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mature miRNA: TGCCTGGCTCCCTGTATGCCA
species: Populus trichocarpa
database: miRNEST
The numbers on the right side of the alignments show a score calculated for them.
When calculating the score, a mismatch is given a score of 1, bulge: 2, and wobble: 0.5.

Predicted miRNA targets
gi|52394833|gb|CV235845.1|CV235845 WS01221.B21_N05 PT-GT-FL-A-3 Populus trichocarpa cDNA clone WS01221_N05 3', mRNA sequence

TGCCTGGCTCCCTGTATGCCA
||||||||||||||.||||||
ACGGACCGAGGGACGTACGGT

EST sequence (targeted fragment marked with yellow):
GTTGGAGAGGGCGGTGTCTCAAGAGGCTGTGGTGGAGGCAGTAGAGAGGGCGGCTAAAGGCTTGCCGTTTGAGGTTGTCTACTATCCGAGGGCAGGGTGGTATTCAGATTTTGTGGTGAGGGCTGAAGTGGTGGAAGCTGCACTATGTGTGTTTTGGACTGCTGGGATGAGAGTGAAGATGGCTGTGGAGACTGAGGATTCCTCCAGAATGACTTGGTTTCAGGGGACTGTTTCGGGTACTGGTTTGCCTGACTGTGGTGCATGGCGTGGCTCTCCTTGGCGCATGCTTCAGATTACTTGGGATGAGCCTGAAGTTCTGCAGAATGTAAAGAGAGTGAGCCCTTGGCAAGTGGAATTTGTTGCAACCACACTGCCAATTCAAGACGCATCCCCCCCAATGAAGAAATTGAGATATCCTAATGATTCTGGGTTCCTGACAAATGGAGAACTTTTCTTTCCGATGTCAGACCTAACTAATTCAAGAACGGGGCACATGAATGCTTCAATGTTGAATTATAGTACTTTTCCTGCTGGCATGCAGGGAGCCAGGCAAGATCCTTTTTCCACATTCAGTTTATCCAACTTAATAAGTGAAAATGCTTCTCAGGTGTTTGGTGACAAGGTCTTTGGAAACAACTTGGTACCCAAAAAAAAAAAAAAAA