miRNA display CGI


Results 1 - 20 of 24 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
1346 3' -56.1 NC_001335.1 + 46008 0.66 0.678287
Target:  5'- gCCGucCCGGUugucguugUCCcGGCGGG-CUUCGCc -3'
miRNA:   3'- -GGCu-GGUCG--------AGGuCUGCCCuGAAGUG- -5'
1346 3' -56.1 NC_001335.1 + 40384 0.66 0.667431
Target:  5'- gCUGAUCAaCUcuccCCAGGCGGGGCgcgCAUg -3'
miRNA:   3'- -GGCUGGUcGA----GGUCUGCCCUGaa-GUG- -5'
1346 3' -56.1 NC_001335.1 + 6045 0.66 0.667431
Target:  5'- -gGACgCAGaUCCGuACGcGGACUUCGCg -3'
miRNA:   3'- ggCUG-GUCgAGGUcUGC-CCUGAAGUG- -5'
1346 3' -56.1 NC_001335.1 + 17972 0.66 0.667431
Target:  5'- cUCGACCAGaUCCAGGCGcagaaGGACaUCc- -3'
miRNA:   3'- -GGCUGGUCgAGGUCUGC-----CCUGaAGug -5'
1346 3' -56.1 NC_001335.1 + 12796 0.66 0.656543
Target:  5'- aCCuAUCAGCUCCAGGCc-GACcugUCGCa -3'
miRNA:   3'- -GGcUGGUCGAGGUCUGccCUGa--AGUG- -5'
1346 3' -56.1 NC_001335.1 + 17163 0.67 0.63471
Target:  5'- cUCGGCCAGgUCgCAGGCGcGGuGCUgcagcUCGCu -3'
miRNA:   3'- -GGCUGGUCgAG-GUCUGC-CC-UGA-----AGUG- -5'
1346 3' -56.1 NC_001335.1 + 17213 0.67 0.612867
Target:  5'- gCCGucGCCAGCgCCGGgauguGCGGGGCcagacuggUCACc -3'
miRNA:   3'- -GGC--UGGUCGaGGUC-----UGCCCUGa-------AGUG- -5'
1346 3' -56.1 NC_001335.1 + 20252 0.67 0.612867
Target:  5'- aCUGGCCGGCgacggCCAGGuCGaGGGCgUCGa -3'
miRNA:   3'- -GGCUGGUCGa----GGUCU-GC-CCUGaAGUg -5'
1346 3' -56.1 NC_001335.1 + 36712 0.67 0.601966
Target:  5'- cUCGuuCCAGUUCCAGAaccugcuGGACUUCGa -3'
miRNA:   3'- -GGCu-GGUCGAGGUCUgc-----CCUGAAGUg -5'
1346 3' -56.1 NC_001335.1 + 31069 0.67 0.59109
Target:  5'- uUCGGCCGGCUCgGGcCGGucucaGGCUUgACc -3'
miRNA:   3'- -GGCUGGUCGAGgUCuGCC-----CUGAAgUG- -5'
1346 3' -56.1 NC_001335.1 + 12188 0.67 0.580248
Target:  5'- gCCGACCuGGCcCCAGACGagcuGGCggaagUCACc -3'
miRNA:   3'- -GGCUGG-UCGaGGUCUGCc---CUGa----AGUG- -5'
1346 3' -56.1 NC_001335.1 + 15431 0.68 0.569449
Target:  5'- gCGACCuGUUCCGcGACGaGGAUccgcuUUCGCc -3'
miRNA:   3'- gGCUGGuCGAGGU-CUGC-CCUG-----AAGUG- -5'
1346 3' -56.1 NC_001335.1 + 47308 0.68 0.557628
Target:  5'- gUCGACCAGCgagcguUCCcaugcgaggaGGACGaagucuuGGGCUUCGCu -3'
miRNA:   3'- -GGCUGGUCG------AGG----------UCUGC-------CCUGAAGUG- -5'
1346 3' -56.1 NC_001335.1 + 23171 0.68 0.548009
Target:  5'- uCCGACCAuGUggCCAGcACGGGGCcgUUCu- -3'
miRNA:   3'- -GGCUGGU-CGa-GGUC-UGCCCUG--AAGug -5'
1346 3' -56.1 NC_001335.1 + 24029 0.68 0.537383
Target:  5'- aCGACCAGCUCUacauAGGCGGcg---CACa -3'
miRNA:   3'- gGCUGGUCGAGG----UCUGCCcugaaGUG- -5'
1346 3' -56.1 NC_001335.1 + 6610 0.68 0.516353
Target:  5'- gCGGCCAGCUCgGGccuUGGGucgACUUgGCg -3'
miRNA:   3'- gGCUGGUCGAGgUCu--GCCC---UGAAgUG- -5'
1346 3' -56.1 NC_001335.1 + 7932 0.69 0.495663
Target:  5'- gCCGACgAGCgcggUCCAGuCGuuGGACUUCGa -3'
miRNA:   3'- -GGCUGgUCG----AGGUCuGC--CCUGAAGUg -5'
1346 3' -56.1 NC_001335.1 + 4700 0.69 0.465359
Target:  5'- uCUGGCCugguGCUgCAGAcCGGGGCUugguauggaggUCGCa -3'
miRNA:   3'- -GGCUGGu---CGAgGUCU-GCCCUGA-----------AGUG- -5'
1346 3' -56.1 NC_001335.1 + 38764 0.7 0.455473
Target:  5'- cUCGACgCAGCggagaCCGG-CGaGGGCUUCGCc -3'
miRNA:   3'- -GGCUG-GUCGa----GGUCuGC-CCUGAAGUG- -5'
1346 3' -56.1 NC_001335.1 + 43212 0.7 0.445701
Target:  5'- aUGACCuaugacguggaGGCUCCgaAGACGGGcgacuACUUCAUg -3'
miRNA:   3'- gGCUGG-----------UCGAGG--UCUGCCC-----UGAAGUG- -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.