miRNA display CGI


Results 1 - 20 of 31 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
7293 3' -53.4 NC_001900.1 + 12354 1.11 0.001063
Target:  5'- gCGCCCCACAAGAUCGCGACGAUCUUCg -3'
miRNA:   3'- -GCGGGGUGUUCUAGCGCUGCUAGAAG- -5'
7293 3' -53.4 NC_001900.1 + 43420 0.78 0.187198
Target:  5'- aGCCCCAuCAGGAUCGCcAgGAUCUUg -3'
miRNA:   3'- gCGGGGU-GUUCUAGCGcUgCUAGAAg -5'
7293 3' -53.4 NC_001900.1 + 27124 0.75 0.286457
Target:  5'- aGCCUCACGGGcucAUCGCGAUGGUgaUCg -3'
miRNA:   3'- gCGGGGUGUUC---UAGCGCUGCUAgaAG- -5'
7293 3' -53.4 NC_001900.1 + 9164 0.72 0.439442
Target:  5'- aGCCCCGCuccccggacaggagGAGAUCGCugauccGGCGAUCg-- -3'
miRNA:   3'- gCGGGGUG--------------UUCUAGCG------CUGCUAGaag -5'
7293 3' -53.4 NC_001900.1 + 25735 0.72 0.462512
Target:  5'- cCGCCUCAC---GUCGCGGCGAUgaUCc -3'
miRNA:   3'- -GCGGGGUGuucUAGCGCUGCUAgaAG- -5'
7293 3' -53.4 NC_001900.1 + 2696 0.71 0.504077
Target:  5'- gGCCCCAUcGGAaagCGCGACGAa---- -3'
miRNA:   3'- gCGGGGUGuUCUa--GCGCUGCUagaag -5'
7293 3' -53.4 NC_001900.1 + 29419 0.71 0.500902
Target:  5'- gCGCCCCaguuggccuucucaGCGGGcagagaCGCGACGAUCUcgUCg -3'
miRNA:   3'- -GCGGGG--------------UGUUCua----GCGCUGCUAGA--AG- -5'
7293 3' -53.4 NC_001900.1 + 36748 0.71 0.472739
Target:  5'- aGCUCCAgCGAGGUcCGUGA-GGUCUUCg -3'
miRNA:   3'- gCGGGGU-GUUCUA-GCGCUgCUAGAAG- -5'
7293 3' -53.4 NC_001900.1 + 4998 0.71 0.504077
Target:  5'- uCGCCUgAaccCGAGGUCGUaGACGAUCUUg -3'
miRNA:   3'- -GCGGGgU---GUUCUAGCG-CUGCUAGAAg -5'
7293 3' -53.4 NC_001900.1 + 16295 0.7 0.580251
Target:  5'- aCGCUCCGCGuAGAaCGCGcCuGUCUUCg -3'
miRNA:   3'- -GCGGGGUGU-UCUaGCGCuGcUAGAAG- -5'
7293 3' -53.4 NC_001900.1 + 5762 0.7 0.53628
Target:  5'- gCGCgugaCCGuuuCGAGGUCGCGGCGGUCg-- -3'
miRNA:   3'- -GCGg---GGU---GUUCUAGCGCUGCUAGaag -5'
7293 3' -53.4 NC_001900.1 + 7823 0.7 0.558143
Target:  5'- gCGCCCCGCAgcguGGAucaccgUCGCGGCcGUCa-- -3'
miRNA:   3'- -GCGGGGUGU----UCU------AGCGCUGcUAGaag -5'
7293 3' -53.4 NC_001900.1 + 12441 0.69 0.636138
Target:  5'- cCGCagacgCCACgAAGAUCGUcGCGAUCUUg -3'
miRNA:   3'- -GCGg----GGUG-UUCUAGCGcUGCUAGAAg -5'
7293 3' -53.4 NC_001900.1 + 28091 0.69 0.591376
Target:  5'- aGCa--GCAGGAcUGCGAUGGUCUUCa -3'
miRNA:   3'- gCGgggUGUUCUaGCGCUGCUAGAAG- -5'
7293 3' -53.4 NC_001900.1 + 38532 0.68 0.669704
Target:  5'- aGCUgUGCGGGAUCcCGACGGUCggCg -3'
miRNA:   3'- gCGGgGUGUUCUAGcGCUGCUAGaaG- -5'
7293 3' -53.4 NC_001900.1 + 15911 0.68 0.647345
Target:  5'- uCGCUCCGCAuuugcgAGAUCGuCGccaaGGUCUUCc -3'
miRNA:   3'- -GCGGGGUGU------UCUAGC-GCug--CUAGAAG- -5'
7293 3' -53.4 NC_001900.1 + 30292 0.68 0.657419
Target:  5'- aCGCCuCCGCGAcauccucGGUCGCGuuGAcCUUCu -3'
miRNA:   3'- -GCGG-GGUGUU-------CUAGCGCugCUaGAAG- -5'
7293 3' -53.4 NC_001900.1 + 3949 0.68 0.669704
Target:  5'- cCGCCuCCACGGcGAaCGCGGcCGGUCUc- -3'
miRNA:   3'- -GCGG-GGUGUU-CUaGCGCU-GCUAGAag -5'
7293 3' -53.4 NC_001900.1 + 15214 0.68 0.691916
Target:  5'- aGCUCCGCGAGAUCaccacCGAgGAUCcgaUCg -3'
miRNA:   3'- gCGGGGUGUUCUAGc----GCUgCUAGa--AG- -5'
7293 3' -53.4 NC_001900.1 + 15412 0.67 0.74619
Target:  5'- aCG-CCCACAAGGccgguguccgUCGCGACGAc---- -3'
miRNA:   3'- -GCgGGGUGUUCU----------AGCGCUGCUagaag -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.