miRNA display CGI


Results 1 - 18 of 18 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
11917 5' -61.4 NC_003278.1 + 12811 0.66 0.329056
Target:  5'- cCCGCCUCGcCCUGGa-GUCCgaaccGCUGa -3'
miRNA:   3'- -GGUGGAGCaGGACCcgCGGGaa---CGGC- -5'
11917 5' -61.4 NC_003278.1 + 26046 0.66 0.328269
Target:  5'- gCCAaCUCGgCCUGGGCcaggcggGCCUgcGCCa -3'
miRNA:   3'- -GGUgGAGCaGGACCCG-------CGGGaaCGGc -5'
11917 5' -61.4 NC_003278.1 + 9129 0.66 0.316617
Target:  5'- uCCACUggcagCG-CCUGGGCuacgucagcgugcagGCCUUcGCCGa -3'
miRNA:   3'- -GGUGGa----GCaGGACCCG---------------CGGGAaCGGC- -5'
11917 5' -61.4 NC_003278.1 + 25452 0.66 0.313563
Target:  5'- uCCAUCaguUCGaCCUGGGCGgCCgagucaGCCa -3'
miRNA:   3'- -GGUGG---AGCaGGACCCGCgGGaa----CGGc -5'
11917 5' -61.4 NC_003278.1 + 22330 0.66 0.313563
Target:  5'- gCUGCCgUUGcCCUGGGCGgCCUgcaCCGu -3'
miRNA:   3'- -GGUGG-AGCaGGACCCGCgGGAac-GGC- -5'
11917 5' -61.4 NC_003278.1 + 27739 0.66 0.306026
Target:  5'- aCCGCCUCGgucacgCCggcGGuGCGaCCguagUGCCGc -3'
miRNA:   3'- -GGUGGAGCa-----GGa--CC-CGCgGGa---ACGGC- -5'
11917 5' -61.4 NC_003278.1 + 9006 0.66 0.29137
Target:  5'- aC-CCUCG-CCcGGGCGgCUaUGCCGg -3'
miRNA:   3'- gGuGGAGCaGGaCCCGCgGGaACGGC- -5'
11917 5' -61.4 NC_003278.1 + 28110 0.67 0.284251
Target:  5'- -uGCgaUGUCCUGGGCcuuGUCgUUGCCGc -3'
miRNA:   3'- ggUGgaGCAGGACCCG---CGGgAACGGC- -5'
11917 5' -61.4 NC_003278.1 + 24814 0.67 0.284251
Target:  5'- -aACCgugaUCG-CCUGGGCgucGCCCUUGgCGc -3'
miRNA:   3'- ggUGG----AGCaGGACCCG---CGGGAACgGC- -5'
11917 5' -61.4 NC_003278.1 + 8364 0.67 0.27727
Target:  5'- gCGCCUgGUCugcuaccagcgCUGcGGCGCCCgcuuccGCCGc -3'
miRNA:   3'- gGUGGAgCAG-----------GAC-CCGCGGGaa----CGGC- -5'
11917 5' -61.4 NC_003278.1 + 5998 0.67 0.266385
Target:  5'- aCCgACCUCaUCCugucgcagaagcgcaUGGGCGgCCUgccGCCGg -3'
miRNA:   3'- -GG-UGGAGcAGG---------------ACCCGCgGGAa--CGGC- -5'
11917 5' -61.4 NC_003278.1 + 13713 0.67 0.25071
Target:  5'- gUACCUgG-CCUGGGCGUUCUccGUCGa -3'
miRNA:   3'- gGUGGAgCaGGACCCGCGGGAa-CGGC- -5'
11917 5' -61.4 NC_003278.1 + 13793 0.69 0.193453
Target:  5'- cCUACCUCGUCCacucccacaagGGaaccuugaGCGCCCUgcGCCGc -3'
miRNA:   3'- -GGUGGAGCAGGa----------CC--------CGCGGGAa-CGGC- -5'
11917 5' -61.4 NC_003278.1 + 28216 0.73 0.106369
Target:  5'- gCCGCCUCGgCCcGGGCGUaCCUgGCCc -3'
miRNA:   3'- -GGUGGAGCaGGaCCCGCG-GGAaCGGc -5'
11917 5' -61.4 NC_003278.1 + 7995 0.73 0.095129
Target:  5'- -gGCCUCGgCCUGGGCGuaaCCCUU-CCGg -3'
miRNA:   3'- ggUGGAGCaGGACCCGC---GGGAAcGGC- -5'
11917 5' -61.4 NC_003278.1 + 21232 0.77 0.052429
Target:  5'- uUCGCCggCGUCCUGGGCuaCCUgggcaucgaccUGCCGg -3'
miRNA:   3'- -GGUGGa-GCAGGACCCGcgGGA-----------ACGGC- -5'
11917 5' -61.4 NC_003278.1 + 16016 0.78 0.044127
Target:  5'- gCCAagUCGgaauacUCCUGGGCGUCCUUGCCu -3'
miRNA:   3'- -GGUggAGC------AGGACCCGCGGGAACGGc -5'
11917 5' -61.4 NC_003278.1 + 29029 1.11 0.000114
Target:  5'- aCCACCUCGUCCUGGGCGCCCUUGCCGg -3'
miRNA:   3'- -GGUGGAGCAGGACCCGCGGGAACGGC- -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.