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 GCGAGTTTCTCGAAGATGTCA ATATCTGGATGGACTTGCTT AAGACTCTTGGGCGAGTTTCTCGAAGATGTCATTGATGAAACTGTTCATGATTCCCATAGCTTTGCTTGAGATACCGATATCTGGATGGACTTGCTTCAGGACCT GGACAGTCGAAATATAGGCAAACATGAGCAATTTTATATATCCAAGAAGAAAAAGGGTCTTCCTTTTCAAATCCATAAGTGACACAAGTACTTACAGTCATCAAAACTACACTGACAAAATGGAGGGGAAAACACTAACCCTAAATTCCCAAATTCCATCAAATTCAAGAACTAGTAAATTTGGTCACGGCTTTGGTGCCTTCGGAAACGGCGTGTTTCGCGAGTTCTCCAGGAAGAACAAGTCTAACAGCGGTCTGGATTTCCCTGGAAGTGATGGTGGGCTTCTTGTTGTACCTTGCCAGTCTTGAAGACTCTTGGGCGAGTTTCTCGAAGATGTCATTGATGAAACTGTTCATGATTCCCATAGCTTTGCTTGAGATACCGATATCTGGATGGACTTGCTTCAGGACCTTGAAGATGTAGATCTTGTAGGTCTCAACACTCTTCTTGGCTTTCTTCTTCTTCTTATCTCCGGCACCTGGACCTTCCTTGGGAAGCTTCTTGCCGGCCTTTGGCTTCTTCTCCGCTGGGGCTTTCTCGCCAACGGTGGACTTTTTCTCCTCCGTTGGCTTCTCGGCAGGCTTCTTCTCAGCGGGCTTTTTCTCGGCTTTCGGCGCCATTGAGATTTCTTTACTT 3 1 5' arm Gossypium_hirsutum mirnest 100 100 -25.2 .....((((((((((((((.((..(((((((....(((((....)))))(.(((....(((...))).))).)...))))))).)).)))))))).))))))... (-25.2)