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
2892 5' -56.2 NC_001493.1 + 37626 0.66 0.895007
Target:  5'- --aCAGGUCGCUCCGGgc----ACGCu -3'
miRNA:   3'- cugGUCCAGCGAGGUCaguaccUGCG- -5'
2892 5' -56.2 NC_001493.1 + 106201 0.66 0.890993
Target:  5'- uGAgUAGGUCGCUCgCGGuggcccuaUCGUugggguucagacgaaGGACGCu -3'
miRNA:   3'- -CUgGUCCAGCGAG-GUC--------AGUA---------------CCUGCG- -5'
2892 5' -56.2 NC_001493.1 + 55252 0.66 0.881306
Target:  5'- gGAuCCAGGUCGCUUCcgcgugAGUCuucuuGUGcACGCg -3'
miRNA:   3'- -CU-GGUCCAGCGAGG------UCAG-----UACcUGCG- -5'
2892 5' -56.2 NC_001493.1 + 18836 0.66 0.881306
Target:  5'- cGACCGGuGUgCGUUCCGGgUGUGG-UGCg -3'
miRNA:   3'- -CUGGUC-CA-GCGAGGUCaGUACCuGCG- -5'
2892 5' -56.2 NC_001493.1 + 20243 0.66 0.879172
Target:  5'- cGAUCAGGUCuagauaacccucgaGCaaucUCgGGUCGUGcGGCGCc -3'
miRNA:   3'- -CUGGUCCAG--------------CG----AGgUCAGUAC-CUGCG- -5'
2892 5' -56.2 NC_001493.1 + 110797 0.66 0.874117
Target:  5'- uGGCCGGGcCcgGCccuUCCAGUCGUGaGACa- -3'
miRNA:   3'- -CUGGUCCaG--CG---AGGUCAGUAC-CUGcg -5'
2892 5' -56.2 NC_001493.1 + 62312 0.66 0.874117
Target:  5'- uGACCGGGUCGgUCCA--CggGGGCu- -3'
miRNA:   3'- -CUGGUCCAGCgAGGUcaGuaCCUGcg -5'
2892 5' -56.2 NC_001493.1 + 41375 0.67 0.84323
Target:  5'- cGACCAGGUCGa-CCgAGaCAUGGAaugaGUa -3'
miRNA:   3'- -CUGGUCCAGCgaGG-UCaGUACCUg---CG- -5'
2892 5' -56.2 NC_001493.1 + 112017 0.67 0.84323
Target:  5'- aGAUC-GGUC-CUCCAGgcCGUGGGCGa -3'
miRNA:   3'- -CUGGuCCAGcGAGGUCa-GUACCUGCg -5'
2892 5' -56.2 NC_001493.1 + 95981 0.67 0.838319
Target:  5'- gGACguGGUCaCUCCcgccgauugucuggcGGUCGcGGGCGCc -3'
miRNA:   3'- -CUGguCCAGcGAGG---------------UCAGUaCCUGCG- -5'
2892 5' -56.2 NC_001493.1 + 49922 0.68 0.791251
Target:  5'- uACCAGGUUccugaUCCAGUC--GGugGCg -3'
miRNA:   3'- cUGGUCCAGcg---AGGUCAGuaCCugCG- -5'
2892 5' -56.2 NC_001493.1 + 110357 0.68 0.78203
Target:  5'- uACCGuGGUCGCcCUGGU--UGGGCGCu -3'
miRNA:   3'- cUGGU-CCAGCGaGGUCAguACCUGCG- -5'
2892 5' -56.2 NC_001493.1 + 13277 0.69 0.704144
Target:  5'- aGACCGGG--GCUCCAGUCucgGGAUc- -3'
miRNA:   3'- -CUGGUCCagCGAGGUCAGua-CCUGcg -5'
2892 5' -56.2 NC_001493.1 + 10620 0.69 0.704144
Target:  5'- cGAuCCGGGUC-CUCCgcGGUCGagacucucgGGACGCg -3'
miRNA:   3'- -CU-GGUCCAGcGAGG--UCAGUa--------CCUGCG- -5'
2892 5' -56.2 NC_001493.1 + 126174 0.69 0.704144
Target:  5'- cGAuCCGGGUC-CUCCgcGGUCGagacucucgGGACGCg -3'
miRNA:   3'- -CU-GGUCCAGcGAGG--UCAGUa--------CCUGCG- -5'
2892 5' -56.2 NC_001493.1 + 128831 0.69 0.704144
Target:  5'- aGACCGGG--GCUCCAGUCucgGGAUc- -3'
miRNA:   3'- -CUGGUCCagCGAGGUCAGua-CCUGcg -5'
2892 5' -56.2 NC_001493.1 + 23629 0.7 0.683871
Target:  5'- gGGCCGGGUCuCUgCGGUCAUcGGCGg -3'
miRNA:   3'- -CUGGUCCAGcGAgGUCAGUAcCUGCg -5'
2892 5' -56.2 NC_001493.1 + 37561 0.71 0.612009
Target:  5'- cGACCGGGUCGC-CCGGggagaaGAUGCa -3'
miRNA:   3'- -CUGGUCCAGCGaGGUCaguac-CUGCG- -5'
2892 5' -56.2 NC_001493.1 + 62853 0.72 0.558942
Target:  5'- uGCC-GGUCGCUCCcgugggcuugccGUCGUGGugGUc -3'
miRNA:   3'- cUGGuCCAGCGAGGu-----------CAGUACCugCG- -5'
2892 5' -56.2 NC_001493.1 + 128398 0.77 0.313442
Target:  5'- -cCCGGGUCGCgUCCGGggUcgGGGCGCu -3'
miRNA:   3'- cuGGUCCAGCG-AGGUCa-GuaCCUGCG- -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.