Full information on isolate DIFT029 (id:944)
Projects
This isolate is a member of the following project:
- cgMLST C. ulcerans set-up study
- Isolates included in the cgMLST study for C. ulcerans and C. ramonii (publicly-available genomes and some isolates from the French NRC)
Provenance/primary metadata
- id
- 944
- isolate
- DIFT029
- species
- C. ulcerans
- tox gene PCR
- Positive
- tox production Elek
- Positive
- isolation year
- 2013
- city
- 4030
- country
- Belgium
- continent
- Europe
- travel history
- None
- host
- Human
- comments
- This assembly has been replaced by one of better quality, under id 2483.
- epidemic cluster
- B
- sender
- Helena Martini
- curator
- Helena Martini, Laboratorium Microbiologie, Universitair Ziekenhuis Brussel, Belgium (E-mail: Helena.Martini@uzbrussel.be)
- update history
- 5 updates show details
- date entered
- 2023-07-11
- datestamp
- 2024-11-18
Sequence bin
- method
- Illumina
- contigs
- 31
- total length
- 2,573,145 bp
- max length
- 847,763 bp
- mean length
- 83,005 bp
- N50
- 579,575
- L50
- 2
- N90
- 271,262
- L90
- 5
- N95
- 135,414
- L95
- 6
- %GC
- 53.44
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,628
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | ||
| Minimum N50 | ||
| %GC |
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 |
|---|---|---|---|---|---|---|
| Clonal_group_ulcerans | cgMLST_ulcerans | Single-linkage | 194 | experimental | 7 (79 isolates) | CG: 332 |
| Genomic_cluster_ulcerans | cgMLST_ulcerans | Single-linkage | 25 | experimental | 325 (10 isolates) | |
| Sublineage_ulcerans | cgMLST_ulcerans | Single-linkage | 940 | experimental | 1 (305 isolates) | SL: 331 |
| Clonal_group_ulcerans | cgMLST_ulcerans | Single-linkage | 194 | experimental | 7 (79 isolates) | CG: 332 |
| Genomic_cluster_ulcerans | cgMLST_ulcerans | Single-linkage | 25 | experimental | 325 (10 isolates) | |
| Sublineage_ulcerans | cgMLST_ulcerans | Single-linkage | 940 | experimental | 1 (305 isolates) | SL: 331 |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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