miRNA display CGI


Results 1 - 20 of 102 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
17204 3' -55 NC_004333.2 + 41529 1.1 0.000664
Target:  5'- aAGCAACACCGGCACAUCGUCAGCGUCg -3'
miRNA:   3'- -UCGUUGUGGCCGUGUAGCAGUCGCAG- -5'
17204 3' -55 NC_004333.2 + 28903 0.69 0.46951
Target:  5'- cGGCGcAgGCCGGCGCAUacuugcCGUCGGUG-Cg -3'
miRNA:   3'- -UCGU-UgUGGCCGUGUA------GCAGUCGCaG- -5'
17204 3' -55 NC_004333.2 + 8652 0.69 0.490241
Target:  5'- cGCGGCGcCCGGCuugcucgugACGgugcCGUCGGCGUUc -3'
miRNA:   3'- uCGUUGU-GGCCG---------UGUa---GCAGUCGCAG- -5'
17204 3' -55 NC_004333.2 + 13832 0.66 0.688564
Target:  5'- cGGCGACgguucgacgACgGGCGCcgCGUCgAGCG-Ca -3'
miRNA:   3'- -UCGUUG---------UGgCCGUGuaGCAG-UCGCaG- -5'
17204 3' -55 NC_004333.2 + 23910 0.75 0.224285
Target:  5'- aAGCcgaa-CGGCGCGUaCGUCAGCGUCu -3'
miRNA:   3'- -UCGuugugGCCGUGUA-GCAGUCGCAG- -5'
17204 3' -55 NC_004333.2 + 44669 0.75 0.230361
Target:  5'- cGCGGCAUCGGCACAgaCGUCgaAGCGg- -3'
miRNA:   3'- uCGUUGUGGCCGUGUa-GCAG--UCGCag -5'
17204 3' -55 NC_004333.2 + 20553 0.73 0.276845
Target:  5'- uGGCcGCGCC-GCugAUCGUCGgcGCGUCg -3'
miRNA:   3'- -UCGuUGUGGcCGugUAGCAGU--CGCAG- -5'
17204 3' -55 NC_004333.2 + 23009 0.72 0.329702
Target:  5'- aAGCGgaacACGCCGcccgccuGCACugcCGUCAGCGUCu -3'
miRNA:   3'- -UCGU----UGUGGC-------CGUGua-GCAGUCGCAG- -5'
17204 3' -55 NC_004333.2 + 32997 0.71 0.399832
Target:  5'- cGCGAguCCGGCGauaccgcUAUCGggaUCGGCGUCg -3'
miRNA:   3'- uCGUUguGGCCGU-------GUAGC---AGUCGCAG- -5'
17204 3' -55 NC_004333.2 + 33442 0.69 0.46951
Target:  5'- cGCGAguCCGGCAgCAUUGgCAGCGg- -3'
miRNA:   3'- uCGUUguGGCCGU-GUAGCaGUCGCag -5'
17204 3' -55 NC_004333.2 + 38654 0.7 0.449235
Target:  5'- gGGCGGCACgGGCAaGUCGUaCuuCGUCg -3'
miRNA:   3'- -UCGUUGUGgCCGUgUAGCA-GucGCAG- -5'
17204 3' -55 NC_004333.2 + 6825 0.71 0.399832
Target:  5'- cGGCGGCACUccggcggGGCAC-UCGUCGGCu-- -3'
miRNA:   3'- -UCGUUGUGG-------CCGUGuAGCAGUCGcag -5'
17204 3' -55 NC_004333.2 + 2668 0.82 0.078901
Target:  5'- cGCAACGCCGGCAgcUUG-CAGCGUCg -3'
miRNA:   3'- uCGUUGUGGCCGUguAGCaGUCGCAG- -5'
17204 3' -55 NC_004333.2 + 11705 0.7 0.449235
Target:  5'- cGCAGCGCCGG-GCggCGUgcUGGCGUCc -3'
miRNA:   3'- uCGUUGUGGCCgUGuaGCA--GUCGCAG- -5'
17204 3' -55 NC_004333.2 + 47945 0.79 0.125298
Target:  5'- cGGCAAgcUGCuCGGCGCgcugGUCGUCGGCGUCa -3'
miRNA:   3'- -UCGUU--GUG-GCCGUG----UAGCAGUCGCAG- -5'
17204 3' -55 NC_004333.2 + 11843 0.71 0.382335
Target:  5'- cAGCuuGCGCCGGUACAUCG-CuucCGUCu -3'
miRNA:   3'- -UCGu-UGUGGCCGUGUAGCaGuc-GCAG- -5'
17204 3' -55 NC_004333.2 + 18415 0.7 0.459313
Target:  5'- cGCAACGCCucGCG-AUCGgCGGCGUCg -3'
miRNA:   3'- uCGUUGUGGc-CGUgUAGCaGUCGCAG- -5'
17204 3' -55 NC_004333.2 + 33065 0.69 0.46951
Target:  5'- cGGCcacgAGCGCUGGCAacUCgGUCAGCGUg -3'
miRNA:   3'- -UCG----UUGUGGCCGUguAG-CAGUCGCAg -5'
17204 3' -55 NC_004333.2 + 27634 0.75 0.201331
Target:  5'- cAGCAuuCACgGGCACAgCGUCGGCGa- -3'
miRNA:   3'- -UCGUu-GUGgCCGUGUaGCAGUCGCag -5'
17204 3' -55 NC_004333.2 + 12286 0.74 0.269772
Target:  5'- -aCGGCACCGGCggcgcGCAUUG-CGGCGUCc -3'
miRNA:   3'- ucGUUGUGGCCG-----UGUAGCaGUCGCAG- -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.