Full information on isolate 2019/00393 (id:5673)
Provenance/primary metadata
- id
- 5673
- isolate
- 2019/00393
- alias
- IP41727
- species genotypic
- pseudotuberculosis
- genotype
- 16
- comments
- jusqu'au 12/05/2019 assignation: Y.pseudotuberculosis genotype 16
- sender
- Sylvie Brémont, Institut Pasteur, Paris
- curator
- Cyril Savin, Institut Pasteur, Paris (E-mail: cyril.savin@pasteur.fr)
- update history
- 8 updates show details
- date entered
- 2019-04-01
- datestamp
- 2019-05-13
Sequence bin
- method
- Illumina
- contigs
- 112
- total length
- 4,566,134 bp
- max length
- 191,155 bp
- mean length
- 40,770 bp
- N50
- 100,917
- L50
- 18
- N90
- 34,830
- L90
- 49
- N95
- 19,538
- L95
- 57
- %GC
- 47.57
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,993
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | ||
| Minimum N50 | ||
| %GC |
Annotation quality metrics
Scheme completion
| Scheme | Scheme loci | Designated loci | Annotation | |
|---|---|---|---|---|
| Score | Status | |||
| Yersinia cgMLST | 500 | 500 | 100 | |
| Y.enterocolitica cgMLST | 1727 | 500 | 28 | |
| Y.pseudotuberculosis cgMLST | 1921 | 1916 | 99 | |
Similar isolates (determined by classification schemes)
No similar isolates at any threshold. Show groups
Schemes and loci
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Tools
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