miRNA display CGI


Results 1 - 20 of 26 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
17086 3' -56.3 NC_004333.2 + 2577 0.66 0.632178
Target:  5'- cAUGUaCGUCGCGCccGaucucgaggCAGCGUCGa -3'
miRNA:   3'- cUACG-GCAGCGCGuaCa--------GUCGCAGCa -5'
17086 3' -56.3 NC_004333.2 + 42585 0.66 0.632178
Target:  5'- -uUGCCGucUCGCGCGUcuucgaugaucGUCAGCG-Ca- -3'
miRNA:   3'- cuACGGC--AGCGCGUA-----------CAGUCGCaGca -5'
17086 3' -56.3 NC_004333.2 + 9352 0.66 0.621097
Target:  5'- --cGUCGUCgGCGCg---CGGCGUCGg -3'
miRNA:   3'- cuaCGGCAG-CGCGuacaGUCGCAGCa -5'
17086 3' -56.3 NC_004333.2 + 23347 0.66 0.610027
Target:  5'- --gGCCGccugCGCGUuUGUgAGCGUCa- -3'
miRNA:   3'- cuaCGGCa---GCGCGuACAgUCGCAGca -5'
17086 3' -56.3 NC_004333.2 + 33285 0.66 0.610027
Target:  5'- --aGCCGagCGCGCGcGUU-GCGUCGg -3'
miRNA:   3'- cuaCGGCa-GCGCGUaCAGuCGCAGCa -5'
17086 3' -56.3 NC_004333.2 + 47952 0.66 0.610027
Target:  5'- -cUGCuCGgCGCGCuggucGUCGGCGUCa- -3'
miRNA:   3'- cuACG-GCaGCGCGua---CAGUCGCAGca -5'
17086 3' -56.3 NC_004333.2 + 30395 0.66 0.610027
Target:  5'- uGcgGCCG-CGCGUAUGgcgggUGGUGUCGc -3'
miRNA:   3'- -CuaCGGCaGCGCGUACa----GUCGCAGCa -5'
17086 3' -56.3 NC_004333.2 + 37219 0.66 0.608921
Target:  5'- gGAUGCCGcacgugaUCGCGuCGUG-CGGCGUg-- -3'
miRNA:   3'- -CUACGGC-------AGCGC-GUACaGUCGCAgca -5'
17086 3' -56.3 NC_004333.2 + 18401 0.66 0.602289
Target:  5'- cGUGCCGUCcgaaGCGCAacgccucgcgaucggCGGCGUCGa -3'
miRNA:   3'- cUACGGCAG----CGCGUaca------------GUCGCAGCa -5'
17086 3' -56.3 NC_004333.2 + 27228 0.66 0.587953
Target:  5'- --cGCCGUCGUGaucg-CAGCGUCu- -3'
miRNA:   3'- cuaCGGCAGCGCguacaGUCGCAGca -5'
17086 3' -56.3 NC_004333.2 + 16851 0.66 0.587953
Target:  5'- uGAUGaaGUCGCGguacgccuugcCGUGUCGGCGcagaUCGUc -3'
miRNA:   3'- -CUACggCAGCGC-----------GUACAGUCGC----AGCA- -5'
17086 3' -56.3 NC_004333.2 + 2758 0.67 0.566029
Target:  5'- cGcgGCCGcCGUGCcgGUC-GCGuUCGUc -3'
miRNA:   3'- -CuaCGGCaGCGCGuaCAGuCGC-AGCA- -5'
17086 3' -56.3 NC_004333.2 + 27623 0.68 0.501797
Target:  5'- cAUGCCGUUGCcaGCAUucacGggcaCAGCGUCGg -3'
miRNA:   3'- cUACGGCAGCG--CGUA----Ca---GUCGCAGCa -5'
17086 3' -56.3 NC_004333.2 + 1831 0.68 0.500751
Target:  5'- --cGCCGUCGCuauaccaaaguguGCAgGcCGGUGUCGUg -3'
miRNA:   3'- cuaCGGCAGCG-------------CGUaCaGUCGCAGCA- -5'
17086 3' -56.3 NC_004333.2 + 41491 0.68 0.491389
Target:  5'- --aGUCGgaGCGCGUGUUAgGCGUCGa -3'
miRNA:   3'- cuaCGGCagCGCGUACAGU-CGCAGCa -5'
17086 3' -56.3 NC_004333.2 + 10191 0.68 0.470881
Target:  5'- aGAUGCaGUCGCGCAcgcgcaUG-CGGcCGUCGg -3'
miRNA:   3'- -CUACGgCAGCGCGU------ACaGUC-GCAGCa -5'
17086 3' -56.3 NC_004333.2 + 42291 0.68 0.460791
Target:  5'- --gGCCGUCGUGCG-GUCGaaGUCGa -3'
miRNA:   3'- cuaCGGCAGCGCGUaCAGUcgCAGCa -5'
17086 3' -56.3 NC_004333.2 + 13883 0.69 0.431232
Target:  5'- --cGCCGUCGCuGCGUcUCGcGCGUCa- -3'
miRNA:   3'- cuaCGGCAGCG-CGUAcAGU-CGCAGca -5'
17086 3' -56.3 NC_004333.2 + 22724 0.7 0.393606
Target:  5'- --aGCCGuUCGCGCAUGguugCcugGGCGUCa- -3'
miRNA:   3'- cuaCGGC-AGCGCGUACa---G---UCGCAGca -5'
17086 3' -56.3 NC_004333.2 + 23911 0.71 0.333105
Target:  5'- --aGCCGaacggCGCGUAcGUCAGCGUCu- -3'
miRNA:   3'- cuaCGGCa----GCGCGUaCAGUCGCAGca -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.