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

1Where two similar known miRNAs gave equally close matches to a sequence, the evolutionarily closest match is given.2Matched sequence reads shown in bold were also predicted to form miRNA hairpins by miRPara.3Mismatches to the conserved miRNA sequence are underlined and in bold.4MFE = Minimum Folding free Energy of predicted hairpin secondary structure.5MFEI = Minimum Folding Energy Index, calculated as described by Yin et al. [40].6miRPara 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.