miRNA display CGI


Results 1 - 20 of 52 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
27407 3' -53.2 NC_005869.1 + 31513 1.15 0.000314
Target:  5'- gCCCAGAAAGCCCAGGAAGUUGCAGCCg -3'
miRNA:   3'- -GGGUCUUUCGGGUCCUUCAACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 25896 0.85 0.046035
Target:  5'- aUCCAGGAGGCCCA-GAAGUgcgagcacUGCGGCCg -3'
miRNA:   3'- -GGGUCUUUCGGGUcCUUCA--------ACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 12061 0.82 0.075979
Target:  5'- gCCCGGGAAggacuugucaaagguGCCCAGGAAGcgggGCAGCUg -3'
miRNA:   3'- -GGGUCUUU---------------CGGGUCCUUCaa--CGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 2256 0.78 0.140362
Target:  5'- gCCCAGcacGCCaAGGugGAGUUGCAGCCg -3'
miRNA:   3'- -GGGUCuuuCGGgUCC--UUCAACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 3106 0.76 0.192578
Target:  5'- aCCGGguGGCCUGGGAAGggGgaGGCCg -3'
miRNA:   3'- gGGUCuuUCGGGUCCUUCaaCg-UCGG- -5'
27407 3' -53.2 NC_005869.1 + 9751 0.74 0.261059
Target:  5'- gCCGGAuGGCgCgCAGGAGGgugaggucuUUGCGGCCg -3'
miRNA:   3'- gGGUCUuUCG-G-GUCCUUC---------AACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 19249 0.74 0.261059
Target:  5'- -gUAGAAGGCCCGGGAGc--GCAGCg -3'
miRNA:   3'- ggGUCUUUCGGGUCCUUcaaCGUCGg -5'
27407 3' -53.2 NC_005869.1 + 19783 0.74 0.275461
Target:  5'- cUCCGGGucauAGCCCAggcGGAAGUUGCGcguGUCg -3'
miRNA:   3'- -GGGUCUu---UCGGGU---CCUUCAACGU---CGG- -5'
27407 3' -53.2 NC_005869.1 + 33830 0.73 0.298244
Target:  5'- gCCCAGAAGuCCCGGGAAuucccGCcAGCCg -3'
miRNA:   3'- -GGGUCUUUcGGGUCCUUcaa--CG-UCGG- -5'
27407 3' -53.2 NC_005869.1 + 20841 0.72 0.348115
Target:  5'- cCCCAgcGAGAGCCaUAGGuGGgcGUGGCCg -3'
miRNA:   3'- -GGGU--CUUUCGG-GUCCuUCaaCGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 6785 0.72 0.356985
Target:  5'- cCCgCAGGAGGCCgAuGAAGUUgggguagcaGCGGCCg -3'
miRNA:   3'- -GG-GUCUUUCGGgUcCUUCAA---------CGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 8362 0.71 0.366012
Target:  5'- gUCGGggGGCgggcgCAGGAGG-UGCAGCUg -3'
miRNA:   3'- gGGUCuuUCGg----GUCCUUCaACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 19174 0.71 0.375195
Target:  5'- cUCCGGGAAGCgguuaaagaCCAGGguGUUGUugguGGCCu -3'
miRNA:   3'- -GGGUCUUUCG---------GGUCCuuCAACG----UCGG- -5'
27407 3' -53.2 NC_005869.1 + 13382 0.71 0.375195
Target:  5'- gCCCAGGAgcugggagcgguAGCgCAGGccguAGUUGCGGUg -3'
miRNA:   3'- -GGGUCUU------------UCGgGUCCu---UCAACGUCGg -5'
27407 3' -53.2 NC_005869.1 + 15282 0.7 0.423385
Target:  5'- gCCGcGggGGCCgGGGcGGggGCGGCg -3'
miRNA:   3'- gGGU-CuuUCGGgUCCuUCaaCGUCGg -5'
27407 3' -53.2 NC_005869.1 + 7542 0.7 0.443674
Target:  5'- gCCAGGAcgaucucaucgaAGCCCGaGAuGUUGUGGCCc -3'
miRNA:   3'- gGGUCUU------------UCGGGUcCUuCAACGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 15215 0.69 0.485819
Target:  5'- aCCUGGggGGCCUuuGGAacucgccggAGccGCGGCCg -3'
miRNA:   3'- -GGGUCuuUCGGGu-CCU---------UCaaCGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 6859 0.69 0.485819
Target:  5'- gUgGGAGGGCgCgAGGAGGUU-CGGCCg -3'
miRNA:   3'- gGgUCUUUCG-GgUCCUUCAAcGUCGG- -5'
27407 3' -53.2 NC_005869.1 + 7644 0.69 0.507596
Target:  5'- gCCAGggGGUCCucGggGUcguccgGCAGgCCg -3'
miRNA:   3'- gGGUCuuUCGGGucCuuCAa-----CGUC-GG- -5'
27407 3' -53.2 NC_005869.1 + 24784 0.69 0.51753
Target:  5'- aCCCAGcacGCCCccgcccuccuuagAGGAGGaggUGCGGCa -3'
miRNA:   3'- -GGGUCuuuCGGG-------------UCCUUCa--ACGUCGg -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.