Full information on isolate IP37750 (id:1611)
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
- 1611
- isolate
- IP37750
- species phenotypic
- pseudotuberculosis
- serotype
- I
- species genotypic
- pseudotuberculosis
- genotype
- 2
- isolation date
- 2016-04-21
- category
- Clinical
- origin
- stool
- age
- 8
- sex
- M
- comments
- jusqu'au 12/05/2019 assignation: Y.pseudotuberculosis genotype 2
- sender
- Cyril Savin, Institut Pasteur, Paris, France
- curator
- Auto Tagger
- update history
- 14 updates show details
- date entered
- 2017-01-12
- datestamp
- 2019-10-29
- date received
- 2016-04-25
- CP patient
- 67210
- CP labo
- 67200
- country code
- FRA
- country
- France
Sequence bin
- method
- Unknown
- contigs
- 375
- total length
- 4,728,465 bp
- max length
- 145,318 bp
- mean length
- 12,610 bp
- N50
- 31,835
- L50
- 45
- N90
- 7,490
- L90
- 157
- N95
- 4,349
- L95
- 198
- %GC
- 47.61
- Ns
- 5967
- gaps
- 126
- loci tagged
- 2,022
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 | 497 | 99 | |
| Y.enterocolitica cgMLST | 1727 | 497 | 28 | |
| Y.pseudotuberculosis cgMLST | 1921 | 1915 | 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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