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 CAAAATCATCCCCCATGCTGT TGCTCAGGGTGATGAGTTTGGT ACTATCCGAGACAAAATCATCCCCCATGCTGTTTCATGGTTCACAGGGGAGGCTGCTCAGGGTGATGAGTTTGGTGACATGGA GCTATATCAACCTCTTTACTCCAAGAGATATGACATTGTGAATGGTGTTGTTGAAGTGGATGGAGTTACAAATGAAGTGACAATGGACCAAGAGGATAAAGCTGAAGAGAAAGGAGTGCCTGACTTTTGGCTTACTGCAATGAAGACTAATGAAGTGCTAGCTGAGGAGATTTCTGAGCGTGATGAAGGAGCTCTCAAATATATCAAGGATATTAAGTGGTGTCGGATTGATAACCCCAAGGGTTTTAAGCTTGAGTTTTTCTTTGACACCAATCCTTATTTCAAGAATTCTGTTCTGACAAAAACTTATCACATGATCGATGAAGATGAACCTATTCTTGAGAAAGCAATTGGGACGGAGATTGAATGGTTCCCCGGAAAATGCTTGACTCAAAAGCTCCTGAAGAAGAAGCCTAGGAAGGGCTCTAAAAATGCCAAGCCAATCACAAAAACAGAAAGTTGTGAAAGTTTTTTCAATTTCTTTAGTCCACCACAAGTTCCTGAGGATGATGAAGATATTGATGAAGACACTGCTGAAGAGCTTCAGAATCAGATGGAACAAGATTATGACATTGGGTCAACTATCCGAGACAAAATCATCCCCCATGCTGTTTCATGGTTCACAGGGGAGGCTGCTCAGGGTGATGAGTTTGGTGACATGGAAGATGATGAAGATGAAGAC 5 1 5' arm Vitis_shuttleworthii mirnest 100 100 -24.4 ....((((...((((.(((((.(((..((.(((((.((.....))...))))).))...))).))))).))))......)))) (-24.4)