Full information on isolate SRR12267800 (id:30576)
Provenance/primary metadata
- id
- 30576
- isolate
- SRR12267800
- alias
- SAMN15567010
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Martin Rethoret-Pasty, Institut Pasteur, Paris, France (E-mail: martin.rethoret-pasty@pasteur.fr)
- update history
- 7 updates show details
- date entered
- 2023-02-15
- datestamp
- 2024-05-03
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2000
- city
- Unknown
- country
- Australia
- continent
- Oceania
- source type
- Unknown
- host
- Unknown
- source details
- Lepidoptera
Sequence bin
- contigs
- 38
- total length
- 5,098,680 bp
- max length
- 641,727 bp
- mean length
- 134,176 bp
- N50
- 304,268
- L50
- 7
- N90
- 86,538
- L90
- 19
- N95
- 49,953
- L95
- 23
- %GC
- 57.73
- Ns
- 209
- gaps
- 3
- loci tagged
- 690
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 | 627 | 99 | |
Analysis
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 0
- resistance_score
- 0
- num_resistance_classes
- 0
- num_resistance_genes
- 0
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi447
- K_locus
- unknown (KL124)
- K_type
- unknown (KL124)
- K_locus_problems
- ?-
- K_locus_confidence
- None
- K_locus_identity
- 94.78%
- K_locus_missing_genes
- KL124_17_wclK,KL124_19_rmlA,KL124_20_rmlD,KL124_21_rmlC
- O_locus
- unknown (OL101)
- O_type
- unknown (OL101)
- O_locus_problems
- ?-
- O_locus_confidence
- None
- O_locus_identity
- 91.97%
- O_locus_missing_genes
- OL101_02_rfbA,OL101_03_rfbD,OL101_04_rfbC,OL101_09_glycosylhydrolase
- Bla_chr
- SHV-1
- spurious_resistance_hits
- fosA7*?-0%
Analysis performed: 2024-04-06; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_457_1_1_0_0_0_0_0
Schemes and loci
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Tools
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