miRNA display CGI


Results 1 - 20 of 27 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
389 3' -58.5 AC_000011.1 + 26684 0.66 0.426835
Target:  5'- aCUUCCgcgAGaCGCCCAGgCCGaaguCCAGCu -3'
miRNA:   3'- gGAAGGag-UC-GUGGGUCgGGC----GGUUG- -5'
389 3' -58.5 AC_000011.1 + 20726 0.66 0.426835
Target:  5'- gCUaCCUC-GCGCCCAccaugcGCCaggGCCAGCc -3'
miRNA:   3'- gGAaGGAGuCGUGGGU------CGGg--CGGUUG- -5'
389 3' -58.5 AC_000011.1 + 30364 0.66 0.426835
Target:  5'- gCUaCCUcCAGUGCCUucucuAGCaCCGCCAAUc -3'
miRNA:   3'- gGAaGGA-GUCGUGGG-----UCG-GGCGGUUG- -5'
389 3' -58.5 AC_000011.1 + 34198 0.66 0.42105
Target:  5'- --aUCCUgcggaaccacagggcCAGCaccGCCCcGCCCGCCAuGCa -3'
miRNA:   3'- ggaAGGA---------------GUCG---UGGGuCGGGCGGU-UG- -5'
389 3' -58.5 AC_000011.1 + 5994 0.66 0.41722
Target:  5'- ---aCCUCGGCACUCAGgUUGUCAGu -3'
miRNA:   3'- ggaaGGAGUCGUGGGUCgGGCGGUUg -5'
389 3' -58.5 AC_000011.1 + 13520 0.66 0.398392
Target:  5'- --cUCCUCuuCGCCCAGCaagCGCgGGCg -3'
miRNA:   3'- ggaAGGAGucGUGGGUCGg--GCGgUUG- -5'
389 3' -58.5 AC_000011.1 + 23454 0.66 0.389185
Target:  5'- aCCgcCC-CGcCGCCCAGCCCcGCCAc- -3'
miRNA:   3'- -GGaaGGaGUcGUGGGUCGGG-CGGUug -5'
389 3' -58.5 AC_000011.1 + 24979 0.67 0.380118
Target:  5'- aCCUUCCgcgAGUGCCC--CCCGCCGc- -3'
miRNA:   3'- -GGAAGGag-UCGUGGGucGGGCGGUug -5'
389 3' -58.5 AC_000011.1 + 850 0.67 0.380118
Target:  5'- gCC-UCCUCGGCAgCUAGCa-GCgCGGCa -3'
miRNA:   3'- -GGaAGGAGUCGUgGGUCGggCG-GUUG- -5'
389 3' -58.5 AC_000011.1 + 20407 0.67 0.380118
Target:  5'- aCCUucgacUCCUCcGuCAgCUGGCCCGgCAACg -3'
miRNA:   3'- -GGA-----AGGAGuC-GUgGGUCGGGCgGUUG- -5'
389 3' -58.5 AC_000011.1 + 33873 0.67 0.371193
Target:  5'- aCUcCCUCAGCaugauGCCCacGGCCC-UCAGCa -3'
miRNA:   3'- gGAaGGAGUCG-----UGGG--UCGGGcGGUUG- -5'
389 3' -58.5 AC_000011.1 + 9519 0.67 0.336948
Target:  5'- --aUCgUCAGCGCCCucucCCUGcCCAACg -3'
miRNA:   3'- ggaAGgAGUCGUGGGuc--GGGC-GGUUG- -5'
389 3' -58.5 AC_000011.1 + 13334 0.68 0.328754
Target:  5'- cCCgUCCUCGGCGCuguCCGGCCgcgagggugcUGCCGcgGCg -3'
miRNA:   3'- -GGaAGGAGUCGUG---GGUCGG----------GCGGU--UG- -5'
389 3' -58.5 AC_000011.1 + 27217 0.68 0.320708
Target:  5'- ---cCCUCAGgGCCCGGCCCaCgGAg -3'
miRNA:   3'- ggaaGGAGUCgUGGGUCGGGcGgUUg -5'
389 3' -58.5 AC_000011.1 + 17779 0.68 0.320708
Target:  5'- gCCUggaCC-CGGUGCC--GCCCGCCGGCu -3'
miRNA:   3'- -GGAa--GGaGUCGUGGguCGGGCGGUUG- -5'
389 3' -58.5 AC_000011.1 + 21828 0.68 0.305062
Target:  5'- gCCgggUCUCGGCAU--GGCCCGCgGGCa -3'
miRNA:   3'- -GGaa-GGAGUCGUGggUCGGGCGgUUG- -5'
389 3' -58.5 AC_000011.1 + 11652 0.68 0.305062
Target:  5'- cCCaaaCUCAGCACCgAGaaguugauggCCGCCAGCu -3'
miRNA:   3'- -GGaagGAGUCGUGGgUCg---------GGCGGUUG- -5'
389 3' -58.5 AC_000011.1 + 15902 0.68 0.290008
Target:  5'- cCCUgcgUCC-CGuGCGCCUGGCCCuGCgCAGCa -3'
miRNA:   3'- -GGA---AGGaGU-CGUGGGUCGGG-CG-GUUG- -5'
389 3' -58.5 AC_000011.1 + 5285 0.69 0.282703
Target:  5'- aCCgcUCCcgaUCGGCGCCCuGCgCGUCGGCc -3'
miRNA:   3'- -GGa-AGG---AGUCGUGGGuCGgGCGGUUG- -5'
389 3' -58.5 AC_000011.1 + 10240 0.69 0.282703
Target:  5'- ---aCCUC-GCGCCCGGCgcccCCGCCAc- -3'
miRNA:   3'- ggaaGGAGuCGUGGGUCG----GGCGGUug -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.