Full information on isolate ERR304796 (id:25194)
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
- 25194
- isolate
- ERR304796
- alias
- SAMEA1920555
- 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
- 1800
- city
- Unknown
- country
- UK
- continent
- Europe
- source type
- Human
- host
- human
- source details
- Unknown
Sequence bin
- contigs
- 75
- total length
- 5,382,666 bp
- max length
- 627,266 bp
- mean length
- 71,769 bp
- N50
- 236,697
- L50
- 8
- N90
- 55,043
- L90
- 26
- N95
- 29,623
- L95
- 32
- %GC
- 57.40
- Ns
- 785
- gaps
- 8
- loci tagged
- 700
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
- 1
- resistance_score
- 0
- num_resistance_classes
- 4
- num_resistance_genes
- 8
- Yersiniabactin
- ybt 14; ICEKp5?
- YbST
- 131
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi141
- K_locus
- KL25
- K_type
- K25
- K_locus_confidence
- High
- K_locus_identity
- 99.16%
- K_locus_missing_genes
- KL25_09_wfeD
- O_locus
- O5
- O_type
- O5
- O_locus_problems
- *
- O_locus_confidence
- High
- O_locus_identity
- 94.21%
- AGly_acquired
- aadA1.v1^;aph3-Ia.v1^;strA.v1^;strB.v1
- Sul_acquired
- sul1;sul2*
- Tmt_acquired
- dfrA1.v2
- Bla_acquired
- TEM-1D.v1^
- Bla_chr
- SHV-1^
- ybtS
- 4
- ybtX
- 111
- ybtQ
- 5
- ybtP
- 4
- ybtA
- 1
- irp2
- 247
- irp1
- 184
- ybtU
- 2
- ybtT
- 4
- ybtE
- 4
- fyuA
- 2
Analysis performed: 2024-03-26; Kleborate v2.3.2
Schemes and loci
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Tools
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