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mature miRNA: TCCAAAGGGATCGCATTGATCC
species: Cichorium endivia
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|125332937|gb|EL347531.1|EL347531 CCEL3708.b1_G16.ab1 CCE(LMS) endive Cichorium endivia cDNA clone CCEL3708, mRNA sequence 

TCCAAAGGGATCGCATTGATCC
||||||.|.|||.| ||||||
AGGTTTTCTTAGTGGAACTAGA

EST sequence (targeted fragment marked with yellow):
AGGCGGTGAAGTTGTATTTTTTTTGTTTTCAGTGCTTTTTGTGTCTTCCATCATTATATAAACCGTCTACAAGCGACGCTGATCACGAACCCCCCTTTTCCAATATAACTCAAACAAATTCAATTTCTTGATCGTATTCACTAATAGTTATTGTTTAAGCTTGAATAAATGGCAATGGTACTGACGTGGATGGTGATAGCAACAGTGTTCAGTTTCAGTGTTGCTGCTCCTGAAGAAGCTCTCATCTCTCGAATTGCATTTGGTTCTTGCGCTAATCAGACCTCTCCACAGCCTATATGGGACGCTATAGTAGATTTCAAACCTCAAGTTTTCATCTGGCTTGGGGATAATATATATGGAGATATCAGGCGACCTTTTAAATTGTTTGGTAATGAGAGAACTATTGGACCATGGAAGAACGTTCCTAGGTTTGTTCCTTCTTCAGTGGATGAAATGCAGGCCAAATACAAGATTGCTAAGAACAATCATGGCTATTCCCGTCTACGTGAGATCACTAAGGTGATTGGCACTTGGGATGATCATGATTATGGATTAAACGATGCTGGGAAAGAATTTAAAGGGAAAGATACCAACCAAAAGCTCATGTTGGATTTCTTAGATGAACCCCATGATAGTCCAAGACGCAAGCAGGCTGGTGTTTATGCATCTTACACATTCGGTCCTGAAGGTAGACAGATCAAGGTGATTCTTTTGGATACTAGATACCACAGAGACCCTCTACGCAGTGATGGAACCATTTTGGGGACTGCACAATG


gi|125354692|gb|EL369204.1|EL369204 CCES5270.b1_K22.ab1 CCE(LMS) endive Cichorium endivia cDNA clone CCES5270, mRNA sequence 

TCCAAAGGGATCGCATTGATCC
|||||||.|||||||| |||||
AGGTTTCTCTAGCGTA-CTAGG

EST sequence (targeted fragment marked with yellow):
AGGCAAAACGCTAGATTTGATTATGTTGCAGCAGGTGGAAGCTTCCAAAGGGATCGCATTGATCCGGTTTATCAATCGATTCGAGTTTGATTCATTCATCTATCATATCCATGGAAGCAGCTGCAAATTTTTTTATCCAATTTGATAATTTGGATCATGCGATCTCTTTGGAAGTTTCCGTCCGTGGCCCTCCATGTTTGCATTCATCCGTCTATCGCTTCCATTTGATTCCAAGATCACGGAACTTCATTGTGTTTTGTGTTTGGTTGTTTTATGCAACGTTTCTGCTCTTTGCTACCGGAATATATCCAGGGGGAACAACTTTTGAAGCTACAGATATAACTCCTCATGATGATTAATAGAATTGAATTACTTGATTACATCATCCCCAAATCTGCCAAATTGATTTTCGGTCTCTGAATTGGGTGAATTGTGTTTTCGATCATTTAAGACTGTTTGGGGTCTTAAAGCAATGTTTTTTTTTTCTTTAGATAGTTGATTAGGAAACTTATTCAAACCATTTTCGCGTATTAGGAATTAGGAGAGAAGCTTATTTTCTTCTCCTGTATGTATATATATTTTTTTTATGTTTTTAGGGGAGAAGAATTTTATTCAAGAATATCTTGAGTGGAGTTAAAAAA