Full information on isolate SRR5386386 (id:46331)
Provenance/primary metadata
- id
- 46331
- isolate
- SRR5386386
- aliases
- KPN210; SAMN06437219
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Auto Tagger
- update history
- 5 updates show details
- date entered
- 2023-02-15
- datestamp
- 2023-04-17
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2012
- city
- Houston
- country
- USA
- continent
- North America
- source type
- Human
- host
- Human
- source details
- Blood
Sequence bin
- contigs
- 74
- total length
- 5,500,412 bp
- max length
- 612,405 bp
- mean length
- 74,330 bp
- N50
- 284,021
- L50
- 7
- N90
- 54,482
- L90
- 24
- N95
- 30,355
- L95
- 31
- %GC
- 57.22
- Ns
- 790
- gaps
- 9
- loci tagged
- 683
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 | 623 | 99 | |
Analysis
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 0
- resistance_score
- 1
- num_resistance_classes
- 3
- num_resistance_genes
- 3
- 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
- 96.74%
- K_locus_missing_genes
- KL10_18_manC,KL10_19_manB
- O_locus
- O3/O3a
- O_type
- O3/O3a
- O_locus_problems
- ?-
- O_locus_confidence
- Good
- O_locus_identity
- 97.88%
- O_locus_missing_genes
- O3/O3a_01_manC,O3/O3a_02_manB,O3/O3a_07_wbdB
- AGly_acquired
- ant(2'')-Ia
- Flq_acquired
- qnrS1
- Bla_ESBL_acquired
- SHV-7^
- SHV_mutations
- 238S;240K
- spurious_resistance_hits
- LAP-1?-0%
Analysis performed: 2024-04-16; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_46_5_1_1_0_0_0_0
Schemes and loci
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Tools
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