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 CCTCTTCCTCTTCCTCCTCCT GAGAAGGCATGGATGAAAAGGGC ACTCTGCGTCCTCCTCTTCCTCTTCCTCCTCCTCCTCATCATCAATTCGCGTCCCTCGCACTCCAGACTATTACATAACTTCATAAGAATCATGGATAGGGTAATGACGGGAGAAGGCATGGATGAAAAGGGCTGGCGTCGA ACTCTGCGTCCTCCTCTTCCTCTTCCTCCTCCTCCTCATCATCAATTCGCGTCCCTCGCACTCCAGACTATTACATAACTTCATAAGAATCATGGATAGGGTAATGACGGGAGAAGGCATGGATGAAAAGGGCTGGCGTCGACTTGCTCGTATCAACCAGCAACTCCAGCCGAAGGGCATTCCGAGTCTCCTTTCTCCAAGTCAGTTGGAGAGCATGCCTACGCTTGGGGTTGGCCTTCCTGCATTGGATATAGCATCCGCCTTTCCGCAAGCAACACCAGCATCAACATTCCCCACATCAGTGTCAGACTATTTTGGACTAGAAGATCTCTTATCACCGGAGGATGTCGCACTTCGTAAGCGTGTGCGAAGAGTGATGGAGGAGCACGTTGCACCTGTTGTGACCAAGTATTGGGAGAAGGCAGAGTTCCCGTTTGAGATCATTCCACACCTTGCCAGCCTCAAGATCGCTGGTGGAACTATTAAAGGTTACGCATGTCCACCATCGGGATGTTGGGGAATGAGGAACAGAAACAAAAGTATCTACCGAGTCTTGCTCGTTTTGATACTATTGGTTGTTGGGCATTAACGGAACCCGCTTTATGGAGTGATGCAAGTTCACTTAATACAACAGCAGTGAAGGTGGAAAGGAGATGGCTCTTGAATGGTCAGA 4 2 5' arm Physcomitrella_patens mirnest 100 100 -31.7 ..((.(((((.((((.(((.(((.(((.(((((..((((.(((.....(((.....)))..((((...........................))))...))).)))).))))).)))...))).))).))))..))))).)) (-31.7)