Info • Lophodermium nitens PLMe3-1-3 v1.0

Status

[April 2018] The Lophodermium nitens PLMe3-1-3 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Lophodermium nitens PLMe3-1-3 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 74.67
Sequencing read coverage depth 215.76x
# of contigs 722
# of scaffolds 722
# of scaffolds >= 2Kbp 717
Scaffold N50 143
Scaffold L50 (Mbp) 0.16
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.58, 0.57, 0.55


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 84286 70012 83.1%
Ests est.fasta 116961228 108355443 92.6%


Gene Models FilteredModels1
length (bp) of: average median
gene 1619 1401
transcript 1416 1220
exon 471 303
intron 103 63
description:
protein length (aa) 397 323
exons per gene 3.00 3
# of gene models 19985


Collaborators

Ryoko Oono, University of California, Santa Barbara

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.