miRNA display CGI


Results 1 - 20 of 35 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
29506 3' -63.1 NC_006151.1 + 10923 0.66 0.580255
Target:  5'- uCGGGCCCacGGCgCCgagGGUGggCGCgCGUg -3'
miRNA:   3'- -GCCCGGGc-CCG-GGa--CUACuaGCG-GUA- -5'
29506 3' -63.1 NC_006151.1 + 23916 0.66 0.580255
Target:  5'- gCGGGCCCgacGGGCC--GccGGUCGUCGUg -3'
miRNA:   3'- -GCCCGGG---CCCGGgaCuaCUAGCGGUA- -5'
29506 3' -63.1 NC_006151.1 + 31934 0.66 0.57049
Target:  5'- aCGGGaCCGGGggguCCCgcgUGAUGA-CGCCGg -3'
miRNA:   3'- -GCCCgGGCCC----GGG---ACUACUaGCGGUa -5'
29506 3' -63.1 NC_006151.1 + 81355 0.66 0.560765
Target:  5'- cCGcGCCCgGGGCCCcGgcGggCGCCAg -3'
miRNA:   3'- -GCcCGGG-CCCGGGaCuaCuaGCGGUa -5'
29506 3' -63.1 NC_006151.1 + 28947 0.66 0.560765
Target:  5'- uGGGCCCGaGGgCCgGAucUGAUUggGCCAc -3'
miRNA:   3'- gCCCGGGC-CCgGGaCU--ACUAG--CGGUa -5'
29506 3' -63.1 NC_006151.1 + 2624 0.66 0.551087
Target:  5'- gGGGUCCgGGGCCCggcgcgGGUGcUCaCCGUg -3'
miRNA:   3'- gCCCGGG-CCCGGGa-----CUACuAGcGGUA- -5'
29506 3' -63.1 NC_006151.1 + 23393 0.66 0.54146
Target:  5'- gGGGaagcaCCCGcGCCagcgCUGGUGGUCGCCGg -3'
miRNA:   3'- gCCC-----GGGCcCGG----GACUACUAGCGGUa -5'
29506 3' -63.1 NC_006151.1 + 24364 0.66 0.53189
Target:  5'- gCGGGCUCGucCCCgccGGUGAUCGUCu- -3'
miRNA:   3'- -GCCCGGGCccGGGa--CUACUAGCGGua -5'
29506 3' -63.1 NC_006151.1 + 3958 0.66 0.53189
Target:  5'- gCGGGCCCGGGCCgCgcgGcgGccUCGgCGa -3'
miRNA:   3'- -GCCCGGGCCCGG-Ga--CuaCu-AGCgGUa -5'
29506 3' -63.1 NC_006151.1 + 4524 0.66 0.53189
Target:  5'- aGGGCCCagagcGGGUCCUGGgcg--GCCAUg -3'
miRNA:   3'- gCCCGGG-----CCCGGGACUacuagCGGUA- -5'
29506 3' -63.1 NC_006151.1 + 5079 0.67 0.522381
Target:  5'- aGGGCCgCGGGgCCgcgGcgGG-CGCCGg -3'
miRNA:   3'- gCCCGG-GCCCgGGa--CuaCUaGCGGUa -5'
29506 3' -63.1 NC_006151.1 + 2109 0.67 0.522381
Target:  5'- gCGGGCCgCGGGgCC-GGccGUCGCCGc -3'
miRNA:   3'- -GCCCGG-GCCCgGGaCUacUAGCGGUa -5'
29506 3' -63.1 NC_006151.1 + 3469 0.67 0.522381
Target:  5'- uCGGGCauGGGCCCgaGcgGG-CGCCGg -3'
miRNA:   3'- -GCCCGggCCCGGGa-CuaCUaGCGGUa -5'
29506 3' -63.1 NC_006151.1 + 78134 0.67 0.522381
Target:  5'- gCGGGCCgCGGGCgCCUcgGAcGA-CGCCu- -3'
miRNA:   3'- -GCCCGG-GCCCG-GGA--CUaCUaGCGGua -5'
29506 3' -63.1 NC_006151.1 + 141755 0.67 0.503568
Target:  5'- gGGGCgCGcGCCCcGGUGGcgUCGCCGg -3'
miRNA:   3'- gCCCGgGCcCGGGaCUACU--AGCGGUa -5'
29506 3' -63.1 NC_006151.1 + 40163 0.67 0.503568
Target:  5'- gCGGcccGCUCGGGCCCaucaaGGUGGagGCCAUc -3'
miRNA:   3'- -GCC---CGGGCCCGGGa----CUACUagCGGUA- -5'
29506 3' -63.1 NC_006151.1 + 19863 0.67 0.494272
Target:  5'- aGaGGCUCGGGgCCUcGGUGGagagCGCCAg -3'
miRNA:   3'- gC-CCGGGCCCgGGA-CUACUa---GCGGUa -5'
29506 3' -63.1 NC_006151.1 + 35226 0.67 0.475921
Target:  5'- -uGGCCCGGGCgagCCgaGAUGGcCGCCGc -3'
miRNA:   3'- gcCCGGGCCCG---GGa-CUACUaGCGGUa -5'
29506 3' -63.1 NC_006151.1 + 54711 0.67 0.475921
Target:  5'- uGGGCCaGGGCCUggacgaGGUGGccgagcUCGCCGa -3'
miRNA:   3'- gCCCGGgCCCGGGa-----CUACU------AGCGGUa -5'
29506 3' -63.1 NC_006151.1 + 73254 0.67 0.466873
Target:  5'- aCGGGCaCGGGCgCCaGgcGGUUGCCGg -3'
miRNA:   3'- -GCCCGgGCCCG-GGaCuaCUAGCGGUa -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.