Full information on isolate 20230116_DIFT245 (id:5949)
Provenance/primary metadata
- id
- 5949
- isolate
- 20230116_DIFT245
- alias
- DIFT245
- species
- C. diphtheriae
- biovar
- Mitis
- tox gene PCR
- Positive
- tox production Elek
- Positive
- isolation year
- 2022
- city
- 1150
- country
- Belgium
- continent
- Europe
- state or locality
- Brussels-Capital Region
- travel history
- Unknown
- 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
- 16 updates show details
- embargo history
- show details
- date entered
- 2024-08-02
- datestamp
- 2026-07-09
Sequence bin
- method
- Illumina
- contigs
- 84
- total length
- 2,467,237 bp
- max length
- 127,357 bp
- mean length
- 29,372 bp
- N50
- 66,676
- L50
- 13
- N90
- 15,762
- L90
- 42
- N95
- 10,828
- L95
- 51
- %GC
- 53.60
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,297
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_0_10_0
- Species
- C. diphtheriae
- Lineage
- 0_0
- Sublineage
- SL574
- Clonal group
- ClG574
- Genetic cluster
- GC1
| Prefix | Threshold | Matching isolates |
|---|---|---|
| 0_0_85_1_0_0 | 8 | 182 |
| 0_0_85_1_0_0_0 | 4 | 181 |
| 0_0_85_1_0_0_0_0 | 2 | 130 |
| 0_0_85_1_0_0_0_0_10 | 1 | 1 |
| 0_0_85_1_0_0_0_0_10_0 | 0 | 1 |
| 0 | 1220 | 2242 |
| 0_0 | 1035 | 2024 |
| 0_0_85 | 500 | 194 |
| 0_0_85_1 | 55 | 182 |
| 0_0_85_1_0 | 25 | 182 |
| 0_0_85_1_0_0 | 8 | 182 |
| 0_0_85_1_0_0_0 | 4 | 181 |
| 0_0_85_1_0_0_0_0 | 2 | 130 |
| 0_0_85_1_0_0_0_0_10 | 1 | 1 |
| 0_0_85_1_0_0_0_0_10_0 | 0 | 1 |
Schemes and loci
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Tools
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