miRNA display CGI


Results 1 - 20 of 31 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
11927 3' -55.9 NC_003278.1 + 15803 1.1 0.000386
Target:  5'- uUGACAUAGCCACCCAGCUCGCCAUCGg -3'
miRNA:   3'- -ACUGUAUCGGUGGGUCGAGCGGUAGC- -5'
11927 3' -55.9 NC_003278.1 + 32213 0.77 0.103051
Target:  5'- cGACugggccAGaCCGCCCAGCUCGCCgcaGUCGu -3'
miRNA:   3'- aCUGua----UC-GGUGGGUCGAGCGG---UAGC- -5'
11927 3' -55.9 NC_003278.1 + 14826 0.73 0.204516
Target:  5'- aUGcCGUAGCCGCCCAGC--GUgGUCGg -3'
miRNA:   3'- -ACuGUAUCGGUGGGUCGagCGgUAGC- -5'
11927 3' -55.9 NC_003278.1 + 9064 0.72 0.221448
Target:  5'- cGGCAUAGCCGCCCgggcgagGGUUCaCCAgcgCGg -3'
miRNA:   3'- aCUGUAUCGGUGGG-------UCGAGcGGUa--GC- -5'
11927 3' -55.9 NC_003278.1 + 10425 0.72 0.234443
Target:  5'- cGGCGUccacucGGCCAgC-AGCUCGCCGUUGg -3'
miRNA:   3'- aCUGUA------UCGGUgGgUCGAGCGGUAGC- -5'
11927 3' -55.9 NC_003278.1 + 34523 0.72 0.240854
Target:  5'- gUGGCAUGGCCACCUcaggaaugcgGGCgucCGCUcgCGu -3'
miRNA:   3'- -ACUGUAUCGGUGGG----------UCGa--GCGGuaGC- -5'
11927 3' -55.9 NC_003278.1 + 8969 0.71 0.28242
Target:  5'- aUGAUGUGGCguucgaacaggaUugCCGGCUUGCCGUUGc -3'
miRNA:   3'- -ACUGUAUCG------------GugGGUCGAGCGGUAGC- -5'
11927 3' -55.9 NC_003278.1 + 30317 0.71 0.289877
Target:  5'- aUGACgAUGGCCcuggaGCgCCAGgaCGCCGUCa -3'
miRNA:   3'- -ACUG-UAUCGG-----UG-GGUCgaGCGGUAGc -5'
11927 3' -55.9 NC_003278.1 + 5296 0.69 0.337854
Target:  5'- cGGCGUGaacuccGCCGUCCAGaccuUCGCCGUCGa -3'
miRNA:   3'- aCUGUAU------CGGUGGGUCg---AGCGGUAGC- -5'
11927 3' -55.9 NC_003278.1 + 19843 0.69 0.34553
Target:  5'- cGAUGUcGGCCACCCAGgcggugaCUCG-CAUCGa -3'
miRNA:   3'- aCUGUA-UCGGUGGGUC-------GAGCgGUAGC- -5'
11927 3' -55.9 NC_003278.1 + 11869 0.69 0.363923
Target:  5'- cGGCAUGGuCCACCgCGGCgauggUGCCGaggCGg -3'
miRNA:   3'- aCUGUAUC-GGUGG-GUCGa----GCGGUa--GC- -5'
11927 3' -55.9 NC_003278.1 + 32122 0.69 0.372917
Target:  5'- -aGCAgguGCCgGCCgCGGCUCGCCAgacgCGg -3'
miRNA:   3'- acUGUau-CGG-UGG-GUCGAGCGGUa---GC- -5'
11927 3' -55.9 NC_003278.1 + 29819 0.69 0.372917
Target:  5'- cGACAacAGCCGCgCCGGCggCGCCGccaaguccuUCGa -3'
miRNA:   3'- aCUGUa-UCGGUG-GGUCGa-GCGGU---------AGC- -5'
11927 3' -55.9 NC_003278.1 + 32163 0.68 0.40079
Target:  5'- cGGCGUagccgaAGCCACCgAGCagGCUGUUGa -3'
miRNA:   3'- aCUGUA------UCGGUGGgUCGagCGGUAGC- -5'
11927 3' -55.9 NC_003278.1 + 22185 0.68 0.410372
Target:  5'- gGGCcaGGCCgACCCGGUgucaGCCAUCu -3'
miRNA:   3'- aCUGuaUCGG-UGGGUCGag--CGGUAGc -5'
11927 3' -55.9 NC_003278.1 + 15347 0.68 0.420095
Target:  5'- cGGCAUuuaCACCCgAGUUCGCCAaCGu -3'
miRNA:   3'- aCUGUAucgGUGGG-UCGAGCGGUaGC- -5'
11927 3' -55.9 NC_003278.1 + 25725 0.68 0.429956
Target:  5'- uUGACA-GGCCACCCGGCgacacgaUGUCAcCGu -3'
miRNA:   3'- -ACUGUaUCGGUGGGUCGa------GCGGUaGC- -5'
11927 3' -55.9 NC_003278.1 + 8804 0.68 0.429956
Target:  5'- cGACcucGUcGCCGCCgGaGCUCGCC-UCGa -3'
miRNA:   3'- aCUG---UAuCGGUGGgU-CGAGCGGuAGC- -5'
11927 3' -55.9 NC_003278.1 + 2374 0.68 0.429956
Target:  5'- cGGCAcGGCCACCCuGGCgcgggaugaacUCGCCuUCc -3'
miRNA:   3'- aCUGUaUCGGUGGG-UCG-----------AGCGGuAGc -5'
11927 3' -55.9 NC_003278.1 + 20680 0.67 0.450078
Target:  5'- cGACAagaacagccccUGGCUGCgCgAGCUCGCCGcCGa -3'
miRNA:   3'- aCUGU-----------AUCGGUG-GgUCGAGCGGUaGC- -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.