Repeat annotation of Linum trigynum
type: Dataset
description: 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
creative work status: completed
  type: DefinedTerm
  in defined term set: http://publications.europa.eu/resource/authority/dataset-status
  term code: COMPLETED
creator: Marco Fracassetti
creator: Tanja Slotte
  type: Person
  affiliation: Science for Life Laboratory
  family name: Slotte
  given name: Tanja
creator: Juanita Gutierrez-Valencia
  type: Person
  family name: Gutierrez-Valencia
  given name: Juanita
creator: Panagiotis-Ioannis Zervakis
  type: Person
  family name: Zervakis
  given name: Panagiotis-Ioannis
creator: Zoé Postel
  type: Person
  family name: Postel
  given name: Zoé
creator: Ignas Bunikis
  type: Person
  family name: Bunikis
  given name: Ignas
creator: Lucile Soler
  type: Person
  family name: Soler
  given name: Lucile
creator: Aleksandra Losvik
  type: Person
  family name: Losvik
  given name: Aleksandra
creator: Aurelie Desamore
  type: Person
  family name: Desamore
  given name: Aurelie
creator: P. William Hughes
creator: Sara Mehrabi
  type: Person
  family name: Mehrabi
  given name: Sara
creator: Benjamin Laenen
  type: Person
  affiliation: Stockholm University
  family name: Laenen
  given name: Benjamin
creator: Mohamed Abdelaziz
  type: Person
  family name: Abdelaziz
  given name: Mohamed
creator: Olga Vinnere Pettersson
  type: Person
  family name: Vinnere Pettersson
  given name: Olga
creator: Juan Arroyo
  type: Person
  family name: Arroyo
  given name: Juan
date modified: 2024-08-29
date published: 2024-08-29
funding: Supergene evolution in a classic plant system - bringing the study of distyly into the genomic era
  type: Grant
  funder: European Research Council
funding: The role of structural variation for the origin and evolution of a classic supergene
  type: Grant
  funder: Swedish Research Council
keywords: Medical and Health Sciences
  type: DefinedTerm
  term code: 3
keywords: Ecology
  type: DefinedTerm
  term code: 10611
keywords: Evolutionary ecology
license: https://creativecommons.org/licenses/by/4.0/
publisher: Stockholm University
version: 0

PropertyValue
property ID: DOI
value: 10.17044/SCILIFELAB.24324310

Marco Fracassetti
type: Person
affiliation: Science for Life Laboratory
family name: Fracassetti
given name: Marco

Science for Life Laboratory
type: Organization

P. William Hughes
type: Person
family name: Hughes
given name: P. William

Stockholm University
type: Organization

European Research Council
type: Organization

Swedish Research Council
type: Organization