Description
- Assembly Name: GU_Smar_1.1.8
- Assembly Type: Haploid
- Assembly Level: Contig
- Genome Representation: Full
- Accession: GCA_030871285.1
Assembly Statistics
| Statistic | Value |
|---|---|
| Assembly length (Mbp) | 54.79 |
| GC % | 45.26 |
| Contig # | 83 |
| Contig N50 (Mbp) | 1.24 |
| Contig L50 | 17 |
| Contig N90 (Mbp) | 0.32 |
| Contig L90 | 48 |
| Scaffold # | 83 |
| Scaffold N50 (Mbp) | 1.24 |
| Scaffold L50 | 17 |
| Scaffold N90 (Mbp) | 0.32 |
| Scaffold L90 | 48 |
| Scaffolds >= 10 kb | 80 |
| BUSCO % (stramenopiles_odb10) | C:97.0 [S:93.0, D:4.0], F:0.0, M:3.0, n:100 |
Annotation Statistics
| Statistic | Value |
|---|---|
| Gene # | 17265 |
| Transcript # | 17265 |
| Avg exons per transcript | 1.9 |
| Avg gene length (bp) | 1851 |
| Avg transcript length (bp) | 1851 |
| Avg exon length (bp) | 861 |
| Avg intron length (bp) | 204 |
Notes: Assembly statistics were calculated for the primary genome assembly GCA_030871285.1(JATAAI01.fasta.gz) using Quast (v5.2.0; Mikheenko et al. 2018). Busco statistics (Manni et al., 2021) were taken from communication with the authors. Annotation statistics were calculated for GCA_030871285.1_GU_Smar_1.1.8_genomic.gff using AGAT (v1.4.1; Dainat, 2024).
BUSCO notation: C: Complete; S: Single-copy; D: Duplicated; F: Fragmented; M: Missing; n: Total BUSCO genes included in the dataset (here: stramenopiles_odb10). See also the official BUSCO manual.
Publication(s)
There is currently no publication associated with the genome of S. marinoi R05AC. In the meantime, please cite the genome assembly submission: GCA_030871285.1. A list of the submitting authors can be found at the JATAAI000000000.1 record at NCBI.
The tools used by to calculate the statistics shown on top of this page are described in:
Dainat J. (2024). AGAT: Another Gff Analysis Toolkit to handle annotations in any GTF/GFF format. (Version v1.4.1). Zenodo. https://www.doi.org/10.5281/zenodo.3552717
Manni, M., Berkeley, M. R., Seppey, M., Simão, F. A., & Zdobnov, E. M. (2021). BUSCO Update: Novel and Streamlined Workflows along with Broader and Deeper Phylogenetic Coverage for Scoring of Eukaryotic, Prokaryotic, and Viral Genomes. Molecular Biology and Evolution, 38(10), 4647–4654. https://doi.org/10.1093/molbev/msab199
Mikheenko, A., Prjibelski, A., Saveliev, V., Antipov, D., & Gurevich, A. (2018). Versatile genome assembly evaluation with QUAST-LG. Bioinformatics, 34(13), i142–i150. https://doi.org/10.1093/bioinformatics/bty266
Page last updated: 22/10/2024