miRNA display CGI


Results 1 - 20 of 71 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
17116 3' -52.7 NC_004333.2 + 202 0.66 0.813643
Target:  5'- cGCcCGCCGGCUUggcuugCGCCauaaauguGCGUCGGGu -3'
miRNA:   3'- -CGuGCGGUCGAAa-----GUGGc-------UGUAGCUU- -5'
17116 3' -52.7 NC_004333.2 + 30564 0.66 0.813643
Target:  5'- cGUcUGCCAGCcgaaCACCgcGACAUCGAc -3'
miRNA:   3'- -CGuGCGGUCGaaa-GUGG--CUGUAGCUu -5'
17116 3' -52.7 NC_004333.2 + 46505 0.66 0.813643
Target:  5'- aGCGCGCCGGUggUCuguccugggaugACaCGGgGUCGGAu -3'
miRNA:   3'- -CGUGCGGUCGaaAG------------UG-GCUgUAGCUU- -5'
17116 3' -52.7 NC_004333.2 + 40377 0.66 0.813643
Target:  5'- aCACGCCGcGCg---GCCGAC-UCGAAc -3'
miRNA:   3'- cGUGCGGU-CGaaagUGGCUGuAGCUU- -5'
17116 3' -52.7 NC_004333.2 + 28739 0.66 0.803821
Target:  5'- aGCACGCacCGGaaUUCugCGACcgCGAu -3'
miRNA:   3'- -CGUGCG--GUCgaAAGugGCUGuaGCUu -5'
17116 3' -52.7 NC_004333.2 + 26666 0.66 0.794815
Target:  5'- uCGCGCCGGCUgccgauagcgucaggUCGCCagguguaugGAUGUCGAu -3'
miRNA:   3'- cGUGCGGUCGAa--------------AGUGG---------CUGUAGCUu -5'
17116 3' -52.7 NC_004333.2 + 46943 0.66 0.793805
Target:  5'- cGCGCGCagccaaggCGGCgcgCGCCGACGacaagcaauaaUCGAAc -3'
miRNA:   3'- -CGUGCG--------GUCGaaaGUGGCUGU-----------AGCUU- -5'
17116 3' -52.7 NC_004333.2 + 36832 0.66 0.793805
Target:  5'- uGCGCGCUacGGCcaUCGCCGGCcgCu-- -3'
miRNA:   3'- -CGUGCGG--UCGaaAGUGGCUGuaGcuu -5'
17116 3' -52.7 NC_004333.2 + 32604 0.66 0.793805
Target:  5'- uGCGCGCCGcGUaUUCGCgugcggcuuCGACGUUGAu -3'
miRNA:   3'- -CGUGCGGU-CGaAAGUG---------GCUGUAGCUu -5'
17116 3' -52.7 NC_004333.2 + 5612 0.66 0.793805
Target:  5'- uCGCGCCaAGCcgUCGCCGGCcaCGGc -3'
miRNA:   3'- cGUGCGG-UCGaaAGUGGCUGuaGCUu -5'
17116 3' -52.7 NC_004333.2 + 42766 0.66 0.793805
Target:  5'- cGC-CGCCcGCUcgUCgGCCGGCGUgGAGa -3'
miRNA:   3'- -CGuGCGGuCGAa-AG-UGGCUGUAgCUU- -5'
17116 3' -52.7 NC_004333.2 + 25287 0.66 0.783607
Target:  5'- -aACGgCAGCg-UCGCgGGCGUCGAc -3'
miRNA:   3'- cgUGCgGUCGaaAGUGgCUGUAGCUu -5'
17116 3' -52.7 NC_004333.2 + 8862 0.66 0.783607
Target:  5'- uCACGCCGGCgcaaggcaUUGCCGGCGacuucgccagcUCGAAc -3'
miRNA:   3'- cGUGCGGUCGaa------AGUGGCUGU-----------AGCUU- -5'
17116 3' -52.7 NC_004333.2 + 4061 0.66 0.783607
Target:  5'- uCACGCagCAGCUaaaCGCCGccaACAUCGAGa -3'
miRNA:   3'- cGUGCG--GUCGAaa-GUGGC---UGUAGCUU- -5'
17116 3' -52.7 NC_004333.2 + 39129 0.66 0.783607
Target:  5'- uGCGCGacggcaUCGGCUUgccgaUCACCGAUcUCGAc -3'
miRNA:   3'- -CGUGC------GGUCGAA-----AGUGGCUGuAGCUu -5'
17116 3' -52.7 NC_004333.2 + 38003 0.66 0.77324
Target:  5'- cGCGuCGCuCGGCUUccagugCGCCGACccguUCGAu -3'
miRNA:   3'- -CGU-GCG-GUCGAAa-----GUGGCUGu---AGCUu -5'
17116 3' -52.7 NC_004333.2 + 866 0.66 0.77324
Target:  5'- -uGCGCCGGCg---ACCGGCAcgcucaaggUCGAAg -3'
miRNA:   3'- cgUGCGGUCGaaagUGGCUGU---------AGCUU- -5'
17116 3' -52.7 NC_004333.2 + 13099 0.66 0.77324
Target:  5'- uGCGCaGCCAGUUgUCGauguaCGGCAUCGc- -3'
miRNA:   3'- -CGUG-CGGUCGAaAGUg----GCUGUAGCuu -5'
17116 3' -52.7 NC_004333.2 + 25410 0.66 0.762716
Target:  5'- aGCGCGCCuGCagcgUGCCGGCggCGGc -3'
miRNA:   3'- -CGUGCGGuCGaaa-GUGGCUGuaGCUu -5'
17116 3' -52.7 NC_004333.2 + 42079 0.66 0.762716
Target:  5'- cGCGCGCUucacGCg--CACCGACAg-GAAg -3'
miRNA:   3'- -CGUGCGGu---CGaaaGUGGCUGUagCUU- -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.