Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C137
  Reference Plasmid   CP088422.1
  Reference Plasmid Size   97218
  Reference Plasmid GC Content   0.48
  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
M0145063 NGLGMHFN_00005 5485 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -1513T>A None
M0145064 NGLGMHFN_00005 5545 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -1573G>A None
M0145065 NGLGMHFN_00014 8715 3 Gut 0.50 protein_coding synonymous_variant LOW 1701T>C Tyr567Tyr
M0145066 NGLGMHFN_00014 8727 3 Gut 0.50 protein_coding synonymous_variant LOW 1689C>T Phe563Phe
M0145067 NGLGMHFN_00014 8859 3 Gut 0.50 protein_coding synonymous_variant LOW 1557T>C Val519Val
M0145068 NGLGMHFN_00014 9198 3 Gut 0.50 protein_coding synonymous_variant LOW 1218G>T Pro406Pro
M0145069 NGLGMHFN_00014 9207 3 Gut 0.50 protein_coding synonymous_variant LOW 1209G>A Thr403Thr
M0145070 NGLGMHFN_00014 9213 3 Gut 0.50 protein_coding synonymous_variant LOW 1203G>A Gly401Gly
M0145071 NGLGMHFN_00014 9555 3 Gut 0.50 protein_coding synonymous_variant LOW 861A>G Ala287Ala
M0145072 NGLGMHFN_00014 9603 3 Gut 0.50 protein_coding missense_variant MODERATE 813T>G Ile271Met
M0145073 NGLGMHFN_00014 9707 3 Gut 0.50 protein_coding missense_variant MODERATE 709G>A Asp237Asn
M0145074 NGLGMHFN_00014 10083 3 Gut 0.50 protein_coding synonymous_variant LOW 333G>A Lys111Lys
M0145075 NGLGMHFN_00014 10241 3 Gut 0.50 protein_coding missense_variant MODERATE 175A>C Lys59Gln
M0145076 NGLGMHFN_00034 27119 3 Gut 0.50 protein_coding missense_variant MODERATE 332C>A Thr111Asn
M0145077 NGLGMHFN_00034 27147 3 Gut 0.50 protein_coding missense_variant MODERATE 304T>C Ser102Pro
M0145078 NGLGMHFN_00034 27151 3 Gut 0.50 protein_coding synonymous_variant LOW 300A>T Ala100Ala
M0145079 NGLGMHFN_00034 27177 3 Gut 0.50 protein_coding missense_variant MODERATE 274A>G Lys92Glu
M0145080 NGLGMHFN_00034 27195 3 Gut 0.50 protein_coding missense_variant MODERATE 256A>G Ser86Gly
M0145081 NGLGMHFN_00034 27235 3 Gut 0.50 protein_coding synonymous_variant LOW 216G>A Thr72Thr
M0145082 NGLGMHFN_00034 27334 3 Gut 0.50 protein_coding synonymous_variant LOW 117G>A Arg39Arg
M0145083 NGLGMHFN_00034 27393 3 Gut 0.50 protein_coding missense_variant MODERATE 58G>A Ala20Thr
M0145084 NGLGMHFN_00034 27402 3 Gut 0.50 protein_coding synonymous_variant LOW 49C>T Leu17Leu
M0145085 NGLGMHFN_00034 27443 3 Gut 0.50 protein_coding missense_variant MODERATE 8A>C Lys3Thr
M0145086 NGLGMHFN_00035 27454 3 Gut 0.50 protein_coding missense_variant MODERATE 215T>G Val72Gly
M0145087 NGLGMHFN_00035 27468 3 Gut 0.50 protein_coding synonymous_variant LOW 201T>C Ala67Ala
M0145088 NGLGMHFN_00035 27484 3 Gut 0.50 protein_coding missense_variant MODERATE 185A>G Asn62Ser
M0145089 NGLGMHFN_00035 27516 3 Gut 0.50 protein_coding synonymous_variant LOW 153T>A Ser51Ser
M0145090 NGLGMHFN_00035 27543 3 Gut 0.50 protein_coding synonymous_variant LOW 126T>C Gly42Gly
M0145091 NGLGMHFN_00030 28000 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -3851C>T None
M0145092 NGLGMHFN_00030 28001 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -3852G>T None
M0145093 NGLGMHFN_00030 28002 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -3853T>A None
M0145094 NGLGMHFN_00030 28005 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -3856G>A None
M0145095 NGLGMHFN_00030 28021 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -3872A>T None
M0145096 NGLGMHFN_00036 28347 3 Gut 0.50 protein_coding synonymous_variant LOW 252A>G Leu84Leu
M0145097 NGLGMHFN_00036 28431 3 Gut 0.50 protein_coding synonymous_variant LOW 336C>T Ile112Ile
M0145098 NGLGMHFN_00036 28443 3 Gut 0.50 protein_coding synonymous_variant LOW 348G>T Gly116Gly
M0145099 NGLGMHFN_00036 28479 3 Gut 0.50 protein_coding synonymous_variant LOW 384T>C Asp128Asp
M0145100 NGLGMHFN_00036 28500 3 Gut 0.50 protein_coding synonymous_variant LOW 405C>T Asp135Asp
M0145101 NGLGMHFN_00036 28512 3 Gut 0.50 protein_coding synonymous_variant LOW 417T>C Asn139Asn
M0145102 NGLGMHFN_00036 28513 3 Gut 0.50 protein_coding missense_variant MODERATE 418G>T Ala140Ser
M0145103 NGLGMHFN_00036 28518 3 Gut 0.50 protein_coding synonymous_variant LOW 423A>G Pro141Pro
M0145104 NGLGMHFN_00036 28557 3 Gut 0.50 protein_coding synonymous_variant LOW 462G>A Glu154Glu
M0145105 NGLGMHFN_00036 28602 3 Gut 0.50 protein_coding synonymous_variant LOW 507T>C Ser169Ser
M0145106 NGLGMHFN_00036 28605 3 Gut 0.50 protein_coding synonymous_variant LOW 510A>G Pro170Pro
M0145107 NGLGMHFN_00036 28608 3 Gut 0.50 protein_coding synonymous_variant LOW 513A>G Glu171Glu
M0145108 NGLGMHFN_00036 28653 3 Gut 0.50 protein_coding synonymous_variant LOW 558G>T Ala186Ala
M0145109 NGLGMHFN_00036 28680 3 Gut 0.50 protein_coding synonymous_variant LOW 585G>A Lys195Lys
M0145110 NGLGMHFN_00036 28686 3 Gut 0.50 protein_coding synonymous_variant LOW 591C>A Gly197Gly
M0145111 NGLGMHFN_00036 28689 3 Gut 0.50 protein_coding synonymous_variant LOW 594A>T Ser198Ser
M0145112 NGLGMHFN_00036 28690 3 Gut 0.50 protein_coding missense_variant MODERATE 595A>C Ile199Leu
M0145113 NGLGMHFN_00036 28698 3 Gut 0.50 protein_coding synonymous_variant LOW 603C>T Thr201Thr
M0145114 NGLGMHFN_00036 28742 3 Gut 0.50 protein_coding splice_region_variant&stop_retained_variant LOW 647A>G Ter216Ter
M0145115 NGLGMHFN_00030 28751 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4602T>C None
M0145116 NGLGMHFN_00030 28755 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4606C>A None
M0145117 NGLGMHFN_00030 28759 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4610A>G None
M0145118 NGLGMHFN_00037 28828 3 Gut 0.50 protein_coding missense_variant MODERATE 21T>A Phe7Leu
M0145119 NGLGMHFN_00037 28832 3 Gut 0.50 protein_coding missense_variant MODERATE 25A>G Ile9Val
M0145120 NGLGMHFN_00037 28852 3 Gut 0.50 protein_coding synonymous_variant LOW 45T>G Pro15Pro
M0145121 NGLGMHFN_00037 28858 3 Gut 0.50 protein_coding synonymous_variant LOW 51G>A Ser17Ser
M0145122 NGLGMHFN_00038 29484 3 Gut 0.50 protein_coding missense_variant MODERATE 142A>T Ile48Phe
M0145123 NGLGMHFN_00038 29521 3 Gut 0.50 protein_coding missense_variant MODERATE 179T>C Val60Ala
M0145124 NGLGMHFN_00038 29684 3 Gut 0.50 protein_coding missense_variant MODERATE 342T>A Asp114Glu
M0145125 NGLGMHFN_00038 29795 3 Gut 0.50 protein_coding synonymous_variant LOW 453T>C Ser151Ser
M0145126 NGLGMHFN_00032 29913 3 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4536C>T None
M0145127 NGLGMHFN_00039 30043 3 Gut 0.50 protein_coding synonymous_variant LOW 124C>T Leu42Leu
M0145128 NGLGMHFN_00039 30084 3 Gut 0.50 protein_coding synonymous_variant LOW 165T>A Gly55Gly
M0145129 NGLGMHFN_00039 30108 3 Gut 0.50 protein_coding synonymous_variant LOW 189T>C Ala63Ala
M0145130 NGLGMHFN_00039 30180 3 Gut 0.50 protein_coding synonymous_variant LOW 261G>A Gln87Gln
M0145131 NGLGMHFN_00039 30268 3 Gut 0.50 protein_coding missense_variant MODERATE 349G>A Gly117Ser
M0145132 NGLGMHFN_00039 30276 3 Gut 0.50 protein_coding synonymous_variant LOW 357T>G Val119Val
M0145133 NGLGMHFN_00039 30348 3 Gut 0.50 protein_coding synonymous_variant LOW 429C>T Ser143Ser
M0145134 NGLGMHFN_00039 30354 3 Gut 0.50 protein_coding synonymous_variant LOW 435T>C Gly145Gly
M0145135 NGLGMHFN_00039 30498 3 Gut 0.50 protein_coding synonymous_variant LOW 579A>G Leu193Leu
M0145136 NGLGMHFN_00040 30685 3 Gut 0.50 protein_coding missense_variant MODERATE 140T>C Val47Ala
M0145137 NGLGMHFN_00041 31906 3 Gut 0.50 protein_coding missense_variant MODERATE 398A>G His133Arg
M0145138 NGLGMHFN_00041 32888 3 Gut 0.50 protein_coding synonymous_variant LOW 1380T>C Ser460Ser
M0145139 NGLGMHFN_00046 38743 3 Gut 0.50 protein_coding synonymous_variant LOW 696T>C Ser232Ser






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
NGLGMHFN_00041 AZH90090.1|GH23 100 0 1 1130 1 1
NGLGMHFN_00070 AJS09995.1|GH24 100 4.67e-139 1 185 1 1
NGLGMHFN_00073 AYL89119.1|GH24 96.6 0 1753 2255 0.2231 0.9031





        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
NGLGMHFN_00059 1.E.4.1.1 100 1.3e-54 1 109 1.0000 1.0000 1 Channels/Pores 1.E Holins 1.E.4 The LydA Holin (LydA Holin) Family