Status
[Feb 2016] The Sporopachydermia lactativora genome was
sequenced using the Illumina platform and assembled with AllPathsLG
release version R49403 (Gnerre et al.,
2011).
Mitochondrial genome was assembled separately and is available in
the downloads section.
Summary statistics for the Sporopachydermia lactativora
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 15.57 |
| Sequencing read coverage depth | 130.7x |
| # of contigs | 408 |
| # of scaffolds | 366 |
| # of scaffolds >= 2Kbp | 323 |
| Scaffold N50 | 57 |
| Scaffold L50 (Mbp) | 0.08 |
| # of gaps | 42 |
| % of scaffold length in gaps | 0.1% |
| Three largest Scaffolds (Mbp) | 0.38, 0.34, 0.28 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 14715 | 10654 | 72.4% |
| Ests | est.fasta | 143474347 | 133286415 | 92.9% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1576 | 1356 |
| transcript | 1452 | 1245 |
| exon | 817 | 523 |
| intron | 162 | 86 |
| description: | ||
| protein length (aa) | 437 | 362 |
| exons per gene | 1.78 | 1 |
| # of gene models | 5498 |
Collaborators
Jon Magnuson, Pacific Northwest National Laboratory, USA
Joseph Spatafora, Oregon State University, USA
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.
