miRNA display CGI


Results 1 - 20 of 31 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
12268 3' -55.4 NC_003309.1 + 16754 0.66 0.712764
Target:  5'- -cGUCGCGCGCcgacgucaggaacGCGCGGaagccCGGaaUCAGCa -3'
miRNA:   3'- cuUAGUGCGCG-------------CGCGCU-----GCU--AGUCGa -5'
12268 3' -55.4 NC_003309.1 + 20302 0.66 0.70304
Target:  5'- cGAUCAuCGCGUuCGUGAuccagcccgcacCGAUCAGCg -3'
miRNA:   3'- cUUAGU-GCGCGcGCGCU------------GCUAGUCGa -5'
12268 3' -55.4 NC_003309.1 + 31706 0.66 0.70304
Target:  5'- -uGUCugGCuCgGCGCGACGAUC-GUg -3'
miRNA:   3'- cuUAGugCGcG-CGCGCUGCUAGuCGa -5'
12268 3' -55.4 NC_003309.1 + 10474 0.66 0.692169
Target:  5'- -cAUCGCGCGCaUGCcGCGAguUCGGCc -3'
miRNA:   3'- cuUAGUGCGCGcGCGcUGCU--AGUCGa -5'
12268 3' -55.4 NC_003309.1 + 36357 0.66 0.68124
Target:  5'- aGGUCgACGCGCaguugaaCGCGACGAUCGaaacGCa -3'
miRNA:   3'- cUUAG-UGCGCGc------GCGCUGCUAGU----CGa -5'
12268 3' -55.4 NC_003309.1 + 16539 0.66 0.659251
Target:  5'- ---aCAC-CGCGCGCGuCGAUaGGCg -3'
miRNA:   3'- cuuaGUGcGCGCGCGCuGCUAgUCGa -5'
12268 3' -55.4 NC_003309.1 + 37331 0.67 0.648213
Target:  5'- aGAUCACGgGCgucuaccuGCGCG-CGAUCGuGCg -3'
miRNA:   3'- cUUAGUGCgCG--------CGCGCuGCUAGU-CGa -5'
12268 3' -55.4 NC_003309.1 + 21880 0.67 0.63716
Target:  5'- uGGAUCugGC-CGCGCGACa---AGCa -3'
miRNA:   3'- -CUUAGugCGcGCGCGCUGcuagUCGa -5'
12268 3' -55.4 NC_003309.1 + 8545 0.67 0.626103
Target:  5'- gGAGUUACGC-CGCcgGCGGCGGcacgagcuUCGGCg -3'
miRNA:   3'- -CUUAGUGCGcGCG--CGCUGCU--------AGUCGa -5'
12268 3' -55.4 NC_003309.1 + 43188 0.67 0.604014
Target:  5'- uGGUCACGUccGuCGCGCGAacCGcGUCAGCg -3'
miRNA:   3'- cUUAGUGCG--C-GCGCGCU--GC-UAGUCGa -5'
12268 3' -55.4 NC_003309.1 + 10864 0.67 0.604014
Target:  5'- --cUCGCGCGCcugcguggcaaGCGCGAC-AUCAcGCUc -3'
miRNA:   3'- cuuAGUGCGCG-----------CGCGCUGcUAGU-CGA- -5'
12268 3' -55.4 NC_003309.1 + 9651 0.68 0.571085
Target:  5'- cGAUCugGUcaCGCGUGACGAUCcgaaGGCg -3'
miRNA:   3'- cUUAGugCGc-GCGCGCUGCUAG----UCGa -5'
12268 3' -55.4 NC_003309.1 + 9697 0.68 0.571085
Target:  5'- -----gUGuCGCGCGCGAUGcgCAGCa -3'
miRNA:   3'- cuuaguGC-GCGCGCGCUGCuaGUCGa -5'
12268 3' -55.4 NC_003309.1 + 22470 0.68 0.569994
Target:  5'- ---aCGCGgcggcauCGUGCGCGGCGAUCGcacGCUg -3'
miRNA:   3'- cuuaGUGC-------GCGCGCGCUGCUAGU---CGA- -5'
12268 3' -55.4 NC_003309.1 + 35661 0.68 0.560198
Target:  5'- ---cCGCGCGagauccaGCGCGACGAccaaGGCUg -3'
miRNA:   3'- cuuaGUGCGCg------CGCGCUGCUag--UCGA- -5'
12268 3' -55.4 NC_003309.1 + 11974 0.68 0.549369
Target:  5'- ---cCGCgGCGCGCGCcGCG-UCGGCg -3'
miRNA:   3'- cuuaGUG-CGCGCGCGcUGCuAGUCGa -5'
12268 3' -55.4 NC_003309.1 + 32969 0.69 0.527917
Target:  5'- ---cCGCGCGCugaggcgcgagaGCGCGACGAcccUgAGCUg -3'
miRNA:   3'- cuuaGUGCGCG------------CGCGCUGCU---AgUCGA- -5'
12268 3' -55.4 NC_003309.1 + 12862 0.69 0.506783
Target:  5'- ---gCGCGCGCcgaaaaccGCGCGA-GGUCGGCg -3'
miRNA:   3'- cuuaGUGCGCG--------CGCGCUgCUAGUCGa -5'
12268 3' -55.4 NC_003309.1 + 26347 0.69 0.506783
Target:  5'- aGAGcgACGCGCGCaCGACGA-CGGCc -3'
miRNA:   3'- -CUUagUGCGCGCGcGCUGCUaGUCGa -5'
12268 3' -55.4 NC_003309.1 + 10047 0.7 0.430192
Target:  5'- ---cCGCGCGCgucaGCGCcucgacgagauuaccGACGGUCAGCUu -3'
miRNA:   3'- cuuaGUGCGCG----CGCG---------------CUGCUAGUCGA- -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.