miRNA display CGI


Results 1 - 20 of 90 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
5121 3' -60.7 NC_001798.1 + 140042 1.1 0.001031
Target:  5'- gCCUCGGUCACACACGGGGCGCUGCCGg -3'
miRNA:   3'- -GGAGCCAGUGUGUGCCCCGCGACGGC- -5'
5121 3' -60.7 NC_001798.1 + 66534 0.8 0.132528
Target:  5'- uCCUCcGUgAgGCGgGGGGCGCUGCCGa -3'
miRNA:   3'- -GGAGcCAgUgUGUgCCCCGCGACGGC- -5'
5121 3' -60.7 NC_001798.1 + 35534 0.78 0.186487
Target:  5'- gCCgCGGcCG-GCGCGGGGCGUUGCCGg -3'
miRNA:   3'- -GGaGCCaGUgUGUGCCCCGCGACGGC- -5'
5121 3' -60.7 NC_001798.1 + 121784 0.77 0.191005
Target:  5'- uCCUCGGUCuCGgGCGGGGCcggGCCGg -3'
miRNA:   3'- -GGAGCCAGuGUgUGCCCCGcgaCGGC- -5'
5121 3' -60.7 NC_001798.1 + 2368 0.75 0.253047
Target:  5'- gCUCGGcCACGgccCGCGGGGCGCaguagGCCu -3'
miRNA:   3'- gGAGCCaGUGU---GUGCCCCGCGa----CGGc -5'
5121 3' -60.7 NC_001798.1 + 2478 0.75 0.253047
Target:  5'- cCCUCGGcgggccggcgggUCAgCGcCGCGGGGCGCggcgGCCGc -3'
miRNA:   3'- -GGAGCC------------AGU-GU-GUGCCCCGCGa---CGGC- -5'
5121 3' -60.7 NC_001798.1 + 134673 0.74 0.289858
Target:  5'- cCCgcagCgGGUCACgGCGCGGGuGCuGCUGCCGc -3'
miRNA:   3'- -GGa---G-CCAGUG-UGUGCCC-CG-CGACGGC- -5'
5121 3' -60.7 NC_001798.1 + 133075 0.74 0.303028
Target:  5'- -gUCGGcCGCACGCGGuucaucuaccuGGUGCUGCUGg -3'
miRNA:   3'- ggAGCCaGUGUGUGCC-----------CCGCGACGGC- -5'
5121 3' -60.7 NC_001798.1 + 20336 0.74 0.316655
Target:  5'- aCCaggUGG-CGCAgGCGGuuGGCGCUGCCGg -3'
miRNA:   3'- -GGa--GCCaGUGUgUGCC--CCGCGACGGC- -5'
5121 3' -60.7 NC_001798.1 + 2602 0.74 0.316655
Target:  5'- uCUUCGGg-GgGCGCGGGGCGCcGCCc -3'
miRNA:   3'- -GGAGCCagUgUGUGCCCCGCGaCGGc -5'
5121 3' -60.7 NC_001798.1 + 88363 0.73 0.356479
Target:  5'- cCCUCGGgcaggggUCGCGCcagccacuccucuGCGGGGCGCUcggcuaacgcggcgGCCGc -3'
miRNA:   3'- -GGAGCC-------AGUGUG-------------UGCCCCGCGA--------------CGGC- -5'
5121 3' -60.7 NC_001798.1 + 138149 0.73 0.36027
Target:  5'- gCUgCGGUCGCGcccccgggucCugGGGGCGCgacccgcgGCCGg -3'
miRNA:   3'- gGA-GCCAGUGU----------GugCCCCGCGa-------CGGC- -5'
5121 3' -60.7 NC_001798.1 + 96090 0.72 0.391591
Target:  5'- -aUCaGUC-CGCGCGGGGCGC-GCCu -3'
miRNA:   3'- ggAGcCAGuGUGUGCCCCGCGaCGGc -5'
5121 3' -60.7 NC_001798.1 + 111827 0.72 0.391591
Target:  5'- uCCagGGgCugGCGCGGGGCGggaaUGCCGu -3'
miRNA:   3'- -GGagCCaGugUGUGCCCCGCg---ACGGC- -5'
5121 3' -60.7 NC_001798.1 + 150328 0.72 0.399694
Target:  5'- gCCUgGGUCAUGCGCgaccGGGGCGCgcggUGCgCGu -3'
miRNA:   3'- -GGAgCCAGUGUGUG----CCCCGCG----ACG-GC- -5'
5121 3' -60.7 NC_001798.1 + 86142 0.71 0.424634
Target:  5'- uCCUgGGaagCGCAcCGCGGGGCGCgcaUGCgCGa -3'
miRNA:   3'- -GGAgCCa--GUGU-GUGCCCCGCG---ACG-GC- -5'
5121 3' -60.7 NC_001798.1 + 97689 0.71 0.450481
Target:  5'- aCCaagCGGUCGCugGCcagccucGGGCGCUGCg- -3'
miRNA:   3'- -GGa--GCCAGUGugUGc------CCCGCGACGgc -5'
5121 3' -60.7 NC_001798.1 + 3768 0.71 0.468183
Target:  5'- gCUCGGgcgccCACACGggcgcCGGGGCGCccgagGCCu -3'
miRNA:   3'- gGAGCCa----GUGUGU-----GCCCCGCGa----CGGc -5'
5121 3' -60.7 NC_001798.1 + 4075 0.71 0.468183
Target:  5'- cCCgCGGUCGC-CGCGGGG-GUccggGCCGg -3'
miRNA:   3'- -GGaGCCAGUGuGUGCCCCgCGa---CGGC- -5'
5121 3' -60.7 NC_001798.1 + 74094 0.71 0.477168
Target:  5'- uCUUCGGggaGCcCACGGcGGgGCUGCUGg -3'
miRNA:   3'- -GGAGCCag-UGuGUGCC-CCgCGACGGC- -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.