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 CTGTGGGACAGAGGGAGTATA TACTTCCTCCGTCCCATAAAA TGTCATCAGTAGGCATAGATTGTACTTCCTCCGTCCCATAAAAAACAAATCTAGAATTATATGTGACATATTCTAGTACCACGAACCTGACGGAGTCACGTCCCATCTAGGTTTGTTTTCTGTGGGACAGAGGGAGTATATATTTCTTGCATTCTAGGG CTGTTCAGCCTTGGGGTGCTTGATGGGAAGCTGCTGCTGTTTTCCCAGGAGGAAGAGCCTGGGTATCAGACTCTGATGTATGATCCGACCGCGCCTGCGGGATCTGAATGCACACGTCGACGCTCAAGCCATCAGGGCTGTGCTTATGCAGTGTGACCATTGAAAGTTGATGTCATCAGTAGGCATAGATTGTACTTCCTCCGTCCCATAAAAAACAAATCTAGAATTATATGTGACATATTCTAGTACCACGAACCTGACGGAGTCACGTCCCATCTAGGTTTGTTTTCTGTGGGACAGAGGGAGTATATATTTCTTGCATTCTAGGGTCTATATGTTCTTCTGGAACTCTGTTTATAAGTGATTCTCTGTTCAGAATAATCCTAGCCACCAGCAAGCACTCCAATCCTCAACTAGCTTGTGTGTTGGACCCAACATTTTGTGTAAAGAAGCAGACAATTCACTTCCTG 2 0 3' arm Oryza_sativa mirnest MIR1122 7e-56 osa-MIR1862e 0.0005 -54.2 .......((...(((.(((.(((((((((((.((((((((.((((((((((((((.....(((((((....((..((.......))..))....)))))))....)))))))))))))).)))))))).)))))))))))....))))))...)).... (-54.2)