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 TTGAAGATGAAGTTGTTCTTG CGAAGAACATCACATTACAGCC ATGAGGGAGAAAAAGTACTCCACGAAGAACATCACATTACAGCCGTCCCAGTAGAAGATGAACACCACCATGTCCATTTGGTCCCAGTTGAAGATGAAGTTGTTCTTGAAGACTCTCCAGTTCCAGT ACAGCAAAATGAACAAATTGACAATCTTGTTTCTCGTTATTTGCGCCATCGCCTTAGTTAGCGCCGATCCAATCAGGAAGAGTGCCAAGAAGGGAAAGGCAGCCAAAATTGTACGTGCCCCAAGCAAAACAGCAAAGCTTGTCAAGCCTGTTCGTCGTTCTGGAAAACTCCATCTCATCGAAAAAGACCCATGTGACACCACTGTCGCTGACCACCATATCCACCACGAAGCCCATCACTTCCAACACGAGCCACATCATTTCCACCATGAACAGCAACACCATCATGTCCATGAGGGAGAAAAAGTACTCCACGAAGAACATCACATTACAGCCGTCCCAGTAGAAGATGAACACCACCATGTCCATTTGGTCCCAGTTGAAGATGAAGTTGTTCTTGAAGACTCTCCAGTTCCAGTCGACGATGTTATCGAGATTGTTGAAGATGAAATCGTTCCAGTGTCCAGCGTTGAAGTTGTTGAAGTTGAAAAGGCCCATGTTCCACAACACGGAAGCTATTTCAACACCAACTTTGGAAAGGTCACAGGTGGAGCCACCGGTGTTGCTAACAGCTACAGCACTGGTAATTCTGGAAAATCTGAATCACGTGCCACAGCCTACGGAACTGCTCAAGCTAAAGCCCGCAATTGTGAACACGAAAAAGTCCATCTCCATCATGGCAAGCATCCCTGTTAAGTCATAGTCACTAAGTTTTACAAGAGGAAGTTTTTGAATGTGATCATTGAATAAAGTTTTATACATGC 5 1 3' arm Daphnia_pulex mirnest 100 100 -19 .....(((((....((.((.((.(((.(((.(((..((.((((...((.(((.((..(((........))).)).))).)).....))))))..))).))).))).)).)))))))))......... (-19)