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 CGGTACCTCACGGTACCAAAT TTAGTACCGTGAGGTACCGAT CATATAAACCAGATATTTGCTCCAGTCTAGCAAAAAAATATCTCGAAGTACCGGTACCTCACGGTACCAAATCATCTCTGATCACTAGATATAGCTCGGTAGGATAGGTATCGTCAAATCCAACAATTAGAAAAGATTTAGTACCGTGAGGTACCGATACCTCAAGATATTTTTTATTTGATCGGAGCAAATCTCTATAAACCATT GGACCGATATCGCCGGCAGCAGCGGCGTGGCGCTGGAGCCGGGGGCGGCGCGGGCGATGGAGGAGAGGGAGGCGGCGCGGGTCGTCATGGGCCGCATCGGCGAGCCCGAGGAGGTGGCGTCGCTCGTCGCGTTCCTCTGCATGCCGGCGGCGCCGTACATCACCGGGCAGGTCATCTGCGTCGACGGTGGCCGCACCATCACCGCCTAGGCAGCTAGGCTAATGAATCCAGAATTCCTAAAACATATTTTGCTTTGCTCTCGTTACCGATCATATAAACCAGATATTTGCTCCAGTCTAGCAAAAAAATATCTCGAAGTACCGGTACCTCACGGTACCAAATCATCTCTGATCACTAGATATAGCTCGGTAGGATAGGTATCGTCAAATCCAACAATTAGAAAAGATTTAGTACCGTGAGGTACCGATACCTCAAGATATTTTTTATTTGATCGGAGCAAATCTCTATAAACCATTATCAATCTACCGCCCTACATATAATTTAGTCCCTCAAAACTTCATTCTGAGGTATATTTGTTGAAAAAAAAA 1 0 5' arm Oryza_sativa mirnest 100 100 -69.6 ..........(((.(((((((((.(((.....(((((((((((.((.(((.((((((((((((((((.(((((...((((((.....(((......(((((.......)))))....))).....))))))...))))).)))))))))))))))).))).)).)))))))))))....))).))))))))).))).......... (-69.6)