Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1624
  Reference Plasmid   1111525849481828_bin.38__k141_267882
  Reference Plasmid Size   27228
  Reference Plasmid GC Content   0.31
  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
M0008828 MIGNAEDL_00007 4630 5 Skin 0.63 protein_coding synonymous_variant LOW 540T>C Val180Val
M0008829 MIGNAEDL_00007 4770 5 Skin 0.63 protein_coding synonymous_variant LOW 400T>C Leu134Leu
M0008830 MIGNAEDL_00007 4822 5 Skin 0.63 protein_coding synonymous_variant LOW 348T>C His116His
M0008831 MIGNAEDL_00007 4857 5 Skin 0.63 protein_coding missense_variant MODERATE 313A>G Thr105Ala
M0008832 MIGNAEDL_00007 4939 4 Skin 0.50 protein_coding synonymous_variant LOW 231G>A Lys77Lys
M0008833 MIGNAEDL_00007 5025 4 Skin 0.50 protein_coding missense_variant MODERATE 145A>G Ile49Val
M0008834 MIGNAEDL_00007 5050 4 Skin 0.50 protein_coding synonymous_variant LOW 120A>G Ala40Ala
M0008835 MIGNAEDL_00004 5405 5 Skin 0.63 protein_coding upstream_gene_variant MODIFIER -3392T>C None
M0008836 MIGNAEDL_00010 5988 6 Skin 0.75 protein_coding synonymous_variant LOW 657A>G Lys219Lys
M0008837 MIGNAEDL_00010 6237 3 Skin 0.38 protein_coding synonymous_variant LOW 408G>A Leu136Leu
M0008838 MIGNAEDL_00010 6239 3 Skin 0.38 protein_coding synonymous_variant LOW 406T>C Leu136Leu
M0008839 MIGNAEDL_00010 6259 3 Skin 0.38 protein_coding missense_variant MODERATE 386A>G His129Arg
M0008840 MIGNAEDL_00010 6450 5 Skin 0.63 protein_coding synonymous_variant LOW 195C>T Tyr65Tyr
M0008841 MIGNAEDL_00010 6513 3 Skin 0.38 protein_coding synonymous_variant LOW 132A>C Gly44Gly
M0008842 MIGNAEDL_00010 6528 3 Skin 0.38 protein_coding synonymous_variant LOW 117T>C Asp39Asp
M0008843 MIGNAEDL_00010 6615 5 Skin 0.63 protein_coding missense_variant MODERATE 30C>A Phe10Leu
M0008844 MIGNAEDL_00004 6708 4 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4695A>C None
M0008845 MIGNAEDL_00004 6722 4 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4709G>T None
M0008846 MIGNAEDL_00004 6725 4 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4712T>C None
M0008847 MIGNAEDL_00004 6740 4 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4727T>A None
M0008848 MIGNAEDL_00004 6765 4 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4752A>T None
M0008849 MIGNAEDL_00004 6769 4 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4756C>T None
M0008850 MIGNAEDL_00004 6786 4 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4773A>T None
M0008851 MIGNAEDL_00004 6803 4 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4790A>T None
M0008852 MIGNAEDL_00011 7210 4 Skin 0.50 protein_coding missense_variant MODERATE 188T>C Leu63Pro
M0008853 MIGNAEDL_00011 7220 4 Skin 0.50 protein_coding synonymous_variant LOW 198A>G Gln66Gln
M0008854 MIGNAEDL_00011 7736 3 Skin 0.38 protein_coding synonymous_variant LOW 714A>T Gly238Gly
M0008855 MIGNAEDL_00012 8110 3 Skin 0.38 protein_coding missense_variant MODERATE 193A>G Arg65Gly
M0008856 MIGNAEDL_00012 8716 3 Skin 0.38 protein_coding missense_variant MODERATE 799G>A Gly267Ser
M0008857 MIGNAEDL_00006 3676 3 Skin 0.38 protein_coding synonymous_variant LOW 984C>T Gly328Gly
M0008858 MIGNAEDL_00006 3853 3 Skin 0.38 protein_coding synonymous_variant LOW 1161T>C Phe387Phe
M0008859 MIGNAEDL_00006 3908 3 Skin 0.38 protein_coding missense_variant MODERATE 1216T>C Ser406Pro
M0008860 MIGNAEDL_00006 3932 3 Skin 0.38 protein_coding missense_variant MODERATE 1240G>A Val414Ile
M0008861 MIGNAEDL_00006 3991 3 Skin 0.38 protein_coding synonymous_variant LOW 1299A>G Val433Val
M0008862 MIGNAEDL_00004 4090 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -2077G>T None
M0008863 MIGNAEDL_00004 4114 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -2101T>C None
M0008864 MIGNAEDL_00010 6138 3 Skin 0.38 protein_coding synonymous_variant LOW 507T>C Gly169Gly
M0008865 MIGNAEDL_00007 4546 3 Skin 0.38 protein_coding synonymous_variant LOW 624T>A Thr208Thr
M0008866 MIGNAEDL_00007 4617 3 Skin 0.38 protein_coding missense_variant MODERATE 553A>C Asn185His
M0008867 MIGNAEDL_00007 4618 3 Skin 0.38 protein_coding synonymous_variant LOW 552A>C Thr184Thr
M0008868 MIGNAEDL_00007 4636 3 Skin 0.38 protein_coding synonymous_variant LOW 534C>T Asp178Asp
M0008869 MIGNAEDL_00007 4669 3 Skin 0.38 protein_coding synonymous_variant LOW 501T>A Leu167Leu
M0008870 MIGNAEDL_00007 4888 3 Skin 0.38 protein_coding synonymous_variant LOW 282T>C Ser94Ser
M0008871 MIGNAEDL_00007 5023 3 Skin 0.38 protein_coding missense_variant MODERATE 147A>G Ile49Met
M0008872 MIGNAEDL_00008 5366 3 Skin 0.38 protein_coding start_lost HIGH 1A>G Met1?
M0008873 MIGNAEDL_00004 5385 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3372T>A None
M0008874 MIGNAEDL_00004 5446 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3433G>T None
M0008875 MIGNAEDL_00009 5510 3 Skin 0.38 protein_coding synonymous_variant LOW 336G>A Gln112Gln
M0008876 MIGNAEDL_00009 5555 3 Skin 0.38 protein_coding synonymous_variant LOW 291T>C Val97Val
M0008877 MIGNAEDL_00004 5850 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3837G>A None
M0008878 MIGNAEDL_00004 5869 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3856T>C None
M0008879 MIGNAEDL_00004 5870 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3857T>C None
M0008880 MIGNAEDL_00004 5883 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3870T>A None
M0008881 MIGNAEDL_00004 5888 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3875C>T None
M0008882 MIGNAEDL_00004 5907 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3894T>C None
M0008883 MIGNAEDL_00004 5928 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3915A>G None
M0008884 MIGNAEDL_00004 5929 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3916G>C None
M0008885 MIGNAEDL_00004 5930 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3917C>T None
M0008886 MIGNAEDL_00010 5975 3 Skin 0.38 protein_coding missense_variant MODERATE 670A>C Thr224Pro
M0008887 MIGNAEDL_00010 5976 3 Skin 0.38 protein_coding synonymous_variant LOW 669G>A Gln223Gln
M0008888 MIGNAEDL_00010 6024 3 Skin 0.38 protein_coding synonymous_variant LOW 621G>A Lys207Lys
M0008889 MIGNAEDL_00010 6339 3 Skin 0.38 protein_coding synonymous_variant LOW 306T>C Asn102Asn
M0008890 MIGNAEDL_00010 6352 3 Skin 0.38 protein_coding missense_variant MODERATE 293G>A Arg98His
M0008891 MIGNAEDL_00010 6426 3 Skin 0.38 protein_coding synonymous_variant LOW 219T>C Ser73Ser
M0008892 MIGNAEDL_00010 6444 3 Skin 0.38 protein_coding missense_variant MODERATE 201A>T Gln67His
M0008893 MIGNAEDL_00004 6707 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -4694C>T None
M0008894 MIGNAEDL_00004 6808 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -4795T>C None
M0008895 MIGNAEDL_00004 6970 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -4957A>T None
M0008896 MIGNAEDL_00011 7031 3 Skin 0.38 protein_coding missense_variant MODERATE 9T>A Asn3Lys
M0008897 MIGNAEDL_00011 7065 3 Skin 0.38 protein_coding missense_variant MODERATE 43A>G Asn15Asp
M0008898 MIGNAEDL_00011 7112 3 Skin 0.38 protein_coding synonymous_variant LOW 90T>C Asn30Asn
M0008899 MIGNAEDL_00011 7172 3 Skin 0.38 protein_coding synonymous_variant LOW 150C>A Ile50Ile
M0008900 MIGNAEDL_00011 7187 3 Skin 0.38 protein_coding synonymous_variant LOW 165A>G Glu55Glu
M0008901 MIGNAEDL_00011 7247 3 Skin 0.38 protein_coding missense_variant MODERATE 225T>G Asp75Glu
M0008902 MIGNAEDL_00011 7430 3 Skin 0.38 protein_coding synonymous_variant LOW 408A>G Gly136Gly
M0008903 MIGNAEDL_00011 7433 3 Skin 0.38 protein_coding synonymous_variant LOW 411T>C Ala137Ala
M0008904 MIGNAEDL_00011 7516 3 Skin 0.38 protein_coding missense_variant MODERATE 494G>A Ser165Asn
M0008905 MIGNAEDL_00011 7523 3 Skin 0.38 protein_coding missense_variant MODERATE 501T>A Asn167Lys
M0008906 MIGNAEDL_00011 7598 3 Skin 0.38 protein_coding synonymous_variant LOW 576A>G Val192Val
M0008907 MIGNAEDL_00011 7601 3 Skin 0.38 protein_coding synonymous_variant LOW 579T>A Ile193Ile






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
MIGNAEDL_00019 Ethidium Bromide [class: Phenanthridine], Crystal Violet [class: Triarylmethane], Methyl Viologen [class: Paraquat] 73.1 3.2e-33 1 104 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
MIGNAEDL_00012 PHI:9935 lytR 71.4 2.7e-121 13 313 0.9556 0.9773 nematodes infective endocarditis putative transcriptional regulator 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
MIGNAEDL_00016 AUJ51706.1|GH73 100 8.73e-185 1 263 1 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