miRNA display CGI


Results 1 - 20 of 22 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
11546 5' -53.3 NC_003085.1 + 14909 0.66 0.803129
Target:  5'- aGGAGUugcGCAcCGGCcgCCAGC-GCGUGGc -3'
miRNA:   3'- -CUUCA---CGUcGCUGa-GGUUGaCGCACC- -5'
11546 5' -53.3 NC_003085.1 + 28149 0.66 0.793221
Target:  5'- uGAAG-GCGGacaggaGACUCCAcugcACUgGCGUGa -3'
miRNA:   3'- -CUUCaCGUCg-----CUGAGGU----UGA-CGCACc -5'
11546 5' -53.3 NC_003085.1 + 19796 0.66 0.783137
Target:  5'- ---aUGCGGCuACgcaCCGGCgGCGUGGa -3'
miRNA:   3'- cuucACGUCGcUGa--GGUUGaCGCACC- -5'
11546 5' -53.3 NC_003085.1 + 32128 0.66 0.783137
Target:  5'- -cGGUGguGCGACgggggCGGCUG-GUGGc -3'
miRNA:   3'- cuUCACguCGCUGag---GUUGACgCACC- -5'
11546 5' -53.3 NC_003085.1 + 44067 0.66 0.772888
Target:  5'- cGAGUGCGGgaguuggaGGCggaCAACgcgGCGUGGg -3'
miRNA:   3'- cUUCACGUCg-------CUGag-GUUGa--CGCACC- -5'
11546 5' -53.3 NC_003085.1 + 22023 0.66 0.762486
Target:  5'- ---aUGgAGCGuCUCUGGcCUGCGUGGc -3'
miRNA:   3'- cuucACgUCGCuGAGGUU-GACGCACC- -5'
11546 5' -53.3 NC_003085.1 + 10595 0.67 0.727229
Target:  5'- cGAG-GCAGCccaggcugaGACauggccaaugcaccUCCGGCUGUGUGGg -3'
miRNA:   3'- cUUCaCGUCG---------CUG--------------AGGUUGACGCACC- -5'
11546 5' -53.3 NC_003085.1 + 13789 0.67 0.719595
Target:  5'- cAAG-GCGagcGUGACgCCAGuCUGCGUGGa -3'
miRNA:   3'- cUUCaCGU---CGCUGaGGUU-GACGCACC- -5'
11546 5' -53.3 NC_003085.1 + 18815 0.67 0.719595
Target:  5'- ----aGCGGCGGCUUCGgcauGCUGCGcaGGa -3'
miRNA:   3'- cuucaCGUCGCUGAGGU----UGACGCa-CC- -5'
11546 5' -53.3 NC_003085.1 + 6005 0.67 0.697554
Target:  5'- ----cGCGGCGugUCCGuCUuCGUGGu -3'
miRNA:   3'- cuucaCGUCGCugAGGUuGAcGCACC- -5'
11546 5' -53.3 NC_003085.1 + 6651 0.68 0.675246
Target:  5'- aAGGUGCuGGCGuC-CCAACU-CGUGGa -3'
miRNA:   3'- cUUCACG-UCGCuGaGGUUGAcGCACC- -5'
11546 5' -53.3 NC_003085.1 + 45996 0.68 0.675246
Target:  5'- ----cGUGGCGACUCUGGCUGCcucucUGGg -3'
miRNA:   3'- cuucaCGUCGCUGAGGUUGACGc----ACC- -5'
11546 5' -53.3 NC_003085.1 + 20707 0.68 0.664022
Target:  5'- aGAAG-GaCAGCGACaccuUCCAGCagGCGcUGGa -3'
miRNA:   3'- -CUUCaC-GUCGCUG----AGGUUGa-CGC-ACC- -5'
11546 5' -53.3 NC_003085.1 + 2160 0.68 0.664022
Target:  5'- cGAGGUGCGGCGGCUgC-GCUcgucGCGUc- -3'
miRNA:   3'- -CUUCACGUCGCUGAgGuUGA----CGCAcc -5'
11546 5' -53.3 NC_003085.1 + 22890 0.68 0.652766
Target:  5'- aGGAGccUGguGCGACUCCGGCggagGCugccgGGg -3'
miRNA:   3'- -CUUC--ACguCGCUGAGGUUGa---CGca---CC- -5'
11546 5' -53.3 NC_003085.1 + 14384 0.69 0.606527
Target:  5'- -cGGUGCcgucuGGCGACUCUuacugagGGCUGCGcGGc -3'
miRNA:   3'- cuUCACG-----UCGCUGAGG-------UUGACGCaCC- -5'
11546 5' -53.3 NC_003085.1 + 34631 0.7 0.562887
Target:  5'- --uGUGCGGCGcACgcgggCCGGCUG-GUGGc -3'
miRNA:   3'- cuuCACGUCGC-UGa----GGUUGACgCACC- -5'
11546 5' -53.3 NC_003085.1 + 43042 0.71 0.508299
Target:  5'- --cGUGUcgAGCGGC-CCGcuggggaacgGCUGCGUGGa -3'
miRNA:   3'- cuuCACG--UCGCUGaGGU----------UGACGCACC- -5'
11546 5' -53.3 NC_003085.1 + 23763 0.71 0.497639
Target:  5'- gGAGGcUGCuGCG-CgggCCcGCUGCGUGGa -3'
miRNA:   3'- -CUUC-ACGuCGCuGa--GGuUGACGCACC- -5'
11546 5' -53.3 NC_003085.1 + 41898 0.77 0.221318
Target:  5'- ----cGCAGCGACUCCAGCgcaucucggGCGUGu -3'
miRNA:   3'- cuucaCGUCGCUGAGGUUGa--------CGCACc -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.