Full information on isolate P2653 (id:29)
Provenance/primary metadata
- id
- 29
- isolate
- P2653
- biosample
- SAMN01801598
- accession number
- 1218600
- clade
- P1
- species
- weilii
- serogroup
- Unknown
- serovar
- Unknown
- sequencing year
- 2013
- world region
- Southern Asia
- country
- China
- host
- other rodent
- sample type
- Unknown
- source lab
- Craig Venter Institute
- comments
- Echimyidae
- sender
- Julien Guglielmini, Institut Pasteur
- curator
- Jean-François Mariet, Institut Pasteur, Paris (E-mail: jean-francois.mariet@pasteur.fr)
- update history
- 647 updates show details
- date entered
- 2016-12-01
- datestamp
- 2024-04-17
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
- 178
- total length
- 4,175,074 bp
- max length
- 198,637 bp
- mean length
- 23,456 bp
- N50
- 43,784
- L50
- 30
- N90
- 12,306
- L90
- 100
- N95
- 7,032
- L95
- 122
- %GC
- 40.85
- Ns
- 0
- gaps
- 0
- loci tagged
- 1,166
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 | |
Analysis
rMLST species identification
Analysis performed: 2024-02-07
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: