Full information on isolate 20230116_DIFT238 (id:5944)
Provenance/primary metadata
- id
- 5944
- isolate
- 20230116_DIFT238
- alias
- DIFT238
- species
- C. diphtheriae
- biovar
- Mitis
- tox gene PCR
- Positive
- tox production Elek
- Positive
- isolation year
- 2022
- city
- 1030
- country
- Belgium
- continent
- Europe
- state or locality
- Brussels-Capital Region
- travel history
- Afghanistan
- host
- Human
- source
- Skin lesion
- infection or disease
- Lower limb lesion
- comments
- Refugee
- epidemic cluster
- J
- sender
- Helena Martini
- curator
- Helena Martini, Laboratorium Microbiologie, Universitair Ziekenhuis Brussel, Belgium (E-mail: Helena.Martini@uzbrussel.be)
- update history
- 14 updates show details
- embargo history
- show details
- date entered
- 2024-08-02
- datestamp
- 2026-07-09
Sequence bin
- method
- Illumina
- contigs
- 80
- total length
- 2,495,391 bp
- max length
- 109,698 bp
- mean length
- 31,193 bp
- N50
- 52,147
- L50
- 18
- N90
- 19,906
- L90
- 48
- N95
- 14,275
- L95
- 55
- %GC
- 53.51
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,300
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_0_0_0_0_0_0
- Species
- C. diphtheriae
- Lineage
- 0_0
- Sublineage
- SL377
- Clonal group
- ClG377
- Genetic cluster
- GC9
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 | 671 (22 isolates) | |
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 38 (183 isolates) | SL: 377 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 671 (22 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
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