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Full information on isolate NGS-ED-1107 (id:30)

Provenance/primary metadata

id
30
isolate
NGS-ED-1107
isolation year
2013
world region
Europe
country
UK
city
Edinburgh
host
Human
source
Blood
infection
Infection
other infection info
Disease
sender
Julien Guglielmini, Institut Pasteur
curator
Auto Tagger
update history
9 updates show details
date entered
2016-05-23
datestamp
2022-12-22

Publication (1)

  • Walsh P, Bekaert M, Carroll J, Manning T, Kelly B, O'Driscoll A, Lu X, Smith C, Dickinson P, Templeton K, Ghazal P, Sleator RD (2015). Draft Genome Sequences of Six Different Staphylococcus epidermidis Clones, Isolated Individually from Preterm Neonates Presenting with Sepsis at Edinburgh's Royal Infirmary. Genome Announc 3:

Sequence bin

contigs
53
total length
2,689,903 bp
max length
207,733 bp
mean length
50,753 bp
N50
96,796
L50
9
N90
40,822
L90
25
N95
26,200
L95
29
%GC
31.93
Ns
0
gaps
0
loci tagged
772

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Assembly checks

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

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Staphylococcus epidermidis Firmicutes > Bacilli > Bacillales > Staphylococcaceae > Staphylococcus > Staphylococcus epidermidis 100%

Analysis performed: 2022-12-27

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
Clustering-134cgMLSTSingle-linkage134experimental19 (141 isolates)
Clustering-468cgMLSTSingle-linkage468experimental1 (417 isolates)
test-105cgMLSTSingle-linkage105experimental19 (128 isolates)
Clustering-134cgMLSTSingle-linkage134experimental19 (141 isolates)
Clustering-468cgMLSTSingle-linkage468experimental1 (417 isolates)
test-105cgMLSTSingle-linkage105experimental19 (128 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

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