miRNA display CGI


Results 1 - 7 of 7 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
28558 3' -58.5 NC_005946.1 + 4326 0.66 0.741835
Target:  5'- aCCCCG-CGUGGUaguuuagUUCGACC--GCGGa -3'
miRNA:   3'- -GGGGUaGCACCGg------AGGCUGGaaCGCC- -5'
28558 3' -58.5 NC_005946.1 + 4967 0.66 0.770265
Target:  5'- -gCCAUCa-GGCCUCCGACaacuacgGCGa -3'
miRNA:   3'- ggGGUAGcaCCGGAGGCUGgaa----CGCc -5'
28558 3' -58.5 NC_005946.1 + 28745 0.72 0.403283
Target:  5'- -gCCAUgGUGGCCUCCaucACCUUG-GGa -3'
miRNA:   3'- ggGGUAgCACCGGAGGc--UGGAACgCC- -5'
28558 3' -58.5 NC_005946.1 + 36010 0.72 0.403283
Target:  5'- gCCUCAUacggaGUGGCCUCCagGGCCUcgGCGu -3'
miRNA:   3'- -GGGGUAg----CACCGGAGG--CUGGAa-CGCc -5'
28558 3' -58.5 NC_005946.1 + 52921 0.66 0.741835
Target:  5'- cUCCCGUCGUGagaGCCUCCGcucCCgucGUGa -3'
miRNA:   3'- -GGGGUAGCAC---CGGAGGCu--GGaa-CGCc -5'
28558 3' -58.5 NC_005946.1 + 79204 0.66 0.779512
Target:  5'- uCUCCAUCGgaaGGCCuuUCgGGCCUcuUGCu- -3'
miRNA:   3'- -GGGGUAGCa--CCGG--AGgCUGGA--ACGcc -5'
28558 3' -58.5 NC_005946.1 + 97867 0.76 0.233976
Target:  5'- gCUCCGUCcUGGCCUgUGGCCgggGCGGg -3'
miRNA:   3'- -GGGGUAGcACCGGAgGCUGGaa-CGCC- -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.