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 TGAGCAATGCTAGAAAGTCTT GTCTTTTTAGTATTGTCCATA AAGACCCCTGTAAACATATACTTCCTCCGTTTTATAATGCAAGTCTTTTTAGTATTGTCCATATTCATATAGATGTTAGTAAATCTATACAAATATGTGTCTAGATTTATTAACATATATATAAATATGAGCAATGCTAGAAAGTCTTGTATTATGAAACGGAGGGAGTATATGTTTAACAACATCA ATCCATGTACGAGCGGCGACATGTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTGCTGGCAATTTTCTGGATTTCTCTTCTCACCGAAATCAAAGTGCGTGATAGTCACGAATATAAAATCCCATTACAAGTTTTTATGAGATGATAATGATGATGCTTCATCGTAAGTTAGTAACAGATCGACAAGCTACTGGCTGTTTGTTCCAACTAGAGAAATTTACATAAATACTCCTAACCACCAGCGCAGGGAAACAAACACGTTTCTTGCACCCGAATGCAAAATTGCCAAGACCCCTGTAAACATATACTTCCTCCGTTTTATAATGCAAGTCTTTTTAGTATTGTCCATATTCATATAGATGTTAGTAAATCTATACAAATATGTGTCTAGATTTATTAACATATATATAAATATGAGCAATGCTAGAAAGTCTTGTATTATGAAACGGAGGGAGTATATGTTTAACAACATCATTCAGTCTTAATCTTCGATGCATCGCCTCCAAACAGGCCAGCAGTACCATCTTGATTCAGTGATTAGCAGCAGCATCCTTTAAGTTCTCCCAGTCACTGGAGAAGTCACCAGACTCATGTACTTGGATATCCCCGGCATANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTCTTCAGATCTCGAAGTTGGGGACACTGGCAAAGAGTACCTGGTGAAATTGCCCCGCCAATCGCAAAACTTCAAGTTCGCCCGTACACCAAACGCTGATTCCGAGACAACGGCAAG 2 0 3' arm Oryza_sativa mirnest MIR1122 1e-42 osa-MIR819k 1e-23 -87 ..........(((((((((((((((((((((((((((((((((.((((((((((((((.((((((.(((((.(((((((((((((((.(((......))).))))))))))))))).))))).)))))).)))))))))))))).)))))))))))))))))))))))))))))))))......... (-87)