miRNA display CGI


Results 1 - 20 of 50 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
12376 3' -57.9 NC_003324.1 + 14592 0.68 0.452804
Target:  5'- aAGCGGCcGGCGGcgCAGGCgGUaGCgugGCg -3'
miRNA:   3'- -UCGCUG-CUGCUa-GUCCGgCGaCGa--CG- -5'
12376 3' -57.9 NC_003324.1 + 30411 0.7 0.353667
Target:  5'- --gGACGGCuuccGAUUGGGCCaGCUGCUcGCg -3'
miRNA:   3'- ucgCUGCUG----CUAGUCCGG-CGACGA-CG- -5'
12376 3' -57.9 NC_003324.1 + 9165 0.69 0.376541
Target:  5'- uAGCGGucgauaacaaUGGCGAUCggaucgucguguuuAGGaCCGCUGCUGg -3'
miRNA:   3'- -UCGCU----------GCUGCUAG--------------UCC-GGCGACGACg -5'
12376 3' -57.9 NC_003324.1 + 48068 0.69 0.395902
Target:  5'- cGGCGAUGAuCGAUCGcuucaugaggaucGcGCCgacgugGCUGCUGCu -3'
miRNA:   3'- -UCGCUGCU-GCUAGU-------------C-CGG------CGACGACG- -5'
12376 3' -57.9 NC_003324.1 + 30523 0.69 0.414972
Target:  5'- cGUGGCGACcuUCGcuGCCGCUGCcGCu -3'
miRNA:   3'- uCGCUGCUGcuAGUc-CGGCGACGaCG- -5'
12376 3' -57.9 NC_003324.1 + 31071 0.69 0.418668
Target:  5'- uGCGACGGCcugauuguccgugccGGUCcuugcGGCaaugCGCUGCUGCu -3'
miRNA:   3'- uCGCUGCUG---------------CUAGu----CCG----GCGACGACG- -5'
12376 3' -57.9 NC_003324.1 + 40966 0.69 0.424249
Target:  5'- cAGCGuuCGuugaaguCGAUCGGGCCGCaUGCg-- -3'
miRNA:   3'- -UCGCu-GCu------GCUAGUCCGGCG-ACGacg -5'
12376 3' -57.9 NC_003324.1 + 51421 0.68 0.433648
Target:  5'- cGCGGCGAcCGGauUUGGGUgcgcgagaaCGCUGCUGUc -3'
miRNA:   3'- uCGCUGCU-GCU--AGUCCG---------GCGACGACG- -5'
12376 3' -57.9 NC_003324.1 + 35030 0.68 0.442211
Target:  5'- cAGCGGCGGCGG-CAGcagcggccugaucGUCGUcGCUGCc -3'
miRNA:   3'- -UCGCUGCUGCUaGUC-------------CGGCGaCGACG- -5'
12376 3' -57.9 NC_003324.1 + 26161 0.71 0.324726
Target:  5'- uGGCGGCcugcaucauucugucGGCGGUCucGCUGCgggGCUGCg -3'
miRNA:   3'- -UCGCUG---------------CUGCUAGucCGGCGa--CGACG- -5'
12376 3' -57.9 NC_003324.1 + 35310 0.71 0.313956
Target:  5'- cGCGcCGGCgGAUUGcGCCgGCUGCUGCg -3'
miRNA:   3'- uCGCuGCUG-CUAGUcCGG-CGACGACG- -5'
12376 3' -57.9 NC_003324.1 + 29892 0.71 0.313956
Target:  5'- -aCGGCG-CGAUCuucGGCgCGCUGCUGg -3'
miRNA:   3'- ucGCUGCuGCUAGu--CCG-GCGACGACg -5'
12376 3' -57.9 NC_003324.1 + 24001 0.77 0.126069
Target:  5'- uGGUagGGCGGCGGUaGGGCUGCUGCgUGCg -3'
miRNA:   3'- -UCG--CUGCUGCUAgUCCGGCGACG-ACG- -5'
12376 3' -57.9 NC_003324.1 + 29460 0.75 0.174458
Target:  5'- -uCGACGAUGA-CAcGGCCGCcugGCUGCg -3'
miRNA:   3'- ucGCUGCUGCUaGU-CCGGCGa--CGACG- -5'
12376 3' -57.9 NC_003324.1 + 35483 0.73 0.23872
Target:  5'- uGGgGACGGCGAUC--GCCGUaccgGCUGCu -3'
miRNA:   3'- -UCgCUGCUGCUAGucCGGCGa---CGACG- -5'
12376 3' -57.9 NC_003324.1 + 5098 0.73 0.244886
Target:  5'- cGCGAuCGACGAUCuGcGCCGCUuuuucCUGCc -3'
miRNA:   3'- uCGCU-GCUGCUAGuC-CGGCGAc----GACG- -5'
12376 3' -57.9 NC_003324.1 + 47631 0.72 0.257614
Target:  5'- -aUGACGGCGAcCGGGCCGCcaucgucgaGCUGUg -3'
miRNA:   3'- ucGCUGCUGCUaGUCCGGCGa--------CGACG- -5'
12376 3' -57.9 NC_003324.1 + 44826 0.72 0.270878
Target:  5'- aGGgGGCGGCG-UCAuuGGCgugccCGCUGCUGCc -3'
miRNA:   3'- -UCgCUGCUGCuAGU--CCG-----GCGACGACG- -5'
12376 3' -57.9 NC_003324.1 + 30315 0.71 0.299044
Target:  5'- uAGCGACGccggaGAUCaggaAGGCCuGCgaUGCUGCa -3'
miRNA:   3'- -UCGCUGCug---CUAG----UCCGG-CG--ACGACG- -5'
12376 3' -57.9 NC_003324.1 + 48168 0.71 0.299044
Target:  5'- cAGCGACGugGucccuAUC-GGCCGCguucGCUGg -3'
miRNA:   3'- -UCGCUGCugC-----UAGuCCGGCGa---CGACg -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.