miRNA display CGI


Results 21 - 36 of 36 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
29939 3' -56.6 NC_006273.1 + 29319 0.68 0.886695
Target:  5'- uCGAGugCCGAcGCCGGU-GGa-GGACAu -3'
miRNA:   3'- -GCUUugGGUU-CGGCCAgCCgaCCUGU- -5'
29939 3' -56.6 NC_006273.1 + 228707 0.68 0.886695
Target:  5'- -uGAACCCGGGUgGGUuguucggaaaCGGCgGGACGg -3'
miRNA:   3'- gcUUUGGGUUCGgCCA----------GCCGaCCUGU- -5'
29939 3' -56.6 NC_006273.1 + 45005 0.68 0.886031
Target:  5'- uCGGGACCCGgcaucgcAGCCGuaGUCGGCUGuuCu -3'
miRNA:   3'- -GCUUUGGGU-------UCGGC--CAGCCGACcuGu -5'
29939 3' -56.6 NC_006273.1 + 105103 0.68 0.87996
Target:  5'- ---uGCUCgAGGCCGGcgCGGCUGcGACGg -3'
miRNA:   3'- gcuuUGGG-UUCGGCCa-GCCGAC-CUGU- -5'
29939 3' -56.6 NC_006273.1 + 212539 0.69 0.856297
Target:  5'- uCGAGGCCaacucagucacauuCAAGCggcaGGUCGGUUGGAgGa -3'
miRNA:   3'- -GCUUUGG--------------GUUCGg---CCAGCCGACCUgU- -5'
29939 3' -56.6 NC_006273.1 + 221803 0.69 0.843291
Target:  5'- aCGGcGGCCCGGGCCGccCGGCgGGugAg -3'
miRNA:   3'- -GCU-UUGGGUUCGGCcaGCCGaCCugU- -5'
29939 3' -56.6 NC_006273.1 + 94324 0.69 0.835396
Target:  5'- cCGAGGCCCGGcGCCGGUCcguccGC-GGGCc -3'
miRNA:   3'- -GCUUUGGGUU-CGGCCAGc----CGaCCUGu -5'
29939 3' -56.6 NC_006273.1 + 160557 0.69 0.835396
Target:  5'- gCGGAGCCCGcGGCUGGUaCGaGCggUGGGCu -3'
miRNA:   3'- -GCUUUGGGU-UCGGCCA-GC-CG--ACCUGu -5'
29939 3' -56.6 NC_006273.1 + 113497 0.69 0.833796
Target:  5'- uCGGAugCCGuAGCCGG-CGGCggguugcccgggGGGCGc -3'
miRNA:   3'- -GCUUugGGU-UCGGCCaGCCGa-----------CCUGU- -5'
29939 3' -56.6 NC_006273.1 + 141155 0.69 0.830576
Target:  5'- cCGGAACCCugccgcggacugcGCCGGggggCGGC-GGGCAc -3'
miRNA:   3'- -GCUUUGGGuu-----------CGGCCa---GCCGaCCUGU- -5'
29939 3' -56.6 NC_006273.1 + 145603 0.7 0.808159
Target:  5'- gGggGCCCGAGCgacggucugggcggCGGUCGuGgUGGugGg -3'
miRNA:   3'- gCuuUGGGUUCG--------------GCCAGC-CgACCugU- -5'
29939 3' -56.6 NC_006273.1 + 188374 0.7 0.802164
Target:  5'- gCGGucAUCCAAGUCGGgCGGCgucggGGACGc -3'
miRNA:   3'- -GCUu-UGGGUUCGGCCaGCCGa----CCUGU- -5'
29939 3' -56.6 NC_006273.1 + 101740 0.7 0.793478
Target:  5'- uGAGGCUCAGacggcggucGCCGG-CGGCaUGGGCGc -3'
miRNA:   3'- gCUUUGGGUU---------CGGCCaGCCG-ACCUGU- -5'
29939 3' -56.6 NC_006273.1 + 153832 0.7 0.784656
Target:  5'- gCGAGACCCuGGUgGGUCGcGUggugGGACc -3'
miRNA:   3'- -GCUUUGGGuUCGgCCAGC-CGa---CCUGu -5'
29939 3' -56.6 NC_006273.1 + 230487 0.71 0.719781
Target:  5'- gCGAAucgGCCgGcuGGUCGGUCGGCgcucGGACGg -3'
miRNA:   3'- -GCUU---UGGgU--UCGGCCAGCCGa---CCUGU- -5'
29939 3' -56.6 NC_006273.1 + 46452 1.09 0.004373
Target:  5'- aCGAAACCCAAGCCGGUCGGCUGGACAc -3'
miRNA:   3'- -GCUUUGGGUUCGGCCAGCCGACCUGU- -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.