Full information on isolate IP33378 (id:817)
Projects
This isolate is a member of the following project:
- Public isolates
- This project contains the isolates that should be publicly available through the public access database.
Provenance/primary metadata
- id
- 817
- isolate
- IP33378
- species phenotypic
- pseudotuberculosis
- serotype
- O:1b
- species genotypic
- pseudotuberculosis
- genotype
- 2
- isolation date
- 2005-02-26
- category
- Clinical
- origin
- Blood
- comments
- jusqu'au 12/05/2019 assignation: Y.pseudotuberculosis genotype 2
- sender
- Cyril Savin
- curator
- Cyril Savin, Institut Pasteur, Paris, France (E-mail: cyril.savin@pasteur.fr)
- update history
- 14 updates show details
- date entered
- 2016-05-23
- datestamp
- 2019-05-13
Sequence bin
- method
- Unknown
- contigs
- 334
- total length
- 4,709,705 bp
- max length
- 130,248 bp
- mean length
- 14,101 bp
- N50
- 31,184
- L50
- 45
- N90
- 8,576
- L90
- 153
- N95
- 4,846
- L95
- 189
- %GC
- 47.74
- Ns
- 0
- gaps
- 0
- loci tagged
- 2,018
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 | 498 | 99 | |
| Y.enterocolitica cgMLST | 1727 | 498 | 28 | |
| Y.pseudotuberculosis cgMLST | 1921 | 1910 | 99 | |
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 |
|---|---|---|---|---|---|
| Y.pseudotuberculosis_5-mismatch | Y.pseudotuberculosis cgMLST | Single-linkage | 5 | experimental | 83 (21 isolates) |
| Y.pseudotuberculosis_5-mismatch | Y.pseudotuberculosis cgMLST | Single-linkage | 5 | experimental | 83 (21 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
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