miRNA display CGI


Results 1 - 20 of 24 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
2928 3' -51.8 NC_001493.1 + 31467 0.66 0.98657
Target:  5'- cGUGCgGGAUGGGUCccauaCGGAAgcCGGUCAa -3'
miRNA:   3'- -UAUG-CCUGCUCAGc----GCUUUa-GCCAGU- -5'
2928 3' -51.8 NC_001493.1 + 23599 0.66 0.984823
Target:  5'- -gACGGuCGGGUugugCGCGGccuUCGGUCc -3'
miRNA:   3'- uaUGCCuGCUCA----GCGCUuu-AGCCAGu -5'
2928 3' -51.8 NC_001493.1 + 39498 0.66 0.980818
Target:  5'- -cGCGGACgGAGcUCGUGA--UCGaGUCGu -3'
miRNA:   3'- uaUGCCUG-CUC-AGCGCUuuAGC-CAGU- -5'
2928 3' -51.8 NC_001493.1 + 61505 0.66 0.978542
Target:  5'- -gAUGGACuGGGUCGCGGGAcucCGGg-- -3'
miRNA:   3'- uaUGCCUG-CUCAGCGCUUUa--GCCagu -5'
2928 3' -51.8 NC_001493.1 + 82287 0.66 0.978542
Target:  5'- -gAUGGACaccGGUCGCGAgauaAAUCGGaUCu -3'
miRNA:   3'- uaUGCCUGc--UCAGCGCU----UUAGCC-AGu -5'
2928 3' -51.8 NC_001493.1 + 71746 0.66 0.976072
Target:  5'- -cGCaGGAacaGugucGUCGCGAGcUCGGUCAg -3'
miRNA:   3'- uaUG-CCUg--Cu---CAGCGCUUuAGCCAGU- -5'
2928 3' -51.8 NC_001493.1 + 88026 0.66 0.976072
Target:  5'- -gGCGGugGgagAGUUuCGAGAUCGGUa- -3'
miRNA:   3'- uaUGCCugC---UCAGcGCUUUAGCCAgu -5'
2928 3' -51.8 NC_001493.1 + 5126 0.67 0.973399
Target:  5'- -aAgGGAuCGGGUCGUGggGgaGGUCGa -3'
miRNA:   3'- uaUgCCU-GCUCAGCGCuuUagCCAGU- -5'
2928 3' -51.8 NC_001493.1 + 120680 0.67 0.973399
Target:  5'- -aAgGGAuCGGGUCGUGggGgaGGUCGa -3'
miRNA:   3'- uaUgCCU-GCUCAGCGCuuUagCCAGU- -5'
2928 3' -51.8 NC_001493.1 + 95720 0.67 0.967418
Target:  5'- -cGCGGcucaucauguacACGuuGGUCuCGGAGUCGGUCAg -3'
miRNA:   3'- uaUGCC------------UGC--UCAGcGCUUUAGCCAGU- -5'
2928 3' -51.8 NC_001493.1 + 24899 0.67 0.960543
Target:  5'- gAUGCaaACGAGUCG-GGAAUCGGUUu -3'
miRNA:   3'- -UAUGccUGCUCAGCgCUUUAGCCAGu -5'
2928 3' -51.8 NC_001493.1 + 127544 0.68 0.956754
Target:  5'- gAUACGGACagGGGUUGUGAGcGUUGGUa- -3'
miRNA:   3'- -UAUGCCUG--CUCAGCGCUU-UAGCCAgu -5'
2928 3' -51.8 NC_001493.1 + 11989 0.68 0.956754
Target:  5'- gAUACGGACagGGGUUGUGAGcGUUGGUa- -3'
miRNA:   3'- -UAUGCCUG--CUCAGCGCUU-UAGCCAgu -5'
2928 3' -51.8 NC_001493.1 + 13269 0.68 0.956362
Target:  5'- cGUGCGGGCacagaaaGAGaUGCGAGAUCGGc-- -3'
miRNA:   3'- -UAUGCCUG-------CUCaGCGCUUUAGCCagu -5'
2928 3' -51.8 NC_001493.1 + 128823 0.68 0.956362
Target:  5'- cGUGCGGGCacagaaaGAGaUGCGAGAUCGGc-- -3'
miRNA:   3'- -UAUGCCUG-------CUCaGCGCUUUAGCCagu -5'
2928 3' -51.8 NC_001493.1 + 22100 0.68 0.948451
Target:  5'- --uCGGACaGGGUCGCGA--UCGGg-- -3'
miRNA:   3'- uauGCCUG-CUCAGCGCUuuAGCCagu -5'
2928 3' -51.8 NC_001493.1 + 19164 0.69 0.928842
Target:  5'- -cGCGGcGCGGGagGUGggGaUCGGUCGc -3'
miRNA:   3'- uaUGCC-UGCUCagCGCuuU-AGCCAGU- -5'
2928 3' -51.8 NC_001493.1 + 76137 0.69 0.916916
Target:  5'- -gGCGGACGAGcUUGggauuuuCGggGUCGGUUc -3'
miRNA:   3'- uaUGCCUGCUC-AGC-------GCuuUAGCCAGu -5'
2928 3' -51.8 NC_001493.1 + 19334 0.7 0.905158
Target:  5'- uGUACGGACGAGuaUCGCGccccgGAGggacaCGGUCc -3'
miRNA:   3'- -UAUGCCUGCUC--AGCGC-----UUUa----GCCAGu -5'
2928 3' -51.8 NC_001493.1 + 105342 0.71 0.862215
Target:  5'- -cACGGGgucuccCGGGUCGCGcagugugcGAUCGGUCGa -3'
miRNA:   3'- uaUGCCU------GCUCAGCGCu-------UUAGCCAGU- -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.