The Repeat Masker (v4.1.4) (33 ) with -pa 16 -qq options was used to quantify repeat elements from reference genomes of various species. RMBlast (v2.11.0) was used as the repetitive sequence search algorithm, and the search was based on the Dfam (v3.6) database (34 (link)). In addition, TRF (v4.09) (35 (link)) was used to find tandem repeat sequences.
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