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Full information on isolate D988 (id:602)

Projects

This isolate is a member of the following projects:

B. bronchiseptica phylogeny
Records for the phylogeny
Public Genomes
public genomes analyzed in Bridel et al 2022

Provenance/primary metadata

id
602
isolate
D988
aliases
ERR380640; WTCHG_45803_286
species
B. bronchiseptica I-1
country
USA
continent
North America
region
CO
year
1966
host
human
accession number
ERR380640
comments
from CDC Pertussis lab, isolate name is CDC name, collected via NP swab or NP aspirate
sender
Keith Jolley, University of Oxford
curator
Sebastien Bridel, Institut Pasteur, Paris, France (E-mail: sbridel@pasteur.fr)
update history
17 updates show details
date entered
2016-09-01
datestamp
2022-03-31

Publication (1)

  • Bridel S, Bouchez V, Brancotte B, Hauck S, Armatys N, Landier A, Mühle E, Guillot S, Toubiana J, Maiden MCJ, Jolley KA, Brisse S (2022). A comprehensive resource for Bordetella genomic epidemiology and biodiversity studies. Nat Commun 13:3807

Sequence bin

contigs
2,003
total length
5,061,619 bp
max length
45,989 bp
mean length
2,528 bp
N50
4,479
L50
310
N90
1,131
L90
1,170
N95
732
L95
1,448
%GC
67.74
Ns
0
gaps
0
loci tagged
2,656

Show sequence bin

Assembly checks

CheckStatusWarn/fail reason
Number of contigstoo many contigs (fail threshold: 1,000)
Assembly size
Minimum N50N50 too low (fail threshold: 10,000)
%GC

Schemes and loci

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