miRNA display CGI


Results 1 - 20 of 21 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
25762 3' -58.3 NC_005337.1 + 35737 0.66 0.809161
Target:  5'- --cGGCGuGGUGGUGUCGUaCGcGCUg -3'
miRNA:   3'- ggaCCGC-CUACCACAGCGgGUaCGAg -5'
25762 3' -58.3 NC_005337.1 + 75047 0.66 0.809161
Target:  5'- gCUUGGCGGAgaggucGGUGUCcgcgGCCUucUGCa- -3'
miRNA:   3'- -GGACCGCCUa-----CCACAG----CGGGu-ACGag -5'
25762 3' -58.3 NC_005337.1 + 128805 0.66 0.809161
Target:  5'- --gGGCGGGUGcGgcugCGCCCugcccccggagAUGCUCg -3'
miRNA:   3'- ggaCCGCCUAC-Caca-GCGGG-----------UACGAG- -5'
25762 3' -58.3 NC_005337.1 + 102608 0.66 0.80389
Target:  5'- --gGGCGGugGUGGggagcuccaugcccgUGUCGCUCAaGCUCc -3'
miRNA:   3'- ggaCCGCC--UACC---------------ACAGCGGGUaCGAG- -5'
25762 3' -58.3 NC_005337.1 + 93468 0.66 0.773031
Target:  5'- cCCgccGGCGGGaacgUGGUGgugCGCCuCGgagacgcggaccUGCUCa -3'
miRNA:   3'- -GGa--CCGCCU----ACCACa--GCGG-GU------------ACGAG- -5'
25762 3' -58.3 NC_005337.1 + 96400 0.66 0.763666
Target:  5'- --cGGCGGAggacgaGGUGgCGCagaagaCCGUGCUCc -3'
miRNA:   3'- ggaCCGCCUa-----CCACaGCG------GGUACGAG- -5'
25762 3' -58.3 NC_005337.1 + 59238 0.67 0.754186
Target:  5'- uCCUGGCGGAgaucgGGgccaGCCCcacgGUGCg- -3'
miRNA:   3'- -GGACCGCCUa----CCacagCGGG----UACGag -5'
25762 3' -58.3 NC_005337.1 + 89905 0.67 0.725144
Target:  5'- cCCggugGGCGGcgGGgcGUCGCCCcacucCUCa -3'
miRNA:   3'- -GGa---CCGCCuaCCa-CAGCGGGuac--GAG- -5'
25762 3' -58.3 NC_005337.1 + 10288 0.67 0.705372
Target:  5'- uCCUGGCGGAgGGgccUCggaacaccauGCCUGUGUUCa -3'
miRNA:   3'- -GGACCGCCUaCCac-AG----------CGGGUACGAG- -5'
25762 3' -58.3 NC_005337.1 + 102307 0.68 0.664152
Target:  5'- uCCUGGCGGAcgugagccUGGacuucGUCGUCCGgaaccucUGCUUc -3'
miRNA:   3'- -GGACCGCCU--------ACCa----CAGCGGGU-------ACGAG- -5'
25762 3' -58.3 NC_005337.1 + 62660 0.68 0.655026
Target:  5'- --aGGCGGAUGucGUCGUCCGUGaUCg -3'
miRNA:   3'- ggaCCGCCUACcaCAGCGGGUACgAG- -5'
25762 3' -58.3 NC_005337.1 + 97860 0.69 0.624533
Target:  5'- gCUGGCGG-UGGc--CGCcgCCGUGCUCa -3'
miRNA:   3'- gGACCGCCuACCacaGCG--GGUACGAG- -5'
25762 3' -58.3 NC_005337.1 + 66497 0.69 0.624533
Target:  5'- gUCUGGCGaGcGUGGUGgUGCCCGUgaaGUUCa -3'
miRNA:   3'- -GGACCGC-C-UACCACaGCGGGUA---CGAG- -5'
25762 3' -58.3 NC_005337.1 + 123708 0.69 0.624533
Target:  5'- --cGGCGGcUGGgcaCGCCCGUGCg- -3'
miRNA:   3'- ggaCCGCCuACCacaGCGGGUACGag -5'
25762 3' -58.3 NC_005337.1 + 48371 0.69 0.583989
Target:  5'- gCUGGUGGccAUGGU---GCCCAUGCUg -3'
miRNA:   3'- gGACCGCC--UACCAcagCGGGUACGAg -5'
25762 3' -58.3 NC_005337.1 + 46475 0.7 0.573921
Target:  5'- uCCUGGUGGuGUGG-GUgGCCCGcGCg- -3'
miRNA:   3'- -GGACCGCC-UACCaCAgCGGGUaCGag -5'
25762 3' -58.3 NC_005337.1 + 30253 0.7 0.563894
Target:  5'- ---cGCGcGAUGGcGUCGCCC-UGCUCc -3'
miRNA:   3'- ggacCGC-CUACCaCAGCGGGuACGAG- -5'
25762 3' -58.3 NC_005337.1 + 61054 0.71 0.524315
Target:  5'- uCCUGGUGGuccggccgAUGGUGUUgaGCCgGUGCa- -3'
miRNA:   3'- -GGACCGCC--------UACCACAG--CGGgUACGag -5'
25762 3' -58.3 NC_005337.1 + 34430 0.72 0.439736
Target:  5'- gCCUGGCGGgcGGcuUGUCGgCCAUGaCg- -3'
miRNA:   3'- -GGACCGCCuaCC--ACAGCgGGUAC-Gag -5'
25762 3' -58.3 NC_005337.1 + 68504 0.78 0.207593
Target:  5'- gCUGGCGGccgugGGUG-CGCCCGcGCUCg -3'
miRNA:   3'- gGACCGCCua---CCACaGCGGGUaCGAG- -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.