Full information on isolate 20221107_DIFT217 (id:5927)
Provenance/primary metadata
- id
- 5927
- isolate
- 20221107_DIFT217
- alias
- DIFT217
- species
- C. diphtheriae
- biovar
- Mitis
- tox gene PCR
- Positive
- tox production Elek
- Positive
- isolation year
- 2022
- city
- 1000
- country
- Belgium
- continent
- Europe
- state or locality
- Brussels-Capital Region
- travel history
- Afghanistan
- host
- Human
- source
- Skin lesion
- infection or disease
- Skin 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
- 17 updates show details
- embargo history
- show details
- date entered
- 2024-08-02
- datestamp
- 2026-07-09
Sequence bin
- method
- Illumina
- contigs
- 44
- total length
- 2,474,940 bp
- max length
- 379,570 bp
- mean length
- 56,249 bp
- N50
- 136,949
- L50
- 6
- N90
- 42,311
- L90
- 17
- N95
- 25,893
- L95
- 20
- %GC
- 53.59
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,319
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_85_1_0_0_0_2_0_0
- Species
- C. diphtheriae
- Lineage
- 0_0
- Sublineage
- SL574
- Clonal group
- ClG574
- Genetic cluster
- GC1
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 | 293 (186 isolates) | SL: 698 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 795 (170 isolates) | |
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 293 (186 isolates) | SL: 698 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 795 (170 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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