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mature miRNA: TGAGCCAAAGATGACTTGCCG
species: Medicago truncatula
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|9056606|gb|BE240422.1|BE240422 EST404471 MHRP- Medicago truncatula cDNA clone pMHRP-45I5, mRNA sequence

TGAGCCAAAGATGACTTGCCG
|||||||| ||||| |||||.
ACTCGGTTCCTACTAAACGGT

EST sequence (targeted fragment marked with yellow):
CCTGGCTCATTACTTTGGCAAATCATCCTTGGCTCAACGTACCTTAAGTAAACTGTCTTTGTGTTTTTACACGGGATAGACTTGGTACGATTATCCTAATACAGAAGGCTACTATGTGTCTTTTTCGATGTGAAAAGAAGGCACTAAAATTATGATTCTAGTTATAAAACTTGGTATGATTATCCTGTTACAGAAGGCTATTAAGTGTCTTTTTCGGTGTGAATAAGGCACTAATTTCTAATTCTAGTTATGTGTGGTTTTAGTAATGTCTAATGTGGTGTTTTATTTATGTATTTCTGACTTTGGGGAGCAATGTATCATATAACTATGATCTGTAGATCTTTGTTGGAAAAATAAAAGCACTGGTTTGTATTTTCACT