Info • Sodiomyces alkalinus v1.0


June 2013. The Sodiomyces alkalinus genome was sequenced using Illumina technology and assembled using AllPathsLG version R44849. Subsequently it was annotated using the JGI annotation pipeline and custom analyses.

Summary statistics for the Sodiomyces alkalinus v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 43.45
Sequencing read coverage depth 113.5x
# of contigs 290
# of scaffolds 29
# of scaffolds >= 2Kbp 25
Scaffold N50 4
Scaffold L50 (Mbp) 3.52
# of gaps 261
% of scaffold length in gaps 0.7%
Three largest Scaffolds (Mbp) 7.53, 6.54, 4.74

ESTs Data set # sequences total # mapped to genome % mapped to genome
Other EST_contigs 24777 24123 97.4%

Gene Models FilteredModels2
length (bp) of: average median
gene 1929 1654
transcript 1649 1400
exon 497 241
intron 123 90
protein length (aa) 467 374
exons per gene 3.32 3
# of gene models 9411


Alexey Grum Grzhimaylo, Wageningen University ([email protected])


Genome Reference(s)


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.