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  Haplofreq accepts as an input a set of gentoypes of the same length, and produces the haplotype distribution in the population, estimated from these haplotypes.

Input format:
Every line corresponds to a genotype. A genotype is describe by a string of A,G,C,T,H and ?, where A,G,C,T correspond to homozygous sites, H corresponds to heterozygous site and ? corresponds to missing data.

Example:

AAGACCTT
GGAAHHHH
HHH???TT
GGGGTACC