Info • Pisolithus microcarpus 441 v1.0
Please note that this organism is for archival use only. Please see the current Pisolithus microcarpus 441 v2.0 site for the latest data and information.

Status

Assembly v1 (February 2012) is a draft assembly of Solexa, 454, and Sanger gDNA reads. A total of 1064 scaffolds and 53.0 Mbp were assembled using AllPathsLG.

Summary statistics for the Pisolithus microcarpus v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp} 53.03
Sequencing read coverage depth 87.1x
# of contigs 5476
# of scaffolds 1064
# of scaffolds >= 2Kbp 877
Scaffold N50 89
Scaffold L50 (Mbp) 0.15
# of gaps 4412
% of scaffold length in gaps 10.5%
Three largest Scaffolds (Mbp) 0.95, 0.88, 0.79


RNAs Data set # sequences total # mapped to genome % mapped to genome
Ests INRA_454_ESTs 195303 153702 78.7%
Ests NCBI_Sanger_ESTs 995 535 53.8%
EST contigs INRA_Mira_contigs 59500 37321 62.7%
RNA contigs JGI_Combest_contigs 141897 116852 82.3%
RNA contigs JGI_Rnnotator_contigs 49874 40428 81.1%


Gene Models FilteredModels1
length (bp) of: average median
gene 1220 840
transcript 982 701
exon 243 162
intron 80 56
description:
protein length (aa) 282 181
exons per gene 4.04 3
# of gene models 21064


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.