Full information on isolate 364 (id:1355)

Provenance/primary metadata

id
1355
isolate
364
alias
364
biosample
SAMN17727576
clade
P1
species
interrogans
serogroup
Unknown
serovar
Unknown
isolation year
2017
sequencing year
2021
world region
South America
country
Brazil
city
Minas Gerais state
host
human
sample type
Blood
source lab
GenBank
sender
Vallier SORDOILLET, CNR Leptospirose PASTEUR
curator
Jean-Fran├žois Mariet, Institut Pasteur, Paris (E-mail: jean-francois.mariet@pasteur.fr)
update history
9 updates show details
date entered
2022-10-27
datestamp
2024-04-25

Sequence bin

contigs
364
total length
4,725,638 bp
max length
198,556 bp
mean length
12,983 bp
N50
74,029
L50
20
N90
23,007
L90
63
N95
11,381
L95
77
%GC
35.02
Ns
984
gaps
942
loci tagged
578

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
cgMLST54547286

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Leptospira interrogans Spirochaetes > Spirochaetia > Leptospirales > Leptospiraceae > Leptospira > Leptospira interrogans 97%

Analysis performed: 2022-12-05

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
Cluster_40_cgMLSTcgMLSTSingle-linkage40experimental6 (143 isolates)
Test-50cgMLSTSingle-linkage50experimental6 (143 isolates)
Test-30cgMLSTSingle-linkage30experimental51 (142 isolates)
Test-60cgMLSTSingle-linkage60experimental6 (143 isolates)
Test-80cgMLSTSingle-linkage80experimental6 (143 isolates)
Cluster_40_cgMLSTcgMLSTSingle-linkage40experimental6 (143 isolates)
Test-50cgMLSTSingle-linkage50experimental6 (143 isolates)
Test-30cgMLSTSingle-linkage30experimental51 (142 isolates)
Test-60cgMLSTSingle-linkage60experimental6 (143 isolates)
Test-80cgMLSTSingle-linkage80experimental6 (143 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

Tools

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