Additional file 1.

Depth of read coverage near exon junctions. The improvement of depth of read coverage near exon junctions was obtained by iterative alignment and trimming unaligned reads by one nucleotide after each step. Depth of coverage along FlcDNA1028 obtained without read trimming (black) and with read trimming (red). Median depths of coverage for the gene obtained without read trimming or with read trimming are represented, respectively, by black and red horizontal lines.

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Saintenac et al. Genome Biology 2011 12:R88   doi:10.1186/gb-2011-12-9-r88