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mature miRNA: AAACGAGCCAGCTCGGCTCGG
species: Helianthus annuus
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|51914918|gb|AJ828913.1|AJ828913 AJ828913 HaCotR Helianthus annuus cDNA clone HaCotR006G01, mRNA sequence 

AAACGAGCCAGCTCGGCTCGG
||||.|||||||.|.|| |.|
TTTGTTCGGTCGGGTCGTGTC

EST sequence (targeted fragment marked with yellow):
GGGGGAGTATGAAGTTAATGATGGGGTTGATTTGTGGAAATTTTTAGGGTTTGAAAACTGTTTTGTTAAGTTCATCTTCTTGAACTAAACCATTGATGGTAATGTGGGATAAATAGGGTTTGAAATTGAAATTAGTGTCTAAAAATAGCCTTAAGTGAATTTGTGGTTTTGTTGTACTCCCAAATATTGCATCAATGTTTAATGATCTAGGGCTGTAAACGAGCCGAGCCAGCTTGGGCTTGGCTTGTTTACGAGCTGTGCTGGGCTGGCTTGTTTATATTAAGGAGATGAAATGTTGAGCTCGAGTCAGCTCGTTTGTCTATNAAAAAAAAAAAAAAAAAAAAAA


gi|211609792|gb|GE487994.1|GE487994 CCFS3369.g1_B04.ab1 CCF(STU) sunflower Helianthus annuus cDNA clone CCFS3369, mRNA sequence 

AAACGAGCCAGCTCGGCTCGG
|||| ||||||||||| |||
TTTGATCGGTCGAGCCAAGCA

EST sequence (targeted fragment marked with yellow):
GCACACACCAACCCAACACCATTGAAATATTATTGAACCTAATACAAATTGTTTAAAGACATGTGAAGTCATAATCAACCAACATCAACATACAATTGAAAAGAAAATACAAGACGAACCGAGCTGGCTAGTTTAACTTCGAACCTGAGCCCGACTTGAAACTGGCCCGGCATGCTCAATAAGCAACCCTAATATCCACCAAACACAAAAACTTCATCAGCCCTCCTAATCTCCACCAATCAACCTTCAGCAATGTCTTTCTAAATCTAGTCATTTACCATTACAGACCCAGCCGGCACCACGGAGACATAGAACTCCCCATTGCAGAATACAAACTTCATCTTAAGGTTACTTAGTAGTATCGAACTGTCAATTAACTTACCCTACAAGAACATACCCTTAATAAAAGTACGCCGTTAATCTACTACTCTTAATACTAACAGGATAGCATATGATGAGAACATCAAATAGTGGTGCAAAGTAAACCAACATGCACAGACACTAAAAAAACACTTGTCTTATATGTCATTAATTTAATGACGCTCTGGAGCATTAGCGGATACTTTCCCGGCAGCATATGTCCACGGCATACCCAGGTCAGCAGCCTTNAAATGACTGTCATTCTTTATGAGGCCCGGTGGAGATAAACAGCGTGTTGGAGTGGCAAATGGAGATGAAAAGGCTGAATGTTGGATTGAAAACGGACTAGGGGCCTCCGCTTTTGA


gi|211620415|gb|GE494927.1|GE494927 CCFS6767.g1_M12.ab1 CCF(STU) sunflower Helianthus annuus cDNA clone CCFS6767, mRNA sequence 

AAACGAGCCAGCTCGGCTCGG
||| |||||||||||||| .
TTTACTCGGTCGAGCCGATTG

EST sequence (targeted fragment marked with yellow):
CAAAATTTTTGTCTACTCTTTTAACTTAATTTATTTAGAATCTTGTACAAACAAAATTCTAAATAAAAATAACAAATATTCATTAACCTAATTAACTAGAATCAAATGGCAAGAATCACGACACCTTCATACAAAAACATGAAAGAGGGGGTCACACATGTAGGGTTGTACAATTTTTTAGCTCGCGGCTTGGCTAGAACTCAAGTTGAGATGACGTTAGCCGAGCTGGCTCATTTTGTAATTGAGCCAAGCTCAGCCTGGCTCGTTCTTAAACTCGTTTAACTTCAAGCTAGAGCTTGAGTTGAAACGAGTCGCCTCAATTAATTTCAAGCTTGAGCTCGATCCCAACCTGGCTCGACTCGTTTACAGCCCTACACCCTACGCACATGATGTGACAAAGCCACCACTTCACTAACAAAATTCAACCTGACATTCTCTTCTTAGTATATCAAAATTAACCGAAAACAATGGTTAAAACATGGTCATAAACAACACGGCCGGATATTTTATCATTGTTTATCCTTGTCATTGATCAATATGTCTTTCCAAGCCTCATAAAACATCCATGTGATGCCGGATGACGGCATAACCTTCAACAACTTGCACCCCATCCTCTATATAATCCGATCAAACCCTCTTCTCTGAAAACTTCGGCTAAAGCAGCGGCCATGTGTGGTGGGCACTTACCTTG


gi|211628932|gb|GE506267.1|GE506267 CCFT5176.g1_P21.ab1 CCF(STU) sunflower Helianthus annuus cDNA clone CCFT5176, mRNA sequence 

AAACGAGCCAGCTCGGCTCGG
||||.|||||| | .|||||.
TTTGTTCGGTCTACTCGAGCT

EST sequence (targeted fragment marked with yellow):
CGGTACCAAACTGATGTTACAATATAATTTCAATTTGAAACACCTAGGAAAACATAATATTGAAAGATAACAAGTCTGCTATCAACCCGCTAACATTAACTATGAACTAAAAATTTAAACAGCATGTACCCTAGTTCGTTATCATCGACTAATACAAACATCACCTCAAGACAAGTAAGAAACATTATTCATCTTTTAAAAACATTATAAAAAAAGAACACAAACAAATTCCACGAGCTGCTTCTACCTGGAACGATTCATTCAAATAACACCTCCCGTGCTCCTTCAGTCAGCTTCATAGACCAAAATATTCTGATTCAATCCCACTCTAAAACGCCATTCAACCAGCAAGCCTTCCTTCTGAAATCCTCCTATCGATGGCTGCATCAATCGAGCTCATCTGGCTTGTTTCATCATGCACCTGATACTTTGGTAAAGACATCCTTCTTTCCTCCATGGACATCGCCTCATCGTCCCACACTAGGTAAACCTCATTTGTTGCTGGCTGAATAGCAGGAGCTTTATTTGCGATTACAGGCGGTGGTCCGATTGAAGGGCCGCCAGTATTGGGGCCAGAAGCGTAGGAATGTGAAGCTGTTACTCCACCTTGGAAGCCTGGGGTGAAGTAGGCCCTGGGCATGTTGATATTATGCGGGGCCGTTGTGATCAAATCTGAAGGGGAGGGTAATGAATGCTT