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 + 23976 0.76 0.196574
Target:  5'- ----aACGCGC-CGCGACGAUCGGUg -3'
miRNA:   3'- cuuagUGCGCGcGCGCUGCUAGUCGa -5'
12268 3' -55.4 NC_003309.1 + 11767 0.75 0.230587
Target:  5'- -cGUCG-GCGCGCcCGGCGAUCAGCc -3'
miRNA:   3'- cuUAGUgCGCGCGcGCUGCUAGUCGa -5'
12268 3' -55.4 NC_003309.1 + 34504 0.73 0.305696
Target:  5'- cGAAUCGauUGCGC-CGAUGAUCGGCUg -3'
miRNA:   3'- -CUUAGUgcGCGCGcGCUGCUAGUCGA- -5'
12268 3' -55.4 NC_003309.1 + 50240 0.72 0.362554
Target:  5'- -cGUCGCGCGCGCGUGAuucacauacagcCGAgcaAGCa -3'
miRNA:   3'- cuUAGUGCGCGCGCGCU------------GCUag-UCGa -5'
12268 3' -55.4 NC_003309.1 + 16925 0.72 0.371252
Target:  5'- cGAUCGCGC-CGacaGCGACGAgugCGGCg -3'
miRNA:   3'- cUUAGUGCGcGCg--CGCUGCUa--GUCGa -5'
12268 3' -55.4 NC_003309.1 + 45882 0.71 0.379202
Target:  5'- --cUCGCGCGCGUugaucacGCGGCGA-CGGCc -3'
miRNA:   3'- cuuAGUGCGCGCG-------CGCUGCUaGUCGa -5'
12268 3' -55.4 NC_003309.1 + 17533 0.71 0.379202
Target:  5'- uGGAUCugGCGCacccacgGCGCGuCGGacgUCAGCg -3'
miRNA:   3'- -CUUAGugCGCG-------CGCGCuGCU---AGUCGa -5'
12268 3' -55.4 NC_003309.1 + 5563 0.71 0.39819
Target:  5'- --uUCGCGCGCGCcgaucGCGGCGGUgAGg- -3'
miRNA:   3'- cuuAGUGCGCGCG-----CGCUGCUAgUCga -5'
12268 3' -55.4 NC_003309.1 + 4662 0.71 0.39819
Target:  5'- ----gGCGCGCauucGCGCcuuGACGAUCGGCUc -3'
miRNA:   3'- cuuagUGCGCG----CGCG---CUGCUAGUCGA- -5'
12268 3' -55.4 NC_003309.1 + 13639 0.71 0.407444
Target:  5'- aGAGUC-CGCGgGCGCGaaGCGG-CGGCg -3'
miRNA:   3'- -CUUAGuGCGCgCGCGC--UGCUaGUCGa -5'
12268 3' -55.4 NC_003309.1 + 3302 0.71 0.407444
Target:  5'- ----aAgGCGCaGCGCGuCGAUCAGCg -3'
miRNA:   3'- cuuagUgCGCG-CGCGCuGCUAGUCGa -5'
12268 3' -55.4 NC_003309.1 + 10047 0.7 0.430192
Target:  5'- ---cCGCGCGCgucaGCGCcucgacgagauuaccGACGGUCAGCUu -3'
miRNA:   3'- cuuaGUGCGCG----CGCG---------------CUGCUAGUCGA- -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 + 12862 0.69 0.506783
Target:  5'- ---gCGCGCGCcgaaaaccGCGCGA-GGUCGGCg -3'
miRNA:   3'- cuuaGUGCGCG--------CGCGCUgCUAGUCGa -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 + 11974 0.68 0.549369
Target:  5'- ---cCGCgGCGCGCGCcGCG-UCGGCg -3'
miRNA:   3'- cuuaGUG-CGCGCGCGcUGCuAGUCGa -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 + 22470 0.68 0.569994
Target:  5'- ---aCGCGgcggcauCGUGCGCGGCGAUCGcacGCUg -3'
miRNA:   3'- cuuaGUGC-------GCGCGCGCUGCUAGU---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' 
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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.