miRNA display CGI


Results 1 - 20 of 190 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
12775 3' -60.3 NC_003387.1 + 51410 1.11 0.000315
Target:  5'- uACCCGACGUCGUCGACGUCGCCCGCCa -3'
miRNA:   3'- -UGGGCUGCAGCAGCUGCAGCGGGCGG- -5'
12775 3' -60.3 NC_003387.1 + 5736 0.85 0.028266
Target:  5'- gGCCCG-CGcUCGUCGuCGUCGCCCGCa -3'
miRNA:   3'- -UGGGCuGC-AGCAGCuGCAGCGGGCGg -5'
12775 3' -60.3 NC_003387.1 + 35596 0.8 0.061502
Target:  5'- aGCCgguCGAgGUCGUCGAgCGUCGCCCccGCCa -3'
miRNA:   3'- -UGG---GCUgCAGCAGCU-GCAGCGGG--CGG- -5'
12775 3' -60.3 NC_003387.1 + 43688 0.79 0.076564
Target:  5'- uCCUGGCGuggaUCGcCGACGgCGCCCGCCa -3'
miRNA:   3'- uGGGCUGC----AGCaGCUGCaGCGGGCGG- -5'
12775 3' -60.3 NC_003387.1 + 42703 0.77 0.092588
Target:  5'- cUUCGGCucGUCGUCGuCGUCGCCCgGCCg -3'
miRNA:   3'- uGGGCUG--CAGCAGCuGCAGCGGG-CGG- -5'
12775 3' -60.3 NC_003387.1 + 24218 0.77 0.095123
Target:  5'- uGCCgGuuaGCGUCGUCGugGUUGC-CGCCg -3'
miRNA:   3'- -UGGgC---UGCAGCAGCugCAGCGgGCGG- -5'
12775 3' -60.3 NC_003387.1 + 7892 0.76 0.123995
Target:  5'- gACCUGGCuGUCGUCGAUccacacgacgucgGUCaGCCCGUCg -3'
miRNA:   3'- -UGGGCUG-CAGCAGCUG-------------CAG-CGGGCGG- -5'
12775 3' -60.3 NC_003387.1 + 29734 0.75 0.131088
Target:  5'- gGCCuUGcCGUCGUCGGCGcCGCCCGaCa -3'
miRNA:   3'- -UGG-GCuGCAGCAGCUGCaGCGGGCgG- -5'
12775 3' -60.3 NC_003387.1 + 26196 0.74 0.153461
Target:  5'- uGCCUGACGgcUCGUCGuCGUCGgCCuCGCa -3'
miRNA:   3'- -UGGGCUGC--AGCAGCuGCAGC-GG-GCGg -5'
12775 3' -60.3 NC_003387.1 + 1304 0.74 0.156286
Target:  5'- cGCCCuggcgggcGACGUCGaCGACGUCGgguacgucgagauuUCCGCCg -3'
miRNA:   3'- -UGGG--------CUGCAGCaGCUGCAGC--------------GGGCGG- -5'
12775 3' -60.3 NC_003387.1 + 21041 0.74 0.161658
Target:  5'- cGCCUGACca-GUCGGCGUCGaaCGCCg -3'
miRNA:   3'- -UGGGCUGcagCAGCUGCAGCggGCGG- -5'
12775 3' -60.3 NC_003387.1 + 35806 0.74 0.165902
Target:  5'- uGCCuCGGCGcCGUCGGCG-CGaugcucucguacCCCGCCa -3'
miRNA:   3'- -UGG-GCUGCaGCAGCUGCaGC------------GGGCGG- -5'
12775 3' -60.3 NC_003387.1 + 18583 0.74 0.170247
Target:  5'- gACCCaGGCGUCa--GG-GUCGCCCGCCu -3'
miRNA:   3'- -UGGG-CUGCAGcagCUgCAGCGGGCGG- -5'
12775 3' -60.3 NC_003387.1 + 7449 0.74 0.170247
Target:  5'- cGCCCGACGggGUCGGCGUgGCgauccauuccagCCGCg -3'
miRNA:   3'- -UGGGCUGCagCAGCUGCAgCG------------GGCGg -5'
12775 3' -60.3 NC_003387.1 + 30897 0.73 0.174693
Target:  5'- cGCCgGgaaaGCGUUGgucgccaCGGCGUCGCUCGCCg -3'
miRNA:   3'- -UGGgC----UGCAGCa------GCUGCAGCGGGCGG- -5'
12775 3' -60.3 NC_003387.1 + 37287 0.73 0.174693
Target:  5'- cGCCUGGCGcgcUCGUCGGCGcggucgUCGaCCgCGCCg -3'
miRNA:   3'- -UGGGCUGC---AGCAGCUGC------AGC-GG-GCGG- -5'
12775 3' -60.3 NC_003387.1 + 11015 0.73 0.183896
Target:  5'- cCCCGGCcgccuUCGUCGGCGcCGCgaCGCCg -3'
miRNA:   3'- uGGGCUGc----AGCAGCUGCaGCGg-GCGG- -5'
12775 3' -60.3 NC_003387.1 + 18321 0.73 0.183896
Target:  5'- cGCCCGGCaacggCGUgGcCGUCguGCCCGCCg -3'
miRNA:   3'- -UGGGCUGca---GCAgCuGCAG--CGGGCGG- -5'
12775 3' -60.3 NC_003387.1 + 32418 0.73 0.188656
Target:  5'- uACCgGACGcCGUUGACGUagcaGCCCaGCUc -3'
miRNA:   3'- -UGGgCUGCaGCAGCUGCAg---CGGG-CGG- -5'
12775 3' -60.3 NC_003387.1 + 2323 0.73 0.188656
Target:  5'- cGCCCGACGUacaGcUCGGCGgugUCGaggCCGCCg -3'
miRNA:   3'- -UGGGCUGCAg--C-AGCUGC---AGCg--GGCGG- -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.