Status
[April 2015] The Hyalopycnis blepharistoma ATCC 48560 genome was sequenced using the Illumina platform and assembled together with AllPathsLG version R49403, (Gnerre et al., 2010). Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Hyalopycnis blepharistoma ATCC
48560 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 17.93 |
| Sequencing read coverage depth | 102.2x |
| # of contigs | 448 |
| # of scaffolds | 210 |
| # of scaffolds >= 2Kbp | 168 |
| Scaffold N50 | 11 |
| Scaffold L50 (Mbp) | 0.53 |
| # of gaps | 238 |
| % of scaffold length in gaps | 1.8% |
| Three largest Scaffolds (Mbp) | 1.83, 1.13, 1.03 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | RNNotator_assembled_Illumina_ESTs | 28030 | 27522 | 98.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1669 | 1421 |
| transcript | 1437 | 1210 |
| exon | 245 | 152 |
| intron | 50 | 45 |
| description: | ||
| protein length (aa) | 426 | 347 |
| exons per gene | 5.85 | 5 |
| # of gene models | 7872 |
Collaborators
Jon Magnuson, Pacific Northwest National Laboratory, USA
Joseph Spatafora, Oregon State University, USA
David Culley, Pacific Northwest National Laboratory, 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.
