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 GCCATGGCCATGGCCATGGAC CCATGACCATGGCCATGGGCAT GGTTGCCATGACCATGGCCATGGGCATAGCCATGACCGCTGCAAAGAGCTCAGCAGCCCGCGCTTCACCAGCAAGCACGAGTGCCATGACCATGAGCATAGCCACTGCAAAGAGCCCAAGACTCCGTGTGCTGACAGTGAGGCTGCTTGCCATGGCCATGGCCATGGACACGAACA TGGTTACAGAAAAGCATGTCTGCCATGACCACGGCAACACCCATAGCCACTGCGAAGAGGCAGGCAACCAGCTGCCGCTTGTAGAGAGCCACGGTTGCCATGACCATGGCCATGGGCATAGCCATGACCGCTGCAAAGAGCTCAGCAGCCCGCGCTTCACCAGCAAGCACGAGTGCCATGACCATGAGCATAGCCACTGCAAAGAGCCCAAGACTCCGTGTGCTGACAGTGAGGCTGCTTGCCATGGCCATGGCCATGGACACGAACATCGGCACTGCGAAGGGGACAGCCACTCACACGCTACAGGTGAGCATGGCTGCCATGAACATGATGCGCACAGCCACTGCGAGGAGCACGGCCATTCAGACACCGCTGTTGAGCATGCTTGCGAGCATGAGTGCCATGGTGAGCACCAAACCGTGCACGCTGTGGAAACACACCACTGCCATGACCACGACCATGAGCACGGACAGCATGAGCTTGAGGAGATCGAGGAACCAGAGAAGGACTGCCACGACCACAGCCACCACTGCTGCCATGAAACTCACGGCAAGGACAAGGTCGCGGCCGTCCAC 3 1 3' arm Zea_mays mirnest 100 100 -59.2 .((..(((((.((((((((((((.((.(((.......)))((.....))..(((((((..((((....((((..(((((.(((((((....))).)))).((....))...(((.......))))))))))))..)))).))))))))))))))))))))).)))))..))..... (-59.2)