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 CCGATGCAGCATCATCAAGAT CTTGATGATGCTACACCCGCA AAAGGGTCTTTTGTATAGTCGTTTATTGCCGATGCAGCATCATCAAGATTCTCACTTTCCAAACAACTTTGGCATAAAGGAGAAGGGAAAAGAAAGGGGAAGGGGAGAAAAAAAGAAGAGAGTTTGTATTATCCATCACCACCACCGTGCATTTGCATGTGAATCTTGATGATGCTACACCCGCAAACAACGACTGTCAATCTATCTATC TTTTTTTTTTTTTTTTGGTTGTTGATGTTATGATTTCGAAGTGTGCAAAGTGGCACACTGTACTTTGAAACTGAGAGAAAGAAAGGGTCTTTTGTATAGTCGTTTATTGCCGATGCAGCATCATCAAGATTCTCACTTTCCAAACAACTTTGGCATAAAGGAGAAGGGAAAAGAAAGGGGAAGGGGAGAAAAAAAGAAGAGAGTTTGTATTATCCATCACCACCACCGTGCATTTGCATGTGAATCTTGATGATGCTACACCCGCAAACAACGACTGTCAATCTATCTATCCAATATCCATGCACAACATAAAGAGAGAGAAAGCCTTGCTGGAACTCAATATGGGATTTAGTATATAAAAGGAGAGGAGAGAAAGGCAAACATTTGAGTTTGACCCAAAGGGCCAAAGATCATGGGAAAAATTTTTGGAAGAAAAACAAAATAAAAATCCCG 4 0 5' arm Theobroma_cacao mirnest mir-172 9e-19 tcc-MIR172e 2e-38 -57.2 ...((((...(((.(((((((((..((((...((.((((((((((((((((((..(((((......(((((...)))))......))))).))..((.((.(((......(((.........)))......))).))....))..(((((....))))).)))))))))))))))).))...))))..))))))))))))...))))... (-57.2)