Full information on isolate SRR11819317 (id:30472)
Provenance/primary metadata
- id
- 30472
- isolate
- SRR11819317
- alias
- SAMN14967537
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Auto Tagger
- update history
- 7 updates show details
- date entered
- 2023-02-15
- datestamp
- 2023-11-28
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2018
- city
- Baltimore, MD
- country
- USA
- continent
- North America
- source type
- Human
- host
- Human
- source details
- Surveillance
Sequence bin
- contigs
- 56
- total length
- 5,296,589 bp
- max length
- 608,925 bp
- mean length
- 94,582 bp
- N50
- 321,390
- L50
- 7
- N90
- 61,401
- L90
- 19
- N95
- 30,074
- L95
- 25
- %GC
- 57.40
- Ns
- 397
- gaps
- 4
- 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
- virulence_score
- 0
- resistance_score
- 0
- num_resistance_classes
- 1
- num_resistance_genes
- 0
- YbST
- 0
- 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
- 96.69%
- 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
- 97.98%
- O_locus_missing_genes
- O3/O3a_02_manB
- Bla_chr
- SHV-1^
- Omp_mutations
- OmpK36-12%
- Flq_mutations
- GyrA-83F
Analysis performed: 2024-04-06; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_46_5_22_0_0_0_0_0
Schemes and loci
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Tools
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