Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C297
  Reference Plasmid   NC_010864.1
  Reference Plasmid Size   11661
  Reference Plasmid GC Content   0.34
  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
M0151404 NGNEIIGH_00002 1011 28 Gut 0.70 protein_coding upstream_gene_variant MODIFIER -725C>T None
M0151405 NGNEIIGH_00009 9546 16 Gut 0.40 protein_coding synonymous_variant LOW 282C>T Val94Val
M0151406 NGNEIIGH_00009 9561 16 Gut 0.40 protein_coding synonymous_variant LOW 297C>A Gly99Gly
M0151407 NGNEIIGH_00009 9562 16 Gut 0.40 protein_coding synonymous_variant LOW 298T>C Leu100Leu
M0151408 NGNEIIGH_00009 9592 17 Gut 0.43 protein_coding missense_variant MODERATE 328A>G Ile110Val
M0151409 NGNEIIGH_00009 9646 18 Gut 0.45 protein_coding synonymous_variant LOW 382T>C Leu128Leu
M0151410 NGNEIIGH_00009 9648 18 Gut 0.45 protein_coding synonymous_variant LOW 384A>G Leu128Leu
M0151411 NGNEIIGH_00009 9792 17 Gut 0.43 protein_coding synonymous_variant LOW 528G>A Ala176Ala
M0151412 NGNEIIGH_00009 9885 17 Gut 0.43 protein_coding synonymous_variant LOW 621A>G Gln207Gln
M0151413 NGNEIIGH_00009 9956 18 Gut 0.45 protein_coding missense_variant MODERATE 692T>C Leu231Ser
M0151414 NGNEIIGH_00009 10056 17 Gut 0.43 protein_coding synonymous_variant LOW 792C>A Gly264Gly
M0151415 NGNEIIGH_00009 10068 17 Gut 0.43 protein_coding synonymous_variant LOW 804T>C His268His
M0151416 NGNEIIGH_00009 10128 18 Gut 0.45 protein_coding synonymous_variant LOW 864A>G Glu288Glu
M0151417 NGNEIIGH_00009 10134 18 Gut 0.45 protein_coding synonymous_variant LOW 870T>C Ile290Ile
M0151418 NGNEIIGH_00013 11142 32 Gut 0.80 protein_coding missense_variant MODERATE 175G>A Glu59Lys
M0151419 NGNEIIGH_00013 11411 30 Gut 0.75 protein_coding synonymous_variant LOW 444A>G Gly148Gly
M0151420 NGNEIIGH_00013 11412 30 Gut 0.75 protein_coding missense_variant MODERATE 445G>A Val149Ile
M0151421 NGNEIIGH_00005 11605 26 Gut 0.65 protein_coding downstream_gene_variant MODIFIER *4228C>A None
M0151422 NGNEIIGH_00005 11623 26 Gut 0.65 protein_coding downstream_gene_variant MODIFIER *4246G>A None
M0151423 NGNEIIGH_00005 11624 26 Gut 0.65 protein_coding downstream_gene_variant MODIFIER *4247G>A None
M0151424 NGNEIIGH_00007 8293 3 Gut 0.08 protein_coding missense_variant MODERATE 299A>G Asn100Ser
M0151425 NGNEIIGH_00007 8347 3 Gut 0.08 protein_coding missense_variant MODERATE 353G>A Arg118His
M0151426 NGNEIIGH_00007 8448 3 Gut 0.08 protein_coding missense_variant MODERATE 454A>C Lys152Gln
M0151427 NGNEIIGH_00007 8471 3 Gut 0.08 protein_coding synonymous_variant LOW 477T>G Ala159Ala
M0151428 NGNEIIGH_00007 8506 3 Gut 0.08 protein_coding missense_variant MODERATE 512C>T Ala171Val
M0151429 NGNEIIGH_00007 8558 4 Gut 0.10 protein_coding synonymous_variant LOW 564A>G Lys188Lys
M0151430 NGNEIIGH_00007 8643 4 Gut 0.10 protein_coding missense_variant MODERATE 649T>C Tyr217His
M0151431 NGNEIIGH_00007 8658 4 Gut 0.10 protein_coding missense_variant MODERATE 664G>A Asp222Asn
M0151432 NGNEIIGH_00008 8750 4 Gut 0.10 protein_coding missense_variant MODERATE 74T>G Phe25Cys
M0151433 NGNEIIGH_00008 8786 5 Gut 0.13 protein_coding missense_variant MODERATE 110G>T Gly37Val
M0151434 NGNEIIGH_00008 8801 5 Gut 0.13 protein_coding missense_variant MODERATE 125A>G Asp42Gly
M0151435 NGNEIIGH_00008 8824 5 Gut 0.13 protein_coding missense_variant MODERATE 148A>G Lys50Glu
M0151436 NGNEIIGH_00009 8984 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -281A>C None
M0151437 NGNEIIGH_00009 8985 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -280G>C None
M0151438 NGNEIIGH_00009 8988 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -277T>C None
M0151439 NGNEIIGH_00009 9021 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -244A>C None
M0151440 NGNEIIGH_00009 9030 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -235G>A None
M0151441 NGNEIIGH_00009 9048 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -217G>A None
M0151442 NGNEIIGH_00009 9083 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -182A>C None
M0151443 NGNEIIGH_00009 9084 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -181C>G None
M0151444 NGNEIIGH_00009 9090 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -175G>T None
M0151445 NGNEIIGH_00009 9092 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -173A>G None
M0151446 NGNEIIGH_00009 9097 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -168C>T None
M0151447 NGNEIIGH_00009 9120 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -145T>C None
M0151448 NGNEIIGH_00009 9123 9 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -142G>A None
M0151449 NGNEIIGH_00009 9163 8 Gut 0.20 protein_coding upstream_gene_variant MODIFIER -102A>G None
M0151450 NGNEIIGH_00009 9262 13 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -3T>C None
M0151451 NGNEIIGH_00009 9372 15 Gut 0.38 protein_coding synonymous_variant LOW 108A>G Ala36Ala
M0151452 NGNEIIGH_00009 9426 16 Gut 0.40 protein_coding synonymous_variant LOW 162T>G Ser54Ser
M0151453 NGNEIIGH_00009 9441 16 Gut 0.40 protein_coding synonymous_variant LOW 177T>C Tyr59Tyr
M0151454 NGNEIIGH_00010 10284 3 Gut 0.08 protein_coding missense_variant MODERATE 32C>A Ala11Glu






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
NGNEIIGH_00001 ARO:3002629 73 2.5e-158 1 281 0.9757 0.9860 aminoglycoside antibiotic ANT(6) antibiotic inactivation
NGNEIIGH_00007 ARO:3000375 97.1 5.38e-172 1 245 1.0000 0.9879 macrolide antibiotic Erm 23S ribosomal RNA methyltransferase antibiotic target alteration






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