High-confidence predicted miRNA coding sequences on chromosome 1AL.

1<p>Where two similar known miRNAs gave equally close matches to a sequence, the evolutionarily closest match is given.</p>2<p>Matched sequence reads shown in bold were also predicted to form miRNA hairpins by miRPara.</p>3<p>Mismatches to the conserved miRNA sequence are underlined and in bold.</p>4<p>MFE = Minimum Folding free Energy of predicted hairpin secondary structure.</p>5<p>MFEI = Minimum Folding Energy Index, calculated as described by Yin et al. <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0040859#pone.0040859-Yin1" target="_blank">[40]</a>.</p>6<p>miRPara did not predict these hairpins, but predicted a pre-miRNA on the complementary strand. For F003IAL01CL160, which contains two adjacent pre-miRNA hairpins, miRPara predicted the same strand for one but the complementary strand for the other.