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 GCGCTGCGGGTCCGCTGTCCG GACCACGGGTCTGTGACGTAG CCATGTAACGTTCGCCAACCACGTGCCTTTTAGACCACGGGTCTGTGACGTAGCAGCGCTGCGGGTCCGCTGTCCGAAAATCTGGCCATATGGTTACTGGCTCGA TAACCTGGTCAAAAATNCGAGAGTTTTGATAGTTGTCGTAGCAACGTTGCCATGTAACGTTCGCCAACCACGTGCCTTTTAGACCACGGGTCTGTGACGTAGCAGCGCTGCGGGTCCGCTGTCCGAAAATCTGGCCATATGGTTACTGGCTCGACAATGCTTCTACCTTGAAATTCCTTCGCTTCTGATTGGCTAGGCTGCTCATATTTCTTGCTAAGCTCGTTTGCGACACTGCTTTGGAACGAGTCGACGATGCTATCCATTGTAAAAAGCGACTACGACAGACTGAGAACCATCAAACTGGGTCTTCTTTGACGTAACATTACGTTGCTAGGAGACAAATTACGTGCGTAAGCGGCCG 4 0 3' arm Ciona_intestinalis mirnest 100 cin-mir-4103 4e-16 -29.5 ........((...((((((((.(((((((((.(((..((((((((((.(((....))).))))))))))..))).))))....)).))).))))...)))).)). (-29.5)