Table 2.

Summary of SNPs discovered in LSK and rowi and those predicted to change protein coding sequences

	Total number	Number predicted to change amino acid
All SNPs found in LSK	27,170	5,434
All SNPs found in rowi	120,035	17,057
SNPs that differentiate LSK and rowi	66,909	7,418
SNPs that differentiate among LSK	12,384	1,832
SNPs that differentiate among rowi	29,313	4,466

SNPs that are unique to rowi and differentiate between species have greater than 50% coverage in each bird sequenced, a frequency of greater than 80% among all rowi sequenced, and less than 5% among sequenced LSK. SNPs that differentiate among LSK and rowi are within contigs with a SNP density less than 1 per 200bp and have a frequency of greater than 35% in at least one individual and less than 5% in another