miRNA display CGI


Results 1 - 20 of 53 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
27410 3' -65.3 NC_005869.1 + 11224 0.66 0.194018
Target:  5'- cCCGagaGCCGCUgGCUgGUGGACCUggUGa -3'
miRNA:   3'- -GGCg--CGGCGG-CGGgCGCCUGGGuaGC- -5'
27410 3' -65.3 NC_005869.1 + 15361 0.67 0.166173
Target:  5'- gCCgGCGCCacccGCCGCCgGCGccgCCAUCGu -3'
miRNA:   3'- -GG-CGCGG----CGGCGGgCGCcugGGUAGC- -5'
27410 3' -65.3 NC_005869.1 + 22062 0.67 0.166173
Target:  5'- gCCGCcacuggcugGCCGUCGCCUG-GGAgCCCGccUCGc -3'
miRNA:   3'- -GGCG---------CGGCGGCGGGCgCCU-GGGU--AGC- -5'
27410 3' -65.3 NC_005869.1 + 13067 0.67 0.170551
Target:  5'- aCCGaggaGCCGCC-CUCGCGG-CCC-UCc -3'
miRNA:   3'- -GGCg---CGGCGGcGGGCGCCuGGGuAGc -5'
27410 3' -65.3 NC_005869.1 + 13439 0.67 0.175032
Target:  5'- uCC-CGCCGCCaccaGCCgCGCcccgGGGCCC-UCGa -3'
miRNA:   3'- -GGcGCGGCGG----CGG-GCG----CCUGGGuAGC- -5'
27410 3' -65.3 NC_005869.1 + 28596 0.67 0.178231
Target:  5'- aCCGCGCCccGCCGCugccaCCGCcccucaccuaugugGGACCCu--- -3'
miRNA:   3'- -GGCGCGG--CGGCG-----GGCG--------------CCUGGGuagc -5'
27410 3' -65.3 NC_005869.1 + 17896 0.67 0.184309
Target:  5'- gCCgGCGCUGgUGCCCaucaucGCGGcAUCCAUCu -3'
miRNA:   3'- -GG-CGCGGCgGCGGG------CGCC-UGGGUAGc -5'
27410 3' -65.3 NC_005869.1 + 14967 0.66 0.194018
Target:  5'- aCGCGCCGCUGCguaacagcauccCCGgGGugCag-CGg -3'
miRNA:   3'- gGCGCGGCGGCG------------GGCgCCugGguaGC- -5'
27410 3' -65.3 NC_005869.1 + 15220 0.66 0.194018
Target:  5'- -gGCGcCCGCCGCCUGUccccGGAucacCCCGUg- -3'
miRNA:   3'- ggCGC-GGCGGCGGGCG----CCU----GGGUAgc -5'
27410 3' -65.3 NC_005869.1 + 16753 0.67 0.166173
Target:  5'- gCCGCGCCcgagguGCUGCCCaGCcucCCCGUCu -3'
miRNA:   3'- -GGCGCGG------CGGCGGG-CGccuGGGUAGc -5'
27410 3' -65.3 NC_005869.1 + 18568 0.68 0.153638
Target:  5'- gCC-CGCCGCCGCCCa-GGAgaUCAUCa -3'
miRNA:   3'- -GGcGCGGCGGCGGGcgCCUg-GGUAGc -5'
27410 3' -65.3 NC_005869.1 + 13316 0.68 0.153638
Target:  5'- gCCGCcgGCCGCCGCcgCCGCGccuCCCGcUCc -3'
miRNA:   3'- -GGCG--CGGCGGCG--GGCGCcu-GGGU-AGc -5'
27410 3' -65.3 NC_005869.1 + 22255 0.74 0.047683
Target:  5'- aCCGCacagCGCCGCCUGCGGACUCuUCu -3'
miRNA:   3'- -GGCGcg--GCGGCGGGCGCCUGGGuAGc -5'
27410 3' -65.3 NC_005869.1 + 16979 0.73 0.05955
Target:  5'- cCCGCGCCGCgUGcCCCGCaGGGCCgugCGg -3'
miRNA:   3'- -GGCGCGGCG-GC-GGGCG-CCUGGguaGC- -5'
27410 3' -65.3 NC_005869.1 + 18746 0.73 0.0647
Target:  5'- gCUGcCGCCGCCGCCCccgcccCGGcCCCcgCGg -3'
miRNA:   3'- -GGC-GCGGCGGCGGGc-----GCCuGGGuaGC- -5'
27410 3' -65.3 NC_005869.1 + 17563 0.71 0.085151
Target:  5'- -aGCGCCGcCCGCCCgcaGCGGcggucccccGCCC-UCGg -3'
miRNA:   3'- ggCGCGGC-GGCGGG---CGCC---------UGGGuAGC- -5'
27410 3' -65.3 NC_005869.1 + 9462 0.69 0.131113
Target:  5'- aCgGCGCgGCCGCCCuccCGGGgCCGcagcUCGa -3'
miRNA:   3'- -GgCGCGgCGGCGGGc--GCCUgGGU----AGC- -5'
27410 3' -65.3 NC_005869.1 + 17496 0.69 0.131113
Target:  5'- gCGCGCCGCgugCGCCuCGCGccCCCAgagCGc -3'
miRNA:   3'- gGCGCGGCG---GCGG-GCGCcuGGGUa--GC- -5'
27410 3' -65.3 NC_005869.1 + 25633 0.68 0.134643
Target:  5'- aCCGCGagugcCCGCCGCCCcucUGGGCUCAc-- -3'
miRNA:   3'- -GGCGC-----GGCGGCGGGc--GCCUGGGUagc -5'
27410 3' -65.3 NC_005869.1 + 10730 0.68 0.141967
Target:  5'- -gGCGCgGCgGCCCccgaGCGGcACCCA-CGg -3'
miRNA:   3'- ggCGCGgCGgCGGG----CGCC-UGGGUaGC- -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.