Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1180
  Reference Plasmid   NZ_CP128965.1
  Reference Plasmid Size   95639
  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
M0199297 NLJEHEAK_00072 54807 3 Gut 1.00 protein_coding missense_variant MODERATE 216G>T Gln72His
M0199298 NLJEHEAK_00072 54828 3 Gut 1.00 protein_coding synonymous_variant LOW 237A>G Gly79Gly
M0199299 NLJEHEAK_00072 54846 3 Gut 1.00 protein_coding synonymous_variant LOW 255C>T Cys85Cys
M0199300 NLJEHEAK_00072 54883 3 Gut 1.00 protein_coding missense_variant MODERATE 292T>C Trp98Arg
M0199301 NLJEHEAK_00072 54939 3 Gut 1.00 protein_coding synonymous_variant LOW 348G>A Ala116Ala
M0199302 NLJEHEAK_00072 54972 3 Gut 1.00 protein_coding synonymous_variant LOW 381C>A Arg127Arg
M0199303 NLJEHEAK_00072 55121 3 Gut 1.00 protein_coding missense_variant MODERATE 530A>G Asp177Gly
M0199304 NLJEHEAK_00072 55136 3 Gut 1.00 protein_coding missense_variant MODERATE 545A>G His182Arg
M0199305 NLJEHEAK_00074 55684 3 Gut 1.00 protein_coding missense_variant MODERATE 192C>A Ser64Arg
M0199306 NLJEHEAK_00074 55798 3 Gut 1.00 protein_coding synonymous_variant LOW 78A>G Pro26Pro
M0199307 NLJEHEAK_00074 56704 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -829T>C None
M0199308 NLJEHEAK_00074 56735 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -860G>A None
M0199309 NLJEHEAK_00077 56774 3 Gut 1.00 protein_coding synonymous_variant LOW 30T>C Arg10Arg
M0199310 NLJEHEAK_00078 56971 3 Gut 1.00 protein_coding synonymous_variant LOW 6A>G Arg2Arg
M0199311 NLJEHEAK_00078 56993 3 Gut 1.00 protein_coding missense_variant MODERATE 28G>A Val10Ile
M0199312 NLJEHEAK_00078 57018 3 Gut 1.00 protein_coding missense_variant MODERATE 53G>A Ser18Asn
M0199313 NLJEHEAK_00078 57037 3 Gut 1.00 protein_coding synonymous_variant LOW 72T>G Pro24Pro
M0199314 NLJEHEAK_00078 57040 3 Gut 1.00 protein_coding synonymous_variant LOW 75C>A Gly25Gly
M0199315 NLJEHEAK_00078 57209 3 Gut 1.00 protein_coding synonymous_variant LOW 244C>T Leu82Leu
M0199316 NLJEHEAK_00078 57268 3 Gut 1.00 protein_coding synonymous_variant LOW 303T>C Thr101Thr
M0199317 NLJEHEAK_00078 57274 3 Gut 1.00 protein_coding synonymous_variant LOW 309C>G Gly103Gly
M0199318 NLJEHEAK_00078 57283 3 Gut 1.00 protein_coding synonymous_variant LOW 318T>A Thr106Thr
M0199319 NLJEHEAK_00078 57286 3 Gut 1.00 protein_coding synonymous_variant LOW 321C>A Gly107Gly
M0199320 NLJEHEAK_00078 57337 3 Gut 1.00 protein_coding synonymous_variant LOW 372T>C Ser124Ser
M0199321 NLJEHEAK_00079 57359 3 Gut 1.00 protein_coding synonymous_variant LOW 9C>T Arg3Arg
M0199322 NLJEHEAK_00079 57420 3 Gut 1.00 protein_coding missense_variant MODERATE 70A>G Lys24Glu
M0199323 NLJEHEAK_00079 57455 3 Gut 1.00 protein_coding synonymous_variant LOW 105A>T Gly35Gly
M0199324 NLJEHEAK_00079 57457 3 Gut 1.00 protein_coding missense_variant MODERATE 107T>C Val36Ala
M0199325 NLJEHEAK_00074 57546 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -1671A>C None
M0199326 NLJEHEAK_00080 57587 3 Gut 1.00 protein_coding synonymous_variant LOW 30G>A Gln10Gln
M0199327 NLJEHEAK_00080 57600 3 Gut 1.00 protein_coding missense_variant MODERATE 43C>G Leu15Val
M0199328 NLJEHEAK_00080 57635 3 Gut 1.00 protein_coding synonymous_variant LOW 78A>G Lys26Lys
M0199329 NLJEHEAK_00080 57662 3 Gut 1.00 protein_coding synonymous_variant LOW 105C>T Ile35Ile






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
NLJEHEAK_00005 SPE01079.1|GH23 99.9 0 1 1130 1 1
NLJEHEAK_00096 AYL89119.1|GH24 97 0 1753 2255 0.2231 0.9031
NLJEHEAK_00099 AJS09995.1|GH24 100 4.67e-139 1 185 1 1





        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
NLJEHEAK_00109 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