Nucleotide variation in Atlantys LTRs in O. sativa. A Nucleotide diversity along the O. sativa var. japonica Atlantys LTRs. Values on x-axis correspond to the nucleotide position on the LTR alignment. On the y-axis, values of the nucleotide diversity (Pi) measure calculated using a sliding window of 50 bp and a step of 5 bp. The positions of putative TATA boxes are indicated by arrows. B Detail of the Atlantys LTRs alignment corresponding to the putative TATA box indicated with “*” in A. _5 5′ LTR, _3 3′ LTR, _s solo-LTR.