Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2699
  Reference Plasmid   1111525849860954_bin.4__k141_157947
  Reference Plasmid Size   1942
  Reference Plasmid GC Content   0.56
  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
M0131107 NAMCKBOM_00001 59 3 Oral 0.75 protein_coding synonymous_variant LOW 42C>T Arg14Arg
M0131108 NAMCKBOM_00001 82 4 Oral 1.00 protein_coding missense_variant MODERATE 65T>C Val22Ala
M0131109 NAMCKBOM_00001 127 4 Oral 1.00 protein_coding missense_variant MODERATE 110C>A Thr37Asn
M0131110 NAMCKBOM_00001 188 4 Oral 1.00 protein_coding synonymous_variant LOW 171A>T Thr57Thr
M0131111 NAMCKBOM_00001 245 4 Oral 1.00 protein_coding missense_variant MODERATE 228A>G Ile76Met
M0131112 NAMCKBOM_00001 278 3 Oral 0.75 protein_coding synonymous_variant LOW 261G>C Leu87Leu
M0131113 NAMCKBOM_00001 302 3 Oral 0.75 protein_coding synonymous_variant LOW 285C>T Phe95Phe
M0131114 NAMCKBOM_00001 306 3 Oral 0.75 protein_coding missense_variant MODERATE 289G>A Val97Ile
M0131115 NAMCKBOM_00001 317 4 Oral 1.00 protein_coding synonymous_variant LOW 300C>T Leu100Leu
M0131116 NAMCKBOM_00001 389 4 Oral 1.00 protein_coding synonymous_variant LOW 372A>G Ala124Ala
M0131117 NAMCKBOM_00001 414 4 Oral 1.00 protein_coding missense_variant MODERATE 397A>G Ile133Val
M0131118 NAMCKBOM_00001 452 4 Oral 1.00 protein_coding synonymous_variant LOW 435T>C Ile145Ile
M0131119 NAMCKBOM_00001 539 4 Oral 1.00 protein_coding synonymous_variant LOW 522T>C Gly174Gly
M0131120 NAMCKBOM_00001 575 4 Oral 1.00 protein_coding synonymous_variant LOW 558C>T Phe186Phe
M0131121 NAMCKBOM_00001 582 4 Oral 1.00 protein_coding missense_variant MODERATE 565C>T Leu189Phe
M0131122 NAMCKBOM_00001 599 4 Oral 1.00 protein_coding synonymous_variant LOW 582T>C Ile194Ile
M0131123 NAMCKBOM_00001 674 4 Oral 1.00 protein_coding synonymous_variant LOW 657C>G Ser219Ser
M0131124 NAMCKBOM_00001 683 4 Oral 1.00 protein_coding synonymous_variant LOW 666T>A Arg222Arg
M0131125 NAMCKBOM_00001 686 4 Oral 1.00 protein_coding synonymous_variant LOW 669A>T Ala223Ala
M0131126 NAMCKBOM_00001 713 4 Oral 1.00 protein_coding synonymous_variant LOW 696C>T Leu232Leu
M0131127 NAMCKBOM_00001 794 4 Oral 1.00 protein_coding synonymous_variant LOW 777C>T Arg259Arg
M0131128 NAMCKBOM_00001 809 4 Oral 1.00 protein_coding synonymous_variant LOW 792T>A Ser264Ser
M0131129 NAMCKBOM_00001 824 4 Oral 1.00 protein_coding synonymous_variant LOW 807T>C Pro269Pro
M0131130 NAMCKBOM_00001 830 4 Oral 1.00 protein_coding synonymous_variant LOW 813G>A Thr271Thr
M0131131 NAMCKBOM_00001 849 4 Oral 1.00 protein_coding missense_variant MODERATE 832G>A Ala278Thr
M0131132 NAMCKBOM_00001 857 4 Oral 1.00 protein_coding synonymous_variant LOW 840T>A Ala280Ala
M0131133 NAMCKBOM_00001 858 4 Oral 1.00 protein_coding missense_variant MODERATE 841A>G Thr281Ala
M0131134 NAMCKBOM_00001 890 4 Oral 1.00 protein_coding synonymous_variant LOW 873A>G Gly291Gly
M0131135 NAMCKBOM_00001 893 4 Oral 1.00 protein_coding synonymous_variant LOW 876A>T Arg292Arg
M0131136 NAMCKBOM_00001 894 4 Oral 1.00 protein_coding missense_variant MODERATE 877A>G Thr293Ala
M0131137 NAMCKBOM_00001 916 4 Oral 1.00 protein_coding missense_variant MODERATE 899A>G Lys300Arg
M0131138 NAMCKBOM_00001 917 4 Oral 1.00 protein_coding synonymous_variant LOW 900A>G Lys300Lys
M0131139 NAMCKBOM_00001 947 3 Oral 0.75 protein_coding synonymous_variant LOW 930C>T Gly310Gly
M0131140 NAMCKBOM_00001 966 3 Oral 0.75 protein_coding missense_variant MODERATE 949G>T Ala317Ser
M0131141 NAMCKBOM_00001 978 4 Oral 1.00 protein_coding missense_variant MODERATE 961A>G Arg321Gly
M0131142 NAMCKBOM_00001 980 3 Oral 0.75 protein_coding synonymous_variant LOW 963A>G Arg321Arg
M0131143 NAMCKBOM_00001 983 3 Oral 0.75 protein_coding synonymous_variant LOW 966T>A Gly322Gly
M0131144 NAMCKBOM_00001 1004 4 Oral 1.00 protein_coding synonymous_variant LOW 987A>G Ala329Ala
M0131145 NAMCKBOM_00001 1030 4 Oral 1.00 protein_coding missense_variant MODERATE 1013G>C Gly338Ala
M0131146 NAMCKBOM_00001 1046 3 Oral 0.75 protein_coding synonymous_variant LOW 1029T>C Ser343Ser
M0131147 NAMCKBOM_00001 1073 3 Oral 0.75 protein_coding synonymous_variant LOW 1056A>G Ser352Ser
M0131148 NAMCKBOM_00001 1091 3 Oral 0.75 protein_coding synonymous_variant LOW 1074C>T Leu358Leu
M0131149 NAMCKBOM_00001 1112 3 Oral 0.75 protein_coding synonymous_variant LOW 1095C>T Tyr365Tyr
M0131150 NAMCKBOM_00001 1118 3 Oral 0.75 protein_coding synonymous_variant LOW 1101C>A Arg367Arg
M0131151 NAMCKBOM_00001 1121 3 Oral 0.75 protein_coding synonymous_variant LOW 1104C>T Cys368Cys
M0131152 NAMCKBOM_00001 1148 4 Oral 1.00 protein_coding synonymous_variant LOW 1131T>C Pro377Pro
M0131153 NAMCKBOM_00001 1169 3 Oral 0.75 protein_coding synonymous_variant LOW 1152C>T Pro384Pro
M0131154 NAMCKBOM_00001 1175 3 Oral 0.75 protein_coding synonymous_variant LOW 1158G>A Val386Val
M0131155 NAMCKBOM_00001 1190 3 Oral 0.75 protein_coding synonymous_variant LOW 1173A>G Leu391Leu
M0131156 NAMCKBOM_00001 1193 3 Oral 0.75 protein_coding synonymous_variant LOW 1176A>G Ala392Ala
M0131157 NAMCKBOM_00001 545 3 Oral 0.75 protein_coding synonymous_variant LOW 528A>T Gly176Gly






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