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 TTGAAGTGTGATGTGGATATC ATCCATGAAACTACCTTCAACT TTTAGTCCTGTGGTATCCATGAAACTACCTTCAACTCCATCATTGAAGTGTGATGTGGATATCCGTAAAGGATCTGTATGCC TTTAGTCCTGTGGTATCCATGAAACTACCTTCAACTCCATCATTGAAGTGTGATGTGGATATCCGTAAAGGATCTGTATGCCAACACAGTGCTGTCTGGTGGTACCACAATGTACCCTGGCATTGCTGACAGGATGCAGAAGGAGATCACAGCCCTGGCACCTAGCACAATGAAAATCAAGATCATTGCCCCACCTGAGCGCAAGTACTCTGTCTGGATTGGAGGCTCTATCCTGGCCTCCCTGTCCACCTTCCAGCAGATGTGGATCAGCAAGCAGGAGTACGATGAATCCGGACCCTCCATTGTCCACCGCAAATGCTTCTAAACCGGACTGTTACCAACACCCACACCCCTGTGATGAAACAAAACCCATAAATGCGCATAAAACAAGACGAGATTGGCATGGCTTTATTTGTTTTTTCTTTTGGCGCTTGACTCAGGATTAAAAAACTGGAATGGTGAAGGTGTCAGCAGCAGTCTTAAAATGAAACATGTTGGAGCGAACGCCCCCAAAGTTCTACAATGCATCTGAGGACTTTGATTGTACATTTGTTTCTTTTTTAATAGTCATTCCAAATATTGTTATAATGCATTGTTACAGGAAGTTACTCGCCTCTGTGAAGGCAACAGCCCAGCTGGGAGGAGCCGGTACCAATTACTGGTGTTAGATGATAATTGCTTGTCTGTAAATTATGTAACCCAAACAAGTGTCTTTTTGTATCTTCCGCTTAAAAACAAAACACACTTGATCCTTTTTGGTTTGTCCAAGCAAGCGGGCTTGTGTTCCCCCAGTGATAGATGTTGAATGAAGGCTTTACAGTCCCCACAGTCTAGGAGTAGAGTGCAGTATGTGGGGGGAAGGGACGGGCTACCTGTTACACTGACTTAAGACCAGTTCAATGAAAGTGCACACCATAACCAAAAA 4 2 3' arm Gallus_gallus mirnest 100 gga-mir-3533 5e-30 -21.2 ....(((((.(((((((((((..((...((((((........)))))).))..)))))))).)))...)))))......... (-21.2)