Table 1.

Evaluation of synteny-based feature tracking between pairs of orthologous mouse and rat sequences

Orthologs class	mRNA pairs/exons	Exon W = 0/5/10 bp	Splice site W = 0/5/10 bp	Base-pair
Exact	1,842/14,460	Sn: 0.96/0.97/0.97	Sn: 0.97/0.98/0.98	Sn: 0.97
		Sp: 0.98/0.99/0.99	Sp: 0.99/1.00/1.00	Sp: 1.00
Near-exact	282/1,872	Sn: 0.91/0.93/0.93	Sn: 0.92/0.92/0.93	Sn: 0.92
		Sp: 0.93/0.95/0.96	Sp: 0.94/0.95/0.96	Sp: 0.95

Sensitivity (Sn) and specificity (Sp) values at exon, splice site, and base-pair levels were measured as described in Burset and Guigo (1996). Exon and splice site statistics were computed allowing for a variable window of W = 0, 5, and 10 bp. “Exact” orthologs have all orthologous exons exactly matching when projected via the cDNA–cDNA alignment (see Methods). “Near-exact” pairs have orthologous mouse and rat exon ends matching within 10 bp.