAGH_00011 11847 4 Skin 0.33 protein_coding missense_variant MODERATE 288A>G Ile96Met
M0117337 GALCOAGH_00011 11864 4 Skin 0.33 protein_coding missense_variant MODERATE 305T>G Val102Gly
M0117338 GALCOAGH_00011 11898 4 Skin 0.33 protein_coding missense_variant MODERATE 339T>A Asn113Lys
M0117339 GALCOAGH_00011 11975 4 Skin 0.33 protein_coding missense_variant MODERATE 416A>G Glu139Gly
M0117340 GALCOAGH_00011 11997 4 Skin 0.33 protein_coding synonymous_variant LOW 438T>C Tyr146Tyr
M0117341 GALCOAGH_00008 12032 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -2362A>T None
M0117342 GALCOAGH_00008 12055 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -2385T>A None
M0117343 GALCOAGH_00008 12059 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -2389C>T None
M0117344 GALCOAGH_00012 12124 4 Skin 0.33 protein_coding missense_variant MODERATE 1156A>G Ile386Val
M0117345 GALCOAGH_00012 12352 5 Skin 0.42 protein_coding missense_variant MODERATE 928A>C Ile310Leu
M0117346 GALCOAGH_00012 12371 5 Skin 0.42 protein_coding missense_variant MODERATE 909T>G Phe303Leu
M0117347 GALCOAGH_00012 12770 4 Skin 0.33 protein_coding synonymous_variant LOW 510A>C Val170Val
M0117348 GALCOAGH_00012 12805 4 Skin 0.33 protein_coding missense_variant MODERATE 475G>T Ala159Ser
M0117349 GALCOAGH_00012 12901 5 Skin 0.42 protein_coding missense_variant MODERATE 379G>C Asp127His
M0117350 GALCOAGH_00010 15425 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -4023T>C None
M0117351 GALCOAGH_00010 15581 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4179A>G None
M0117352 GALCOAGH_00015 15601 4 Skin 0.33 protein_coding missense_variant MODERATE 19C>A His7Asn
M0117353 GALCOAGH_00015 15666 4 Skin 0.33 protein_coding synonymous_variant LOW 84G>A Pro28Pro
M0117354 GALCOAGH_00015 15836 3 Skin 0.25 protein_coding missense_variant MODERATE 254C>T Pro85Leu
M0117355 GALCOAGH_00015 15842 3 Skin 0.25 protein_coding missense_variant MODERATE 260T>C Val87Ala
M0117356 GALCOAGH_00015 15883 3 Skin 0.25 protein_coding missense_variant MODERATE 301G>A Val101Ile
M0117357 GALCOAGH_00015 15933 3 Skin 0.25 protein_coding stop_gained HIGH 351G>A Trp117*
M0117358 GALCOAGH_00015 15959 3 Skin 0.25 protein_coding missense_variant MODERATE 377T>C Leu126Pro
M0117359 GALCOAGH_00015 15978 3 Skin 0.25 protein_coding synonymous_variant LOW 396A>T Leu132Leu
M0117360 GALCOAGH_00015 16024 3 Skin 0.25 protein_coding missense_variant MODERATE 442T>C Phe148Leu
M0117361 GALCOAGH_00015 16177 3 Skin 0.25 protein_coding missense_variant MODERATE 595G>A Gly199Arg
M0117362 GALCOAGH_00015 16217 3 Skin 0.25 protein_coding stop_gained HIGH 635T>A Leu212*
M0117363 GALCOAGH_00015 16282 3 Skin 0.25 protein_coding missense_variant MODERATE 700G>A Gly234Arg
M0117364 GALCOAGH_00017 17269 3 Skin 0.25 protein_coding missense_variant MODERATE 196G>A Glu66Lys
M0117365 GALCOAGH_00017 17286 3 Skin 0.25 protein_coding synonymous_variant LOW 213G>A Lys71Lys
M0117366 GALCOAGH_00020 23990 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -3965C>T None






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
GALCOAGH_00001 Cetrimide (CTM) [class: Quaternary Ammonium Compounds (QACs)] 90.6 2.9e-230 1 466 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
GALCOAGH_00017 PHI:123153 NWMN2330 72.2 3.4e-51 1 126 1.0000 0.9844 rodents skin infection; food poisoning; respiratory disease virulence factor reduced virulence






        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
GALCOAGH_00017 2.A.129.1.7 72.2 7.6e-51 1 126 1.0000 0.9844 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.129 The Lipid-linked Sugar Translocase (LST) Family