2026-10-14 https://api.researchdata.se/oai-pmh

oai:researchdata.se:doi-10-17044-scilifelab-24324310/0 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.24324310 Repeat annotation of Linum trigynum https://orcid.org/0000-0002-2962-2669 Tanja Slotte Juanita Gutierrez-Valencia Panagiotis-Ioannis Zervakis Zoé Postel Ignas Bunikis Lucile Soler Aleksandra Losvik Aurelie Desamore https://orcid.org/0000-0003-4142-2579 Sara Mehrabi Benjamin Laenen Mohamed Abdelaziz Olga Vinnere Pettersson Juan Arroyo Medical and Health Sciences Medicin och hälsovetenskap Ecology Ekologi The file contains the annotation fo the repetitive regions in *Linum trigynum*. The detection of Repeat has been done with [RepeatMasker/RepeatModeler](https://www.repeatmasker.org/) using a custom repeat library. The genome has been deposited to [ENA](https://www.ebi.ac.uk/ena/browser/home) with the accession id: GCA_964030455 (project PRJEB67577). It is part of this article: Gutiérrez-Valencia, J., Zervakis, P. I., Postel, Z., Fracassetti, M., Losvik, A., Mehrabi, S., ... & Slotte, T. (2024). Genetic causes and genomic consequences of breakdown of distyly in Linum trigynum. Molecular Biology and Evolution, msae087. https://doi.org/10.1093/molbev/msae087 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