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 CTACTCCCTCCGTTCCATAAT TATGAAACGAAGGGAGTATTT ATCTTTATACATGATATTTATTTCATATCTACTACTCCCTCCGTTCCATAATTCTTGTCTCAAATTTGCCCAAAAATGAATGTATCTATTTCTAAAAAATGTCTAAATACATGTAATATTTCGACAAGAATGAATTATGAAACGAAGGGAGTATTTCTCTCCAAA CCACGCGTCCGCCCCCATCGAGTCCGGTTGCTGCAAGCCTCCGAGCAGCTGCGGTTTCACCTACGTCAACAGCACGCAGTGGACCCCCGGCGGCGCCAATTCATCGTCGGACCCGGACTGCAACACGTGGGGCAACGACGCGTCGGCGCTCTGCTACGGCTGCAGTTCGTGCAAGGCCGGCGTCGTTGCCACGCTGAAGAAGGACTGGAAGCGCACCGCCATCGTCAGCATCGTCTTCCTCGTCTTCATCGTCATTGTCTACTCCGTCGGCTGCTGCGCCTTCAGGAACAACCGCAGGGACAATCACAACCGTGGCGGGTACAACAAGCAGGGCGGATACGCTTGATCGATCGGAGCCAGCATCGGTTCGATCCGGCCATCGTGACCAGCTAGCCACGCTTGTCGCCGTACTCTTCCTTTCATGTGACCATGTCTGTTGATCTAGCTTTGTACATGCGAGGTTTATTCTGGACTCTGCTCGTCTACTAGTTTACCCTATGATCAGGATTAGGTTGTATATGCTGTTCTTTGATATGGCAGACCATTATATCTTTATACATGATATTTATTTCATATCTACTACTCCCTCCGTTCCATAATTCTTGTCTCAAATTTGCCCAAAAATGAATGTATCTATTTCTAAAAAATGTCTAAATACATGTAATATTTCGACAAGAATGAATTATGAAACGAAGGGAGTATTTCTCTCCAAA 3 0 5' arm Brachypodium_distachyon mirnest MIR1122 4e-36 bdi-MIR1135 1e-17 -30.9 ............(((((.......)))))...((((((((.((((.(((((((((((((......((((..........((((((.(((((.....))))).....))))))))))......)))))))....)))))).)))).))))))))............ (-30.9)