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 TGCCAAAGGAGATTTGCCCGG GGGCAAGATCACCATTGGCAGA ATATGCATTACAGGGCAAGATCACCATTGGCAGAGATCTATTACTTCATTCTTGCATCATATGCATAAATGTTTGTGGTGAGCTCTCTGCCAAAGGAGATTTGCCCGGTAATTCTCTT 3 1 3' arm Arabidopsis_thaliana mirbase mir-399 2e-61 aly-MIR399f 4e-50 -49.6 ....(.(((((.(((((.((((.((.((((((((((.(((((((..((((..(((((...)))))..))))...))))).)).)))))))))).)).))))))))).))))).).... (-49.60)