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 TGCAGTTGCTGCCTCAAGCTT CTAGAGGCAGCAACTCCATA CCACGCGTCCGACTAGAGGCAGCAACTCCATAACTTGCGGAAAGCTTGTTGGATGATGACCATGCCAATGATTTTACCGAAGTTATGCAGTTGCTGCCTCAAGCTTGCTGCCTCCC CCACGCGTCCGACTAGAGGCAGCAACTCCATAACTTGCGGAAAGCTTGTTGGATGATGACCATGCCAATGATTTTACCGAAGTTATGCAGTTGCTGCCTCAAGCTTGCTGCCTCCCAATGCCAAACCAGAGAGGTTAAGATGAAGAAGTTTGATTATGAGAGACCTCCTGCTCCTGTATCCGTGTTTTCTAACTAAATGGGCGATGAAAGAGAAAAGTGATCATGCAAGAAGCGACTGTACTATTATTGCTGCAATCTACCAAAGCTGTTCAGGACAGAAGATCAATGGCTTCGTCAGCTGAAACAAATCGTGAAACCTGCCAACAAGTTGTCCAAGATATGAGACGAGAATCTGTGCTTGACACACTTCCAGATGTATGCATGTGTTATTGGTTGAAGTATTTGAGTTGCAAGTAGACTCTTTTATTTGAACTGCTAGCACCGGATGCTTTTAGGCGTAGGGTATATATGCACAACTTTTGTCCTTGATATATATAAACTCTTGTACAATTACATCACCTTAACTCCG 2 1 3' arm Brachypodium_distachyon mirnest MIR444 5e-16 bdi-MIR444 7e-58 -46 ....(((..(((((.((((((((((((.((((((((.(((.(((.((((((((((.....))).))))))).))).))))))))))).)))))))))))).)).))).)))..... (-46)