2026-10-13 https://api.researchdata.se/oai-pmh

oai:researchdata.se:doi-10-17044-scilifelab-24343000/0 2024-08-29 subject:ssif:3 subject:ssif:10611 subject:ssif:106 subject:ssif:1 principal:slug:stockholm-university

info:eu-repo/semantics/other http://purl.org/dc/dcmitype/Dataset https://doi.org/10.17044/SCILIFELAB.24343000 Repeat annotation of Linum tenue https://orcid.org/0000-0002-2962-2669 Tanja Slotte https://orcid.org/0000-0001-7809-7664 Juanita Gutierrez-Valencia https://orcid.org/0000-0002-6435-4604 Ignas Bunikis Lucile Soler Jacques Dainat https://orcid.org/0000-0002-8930-534X Aleksandra Losvik Aurelie Desamore https://orcid.org/0000-0003-4142-2579 Alireza Foroozani Benjamin Laenen Edouard Pesquet Mohamed Abdelaziz Olga Vinnere Pettersson Adrian C. Brennan Juan Arroyo Medical and Health Sciences Medicin och hälsovetenskap Ecology Ekologi The file contains the annotation for the repetitive regions in Linum tenue . The detection of repeats has been done with RepeatMasker/RepeatModeler (https://www.repeatmasker.org/) using a custom repeat library. The genome has been deposited to ENA with the accession id: GCA_946122785 (Project PRJEB52918). See link below. It is part of this article Gutiérrez-Valencia, J., Fracassetti, M., Berdan, E. L., Bunikis, I., Soler, L., Dainat, J., ... & Slotte, T. (2022). Genomic analyses of the Linum distyly supergene reveal convergent evolution at the molecular level. Current Biology , 32 (20), 4360-4371. 10.1016/j.cub.2022.08.042 The file is in BED format converted with [BEDOPS](https://bedops.readthedocs.io/en/latest/content/reference/file-management/conversion/rmsk2bed.html). The fourth (Repeat class) and eleventh (Repeat name) columns have been reversed to highlight the Repeat name in the visualization. Query sequence 1 chromosome Query start 2 start Query end 3 stop Repeat class 4 id Smith-Waterman score 5 score Strand 6 strand Percentage, substitutions 7 Percentage, deleted bases 8 Percentage, inserted bases 9 Bases in query, past match 10 Repeat name 11 Bases in complement of the repeat consensus sequence 12 Match start 13 Match end 14 Unique ID 15 Higher-scoring match (optional) 16 https://creativecommons.org/licenses/by/4.0/ Stockholm University Stockholms universitet 2024-08-29T00:00:00Z