Status
The Schizochytrium aggregatum genome was sequenced using the Solexa and Sanger sequencing platforms and assembled with Arachne.
Summary statistics for the Schizochytrium aggregatum ATCC
28209 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 40.85 |
| Sequencing read coverage depth | 71.90x |
| # of contigs | 2236 |
| # of scaffolds | 283 |
| # of scaffolds >= 2Kbp | 163 |
| Scaffold N50 | 15 |
| Scaffold L50 (Mbp) | 0.64 |
| # of gaps | 1953 |
| % of scaffold length in gaps | 4.6% |
| Three largest Scaffolds (Mbp) | 3.09, 2.74, 2.66 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | JGI_454_ESTs | 1286682 | 1247520 | 97.0% |
| Other | JGI_Newbler_EST_contigs | 14614 | 14128 | 96.7% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1697 | 1235 |
| transcript | 1500 | 1155 |
| exon | 953 | 699 |
| intron | 345 | 145 |
| description: | ||
| protein length (aa) | 452 | 332 |
| exons per gene | 1.57 | 1 |
| # of gene models | 10612 |
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.
