Status
[February 2018] (February 2018) The Paraphysomonas imperforata genome was sequenced with Illumina, assembled with AllPathsLG, and annotated with the JGI Annotation Pipeline. The transcriptome was sequenced with Illumina and assembled with Trinity.
Summary statistics for the Paraphysomonas imperforata v1.4
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 67.19 |
| Sequencing read coverage depth | 112.9x |
| # of contigs | 4517 |
| # of scaffolds | 1801 |
| # of scaffolds >= 2Kbp | 1341 |
| Scaffold N50 | 177 |
| Scaffold L50 (Mbp) | 0.12 |
| # of gaps | 2716 |
| % of scaffold length in gaps | 21.0% |
| Three largest Scaffolds (Mbp) | 0.42, 0.41, 0.38 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 495580860 | 469601153 | 94.8% |
| Other | JGI_RNA_contigs | 86873 | 68604 | 79.0% |
| Gene Models | FilteredModels2 | |
| length (bp) of: | average | median |
| gene | 2220 | 1691 |
| transcript | 1869 | 1492 |
| exon | 463 | 229 |
| intron | 117 | 56 |
| description: | ||
| protein length (aa) | 485 | 360 |
| exons per gene | 4.04 | 3 |
| # of gene models | 17326 |
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.
