miRNA display CGI


Results 1 - 20 of 127 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
5280 3' -61 NC_001798.1 + 599 0.67 0.677288
Target:  5'- gGGGGGCUCGGGCCaccUGAccuucguaaccuGC-ACuCAGGu -3'
miRNA:   3'- -UCUCCGAGCCCGGc--ACU------------CGcUG-GUCC- -5'
5280 3' -61 NC_001798.1 + 1509 0.66 0.725483
Target:  5'- cGAGGCggCGgcccGGCCGUccAGCG-CCGGGa -3'
miRNA:   3'- uCUCCGa-GC----CCGGCAc-UCGCuGGUCC- -5'
5280 3' -61 NC_001798.1 + 2228 0.72 0.350794
Target:  5'- cGAGGCgcgcagCGGGCCGaaggcggcGGGCGcgccGCCGGGg -3'
miRNA:   3'- uCUCCGa-----GCCCGGCa-------CUCGC----UGGUCC- -5'
5280 3' -61 NC_001798.1 + 2297 0.67 0.638066
Target:  5'- cGAGGCcagcgcgcgCGGGUCGaacaUGAG-GGCCGGGc -3'
miRNA:   3'- uCUCCGa--------GCCCGGC----ACUCgCUGGUCC- -5'
5280 3' -61 NC_001798.1 + 2816 0.69 0.5311
Target:  5'- -cGGGCccaGGGCCcc-GGCGACCAGGc -3'
miRNA:   3'- ucUCCGag-CCCGGcacUCGCUGGUCC- -5'
5280 3' -61 NC_001798.1 + 3013 0.7 0.448661
Target:  5'- cGGGGGCgcggCGGGCCGggcucCGGCCAGc -3'
miRNA:   3'- -UCUCCGa---GCCCGGCacuc-GCUGGUCc -5'
5280 3' -61 NC_001798.1 + 3997 0.7 0.466399
Target:  5'- cGGGGC-CGcccGGCCGUGAaGCGGCCcguGGc -3'
miRNA:   3'- uCUCCGaGC---CCGGCACU-CGCUGGu--CC- -5'
5280 3' -61 NC_001798.1 + 4088 0.72 0.353802
Target:  5'- cGGGGGUcCGGGCCGgggcgggcucggcccUGGGCGggcucgGCCGGGg -3'
miRNA:   3'- -UCUCCGaGCCCGGC---------------ACUCGC------UGGUCC- -5'
5280 3' -61 NC_001798.1 + 6258 0.76 0.223605
Target:  5'- cGGGGGgaCGGGCCGggGGGacgGGCCGGGg -3'
miRNA:   3'- -UCUCCgaGCCCGGCa-CUCg--CUGGUCC- -5'
5280 3' -61 NC_001798.1 + 6297 0.76 0.223605
Target:  5'- cGGGGGgaCGGGCCGggGGGacgGGCCGGGg -3'
miRNA:   3'- -UCUCCgaGCCCGGCa-CUCg--CUGGUCC- -5'
5280 3' -61 NC_001798.1 + 6325 0.7 0.502916
Target:  5'- -nGGGgaCGGGCCGggGGGacgGGCCGGGg -3'
miRNA:   3'- ucUCCgaGCCCGGCa-CUCg--CUGGUCC- -5'
5280 3' -61 NC_001798.1 + 6362 0.77 0.189333
Target:  5'- cGGGGGgaCGGGCCGgggggccGGGgGGCCGGGg -3'
miRNA:   3'- -UCUCCgaGCCCGGCa------CUCgCUGGUCC- -5'
5280 3' -61 NC_001798.1 + 6393 0.69 0.559836
Target:  5'- nGGGGCcgggGGGCCG-GGGgGACgGGGg -3'
miRNA:   3'- uCUCCGag--CCCGGCaCUCgCUGgUCC- -5'
5280 3' -61 NC_001798.1 + 6535 0.76 0.218404
Target:  5'- cGGGGGgaCGGGCCG-GGGgGACgGGGg -3'
miRNA:   3'- -UCUCCgaGCCCGGCaCUCgCUGgUCC- -5'
5280 3' -61 NC_001798.1 + 6577 0.76 0.218404
Target:  5'- cGGGGGgaCGGGCCG-GGGgGACgGGGg -3'
miRNA:   3'- -UCUCCgaGCCCGGCaCUCgCUGgUCC- -5'
5280 3' -61 NC_001798.1 + 6619 0.74 0.269077
Target:  5'- cGGGGGgaCGGGCCG-GGGgGACgGGGc -3'
miRNA:   3'- -UCUCCgaGCCCGGCaCUCgCUGgUCC- -5'
5280 3' -61 NC_001798.1 + 9650 0.7 0.466399
Target:  5'- cGAGGCgcagCGGGCCGcgcgcgGAG-GGCgCGGGa -3'
miRNA:   3'- uCUCCGa---GCCCGGCa-----CUCgCUG-GUCC- -5'
5280 3' -61 NC_001798.1 + 9719 0.67 0.667515
Target:  5'- -cGGGCUCGGGCU---GGCG-CUGGGg -3'
miRNA:   3'- ucUCCGAGCCCGGcacUCGCuGGUCC- -5'
5280 3' -61 NC_001798.1 + 11230 0.67 0.667515
Target:  5'- gGGGGGCcgUCGGGCCacUGcGgGGCCgAGGa -3'
miRNA:   3'- -UCUCCG--AGCCCGGc-ACuCgCUGG-UCC- -5'
5280 3' -61 NC_001798.1 + 11985 0.67 0.628232
Target:  5'- cGGGGCUgUGGGCguggugCGUcGAGCGACacaAGGu -3'
miRNA:   3'- uCUCCGA-GCCCG------GCA-CUCGCUGg--UCC- -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.