Info • Laccaria amethystina LaAM-08-1 v1.0
Please note that this organism is for archival use only. Please see the current Laccaria amethystina LaAM-08-1 v2.0 site for the latest data and information.

Status

Assembly v1 (September 2012) is a draft assembly of Solexa gDNA reads. A total of 1299 scaffolds and 52.2 Mbp were assembled using AllPathsLG.

Summary statistics for the Laccaria amethystina LaAM-08-1 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp} 52.20
Sequencing read coverage depth 156.5x
# of contigs 4756
# of scaffolds 1299
# of scaffolds >= 2Kbp 1034
Scaffold N50 111
Scaffold L50 (Mbp) 0.12
# of gaps 3457
% of scaffold length in gaps 8.6%
Three largest Scaffolds (Mbp) 0.84, 0.70, 0.66


ESTs Data set # sequences total # mapped to genome % mapped to genome
Other JGI_Combest_RNA_contigs 153800 133059 86.5%
Other JGI_Rnnotator_RNA_contigs 31231 27858 89.2%


Gene Models FilteredModels1
length (bp) of: average median
gene 1385 1026
transcript 1106 828
exon 246 155
intron 82 56
description:
protein length (aa) 319 218
exons per gene 4.49 3
# of gene models 21066


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.