Full information on isolate SRR10694526 (id:30283)
Provenance/primary metadata
- id
- 30283
- isolate
- SRR10694526
- alias
- SAMN13523842
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Auto Tagger
- update history
- 6 updates show details
- date entered
- 2023-02-15
- datestamp
- 2023-11-28
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2017
- city
- Unknown
- country
- USA
- continent
- North America
- source type
- Farm Animal
- host
- bovine
- source details
- mastitis milk
Sequence bin
- contigs
- 45
- total length
- 5,291,576 bp
- max length
- 883,751 bp
- mean length
- 117,591 bp
- N50
- 315,543
- L50
- 6
- N90
- 66,235
- L90
- 18
- N95
- 43,856
- L95
- 23
- %GC
- 57.67
- Ns
- 398
- gaps
- 4
- loci tagged
- 689
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 | 626 | 99 | |
Analysis
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 0
- resistance_score
- 0
- num_resistance_classes
- 1
- num_resistance_genes
- 1
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi100
- K_locus
- unknown (KL50)
- K_type
- unknown (K50)
- K_locus_problems
- ?-*
- K_locus_confidence
- None
- K_locus_identity
- 89.48%
- K_locus_missing_genes
- KL50_05_wbaZ,KL50_06_wbaP,KL50_07_wcuU,KL50_08_wcuH,KL50_09_wzx,KL50_10
- O_locus
- O3/O3a
- O_type
- O3/O3a
- O_locus_problems
- ?-
- O_locus_confidence
- Good
- O_locus_identity
- 97.96%
- O_locus_missing_genes
- O3/O3a_01_manC,O3/O3a_02_manB
- Bla_acquired
- TEM-1D.v1^
- Bla_chr
- SHV-1^
Analysis performed: 2024-04-05; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_46_5_15_0_0_0_0_0
Schemes and loci
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Tools
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