Info • Thamnidium elegans v1.0

Status

[Feb 2016] The Thamnidium elegans NRRL 2467 genome was sequenced using the PacBio platform and assembled together with Falcon version 0.3.0 (https://github.com/PacificBiosciences/FALCON). Mitochondrial genome was assembled separately and is available in the downloads section. Note: 22 contigs were identified as mitochondrial contamination in the main assembly and removed prior to release. Reassembly of mitochondrial identified preads failed, so the 22 contaminant contigs are provided as mito, there is no guarantee they completely represent the mitochondrial genome.

Summary statistics for the Thamnidium elegans NRRL 2467 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 34.25
Sequencing read coverage depth 145.54x
# of contigs 89
# of scaffolds 89
# of scaffolds >= 2Kbp 83
Scaffold N50 12
Scaffold L50 (Mbp) 0.92
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.68, 2.25, 1.63


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 37022 34902 94.3%
Ests est.fasta 168343651 167092152 99.3%


Gene Models FilteredModels3
length (bp) of: average median
gene 1546 1301
transcript 1303 1064
exon 324 187
intron 83 67
description:
protein length (aa) 389 307
exons per gene 4.02 3
# of gene models 13104


Collaborators

 Joey Spatafora, Oregon State, Oregon

Jason Stajich, UC Riverside, California

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.