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 + 9400 0.66 0.557456
Target:  5'- uUGuACAgcGCCGCCCuGCUCgguGCUcUCGg -3'
miRNA:   3'- -AC-UGUauCGGUGGGuCGAG---CGGuAGC- -5'
11927 3' -55.9 NC_003278.1 + 22345 0.66 0.554105
Target:  5'- gUGAUcgAuGCCGCCCucgcccgcgugacgGGCUaccugaccagCGCCGUCGa -3'
miRNA:   3'- -ACUGuaU-CGGUGGG--------------UCGA----------GCGGUAGC- -5'
11927 3' -55.9 NC_003278.1 + 21021 0.66 0.51442
Target:  5'- gGGCcUGGCCgccaACCCGGUgguccuggcaauugcCGCCGUCGu -3'
miRNA:   3'- aCUGuAUCGG----UGGGUCGa--------------GCGGUAGC- -5'
11927 3' -55.9 NC_003278.1 + 12232 0.66 0.513333
Target:  5'- gGAUGUAGUCGCCCuGGUgugugaugUCGCCGaCGa -3'
miRNA:   3'- aCUGUAUCGGUGGG-UCG--------AGCGGUaGC- -5'
11927 3' -55.9 NC_003278.1 + 7287 0.66 0.50252
Target:  5'- aGGCGccaGGCC-CgCAGCUCGCgGUUGa -3'
miRNA:   3'- aCUGUa--UCGGuGgGUCGAGCGgUAGC- -5'
11927 3' -55.9 NC_003278.1 + 28745 0.67 0.491807
Target:  5'- aGACGUAGCC-CagGGCgcgCGCC-UCGg -3'
miRNA:   3'- aCUGUAUCGGuGggUCGa--GCGGuAGC- -5'
11927 3' -55.9 NC_003278.1 + 7951 0.67 0.474891
Target:  5'- -cGCAUGGCUgaccucaccaccaccGCCaCGGCcgCGCCAUCa -3'
miRNA:   3'- acUGUAUCGG---------------UGG-GUCGa-GCGGUAGc -5'
11927 3' -55.9 NC_003278.1 + 8544 0.67 0.470708
Target:  5'- cGGCAacgucGCCGCCCuGCUgagGCCAUCc -3'
miRNA:   3'- aCUGUau---CGGUGGGuCGAg--CGGUAGc -5'
11927 3' -55.9 NC_003278.1 + 18924 0.67 0.460331
Target:  5'- -uGCA-GGCCGCgCAGUUCGCCAg-- -3'
miRNA:   3'- acUGUaUCGGUGgGUCGAGCGGUagc -5'
11927 3' -55.9 NC_003278.1 + 10288 0.67 0.460331
Target:  5'- cGAUGUgAGUCACCCggaagagccccAGCUCaccgagGCCAUCGa -3'
miRNA:   3'- aCUGUA-UCGGUGGG-----------UCGAG------CGGUAGC- -5'
11927 3' -55.9 NC_003278.1 + 20808 0.67 0.460331
Target:  5'- cGGCGcugaUGGCUACCguuggCAGcCUUGCCAUCa -3'
miRNA:   3'- aCUGU----AUCGGUGG-----GUC-GAGCGGUAGc -5'
11927 3' -55.9 NC_003278.1 + 20680 0.67 0.450078
Target:  5'- cGACAagaacagccccUGGCUGCgCgAGCUCGCCGcCGa -3'
miRNA:   3'- aCUGU-----------AUCGGUG-GgUCGAGCGGUaGC- -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 + 2374 0.68 0.429956
Target:  5'- cGGCAcGGCCACCCuGGCgcgggaugaacUCGCCuUCc -3'
miRNA:   3'- aCUGUaUCGGUGGG-UCG-----------AGCGGuAGc -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 + 15347 0.68 0.420095
Target:  5'- cGGCAUuuaCACCCgAGUUCGCCAaCGu -3'
miRNA:   3'- aCUGUAucgGUGGG-UCGAGCGGUaGC- -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 + 32163 0.68 0.40079
Target:  5'- cGGCGUagccgaAGCCACCgAGCagGCUGUUGa -3'
miRNA:   3'- aCUGUA------UCGGUGGgUCGagCGGUAGC- -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 + 32122 0.69 0.372917
Target:  5'- -aGCAgguGCCgGCCgCGGCUCGCCAgacgCGg -3'
miRNA:   3'- acUGUau-CGG-UGG-GUCGAGCGGUa---GC- -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.