Fig. 3

Manhattan plot of –log₁₀ P-values distributed along the length (cM) of SA17. Highlighted green dots represent genome-wide significant SNPs and horizontal solid line represents the Bonferroni significance threshold (−log₁₀ P-values = 5.654). a Plot with all the markers on SA17 and the top most significant SNP is highlighted green with asterisk (*) symbol; b plot after correcting for the top most significant SNP and using it as a fixed effect in the model. Fixing the top most significant SNP in the model caused an overall shrinkage in P-values for all the SNPs including previously significant SNPs (highlighted green)