miRNA display CGI


Results 1 - 20 of 32 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
12780 3' -49.7 NC_003387.1 + 49821 1.12 0.002642
Target:  5'- cCGGUCGAAGUUCACCGAGUUGAUCGCc -3'
miRNA:   3'- -GCCAGCUUCAAGUGGCUCAACUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 33468 0.78 0.39791
Target:  5'- gCGGcCGAAG-UCGCCGAGgcGGUCGg -3'
miRNA:   3'- -GCCaGCUUCaAGUGGCUCaaCUAGCg -5'
12780 3' -49.7 NC_003387.1 + 50261 0.75 0.552712
Target:  5'- uGGcCGAcGUgcgCACCGAGgUGAUCGUg -3'
miRNA:   3'- gCCaGCUuCAa--GUGGCUCaACUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 46763 0.74 0.597402
Target:  5'- gGGUCGAgcgacucgcGGUUCGgCGAGcUGAUCGa -3'
miRNA:   3'- gCCAGCU---------UCAAGUgGCUCaACUAGCg -5'
12780 3' -49.7 NC_003387.1 + 34518 0.72 0.709814
Target:  5'- cCGGUCGucGcgUCGCCGAGgcGcaccUCGCa -3'
miRNA:   3'- -GCCAGCuuCa-AGUGGCUCaaCu---AGCG- -5'
12780 3' -49.7 NC_003387.1 + 10252 0.71 0.774136
Target:  5'- aCGG-CG-GGaUCGCCcGGUUGGUCGCg -3'
miRNA:   3'- -GCCaGCuUCaAGUGGcUCAACUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 30881 0.71 0.784386
Target:  5'- gCGGUagCGggGccaUCGCCGGgaaagcGUUGGUCGCc -3'
miRNA:   3'- -GCCA--GCuuCa--AGUGGCU------CAACUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 24662 0.7 0.804374
Target:  5'- aGGUCGccag-CGCCGAGggUGAcUCGCg -3'
miRNA:   3'- gCCAGCuucaaGUGGCUCa-ACU-AGCG- -5'
12780 3' -49.7 NC_003387.1 + 18197 0.7 0.823601
Target:  5'- gGGUCGAcGggCAgcCCGAG--GAUCGCg -3'
miRNA:   3'- gCCAGCUuCaaGU--GGCUCaaCUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 35598 0.7 0.841977
Target:  5'- cCGGUCGAGG-UCGUCGAGc--GUCGCc -3'
miRNA:   3'- -GCCAGCUUCaAGUGGCUCaacUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 46129 0.69 0.859424
Target:  5'- -cGUCGcGGaaCACCGGGUUGccguUCGCg -3'
miRNA:   3'- gcCAGCuUCaaGUGGCUCAACu---AGCG- -5'
12780 3' -49.7 NC_003387.1 + 23369 0.69 0.867775
Target:  5'- aCGGUC-AGG-UCGCCGAGgaUGAagCGCg -3'
miRNA:   3'- -GCCAGcUUCaAGUGGCUCa-ACUa-GCG- -5'
12780 3' -49.7 NC_003387.1 + 24687 0.69 0.875868
Target:  5'- uGGUCGucAGcUCGCCGAG--GAUCGg -3'
miRNA:   3'- gCCAGCu-UCaAGUGGCUCaaCUAGCg -5'
12780 3' -49.7 NC_003387.1 + 18811 0.69 0.883695
Target:  5'- gGGUCGGuuugcgcgcAGaUCGCCGAcg-GGUCGCc -3'
miRNA:   3'- gCCAGCU---------UCaAGUGGCUcaaCUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 1247 0.69 0.883695
Target:  5'- cCGGUCuGgcGUUCGCgGuGUcGGUUGCg -3'
miRNA:   3'- -GCCAG-CuuCAAGUGgCuCAaCUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 28933 0.69 0.883695
Target:  5'- gCGG-CGAGGUUCACgccUGAGU--GUCGUg -3'
miRNA:   3'- -GCCaGCUUCAAGUG---GCUCAacUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 39420 0.68 0.890507
Target:  5'- gGGUCGAGGUgaccgggCGCCGcaagcucGGU--AUCGCg -3'
miRNA:   3'- gCCAGCUUCAa------GUGGC-------UCAacUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 52068 0.68 0.898527
Target:  5'- -cGUCGAauGGUUCAUCGGGc--GUCGCu -3'
miRNA:   3'- gcCAGCU--UCAAGUGGCUCaacUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 47463 0.68 0.905522
Target:  5'- gCGaGUCGGcuguugAGUUCGCCGucggccAGcgGGUCGCg -3'
miRNA:   3'- -GC-CAGCU------UCAAGUGGC------UCaaCUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 2750 0.68 0.91865
Target:  5'- cCGGUgaacgugcgCGAGG-UCACCGAcgUGAUCGa -3'
miRNA:   3'- -GCCA---------GCUUCaAGUGGCUcaACUAGCg -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.