Full information on isolate ERR4019904 (id:28121)
Provenance/primary metadata
- id
- 28121
- isolate
- ERR4019904
- aliases
- EbB064; SAMEA6658695
- sender
- Sebastien Bridel, Institut Pasteur, Paris, France
- curator
- Auto Tagger
- update history
- 5 updates show details
- date entered
- 2023-02-15
- datestamp
- 2023-11-27
- taxonomic designation
- K. pneumoniae
- QC status
- 0000
- isolation year
- 2016
- city
- Unknown
- country
- Cambodia
- continent
- Asia
- source type
- Human
- host
- Human
- source details
- Clinical
Sequence bin
- contigs
- 86
- total length
- 5,520,159 bp
- max length
- 707,408 bp
- mean length
- 64,188 bp
- N50
- 326,855
- L50
- 7
- N90
- 39,635
- L90
- 21
- N95
- 22,409
- L95
- 30
- %GC
- 57.36
- Ns
- 495
- gaps
- 5
- 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 | 627 | 99 | |
Analysis
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- ambiguous_bases
- virulence_score
- 0
- resistance_score
- 1
- num_resistance_classes
- 6
- num_resistance_genes
- 7
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi100
- K_locus
- unknown (KL10)
- K_type
- unknown (K10)
- K_locus_problems
- ?-+
- K_locus_confidence
- None
- K_locus_identity
- 96.64%
- K_locus_missing_genes
- KL10_09_wclP,KL10_10_wzx,KL10_18_manC,KL10_19_manB
- O_locus
- O3/O3a
- O_type
- O3/O3a
- O_locus_problems
- ?-
- O_locus_confidence
- Good
- O_locus_identity
- 97.94%
- O_locus_missing_genes
- O3/O3a_01_manC,O3/O3a_02_manB
- AGly_acquired
- strA.v1;strB.v1
- Phe_acquired
- catA1*
- Sul_acquired
- sul2
- Tet_acquired
- tet(D)
- Tmt_acquired
- dfrA5
- Bla_ESBL_acquired
- SHV-2^
- SHV_mutations
- 238S
Analysis performed: 2024-03-26; Kleborate v2.3.2
Similar isolates (determined by LIN codes)
- Scheme
- scgMLST629_S
- LIN code
- 0_0_46_5_3_0_0_1_0_0
Schemes and loci
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Tools
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