Sequence alignments for Arabis alpina Cardamine hirsuta

We provide here the sequence alignment files of two transcriptome sequencing runs on a Genome Sequencer FLX (Roche, Switzerland) for pooled RNA samples of Arabis alpina and Cardamine hirsuta mapped to Arabidopsis thaliana (TAIR 9). Each sample was sequenced twice on half a picotiter plate. The alignments were used to detect conserved regions among the aforementioned species. The reads have been mapped against the five chromosomes of Arabidopsis thaliana (TAIR9) using samtools (Li et al. 2009).