miRNA display CGI


Results 1 - 20 of 50 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
29957 3' -49.6 NC_006273.1 + 123324 0.66 0.999383
Target:  5'- -cAGCGcGUGUcgUA-CGCgCACCGUCa -3'
miRNA:   3'- aaUUGC-CACGaaAUaGCGaGUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 192616 0.68 0.993754
Target:  5'- -cGGCGGUGCagaaugCgacucgcggcguaGCUCGCCGUCg -3'
miRNA:   3'- aaUUGCCACGaaaua-G-------------CGAGUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 226501 0.68 0.996104
Target:  5'- gUGACGGUGggUUucGUCGCgccCACgGUCc -3'
miRNA:   3'- aAUUGCCACgaAA--UAGCGa--GUGgCAG- -5'
29957 3' -49.6 NC_006273.1 + 222983 0.67 0.997192
Target:  5'- -cAGCGGcgUGCgc-AUCuGCUCGCCGUa -3'
miRNA:   3'- aaUUGCC--ACGaaaUAG-CGAGUGGCAg -5'
29957 3' -49.6 NC_006273.1 + 71566 0.67 0.997979
Target:  5'- gUGACGGUGUUUUucguccCGCUuguuggcCACCGUg -3'
miRNA:   3'- aAUUGCCACGAAAua----GCGA-------GUGGCAg -5'
29957 3' -49.6 NC_006273.1 + 91901 0.67 0.998343
Target:  5'- -aAACGGUGUUUucUGUC-CU-ACCGUCa -3'
miRNA:   3'- aaUUGCCACGAA--AUAGcGAgUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 184434 0.67 0.998343
Target:  5'- -cGGCGGUGCUgg--CG-UCACCGg- -3'
miRNA:   3'- aaUUGCCACGAaauaGCgAGUGGCag -5'
29957 3' -49.6 NC_006273.1 + 811 0.66 0.998865
Target:  5'- --cGCGGUGUUUUuuuUCGCggaccagCGCCGg- -3'
miRNA:   3'- aauUGCCACGAAAu--AGCGa------GUGGCag -5'
29957 3' -49.6 NC_006273.1 + 68125 0.66 0.999068
Target:  5'- cUAGCGaGcgGCUagAUCGCUCGCUG-Cg -3'
miRNA:   3'- aAUUGC-Ca-CGAaaUAGCGAGUGGCaG- -5'
29957 3' -49.6 NC_006273.1 + 179482 0.69 0.991825
Target:  5'- --uGCGGUGUaaaaaacugUUGUgggCGUUCACCGUCg -3'
miRNA:   3'- aauUGCCACGa--------AAUA---GCGAGUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 102982 0.69 0.990123
Target:  5'- -aGACGGUGU---GUCGCgccagaccggagaCGCCGUCg -3'
miRNA:   3'- aaUUGCCACGaaaUAGCGa------------GUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 64117 0.69 0.987851
Target:  5'- --cGCGGUGCaacgcgCGCUaGCCGUCu -3'
miRNA:   3'- aauUGCCACGaaaua-GCGAgUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 233935 0.74 0.897786
Target:  5'- -gGAUGGccgGCcUUGUCGCcCACCGUCg -3'
miRNA:   3'- aaUUGCCa--CGaAAUAGCGaGUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 206679 0.74 0.91066
Target:  5'- aUAGCGGUGCgcagcaGgUCGCCGUCc -3'
miRNA:   3'- aAUUGCCACGaaauagCgAGUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 114009 0.73 0.917314
Target:  5'- gUGGCGGUGUUguaauuuccaccacgUGUCGCUCGCUG-Ca -3'
miRNA:   3'- aAUUGCCACGAa--------------AUAGCGAGUGGCaG- -5'
29957 3' -49.6 NC_006273.1 + 101152 0.72 0.956127
Target:  5'- gUGAUGGUGCg-----GUUCGCCGUCa -3'
miRNA:   3'- aAUUGCCACGaaauagCGAGUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 118825 0.71 0.96352
Target:  5'- --uGCGGcgUGCUgca-CGCUCACCGUUa -3'
miRNA:   3'- aauUGCC--ACGAaauaGCGAGUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 133053 0.71 0.975605
Target:  5'- uUUGACGGUGUggUGgccagCGCuuaUCACCGUUu -3'
miRNA:   3'- -AAUUGCCACGaaAUa----GCG---AGUGGCAG- -5'
29957 3' -49.6 NC_006273.1 + 225788 0.7 0.980407
Target:  5'- ---uCGGUGCUUUcgugauccCGCUCAgCGUCa -3'
miRNA:   3'- aauuGCCACGAAAua------GCGAGUgGCAG- -5'
29957 3' -49.6 NC_006273.1 + 189912 0.7 0.980407
Target:  5'- -cGACGGUGgUUgugaaCUCACCGUCg -3'
miRNA:   3'- aaUUGCCACgAAauagcGAGUGGCAG- -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.