miRNA display CGI


Results 1 - 20 of 25 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
16041 3' -51.2 NC_004065.1 + 75875 0.66 0.99928
Target:  5'- --cGCGUAgaugUCGCGcagGAGGGCCuGGu -3'
miRNA:   3'- ggaCGCAUaga-AGCGCa--CUCUUGG-CC- -5'
16041 3' -51.2 NC_004065.1 + 186903 0.66 0.998941
Target:  5'- gCCgGCG-GUCUUCGCGagcgcGGAucggcGCCGGg -3'
miRNA:   3'- -GGaCGCaUAGAAGCGCac---UCU-----UGGCC- -5'
16041 3' -51.2 NC_004065.1 + 138116 0.66 0.998941
Target:  5'- gCUUGCGUgaggauugugacGUUUUCGuCGagGAGAacccGCCGGg -3'
miRNA:   3'- -GGACGCA------------UAGAAGC-GCa-CUCU----UGGCC- -5'
16041 3' -51.2 NC_004065.1 + 64873 0.66 0.998302
Target:  5'- uCCUGCGgaccgCggcgCGCGUcgGAGAagagcggcgccagucGCCGGg -3'
miRNA:   3'- -GGACGCaua--Gaa--GCGCA--CUCU---------------UGGCC- -5'
16041 3' -51.2 NC_004065.1 + 35386 0.67 0.997451
Target:  5'- gCCgagGCGUggaccgucAUCggCGcCGUGGGAgaguACCGGg -3'
miRNA:   3'- -GGa--CGCA--------UAGaaGC-GCACUCU----UGGCC- -5'
16041 3' -51.2 NC_004065.1 + 53799 0.67 0.997451
Target:  5'- gUCUGCGcgGUC--CGCc-GAGAGCCGGu -3'
miRNA:   3'- -GGACGCa-UAGaaGCGcaCUCUUGGCC- -5'
16041 3' -51.2 NC_004065.1 + 113928 0.67 0.997004
Target:  5'- --cGCGUGUCgacgaCGCGgcgcucGGGGGCUGGg -3'
miRNA:   3'- ggaCGCAUAGaa---GCGCa-----CUCUUGGCC- -5'
16041 3' -51.2 NC_004065.1 + 108479 0.67 0.996956
Target:  5'- cCCUGCGUc-CUgUGUGUGGGGaagauguACCGGc -3'
miRNA:   3'- -GGACGCAuaGAaGCGCACUCU-------UGGCC- -5'
16041 3' -51.2 NC_004065.1 + 15720 0.67 0.995914
Target:  5'- cUCUGCGUAcUCcUCGuCGUGAuGuGCUGGa -3'
miRNA:   3'- -GGACGCAU-AGaAGC-GCACU-CuUGGCC- -5'
16041 3' -51.2 NC_004065.1 + 136751 0.67 0.995914
Target:  5'- --cGCGg--UUUCGCGgGGGAugCGGg -3'
miRNA:   3'- ggaCGCauaGAAGCGCaCUCUugGCC- -5'
16041 3' -51.2 NC_004065.1 + 37276 0.68 0.99553
Target:  5'- aCCaGUGUAUCUUCGagaGaGAGAguggaucguuauacgGCCGGu -3'
miRNA:   3'- -GGaCGCAUAGAAGCg--CaCUCU---------------UGGCC- -5'
16041 3' -51.2 NC_004065.1 + 213132 0.68 0.995258
Target:  5'- cCCUGCGUgGUCaccguagUgGCGUuGGGGCUGGa -3'
miRNA:   3'- -GGACGCA-UAGa------AgCGCAcUCUUGGCC- -5'
16041 3' -51.2 NC_004065.1 + 195575 0.68 0.994519
Target:  5'- aCCUGCGUGcccacgC-UCGgGUGAcGGCUGGg -3'
miRNA:   3'- -GGACGCAUa-----GaAGCgCACUcUUGGCC- -5'
16041 3' -51.2 NC_004065.1 + 136588 0.68 0.99369
Target:  5'- uCCUGCGguccggggAUC--CGgGUGGGGugCGGg -3'
miRNA:   3'- -GGACGCa-------UAGaaGCgCACUCUugGCC- -5'
16041 3' -51.2 NC_004065.1 + 192903 0.68 0.992762
Target:  5'- aCUGCGgAUCU--GCGgagcGGGGGCCGGc -3'
miRNA:   3'- gGACGCaUAGAagCGCa---CUCUUGGCC- -5'
16041 3' -51.2 NC_004065.1 + 201915 0.68 0.99173
Target:  5'- --cGCGUcguucagcacAUCUUccCGUGUGGGAugCGGa -3'
miRNA:   3'- ggaCGCA----------UAGAA--GCGCACUCUugGCC- -5'
16041 3' -51.2 NC_004065.1 + 79645 0.68 0.99173
Target:  5'- gCgUGCGUGUCggCGC-UGAuGAcCCGGg -3'
miRNA:   3'- -GgACGCAUAGaaGCGcACU-CUuGGCC- -5'
16041 3' -51.2 NC_004065.1 + 149149 0.69 0.989316
Target:  5'- gCCUG---AUCUUCGuCG-GGGGGCCGGa -3'
miRNA:   3'- -GGACgcaUAGAAGC-GCaCUCUUGGCC- -5'
16041 3' -51.2 NC_004065.1 + 65302 0.69 0.98792
Target:  5'- uCCUGCuccuUCccCGCGUGguGGGACCGGc -3'
miRNA:   3'- -GGACGcau-AGaaGCGCAC--UCUUGGCC- -5'
16041 3' -51.2 NC_004065.1 + 7568 0.69 0.98792
Target:  5'- gUCUGCGUAUCgugCGuCGUcGGGuCCGGc -3'
miRNA:   3'- -GGACGCAUAGaa-GC-GCAcUCUuGGCC- -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.