Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1557
  Reference Plasmid   1111525849480093_bin.42__k141_589286
  Reference Plasmid Size   4361
  Reference Plasmid GC Content   0.43
  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
M0140945 DOPLCMBK_00002 586 5 Vaginal 1.00 protein_coding missense_variant MODERATE 50C>T Pro17Leu
M0140946 DOPLCMBK_00002 628 4 Vaginal 0.80 protein_coding missense_variant MODERATE 8C>T Ala3Val
M0140947 DOPLCMBK_00002 696 4 Vaginal 0.80 protein_coding upstream_gene_variant MODIFIER -61T>C None
M0140948 DOPLCMBK_00002 728 3 Vaginal 0.60 protein_coding upstream_gene_variant MODIFIER -93C>A None
M0140949 DOPLCMBK_00002 933 3 Vaginal 0.60 protein_coding upstream_gene_variant MODIFIER -298T>C None
M0140950 DOPLCMBK_00002 962 5 Vaginal 1.00 protein_coding upstream_gene_variant MODIFIER -327C>A None
M0140951 DOPLCMBK_00003 1099 5 Vaginal 1.00 protein_coding synonymous_variant LOW 39T>A Ser13Ser
M0140952 DOPLCMBK_00003 1191 5 Vaginal 1.00 protein_coding missense_variant MODERATE 131T>C Met44Thr
M0140953 DOPLCMBK_00003 1331 5 Vaginal 1.00 protein_coding missense_variant MODERATE 271G>A Ala91Thr
M0140954 DOPLCMBK_00003 1336 5 Vaginal 1.00 protein_coding synonymous_variant LOW 276A>T Leu92Leu
M0140955 DOPLCMBK_00004 1543 4 Vaginal 0.80 protein_coding synonymous_variant LOW 24T>C Ser8Ser
M0140956 DOPLCMBK_00004 1597 4 Vaginal 0.80 protein_coding synonymous_variant LOW 78A>G Gln26Gln
M0140957 DOPLCMBK_00004 1612 4 Vaginal 0.80 protein_coding synonymous_variant LOW 93G>A Glu31Glu
M0140958 DOPLCMBK_00004 1672 4 Vaginal 0.80 protein_coding missense_variant MODERATE 153G>T Gln51His
M0140959 DOPLCMBK_00004 1783 3 Vaginal 0.60 protein_coding synonymous_variant LOW 264T>C Ala88Ala
M0140960 DOPLCMBK_00004 1984 3 Vaginal 0.60 protein_coding synonymous_variant LOW 465C>T Arg155Arg
M0140961 DOPLCMBK_00004 2057 5 Vaginal 1.00 protein_coding missense_variant MODERATE 538T>G Ser180Ala
M0140962 DOPLCMBK_00004 2059 5 Vaginal 1.00 protein_coding synonymous_variant LOW 540G>A Ser180Ser
M0140963 DOPLCMBK_00004 2062 5 Vaginal 1.00 protein_coding synonymous_variant LOW 543G>T Ser181Ser
M0140964 DOPLCMBK_00004 2077 4 Vaginal 0.80 protein_coding synonymous_variant LOW 558T>C Phe186Phe
M0140965 DOPLCMBK_00004 2080 5 Vaginal 1.00 protein_coding synonymous_variant LOW 561A>G Glu187Glu
M0140966 DOPLCMBK_00004 2087 4 Vaginal 0.80 protein_coding missense_variant MODERATE 568A>G Ser190Gly
M0140967 DOPLCMBK_00004 2131 4 Vaginal 0.80 protein_coding synonymous_variant LOW 612A>C Ile204Ile
M0140968 DOPLCMBK_00004 2279 5 Vaginal 1.00 protein_coding missense_variant MODERATE 760T>G Cys254Gly
M0140969 DOPLCMBK_00004 2340 5 Vaginal 1.00 protein_coding missense_variant MODERATE 821G>A Arg274His
M0140970 DOPLCMBK_00004 2365 3 Vaginal 0.60 protein_coding synonymous_variant LOW 846T>A Gly282Gly
M0140971 DOPLCMBK_00004 2590 3 Vaginal 0.60 protein_coding synonymous_variant LOW 1071A>G Val357Val
M0140972 DOPLCMBK_00004 2593 4 Vaginal 0.80 protein_coding synonymous_variant LOW 1074G>A Leu358Leu
M0140973 DOPLCMBK_00004 2690 3 Vaginal 0.60 protein_coding missense_variant MODERATE 1171T>C Tyr391His
M0140974 DOPLCMBK_00004 2698 5 Vaginal 1.00 protein_coding missense_variant MODERATE 1179G>T Met393Ile
M0140975 DOPLCMBK_00004 2830 4 Vaginal 0.80 protein_coding synonymous_variant LOW 1311T>C Gly437Gly
M0140976 DOPLCMBK_00004 2865 4 Vaginal 0.80 protein_coding missense_variant MODERATE 1346A>G Tyr449Cys
M0140977 DOPLCMBK_00002 1001 4 Vaginal 0.80 protein_coding upstream_gene_variant MODIFIER -366T>G None
M0140978 DOPLCMBK_00002 1024 4 Vaginal 0.80 protein_coding upstream_gene_variant MODIFIER -389T>C None
M0140979 DOPLCMBK_00003 1134 3 Vaginal 0.60 protein_coding missense_variant MODERATE 74T>G Val25Gly
M0140980 DOPLCMBK_00003 1231 4 Vaginal 0.80 protein_coding synonymous_variant LOW 171G>A Thr57Thr
M0140981 DOPLCMBK_00003 1234 3 Vaginal 0.60 protein_coding synonymous_variant LOW 174T>C Ala58Ala
M0140982 DOPLCMBK_00003 1243 3 Vaginal 0.60 protein_coding synonymous_variant LOW 183A>G Lys61Lys
M0140983 DOPLCMBK_00004 1641 3 Vaginal 0.60 protein_coding missense_variant MODERATE 122T>C Val41Ala
M0140984 DOPLCMBK_00004 1642 3 Vaginal 0.60 protein_coding synonymous_variant LOW 123C>T Val41Val
M0140985 DOPLCMBK_00004 1654 3 Vaginal 0.60 protein_coding synonymous_variant LOW 135G>T Thr45Thr
M0140986 DOPLCMBK_00004 1660 4 Vaginal 0.80 protein_coding synonymous_variant LOW 141G>A Glu47Glu
M0140987 DOPLCMBK_00004 1663 4 Vaginal 0.80 protein_coding synonymous_variant LOW 144A>G Gln48Gln
M0140988 DOPLCMBK_00004 1681 3 Vaginal 0.60 protein_coding missense_variant MODERATE 162G>T Met54Ile
M0140989 DOPLCMBK_00004 1684 3 Vaginal 0.60 protein_coding synonymous_variant LOW 165C>T Asp55Asp
M0140990 DOPLCMBK_00004 1687 3 Vaginal 0.60 protein_coding synonymous_variant LOW 168C>T Tyr56Tyr
M0140991 DOPLCMBK_00004 1920 4 Vaginal 0.80 protein_coding missense_variant MODERATE 401G>A Ser134Asn
M0140992 DOPLCMBK_00003 1150 3 Vaginal 0.60 protein_coding synonymous_variant LOW 90C>A Val30Val
M0140993 DOPLCMBK_00004 1921 3 Vaginal 0.60 protein_coding synonymous_variant LOW 402T>C Ser134Ser






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