Full information on isolate 2f1736a7 (id:5985)
Projects
This isolate is a member of the following project:
- 2023_EuropeanWideReemergence_followup
- EU isolates 2023 (Hoefer et al.)
Provenance/primary metadata
- id
- 5985
- isolate
- 2f1736a7
- species
- C. diphtheriae
- tox gene PCR
- Positive
- isolation year
- 2023
- country
- Switzerland
- continent
- Europe
- travel history
- Unknown
- host
- Human
- accession number
- ERS19345113
- sender
- Helena Seth-Smith, University of Zurich
- curator
- Sylvain Brisse, Institut Pasteur, Paris, France (E-mail: sylvain.brisse@pasteur.fr)
- update history
- 5 updates show details
- date entered
- 2024-09-05
- datestamp
- 2024-09-17
Sequence bin
- method
- Illumina
- contigs
- 54
- total length
- 2,439,050 bp
- max length
- 305,519 bp
- mean length
- 45,168 bp
- N50
- 112,328
- L50
- 8
- N90
- 31,058
- L90
- 22
- N95
- 26,186
- L95
- 26
- %GC
- 53.55
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,310
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_97_9_0_0_0_0_0_0
- Species
- C. diphtheriae
- Lineage
- 0_0
- Sublineage
- SL183
- Clonal group
- ClG10239
- Genetic cluster
- GC61
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 | 68 (28 isolates) | SL: 486 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 810 (6 isolates) | |
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 68 (28 isolates) | SL: 486 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 810 (6 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
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