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Info • Laccaria amethystina LaAM-08-1 v2.0

Status

Assembly v2 (May 2013) is an improved draft assembly. 1299 scaffolds and 52.6 Mbp were assembled by AllPathsLG using Illumina gDNAs and then patched by PBJelly using PacBio gDNAs.

Summary statistics for the Laccaria amethystina LaAM-08-1 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 52.58
Sequencing read coverage depth 156.5x
# of contigs 1999
# of scaffolds 1299
# of scaffolds >= 2Kbp 1034
Scaffold N50 112
Scaffold L50 (Mbp) 0.12
# of gaps 700
% of scaffold length in gaps 1.9%
Three largest Scaffolds (Mbp) 0.84, 0.70, 0.66


ESTs Data set # sequences total # mapped to genome % mapped to genome
Other JGI_RNA_contigs 31231 29635 94.9%


Gene Models FilteredModels1
length (bp) of: average median
gene 1517 1230
transcript 1238 986
exon 242 150
intron 70 56
description:
protein length (aa) 364 278
exons per gene 5.12 4
# of gene models 17553


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.