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Full information on isolate SB5387_dd_b_40X (id:72124)

Provenance/primary metadata

id
72124
isolate
SB5387_dd_b_40X
alias
SB5387
sender
Chiara Crestani, Pasteur Institute, France
curator
Martin Rethoret-Pasty, Institut Pasteur, Paris, France (E-mail: martin.rethoret-pasty@pasteur.fr)
update history
12 updates show details
embargo history
show details
date entered
2024-06-18
datestamp
2024-06-20
taxonomic designation
K. variicola subsp. tropica
isolation year
0
city
Unknown
country
Unknown
source type
Unknown
host
Unknown
source details
Unknown

Sequence bin

method
Unknown
contigs
2
total length
5,801,829 bp
max length
5,567,976 bp
mean length
2,900,915 bp
N50
5,567,976
L50
1
N90
5,567,976
L90
1
N95
5,567,976
L95
1
%GC
56.89
Ns
0
gaps
0
loci tagged
622

Show sequence bin

Assembly checks

CheckStatusWarn/fail reason
Number of contigs
Assembly size
Minimum N50
%GC

Annotation quality metrics

Scheme completion

SchemeScheme lociDesignated lociAnnotation
ScoreStatus
scgMLST629_S62961397

Analysis

Kleborate

species
Klebsiella variicola subsp. tropica
species_match
strong
virulence_score
0
resistance_score
0
num_resistance_classes
0
num_resistance_genes
0
YbST
0
CbST
0
AbST
0
SmST
0
RmST
0
wzi
wzi509
K_locus
KL124
K_type
unknown (KL124)
K_locus_problems
*
K_locus_confidence
Very high
K_locus_identity
96.20%
O_locus
unknown (OL101)
O_type
unknown (OL101)
O_locus_problems
?+*
O_locus_confidence
None
O_locus_identity
94.84%
Bla_chr
LEN-39

Analysis performed: 2025-05-12; Kleborate v2.3.2

Similar isolates (determined by LIN codes)

Scheme
scgMLST629_S
LIN code
1_1_8_0_0_0_0_0_0_0
Phylogroup
Kp5
Sublineage
SL2466
Clonal group
CG2466

Show all thresholds

PrefixThresholdMatching isolates
1_1_8_0_0_0749
1_1_8_0_0_0_0449
1_1_8_0_0_0_0_0249
1_1_8_0_0_0_0_0_0149
1_1_8_0_0_0_0_0_0_0049
16101702
1_1585118
1_1_819049
1_1_8_04349
1_1_8_0_01049
1_1_8_0_0_0749
1_1_8_0_0_0_0449
1_1_8_0_0_0_0_0249
1_1_8_0_0_0_0_0_0149
1_1_8_0_0_0_0_0_0_0049

Similar isolates (determined by classification schemes)

Experimental schemes are subject to change and are not a stable part of the nomenclature.

Classification schemeUnderlying schemeClustering methodMismatch thresholdStatusGroup
klebs_species_v1.0scgMLST629_SSingle-linkage610experimental1 (16003 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental6 (52 isolates)
klebs_sublineage_v1.0scgMLST629_SSingle-linkage190experimental25 (32 isolates)
klebs_clonalgroup_v1.0scgMLST629_SSingle-linkage43experimental25 (32 isolates)
klebs_threshold10_v1.0scgMLST629_SSingle-linkage10experimental25 (32 isolates)
klebs_threshold7_v1.0scgMLST629_SSingle-linkage7experimental25 (32 isolates)
klebs_threshold4_v1.0scgMLST629_SSingle-linkage4experimental25 (32 isolates)
klebs_threshold2_v1.0scgMLST629_SSingle-linkage2experimental25 (32 isolates)
klebs_threshold1_v1.0scgMLST629_SSingle-linkage1experimental25 (32 isolates)
klebs_threshold0_v1.0scgMLST629_SSingle-linkage0experimental25 (32 isolates)
klebs_species_v1.0scgMLST629_SSingle-linkage610experimental1 (16003 isolates)
klebs_subspecies_v1.0scgMLST629_SSingle-linkage585experimental6 (52 isolates)
klebs_sublineage_v1.0scgMLST629_SSingle-linkage190experimental25 (32 isolates)
klebs_clonalgroup_v1.0scgMLST629_SSingle-linkage43experimental25 (32 isolates)
klebs_threshold10_v1.0scgMLST629_SSingle-linkage10experimental25 (32 isolates)
klebs_threshold7_v1.0scgMLST629_SSingle-linkage7experimental25 (32 isolates)
klebs_threshold4_v1.0scgMLST629_SSingle-linkage4experimental25 (32 isolates)
klebs_threshold2_v1.0scgMLST629_SSingle-linkage2experimental25 (32 isolates)
klebs_threshold1_v1.0scgMLST629_SSingle-linkage1experimental25 (32 isolates)
klebs_threshold0_v1.0scgMLST629_SSingle-linkage0experimental25 (32 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

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