miRNA display CGI


Results 1 - 20 of 76 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
33160 3' -57.1 NC_007497.1 + 32813 1.08 0.000502
Target:  5'- uCGCGCCAACACGCCAAUCGCGCUGCAa -3'
miRNA:   3'- -GCGCGGUUGUGCGGUUAGCGCGACGU- -5'
33160 3' -57.1 NC_007497.1 + 23217 0.79 0.07956
Target:  5'- aGCGCCAAgACGCC-GUCGacgaGCUGCGc -3'
miRNA:   3'- gCGCGGUUgUGCGGuUAGCg---CGACGU- -5'
33160 3' -57.1 NC_007497.1 + 34412 0.78 0.086772
Target:  5'- gGCGCCuGCAUGUCGaucaaacucgacGUCGCGCUGCu -3'
miRNA:   3'- gCGCGGuUGUGCGGU------------UAGCGCGACGu -5'
33160 3' -57.1 NC_007497.1 + 2460 0.77 0.112315
Target:  5'- gCGCGgCGACGCGCCAucaCGCGCaUGUAu -3'
miRNA:   3'- -GCGCgGUUGUGCGGUua-GCGCG-ACGU- -5'
33160 3' -57.1 NC_007497.1 + 14993 0.74 0.185549
Target:  5'- uCGCGCCGACucCGaCCGAccaguUCGCGCUcGCGc -3'
miRNA:   3'- -GCGCGGUUGu-GC-GGUU-----AGCGCGA-CGU- -5'
33160 3' -57.1 NC_007497.1 + 36174 0.73 0.190661
Target:  5'- gCGCGUCGGC-CGcCCGGUCGUgugGCUGCGg -3'
miRNA:   3'- -GCGCGGUUGuGC-GGUUAGCG---CGACGU- -5'
33160 3' -57.1 NC_007497.1 + 28724 0.73 0.195896
Target:  5'- aCGCGCC--CGCGCCAuUCGCGCa--- -3'
miRNA:   3'- -GCGCGGuuGUGCGGUuAGCGCGacgu -5'
33160 3' -57.1 NC_007497.1 + 30924 0.73 0.201257
Target:  5'- -aUGCCAucguuaggGCACGCCGuUCGCGUUGUAa -3'
miRNA:   3'- gcGCGGU--------UGUGCGGUuAGCGCGACGU- -5'
33160 3' -57.1 NC_007497.1 + 32617 0.73 0.206744
Target:  5'- gGCGCCA--AUGCCGcUCGCGCaGCGa -3'
miRNA:   3'- gCGCGGUugUGCGGUuAGCGCGaCGU- -5'
33160 3' -57.1 NC_007497.1 + 8861 0.73 0.218108
Target:  5'- -aUGCCAGCACG-CAAUUGCugGCUGCAa -3'
miRNA:   3'- gcGCGGUUGUGCgGUUAGCG--CGACGU- -5'
33160 3' -57.1 NC_007497.1 + 33096 0.72 0.23615
Target:  5'- uCG-GCCAGCucgGCGUCGAUcugCGCGCUGCGu -3'
miRNA:   3'- -GCgCGGUUG---UGCGGUUA---GCGCGACGU- -5'
33160 3' -57.1 NC_007497.1 + 35158 0.72 0.23615
Target:  5'- uCGCgGCCGGCGCGCCGggUGUGaaGCAu -3'
miRNA:   3'- -GCG-CGGUUGUGCGGUuaGCGCgaCGU- -5'
33160 3' -57.1 NC_007497.1 + 34664 0.71 0.262134
Target:  5'- gCGCGCUcGCGCGCCugcGUCGCGaucGCu -3'
miRNA:   3'- -GCGCGGuUGUGCGGu--UAGCGCga-CGu -5'
33160 3' -57.1 NC_007497.1 + 40135 0.71 0.262134
Target:  5'- -aCGCCGuuCGCGCCcAUCuGCGCUGCc -3'
miRNA:   3'- gcGCGGUu-GUGCGGuUAG-CGCGACGu -5'
33160 3' -57.1 NC_007497.1 + 23104 0.71 0.283113
Target:  5'- -uCGUUAGCGCGUCGuaGUCGCGCUcGCAc -3'
miRNA:   3'- gcGCGGUUGUGCGGU--UAGCGCGA-CGU- -5'
33160 3' -57.1 NC_007497.1 + 16660 0.71 0.283113
Target:  5'- uGCGCUAcgccgggaGCGCGCCGcUCGCGUgaccGCGu -3'
miRNA:   3'- gCGCGGU--------UGUGCGGUuAGCGCGa---CGU- -5'
33160 3' -57.1 NC_007497.1 + 3567 0.71 0.290396
Target:  5'- uGCGCCucgAGCugGCCGuUCGCGa-GCAu -3'
miRNA:   3'- gCGCGG---UUGugCGGUuAGCGCgaCGU- -5'
33160 3' -57.1 NC_007497.1 + 6249 0.7 0.297825
Target:  5'- uCGCGcCCGACAUGCCGagccGUgGCGCcaGCGa -3'
miRNA:   3'- -GCGC-GGUUGUGCGGU----UAgCGCGa-CGU- -5'
33160 3' -57.1 NC_007497.1 + 38536 0.7 0.304636
Target:  5'- gGCGCCAcggcucgGCAUGUCGggCGCgauGCUGCGa -3'
miRNA:   3'- gCGCGGU-------UGUGCGGUuaGCG---CGACGU- -5'
33160 3' -57.1 NC_007497.1 + 11359 0.7 0.313122
Target:  5'- gGCGUCAAUGCGCC---UGCGCUGg- -3'
miRNA:   3'- gCGCGGUUGUGCGGuuaGCGCGACgu -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.