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Observing recombination frequencies

Observing recombination is then accomplished by noting which alleles the progeny have. Using markers, this is done by assaying all the progeny with some number of markers, and calculating recombination frequencies between pairs of markers.

At marker X, one progeny (one plant in the mapping population) will have one allele from each parent, so it may be AA, Aa, or aa at locus X, similarly for Marker Y.
If the plant is AA at marker X, but Aa at marker Y, we know that a recombination took place somewhere between Marker X and Marker Y. We would want to look at a number of progeny to see how frequently recombination occurred between the markers.