miRNA display CGI


Results 1 - 20 of 31 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
12379 3' -56.7 NC_003324.1 + 43875 0.67 0.65473
Target:  5'- gCGCCUugcCGGCGuucCCggcacCCUGcUCGAUCUg -3'
miRNA:   3'- gGUGGA---GCCGCu--GGa----GGAC-AGCUAGG- -5'
12379 3' -56.7 NC_003324.1 + 30556 0.69 0.497612
Target:  5'- gCCugCUCGGCGGCg-CCgauUCGAcCCg -3'
miRNA:   3'- -GGugGAGCCGCUGgaGGac-AGCUaGG- -5'
12379 3' -56.7 NC_003324.1 + 38421 0.69 0.528077
Target:  5'- gCCGCCcCGGUGcCCUCgUGaUCGAgacgCCc -3'
miRNA:   3'- -GGUGGaGCCGCuGGAGgAC-AGCUa---GG- -5'
12379 3' -56.7 NC_003324.1 + 48883 0.66 0.686535
Target:  5'- -gGCCUCGGUGGCaccuuccggCUUGUCGAa-- -3'
miRNA:   3'- ggUGGAGCCGCUGga-------GGACAGCUagg -5'
12379 3' -56.7 NC_003324.1 + 46131 0.66 0.686535
Target:  5'- cUCAUCUCGGCaaguGGCCUUCga-CGAUCa -3'
miRNA:   3'- -GGUGGAGCCG----CUGGAGGacaGCUAGg -5'
12379 3' -56.7 NC_003324.1 + 5327 0.67 0.612089
Target:  5'- gCCGCUggugCGGCGGCCaaCUGaugcUCGAaCCg -3'
miRNA:   3'- -GGUGGa---GCCGCUGGagGAC----AGCUaGG- -5'
12379 3' -56.7 NC_003324.1 + 15665 0.71 0.429895
Target:  5'- cCCGCCUUGGC-AUCUgCCgUGUCGGcCCa -3'
miRNA:   3'- -GGUGGAGCCGcUGGA-GG-ACAGCUaGG- -5'
12379 3' -56.7 NC_003324.1 + 38561 0.69 0.51784
Target:  5'- uUCACCaggCGGuCGGCCUC--GUCGAUCa -3'
miRNA:   3'- -GGUGGa--GCC-GCUGGAGgaCAGCUAGg -5'
12379 3' -56.7 NC_003324.1 + 28624 0.67 0.622746
Target:  5'- gCCGCCauguugagcgCGGCaGGCCUCagUGgucUCGGUCCg -3'
miRNA:   3'- -GGUGGa---------GCCG-CUGGAGg-AC---AGCUAGG- -5'
12379 3' -56.7 NC_003324.1 + 16241 0.68 0.548767
Target:  5'- cCCGCCUCGGUG-CCagcgaugCCUGgcgCGGcCCc -3'
miRNA:   3'- -GGUGGAGCCGCuGGa------GGACa--GCUaGG- -5'
12379 3' -56.7 NC_003324.1 + 48395 0.66 0.711675
Target:  5'- aCCcCCUCGcGCaGCUUCUugcgaaugccgcgcuUGUCGAUCUg -3'
miRNA:   3'- -GGuGGAGC-CGcUGGAGG---------------ACAGCUAGG- -5'
12379 3' -56.7 NC_003324.1 + 47480 0.66 0.717899
Target:  5'- uCCGCCU-GGCaGGCCUgcaucgcaUUUGUCGAaCCa -3'
miRNA:   3'- -GGUGGAgCCG-CUGGA--------GGACAGCUaGG- -5'
12379 3' -56.7 NC_003324.1 + 37721 1.13 0.000534
Target:  5'- aCCACCUCGGCGACCUCCUGUCGAUCCc -3'
miRNA:   3'- -GGUGGAGCCGCUGGAGGACAGCUAGG- -5'
12379 3' -56.7 NC_003324.1 + 48166 0.67 0.633411
Target:  5'- gCCACgUCGGCGcgauCCUCaUGaagCGAUCg -3'
miRNA:   3'- -GGUGgAGCCGCu---GGAGgACa--GCUAGg -5'
12379 3' -56.7 NC_003324.1 + 17402 0.67 0.643009
Target:  5'- gUCACCUCgaucgguGGUGACCaggUCCUGcC-AUCCg -3'
miRNA:   3'- -GGUGGAG-------CCGCUGG---AGGACaGcUAGG- -5'
12379 3' -56.7 NC_003324.1 + 25490 0.67 0.665364
Target:  5'- gUCGCCg-GGCGcuUCUCCUuGUCGAguuUCCg -3'
miRNA:   3'- -GGUGGagCCGCu-GGAGGA-CAGCU---AGG- -5'
12379 3' -56.7 NC_003324.1 + 23422 0.66 0.686535
Target:  5'- gCCGCgUCGGUGGCgC-CCUgGUUGA-CCa -3'
miRNA:   3'- -GGUGgAGCCGCUG-GaGGA-CAGCUaGG- -5'
12379 3' -56.7 NC_003324.1 + 56211 0.66 0.67491
Target:  5'- cUCGCCUaucgcucgaucggCGGCGACaUCCUGcaUCcGUCCg -3'
miRNA:   3'- -GGUGGA-------------GCCGCUGgAGGAC--AGcUAGG- -5'
12379 3' -56.7 NC_003324.1 + 19109 0.67 0.622746
Target:  5'- uCCuCUUCGGC-AUUgcgCUUGUCGAUCCc -3'
miRNA:   3'- -GGuGGAGCCGcUGGa--GGACAGCUAGG- -5'
12379 3' -56.7 NC_003324.1 + 2995 0.68 0.601448
Target:  5'- gUCGCUUCGaGCGgcccaguaauucGCCUCUaugcgGUCGAUCUg -3'
miRNA:   3'- -GGUGGAGC-CGC------------UGGAGGa----CAGCUAGG- -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.