Full information on isolate 56609 (id:25)
Provenance/primary metadata
- id
- 25
- isolate
- 56609
- biosample
- SAMN02949529
- accession number
- 1395589
- clade
- P1
- species
- interrogans
- serogroup
- Grippotyphosa
- serovar
- Linhai
- sequencing year
- 2015
- world region
- Southern Asia
- country
- China
- host
- human
- sample type
- Unknown
- source lab
- Craig Venter Institute
- sender
- Julien Guglielmini, Institut Pasteur
- curator
- Vallier SORDOILLET, CNR Leptospirose PASTEUR (E-mail: vallier.sordoillet@pasteur.fr)
- update history
- 725 updates show details
- date entered
- 2016-12-01
- datestamp
- 2023-02-03
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
- 5
- total length
- 4,915,652 bp
- max length
- 4,331,770 bp
- mean length
- 983,131 bp
- N50
- 4,331,770
- L50
- 1
- N90
- 404,857
- L90
- 2
- N95
- 404,857
- L95
- 2
- %GC
- 35.05
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,167
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 | 531 | 97 | |
Similar isolates (determined by classification schemes)
No similar isolates at any threshold. Show groups
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
Export:
Analysis: