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Full information on isolate Lai (id:26)

Provenance/primary metadata

id
26
isolate
Lai
biosample
SAMN00739369
accession number
CLC_glsol048
clade
P1
species
interrogans
serogroup
Icterohaemorrhagiae
serovar
Lai
sequencing year
2012
world region
Southern Asia
country
China
host
human
sample type
Unknown
source lab
Craig Venter Institute
sender
Julien Guglielmini, Institut Pasteur, France
curator
Jean-François Mariet, Institut Pasteur, Paris, France (E-mail: jean-francois.mariet@pasteur.fr)
update history
715 updates show details
date entered
2016-12-01
datestamp
2025-05-12

Publications (2)

  • Guglielmini J, Bourhy P, Schiettekatte O, Zinini F, Brisse S, Picardeau M (2019). Genus-wide Leptospira core genome multilocus sequence typing for strain taxonomy and global surveillance. PLoS Negl Trop Dis 13:e0007374
  • Guglielmini J, Bourhy P, Schiettekatte O, Zinini F, Brisse S, Picardeau M (2020). Correction: Genus-wide Leptospira core genome multilocus sequence typing for strain taxonomy and global surveillance. PLoS Negl Trop Dis 14:e0008673

Sequence bin

method
Unknown
contigs
256
total length
4,600,310 bp
max length
125,579 bp
mean length
17,970 bp
N50
37,861
L50
38
N90
9,484
L90
126
N95
6,269
L95
156
%GC
34.94
Ns
773
gaps
90
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
cgMLST54553698

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Leptospira interrogans Spirochaetes > Spirochaetia > Leptospirales > Leptospiraceae > Leptospira > Leptospira interrogans 100%

Analysis performed: 2022-12-05

Similar isolates (determined by classification schemes)

Some groups only contain this isolate. Show single groups

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

Classification schemeUnderlying schemeClustering methodMismatch thresholdStatusGroup
Cluster_40_cgMLSTcgMLSTSingle-linkage40experimental16 (3 isolates)
Test-75cgMLSTSingle-linkage75experimental16 (2 isolates)
Test-50cgMLSTSingle-linkage50experimental16 (3 isolates)
Test-110cgMLSTSingle-linkage110experimental15 (2 isolates)
Test-150cgMLSTSingle-linkage150experimental14 (2 isolates)
Test-20cgMLSTSingle-linkage20experimental17 (2 isolates)
Test-200cgMLSTSingle-linkage200experimental14 (2 isolates)
Test-220cgMLSTSingle-linkage220experimental14 (2 isolates)
Test-250cgMLSTSingle-linkage250experimental14 (2 isolates)
Test-30cgMLSTSingle-linkage30experimental16 (3 isolates)
Test-300cgMLSTSingle-linkage300experimental14 (2 isolates)
Test-60cgMLSTSingle-linkage60experimental16 (3 isolates)
Test-80cgMLSTSingle-linkage80experimental15 (3 isolates)
Cluster_40_cgMLSTcgMLSTSingle-linkage40experimental16 (3 isolates)
Test-75cgMLSTSingle-linkage75experimental16 (2 isolates)
Test-50cgMLSTSingle-linkage50experimental16 (3 isolates)
Test-10cgMLSTSingle-linkage10experimental20 (1 isolate)
Test-110cgMLSTSingle-linkage110experimental15 (2 isolates)
Test-150cgMLSTSingle-linkage150experimental14 (2 isolates)
Test-20cgMLSTSingle-linkage20experimental17 (2 isolates)
Test-200cgMLSTSingle-linkage200experimental14 (2 isolates)
Test-220cgMLSTSingle-linkage220experimental14 (2 isolates)
Test-250cgMLSTSingle-linkage250experimental14 (2 isolates)
Test-30cgMLSTSingle-linkage30experimental16 (3 isolates)
Test-300cgMLSTSingle-linkage300experimental14 (2 isolates)
Test-60cgMLSTSingle-linkage60experimental16 (3 isolates)
Test-80cgMLSTSingle-linkage80experimental15 (3 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

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