miRNA display CGI


Results 1 - 16 of 16 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
21962 5' -56.3 NC_004914.1 + 44358 0.66 0.690152
Target:  5'- uCUAGCCga-AGCCaGAGAGGCAagaaggcuacaacaaCCGCa -3'
miRNA:   3'- -GGUCGGuagUCGG-CUUUCCGUg--------------GGUG- -5'
21962 5' -56.3 NC_004914.1 + 47870 0.66 0.689075
Target:  5'- uUCAGCCGccgCAGCaacuGAu-GGUGCCCAUg -3'
miRNA:   3'- -GGUCGGUa--GUCGg---CUuuCCGUGGGUG- -5'
21962 5' -56.3 NC_004914.1 + 18366 0.66 0.678278
Target:  5'- aCCAGCg--CAGCagGAAGGGUACgUACu -3'
miRNA:   3'- -GGUCGguaGUCGg-CUUUCCGUGgGUG- -5'
21962 5' -56.3 NC_004914.1 + 26700 0.66 0.678278
Target:  5'- aCCGGCag-CAcgggacGCCGucAGGuCACCCGCc -3'
miRNA:   3'- -GGUCGguaGU------CGGCuuUCC-GUGGGUG- -5'
21962 5' -56.3 NC_004914.1 + 1879 0.66 0.655477
Target:  5'- uCCAGCggcgacgCAUCAGCC-AucGGCAgUCACu -3'
miRNA:   3'- -GGUCG-------GUAGUCGGcUuuCCGUgGGUG- -5'
21962 5' -56.3 NC_004914.1 + 54698 0.66 0.645671
Target:  5'- aCCAGCUgucgaaAUCAGCgCacuaccauAAGGCugCCACc -3'
miRNA:   3'- -GGUCGG------UAGUCG-Gcu------UUCCGugGGUG- -5'
21962 5' -56.3 NC_004914.1 + 50495 0.67 0.620583
Target:  5'- uUCAGCCuucuggucuucaagGUCGGCCGcAAGGCGCa--- -3'
miRNA:   3'- -GGUCGG--------------UAGUCGGCuUUCCGUGggug -5'
21962 5' -56.3 NC_004914.1 + 59516 0.67 0.612953
Target:  5'- aCAGgaAUcCAGCCcacaGAAAGGCACCgACa -3'
miRNA:   3'- gGUCggUA-GUCGG----CUUUCCGUGGgUG- -5'
21962 5' -56.3 NC_004914.1 + 20501 0.67 0.602067
Target:  5'- gCAGCuCAUC-GCCGGGAaGCugCCAg -3'
miRNA:   3'- gGUCG-GUAGuCGGCUUUcCGugGGUg -5'
21962 5' -56.3 NC_004914.1 + 19618 0.67 0.591207
Target:  5'- uUCGGUCAUCGGCguauucagcgcaCGAAcuGCACCCGg -3'
miRNA:   3'- -GGUCGGUAGUCG------------GCUUucCGUGGGUg -5'
21962 5' -56.3 NC_004914.1 + 56856 0.7 0.416505
Target:  5'- aCGaCCAUCAGCCGGAaagccguugccgcAGGCGaCCGCg -3'
miRNA:   3'- gGUcGGUAGUCGGCUU-------------UCCGUgGGUG- -5'
21962 5' -56.3 NC_004914.1 + 15797 0.71 0.375882
Target:  5'- cCCcGUCAacugguugcugagguUCAGCCGAuauGGCACCCGu -3'
miRNA:   3'- -GGuCGGU---------------AGUCGGCUuu-CCGUGGGUg -5'
21962 5' -56.3 NC_004914.1 + 9611 0.73 0.31513
Target:  5'- aCCGGaCC-UCaggGGCCGAAGGGCgACCCGg -3'
miRNA:   3'- -GGUC-GGuAG---UCGGCUUUCCG-UGGGUg -5'
21962 5' -56.3 NC_004914.1 + 58031 0.74 0.245262
Target:  5'- gCCAGUCAgUCAGCCGGAAGcaaACCCGa -3'
miRNA:   3'- -GGUCGGU-AGUCGGCUUUCcg-UGGGUg -5'
21962 5' -56.3 NC_004914.1 + 54212 0.76 0.188745
Target:  5'- aCCAgGCCGaacUCA-CCGGGAGGCACCCGg -3'
miRNA:   3'- -GGU-CGGU---AGUcGGCUUUCCGUGGGUg -5'
21962 5' -56.3 NC_004914.1 + 15569 1.12 0.000555
Target:  5'- uCCAGCCAUCAGCCGAAAGGCACCCACg -3'
miRNA:   3'- -GGUCGGUAGUCGGCUUUCCGUGGGUG- -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.