The two main pipelines of the
REPET package
are dedicated to the detection, annotation and analysis of transposable elements in genomic sequences. With these tools, we obtained data for various genomes. Some results and data are available below.
Data used for the genome paper of the Drosophila 12 Genomes Consortium: Clark AG, et al. Evolution of genes and genomes on the Drosophila phylogeny. Nature. 2007 Nov 8; 450(7167):203-18. PMID: 17994087
Data from Buisine, Quesneville and Colot (Genomics 2008) used to annotate the transposable elements (TEs) of the A. thaliana genome (release 5). Annotation are available on TAIR web site. ...
The transposable element reference sequences for the Ectocarpus silicosus genome have been obtained with the REPET package and were manually curated. The results are published in the Ectocarpus genome paper. ...
2022We have annotated transposable element from Acyrthosiphon pisum (clone LSR1, Pea aphid, publication The International Aphid Genomics Consortium, 2010, Raw data coverage for assembly 39X, Genome Size 541 Mb) ...
In the framework of several international genome sequencing projects, we have analyzed the transposable element (TE) content of several fungal genomes using the REPET package.You can download TE consensus library and genome annotation files (GFF) at: https://urgi.versailles.inra.fr/download/fungi/TEs/ Leptosphaeria ...