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
12131 5' -51.1 NC_003309.1 + 43622 0.67 0.866041
Target:  5'- gCCGAUCuCGcgGuGCUUguccgggugcccGUCGGGCAGg -3'
miRNA:   3'- gGGUUAG-GCaaCuCGAA------------CAGCUCGUC- -5'
12131 5' -51.1 NC_003309.1 + 7824 0.71 0.673734
Target:  5'- gCCAGUcagcCCGgcGAGCgccaUGUCGAGCGc -3'
miRNA:   3'- gGGUUA----GGCaaCUCGa---ACAGCUCGUc -5'
12131 5' -51.1 NC_003309.1 + 18089 1.11 0.002033
Target:  5'- gCCCAAUCCGUUGAGCUUGUCGAGCAGu -3'
miRNA:   3'- -GGGUUAGGCAACUCGAACAGCUCGUC- -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.