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 + 75217 0.66 0.999533
Target:  5'- gAGGACgGUCAgCUCGUCcgagaGGAGACUg -3'
miRNA:   3'- -UCUUG-CGGUaGAGCAGuua--UUUCUGG- -5'
12682 3' -45.8 NC_003345.1 + 48978 0.66 0.999533
Target:  5'- aGGAACGUUcUCUCGUCuaAAUAAucucGugCg -3'
miRNA:   3'- -UCUUGCGGuAGAGCAG--UUAUUu---CugG- -5'
12682 3' -45.8 NC_003345.1 + 71371 0.66 0.999533
Target:  5'- cGAGCGU--UCUCGaaacaaccgcgcUCAGgugGAAGACCu -3'
miRNA:   3'- uCUUGCGguAGAGC------------AGUUa--UUUCUGG- -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 + 66577 0.66 0.999259
Target:  5'- -cGACGCCGUaucCUCGUCAAgcccGuCCg -3'
miRNA:   3'- ucUUGCGGUA---GAGCAGUUauuuCuGG- -5'
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 + 45036 0.67 0.998855
Target:  5'- uGGAACaGCuCAUCgagUCGUUugaaGAAGACCg -3'
miRNA:   3'- -UCUUG-CG-GUAG---AGCAGuua-UUUCUGG- -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 + 60491 0.67 0.998855
Target:  5'- gAGAAgGCCGUCaccaagCGUCuccgAAAGAgCa -3'
miRNA:   3'- -UCUUgCGGUAGa-----GCAGuua-UUUCUgG- -5'
12682 3' -45.8 NC_003345.1 + 75341 0.67 0.998855
Target:  5'- gGGAAcCGCaCAUUg-GUCGGUcAAGACCu -3'
miRNA:   3'- -UCUU-GCG-GUAGagCAGUUAuUUCUGG- -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 + 71268 0.67 0.99883
Target:  5'- uGAGCGCgGUuguuucgagaacgCUCGUCGGUucGGGCg -3'
miRNA:   3'- uCUUGCGgUA-------------GAGCAGUUAuuUCUGg -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 + 36796 0.67 0.998277
Target:  5'- cGGAACGUccuucucaauCAUCUCGaug--AGAGGCCa -3'
miRNA:   3'- -UCUUGCG----------GUAGAGCaguuaUUUCUGG- -5'
12682 3' -45.8 NC_003345.1 + 72303 0.67 0.997906
Target:  5'- --uGCGUCGUCgUCGUCG----GGGCCa -3'
miRNA:   3'- ucuUGCGGUAG-AGCAGUuauuUCUGG- -5'
12682 3' -45.8 NC_003345.1 + 53035 0.67 0.997906
Target:  5'- cGAugGCGaCCAUcCUCGggugCGAgguUGAAGACCu -3'
miRNA:   3'- uCU--UGC-GGUA-GAGCa---GUU---AUUUCUGG- -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 + 31336 0.67 0.99747
Target:  5'- cGAACGuCCAgCUUGUCGcaccgauaAUGAAGuCCg -3'
miRNA:   3'- uCUUGC-GGUaGAGCAGU--------UAUUUCuGG- -5'
12682 3' -45.8 NC_003345.1 + 63273 0.68 0.99637
Target:  5'- cGAGCGUagcCcCGUCGaugGUAAAGACCa -3'
miRNA:   3'- uCUUGCGguaGaGCAGU---UAUUUCUGG- -5'
12682 3' -45.8 NC_003345.1 + 26308 0.68 0.99637
Target:  5'- uGAACGUCGUagagccaCGUCAGcgGGAGACUg -3'
miRNA:   3'- uCUUGCGGUAga-----GCAGUUa-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.