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
21959 3' -48.3 NC_004914.1 + 7307 0.67 0.982065
Target:  5'- uCGcCAGUGUAuGacGAUAUGCCCGacGGa -3'
miRNA:   3'- -GCaGUCACAU-CauUUAUGCGGGCa-CC- -5'
21959 3' -48.3 NC_004914.1 + 55856 0.7 0.920685
Target:  5'- aG-CAGUGUuGUG---ACGCCUGUGGc -3'
miRNA:   3'- gCaGUCACAuCAUuuaUGCGGGCACC- -5'
21959 3' -48.3 NC_004914.1 + 11114 1.13 0.003829
Target:  5'- cCGUCAGUGUAGUAAAUACGCCCGUGGg -3'
miRNA:   3'- -GCAGUCACAUCAUUUAUGCGGGCACC- -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.