Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1509
  Reference Plasmid   1111525849478566_bin.37__k141_258930
  Reference Plasmid Size   18469
  Reference Plasmid GC Content   0.68
  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
M0002099 LHGAIPDK_00001 361 3 Skin 0.38 protein_coding synonymous_variant LOW 945C>G Gly315Gly
M0002100 LHGAIPDK_00001 487 3 Skin 0.38 protein_coding synonymous_variant LOW 819T>G Pro273Pro
M0002101 LHGAIPDK_00001 544 3 Skin 0.38 protein_coding synonymous_variant LOW 762A>G Ala254Ala
M0002102 LHGAIPDK_00001 550 3 Skin 0.38 protein_coding synonymous_variant LOW 756C>A Arg252Arg
M0002103 LHGAIPDK_00001 553 3 Skin 0.38 protein_coding synonymous_variant LOW 753G>A Ala251Ala
M0002104 LHGAIPDK_00001 583 3 Skin 0.38 protein_coding synonymous_variant LOW 723G>C Ala241Ala
M0002105 LHGAIPDK_00001 886 3 Skin 0.38 protein_coding synonymous_variant LOW 420C>G Ser140Ser
M0002106 LHGAIPDK_00001 1287 3 Skin 0.38 protein_coding missense_variant MODERATE 19A>C Thr7Pro
M0002107 LHGAIPDK_00001 1288 3 Skin 0.38 protein_coding synonymous_variant LOW 18A>T Pro6Pro
M0002108 LHGAIPDK_00002 1358 3 Skin 0.38 protein_coding synonymous_variant LOW 414C>G Arg138Arg
M0002109 LHGAIPDK_00002 1369 3 Skin 0.38 protein_coding missense_variant MODERATE 403G>C Gly135Arg
M0002110 LHGAIPDK_00002 1463 3 Skin 0.38 protein_coding synonymous_variant LOW 309T>C Gly103Gly
M0002111 LHGAIPDK_00002 1490 3 Skin 0.38 protein_coding synonymous_variant LOW 282T>C Gly94Gly
M0002112 LHGAIPDK_00002 1565 3 Skin 0.38 protein_coding synonymous_variant LOW 207A>G Thr69Thr
M0002113 LHGAIPDK_00002 1577 3 Skin 0.38 protein_coding synonymous_variant LOW 195A>G Gly65Gly
M0002114 LHGAIPDK_00002 1745 3 Skin 0.38 protein_coding synonymous_variant LOW 27C>T Arg9Arg
M0002115 LHGAIPDK_00003 1885 3 Skin 0.38 protein_coding synonymous_variant LOW 1413C>T His471His
M0002116 LHGAIPDK_00003 1929 3 Skin 0.38 protein_coding synonymous_variant LOW 1369C>A Arg457Arg
M0002117 LHGAIPDK_00003 2014 3 Skin 0.38 protein_coding synonymous_variant LOW 1284T>C Gly428Gly
M0002118 LHGAIPDK_00003 2101 3 Skin 0.38 protein_coding synonymous_variant LOW 1197A>G Gly399Gly
M0002119 LHGAIPDK_00003 2224 3 Skin 0.38 protein_coding synonymous_variant LOW 1074G>C Leu358Leu
M0002120 LHGAIPDK_00003 2263 3 Skin 0.38 protein_coding synonymous_variant LOW 1035A>T Leu345Leu
M0002121 LHGAIPDK_00003 2272 3 Skin 0.38 protein_coding synonymous_variant LOW 1026G>C Gly342Gly
M0002122 LHGAIPDK_00003 2275 3 Skin 0.38 protein_coding synonymous_variant LOW 1023A>G Lys341Lys
M0002123 LHGAIPDK_00003 2296 3 Skin 0.38 protein_coding synonymous_variant LOW 1002G>A Lys334Lys
M0002124 LHGAIPDK_00003 2575 3 Skin 0.38 protein_coding synonymous_variant LOW 723A>G Arg241Arg
M0002125 LHGAIPDK_00003 2578 3 Skin 0.38 protein_coding synonymous_variant LOW 720A>G Pro240Pro
M0002126 LHGAIPDK_00003 2728 3 Skin 0.38 protein_coding synonymous_variant LOW 570C>T Tyr190Tyr
M0002127 LHGAIPDK_00003 2734 3 Skin 0.38 protein_coding synonymous_variant LOW 564C>T Val188Val
M0002128 LHGAIPDK_00003 2782 3 Skin 0.38 protein_coding synonymous_variant LOW 516G>A Lys172Lys
M0002129 LHGAIPDK_00003 2818 3 Skin 0.38 protein_coding synonymous_variant LOW 480C>G Pro160Pro
M0002130 LHGAIPDK_00003 2824 3 Skin 0.38 protein_coding synonymous_variant LOW 474C>G Ala158Ala
M0002131 LHGAIPDK_00003 2827 3 Skin 0.38 protein_coding synonymous_variant LOW 471T>C Asp157Asp
M0002132 LHGAIPDK_00003 2830 3 Skin 0.38 protein_coding synonymous_variant LOW 468C>G Leu156Leu
M0002133 LHGAIPDK_00008 7593 3 Skin 0.38 protein_coding synonymous_variant LOW 909T>C Ala303Ala
M0002134 LHGAIPDK_00008 7770 3 Skin 0.38 protein_coding synonymous_variant LOW 732C>G Arg244Arg
M0002135 LHGAIPDK_00008 7788 3 Skin 0.38 protein_coding synonymous_variant LOW 714C>G Ala238Ala
M0002136 LHGAIPDK_00008 8013 3 Skin 0.38 protein_coding synonymous_variant LOW 489T>C Thr163Thr
M0002137 LHGAIPDK_00008 8028 3 Skin 0.38 protein_coding synonymous_variant LOW 474T>C Ser158Ser
M0002138 LHGAIPDK_00008 8184 3 Skin 0.38 protein_coding synonymous_variant LOW 318A>G Leu106Leu
M0002139 LHGAIPDK_00008 8190 3 Skin 0.38 protein_coding synonymous_variant LOW 312T>C Pro104Pro
M0002140 LHGAIPDK_00008 8400 3 Skin 0.38 protein_coding synonymous_variant LOW 102C>T Tyr34Tyr
M0002141 LHGAIPDK_00008 8483 3 Skin 0.38 protein_coding synonymous_variant LOW 19C>T Leu7Leu
M0002142 LHGAIPDK_00009 8524 3 Skin 0.38 protein_coding synonymous_variant LOW 3177G>A Ala1059Ala
M0002143 LHGAIPDK_00009 8527 3 Skin 0.38 protein_coding synonymous_variant LOW 3174G>T Pro1058Pro
M0002144 LHGAIPDK_00009 8746 3 Skin 0.38 protein_coding synonymous_variant LOW 2955C>G Gly985Gly
M0002145 LHGAIPDK_00009 8761 3 Skin 0.38 protein_coding synonymous_variant LOW 2940G>C Leu980Leu
M0002146 LHGAIPDK_00009 9037 3 Skin 0.38 protein_coding synonymous_variant LOW 2664A>G Leu888Leu
M0002147 LHGAIPDK_00009 9385 3 Skin 0.38 protein_coding synonymous_variant LOW 2316A>G Val772Val
M0002148 LHGAIPDK_00009 9700 3 Skin 0.38 protein_coding synonymous_variant LOW 2001A>G Ala667Ala
M0002149 LHGAIPDK_00009 9928 3 Skin 0.38 protein_coding synonymous_variant LOW 1773A>G Thr591Thr
M0002150 LHGAIPDK_00009 9946 3 Skin 0.38 protein_coding synonymous_variant LOW 1755G>T Gly585Gly
M0002151 LHGAIPDK_00009 10027 3 Skin 0.38 protein_coding synonymous_variant LOW 1674T>C Leu558Leu
M0002152 LHGAIPDK_00009 10180 3 Skin 0.38 protein_coding synonymous_variant LOW 1521G>C Gly507Gly
M0002153 LHGAIPDK_00009 10195 3 Skin 0.38 protein_coding synonymous_variant LOW 1506G>A Lys502Lys
M0002154 LHGAIPDK_00009 10228 3 Skin 0.38 protein_coding synonymous_variant LOW 1473G>C Pro491Pro
M0002155 LHGAIPDK_00009 10552 3 Skin 0.38 protein_coding synonymous_variant LOW 1149A>C Gly383Gly
M0002156 LHGAIPDK_00009 11092 3 Skin 0.38 protein_coding synonymous_variant LOW 609A>G Glu203Glu
M0002157 LHGAIPDK_00009 11101 3 Skin 0.38 protein_coding synonymous_variant LOW 600C>G Ser200Ser
M0002158 LHGAIPDK_00009 11116 3 Skin 0.38 protein_coding synonymous_variant LOW 585G>T Ala195Ala
M0002159 LHGAIPDK_00009 11128 3 Skin 0.38 protein_coding synonymous_variant LOW 573T>G Pro191Pro
M0002160 LHGAIPDK_00009 11161 3 Skin 0.38 protein_coding synonymous_variant LOW 540G>C Ala180Ala
M0002161 LHGAIPDK_00009 11190 3 Skin 0.38 protein_coding missense_variant MODERATE 511A>C Thr171Pro
M0002162 LHGAIPDK_00009 11191 3 Skin 0.38 protein_coding synonymous_variant LOW 510T>G Val170Val
M0002163 LHGAIPDK_00009 11206 3 Skin 0.38 protein_coding synonymous_variant LOW 495T>C Asp165Asp
M0002164 LHGAIPDK_00009 11224 3 Skin 0.38 protein_coding synonymous_variant LOW 477T>C Ala159Ala
M0002165 LHGAIPDK_00009 11248 3 Skin 0.38 protein_coding synonymous_variant LOW 453C>G Pro151Pro
M0002166 LHGAIPDK_00009 11353 3 Skin 0.38 protein_coding synonymous_variant LOW 348A>G Glu116Glu
M0002167 LHGAIPDK_00009 11569 3 Skin 0.38 protein_coding synonymous_variant LOW 132T>G Leu44Leu
M0002168 LHGAIPDK_00009 11590 3 Skin 0.38 protein_coding synonymous_variant LOW 111A>G Pro37Pro
M0002169 LHGAIPDK_00009 11605 3 Skin 0.38 protein_coding synonymous_variant LOW 96A>G Pro32Pro
M0002170 LHGAIPDK_00009 11686 3 Skin 0.38 protein_coding synonymous_variant LOW 15T>C Phe5Phe
M0002171 LHGAIPDK_00010 12259 3 Skin 0.38 protein_coding synonymous_variant LOW 696A>C Ser232Ser
M0002172 LHGAIPDK_00010 12478 3 Skin 0.38 protein_coding synonymous_variant LOW 477C>G Ala159Ala






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