Status
Assembly v1 (February 2012) is a draft assembly of Solexa gDNA reads using AllPathsLG.
Summary statistics for the Hypoxylon sp. EC38 v1.0 release
are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 47.30 |
| Sequencing read coverage depth | 90.9x |
| # of contigs | 1302 |
| # of scaffolds | 1168 |
| # of scaffolds >= 2Kbp | 965 |
| Scaffold N50 | 70 |
| Scaffold L50 (Mbp) | 0.19 |
| # of gaps | 134 |
| % of scaffold length in gaps | 0.2% |
| Three largest Scaffolds (Mbp) | 0.76, 0.74, 0.73 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | Combest_assemblies | 88997 | 88744 | 99.7% |
| Other | Rnnotator_contigs | 38317 | 35944 | 93.8% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1757 | 1560 |
| transcript | 1576 | 1370 |
| exon | 552 | 338 |
| intron | 100 | 65 |
| description: | ||
| protein length (aa) | 456 | 380 |
| exons per gene | 2.86 | 2 |
| # of gene models | 12261 |
Collaborators
- DOE Joint Genome Institute
- Blake Simmons at DOE Joint BioEnergy Institute and Sandia National Laboratories
- Masood Hadi at DOE Joint BioEnergy Institute and Sandia National Laboratories
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.
