RepeatFiller newly identifies megabases of aligning repetitive sequences and 
improves annotations of conserved non-exonic elements.

Osipova, Ekaterina; Hecker, Nikolai; Hiller, Michael

doi:10.1093/gigascience/giz132

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RepeatFiller newly identifies megabases of aligning repetitive sequences and improves annotations of conserved non-exonic elements.

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Hecker, Nikolai
Max Planck Institute for Molecular Cell Biology and Genetics, Max Planck Society;

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Hiller, Michael
Max Planck Institute for Molecular Cell Biology and Genetics, Max Planck Society;

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Citation

Osipova, E., Hecker, N., & Hiller, M. (2019). RepeatFiller newly identifies megabases of aligning repetitive sequences and improves annotations of conserved non-exonic elements. GigaScience, 8(11): giz132. doi:10.1093/gigascience/giz132.

Cite as: https://hdl.handle.net/21.11116/0000-0006-7E26-3

Abstract

Transposons and other repetitive sequences make up a large part of complex genomes. Repetitive sequences can be co-opted into a variety of functions and thus provide a source for evolutionary novelty. However, comprehensively detecting ancestral repeats that align between species is difficult because considering all repeat-overlapping seeds in alignment methods that rely on the seed-and-extend heuristic results in prohibitively high runtimes.