miRNA display CGI


Results 1 - 20 of 39 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
12682 3' -45.8 NC_003345.1 + 2431 0.66 0.999076
Target:  5'- gGGAAC-CCA--UCGUCccaguaguggcaAGUAAAGGCCg -3'
miRNA:   3'- -UCUUGcGGUagAGCAG------------UUAUUUCUGG- -5'
12682 3' -45.8 NC_003345.1 + 3329 0.67 0.998855
Target:  5'- --uGCGCUucucgauuucCUCGUCAGUAAGG-CCg -3'
miRNA:   3'- ucuUGCGGua--------GAGCAGUUAUUUCuGG- -5'
12682 3' -45.8 NC_003345.1 + 9426 0.67 0.998855
Target:  5'- uAGAA-GCCGUUaUCG-CAAUGGuAGACCa -3'
miRNA:   3'- -UCUUgCGGUAG-AGCaGUUAUU-UCUGG- -5'
12682 3' -45.8 NC_003345.1 + 10933 0.68 0.99401
Target:  5'- cAGGACucgcccuCCGUCUCGUCGGggAGGGAgCa -3'
miRNA:   3'- -UCUUGc------GGUAGAGCAGUUa-UUUCUgG- -5'
12682 3' -45.8 NC_003345.1 + 11204 0.67 0.997906
Target:  5'- cGAACuUCGUUgaaCGUCAcgAUGAAGACCc -3'
miRNA:   3'- uCUUGcGGUAGa--GCAGU--UAUUUCUGG- -5'
12682 3' -45.8 NC_003345.1 + 11564 0.67 0.998562
Target:  5'- cGAACaCCAUCgUCGgcUCGAUGAguggggacggcgaAGACCg -3'
miRNA:   3'- uCUUGcGGUAG-AGC--AGUUAUU-------------UCUGG- -5'
12682 3' -45.8 NC_003345.1 + 14225 0.68 0.99401
Target:  5'- uGAACGUCGUgUCG-CAAUcgGGGCa -3'
miRNA:   3'- uCUUGCGGUAgAGCaGUUAuuUCUGg -5'
12682 3' -45.8 NC_003345.1 + 14238 0.71 0.976457
Target:  5'- cAGAAcCGCC-UCUUGacuUCGAUGAAGugCu -3'
miRNA:   3'- -UCUU-GCGGuAGAGC---AGUUAUUUCugG- -5'
12682 3' -45.8 NC_003345.1 + 21057 0.66 0.99941
Target:  5'- --uACGCCuucAUCUCGuUCAAgauuGGCCg -3'
miRNA:   3'- ucuUGCGG---UAGAGC-AGUUauuuCUGG- -5'
12682 3' -45.8 NC_003345.1 + 21334 0.8 0.625913
Target:  5'- cGGAGCGCCGUUgUCGUCGGUGgcGAaCCa -3'
miRNA:   3'- -UCUUGCGGUAG-AGCAGUUAUuuCU-GG- -5'
12682 3' -45.8 NC_003345.1 + 21831 0.7 0.985678
Target:  5'- gAGAACGUCGaacagCUCGUCGcugGUGAAGucggugacGCCg -3'
miRNA:   3'- -UCUUGCGGUa----GAGCAGU---UAUUUC--------UGG- -5'
12682 3' -45.8 NC_003345.1 + 22188 0.68 0.99401
Target:  5'- cGGGGuCGCCGuUCUCGUC-GUGGGGAa- -3'
miRNA:   3'- -UCUU-GCGGU-AGAGCAGuUAUUUCUgg -5'
12682 3' -45.8 NC_003345.1 + 23247 0.68 0.994905
Target:  5'- gAGAGuCGCCGUCUCcgcUCGGUcggGGAGAgCg -3'
miRNA:   3'- -UCUU-GCGGUAGAGc--AGUUA---UUUCUgG- -5'
12682 3' -45.8 NC_003345.1 + 24173 0.7 0.985678
Target:  5'- gGGAACGUCGaa--GUCGAUGAAGAUa -3'
miRNA:   3'- -UCUUGCGGUagagCAGUUAUUUCUGg -5'
12682 3' -45.8 NC_003345.1 + 24648 0.71 0.97359
Target:  5'- cGAGCGCCGUggUUCGgug--AAAGACCc -3'
miRNA:   3'- uCUUGCGGUA--GAGCaguuaUUUCUGG- -5'
12682 3' -45.8 NC_003345.1 + 26308 0.68 0.99637
Target:  5'- uGAACGUCGUagagccaCGUCAGcgGGAGACUg -3'
miRNA:   3'- uCUUGCGGUAga-----GCAGUUa-UUUCUGG- -5'
12682 3' -45.8 NC_003345.1 + 31336 0.67 0.99747
Target:  5'- cGAACGuCCAgCUUGUCGcaccgauaAUGAAGuCCg -3'
miRNA:   3'- uCUUGC-GGUaGAGCAGU--------UAUUUCuGG- -5'
12682 3' -45.8 NC_003345.1 + 36796 0.67 0.998277
Target:  5'- cGGAACGUccuucucaauCAUCUCGaug--AGAGGCCa -3'
miRNA:   3'- -UCUUGCG----------GUAGAGCaguuaUUUCUGG- -5'
12682 3' -45.8 NC_003345.1 + 39504 0.7 0.983895
Target:  5'- gGGAGCGCCGUCgaacaaaucugguaGUCAAaGAGcuucGACCg -3'
miRNA:   3'- -UCUUGCGGUAGag------------CAGUUaUUU----CUGG- -5'
12682 3' -45.8 NC_003345.1 + 45036 0.67 0.998855
Target:  5'- uGGAACaGCuCAUCgagUCGUUugaaGAAGACCg -3'
miRNA:   3'- -UCUUG-CG-GUAG---AGCAGuua-UUUCUGG- -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.