Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2476
  Reference Plasmid   1111525849768046_bin.37__k141_93472
  Reference Plasmid Size   5667
  Reference Plasmid GC Content   0.39
  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
M0128963 NDIPGBNI_00004 4798 3 Oral 0.38 protein_coding synonymous_variant LOW 796T>C Leu266Leu
M0128964 NDIPGBNI_00004 4865 3 Oral 0.38 protein_coding synonymous_variant LOW 729T>C Gly243Gly
M0128965 NDIPGBNI_00004 5474 3 Oral 0.38 protein_coding synonymous_variant LOW 120C>A Val40Val
M0128966 NDIPGBNI_00001 56 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -37A>C None
M0128967 NDIPGBNI_00001 98 5 Oral 0.63 protein_coding synonymous_variant LOW 6A>T Thr2Thr
M0128968 NDIPGBNI_00001 102 4 Oral 0.50 protein_coding missense_variant MODERATE 10A>G Asn4Asp
M0128969 NDIPGBNI_00001 128 4 Oral 0.50 protein_coding synonymous_variant LOW 36C>T His12His
M0128970 NDIPGBNI_00001 146 3 Oral 0.38 protein_coding synonymous_variant LOW 54T>C Thr18Thr
M0128971 NDIPGBNI_00001 176 3 Oral 0.38 protein_coding synonymous_variant LOW 84G>A Pro28Pro
M0128972 NDIPGBNI_00001 224 5 Oral 0.63 protein_coding synonymous_variant LOW 132C>G Ala44Ala
M0128973 NDIPGBNI_00001 263 4 Oral 0.50 protein_coding synonymous_variant LOW 171A>G Glu57Glu
M0128974 NDIPGBNI_00001 527 5 Oral 0.63 protein_coding synonymous_variant LOW 435T>C Tyr145Tyr
M0128975 NDIPGBNI_00001 528 3 Oral 0.38 protein_coding missense_variant MODERATE 436G>A Asp146Asn
M0128976 NDIPGBNI_00002 835 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -48C>T None
M0128977 NDIPGBNI_00002 954 3 Oral 0.38 protein_coding synonymous_variant LOW 72A>T Thr24Thr
M0128978 NDIPGBNI_00002 972 5 Oral 0.63 protein_coding synonymous_variant LOW 90T>C Val30Val
M0128979 NDIPGBNI_00002 1080 6 Oral 0.75 protein_coding synonymous_variant LOW 198A>G Val66Val
M0128980 NDIPGBNI_00002 1086 6 Oral 0.75 protein_coding synonymous_variant LOW 204G>T Gly68Gly
M0128981 NDIPGBNI_00002 1275 3 Oral 0.38 protein_coding missense_variant MODERATE 393A>G Ile131Met
M0128982 NDIPGBNI_00002 1308 5 Oral 0.63 protein_coding synonymous_variant LOW 426C>T Asp142Asp
M0128983 NDIPGBNI_00002 1344 4 Oral 0.50 protein_coding synonymous_variant LOW 462T>C Ser154Ser
M0128984 NDIPGBNI_00002 1365 5 Oral 0.63 protein_coding synonymous_variant LOW 483C>G Thr161Thr
M0128985 NDIPGBNI_00002 1422 4 Oral 0.50 protein_coding synonymous_variant LOW 540C>T Pro180Pro
M0128986 NDIPGBNI_00002 1521 6 Oral 0.75 protein_coding synonymous_variant LOW 639T>C Gly213Gly
M0128987 NDIPGBNI_00001 1848 6 Oral 0.75 protein_coding downstream_gene_variant MODIFIER *1060C>T None
M0128988 NDIPGBNI_00003 1881 6 Oral 0.75 protein_coding synonymous_variant LOW 2454T>C Phe818Phe
M0128989 NDIPGBNI_00003 2238 3 Oral 0.38 protein_coding synonymous_variant LOW 2097C>T Phe699Phe
M0128990 NDIPGBNI_00003 2310 5 Oral 0.63 protein_coding synonymous_variant LOW 2025A>T Ser675Ser
M0128991 NDIPGBNI_00003 2355 6 Oral 0.75 protein_coding synonymous_variant LOW 1980G>A Gln660Gln
M0128992 NDIPGBNI_00003 2929 4 Oral 0.50 protein_coding missense_variant MODERATE 1406G>A Arg469Lys
M0128993 NDIPGBNI_00003 2994 5 Oral 0.63 protein_coding synonymous_variant LOW 1341C>T Gly447Gly
M0128994 NDIPGBNI_00003 3069 5 Oral 0.63 protein_coding synonymous_variant LOW 1266T>C Ile422Ile
M0128995 NDIPGBNI_00003 3822 3 Oral 0.38 protein_coding synonymous_variant LOW 513T>C Asn171Asn
M0128996 NDIPGBNI_00003 3981 4 Oral 0.50 protein_coding synonymous_variant LOW 354A>G Ser118Ser
M0128997 NDIPGBNI_00003 3987 4 Oral 0.50 protein_coding synonymous_variant LOW 348G>A Val116Val
M0128998 NDIPGBNI_00003 4010 3 Oral 0.38 protein_coding missense_variant MODERATE 325A>G Asn109Asp
M0128999 NDIPGBNI_00003 4311 3 Oral 0.38 protein_coding synonymous_variant LOW 24C>A Ile8Ile
M0129000 NDIPGBNI_00003 4315 4 Oral 0.50 protein_coding missense_variant MODERATE 20T>C Val7Ala
M0129001 NDIPGBNI_00003 4323 4 Oral 0.50 protein_coding synonymous_variant LOW 12A>T Ile4Ile
M0129002 NDIPGBNI_00002 1134 5 Oral 0.63 protein_coding synonymous_variant LOW 252G>A Gln84Gln
M0129003 NDIPGBNI_00002 1137 4 Oral 0.50 protein_coding synonymous_variant LOW 255A>C Thr85Thr
M0129004 NDIPGBNI_00002 1146 3 Oral 0.38 protein_coding synonymous_variant LOW 264A>G Val88Val
M0129005 NDIPGBNI_00002 1155 4 Oral 0.50 protein_coding synonymous_variant LOW 273C>T Pro91Pro
M0129006 NDIPGBNI_00002 1311 4 Oral 0.50 protein_coding synonymous_variant LOW 429C>T Gly143Gly
M0129007 NDIPGBNI_00003 4406 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -72T>G None
M0129008 NDIPGBNI_00003 4453 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -119A>G None
M0129009 NDIPGBNI_00003 4463 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -129T>C None
M0129010 NDIPGBNI_00002 1527 4 Oral 0.50 protein_coding synonymous_variant LOW 645G>A Leu215Leu
M0129011 NDIPGBNI_00003 2091 4 Oral 0.50 protein_coding synonymous_variant LOW 2244A>T Ala748Ala
M0129012 NDIPGBNI_00003 2121 3 Oral 0.38 protein_coding synonymous_variant LOW 2214T>A Thr738Thr
M0129013 NDIPGBNI_00003 2124 3 Oral 0.38 protein_coding synonymous_variant LOW 2211T>C Gly737Gly






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