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Example of cluster compression with the GoldenGate assay, showing SNP RP13 used for genotyping the ‘ZY036’ × ‘51070’ and ‘Zhongshuang11’ × ‘73290’ populations. The normalized R (y axis) is the normalized sum of intensities of the two channels (Cy3 and Cy5) and normalized theta (x-axis) is ((2/π)Tan-1 (Cy5/Cy3)) where a normalized theta value nearest 0 is a homozygote for allele A and a theta value nearest 1 is homozygous for allele B [42].
