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
33014 3' -52 NC_007456.1 + 1025 0.66 0.767547
Target:  5'- aCUGAgAGUGAUUAACUACAGG-UCg- -3'
miRNA:   3'- -GGCUaUCGCUGAUUGAUGUCCcGGaa -5'
33014 3' -52 NC_007456.1 + 33543 0.66 0.756761
Target:  5'- uUGAUgaAGCGACUAAUgucagGCAGGGaugugaCCUUa -3'
miRNA:   3'- gGCUA--UCGCUGAUUGa----UGUCCC------GGAA- -5'
33014 3' -52 NC_007456.1 + 4554 0.73 0.392638
Target:  5'- gUGAUgccAGCGAUUGACU-CAGGGUCUg -3'
miRNA:   3'- gGCUA---UCGCUGAUUGAuGUCCCGGAa -5'
33014 3' -52 NC_007456.1 + 703 1.07 0.001804
Target:  5'- gCCGAUAGCGACUAACUACAGGGCCUUu -3'
miRNA:   3'- -GGCUAUCGCUGAUUGAUGUCCCGGAA- -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.