Full information on isolate ERR257682 (id:26933)
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
- 26933
- isolate
- ERR257682
- alias
- SAMEA1713133
- 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
- contigs
- 437
- total length
- 5,553,993 bp
- max length
- 1,301,879 bp
- mean length
- 12,710 bp
- N50
- 241,057
- L50
- 6
- N90
- 53,786
- L90
- 22
- N95
- 1,444
- L95
- 85
- %GC
- 57.02
- Ns
- 1309
- gaps
- 41
- loci tagged
- 691
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 | 629 | 100 | |
Analysis
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 0
- resistance_score
- 0
- num_resistance_classes
- 2
- num_resistance_genes
- 2
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi150
- K_locus
- KL27
- K_type
- K27
- K_locus_problems
- none
- K_locus_confidence
- Very high
- K_locus_identity
- 99.02%
- O_locus
- O3b
- O_type
- O3b
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 99.11%
- Tet_acquired
- tet(A).v1*
- Tmt_acquired
- dfrA1.v2
- Bla_chr
- SHV-41
- spurious_resistance_hits
- aac(3)-IIa.v1*?-0%;aadA23*?-0%;aadA?-54%;aph3-Ia.v1*?-0%;catA1*?-0%;sul1?-58%
- ybtU
- 14*
- spurious_virulence_hits
- fyuA_11*-0%;ybtE_101*-0%;ybtP_120*-67%;ybtT_42*-0%;ybtX_100*-0%
Analysis performed: 2024-03-27; Kleborate v2.3.2
Schemes and loci
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Tools
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