Full information on isolate 201600377 (id:1532)
Provenance/primary metadata
- id
- 1532
- isolate
- 201600377
- alias
- AISLADO14
- clade
- P1
- species
- kirschneri
- serogroup
- Unknown
- serovar
- Unknown
- isolation year
- 2016
- sequencing year
- 2023
- world region
- Unknown
- country
- Unknown
- host
- Unknown
- sample type
- Unknown
- source lab
- IVIC
- 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
- 2023-05-09
- datestamp
- 2024-07-18
Sequence bin
- contigs
- 188
- total length
- 4,657,819 bp
- max length
- 318,538 bp
- mean length
- 24,776 bp
- N50
- 51,951
- L50
- 24
- N90
- 13,557
- L90
- 90
- N95
- 9,132
- L95
- 110
- %GC
- 36.07
- Ns
- 0
- gaps
- 0
- loci tagged
- 546
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 | 540 | 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 | 85 (9 isolates) |
| Test-75 | cgMLST | Single-linkage | 75 | experimental | 76 (7 isolates) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 81 (9 isolates) |
| Test-10 | cgMLST | Single-linkage | 10 | experimental | 102 (7 isolates) |
| Test-110 | cgMLST | Single-linkage | 110 | experimental | 74 (9 isolates) |
| Test-150 | cgMLST | Single-linkage | 150 | experimental | 73 (9 isolates) |
| Test-20 | cgMLST | Single-linkage | 20 | experimental | 94 (9 isolates) |
| Test-200 | cgMLST | Single-linkage | 200 | experimental | 70 (9 isolates) |
| Test-220 | cgMLST | Single-linkage | 220 | experimental | 69 (7 isolates) |
| Test-250 | cgMLST | Single-linkage | 250 | experimental | 66 (7 isolates) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 90 (9 isolates) |
| Test-300 | cgMLST | Single-linkage | 300 | experimental | 58 (9 isolates) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 80 (9 isolates) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 75 (9 isolates) |
| Cluster_40_cgMLST | cgMLST | Single-linkage | 40 | experimental | 85 (9 isolates) |
| Test-75 | cgMLST | Single-linkage | 75 | experimental | 76 (7 isolates) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 81 (9 isolates) |
| Test-10 | cgMLST | Single-linkage | 10 | experimental | 102 (7 isolates) |
| Test-110 | cgMLST | Single-linkage | 110 | experimental | 74 (9 isolates) |
| Test-150 | cgMLST | Single-linkage | 150 | experimental | 73 (9 isolates) |
| Test-20 | cgMLST | Single-linkage | 20 | experimental | 94 (9 isolates) |
| Test-200 | cgMLST | Single-linkage | 200 | experimental | 70 (9 isolates) |
| Test-220 | cgMLST | Single-linkage | 220 | experimental | 69 (7 isolates) |
| Test-250 | cgMLST | Single-linkage | 250 | experimental | 66 (7 isolates) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 90 (9 isolates) |
| Test-300 | cgMLST | Single-linkage | 300 | experimental | 58 (9 isolates) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 80 (9 isolates) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 75 (9 isolates) |
Schemes and loci
Tools
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