Full information on isolate SRR15047161 (id:36672)
Provenance/primary metadata
- id
- 36672
- isolate
- SRR15047161
- alias
- SAMN20064936
- 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
- 2020
- city
- Unknown
- country
- Switzerland
- continent
- Europe
- source type
- Human
- host
- Human
- source details
- Unknown
Sequence bin
- contigs
- 100
- total length
- 5,708,412 bp
- max length
- 460,142 bp
- mean length
- 57,085 bp
- N50
- 237,609
- L50
- 8
- N90
- 31,671
- L90
- 30
- N95
- 14,470
- L95
- 42
- %GC
- 56.85
- Ns
- 965
- gaps
- 26
- loci tagged
- 686
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
- 0
- resistance_score
- 2
- num_resistance_classes
- 7
- num_resistance_genes
- 15
- 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
- 96.76%
- 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
- 98.03%
- O_locus_missing_genes
- O3/O3a_01_manC,O3/O3a_02_manB
- AGly_acquired
- aac(3)-IId^;aac(6')-Ib-cr.v2;aadA2^;aph(3')-VI;armA;strA.v1;strB.v1
- Flq_acquired
- qnrB1.v2^;qnrB4
- Phe_acquired
- CatB4.v1?
- Sul_acquired
- sul1
- Tmt_acquired
- dfrA12
- Bla_acquired
- DHA-1;OXA-1
- Bla_Carb_acquired
- NDM-1
- Bla_chr
- SHV-1^
Analysis performed: 2024-04-12; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_46_5_8_0_0_0_0_0
Schemes and loci
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Tools
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