Full information on isolate Horse 112 (id:1174)
Provenance/primary metadata
- id
- 1174
- isolate
- Horse 112
- accession number
- WIQJ00000000
- clade
- P1
- species
- kirschneri
- serogroup
- Pomona
- serovar
- Mozdok
- isolation year
- 2002
- world region
- Western Europe
- country
- Portugal
- host
- horse
- sample type
- unknown
- source lab
- unknown
- resistance info
- unknown
- province
- unknown
- sender
- Mathieu Picardeau, Institut Pasteur
- curator
- Jean-François Mariet, Institut Pasteur, Paris (E-mail: jean-francois.mariet@pasteur.fr)
- update history
- 7 updates show details
- date entered
- 2021-09-20
- datestamp
- 2024-04-17
Publication (1)
- Inácio J, Muñoz-Mérida A, Ahmed AA, Rocha T, Mesquita JR, Thompson G, Goris MGA, Hartskeerl RA, Ferreira AS (2021). Draft Genome Sequence of a Leptospira kirschneri Serovar Mozdok Type 2 Strain Isolated from a Horse in Portugal. Microbiol Resour Announc 10:e0021721
Sequence bin
- method
- Illumina
- contigs
- 485
- total length
- 4,299,146 bp
- max length
- 56,509 bp
- mean length
- 8,865 bp
- N50
- 15,212
- L50
- 89
- N90
- 4,631
- L90
- 289
- N95
- 3,163
- L95
- 345
- %GC
- 35.93
- Ns
- 447
- gaps
- 23
- loci tagged
- 565
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | ||
| Assembly size | ||
| Minimum N50 | N50 too low (warn threshold: 20,000) | |
| %GC |
Annotation quality metrics
Scheme completion
| Scheme | Scheme loci | Designated loci | Annotation | |
|---|---|---|---|---|
| Score | Status | |||
| cgMLST | 545 | 509 | 93 | |
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 | 73 (22 isolates) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 70 (22 isolates) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 75 (22 isolates) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 70 (22 isolates) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 66 (22 isolates) |
| Cluster_40_cgMLST | cgMLST | Single-linkage | 40 | experimental | 73 (22 isolates) |
| Test-50 | cgMLST | Single-linkage | 50 | experimental | 70 (22 isolates) |
| Test-30 | cgMLST | Single-linkage | 30 | experimental | 75 (22 isolates) |
| Test-60 | cgMLST | Single-linkage | 60 | experimental | 70 (22 isolates) |
| Test-80 | cgMLST | Single-linkage | 80 | experimental | 66 (22 isolates) |
Schemes and loci
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