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Info • Protomyces lactucaedebilis 12-1054 v1.0

Status

[Feb 2016] The Protomyces lactucaedebilis genome was sequenced using PacBio reads and assembled with Falcon version 0.3.0 and polished with Quiver version smrtanalysis_2.3.0.140936.
Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Protomyces lactucaedebilis v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 12.93
Sequencing read coverage depth 14.8x
# of contigs 44
# of scaffolds 44
# of scaffolds >= 2Kbp 43
Scaffold N50 10
Scaffold L50 (Mbp) 0.57
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.87, 0.81, 0.69


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 11249 10766 95.7%
Ests est.fasta 152899183 89854086 58.8%


Gene Models FilteredModels1
length (bp) of: average median
gene 1440 1217
transcript 1399 1180
exon 849 588
intron 66 45
description:
protein length (aa) 407 334
exons per gene 1.65 1
# of gene models 6726


Collaborators

Jon Magnuson, Pacific Northwest National Laboratory, USA
Joseph Spatafora, Oregon State University, USA

Genome Reference(s)

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.