miRNA display CGI


Results 1 - 20 of 26 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
23801 5' -57.5 NC_005261.1 + 133185 0.68 0.728262
Target:  5'- -cCGcGGC-GCCGUCGAGGAGUuCAUc- -3'
miRNA:   3'- aaGC-CCGcCGGCAGUUCCUCA-GUAcc -5'
23801 5' -57.5 NC_005261.1 + 132019 0.66 0.845692
Target:  5'- -cUGGGCcGCCGUCAcGGA--CGUGGc -3'
miRNA:   3'- aaGCCCGcCGGCAGUuCCUcaGUACC- -5'
23801 5' -57.5 NC_005261.1 + 98567 0.67 0.794481
Target:  5'- -gCGGGCGGCCGUCcuccgcgggcucGGGcGAGUa--GGc -3'
miRNA:   3'- aaGCCCGCCGGCAG------------UUC-CUCAguaCC- -5'
23801 5' -57.5 NC_005261.1 + 33819 0.67 0.776156
Target:  5'- cUUUGGGCGGCCG---GGGGG-CGcGGg -3'
miRNA:   3'- -AAGCCCGCCGGCaguUCCUCaGUaCC- -5'
23801 5' -57.5 NC_005261.1 + 35309 0.67 0.75732
Target:  5'- -cCGGGCcgGGCUGcUCGGGGAGgCcgGGc -3'
miRNA:   3'- aaGCCCG--CCGGC-AGUUCCUCaGuaCC- -5'
23801 5' -57.5 NC_005261.1 + 73843 0.68 0.75158
Target:  5'- cUUGGGCGaGUCGgcgccccggaggcuuUUAAGcGGGUCGUGGg -3'
miRNA:   3'- aAGCCCGC-CGGC---------------AGUUC-CUCAGUACC- -5'
23801 5' -57.5 NC_005261.1 + 110182 0.68 0.747732
Target:  5'- -cCGGGCGGCaguuccgcgaCGUUGAGGAGgCcUGGc -3'
miRNA:   3'- aaGCCCGCCG----------GCAGUUCCUCaGuACC- -5'
23801 5' -57.5 NC_005261.1 + 135663 0.68 0.738043
Target:  5'- -gCGGGCGGCCcucgcUCGAGGAGcUCu--- -3'
miRNA:   3'- aaGCCCGCCGGc----AGUUCCUC-AGuacc -5'
23801 5' -57.5 NC_005261.1 + 80052 0.68 0.738043
Target:  5'- gUCGccacuGGCGGCgGgcgCGGGGGG-CGUGGg -3'
miRNA:   3'- aAGC-----CCGCCGgCa--GUUCCUCaGUACC- -5'
23801 5' -57.5 NC_005261.1 + 127020 0.68 0.738043
Target:  5'- --gGcGGCGGCCcgagCAGGGAGUCGUc- -3'
miRNA:   3'- aagC-CCGCCGGca--GUUCCUCAGUAcc -5'
23801 5' -57.5 NC_005261.1 + 90238 0.68 0.737069
Target:  5'- -gCGGGCGcGCCGUCGgguaucaGGGcgccaaGGUCcUGGa -3'
miRNA:   3'- aaGCCCGC-CGGCAGU-------UCC------UCAGuACC- -5'
23801 5' -57.5 NC_005261.1 + 64519 0.74 0.381139
Target:  5'- -gCGGGCGGCuccuCGUCGGGGggcaGGUCcgGGa -3'
miRNA:   3'- aaGCCCGCCG----GCAGUUCC----UCAGuaCC- -5'
23801 5' -57.5 NC_005261.1 + 98474 0.68 0.708463
Target:  5'- -aCGGGCGGCCGUCcuccgcGGGcUCGggcgGGu -3'
miRNA:   3'- aaGCCCGCCGGCAGuu----CCUcAGUa---CC- -5'
23801 5' -57.5 NC_005261.1 + 84953 0.68 0.708463
Target:  5'- cUC-GGCGGCCGcCGAGGcGUCG-GGc -3'
miRNA:   3'- aAGcCCGCCGGCaGUUCCuCAGUaCC- -5'
23801 5' -57.5 NC_005261.1 + 17866 0.68 0.708463
Target:  5'- -gCGGcCGGCCGgcaggcCAAGGGG-CAUGGu -3'
miRNA:   3'- aaGCCcGCCGGCa-----GUUCCUCaGUACC- -5'
23801 5' -57.5 NC_005261.1 + 55295 0.68 0.697459
Target:  5'- --gGGGCGcugaagaGCCGgugCGGGGGGUCAgGGg -3'
miRNA:   3'- aagCCCGC-------CGGCa--GUUCCUCAGUaCC- -5'
23801 5' -57.5 NC_005261.1 + 135808 0.69 0.688406
Target:  5'- -gUGGGCGacgcGCCGuUCGAGGAGUaCAucccUGGg -3'
miRNA:   3'- aaGCCCGC----CGGC-AGUUCCUCA-GU----ACC- -5'
23801 5' -57.5 NC_005261.1 + 23641 0.7 0.627394
Target:  5'- gUCGGGCGGCUGgaAGGGAGagG-GGa -3'
miRNA:   3'- aAGCCCGCCGGCagUUCCUCagUaCC- -5'
23801 5' -57.5 NC_005261.1 + 23727 0.71 0.556459
Target:  5'- -gCGGGUGGCCGcgcCGAGGcgcGUCcgGGa -3'
miRNA:   3'- aaGCCCGCCGGCa--GUUCCu--CAGuaCC- -5'
23801 5' -57.5 NC_005261.1 + 105003 0.72 0.516918
Target:  5'- -gCGGGCGGCgGUCGGGGcGcCA-GGg -3'
miRNA:   3'- aaGCCCGCCGgCAGUUCCuCaGUaCC- -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.