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 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