miRNA display CGI


Results 1 - 20 of 26 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
17189 3' -57 NC_004333.2 + 37696 0.66 0.590536
Target:  5'- -cCCGGCGCGUgGCGGcUCAauggccugcucGAUgUCGg -3'
miRNA:   3'- uuGGCCGCGCGgUGCCuAGU-----------CUA-AGC- -5'
17189 3' -57 NC_004333.2 + 38393 0.66 0.589439
Target:  5'- cGCCGGCGUgacgccgGCCACGG-UCAaGAcggCGa -3'
miRNA:   3'- uUGGCCGCG-------CGGUGCCuAGU-CUaa-GC- -5'
17189 3' -57 NC_004333.2 + 38770 0.66 0.579595
Target:  5'- cGCCGGCG-GCUGCGGGaauuUCAGcg-CGg -3'
miRNA:   3'- uUGGCCGCgCGGUGCCU----AGUCuaaGC- -5'
17189 3' -57 NC_004333.2 + 3386 0.66 0.579595
Target:  5'- cGACCGGCGuCGCCgucgucGCGGG--AGcUUCGg -3'
miRNA:   3'- -UUGGCCGC-GCGG------UGCCUagUCuAAGC- -5'
17189 3' -57 NC_004333.2 + 22972 0.66 0.579595
Target:  5'- cGCCGGCaGCGUCGCGGuacCGG--UCGc -3'
miRNA:   3'- uUGGCCG-CGCGGUGCCua-GUCuaAGC- -5'
17189 3' -57 NC_004333.2 + 27061 0.66 0.579595
Target:  5'- cGACgGGCGuUGCCguauggauuucGCGGAUCAG-UUUGa -3'
miRNA:   3'- -UUGgCCGC-GCGG-----------UGCCUAGUCuAAGC- -5'
17189 3' -57 NC_004333.2 + 7911 0.66 0.579595
Target:  5'- uGGCCGGCGCagGCCGCGucGAUCuGGcgagCGa -3'
miRNA:   3'- -UUGGCCGCG--CGGUGC--CUAGuCUaa--GC- -5'
17189 3' -57 NC_004333.2 + 36160 0.66 0.568699
Target:  5'- uGGCUGGCGCGCagcgccgcguCACGGGcCAGcucgUCGu -3'
miRNA:   3'- -UUGGCCGCGCG----------GUGCCUaGUCua--AGC- -5'
17189 3' -57 NC_004333.2 + 40024 0.66 0.557854
Target:  5'- gAACuCGcGCgGCGCCACGGcgCGGAcgccUCGc -3'
miRNA:   3'- -UUG-GC-CG-CGCGGUGCCuaGUCUa---AGC- -5'
17189 3' -57 NC_004333.2 + 30294 0.66 0.557854
Target:  5'- cGCgCGGCGCGCgAUcGAUCAGGcagCGg -3'
miRNA:   3'- uUG-GCCGCGCGgUGcCUAGUCUaa-GC- -5'
17189 3' -57 NC_004333.2 + 30230 0.67 0.53635
Target:  5'- cGAUCGaCGCGCCGCGcgcGAUCAGugcGUUCa -3'
miRNA:   3'- -UUGGCcGCGCGGUGC---CUAGUC---UAAGc -5'
17189 3' -57 NC_004333.2 + 33464 0.67 0.53635
Target:  5'- --gCGGCGCGCCGgGcGAUcCAGAgUUGa -3'
miRNA:   3'- uugGCCGCGCGGUgC-CUA-GUCUaAGC- -5'
17189 3' -57 NC_004333.2 + 11041 0.67 0.525706
Target:  5'- cGCCaaGCGCGCC-CGGGUCGaAUUCu -3'
miRNA:   3'- uUGGc-CGCGCGGuGCCUAGUcUAAGc -5'
17189 3' -57 NC_004333.2 + 25952 0.67 0.508846
Target:  5'- uGCCGGCG-GCCAguacgcggcgcUGGAaaggccaaugcucauUCGGGUUCGg -3'
miRNA:   3'- uUGGCCGCgCGGU-----------GCCU---------------AGUCUAAGC- -5'
17189 3' -57 NC_004333.2 + 20942 0.67 0.483998
Target:  5'- -cCCGGCGgcuaCGCCACGGGcCGGAcgCa -3'
miRNA:   3'- uuGGCCGC----GCGGUGCCUaGUCUaaGc -5'
17189 3' -57 NC_004333.2 + 28863 0.67 0.480933
Target:  5'- uAGCCGGCGCgcucaagcgcucguGCCGCGcGAUCGcgcUCGg -3'
miRNA:   3'- -UUGGCCGCG--------------CGGUGC-CUAGUcuaAGC- -5'
17189 3' -57 NC_004333.2 + 24598 0.68 0.47686
Target:  5'- cGCCGGUcggauuugcgcucGUGCCgaugaaaauguucacAgGGAUCAGGUUCGg -3'
miRNA:   3'- uUGGCCG-------------CGCGG---------------UgCCUAGUCUAAGC- -5'
17189 3' -57 NC_004333.2 + 33003 0.68 0.463744
Target:  5'- -uCCGGCGauacCGCUAUcgGGAUCGGcgUCGa -3'
miRNA:   3'- uuGGCCGC----GCGGUG--CCUAGUCuaAGC- -5'
17189 3' -57 NC_004333.2 + 33523 0.68 0.451807
Target:  5'- -cCCGGCGCGCCGCugccaaugcugccGGAcUCGcggcuacGGUUCGg -3'
miRNA:   3'- uuGGCCGCGCGGUG-------------CCU-AGU-------CUAAGC- -5'
17189 3' -57 NC_004333.2 + 20532 0.68 0.424626
Target:  5'- uAACCGGCuGCGUCAcgacCGGcgCAGGcUUCGc -3'
miRNA:   3'- -UUGGCCG-CGCGGU----GCCuaGUCU-AAGC- -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.