Full information on isolate ALG5946-99 (id:302)
Projects (2)
This isolate is a member of the following projects:
Hennart_diphtOscan_2023_OtherIsolates public
Publicly-available genomes and isolates from the French NRC (2018-2021)
1,250 isolates
DelgadoBlas_LINcodes_2025 public
Dataset of 1,665 isolates of C. diphtheriae, C. belfantii and C. rouxii used for the population structure analysis of C. diphtheriae sensu lato.
1,665 isolates
Provenance/primary metadata
- id
- 302
- isolate
- ALG5946-99
- species
- C. diphtheriae
- biovar
- Mitis
- tox gene PCR
- Positive
- tox production Elek
- Positive
- isolation year
- 1999
- city
- Djelfa
- country
- Algeria
- continent
- Africa
- travel history
- Not documented
- host
- Human
- source
- throat
- accession number
- ERS14652055
- sender
- Melody Dazas, Institut Pasteur
- curator
- Sylvain Brisse, Institut Pasteur, Paris, France (E-mail: sylvain.brisse@pasteur.fr)
- update history
- 16 updates show details
- embargo history
- show details
- date entered
- 2018-02-20
- datestamp
- 2025-09-10
Sequence bin
- method
- Illumina
- contigs
- 33
- total length
- 2,439,816 bp
- max length
- 576,106 bp
- mean length
- 73,934 bp
- N50
- 244,524
- L50
- 3
- N90
- 55,460
- L90
- 12
- N95
- 27,594
- L95
- 16
- %GC
- 53.58
- Ns
- 10
- gaps
- 1
- loci tagged
- 1,393
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Minimum N50 |
Similar isolates (determined by LIN codes)
- Scheme
- cgMLST
- LIN code
- 0_0_97_0_0_0_3_0_0_0
- Species
- C. diphtheriae
- Lineage
- 0_0
- Sublineage
- SL183
- Clonal group
- ClG183
- Genetic cluster
- GC49
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 | 178 (9 isolates) | |
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 68 (28 isolates) | SL: 486 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 178 (9 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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