Fig. 2

Genome-browser-oriented SNP Viewer for the 446 imputed O. rufipogon variants showing the Os05g0187500 gene region. A new function, based on previous data (Huang et al. 2012), graphically represents genomic regions in O. sativa where selective sweeps may have occurred: red bars, whole population; yellow bars, only in indica populations; green bars, only in japonica populations. This release also graphically shows regions with higher mutation rates (i.e., highly differentiated loci). Allele frequencies in a region can be displayed by clicking on the “Variant Detail” link