Full information on isolate pyrogenes (id:13)
Provenance/primary metadata
- id
- 13
- isolate
- pyrogenes
- clade
- P1
- species
- borgpetersenii
- serogroup
- Pyrogenes
- serovar
- Unknown
- sequencing year
- 2001
- world region
- Middle Africa
- country
- Nigeria
- host
- unknown
- sample type
- Unknown
- source lab
- CNR_leptospirose
- sender
- Julien Guglielmini, Institut Pasteur
- curator
- Jean-François Mariet, Institut Pasteur, Paris (E-mail: jean-francois.mariet@pasteur.fr)
- update history
- 603 updates show details
- date entered
- 2016-12-01
- datestamp
- 2024-04-11
Publications (2)
- Guglielmini J, Bourhy P, Schiettekatte O, Zinini F, Brisse S, Picardeau M (2019). Genus-wide Leptospira core genome multilocus sequence typing for strain taxonomy and global surveillance. PLoS Negl Trop Dis 13:e0007374
- Guglielmini J, Bourhy P, Schiettekatte O, Zinini F, Brisse S, Picardeau M (2020). Correction: Genus-wide Leptospira core genome multilocus sequence typing for strain taxonomy and global surveillance. PLoS Negl Trop Dis 14:e0008673
Sequence bin
- contigs
- 242
- total length
- 3,893,648 bp
- max length
- 193,331 bp
- mean length
- 16,090 bp
- N50
- 33,302
- L50
- 38
- N90
- 9,833
- L90
- 117
- N95
- 5,756
- L95
- 142
- %GC
- 40.40
- Ns
- 69
- gaps
- 1
- loci tagged
- 1,156
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 | 532 | 97 | |
Similar isolates (determined by classification schemes)
No similar isolates at any threshold. Show groups
Schemes and loci
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Tools
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