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Info • Lobaria pulmonaria Scotland reference genome v1.0

Status

[February 2017] The Lobaria pulmonaria Scotland genome was sequenced with Illumina, assembled with Velvet and then AllPathsLG, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Lobaria pulmonaria Scotland v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 56.12
Sequencing read coverage depth 145.5x
# of contigs 2271
# of scaffolds 1911
# of scaffolds >= 2Kbp 1808
Scaffold N50 300
Scaffold L50 (Mbp) 0.05
# of gaps 360
% of scaffold length in gaps 0.4%
Three largest Scaffolds (Mbp) 0.42, 0.32, 0.30


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 103899 82360 79.3%
Ests est.fasta 167967177 165731449 98.7%


Gene Models FilteredModels2
length (bp) of: average median
gene 1546 1289
transcript 1379 1134
exon 464 290
intron 87 60
description:
protein length (aa) 401 313
exons per gene 2.97 2
# of gene models 15607


Funding

The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.