EDRs scanning. (a), FST values were plotted against physical coordinates over the genome; the red horizontal dashed line refers to the top 5‰ threshold. (b), XP-CLR scores were plotted against genomic coordinates; the green horizontal dashed line refers to the top 5‰ threshold. EDRs were obtained by taking the intersection of the EDRs given by the two approaches. The vertical dashed lines in (a) and (b) indicate the boundaries between two chromosomes; the vertical red arrows indicate the interesting genes shown in detail in (c - f). (c) and (d) respectively show the FST and XP-CLR values around Os07g0449700, an interesting gene annotated as a type A response regulator (indicated using a red arrow). (e) and (f) respectively show the FST and XP-CLR around Os12g0597700, which is similar to WRKY2 and Os12g0597000 encoding a SOS3-like calcium-binding protein 1 (indicated with red arrows). All of these interesting genes have strong FST and XP-CLR values and are biologically related to upland adaptation in rice.