Full information on isolate ERR4920547 (id:24703)
Provenance/primary metadata
- id
- 24703
- isolate
- ERR4920547
- alias
- SAMEA7472517
- 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
- 2016
- city
- Unknown
- country
- Nigeria
- continent
- Africa
- source type
- Human
- host
- Human
- source details
- Blood
Sequence bin
- contigs
- 43
- total length
- 5,397,496 bp
- max length
- 995,312 bp
- mean length
- 125,524 bp
- N50
- 315,681
- L50
- 6
- N90
- 94,262
- L90
- 17
- N95
- 52,499
- L95
- 21
- %GC
- 57.37
- Ns
- 402
- gaps
- 5
- loci tagged
- 698
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
- 0
- num_resistance_genes
- 0
- Yersiniabactin
- ybt 10; ICEKp4
- YbST
- 384-1LV
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi100
- K_locus
- KL10
- K_type
- K10
- K_locus_problems
- ?-+
- K_locus_confidence
- Good
- K_locus_identity
- 96.78%
- K_locus_missing_genes
- KL10_19_manB
- O_locus
- O3/O3a
- O_type
- O3/O3a
- O_locus_problems
- ?-
- O_locus_confidence
- Good
- O_locus_identity
- 98.01%
- O_locus_missing_genes
- O3/O3a_02_manB
- Bla_chr
- SHV-1^
- spurious_resistance_hits
- NDM-19*?-53%
- ybtS
- 16
- ybtX
- 12
- ybtQ
- 4
- ybtP
- 3
- ybtA
- 3
- irp2
- 61
- irp1
- 54*
- ybtU
- 3
- ybtT
- 10
- ybtE
- 9
- fyuA
- 39
Analysis performed: 2024-03-27; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_46_5_20_1_0_0_0_0
Schemes and loci
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Tools
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