Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1012
  Reference Plasmid   NZ_CP094386.1
  Reference Plasmid Size   88918
  Reference Plasmid GC Content   0.42
  Reference Plasmid Mobility Type   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
M0140915 GANCEPPA_00092 84246 3 Oral 0.60 protein_coding synonymous_variant LOW 138G>A Lys46Lys
M0140916 GANCEPPA_00092 84342 4 Oral 0.80 protein_coding splice_region_variant&stop_retained_variant LOW 234G>A Ter78Ter
M0140917 GANCEPPA_00086 84386 5 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -2516G>T None
M0140918 GANCEPPA_00093 84445 5 Oral 1.00 protein_coding missense_variant MODERATE 780G>C Trp260Cys
M0140919 GANCEPPA_00093 84549 3 Oral 0.60 protein_coding missense_variant MODERATE 676G>A Asp226Asn
M0140920 GANCEPPA_00093 84827 5 Oral 1.00 protein_coding missense_variant MODERATE 398A>G Asn133Ser
M0140921 GANCEPPA_00093 85072 3 Oral 0.60 protein_coding synonymous_variant LOW 153C>T Gly51Gly
M0140922 GANCEPPA_00093 85142 5 Oral 1.00 protein_coding missense_variant MODERATE 83T>C Val28Ala
M0140923 GANCEPPA_00093 85205 3 Oral 0.60 protein_coding missense_variant MODERATE 20A>G Asn7Ser
M0140924 GANCEPPA_00094 85230 5 Oral 1.00 protein_coding missense_variant MODERATE 818A>T Asp273Val
M0140925 GANCEPPA_00094 85241 5 Oral 1.00 protein_coding missense_variant MODERATE 807G>T Glu269Asp
M0140926 GANCEPPA_00094 85249 3 Oral 0.60 protein_coding missense_variant MODERATE 799G>T Asp267Tyr
M0140927 GANCEPPA_00094 85560 4 Oral 0.80 protein_coding missense_variant MODERATE 488C>T Ala163Val
M0140928 GANCEPPA_00094 85814 3 Oral 0.60 protein_coding synonymous_variant LOW 234C>T Ser78Ser
M0140929 GANCEPPA_00094 85841 3 Oral 0.60 protein_coding synonymous_variant LOW 207C>T Asp69Asp
M0140930 GANCEPPA_00095 86109 5 Oral 1.00 protein_coding synonymous_variant LOW 709T>C Leu237Leu
M0140931 GANCEPPA_00095 86147 4 Oral 0.80 protein_coding missense_variant MODERATE 671C>T Pro224Leu
M0140932 GANCEPPA_00095 86187 3 Oral 0.60 protein_coding missense_variant MODERATE 631G>A Ala211Thr
M0140933 GANCEPPA_00095 86224 5 Oral 1.00 protein_coding synonymous_variant LOW 594G>A Leu198Leu
M0140934 GANCEPPA_00095 86583 5 Oral 1.00 protein_coding missense_variant MODERATE 235G>T Gly79Cys
M0140935 GANCEPPA_00095 86623 5 Oral 1.00 protein_coding synonymous_variant LOW 195G>T Ser65Ser
M0140936 GANCEPPA_00095 86693 5 Oral 1.00 protein_coding missense_variant MODERATE 125C>T Thr42Met
M0140937 GANCEPPA_00095 86754 5 Oral 1.00 protein_coding missense_variant MODERATE 64T>A Phe22Ile
M0140938 GANCEPPA_00096 86826 5 Oral 1.00 protein_coding missense_variant MODERATE 591G>C Arg197Ser
M0140939 GANCEPPA_00096 86846 5 Oral 1.00 protein_coding synonymous_variant LOW 571A>C Arg191Arg
M0140940 GANCEPPA_00096 86849 5 Oral 1.00 protein_coding missense_variant MODERATE 568C>A Gln190Lys
M0140941 GANCEPPA_00096 86902 5 Oral 1.00 protein_coding missense_variant MODERATE 515C>T Ser172Leu
M0140942 GANCEPPA_00096 87219 3 Oral 0.60 protein_coding synonymous_variant LOW 198C>T Ile66Ile
M0140943 GANCEPPA_00096 87254 3 Oral 0.60 protein_coding missense_variant MODERATE 163G>A Ala55Thr
M0140944 GANCEPPA_00096 87290 5 Oral 1.00 protein_coding synonymous_variant LOW 127C>T Leu43Leu






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
GANCEPPA_00015 VFG005844 Capsule 93.4 4e-235 1 471 1.0 1 Immune modulation polysaccharide biosynthesis C-terminal domain-containing protein prediction
GANCEPPA_00038 VFG006022 Capsule 78.3 2.6e-167 2 342 0.9971 0.9799 Immune modulation dTDP-glucose 4,6-dehydratase prediction
HFCABHHH_00015 VFG005844 Capsule 93.4 4e-235 1 471 1.0 1 Immune modulation polysaccharide biosynthesis C-terminal domain-containing protein prediction
HFCABHHH_00038 VFG006022 Capsule 78.3 2.6e-167 2 342 0.9971 0.9799 Immune modulation dTDP-glucose 4,6-dehydratase prediction







        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
GANCEPPA_00001 ARQ94393.1|GT14 98.9 1.58e-196 1 267 0.9852 0.978
GANCEPPA_00002 AGL62902.2|GH36 98.3 3.96e-163 12 240 0.9542 0.7411
GANCEPPA_00006 QAR88772.1|GT2 98.6 1.53e-204 1 283 1 1
GANCEPPA_00012 AGL62902.2|GH36 99.7 4.3e-224 1 309 1 1
GANCEPPA_00013 AGL65748.2|CBM50 100 2.92e-103 1 152 0.4967 0.8889
GANCEPPA_00019 UUV95576.1|GT2 97.9 2.25e-201 1 281 0.9965 0.8781
GANCEPPA_00027 AGL62902.2|GH36 96.6 7.33e-161 1 238 0.8686 0.7702
GANCEPPA_00032 QFV01131.1|GT4 98.1 1.39e-252 1 359 1 1
GANCEPPA_00034 QBA78937.1|GT2 99.6 5.36e-187 19 280 0.9357 0.8291
HFCABHHH_00001 ARQ94393.1|GT14 98.9 1.58e-196 1 267 0.9852 0.978
HFCABHHH_00002 AGL62902.2|GH36 98.3 3.96e-163 12 240 0.9542 0.7411
HFCABHHH_00006 QAR88772.1|GT2 98.6 1.53e-204 1 283 1 1
HFCABHHH_00012 AGL62902.2|GH36 99.7 4.3e-224 1 309 1 1
HFCABHHH_00013 AGL65748.2|CBM50 100 2.92e-103 1 152 0.4967 0.8889
HFCABHHH_00019 UUV95576.1|GT2 97.9 2.25e-201 1 281 0.9965 0.8781
HFCABHHH_00027 AGL62902.2|GH36 96.6 7.33e-161 1 238 0.8686 0.7702
HFCABHHH_00032 QFV01131.1|GT4 98.1 1.39e-252 1 359 1 1
HFCABHHH_00034 QBA78937.1|GT2 99.6 5.36e-187 19 280 0.9357 0.8291





        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
GANCEPPA_00015 2.A.66.2.16 92.8 4.6e-234 1 471 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.66 The Multidrug/Oligosaccharidyl-lipid/Polysaccharide (MOP) Flippase Superfamily
HFCABHHH_00015 2.A.66.2.16 92.8 4.6e-234 1 471 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.66 The Multidrug/Oligosaccharidyl-lipid/Polysaccharide (MOP) Flippase Superfamily