D. (12 pts.) The following table lists DNA haplotypes from eight individuals. Th

Question

D. (12 pts.) The following table lists DNA haplotypes from eight individuals. There are three polymorphic sites in this sample, and each of these sites has two alternative nucleotides.   Within each of the three sites, you can think of the different nucleotides as being alternative alleles at a single gene locus, of the type that are often symbolized with designations such as "big A" or "little a".  

Is the magnitude of gametic disequilibrium (linkage disequilibrium) higher for nucleotide variants at sites 1 vs. 2, or is it higher for sites 2 vs. 3?

[hint: what are the haplotype frequencies for each site pair (1+2, or 2+3) ?]

                        polymorphic site:

individual:               1       2           3

h         GCCAAGCACCTCAAGTTCACAGCGGCAAA

i         GCCAAGCACCTCAAGTTCACAGCGGCAAG

j         GCCAAGCACCTCAAGTTCACAGCGGCAAG

k         GCCAAGCATCTCAAGTGCACAGCGGCAAG

l         GCCAAGCACCTCAAGTTCACAGCGGCAAG

m         GCCAAGCATCTCAAGTGCACAGCGGCAAA

n         GCCAAGCACCTCAAGTGCACAGCGGCAAA

o         GCCAAGCACCTCAAGTTCACAGCGGCAAA

                        ******** ******* ***********

Explanation / Answer

It is more between 2 vs 3, as there is more variation at 3rd site.

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