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mature miRNA: CAAGATCATCCCCCATGCTGT
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|24059147|gb|BU868500.1|BU868500 M116F04 Populus flower cDNA library Populus trichocarpa cDNA 5 prime, mRNA sequence 

CAAGATCATCCCCCATGCTGT
||| |||||||| ||| ||||
GTTGTAGTAGGGTGTAGGACA

EST sequence (targeted fragment marked with yellow):
AAGCTAGGCAAGATGGTTTTACTAGACAGGATGTGGGATGATGTTGTTGCTGGACCTCAGCCAGAACGTGGCCTTGGGAAGCTTAGAAAGATCAGCACCAGACCACTTAACATCAAAGATATTGACGTCGGAGAGGGGAGCAGTCCTGTTAATAAGTTTCAGAGGTCCATGACTATGCCAGGAACTCCAGGGACACCGACGACACCAGTGACCCCTACAACCCCAGTGTCGGCGCGTAGCAATGTTTGGAGGAGCGTGTTCCACCCTGGTAGCAACCTTGCTACTAAGAATATTGGTGCTCATGTTTTTGACAAGCCACAGCCTAACACACCCACTGTCTATGACTGGATGTACAGTGGAGAGACGAAGAGCGAGCATCGTTGATGA


gi|38575887|gb|CK091562.1|CK091562 F107P94.3pR Populus flower cDNA library Populus trichocarpa cDNA clone F107P94 3', mRNA seque 

CAAGATCATCCCCCATGCTGT
|||||||||||||||||||||
GTTCTAGTAGGGGGTACGACA

EST sequence (targeted fragment marked with yellow):
CCTATTTGACCCACATTTCCTCCAAACCAACAGGGTAAAAAGAAGTCCAAATCATCTGTTCAGAATATGGCATACTAATGTAGAGAGAGAGAAAAAAGAATAACCATCCCAAAATTCAACACCCCTTCCTATCTCCCTTCCAAGCATTGCATTAAGAACTTCACAAATACTCCCCTCTTCCAAGCATTGCATTAAGAACTTCACAAATACTCCCCTCTTCCAACCATTGCATTAAGAACTTCCACAAATACCCCCCCCCTCTTCCAACCATTGCATTAAGGACTTCACAAATACGCTGCGGCGAAAACTTTACTGCTGCTTGCATTCTGGAGGCCGCTCACCCTGCTGACCATCCCCAACTTGTGTTCTTCCACTTTTCTTGTTTCCAGCAGATGACTTCTTTTTGGTCTTGCCTTCATCCTCATCCTCATCCTCATCTTCTTCATCTTCATCTTCTTCATCGTCCTCATCTTCCTCCTCGTCATCATCCTCATCAATATCTTCATAATCGTCATTGTCACCATCATCTAGTCCAAGCTCATCCCCCTGAACAGCCTCCCCGGTAAACCATGACACAGCATGGGGGATGATCTTGTCTCGAATGGTTGACCCAATGTCATAATCTTGCTCCATCTGATTTTGCAATTCCTCAGCAGTATCTTCATCTATGTCTTCATCATCGTCAGGAACTTGTGGTGGACTGAAGAAGTTGAAAAAACTTTCACAGTCTTCAGTTTTAGTAATTGGCTTGGCATTCTTGGATCCTTTCTTGGGCTTCTTCTTAAGAAGCTTCTGGGTCAAGCATTTTCCTGGATACCATTCGATCTCAGTTCCTATTGCTTT


gi|24059236|gb|BU868589.1|BU868589 M117G06 Populus flower cDNA library Populus trichocarpa cDNA 5 prime, mRNA sequence 

CAAGATCATCCCCCATGCTGT
 |||||| |||||| ||||||
TTTCTAGAAGGGGGAACGACA

EST sequence (targeted fragment marked with yellow):
CGGGGGTCTTTTCACTTTCCTCTAATTCGATTCGCTCCTCTCAGGTTCCCTCAAAATCAATTTTCTAATGGCTCTTTTCATTTCACCAGAAATCTCCACCGCAAAAATCCTCTTTAACCCTAACCCTAGAAATCTCAAGAGCCTTAATGTTCGTGTCAGGGCTAGAAGTGATGTCAGGGTTTCGGGATTGAATCAAAATGTGAGGCTCTACGGTCAATTTTCGGTTCCGGTCAAACAAGAAACGAAGAGGACGAACGAGGAAGAGGAGAAGCAGAATTACTATGTGAATATGGGTTATGCGATTAGGACTTTGAGAGAGGAGTTTCCCGGGTTGTTTTATAGAGAGCTCAGTTTTGATATCTACAGGGATGACATTGTCTATAAAGATCCGATCAATACCTTTGGTGGTATTGAGAGTTATAAATCAATGTTCTGGGCTCTGCGTTTCCATGGAAGGATATTTTTCAGGGCTTTGTGGGTTGACATCATTAGTGTGTCACAGCCTGCAGAGAATGTGATTATGGTTCGATGGACAGTCCATGGCATCCCACGAGTCCCATGGGAGAGTAGTGCTCAATTTGATGGCCTGTCTGAGTACAAACTTGACAGCAAGGGGGAAGATCTTTCAGCATCGGGTCGACAACATTGCTCTTAATTCACCTCCAAAGTTTCATGTGCTGACTGTGGAGGAATTAATCCAGGCTGTTGGTTACCCCTCAACCCCAAAACCCGACTTATTTTGAA