miRNA display CGI


Results 1 - 20 of 56 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
28166 3' -56.2 NC_005887.1 + 382 0.71 0.29035
Target:  5'- gAUAGGCGAGCGCgCcGCgcaCG-CACCa -3'
miRNA:   3'- gUAUCCGCUCGCG-GuCGag-GUaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 744 0.68 0.437825
Target:  5'- --cGGGCc-GCGCCGGCcgCCG-CACCu -3'
miRNA:   3'- guaUCCGcuCGCGGUCGa-GGUaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 1590 0.66 0.585177
Target:  5'- ---cGGCG-GCGCgCGGCgcgCCAacggcgaUCGCCu -3'
miRNA:   3'- guauCCGCuCGCG-GUCGa--GGU-------AGUGG- -5'
28166 3' -56.2 NC_005887.1 + 1805 0.74 0.179728
Target:  5'- uCGUGcGCGAGCGCCAGaccgUCGUCGCUg -3'
miRNA:   3'- -GUAUcCGCUCGCGGUCga--GGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 2349 0.67 0.499204
Target:  5'- ---cGGCGGGCGaCCAGCgCUcgCagGCCg -3'
miRNA:   3'- guauCCGCUCGC-GGUCGaGGuaG--UGG- -5'
28166 3' -56.2 NC_005887.1 + 2497 0.67 0.531301
Target:  5'- ---cGGCGAGCccgGCCuGCUCgugCACCc -3'
miRNA:   3'- guauCCGCUCG---CGGuCGAGguaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 4914 0.75 0.170058
Target:  5'- --cAGGCaAGCGCCGcGCUCCAcuccgCACCu -3'
miRNA:   3'- guaUCCGcUCGCGGU-CGAGGUa----GUGG- -5'
28166 3' -56.2 NC_005887.1 + 5871 0.68 0.472101
Target:  5'- --aAGGCGAGUggggcgacaGCUacgaccggaacgucgAGCUCgGUCGCCa -3'
miRNA:   3'- guaUCCGCUCG---------CGG---------------UCGAGgUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 8411 0.69 0.418341
Target:  5'- gCGUGGGcCGAGCacgaCCAGg-CUAUCGCCg -3'
miRNA:   3'- -GUAUCC-GCUCGc---GGUCgaGGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 9098 0.66 0.542169
Target:  5'- --cAGcGCGGGCaCCGGCgCCGUUACUc -3'
miRNA:   3'- guaUC-CGCUCGcGGUCGaGGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 9620 0.66 0.564116
Target:  5'- ----cGCGAGCGCCGcGCUaCCc-CGCCg -3'
miRNA:   3'- guaucCGCUCGCGGU-CGA-GGuaGUGG- -5'
28166 3' -56.2 NC_005887.1 + 11373 0.7 0.3545
Target:  5'- --cAGcGCGGGCGUCAGCgcagCCGgagCGCUg -3'
miRNA:   3'- guaUC-CGCUCGCGGUCGa---GGUa--GUGG- -5'
28166 3' -56.2 NC_005887.1 + 11399 0.7 0.363188
Target:  5'- aCGUAcGCGGGCGCCGa---CAUCACCg -3'
miRNA:   3'- -GUAUcCGCUCGCGGUcgagGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 12326 0.66 0.575178
Target:  5'- --aGGGUG-GCGUCGGCgcgUUCGUCACg -3'
miRNA:   3'- guaUCCGCuCGCGGUCG---AGGUAGUGg -5'
28166 3' -56.2 NC_005887.1 + 14295 0.77 0.11453
Target:  5'- aCAUGGGUGgcgcAGCGCCuGCUCgAUCACg -3'
miRNA:   3'- -GUAUCCGC----UCGCGGuCGAGgUAGUGg -5'
28166 3' -56.2 NC_005887.1 + 14631 0.68 0.446761
Target:  5'- --aGGGCGcgcucacGGCaGCCGGCgcggugcugcCCGUCGCCg -3'
miRNA:   3'- guaUCCGC-------UCG-CGGUCGa---------GGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 15727 0.66 0.58629
Target:  5'- --aAGGagcuGAcGCGCCAGCUgCAggACCa -3'
miRNA:   3'- guaUCCg---CU-CGCGGUCGAgGUagUGG- -5'
28166 3' -56.2 NC_005887.1 + 16247 0.78 0.099169
Target:  5'- ---cGGCGAGCGCacgGGCaCCGUCGCCg -3'
miRNA:   3'- guauCCGCUCGCGg--UCGaGGUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 16741 0.66 0.58629
Target:  5'- --gAGuGCGAgaGCGCUGGCgaaGUCACCa -3'
miRNA:   3'- guaUC-CGCU--CGCGGUCGaggUAGUGG- -5'
28166 3' -56.2 NC_005887.1 + 18549 0.75 0.16266
Target:  5'- gGUGGGCGgcGGCGCCGGCUucgcgggcgacaugcUCGUCGCg -3'
miRNA:   3'- gUAUCCGC--UCGCGGUCGA---------------GGUAGUGg -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.