Full information on isolate FRC1593_P2M-2024 (id:5261)
Projects
This isolate is a member of the following project:
- Corynebacterium_Nanopore_R10_2025
- Benchmarking Nanopore R10 sequencing vs Illumina for cgMLST typing
Provenance/primary metadata
- id
- 5261
- isolate
- FRC1593_P2M-2024
- species
- C. ulcerans
- tox gene PCR
- Positive
- tox production Elek
- Positive
- isolation year
- 2022
- country
- France
- continent
- Europe
- state or locality
- Mainland France
- travel history
- None
- host
- Horse
- source
- Cutaneous and soft tissue
- infection or disease
- Cutaneous and soft tissue infection
- other source info
- Wound
- sender
- Virginie Passet, Institut Pasteur, France
- curator
- Sylvain Brisse, Institut Pasteur, Paris, France (E-mail: sylvain.brisse@pasteur.fr)
- update history
- 4 updates show details
- embargo history
- show details
- date entered
- 2024-02-27
- datestamp
- 2025-04-30
Sequence bin
- method
- Unknown
- contigs
- 14
- total length
- 2,546,671 bp
- max length
- 512,926 bp
- mean length
- 181,906 bp
- N50
- 398,509
- L50
- 3
- N90
- 181,627
- L90
- 7
- N95
- 88,058
- L95
- 8
- %GC
- 53.25
- Ns
- 2
- gaps
- 2
- 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 | 9 (28 isolates) | CG: 543 |
| Genomic_cluster_ulcerans | cgMLST_ulcerans | Single-linkage | 25 | experimental | 262 (21 isolates) | |
| Sublineage_ulcerans | cgMLST_ulcerans | Single-linkage | 940 | experimental | 4 (238 isolates) | SL: 325 |
| Clonal_group_ulcerans | cgMLST_ulcerans | Single-linkage | 194 | experimental | 9 (28 isolates) | CG: 543 |
| Genomic_cluster_ulcerans | cgMLST_ulcerans | Single-linkage | 25 | experimental | 262 (21 isolates) | |
| Sublineage_ulcerans | cgMLST_ulcerans | Single-linkage | 940 | experimental | 4 (238 isolates) | SL: 325 |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
Export:
Analysis: