Full information on isolate L.int KR93 (id:1525)
Provenance/primary metadata
- id
- 1525
- isolate
- L.int KR93
- alias
- KR93
- biosample
- SAMN32568505
- species
- interrogans
- serogroup
- Unknown
- serovar
- Unknown
- isolation year
- 1995
- sequencing year
- 2023
- world region
- Western Europe
- country
- Germany
- host
- rat
- sample type
- Kidney
- source lab
- Genbank
- sender
- Vallier SORDOILLET, CNR Leptospirose PASTEUR
- curator
- Jean-François Mariet, Institut Pasteur, Paris (E-mail: jean-francois.mariet@pasteur.fr)
- update history
- 5 updates show details
- date entered
- 2023-03-10
- datestamp
- 2024-07-15
Sequence bin
- contigs
- 2
- total length
- 4,569,688 bp
- max length
- 4,219,604 bp
- mean length
- 2,284,844 bp
- N50
- 4,219,604
- L50
- 1
- N90
- 4,219,604
- L90
- 1
- N95
- 350,084
- L95
- 2
- %GC
- 34.99
- Ns
- 3800
- gaps
- 38
- loci tagged
- 545
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 | |||
| cgMLST | 545 | 544 | 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 |
|---|---|---|---|---|---|
| Cluster_40_cgMLST | cgMLST | Single-linkage | 40 | experimental | 6 (146 isolates) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 6 (146 isolates) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 51 (145 isolates) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 6 (146 isolates) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 6 (146 isolates) |
| Cluster_40_cgMLST | cgMLST | Single-linkage | 40 | experimental | 6 (146 isolates) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 6 (146 isolates) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 51 (145 isolates) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 6 (146 isolates) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 6 (146 isolates) |
Schemes and loci
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