Status
[March 2021] The Hanseniaspora valbyensis HY1 v2.0 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 21.27 |
| Sequencing read coverage depth | 335.28x |
| # of contigs | 54 |
| # of scaffolds | 54 |
| # of scaffolds >= 2Kbp | 54 |
| Scaffold N50 | 7 |
| Scaffold L50 (Mbp) | 1.34 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 2.14, 1.94, 1.60 |
Please note RNA data suffers from contamination. Data set has good read mapping stats, but unusually low contig (EST clusters) mapping stats. When all reads are mapped to the zero assembly accuracy contigs, only 5.86% of reads map. Therefore a small read percentage is contributing to the creation of unmatched contigs. Unmapped RNA reads are hitting target class, Saccharomycetes.
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 18941 | 14528 | 76.7% |
| Ests | est.fasta | 95035666 | 94626152 | 99.6% |
| Gene Models | FilteredModels2 | |
| length (bp) of: | average | median |
| gene | 1749 | 1479 |
| transcript | 1719 | 1463 |
| exon | 1456 | 1275 |
| intron | 169 | 64 |
| description: | ||
| protein length (aa) | 509 | 423 |
| exons per gene | 1.18 | 1 |
| # of gene models | 4299 |
Collaborators
- Tadashi Fukami, Stanford University, Stanford, California
Links
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Saccharomycotina Saccharomycetes Saccharomycetales
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.
