Table 7. Single and di-nucleotide frequencies for our simulated data (left) closely match those in the twelve Drosophila genomes (right).

	A	C	G	T	A	C	G	T
	0.273	0.228	0.228	0.271	0.285	0.204	0.204	0.284
A	0.070	0.053	0.052	0.060	0.094	0.049	0.052	0.077
C	0.052	0.047	0.048	0.055	0.065	0.041	0.036	0.051
G	0.055	0.049	0.047	0.050	0.051	0.053	0.041	0.048
T	0.058	0.052	0.054	0.069	0.061	0.051	0.065	0.094

Our simulated data models heterogeneity in base composition across different genomic features such as coding and intergenic sequence, but does not model local fluctuations in base composition.