Full information on isolate SRR8174898 (id:43917)
Provenance/primary metadata
- id
- 43917
- isolate
- SRR8174898
- aliases
- K053; SAMN10390488
- 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
- 2010
- city
- Dar es Salaam
- country
- Tanzania
- continent
- Africa
- source type
- Human
- host
- Human
- source details
- Faeces
Sequence bin
- contigs
- 121
- total length
- 5,422,977 bp
- max length
- 391,500 bp
- mean length
- 44,818 bp
- N50
- 141,831
- L50
- 12
- N90
- 38,922
- L90
- 37
- N95
- 23,103
- L95
- 46
- %GC
- 57.11
- Ns
- 1271
- gaps
- 13
- loci tagged
- 689
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 | 629 | 100 | |
Analysis
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 1
- resistance_score
- 1
- num_resistance_classes
- 5
- num_resistance_genes
- 5
- Yersiniabactin
- ybt 14; ICEKp5
- YbST
- 376
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi7
- K_locus
- KL7
- K_type
- K7
- K_locus_problems
- none
- K_locus_confidence
- Very high
- K_locus_identity
- 98.54%
- O_locus
- O1/O2v1
- O_type
- O1
- O_locus_problems
- none
- O_locus_confidence
- Very high
- O_locus_identity
- 98.62%
- AGly_acquired
- aac(3)-IId^
- Sul_acquired
- sul2
- Tmt_acquired
- dfrA30*
- Bla_acquired
- TEM-1D.v1^
- Bla_ESBL_acquired
- CTX-M-15
- Bla_chr
- SHV-1
- ybtS
- 4
- ybtX
- 4
- ybtQ
- 5
- ybtP
- 4
- ybtA
- 1
- irp2
- 8
- irp1
- 8
- ybtU
- 2
- ybtT
- 4
- ybtE
- 4
- fyuA
- 2
Analysis performed: 2024-04-13; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_127_8_18_0_0_0_0_0
| Prefix | Threshold | Matching isolates |
|---|---|---|
| 0_0_127_8_18_0 | 7 | 1 |
| 0_0_127_8_18_0_0 | 4 | 1 |
| 0_0_127_8_18_0_0_0 | 2 | 1 |
| 0_0_127_8_18_0_0_0_0 | 1 | 1 |
| 0_0_127_8_18_0_0_0_0_0 | 0 | 1 |
| 0 | 610 | 37702 |
| 0_0 | 585 | 37702 |
| 0_0_127 | 190 | 105 |
| 0_0_127_8 | 43 | 30 |
| 0_0_127_8_18 | 10 | 1 |
| 0_0_127_8_18_0 | 7 | 1 |
| 0_0_127_8_18_0_0 | 4 | 1 |
| 0_0_127_8_18_0_0_0 | 2 | 1 |
| 0_0_127_8_18_0_0_0_0 | 1 | 1 |
| 0_0_127_8_18_0_0_0_0_0 | 0 | 1 |
Schemes and loci
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Tools
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