Full information on isolate 09-370B (id:1835)
Projects
Provenance/primary metadata
- id
- 1835
- isolate
- 09-370B
- aliases
- 5235_5_12; SKP000858
- sender
- Kat Holt, Melbourne U
- curator
- Auto Tagger
- update history
- 16 updates show details
- date entered
- 2014-09-04
- datestamp
- 2023-11-22
- taxonomic designation
- K. pneumoniae
- QC status
- 0100
- isolation year
- 2009
- city
- Hanoi
- country
- Vietnam
- continent
- Asia
- source type
- Human
- host
- Human
- source details
- Unknown
- accession number
- ERR025634
Sequence bin
- contigs
- 2,070
- total length
- 5,361,394 bp
- max length
- 22,359 bp
- mean length
- 2,591 bp
- N50
- 3,956
- L50
- 400
- N90
- 1,133
- L90
- 1,369
- N95
- 796
- L95
- 1,650
- %GC
- 56.97
- Ns
- 0
- gaps
- 0
- loci tagged
- 2,732
Assembly checks
| Check | Status | Warn/fail reason |
|---|---|---|
| Number of contigs | too many contigs (fail threshold: 501) | |
| Assembly size | ||
| Minimum N50 | N50 too low (fail threshold: 10,000) | |
| %GC |
Annotation quality metrics
Scheme completion
| Scheme | Scheme loci | Designated loci | Annotation | |
|---|---|---|---|---|
| Score | Status | |||
| MLST | 7 | 6 | 85 | |
| Ribosomal MLST | 53 | 51 | 96 | |
| scgMLST629_S | 629 | 492 | 78 | |
Analysis
rMLST species identification
| Rank | Taxon | Taxonomy | Support | Matches |
|---|---|---|---|---|
| SPECIES | Klebsiella pneumoniae | Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella pneumoniae | 100% |
Analysis performed: 2022-11-02
Kleborate
- species
- Klebsiella pneumoniae
- species_match
- strong
- QC_warnings
- N50
- virulence_score
- 0
- resistance_score
- 2
- num_resistance_classes
- 9
- num_resistance_genes
- 15
- YbST
- 0
- CbST
- 0
- AbST
- 0
- SmST
- 0
- RmST
- 0
- wzi
- wzi88
- K_locus
- KL150
- K_type
- unknown (KL150)
- K_locus_problems
- ?+
- K_locus_confidence
- Good
- K_locus_identity
- 99.93%
- O_locus
- O3b
- O_type
- O3b
- O_locus_problems
- ?-
- O_locus_confidence
- Good
- O_locus_identity
- 99.07%
- O_locus_missing_genes
- O3b_01_manC,O3b_08_wbdC
- AGly_acquired
- aac(3)-IId^;aac(6')-Ib-cr.v2;aadA16*;aadA5;strA.v1;strB.v1
- Phe_acquired
- catA1*
- Rif_acquired
- arr-3
- Sul_acquired
- sul1;sul2
- Tet_acquired
- tet(D)
- Tmt_acquired
- dfrA17;dfrA27
- Bla_ESBL_acquired
- CTX-M-15
- Bla_Carb_acquired
- KPC-2
- Omp_mutations
- OmpK35-31%
- Flq_mutations
- GyrA-83I;GyrA-87N;ParC-80I
- truncated_resistance_hits
- mphA?-81%
- spurious_resistance_hits
- TEM-117?-0%
Analysis performed: 2024-02-12; Kleborate v2.3.2
Schemes and loci
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