miRNA display CGI


Results 1 - 20 of 41 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
27465 3' -57.1 NC_005869.1 + 6107 0.66 0.516815
Target:  5'- gUCUCCaucgcGGUGG-CGGCGGuCGcuGUAGCg -3'
miRNA:   3'- -GGAGGa----CCACCaGUCGCU-GCu-CGUCG- -5'
27465 3' -57.1 NC_005869.1 + 7832 0.66 0.516815
Target:  5'- ----gUGGUGG-CGGCGGCG-GUGGCu -3'
miRNA:   3'- ggaggACCACCaGUCGCUGCuCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 12580 0.66 0.516815
Target:  5'- aCCUCCaGGUacucaucuuuguGGUUGGCGuaguCGGGCAccugGCg -3'
miRNA:   3'- -GGAGGaCCA------------CCAGUCGCu---GCUCGU----CG- -5'
27465 3' -57.1 NC_005869.1 + 30163 0.66 0.506172
Target:  5'- cUCUCCggggugGGUGGUggUGGCGGCuGGGCuuccacuccAGCa -3'
miRNA:   3'- -GGAGGa-----CCACCA--GUCGCUG-CUCG---------UCG- -5'
27465 3' -57.1 NC_005869.1 + 12631 0.66 0.506172
Target:  5'- uCUUCCUGaccaaccGG-CAGCGGCGgcugccGGCGGCg -3'
miRNA:   3'- -GGAGGACca-----CCaGUCGCUGC------UCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 2999 0.66 0.486216
Target:  5'- uCUUCCUGGcuuuguguccaucacGGauccUCAGCu-CGAGCAGCg -3'
miRNA:   3'- -GGAGGACCa--------------CC----AGUCGcuGCUCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 31431 0.66 0.474835
Target:  5'- gCC-CCcGGUGGUcCAGCGcCuuGUAGCa -3'
miRNA:   3'- -GGaGGaCCACCA-GUCGCuGcuCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 11637 0.67 0.434628
Target:  5'- gCCUCCUGGuUGGcgCGGaaGAUGGGCuggacgucGGCg -3'
miRNA:   3'- -GGAGGACC-ACCa-GUCg-CUGCUCG--------UCG- -5'
27465 3' -57.1 NC_005869.1 + 11998 0.67 0.434628
Target:  5'- gCCUCCgGuGUGGcgggCGGCcguguugacgauGGCGcAGCAGCg -3'
miRNA:   3'- -GGAGGaC-CACCa---GUCG------------CUGC-UCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 18779 0.67 0.405803
Target:  5'- gCUCCU-GUGcGUCGGCGucCGGccGCGGCu -3'
miRNA:   3'- gGAGGAcCAC-CAGUCGCu-GCU--CGUCG- -5'
27465 3' -57.1 NC_005869.1 + 17812 0.68 0.400183
Target:  5'- aCUCCgcGGUGGguuccgcguggcgccUCGGCGcaGCG-GCGGCa -3'
miRNA:   3'- gGAGGa-CCACC---------------AGUCGC--UGCuCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 9412 0.68 0.396465
Target:  5'- gCUCgUGGgcGGUUGGCG-CG-GCAGCu -3'
miRNA:   3'- gGAGgACCa-CCAGUCGCuGCuCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 8516 0.68 0.387266
Target:  5'- gCCUCCgc--GGccUCGGCGGCG-GCGGCc -3'
miRNA:   3'- -GGAGGaccaCC--AGUCGCUGCuCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 19640 0.68 0.387266
Target:  5'- cCCUCCUGGUaGGggUAGCGcuuGCGGaugccCAGCa -3'
miRNA:   3'- -GGAGGACCA-CCa-GUCGC---UGCUc----GUCG- -5'
27465 3' -57.1 NC_005869.1 + 15282 0.68 0.387266
Target:  5'- gCCgcgggggCCgGGgcgGGggCGGCGGCG-GCAGCg -3'
miRNA:   3'- -GGa------GGaCCa--CCa-GUCGCUGCuCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 17834 0.68 0.37821
Target:  5'- uCCggCCgcgGGacgcgggGGUCGGCGAgGGGCGGg -3'
miRNA:   3'- -GGa-GGa--CCa------CCAGUCGCUgCUCGUCg -5'
27465 3' -57.1 NC_005869.1 + 23355 0.68 0.37821
Target:  5'- cCCUCCUcgcgcGGccGcGUCAGCGACG-GCgagGGCg -3'
miRNA:   3'- -GGAGGA-----CCa-C-CAGUCGCUGCuCG---UCG- -5'
27465 3' -57.1 NC_005869.1 + 18228 0.68 0.37821
Target:  5'- --gCCUGGaacagcgGGaCGGUGACGAGCGuGCg -3'
miRNA:   3'- ggaGGACCa------CCaGUCGCUGCUCGU-CG- -5'
27465 3' -57.1 NC_005869.1 + 17248 0.68 0.369296
Target:  5'- aCCUCCguggcGGUGGgCGGCaugauggaGACGgggaggcugGGCAGCa -3'
miRNA:   3'- -GGAGGa----CCACCaGUCG--------CUGC---------UCGUCG- -5'
27465 3' -57.1 NC_005869.1 + 10719 0.68 0.357061
Target:  5'- gCagCUGGUGGagauggaucucaaCAGCGAgaaCGGGCAGCg -3'
miRNA:   3'- gGagGACCACCa------------GUCGCU---GCUCGUCG- -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.