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 AAGTATGAGGAAATGGAGATC GCTCTGCTTCCTCATACATAC ATGGATCGGGTTTGAAAGGAGAGCTCTGCTTCCTCATACATACTCATCTTTTCTATGGATAAGTATGAGGAAATGGAGATCTCCTTCCATTCCACCTGTT AACCATCTGTGCAGAAGTGCAGTTTATCTCTATATAGGAGCATGGAGAAGATAGAATAACCTGTAGGTCTGGTACATTCTAACTGTCTCTCTCCTGGAGAATGGATTTCTGAAGACCATAAGTCCTGAAGAATGGATTTTCTGAAGACCATGAGTTGAACTGTTTCCTTGAAGCTGCTGTAACTCATGTGTTGCTCATCTAGCTGCCAAATGGATCGGGTTTGAAAGGAGAGCTCTGCTTCCTCATACATACTCATCTTTTCTATGGATAAGTATGAGGAAATGGAGATCTCCTTCCATTCCACCTGTTTTAAAAAGCTAAAAATGAACTAGTTAGCTTGTTTCCCATATCCAGTTCTTCATACCGTATGGAGGATCCTTGCAGGTTTCTAACGTTACAGCAGACAAGCACACTTGGAAAAGAGCTGTTTCTTACCTTGTGTATTCAGTTTTATGTCCTGACCTTGAAATGAAATGTTTACTGTATCATTTTCCTTGTCAAATGCGGAACCTAGGGCAGCTGTTAGTGTCAGTGGGTTTCCTGACCTACCATCAAGTAGTTTCATTTGCAGTAGCAAAAGCAAATTCAGCAGTAGCACCTCCACAGGTCAAGTAATCTTTATTTTAAGCAGCCTGAAATCAGATAGACCAGGAACAGTGGGGGATTTCAAGGCACATTCAACCACAGTTCCATGGCATGACTTTCTGATCATGTCTCAACTCCAGGACTGTACATTTTTGGTTTTAATACCGTTGTCAAAGCAAGATGCT 3 0 3' arm Gallus_gallus mirnest 100 gga-mir-1684 5e-49 -38 ......(((((.((.(((((((.(((((.((((((((((.((.((((.......)))).)).)))))))))).))))).))))))).))....))))).. (-38)