Status
[December 2018] The Ochromonas sp. CCMP1393 genome was sequenced with Illumina, assembled with AllPathsLG, and annotated with the JGI Annotation Pipeline. Mitochondrial and plastid genomes were assembled separately and are available on the Download page.
Summary statistics for the Ochromonas sp. CCMP1393 v1.4
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 56.49 |
| Sequencing read coverage depth | 85.57x |
| # of contigs | 3338 |
| # of scaffolds | 1465 |
| # of scaffolds >= 2Kbp | 804 |
| Scaffold N50 | 60 |
| Scaffold L50 (Mbp) | 0.28 |
| # of gaps | 1873 |
| % of scaffold length in gaps | 1.6% |
| Three largest Scaffolds (Mbp) | 1.34, 1.26, 1.21 |
| RNAs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| RNAs | JGI Illumina reads | 220682084 | 214473849 | 97.2% |
| RNA contigs | JGI 454 RNA isotigs | 21838 | 20581 | 94.2% |
| RNA contigs | JGI Illumina RNA contigs | 256928 | 150863 | 58.7% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2790 | 1920 |
| transcript | 2360 | 1586 |
| exon | 823 | 437 |
| intron | 232 | 144 |
| description: | ||
| protein length (aa) | 544 | 383 |
| exons per gene | 2.87 | 2 |
| # of gene models | 19714 |
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.
