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 TGCCAAAGGAGAGCCGCCCTG GGGCATGTCTCTATTGGCAAG AAATCAATCATAGGGCATGTCTCTATTGGCAAGTGATATGGTGATATTTCATTTGACATGGCGGCTCTAGAAATTCACTTGCCAAAGGAGAGCCGCCCTGTGAGCGTTT GGACAAACTAAACACATTAGAGTCAACAAGACTGGGAGATGCATTACTATATTTTAGTAAGCAAATCAATCATAGGGCATGTCTCTATTGGCAAGTGATATGGTGATATTTCATTTGACATGGCGGCTCTAGAAATTCACTTGCCAAAGGAGAGCCGCCCTGTGAGCGTTTAGCTTAAACATTTGTTACATTTTTCCTTGTCATGCATTGGAACAGTTTAAAGAGGCGGGCGGTCGTATCTGTGAAGAAGGAGGCACCCATGAACTTCTTGACCAACTCACAAGAAGAAAGATCGACGCCTAGGCCAACATATGTTCTAGTGTATTGGTCCGTAGGAGGGTAGCATGCATGTGTGAACTTGACTGAGGTCTCCCCGGATAACTGGATCCTCTTCAAGTTTCTTGTACTGCAGGCTATTGTTAGAAAGTACAGCTGGTTAACTACTTGTTAGTAGCTATGGTATTAGTTAGATAAGCTTGTAGCTAAAGGAAGGAAGTTGAACCAAAGGGAAGGTTGGTGGTGAACAAATTCTAGGTATTGCACTAAAGAAAGATTCAAGACTTCATTTTGTCCATCCATTTTAGGATGGTAGAAAGTACTCATTCTCAACTTGAACAGTTTGCGCCAAATACTATTGATGAAAGCATGATCCATGTCAGAGACTAATCTT 4 0 3' arm Medicago_truncatula mirnest mir-399 0.00009 mtr-MIR399n 7e-33 -42.2 .......(((((((((...(((((.(((((((((((..(((...(((.((....)).)))......))).....))))))))))).)))))...)))))))))...... (-42.2)