Full information on isolate L2b_HPA34 (id:4914)

Provenance/primary metadata

id
4914
isolate
L2b_HPA34
species
Chlamydia trachomatis
genovar
L2b
country
UK
continent
Europe
year
2008
host
human
sex
male
source
rectum
bioproject accession
PRJEB2035 www.ebi.ac.uk
biosample accession
SAMEA1483360 www.ebi.ac.uk
ENA run accession
ERR164665 www.ebi.ac.uk
sender
Odile Harrison, University of Oxford, UK
curator
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update history
6 updates show details
date entered
2022-08-08
datestamp
2022-12-01

Publications (2)

  • Hadfield J, Harris SR, Seth-Smith HMB, Parmar S, Andersson P, Giffard PM, Schachter J, Moncada J, Ellison L, Vaulet MLG, Fermepin MR, Radebe F, Mendoza S, Ouburg S, MorrĂ© SA, Sachse K, Puolakkainen M, Korhonen SJ, Sonnex C, Wiggins R, Jalal H, Brunelli T, Casprini P, Pitt R, Ison C, Savicheva A, Shipitsyna E, Hadad R, Kari L, Burton MJ, Mabey D, Solomon AW, Lewis D, Marsh P, Unemo M, Clarke IN, Parkhill J, Thomson NR (2017). Comprehensive global genome dynamics of Chlamydia trachomatis show ancient diversification followed by contemporary mixing and recent lineage expansion. Genome Res 27:1220-1229
  • Seth-Smith HM, Harris SR, Skilton RJ, Radebe FM, Golparian D, Shipitsyna E, Duy PT, Scott P, Cutcliffe LT, O'Neill C, Parmar S, Pitt R, Baker S, Ison CA, Marsh P, Jalal H, Lewis DA, Unemo M, Clarke IN, Parkhill J, Thomson NR (2013). Whole-genome sequences of Chlamydia trachomatis directly from clinical samples without culture. Genome Res 23:855-66

Sequence bin

contigs
228
total length
1,241,517 bp
max length
153,259 bp
mean length
5,446 bp
N50
17,744
L50
14
N90
2,596
L90
86
N95
1,547
L95
116
%GC
41.90
Ns
0
gaps
0
loci tagged
843

Show sequence bin

Annotation quality metrics

SchemeScheme lociDesignated lociAnnotation
ScoreStatus
C. trachomatis cgMLST v1.081768283

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Chlamydia trachomatis Chlamydiae > Chlamydiia > Chlamydiales > Chlamydiaceae > Chlamydia > Chlamydia trachomatis 90%

Analysis performed: 2023-01-25

Schemes and loci

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