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Full information on isolate STPET15 (id:840)

Provenance/primary metadata

id
840
isolate
STPET15
alias
Kulikov
clade
P1
species
interrogans
serogroup
Canicola
isolation year
1969
passage
147
world region
Central Asia
country
Russia
city
Kaliningrad
host
human
sample type
Blood
source lab
St-Petersburg Pasteur Institute
resistance info
Pathogen
sender
Jean-François Mariet, Institut Pasteur, Paris, France
curator
Auto Tagger
update history
20 updates show details
date entered
2019-02-08
datestamp
2025-07-22

Sequence bin

method
Illumina
contigs
305
total length
3,322,768 bp
max length
69,202 bp
mean length
10,895 bp
N50
15,815
L50
68
N90
5,981
L90
196
N95
4,360
L95
228
%GC
35.85
Ns
0
gaps
0
loci tagged
534

Show sequence bin

Assembly checks

CheckStatusWarn/fail reason
Number of contigs
Assembly sizeassembly size too small (fail threshold: 3,500,000)
Minimum N50N50 too low (warn threshold: 20,000)
%GC

Annotation quality metrics

Scheme completion

SchemeScheme lociDesignated lociAnnotation
ScoreStatus
cgMLST54547687

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)

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

Classification schemeUnderlying schemeClustering methodMismatch thresholdStatusGroup
Cluster_40_cgMLSTcgMLSTSingle-linkage40experimental28 (53 isolates)
Test-50cgMLSTSingle-linkage50experimental27 (53 isolates)
Test-150cgMLSTSingle-linkage150experimental25 (27 isolates)
Test-20cgMLSTSingle-linkage20experimental29 (27 isolates)
Test-200cgMLSTSingle-linkage200experimental25 (27 isolates)
Test-30cgMLSTSingle-linkage30experimental28 (53 isolates)
Test-300cgMLSTSingle-linkage300experimental5 (75 isolates)
Test-60cgMLSTSingle-linkage60experimental27 (53 isolates)
Test-80cgMLSTSingle-linkage80experimental26 (53 isolates)
Cluster_40_cgMLSTcgMLSTSingle-linkage40experimental28 (53 isolates)
Test-50cgMLSTSingle-linkage50experimental27 (53 isolates)
Test-150cgMLSTSingle-linkage150experimental25 (27 isolates)
Test-20cgMLSTSingle-linkage20experimental29 (27 isolates)
Test-200cgMLSTSingle-linkage200experimental25 (27 isolates)
Test-30cgMLSTSingle-linkage30experimental28 (53 isolates)
Test-300cgMLSTSingle-linkage300experimental5 (75 isolates)
Test-60cgMLSTSingle-linkage60experimental27 (53 isolates)
Test-80cgMLSTSingle-linkage80experimental26 (53 isolates)

Schemes and loci

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