Status
Assembly v1 (June 2015) is a standard draft assembly of Illumina gDNA reads using AllPathsLG.
Annotation v1 (April 2016) is a standard draft annotation using Illumina RNA-Seq reads assembled with Trinity and modeled and filtered by the JGI Annotation Pipeline.
Summary statistics for the Usnea florida ATCC18376 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 44.32 |
| Sequencing read coverage depth | 87.6x |
| # of contigs | 1774 |
| # of scaffolds | 274 |
| # of scaffolds >= 2Kbp | 195 |
| Scaffold N50 | 29 |
| Scaffold L50 (Mbp) | 0.50 |
| # of gaps | 1500 |
| % of scaffold length in gaps | 5.9% |
| Three largest Scaffolds (Mbp) | 1.34, 1.02, 1.02 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 58417 | 55842 | 95.6% |
| Ests | est.fasta | 109440685 | 105175194 | 96.1% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1722 | 1464 |
| transcript | 1549 | 1296 |
| exon | 501 | 299 |
| intron | 84 | 60 |
| description: | ||
| protein length (aa) | 454 | 366 |
| exons per gene | 3.09 | 3 |
| # of gene models | 12649 |
Collaborators
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.
