miRNA display CGI


Results 1 - 20 of 39 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
15974 3' -53.6 NC_004065.1 + 154625 0.66 0.989009
Target:  5'- gCUCuUCGggGGcGuCUGCCA--GCACc -3'
miRNA:   3'- gGAGcAGCuuCCuC-GACGGUaaCGUG- -5'
15974 3' -53.6 NC_004065.1 + 201377 0.66 0.989009
Target:  5'- gCCUCGcCGggGGG--UGCCAcgucgacGCACa -3'
miRNA:   3'- -GGAGCaGCuuCCUcgACGGUaa-----CGUG- -5'
15974 3' -53.6 NC_004065.1 + 119533 0.66 0.989009
Target:  5'- uCCUUGUCc--GGGGCgGCCGUcugcUGCAg -3'
miRNA:   3'- -GGAGCAGcuuCCUCGaCGGUA----ACGUg -5'
15974 3' -53.6 NC_004065.1 + 68031 0.66 0.987573
Target:  5'- aCUUCGUgGAcguGGGccgccAGCUGCUGgcGCACg -3'
miRNA:   3'- -GGAGCAgCU---UCC-----UCGACGGUaaCGUG- -5'
15974 3' -53.6 NC_004065.1 + 62021 0.66 0.987573
Target:  5'- cCCgagacgCGUCGAcGGAGCUGUCGUcgaagaUGUu- -3'
miRNA:   3'- -GGa-----GCAGCUuCCUCGACGGUA------ACGug -5'
15974 3' -53.6 NC_004065.1 + 66572 0.66 0.987573
Target:  5'- uUCUCGUCGcuGGcGAGC-GCCugccGCACg -3'
miRNA:   3'- -GGAGCAGCu-UC-CUCGaCGGuaa-CGUG- -5'
15974 3' -53.6 NC_004065.1 + 18706 0.66 0.984271
Target:  5'- -gUCGUCGAAGGugccGCUGUCGau-CACa -3'
miRNA:   3'- ggAGCAGCUUCCu---CGACGGUaacGUG- -5'
15974 3' -53.6 NC_004065.1 + 77130 0.66 0.984271
Target:  5'- -aUCGUCaGAcGGGGCUGCgGUUGgGg -3'
miRNA:   3'- ggAGCAG-CUuCCUCGACGgUAACgUg -5'
15974 3' -53.6 NC_004065.1 + 176149 0.66 0.984271
Target:  5'- uCC-CGUCGAcgccaacGGAGUgGCCAUcccgGCGCg -3'
miRNA:   3'- -GGaGCAGCUu------CCUCGaCGGUAa---CGUG- -5'
15974 3' -53.6 NC_004065.1 + 159725 0.66 0.983161
Target:  5'- gCCgUGUgGggGGuGCUGCUgaaggccgccgcgggGUUGCGCc -3'
miRNA:   3'- -GGaGCAgCuuCCuCGACGG---------------UAACGUG- -5'
15974 3' -53.6 NC_004065.1 + 115312 0.66 0.980342
Target:  5'- aCCUCGagGAagGGGGGUgagGCCA--GCAUg -3'
miRNA:   3'- -GGAGCagCU--UCCUCGa--CGGUaaCGUG- -5'
15974 3' -53.6 NC_004065.1 + 170438 0.67 0.978123
Target:  5'- -aUCGaCGAAGGAcGCcGCCGgagGCGCc -3'
miRNA:   3'- ggAGCaGCUUCCU-CGaCGGUaa-CGUG- -5'
15974 3' -53.6 NC_004065.1 + 149155 0.67 0.978123
Target:  5'- uCUUCGUCGggGG-GCcggagaccugGCCug-GCGCu -3'
miRNA:   3'- -GGAGCAGCuuCCuCGa---------CGGuaaCGUG- -5'
15974 3' -53.6 NC_004065.1 + 68326 0.67 0.978123
Target:  5'- -gUCGUCGuggcugcGGGAGCUGCUGcaGCAg -3'
miRNA:   3'- ggAGCAGCu------UCCUCGACGGUaaCGUg -5'
15974 3' -53.6 NC_004065.1 + 59682 0.67 0.976706
Target:  5'- uCCUCGUCguccgagucgucguaGAAGGgcgccgAGCgGCCGcgGCGCa -3'
miRNA:   3'- -GGAGCAG---------------CUUCC------UCGaCGGUaaCGUG- -5'
15974 3' -53.6 NC_004065.1 + 67336 0.67 0.975724
Target:  5'- uCCUgaCGUacgcgaGAGGGAagccGCUGCCggUGUACa -3'
miRNA:   3'- -GGA--GCAg-----CUUCCU----CGACGGuaACGUG- -5'
15974 3' -53.6 NC_004065.1 + 104635 0.67 0.97036
Target:  5'- aCCUgCGggCGAAgcaggcgcuGGAGCUGaCCAaggUGCGCg -3'
miRNA:   3'- -GGA-GCa-GCUU---------CCUCGAC-GGUa--ACGUG- -5'
15974 3' -53.6 NC_004065.1 + 1180 0.67 0.967381
Target:  5'- -gUCGUCGgcGccGCUGCCGggGUACu -3'
miRNA:   3'- ggAGCAGCuuCcuCGACGGUaaCGUG- -5'
15974 3' -53.6 NC_004065.1 + 1617 0.67 0.967381
Target:  5'- cCUUCGUCGcuGGGAGCUGCaa-UGUc- -3'
miRNA:   3'- -GGAGCAGCu-UCCUCGACGguaACGug -5'
15974 3' -53.6 NC_004065.1 + 48198 0.68 0.964196
Target:  5'- cCCUUGUCGugucugaaguuGAGGAggcucuuucgGCUGCCGaUGCGg -3'
miRNA:   3'- -GGAGCAGC-----------UUCCU----------CGACGGUaACGUg -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.