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 TTGTGTTCAGAGATGGAACAC GTTTCTCCTGAAGACATCT TGGAAAAGAATTTGTGTTCAGAGATGGAACACCTGGTCAAGACGTTTCTCCTGAAGACATCTACCTGTAT ATTGTGAAATATAGTAAGAAAAGACCAGAAGAATAAATGGTGGTCTGTAAATAATAGGGCATAATTTATATCTTTCTGTGTGAACATTCTGTGATTCCCTTTTTTCGTTACATTTAGTTACGTGTTTGAAGCGATGTCTAGAACCAGTAAGATCAAAATAGGTCATTTTAGGCGTGTTGAAGTTGAACTGATTTTTTTATGGTGAGTGTGCATGAAAGTGCTATTGTCTCTTCCTTGATTCAGCAACCTTGCCAATGCTCCATTGCTCCCACTGAGAGCGTCTCGGTTATCTTCAGCTGTGAGTGCTTTTCTGGATGCTTTGACTCTGGAGCTTCAAGACATGCTCGATACAGACAGCATTACACTTGACGCTGTTATATCAGCAGTAAGGAATTTTTCAGATGCAACGCCTAAGTTGGAGCATGACATGAATGACAGTCCAGAACTGACAGCTAATCATCTAATGCTGAGGAGATATAATGACAAGCTCATGCTGCTAGAGCGAGCTTTCACTCACATAAACATTTTGCCTGGAAAAGAATTTGTGTTCAGAGATGGAACACCTGGTCAAGACGTTTCTCCTGAAGACATCTACCTGTATGACATCTTAAATACTGTAACTGACATGACCCATGGGCCTGAACAGATTGAGC 4 2 5' arm Aplysia_californica mirnest 100 100 -13.2 .((...(((...(((.(((((.((.(((((..((.....))..)))))))))))).)))))).))..... (-13.2)