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Full information on isolate VICE0828 (id:25289)

Provenance/primary metadata

id
25289
isolate
VICE0828
country
Iceland
continent
Europe
region
Reykjavík
year
2010
serotype
6A
age yr
1
diagnosis
pneumonia
host
human
source
lung aspirate
ENA accession
ERR470440 www.ebi.ac.uk
rMLST database accession
95403
sender
Angela Brueggemann, University of Oxford, UK
curator
Melissa Jansen van Rensburg, University of Oxford, UK (E-mail: Melissa.JansenvanRensburg@ndph.ox.ac.uk)
update history
11 updates show details
date entered
2015-03-17
datestamp
2020-04-03

Publication (1)

  • Rezaei Javan R, van Tonder AJ, King JP, Harrold CL, Brueggemann AB (2018). Genome Sequencing Reveals a Large and Diverse Repertoire of Antimicrobial Peptides. Front Microbiol 9:2012

Sequence bin

contigs
220
total length
2,159,789 bp
max length
98,150 bp
mean length
9,818 bp
N50 contig number
18
N50 length (L50)
39,580
N90 contig number
62
N90 length (L90)
9,215
N95 contig number
76
N95 length (L95)
4,660
loci tagged
1,404
detailed breakdown
Display

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
Sp_cgc_1000cgMLSTSingle-linkage1000experimentalgroup: 4 (827 isolates)
Sp_cgc_500cgMLSTSingle-linkage500experimentalgroup: 31 (114 isolates)
Sp_cgc_400cgMLSTSingle-linkage400experimentalgroup: 31 (114 isolates)
Sp_cgc_300cgMLSTSingle-linkage300experimentalgroup: 32 (114 isolates)
Sp_cgc_200cgMLSTSingle-linkage200experimentalgroup: 100 (113 isolates)
Sp_cgc_100cgMLSTSingle-linkage100experimentalgroup: 105 (64 isolates)
Sp_cgc_50cgMLSTSingle-linkage50experimentalgroup: 106 (63 isolates)
Sp_cgc_25cgMLSTSingle-linkage25experimentalgroup: 110 (8 isolates)
Sp_cgc_10cgMLSTSingle-linkage10experimentalgroup: 115 (7 isolates)
Sp_cgc_5cgMLSTSingle-linkage5experimentalgroup: 115 (3 isolates)

Schemes and loci

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Tools

Analysis: