mature_miRNA miRNA* pre-miRNA EST_contig mismatches bulges arm species source_database RFAM_best_hit RFAM_lowest_evalue miRBase_best_hit miRBase_lowest_evalue folding_energy secondary_structure TCCAAAGGGATTGCACTGTTC AATCAATGCGATCCCTTTGGAGT GAATCCAAAATTCCAAAGGGATTGCACTGTTCTTGCATATGCCTCGATCCCTCCCTCCGTTGATTCATGCTTGGATGCCGCTGAAGAAATCAATGCGATCCCTTTGGAGTCCTCCCCT AAAAAACCCCAACCCAGATGGGGAAAATCGATCGATTAATGAACCCTTTTAAAACCACAAAAAGATAATTAACGGAAAAAGGAGAAGCATACGGGGGGACAAAATTATTTACCTCCCGGCACCTGCTGATCATCCATGGTTACAAACAGATGCAAAAAAAAAGGGGCGTGACCGACCGAGGGAAAGGGGAATCCAAAATTCCAAAGGGATTGCACTGTTCTTGCATATGCCTCGATCCCTCCCTCCGTTGATTCATGCTTGGATGCCGCTGAAGAAATCAATGCGATCCCTTTGGAGTCCTCCCCTAACTTCCTGAAGCTTACACTAATTTGCCAGCCAAAGCAGCTACCCCCACAGAGATAGCCCTGGATAT 1 2 5' arm Brachypodium_distachyon mirnest 100 bdi-MIR393b 2e-39 -32.5 .........(((((((((((((((((.(((((((((((..((.(((((..........))))).....))....)))).....)))))..)).)))))))))))))))))........ (-32.5)