Full information on isolate 364 (id:1355)
Provenance/primary metadata
- id
- 1355
- isolate
- 364
- alias
- 364
- biosample
- SAMN17727576
- clade
- P1
- species
- interrogans
- serogroup
- Unknown
- serovar
- Unknown
- isolation year
- 2017
- sequencing year
- 2021
- world region
- South America
- country
- Brazil
- city
- Minas Gerais state
- host
- human
- sample type
- Blood
- 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
- 9 updates show details
- date entered
- 2022-10-27
- datestamp
- 2024-04-25
Sequence bin
- contigs
- 364
- total length
- 4,725,638 bp
- max length
- 198,556 bp
- mean length
- 12,983 bp
- N50
- 74,029
- L50
- 20
- N90
- 23,007
- L90
- 63
- N95
- 11,381
- L95
- 77
- %GC
- 35.02
- Ns
- 984
- gaps
- 942
- loci tagged
- 578
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 | 472 | 86 | |
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 (143 isolates) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 6 (143 isolates) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 51 (142 isolates) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 6 (143 isolates) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 6 (143 isolates) |
| Cluster_40_cgMLST | cgMLST | Single-linkage | 40 | experimental | 6 (143 isolates) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 6 (143 isolates) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 51 (142 isolates) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 6 (143 isolates) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 6 (143 isolates) |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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