Full information on isolate SRR12464816 (id:30689)
Provenance/primary metadata
- id
- 30689
- isolate
- SRR12464816
- alias
- SAMN04521899
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Martin Rethoret-Pasty, Institut Pasteur, Paris, France (E-mail: martin.rethoret-pasty@pasteur.fr)
- update history
- 7 updates show details
- date entered
- 2023-02-15
- datestamp
- 2024-05-03
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2015
- city
- Massachusetts, Boston
- country
- USA
- continent
- North America
- source type
- Human
- host
- Human
- source details
- Unknown
Sequence bin
- contigs
- 63
- total length
- 5,434,581 bp
- max length
- 426,015 bp
- mean length
- 86,264 bp
- N50
- 255,436
- L50
- 8
- N90
- 64,239
- L90
- 24
- N95
- 34,587
- L95
- 29
- %GC
- 57.38
- Ns
- 1472
- gaps
- 15
- loci tagged
- 687
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 | |||
| MLST | 7 | 7 | 100 | |
| Ribosomal MLST | 53 | 53 | 100 | |
| scgMLST629_S | 629 | 624 | 99 | |
Analysis
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 0
- resistance_score
- 0
- num_resistance_classes
- 0
- num_resistance_genes
- 0
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi105
- K_locus
- KL108
- K_type
- unknown (KL108)
- K_locus_problems
- none
- K_locus_confidence
- Very high
- K_locus_identity
- 99.99%
- O_locus
- O1/O2v2
- O_type
- O1
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 98.96%
- Bla_chr
- SHV-28.v1^
Analysis performed: 2024-04-06; Kleborate v2.3.2
Schemes and loci
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Tools
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