Table 1.

Alignment of CHO short reads to mouse and rat reference genomes

Sequence Type	Mouse		Rat
Total aligned	6,582,209	(8.71%)	6,281,589	(8.31%)
Aligned to unique regions	3,202,228	(4.47%)	3,046,308	(4.28%)
Aligned to repeat regions	3,379,981	(4.24%)	3,235,281	(4.03%)
Aligned to protein-coding genes*	2,678,662	(3.52%)	2,359,457	(3.12%)

* Pseudogenes, RNA genes, and genes on Y chromosome were excluded from this analysis. Genes include exons, introns, and 5'- and 3'-untranslated regions