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
9852 5' -53.2 NC_002628.2 + 19096 0.66 0.635824
Target:  5'- uGGGGGGUCcaucugUGcCAGAUAAUAUUccacgaggaGGGAg -3'
miRNA:   3'- -CCCCCUAG------AC-GUCUGUUAUGA---------CCCUg -5'
9852 5' -53.2 NC_002628.2 + 12177 0.67 0.5889
Target:  5'- aGGGGG-CUGCuGAgaGGUACcugGGGACu -3'
miRNA:   3'- cCCCCUaGACGuCUg-UUAUGa--CCCUG- -5'
9852 5' -53.2 NC_002628.2 + 9004 0.77 0.142148
Target:  5'- aGGGGAUCUGCuacGAUAAUAUUGGaGAa -3'
miRNA:   3'- cCCCCUAGACGu--CUGUUAUGACC-CUg -5'
9852 5' -53.2 NC_002628.2 + 26427 1.13 0.000322
Target:  5'- cGGGGGAUCUGCAGACAAUACUGGGACa -3'
miRNA:   3'- -CCCCCUAGACGUCUGUUAUGACCCUG- -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.