miRNA display CGI


Results 1 - 20 of 23 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
12428 3' -53.8 NC_003324.1 + 17899 0.66 0.818911
Target:  5'- gGCGA-C-ACCCcgAAUGCGCGCCgUGAg -3'
miRNA:   3'- gCGUUaGcUGGGa-UUGCGCGUGG-ACU- -5'
12428 3' -53.8 NC_003324.1 + 18711 0.66 0.818911
Target:  5'- gGC-AUCGACUCgaggUAACGCuGCcauACCUGAu -3'
miRNA:   3'- gCGuUAGCUGGG----AUUGCG-CG---UGGACU- -5'
12428 3' -53.8 NC_003324.1 + 23774 0.66 0.817979
Target:  5'- gGCAGUCGacaucgaugugaaGCCCg---GCGCGCCgugGAu -3'
miRNA:   3'- gCGUUAGC-------------UGGGauugCGCGUGGa--CU- -5'
12428 3' -53.8 NC_003324.1 + 5395 0.66 0.8095
Target:  5'- gGCGAuuUCGGCUCggaagaUGGCGCccGCACCUGc -3'
miRNA:   3'- gCGUU--AGCUGGG------AUUGCG--CGUGGACu -5'
12428 3' -53.8 NC_003324.1 + 26147 0.66 0.790124
Target:  5'- gGCAAUUGGCgCgaAGC-CGCGCUUGAg -3'
miRNA:   3'- gCGUUAGCUG-GgaUUGcGCGUGGACU- -5'
12428 3' -53.8 NC_003324.1 + 42205 0.66 0.790124
Target:  5'- aGUGAUCGGCCC-AACGCuuaaCACCa-- -3'
miRNA:   3'- gCGUUAGCUGGGaUUGCGc---GUGGacu -5'
12428 3' -53.8 NC_003324.1 + 16252 0.67 0.770083
Target:  5'- gCGCAG--GGCCCUAAcaaaccCGCGacgaaGCCUGAa -3'
miRNA:   3'- -GCGUUagCUGGGAUU------GCGCg----UGGACU- -5'
12428 3' -53.8 NC_003324.1 + 2278 0.67 0.770083
Target:  5'- aGCGAccgCGACCCgccccugcgGGCGgGCugcuuCCUGAa -3'
miRNA:   3'- gCGUUa--GCUGGGa--------UUGCgCGu----GGACU- -5'
12428 3' -53.8 NC_003324.1 + 15650 0.67 0.749465
Target:  5'- gGCGA-CGGCCCcGGCGCGCucgaUGAc -3'
miRNA:   3'- gCGUUaGCUGGGaUUGCGCGugg-ACU- -5'
12428 3' -53.8 NC_003324.1 + 27703 0.67 0.749465
Target:  5'- gGCGAugugcgccUCGGCCUUAucGCGgGCACCg-- -3'
miRNA:   3'- gCGUU--------AGCUGGGAU--UGCgCGUGGacu -5'
12428 3' -53.8 NC_003324.1 + 24823 0.67 0.728366
Target:  5'- gCGCAAgCGACUCgAGgGCGacaaGCCUGAc -3'
miRNA:   3'- -GCGUUaGCUGGGaUUgCGCg---UGGACU- -5'
12428 3' -53.8 NC_003324.1 + 29894 0.67 0.728366
Target:  5'- gGCg--CGAUCUUcGGCGCGCugCUGGc -3'
miRNA:   3'- gCGuuaGCUGGGA-UUGCGCGugGACU- -5'
12428 3' -53.8 NC_003324.1 + 26105 0.68 0.696015
Target:  5'- --gGAUCGGCCCgAACGgGCcuucggcuACCUGAu -3'
miRNA:   3'- gcgUUAGCUGGGaUUGCgCG--------UGGACU- -5'
12428 3' -53.8 NC_003324.1 + 51161 0.68 0.685091
Target:  5'- gGCAggUGACCUgc-CGCGUcaACCUGAc -3'
miRNA:   3'- gCGUuaGCUGGGauuGCGCG--UGGACU- -5'
12428 3' -53.8 NC_003324.1 + 32958 0.68 0.674116
Target:  5'- aCGguGUCaguGAgCCUcGCGUGCAUCUGAc -3'
miRNA:   3'- -GCguUAG---CUgGGAuUGCGCGUGGACU- -5'
12428 3' -53.8 NC_003324.1 + 49412 0.69 0.652056
Target:  5'- uCGCGAUCGgcgaGCCCggcAGCG-GCGCUUGGc -3'
miRNA:   3'- -GCGUUAGC----UGGGa--UUGCgCGUGGACU- -5'
12428 3' -53.8 NC_003324.1 + 5060 0.69 0.607795
Target:  5'- cCGCcAagGACCCgAACGCG-GCCUGAu -3'
miRNA:   3'- -GCGuUagCUGGGaUUGCGCgUGGACU- -5'
12428 3' -53.8 NC_003324.1 + 35920 0.7 0.585753
Target:  5'- gCGCAgGUCGAauCCCUGAUGgaGCugCUGGg -3'
miRNA:   3'- -GCGU-UAGCU--GGGAUUGCg-CGugGACU- -5'
12428 3' -53.8 NC_003324.1 + 25874 0.7 0.585753
Target:  5'- uCGCGAUCGACCUUGAgGCuuucaagaaaGC-CCUGc -3'
miRNA:   3'- -GCGUUAGCUGGGAUUgCG----------CGuGGACu -5'
12428 3' -53.8 NC_003324.1 + 8187 0.7 0.574786
Target:  5'- uGCucaCuGCCCggcGGCGCGCGCCUGGc -3'
miRNA:   3'- gCGuuaGcUGGGa--UUGCGCGUGGACU- -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.