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mature miRNA: CATGACATTTAGTGATGATGT
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|13781068|gb|BG645956.1|BG645956 EST507575 KV3 Medicago truncatula cDNA clone pKV3-48E19 5' end, mRNA sequence

CATGACATTTAGTGATGATGT
|||| ||||||| .|||| ||
GTACAGTAAATCTTTACTCCA

EST sequence (targeted fragment marked with yellow):
TCTTTTCCTTTCTTTCTATCTTGGTCCCTCTAGATTTTTAATGGCTTGTCCTTCAAATTCAATCACCTACAATGGCACCCTTTGTGCTTGTTTACCAGGACATGTTCTTGATGTTGTGTCAAAGAAGTTGCAAACTCTTTAAAGCTGACTCAACTATTACCACAGATACTGGTGTTGATTTCTATGCTCTTAAGCTGCCAGAGACACTTCCTGGATTTGATTCTCTTAAGAAGTTTACACAGTCACAGGCTGTGTTCTTGGAGGCTACACTTGTTATGCTTCTCTCTTGGCTTATGTTTTGCTTATTTCTTAGGTTTATGAGCCTTGGTGATGGTCGTGGTGTGTGGTTTAAACTTAGGTGGTTTGTTAGTCGATTGGATATTTGTTTTGCTACTAGACATTGGCTGGACGATAAGAAAGTAGTAACAAAACGCAAAACTGAACTTGGTGGAGCTTTCTCCATAGCAAGTTGGATACTTTTCATTGGTTTATTTGCTGCGTTGCTATACCAGATCATATCAAAGAGATCAATTGAGGTTCATAATATAAGAGCAACAAATGCACCAGAATTAACCTCATTTCTAAATGACATGGAGTTCAATATAACAACTATATCTAGTATGAGCTGTGCAAATCTACGTGATCTCGGTAACTTAGTTTCTGGAAATCCGGGATTTATTGACGAAAGAGTTGTTTCTCTGTCAACTTTAGCAACTACTCATGTCACAACTCAAGCCAGGGGACCAACATAGCACTCAAGTGTTAAAGGTTGCAAGCTCATCT