Hi Mike,
Yes, absolutely, it would be great to have our own completely sequenced genome in hand to accomodate the new SNP associations that will surely become available. The question is how much we are willing to pay for such coverage. A mid-range option may be unassembled Illumina sequence. You get a large amount of sequence for relatively cheap, but it will be in small pieces and can't be completely assembled on its own. This may be a good place for you to start for SNPs. If later on you decide to spend more, you can sequence more and improve the assembly. You're looking at ~1500 for the library and the run. Check Yale's sequencing center, they have a pretty fast turnaround. You should also google "Illumina sequencing service", as prices can vary and different places may offer different things that might suit you better.
Good luck!
Stacy
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