miRNA display CGI


Results 1 - 20 of 61 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
28010 3' -53.2 NC_005887.1 + 34349 1.15 0.000562
Target:  5'- gCCGCGGCCUUCGAAUCCUCGUCAAGCg -3'
miRNA:   3'- -GGCGCCGGAAGCUUAGGAGCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 31270 0.85 0.065427
Target:  5'- cUCGuCGGCCgcgUCGAucgCCUCGUCGAGCu -3'
miRNA:   3'- -GGC-GCCGGa--AGCUua-GGAGCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 37586 0.78 0.188801
Target:  5'- gCCGCGGCggaaUUCGGAU-CUCGUCAGuGCg -3'
miRNA:   3'- -GGCGCCGg---AAGCUUAgGAGCAGUU-CG- -5'
28010 3' -53.2 NC_005887.1 + 34870 0.77 0.216298
Target:  5'- aUCGCGGCC-UCGAucgCCUUGUCGuucGCg -3'
miRNA:   3'- -GGCGCCGGaAGCUua-GGAGCAGUu--CG- -5'
28010 3' -53.2 NC_005887.1 + 40466 0.75 0.296361
Target:  5'- cCCuCGGgCUUCGuuUCCUCGgCGAGCa -3'
miRNA:   3'- -GGcGCCgGAAGCuuAGGAGCaGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 26144 0.75 0.296361
Target:  5'- uUCGCGGCgcUCGAcgacGUCCUCGUCGAu- -3'
miRNA:   3'- -GGCGCCGgaAGCU----UAGGAGCAGUUcg -5'
28010 3' -53.2 NC_005887.1 + 30224 0.75 0.296361
Target:  5'- gUCGCGGCCUUCGA-UgUUCGaCAGGUc -3'
miRNA:   3'- -GGCGCCGGAAGCUuAgGAGCaGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 27376 0.73 0.397641
Target:  5'- gCGCGGCCUgcgCGGcgUaggCGUCGAGUu -3'
miRNA:   3'- gGCGCCGGAa--GCUuaGga-GCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 28772 0.73 0.370333
Target:  5'- aCGCGGCCUccuUCGcGUCgUCGgccugcUCGGGCg -3'
miRNA:   3'- gGCGCCGGA---AGCuUAGgAGC------AGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 30644 0.72 0.455962
Target:  5'- gCGCGGCgaagcgauCUUgCGAcgCCugaUCGUCGAGCg -3'
miRNA:   3'- gGCGCCG--------GAA-GCUuaGG---AGCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 26390 0.71 0.466126
Target:  5'- gUCGCGGaUCgucugCGggUUCUgGUCGAGCu -3'
miRNA:   3'- -GGCGCC-GGaa---GCuuAGGAgCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 2947 0.71 0.466126
Target:  5'- gCCGCGGCaccgccgCGAccAUCCUCG-CcGGCg -3'
miRNA:   3'- -GGCGCCGgaa----GCU--UAGGAGCaGuUCG- -5'
28010 3' -53.2 NC_005887.1 + 453 0.71 0.507894
Target:  5'- gCGgGGUCUuucuugaucgUCGGAUCCUUGUCGAa- -3'
miRNA:   3'- gGCgCCGGA----------AGCUUAGGAGCAGUUcg -5'
28010 3' -53.2 NC_005887.1 + 38572 0.71 0.466126
Target:  5'- aUGCGGUCg-CGGc-CCUCGUCGAGCc -3'
miRNA:   3'- gGCGCCGGaaGCUuaGGAGCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 33623 0.7 0.540229
Target:  5'- gCGUGGUCUUCGAAcuUCC-CGU--AGCg -3'
miRNA:   3'- gGCGCCGGAAGCUU--AGGaGCAguUCG- -5'
28010 3' -53.2 NC_005887.1 + 17415 0.7 0.540229
Target:  5'- uCgGCGGCauggCGAAgaacaucgCgCUCGUCGAGCg -3'
miRNA:   3'- -GgCGCCGgaa-GCUUa-------G-GAGCAGUUCG- -5'
28010 3' -53.2 NC_005887.1 + 39458 0.7 0.529367
Target:  5'- gCgGCGGCCgaCGuGUCCgUCGUCGccuGCg -3'
miRNA:   3'- -GgCGCCGGaaGCuUAGG-AGCAGUu--CG- -5'
28010 3' -53.2 NC_005887.1 + 37770 0.69 0.588798
Target:  5'- gCGCGGCCUgcgccUCGGcggcuugcugcgccuGcaguUCCUCGUCGGuGCu -3'
miRNA:   3'- gGCGCCGGA-----AGCU---------------U----AGGAGCAGUU-CG- -5'
28010 3' -53.2 NC_005887.1 + 11326 0.69 0.629108
Target:  5'- gCCGCGGCCUgCGAAUaguggCCUgCGcCGcGCc -3'
miRNA:   3'- -GGCGCCGGAaGCUUA-----GGA-GCaGUuCG- -5'
28010 3' -53.2 NC_005887.1 + 35407 0.69 0.606678
Target:  5'- cCCGCgcacGGCCUUCGcccacgagucGAUCag-GUCGAGCg -3'
miRNA:   3'- -GGCG----CCGGAAGC----------UUAGgagCAGUUCG- -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.