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 GTTTCTTCTTCTTCTTCCACC CGGAAGATACGAAGAAGAAGCAA CTTAAAATGGATTCGGAAGATACGAAGAAGAAGCAAAAGAGGGTTTTCTCTTTGTTAGCTTTACGATTCTGTACAGTGATAGGATTCTGGATCATCGTCTTCTTCGTCTTGTCGTTTCTCTTAGGAGTGTTAGTGATTATACTCGGTGAATTGTGGGTTTCTTCTTCTTCTTCCACCGCCTCTCTTG TCCGATCACCGTTGAAAAATGGATTCTCGAGTTTCTCTGTTCTGAGTAAACTCACACGGAGAAGAAGAAAGCTTAAAATGGATTCGGAAGATACGAAGAAGAAGCAAAAGAGGGTTTTCTCTTTGTTAGCTTTACGATTCTGTACAGTGATAGGATTCTGGATCATCGTCTTCTTCGTCTTGTCGTTTCTCTTAGGAGTGTTAGTGATTATACTCGGTGAATTGTGGGTTTCTTCTTCTTCTTCCACCGCCTCTCTTGCTTCCCGCTGCAAGATTCTTTCCAGCTCTGTTGATCTTAGGTCTTCCAAAGTGTGCGGCATTGGACTTTTGAACAGCAAAGCACAACATGTGTTTCACCCTTTTGAGAGAGATAAATTCAGATGTCGCTATGATTACTATTGGGCTTCTGTCTTCAAGGTAGAATATAAAGATCACTTAATTCAAACGAGGCTAGCGTTCTCAGAAGCACCAAATGAAGCCCTTCCTCCTGAGTGCAGACCTAACTTTGGTGCTGCTTTGCTTACCAAAGATAACTTCAAAGTGAATGAGACTTACGATTGCTGGTACACGTTAGGGATTCC 4 2 3' arm Raphanus_sativus mirnest 100 100 -41.4 ........((....((((((...(((((((((((.(((((((....)))))))(...(((..(((.(((((...((.((((((((...((((....)))).....))))))))....))..))))).))).)))...).(((..........))).))))))))))).))))))....))....... (-41.4)