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 GGACTTCCCTGGTGGTCTAGT TGGGCCAGGGGATGTTCTT GATGATGAGTTTCAGGAGGCACTGGGCCAGGGGATGTTCTTCAGGCTAAGGCATTGCCAAATGTCAGGCTAAATGAACCACATCATTCCCCAGAGATCTTGGGGAAATTGTTTTTTTCTATAGACAATAGACGGGAGGACTTCCCTGGTGGTCTAGTGGTTGAGACTCCGGGCTGC CCCGGCCCCGGCGGCGGCGGCGGCGCGGCCATGAAGCTGAAGCTGAAGAACGTGTTCCTCGCCTACTTCCTGGTGTCGATCGCCGGCCTCCTCTACGCGCTGGTGCAGCTCGGCCAGCCATGTGACTGCCTCCCTCCCCTGCGGGCAGCAGCGGAGCAGCTTCGGCAGAAGGATCTGAGGATTTCCCAGCTGCAAGCCGATCTCCGTCGCCCACCCCCTGCCCCTGCCCGGGCCCCTGAACCCGAGGCTCTGCCGGGGATCTATGTTGTTACCCCCACCTATGCCAGGTATGGGCTCTGACTCACCCAGGATCTGCCTGGACCAAGAGGCTGGGGTTGATGATGAGTTTCAGGAGGCACTGGGCCAGGGGATGTTCTTCAGGCTAAGGCATTGCCAAATGTCAGGCTAAATGAACCACATCATTCCCCAGAGATCTTGGGGAAATTGTTTTTTTCTATAGACAATAGACGGGAGGACTTCCCTGGTGGTCTAGTGGTTGAGACTCCGGGCTGCCATCGTGGGGAGTGTGGGTTCAGTCCCTGGTTGGGAGCTCTAGGATCCCGCATGCCATGTGGCATGGCCAAATGTGCCATGA 1 2 3' arm Bos_taurus mirnest tRNA 0.00001 bta-mir-2340 0.0005 -59.3 ......(((((((((....(((((((((((((((.(((((((.((((..((((((....)))))).))))..((((......))))(((((((.....))))))).(((((((........))))))).....))))))).)))))..)))))))))).)))))))))........ (-59.3)