Figure 4

SNPs identified from the two wild barley ecotypes. (A) A Venn diagram showing the number of SNPs identified from assembly made by three different reads mapping programs and their combinations. SNPs are identified after stringent filtering (sequence depth ≥8x and a minimum of four reads supporting the reference and variant SNPs) and SNPs in the intersection of two or more ellipse belong to the SNPs called from mapping made by two or more programs. (B) Circos diagram showing the frequency of stringently filtered SNPs per kb (depth ≥8x from which minimum of four reads each supporting reference and variant SNPs). (C) Circos diagram showing the frequency of wild barley SNPs density per kb, filtered SNPs per kb (depth ≥8x from which minimum of two reads each supporting reference and variant SNPs) and estimated recombination rates (4N _e r) per kb. Histograms are showing SNP frequencies among wild and cultivated barley. Recombination rates are estimated among wild barley. For the display, the maximum SNP frequencies are set at 20 (B, SNPs/kb), 10 (B, nsSNPs/kb), 30 (C, SNPs/kb), 20 (C, SNPs density/kb) and 4 (C, 4N _e r/kb) – these maximum values are higher than the 3rd quartiles of the respective data.