Full information on isolate CIP100721T_P2M-2024 (id:5251)
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
- 5251
- isolate
- CIP100721T_P2M-2024
- species
- C. diphtheriae
- biovar
- Mitis
- tox gene PCR
- Negative
- isolation year
- 1970
- city
- Not documented
- country
- USA
- continent
- North America
- state or locality
- Not documented
- travel history
- Not documented
- host
- Human
- source
- Not documented
- infection or disease
- Not documented
- sender
- Virginie Passet, Institut Pasteur, France
- curator
- Auto Tagger
- update history
- 5 updates show details
- embargo history
- show details
- date entered
- 2024-02-27
- datestamp
- 2025-07-18
Sequence bin
- method
- Unknown
- contigs
- 34
- total length
- 2,428,651 bp
- max length
- 282,584 bp
- mean length
- 71,431 bp
- N50
- 163,884
- L50
- 6
- N90
- 42,870
- L90
- 16
- N95
- 33,337
- L95
- 19
- %GC
- 53.52
- Ns
- 14
- gaps
- 13
- loci tagged
- 1,306
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_168_0_0_0_0_0_3_0
- Species
- C. diphtheriae
- Lineage
- 0_0
- Sublineage
- SL26
- Clonal group
- ClG26
- Genetic cluster
- GC4
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 | 4 (8 isolates) | SL: 26 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 4 (7 isolates) | |
| Sublineage | cgMLST | Single-linkage | 500 | experimental | 4 (8 isolates) | SL: 26 |
| Genomic_cluster | cgMLST | Single-linkage | 25 | experimental | 4 (7 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
Export:
Third party:
Analysis: