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 TCCCTCCCCCTCACTGCACAG GTGCAGTGGTGTGAGGAGGGGGC AGGGAGCTCATGACTGCCCAGTGTGCAGTGGTGTGAGGAGGGGGCGTATCCTAGGCATCACACTACCTCTCCCTCCCCCTCACTGCACAGAGTTGGGCTGGTCACAGCC GTGGACCATCGCAGGGGCGGAGCACGAGTTGCCCTGAAGATCATTAAGAATGTGGAGAAGTACAAGGAGGCCGCTCGACTAGAAATCAACGTGCTGGAGAAAATCAATGAGAAAGATCCTGACAACAAGAAAAACGAGATGAACGCAGTGTGAAGAGCACAGCTGTGCGGGTGGTGGACTTCGGCAGTGCCACCTTTGACCATGAGCACCATAGCACCATTGTCTCCACTCGCCATTACCGAGCCCCAGAAGTCATCCTGGGTAAGGGAGCTCATGACTGCCCAGTGTGCAGTGGTGTGAGGAGGGGGCGTATCCTAGGCATCACACTACCTCTCCCTCCCCCTCACTGCACAGAGTTGGGCTGGTCACAGCCGTGCGACGTGTGGAGCATAGGCTGTATCATCTTCGAGTACTACGTCGGCTTCACCCTCTTCCAGGTAAGTGGTGGGATAATACTGGGCTGCTGGATTTCCTGATCTGCAGAGGCCATGCCTGCTCAATACTCCACACTGTCCTTCTGGCAACTGGTCCCCAGGGGGCCTTGATGAGTCCTACACTCAGCTCTGTCTTTGTTTCTCAGACGCCTGACAACAGAGAG 4 2 3' arm Rattus_norvegicus mirnest 100 rno-mir-3541 6e-52 -42.2 .....(((..(((((((((((((((((((((.....((((((((.(((...............)))..))))))))...))))))))))...)))))).))))).))). (-42.2)