miRNA display CGI


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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
16719 3' -60.2 NC_004167.1 + 38870 0.66 0.360921
Target:  5'- gGCAGCCC-CuaugUGGCCCgugccacgGCCGGaAGAc -3'
miRNA:   3'- -CGUCGGGaGuu--GCCGGG--------UGGCC-UCUu -5'
16719 3' -60.2 NC_004167.1 + 36851 0.71 0.149115
Target:  5'- aGCAGCUgguCUgCGGCGGCCgUAUCGGGGAAa -3'
miRNA:   3'- -CGUCGG---GA-GUUGCCGG-GUGGCCUCUU- -5'
16719 3' -60.2 NC_004167.1 + 33466 1.07 0.000241
Target:  5'- aGCAGCCCUCAACGGCCCACCGGAGAAu -3'
miRNA:   3'- -CGUCGGGAGUUGCCGGGUGGCCUCUU- -5'
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.