miRNA display CGI


Results 1 - 20 of 118 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
12787 3' -56.1 NC_003387.1 + 44679 0.84 0.053769
Target:  5'- cCGGUGcUCGCCaaagaguucUCGAUCGCCGCGUCGg -3'
miRNA:   3'- -GCCGUuAGUGG---------AGCUAGCGGCGCAGC- -5'
12787 3' -56.1 NC_003387.1 + 34249 0.69 0.492943
Target:  5'- gGGCGcUCgACCggcUGAUCGCCGaGUCGg -3'
miRNA:   3'- gCCGUuAG-UGGa--GCUAGCGGCgCAGC- -5'
12787 3' -56.1 NC_003387.1 + 11388 0.68 0.534307
Target:  5'- gCGGCGAUCggcGCCaCGcUgGCCGCGaUCGg -3'
miRNA:   3'- -GCCGUUAG---UGGaGCuAgCGGCGC-AGC- -5'
12787 3' -56.1 NC_003387.1 + 11239 0.66 0.706379
Target:  5'- aCGGCAugaaaaagGUCAUugaCUUuuUCgGCCGCGUCGg -3'
miRNA:   3'- -GCCGU--------UAGUG---GAGcuAG-CGGCGCAGC- -5'
12787 3' -56.1 NC_003387.1 + 19936 0.74 0.250666
Target:  5'- aGGCuggCACCUCGAcgUCGggcaaagguaCCGCGUCGa -3'
miRNA:   3'- gCCGuuaGUGGAGCU--AGC----------GGCGCAGC- -5'
12787 3' -56.1 NC_003387.1 + 27299 0.74 0.259732
Target:  5'- uGGCGgcccuugagagccgcGUCGCCgUGAUCGCCGCGauuUCGg -3'
miRNA:   3'- gCCGU---------------UAGUGGaGCUAGCGGCGC---AGC- -5'
12787 3' -56.1 NC_003387.1 + 28062 0.73 0.284272
Target:  5'- uGGC--UCGCCUCGuacUCGCugCGCGUCGa -3'
miRNA:   3'- gCCGuuAGUGGAGCu--AGCG--GCGCAGC- -5'
12787 3' -56.1 NC_003387.1 + 19605 0.73 0.29868
Target:  5'- uGGCAGUCGuuCCUUGA-CGCCGCGa-- -3'
miRNA:   3'- gCCGUUAGU--GGAGCUaGCGGCGCagc -5'
12787 3' -56.1 NC_003387.1 + 28566 0.71 0.37649
Target:  5'- gCGGCGAUCGCCgUCGAcgacgcccucaagcUcaacacCGCCGCGUaCGg -3'
miRNA:   3'- -GCCGUUAGUGG-AGCU--------------A------GCGGCGCA-GC- -5'
12787 3' -56.1 NC_003387.1 + 1287 0.69 0.492943
Target:  5'- aCGGUGAUgCGCCUCGA-CGCCcugGCGggCGa -3'
miRNA:   3'- -GCCGUUA-GUGGAGCUaGCGG---CGCa-GC- -5'
12787 3' -56.1 NC_003387.1 + 48777 0.7 0.424418
Target:  5'- uCGGCGcagccagcUCGCCgcuGAUCGCCGCGgCGg -3'
miRNA:   3'- -GCCGUu-------AGUGGag-CUAGCGGCGCaGC- -5'
12787 3' -56.1 NC_003387.1 + 30238 0.72 0.33715
Target:  5'- aGGCcGUCGCC-CGGUacgaCGCCGCGgUCGu -3'
miRNA:   3'- gCCGuUAGUGGaGCUA----GCGGCGC-AGC- -5'
12787 3' -56.1 NC_003387.1 + 38058 0.77 0.169186
Target:  5'- gGGCGGUgGCUgagCGAgCGCCGCGUCa -3'
miRNA:   3'- gCCGUUAgUGGa--GCUaGCGGCGCAGc -5'
12787 3' -56.1 NC_003387.1 + 50421 0.7 0.433863
Target:  5'- gCGGCAgaucGUCGCCUCGGcguaCGCCaGCGagGa -3'
miRNA:   3'- -GCCGU----UAGUGGAGCUa---GCGG-CGCagC- -5'
12787 3' -56.1 NC_003387.1 + 37860 0.76 0.188259
Target:  5'- cCGGCGGcUCGCCUCGAcgaugcuugaacUUGaCCGCGUCa -3'
miRNA:   3'- -GCCGUU-AGUGGAGCU------------AGC-GGCGCAGc -5'
12787 3' -56.1 NC_003387.1 + 51412 0.73 0.306094
Target:  5'- cCGGCGAgCGCCUgCGG-CGCCGCcUCGa -3'
miRNA:   3'- -GCCGUUaGUGGA-GCUaGCGGCGcAGC- -5'
12787 3' -56.1 NC_003387.1 + 29646 0.7 0.46094
Target:  5'- aCGGCGcgaguaaccggCugCUCGAacgccUCGCCGaCGUCGa -3'
miRNA:   3'- -GCCGUua---------GugGAGCU-----AGCGGC-GCAGC- -5'
12787 3' -56.1 NC_003387.1 + 33468 0.69 0.523841
Target:  5'- gCGGCcgaAGUCGCCgaggCGGUCGgcgcCCGCGaUCGc -3'
miRNA:   3'- -GCCG---UUAGUGGa---GCUAGC----GGCGC-AGC- -5'
12787 3' -56.1 NC_003387.1 + 30194 0.75 0.238169
Target:  5'- gGaGCAGUCGCCgagcCGGUaCGCCGaCGUCGa -3'
miRNA:   3'- gC-CGUUAGUGGa---GCUA-GCGGC-GCAGC- -5'
12787 3' -56.1 NC_003387.1 + 13652 0.74 0.263034
Target:  5'- uCGGCGG-CGgCUCGGUCGCCGagggcgcCGUCGa -3'
miRNA:   3'- -GCCGUUaGUgGAGCUAGCGGC-------GCAGC- -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.