Full information on isolate FRC1847 (id:3486)
Projects
This isolate is a member of the following project:
- 2023_EuropeanWideReemergence_followup
- EU isolates 2023 (Hoefer et al.)
Provenance/primary metadata
- id
- 3486
- isolate
- FRC1847
- species
- C. diphtheriae
- biovar
- Mitis
- tox gene PCR
- Positive
- tox production Elek
- Positive
- isolation year
- 2023
- country
- France
- continent
- Europe
- state or locality
- Mainland France
- travel history
- Afghanistan
- host
- Human
- source
- Cutaneous and soft tissue
- infection or disease
- Cutaneous and soft tissue infection
- other source info
- Wound
- comments
- Originally from Afghanistan
- accession number
- ERR13801620
- sender
- Virginie Passet, Institut Pasteur, France
- curator
- Sylvain Brisse, Institut Pasteur, Paris, France (E-mail: sylvain.brisse@pasteur.fr)
- update history
- 6 updates show details
- embargo history
- show details
- date entered
- 2023-03-06
- datestamp
- 2025-04-30
Sequence bin
- method
- Unknown
- contigs
- 50
- total length
- 2,445,114 bp
- max length
- 508,921 bp
- mean length
- 48,903 bp
- N50
- 131,348
- L50
- 4
- N90
- 33,477
- L90
- 17
- N95
- 23,340
- L95
- 21
- %GC
- 53.54
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,312
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | ||
| Minimum N50 | ||
| %GC |
Similar isolates (determined by LIN codes)
- Scheme
- cgMLST
- LIN code
- 0_0_21_0_4_0_0_0_2_0
- Species
- C. diphtheriae
- Lineage
- 0_0
- Sublineage
- SL377
- Clonal group
- ClG377
- Genetic cluster
- GC2
Similar isolates (determined by classification schemes)
Experimental schemes are subject to change and are not a stable part of the nomenclature.
| Classification scheme | Underlying scheme | Clustering method | Mismatch threshold | Status | Group | Fields |
|---|---|---|---|---|---|---|
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 38 (183 isolates) | SL: 377 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 817 (142 isolates) | |
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 38 (183 isolates) | SL: 377 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 817 (142 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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