Status
[December 2020] The Neocallimastix sp. Gf-Ma3-1 v1.0 genome was sequenced with PacBio, assembled with Flye, and annotated with the JGI Annotation Pipeline.
Summary statistics for the Neocallimastix sp. Gf-Ma3-1
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 209.50 |
| Sequencing read coverage depth | 25.8x |
| # of contigs | 383 |
| # of scaffolds | 383 |
| # of scaffolds >= 2Kbp | 367 |
| Scaffold N50 | 27 |
| Scaffold L50 (Mbp) | 2.50 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 8.43, 6.77, 5.72 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 72142796 | 71786686 | 99.5% |
| Other | Trinity_assembled_Illumina_transcriptome | 42391 | 36430 | 85.9% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2372 | 1807 |
| transcript | 1594 | 1185 |
| exon | 340 | 141 |
| intron | 213 | 153 |
| description: | ||
| protein length (aa) | 507 | 370 |
| exons per gene | 4.69 | 3 |
| # of gene models | 28646 |
Collaborators
- Kevin Solomon, Purdue University, IN
Links
- JGI PhyloGroup Portals: Fungi Chytridiomycota Neocallimastigomycetes
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.
