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 TTCTAGCATTTCCCACATTCA AATGTGGAAAATGCT AATGCAGGTCATTCTAGCATTTCCCACATTCATATTAATACATCAATATGAATGTGGAAAATGCT TTTTTTTTTTTTTTTTGAACATTTCAATAGCTGATTCACTTCTATTTCTTGTCGAAAGTAGTAGGAGAATACACTGACATGTACTTCCTCCGTTTTACAATGCAGGTCATTCTAGCATTTCCCACATTCATATTAATACATCAATATGAATGTGGAAAATGCT 5 0 5' arm Oryza_sativa mirnest MIR1122 0.00000000000001 osa-MIR809d 0.0000000007 -23 ...............(((((((.(((((((((((((........))))))))))))).))))))) (-23)