Full information on isolate FRC1385_P2M-2024 (id:5260)
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
- 5260
- isolate
- FRC1385_P2M-2024
- species
- C. ulcerans
- tox gene PCR
- Positive
- isolation year
- 2021
- country
- France
- continent
- Europe
- state or locality
- Mainland France
- travel history
- None
- host
- Dog
- source
- Respiratory
- infection or disease
- Upper RTI
- other source info
- Pharyngeal
- sender
- Virginie Passet, Institut Pasteur, France
- curator
- Sylvain Brisse, Institut Pasteur, Paris, France (E-mail: sylvain.brisse@pasteur.fr)
- update history
- 3 updates show details
- embargo history
- show details
- date entered
- 2024-02-27
- datestamp
- 2024-06-13
Sequence bin
- method
- Unknown
- contigs
- 17
- total length
- 2,615,843 bp
- max length
- 513,580 bp
- mean length
- 153,874 bp
- N50
- 316,577
- L50
- 4
- N90
- 143,233
- L90
- 8
- N95
- 75,448
- L95
- 9
- %GC
- 53.42
- Ns
- 9
- gaps
- 7
- loci tagged
- 1,627
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 | 38 (110 isolates) | CG: 325 |
| Genomic_cluster_ulcerans | cgMLST_ulcerans | Single-linkage | 25 | experimental | 181 (110 isolates) | |
| Sublineage_ulcerans | cgMLST_ulcerans | Single-linkage | 940 | experimental | 4 (238 isolates) | SL: 325 |
| Clonal_group_ulcerans | cgMLST_ulcerans | Single-linkage | 194 | experimental | 38 (110 isolates) | CG: 325 |
| Genomic_cluster_ulcerans | cgMLST_ulcerans | Single-linkage | 25 | experimental | 181 (110 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
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Analysis: