Full information on isolate 40df15e5 (id:5986)
Projects
This isolate is a member of the following project:
- 2023_EuropeanWideReemergence_followup
- EU isolates 2023 (Hoefer et al.)
Provenance/primary metadata
- id
- 5986
- isolate
- 40df15e5
- species
- C. diphtheriae
- tox gene PCR
- Positive
- isolation year
- 2023
- country
- Switzerland
- continent
- Europe
- travel history
- Unknown
- host
- Human
- accession number
- ERS19345122
- sender
- Helena Seth-Smith, University of Zurich
- curator
- Auto Tagger
- update history
- 6 updates show details
- date entered
- 2024-09-05
- datestamp
- 2025-07-18
Sequence bin
- method
- Illumina
- contigs
- 48
- total length
- 2,465,721 bp
- max length
- 378,842 bp
- mean length
- 51,370 bp
- N50
- 135,730
- L50
- 6
- N90
- 51,179
- L90
- 17
- N95
- 25,636
- L95
- 21
- %GC
- 53.60
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,313
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_85_1_0_0_0_0_0_1
- Species
- C. diphtheriae
- Lineage
- 0_0
- Sublineage
- SL574
- Clonal group
- ClG574
- Genetic cluster
- GC1
| Prefix | Threshold | Matching isolates |
|---|---|---|
| 0_0_85_1_0_0 | 8 | 182 |
| 0_0_85_1_0_0_0 | 4 | 181 |
| 0_0_85_1_0_0_0_0 | 2 | 130 |
| 0_0_85_1_0_0_0_0_0 | 1 | 113 |
| 0_0_85_1_0_0_0_0_0_1 | 0 | 1 |
| 0 | 1220 | 2380 |
| 0_0 | 1035 | 2162 |
| 0_0_85 | 500 | 194 |
| 0_0_85_1 | 55 | 182 |
| 0_0_85_1_0 | 25 | 182 |
| 0_0_85_1_0_0 | 8 | 182 |
| 0_0_85_1_0_0_0 | 4 | 181 |
| 0_0_85_1_0_0_0_0 | 2 | 130 |
| 0_0_85_1_0_0_0_0_0 | 1 | 113 |
| 0_0_85_1_0_0_0_0_0_1 | 0 | 1 |
Schemes and loci
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Tools
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