Full information on isolate IP33954 (id:909)
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
- 909
- isolate
- IP33954
- species phenotypic
- pseudotuberculosis
- serotype
- I
- species genotypic
- pseudotuberculosis
- genotype
- 2
- isolation date
- 2010-12-13
- category
- Clinical
- origin
- Stool
- 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
- 190
- total length
- 4,692,909 bp
- max length
- 178,002 bp
- mean length
- 24,700 bp
- N50
- 57,852
- L50
- 24
- N90
- 15,397
- L90
- 87
- N95
- 8,625
- L95
- 108
- %GC
- 47.74
- Ns
- 0
- gaps
- 0
- loci tagged
- 2,028
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 | 1921 | 100 | |
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
Tools
Export:
Analysis: