I found Peditree put out by Wageningen Univ. and Pedigraph from Univ. of MN. Might try playing around with them. The breeders and field folks at work use PRISM, but I don't need that kind of power or the expense that comes with it!
There's got to be something better than Excel. Google returns many apps aimed at amateur animal breeding...guessing those don't handle selfs well though.