miRNA display CGI


Results 1 - 20 of 64 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
25041 3' -53.2 NC_005336.1 + 56788 0.67 0.952059
Target:  5'- gCGcCUGGc-CAccAAGAUCCUGGCGCCg -3'
miRNA:   3'- gGUaGACCuaGU--UUCUGGGGUCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 28955 0.68 0.917212
Target:  5'- cCCGUCagGGAagcgcugcgCAGcgcAGACCuguCCGGCGCCg -3'
miRNA:   3'- -GGUAGa-CCUa--------GUU---UCUGG---GGUCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 53382 0.68 0.92293
Target:  5'- aCCGUCUuccaGGucuUCAacGAGACCUCGGuCGCg -3'
miRNA:   3'- -GGUAGA----CCu--AGU--UUCUGGGGUC-GCGg -5'
25041 3' -53.2 NC_005336.1 + 11204 0.67 0.943329
Target:  5'- gCGUCUauGAUCcGAGGCCaguacuccaCGGCGCCg -3'
miRNA:   3'- gGUAGAc-CUAGuUUCUGGg--------GUCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 55769 0.67 0.943329
Target:  5'- gCCGgagcCUGGccaGAAGACCUUcucgGGCGCCg -3'
miRNA:   3'- -GGUa---GACCuagUUUCUGGGG----UCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 99513 0.67 0.943329
Target:  5'- gCCG-CUGGAUagcGGACCgC-GCGCCu -3'
miRNA:   3'- -GGUaGACCUAguuUCUGGgGuCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 102029 0.67 0.943329
Target:  5'- cCCAUCgUGGccagcAUCAAGGGCCaCagcuacgaAGCGCUg -3'
miRNA:   3'- -GGUAG-ACC-----UAGUUUCUGG-Gg-------UCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 125174 0.67 0.943329
Target:  5'- uCCAugcUCUGcGAcugccggccgUC--GGACCCgCGGCGCCg -3'
miRNA:   3'- -GGU---AGAC-CU----------AGuuUCUGGG-GUCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 38447 0.67 0.952059
Target:  5'- gCCGcCUGGAUCGGccgccGCCCCguGGUGCUc -3'
miRNA:   3'- -GGUaGACCUAGUUuc---UGGGG--UCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 34366 0.69 0.898584
Target:  5'- cCCGUgcCaGGAUCGAcGACgCCCAG-GCCg -3'
miRNA:   3'- -GGUA--GaCCUAGUUuCUG-GGGUCgCGG- -5'
25041 3' -53.2 NC_005336.1 + 19556 0.69 0.884963
Target:  5'- -uGUCUGGcgaAGAGcgcGCCgCAGCGCCg -3'
miRNA:   3'- ggUAGACCuagUUUC---UGGgGUCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 38055 0.69 0.870414
Target:  5'- aCCG-CUGGAggggCGcgcGGCUCCAGCGCg -3'
miRNA:   3'- -GGUaGACCUa---GUuu-CUGGGGUCGCGg -5'
25041 3' -53.2 NC_005336.1 + 17382 0.75 0.603311
Target:  5'- aCCGUCaGGAUCu--GGCCCagcuucuccaGGCGCCg -3'
miRNA:   3'- -GGUAGaCCUAGuuuCUGGGg---------UCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 134269 0.72 0.737145
Target:  5'- gCUAgacCUGGGcgacugCGGAGACCCCAGagGCCg -3'
miRNA:   3'- -GGUa--GACCUa-----GUUUCUGGGGUCg-CGG- -5'
25041 3' -53.2 NC_005336.1 + 27265 0.72 0.737145
Target:  5'- cCCGUCUGGGUC---GAUgUCAuGCGCCa -3'
miRNA:   3'- -GGUAGACCUAGuuuCUGgGGU-CGCGG- -5'
25041 3' -53.2 NC_005336.1 + 101978 0.72 0.756836
Target:  5'- uCCAUCgugcucGaGAUCGAcgacgugaAGAUCUCGGCGCCg -3'
miRNA:   3'- -GGUAGa-----C-CUAGUU--------UCUGGGGUCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 124907 0.71 0.785494
Target:  5'- aCgGUCUGGGUCu---GCCUCAGCGgCg -3'
miRNA:   3'- -GgUAGACCUAGuuucUGGGGUCGCgG- -5'
25041 3' -53.2 NC_005336.1 + 46604 0.71 0.794773
Target:  5'- aCAUCUGGAcCAucGugCCgcuCAGCGCg -3'
miRNA:   3'- gGUAGACCUaGUuuCugGG---GUCGCGg -5'
25041 3' -53.2 NC_005336.1 + 95643 0.7 0.846946
Target:  5'- uCCAUgugcUUGGcgCAgagcgccgcguAGGugUCCAGCGCCg -3'
miRNA:   3'- -GGUA----GACCuaGU-----------UUCugGGGUCGCGG- -5'
25041 3' -53.2 NC_005336.1 + 32293 0.7 0.85498
Target:  5'- gCCGUgCUGG-UCAuGGACCuCCAGCagaaucucguaGCCg -3'
miRNA:   3'- -GGUA-GACCuAGUuUCUGG-GGUCG-----------CGG- -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.