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 GTTGTGTGTTTTGTGTTTTTA CGAGCCAAAGACATACATAGA CAGCAAACAAGTACGACTAGTACGAGCCAAAGACATACATAGACCAGTTTTATCAGTCAATAGTTGTGTGTTTTGTGTTTTTACTCATTTTACTGCTTTTAA GGGGGACTTAACGAAAGTTAAAAACTTCCTGAGTCATCAGCGACCAGCAAACAAGTACGACTAGTACGAGCCAAAGACATACATAGACCAGTTTTATCAGTCAATAGTTGTGTGTTTTGTGTTTTTACTCATTTTACTGCTTTTAAGTTCAGTTGGTTCATATGGTCGCTTTTGGTACCAACGAGTGCGAATATGTCCGAATACATCGACTACGGTTGGAGGAATAACGACTTATTCAGCAAATCGATCAACAAAACCTTCTACAAGAACCTCACTGCAAGTGATAGGGAAGTGGCCATCAAAGCTCTAAGGAACGTGATAAAAAGTTGCGGCGACATCGAATTCAAAAATCACATAGAGCAAGATGAGAAGACGCTCCAAAAGTTCCTGTTTGCCCGAAAGTTTATACTGGAGGACAGTTTTGAGACGCTGAAAAACTTTTACTGGTACAGGAAACGGAATCCGGATATTTTTCGCGATTTAAATTTGGACTCTGCTGATGTACGGAAGGCACTAGAAAATGGACTACCAGGTGTACTAAAGGACAAGGACCGAAAGGGGCGATGTGTGTTACTTTTAACTGCAAACAACTGGGATTGCAGTTACAGCCTGCTAAGCATATACAGGGCGATGTTGGTATGTTTGGAACAAGTAACGAACGATTTGCACAATCAAGCCAATGGGGTGGTGGTCATTGTGGATTGGACCGAGTTTTCGTATAAACAAACGTCCCATTTGAAACCTTCAATTTTAAGACTGATGATCGAAGGACTGCAGGATTGTTTTCCAGTTCGATTTAAAGGCATTCATTTCATTGGCCAGCCATGGTATGTGGATGCGGCTTTAACAGTAATAAAACCGTTTCTGAA 5 0 3' arm Dendroctonus_ponderosae mirnest 100 100 -18.3 .........((((.((..((((.((((..((((((((((..(((...........)))......))))))))))..)))).))))..)).))))........ (-18.3)