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 AGATGTTATTTTACGTTTTTA AAAATGTCTGAAGACCAATCAGG TCTAGAAACTGTAAAAATGTCTGAAGACCAATCAGGAGATGTTATTTTACGTTTTTATGAATCTTTT CCCACGCGTCCGGTTTTTCTGCATATGGAAACAACTTGCAAATGTCGCTTCTTCGATCTTCTAAAGCACCAGATGAAAATGCTGATATGGGACATCATGAGTTTTCTTATGCATTTATGCCACACTTAGGCTCTTTTCAAGAGGCAAATGTTATTCATAGAGCTTATGAATTCAACAATCCTTTGCAAATTGTTGGGCAAAAAACTGAGATTGTTTCTTTATCTCTGTTCTCAGTTGATCACCCTGGAATTGTTCTAGAAACTGTAAAAATGTCTGAAGACCAATCAGGAGATGTTATTTTACGTTTTTATGAATCTTTTGGAGGAAAAGAAAAAGCACAAGTCAAGTCCTACTACCCTTTGTCAAGCATATGCAGGTGCAATATTTTAGAAGATTATGTAGAAGTCTCTGATAGCTGCAAACTAGTTGATCAAAAGACCATCGAATTAACTTTGTCGCCATTTGAAATAGTATCACTGCGTTGTTGCTTTGTCAAAATCTAAAAGTTGGGTTTTCTTTTTATAAATTTTGCATGTTCTAAAATAACTTTGTATCAAAAATGACAGATCTTTATAAAACAAAAGATCCGTCGATTTTTAATAAATATATAACACTTT 4 2 3' arm Hydra_vulgaris mirnest 100 100 -10.3 (((((((((.((((((...(((((.......)))))........))))))))))))).))....... (-10.3)