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 TCATCTTCATCATCATCTTGG AAAGATGATGTAGGCTGAGA ACTGCCGGAAGAAGTGGAAGCAAAAGATGATGTAGGCTGAGACGACAACGGCACAACTTGATTTTCACTATCGTCTTCATCAACGCTAACACCATTTTCCTCATCATCTTCATCATCATCTTGGTCTTCATCTTCATCTTCAT GAGTTATACATGTGATTATTAACCAAATCATGGATTAAGAGGATTAGTTAAAAAACAGTGTGATATCAAGAATGAACTGGAACTCGAACTCGAACATAAACGGACATTACACATACATTAAACATGAAATATCTAAATAATGTTTATAAGTTAAAAACAATTAAAATCTAACATGATGAATAGTCCCTCATCTCCACATCCATGATTCGATATTCCGAGAGCGATTACTCTCTTTCGGCCTTTCGACAACATTATAAGGAGACCTGGAATTTTCGACAAGTGCTGTCGTAAACCCATCTCTTCTTCTGGAAGATTCTTCTTCACTGCCGGAAGAAGTGGAAGCAAAAGATGATGTAGGCTGAGACGACAACGGCACAACTTGATTTTCACTATCGTCTTCATCAACGCTAACACCATTTTCCTCATCATCTTCATCATCATCTTGGTCTTCATCTTCATCTTCATCTTCGTCTTCATCATCTTCTGTGTTCCGATTAACGGGCCCACTATCTCTGCCTACGTTCGAGTCTCGCCCATTGACACAGGCGTTGCAGACAGAAACCGTGGGGCCCAGCTTGGGACCGGACCCCGTCCACGGTGTTGGAGACTGACACGAATGGCAAAGCAGAGTCCTCGTGTGTTTGCCGACGAGGAAATTCGCGGTGTGAACCCTGGAATCGCAATCCCAGCACAGACTTGCTTGGTCGGACTCGCAGTACATTCTTGCTACCT 3 2 3' arm Mimulus_guttatus mirnest 100 100 -29.5 ......(((.((((..(((((..(((((((((.(((.(((((.((.((.((......(((((................)))))........)).)).)).)).))).)))...))))))))).).))))..)))).))).... (-29.5)