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 TGCCAAAGGAAATTTGCCCCG GGGCAACTTCTCCTTTGGCAGA CCAGATGTGCACTTGCATTGCTGGGCAACTTCTCCTTTGGCAGATGNGCAATGNGCTCNGACCCTGGGGCTTCTTCCGCGCCTACTGCCAAAGGAAATTTGCCCCGGAATTCACCTGCACAGCCA 2 1 3' arm Sorghum_bicolor pmrd mir-399 8e-49 sbi-MIR399g 2e-61 -47.8 .....((((((..((.(((.(.((((((.((.(((((((((((....((.....)).........((.((.......)).))..))))))))))))).)))))).).))).))..)))))).... (-47.80)