Full information on isolate ERR257634 (id:26842)
Projects
This isolate is a member of the following project:
- Ellington et al. 2019
- Contrasting patterns of longitudinal population dynamics and antimicrobial resistance mechanisms in two priority bacterial pathogens over 7 years in a single center (https://doi.org/10.1186/s13059-019-1785-1)
Provenance/primary metadata
- id
- 26842
- isolate
- ERR257634
- alias
- SAMEA1713021
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Auto Tagger
- update history
- 6 updates show details
- date entered
- 2023-02-15
- datestamp
- 2023-11-27
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 0
- city
- Unknown
- country
- UK
- continent
- Europe
- source type
- Human
- host
- Human
- source details
- Unknown
Sequence bin
- method
- Unknown
- contigs
- 107
- total length
- 5,266,079 bp
- max length
- 730,161 bp
- mean length
- 49,216 bp
- N50
- 198,630
- L50
- 7
- N90
- 73,696
- L90
- 21
- N95
- 31,080
- L95
- 27
- %GC
- 57.37
- Ns
- 1081
- gaps
- 12
- 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 | 625 | 99 | |
Analysis
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- virulence_score
- 0
- Bla_chr
- SHV-11^
- SHV_mutations
- SHV:p.Leu35Gln
- spurious_resistance_hits
- fosA7*?-0%
- resistance_score
- 0
- num_resistance_classes
- 0
- num_resistance_genes
- 0
- Ciprofloxacin_prediction
- wildtype S
- Ciprofloxacin_profile_support
- 90.99% S (N=5168/5680)
- Ciprofloxacin_profile
- 0^ QRDR, 0 PMQR, 0 aac(6`)-Ib-cr
- Ciprofloxacin_MIC_prediction
- 0.25 mg/L [0.25-0.25]
- wzi
- wzi18
- K_locus
- KL10
- K_type
- K10
- K_locus_confidence
- Typeable
- K_locus_identity
- 98.64%
- O_locus
- OL2α.1
- O_type
- O1αβ,2α
- O_locus_confidence
- Typeable
- O_locus_problems
- !
- O_locus_identity
- 89.34%
Analysis performed: 2025-11-28; Kleborate v3.2.4
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_406_0_12_0_0_0_0_0
- Phylogroup
- Kp1
- Sublineage
- SL551
- Clonal group
- CG551
| Prefix | Threshold | Matching isolates |
|---|---|---|
| 0_0_406_0_12_0 | 7 | 1 |
| 0_0_406_0_12_0_0 | 4 | 1 |
| 0_0_406_0_12_0_0_0 | 2 | 1 |
| 0_0_406_0_12_0_0_0_0 | 1 | 1 |
| 0_0_406_0_12_0_0_0_0_0 | 0 | 1 |
| 0 | 610 | 41312 |
| 0_0 | 585 | 41312 |
| 0_0_406 | 190 | 93 |
| 0_0_406_0 | 43 | 93 |
| 0_0_406_0_12 | 10 | 1 |
| 0_0_406_0_12_0 | 7 | 1 |
| 0_0_406_0_12_0_0 | 4 | 1 |
| 0_0_406_0_12_0_0_0 | 2 | 1 |
| 0_0_406_0_12_0_0_0_0 | 1 | 1 |
| 0_0_406_0_12_0_0_0_0_0 | 0 | 1 |
Schemes and loci
Navigate and select schemes within tree to display allele designations
Tools
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Analysis: