Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3166
  Reference Plasmid   MET0293_bin.14__k81_69207
  Reference Plasmid Size   115514
  Reference Plasmid GC Content   0.65
  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
M0076764 LJOHHMGN_00022 23393 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -251G>A None
M0076765 LJOHHMGN_00022 23395 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -249G>C None
M0076766 LJOHHMGN_00022 23424 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -220G>A None
M0076767 LJOHHMGN_00004 4563 3 Skin 0.07 protein_coding missense_variant MODERATE 188C>T Ala63Val
M0076768 LJOHHMGN_00043 40232 3 Skin 0.07 protein_coding synonymous_variant LOW 2142A>G Thr714Thr
M0076769 LJOHHMGN_00043 40234 3 Skin 0.07 protein_coding missense_variant MODERATE 2144C>A Ala715Glu
M0076770 LJOHHMGN_00043 40238 3 Skin 0.07 protein_coding synonymous_variant LOW 2148T>C Ile716Ile
M0076771 LJOHHMGN_00048 43719 3 Skin 0.07 protein_coding synonymous_variant LOW 51C>T Ala17Ala
M0076772 LJOHHMGN_00048 43735 3 Skin 0.07 protein_coding missense_variant MODERATE 67A>C Ile23Leu
M0076773 LJOHHMGN_00048 43851 3 Skin 0.07 protein_coding synonymous_variant LOW 183C>T Arg61Arg
M0076774 LJOHHMGN_00038 33878 3 Skin 0.07 protein_coding synonymous_variant LOW 9A>G Ala3Ala
M0076775 LJOHHMGN_00038 34355 3 Skin 0.07 protein_coding synonymous_variant LOW 486T>C Val162Val
M0076776 LJOHHMGN_00038 34433 3 Skin 0.07 protein_coding synonymous_variant LOW 564C>T Gly188Gly
M0076777 LJOHHMGN_00038 34444 3 Skin 0.07 protein_coding missense_variant MODERATE 575A>G Gln192Arg
M0076778 LJOHHMGN_00024 24594 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -365T>A None
M0076779 LJOHHMGN_00024 24640 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -319G>A None
M0076780 LJOHHMGN_00024 24645 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -314C>A None
M0076781 LJOHHMGN_00024 24706 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -253T>C None
M0076782 LJOHHMGN_00024 24714 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -245T>G None
M0076783 LJOHHMGN_00024 24894 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -65T>C None
M0076784 LJOHHMGN_00025 25292 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -301T>G None
M0076785 LJOHHMGN_00025 25569 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -24A>G None
M0076786 LJOHHMGN_00026 25951 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -5A>G None
M0076787 LJOHHMGN_00026 25985 3 Skin 0.07 protein_coding synonymous_variant LOW 30G>A Pro10Pro
M0076788 LJOHHMGN_00026 26014 3 Skin 0.07 protein_coding missense_variant MODERATE 59G>A Arg20Lys
M0076789 LJOHHMGN_00026 26030 3 Skin 0.07 protein_coding synonymous_variant LOW 75T>A Leu25Leu
M0076790 LJOHHMGN_00027 26547 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -31G>A None
M0076791 LJOHHMGN_00027 26599 3 Skin 0.07 protein_coding missense_variant MODERATE 22A>G Asn8Asp
M0076792 LJOHHMGN_00027 26625 3 Skin 0.07 protein_coding synonymous_variant LOW 48G>A Ala16Ala
M0076793 LJOHHMGN_00027 26661 3 Skin 0.07 protein_coding synonymous_variant LOW 84A>C Leu28Leu
M0076794 LJOHHMGN_00027 26666 3 Skin 0.07 protein_coding missense_variant MODERATE 89G>A Gly30Asp
M0076795 LJOHHMGN_00027 26684 3 Skin 0.07 protein_coding missense_variant MODERATE 107A>G His36Arg
M0076796 LJOHHMGN_00027 26694 3 Skin 0.07 protein_coding synonymous_variant LOW 117C>G Pro39Pro
M0076797 LJOHHMGN_00027 26703 3 Skin 0.07 protein_coding synonymous_variant LOW 126A>C Ala42Ala
M0076798 LJOHHMGN_00027 26724 3 Skin 0.07 protein_coding synonymous_variant LOW 147T>C His49His
M0076799 LJOHHMGN_00027 26736 3 Skin 0.07 protein_coding synonymous_variant LOW 159T>A Leu53Leu
M0076800 LJOHHMGN_00027 26745 3 Skin 0.07 protein_coding synonymous_variant LOW 168G>A Leu56Leu
M0076801 LJOHHMGN_00027 26753 3 Skin 0.07 protein_coding missense_variant MODERATE 176C>T Thr59Ile
M0076802 LJOHHMGN_00027 26758 3 Skin 0.07 protein_coding missense_variant MODERATE 181C>G Pro61Ala
M0076803 LJOHHMGN_00027 26764 3 Skin 0.07 protein_coding missense_variant MODERATE 187A>G Asn63Asp
M0076804 LJOHHMGN_00027 26782 3 Skin 0.07 protein_coding missense_variant MODERATE 205A>G Ile69Val
M0076805 LJOHHMGN_00027 26833 3 Skin 0.07 protein_coding missense_variant MODERATE 256T>G Ser86Ala
M0076806 LJOHHMGN_00027 26835 3 Skin 0.07 protein_coding synonymous_variant LOW 258A>G Ser86Ser
M0076807 LJOHHMGN_00027 26850 3 Skin 0.07 protein_coding synonymous_variant LOW 273A>G Gln91Gln
M0076808 LJOHHMGN_00027 26881 3 Skin 0.07 protein_coding missense_variant MODERATE 304A>G Thr102Ala
M0076809 LJOHHMGN_00027 26892 3 Skin 0.07 protein_coding synonymous_variant LOW 315T>C Arg105Arg
M0076810 LJOHHMGN_00027 26922 3 Skin 0.07 protein_coding synonymous_variant LOW 345C>T Ala115Ala
M0076811 LJOHHMGN_00027 26928 3 Skin 0.07 protein_coding synonymous_variant LOW 351T>C Gly117Gly
M0076812 LJOHHMGN_00027 26985 3 Skin 0.07 protein_coding synonymous_variant LOW 408G>C Arg136Arg
M0076813 LJOHHMGN_00027 26994 3 Skin 0.07 protein_coding synonymous_variant LOW 417A>T Thr139Thr
M0076814 LJOHHMGN_00027 27000 3 Skin 0.07 protein_coding synonymous_variant LOW 423C>T Pro141Pro
M0076815 LJOHHMGN_00027 27021 3 Skin 0.07 protein_coding synonymous_variant LOW 444T>G Arg148Arg
M0076816 LJOHHMGN_00027 27036 3 Skin 0.07 protein_coding synonymous_variant LOW 459A>C Ala153Ala
M0076817 LJOHHMGN_00027 27053 3 Skin 0.07 protein_coding missense_variant MODERATE 476C>T Ser159Leu
M0076818 LJOHHMGN_00027 27064 3 Skin 0.07 protein_coding missense_variant MODERATE 487A>G Asn163Asp
M0076819 LJOHHMGN_00027 27072 3 Skin 0.07 protein_coding synonymous_variant LOW 495T>C Gly165Gly
M0076820 LJOHHMGN_00027 27099 3 Skin 0.07 protein_coding synonymous_variant LOW 522A>G Arg174Arg
M0076821 LJOHHMGN_00028 27111 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -133C>T None
M0076822 LJOHHMGN_00028 27168 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -76A>G None
M0076823 LJOHHMGN_00028 27208 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -36T>C None
M0076824 LJOHHMGN_00028 27300 3 Skin 0.07 protein_coding synonymous_variant LOW 57C>T Ala19Ala
M0076825 LJOHHMGN_00028 27303 3 Skin 0.07 protein_coding synonymous_variant LOW 60G>A Glu20Glu
M0076826 LJOHHMGN_00028 27309 3 Skin 0.07 protein_coding synonymous_variant LOW 66T>C Leu22Leu
M0076827 LJOHHMGN_00028 27411 3 Skin 0.07 protein_coding synonymous_variant LOW 168A>G Glu56Glu
M0076828 LJOHHMGN_00028 27430 3 Skin 0.07 protein_coding missense_variant MODERATE 187A>G Thr63Ala
M0076829 LJOHHMGN_00028 27435 3 Skin 0.07 protein_coding synonymous_variant LOW 192A>G Val64Val
M0076830 LJOHHMGN_00028 27474 3 Skin 0.07 protein_coding synonymous_variant LOW 231C>A Ala77Ala
M0076831 LJOHHMGN_00029 27533 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -107C>T None
M0076832 LJOHHMGN_00029 27565 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -75A>C None
M0076833 LJOHHMGN_00029 27627 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -13T>C None
M0076834 LJOHHMGN_00029 27723 3 Skin 0.07 protein_coding synonymous_variant LOW 84C>A Val28Val
M0076835 LJOHHMGN_00029 27726 3 Skin 0.07 protein_coding synonymous_variant LOW 87A>G Glu29Glu
M0076836 LJOHHMGN_00029 27732 3 Skin 0.07 protein_coding synonymous_variant LOW 93C>T Val31Val
M0076837 LJOHHMGN_00029 27750 3 Skin 0.07 protein_coding synonymous_variant LOW 111T>C Ala37Ala
M0076838 LJOHHMGN_00029 27753 3 Skin 0.07 protein_coding synonymous_variant LOW 114A>G Thr38Thr
M0076839 LJOHHMGN_00029 27783 4 Skin 0.09 protein_coding synonymous_variant LOW 144T>C Ala48Ala
M0076840 LJOHHMGN_00029 27807 4 Skin 0.09 protein_coding synonymous_variant LOW 168G>C Arg56Arg
M0076841 LJOHHMGN_00029 27825 4 Skin 0.09 protein_coding synonymous_variant LOW 186G>C Thr62Thr
M0076842 LJOHHMGN_00029 27873 4 Skin 0.09 protein_coding synonymous_variant LOW 234T>G Gly78Gly
M0076843 LJOHHMGN_00029 27894 4 Skin 0.09 protein_coding synonymous_variant LOW 255T>C Asp85Asp
M0076844 LJOHHMGN_00029 27921 4 Skin 0.09 protein_coding synonymous_variant LOW 282T>C Asp94Asp
M0076845 LJOHHMGN_00029 28322 3 Skin 0.07 protein_coding missense_variant MODERATE 683C>T Ala228Val
M0076846 LJOHHMGN_00029 28374 3 Skin 0.07 protein_coding synonymous_variant LOW 735G>A Gly245Gly
M0076847 LJOHHMGN_00029 28567 4 Skin 0.09 protein_coding missense_variant MODERATE 928G>A Ala310Thr
M0076848 LJOHHMGN_00029 28569 4 Skin 0.09 protein_coding synonymous_variant LOW 930A>C Ala310Ala
M0076849 LJOHHMGN_00029 28598 3 Skin 0.07 protein_coding missense_variant MODERATE 959G>A Arg320Lys
M0076850 LJOHHMGN_00029 28623 3 Skin 0.07 protein_coding synonymous_variant LOW 984T>A Ala328Ala
M0076851 LJOHHMGN_00029 28625 3 Skin 0.07 protein_coding missense_variant MODERATE 986T>C Val329Ala
M0076852 LJOHHMGN_00029 28652 3 Skin 0.07 protein_coding missense_variant MODERATE 1013G>C Arg338Pro
M0076853 LJOHHMGN_00030 29171 3 Skin 0.07 protein_coding synonymous_variant LOW 471A>G Glu157Glu
M0076854 LJOHHMGN_00030 29272 3 Skin 0.07 protein_coding missense_variant MODERATE 572A>C Asp191Ala
M0076855 LJOHHMGN_00031 29368 3 Skin 0.07 protein_coding synonymous_variant LOW 18C>T Pro6Pro
M0076856 LJOHHMGN_00031 29383 3 Skin 0.07 protein_coding synonymous_variant LOW 33A>C Ala11Ala
M0076857 LJOHHMGN_00031 29449 3 Skin 0.07 protein_coding synonymous_variant LOW 99T>C Val33Val
M0076858 LJOHHMGN_00031 29452 3 Skin 0.07 protein_coding synonymous_variant LOW 102C>T Ala34Ala
M0076859 LJOHHMGN_00031 29542 3 Skin 0.07 protein_coding synonymous_variant LOW 192T>C Ala64Ala
M0076860 LJOHHMGN_00031 29596 3 Skin 0.07 protein_coding synonymous_variant LOW 246T>C Pro82Pro
M0076861 LJOHHMGN_00032 29660 3 Skin 0.07 protein_coding missense_variant MODERATE 62G>A Gly21Asp
M0076862 LJOHHMGN_00032 29767 3 Skin 0.07 protein_coding missense_variant MODERATE 169A>G Ile57Val
M0076863 LJOHHMGN_00032 29778 3 Skin 0.07 protein_coding synonymous_variant LOW 180C>T Arg60Arg
M0076864 LJOHHMGN_00032 29796 3 Skin 0.07 protein_coding synonymous_variant LOW 198A>G Ala66Ala
M0076865 LJOHHMGN_00033 30426 3 Skin 0.07 protein_coding missense_variant MODERATE 310C>G Leu104Val
M0076866 LJOHHMGN_00033 30461 3 Skin 0.07 protein_coding synonymous_variant LOW 345G>C Ala115Ala
M0076867 LJOHHMGN_00033 30464 3 Skin 0.07 protein_coding synonymous_variant LOW 348A>G Gly116Gly
M0076868 LJOHHMGN_00034 30755 3 Skin 0.07 protein_coding missense_variant MODERATE 26A>G His9Arg
M0076869 LJOHHMGN_00034 30781 3 Skin 0.07 protein_coding missense_variant MODERATE 52G>C Val18Leu
M0076870 LJOHHMGN_00034 30789 3 Skin 0.07 protein_coding synonymous_variant LOW 60A>G Thr20Thr
M0076871 LJOHHMGN_00034 30816 3 Skin 0.07 protein_coding synonymous_variant LOW 87T>C Ile29Ile
M0076872 LJOHHMGN_00034 30822 3 Skin 0.07 protein_coding synonymous_variant LOW 93C>G Pro31Pro
M0076873 LJOHHMGN_00034 30828 3 Skin 0.07 protein_coding synonymous_variant LOW 99A>G Glu33Glu
M0076874 LJOHHMGN_00034 31026 3 Skin 0.07 protein_coding synonymous_variant LOW 297T>C Asn99Asn
M0076875 LJOHHMGN_00035 31335 3 Skin 0.07 protein_coding synonymous_variant LOW 255A>C Gly85Gly
M0076876 LJOHHMGN_00043 38873 3 Skin 0.07 protein_coding synonymous_variant LOW 783G>C Arg261Arg
M0076877 LJOHHMGN_00043 39011 3 Skin 0.07 protein_coding synonymous_variant LOW 921T>C Asp307Asp
M0076878 LJOHHMGN_00043 39017 3 Skin 0.07 protein_coding synonymous_variant LOW 927C>A Ser309Ser
M0076879 LJOHHMGN_00043 39047 3 Skin 0.07 protein_coding synonymous_variant LOW 957T>C Leu319Leu
M0076880 LJOHHMGN_00043 39393 3 Skin 0.07 protein_coding missense_variant MODERATE 1303G>T Ala435Ser
M0076881 LJOHHMGN_00043 39431 3 Skin 0.07 protein_coding synonymous_variant LOW 1341T>C Val447Val
M0076882 LJOHHMGN_00043 39468 3 Skin 0.07 protein_coding missense_variant MODERATE 1378A>G Ile460Val
M0076883 LJOHHMGN_00043 39488 3 Skin 0.07 protein_coding synonymous_variant LOW 1398A>G Arg466Arg






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
LJOHHMGN_00035 QJR05564.1|GH23 100 3.54e-169 8 259 0.973 1
LJOHHMGN_00093 QSR17223.1|GT32 92 4.09000000000049e-312 14 465 0.972 1





        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