Percentage of nucleotides in the BESs covered by BLASTN hits to the species-specific transcript databases. The BLAST hits have been divided into 'masked' (i.e., overlapping with repeats identified by RepeatMasker) and 'unmasked' (i.e., no overlap with repeats identified by RepeatMasker) categories. Species names have been abbreviated as follows: Tom.: tomato; Pot.: potato.