miRNA display CGI


Results 1 - 20 of 75 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
18397 3' -52.2 NC_004681.1 + 15338 1.13 0.001546
Target:  5'- gGCGUUCACCUACCAGCAGCUAACCGCc -3'
miRNA:   3'- -CGCAAGUGGAUGGUCGUCGAUUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 39155 0.76 0.392627
Target:  5'- uGCuGUUCACCgagACCGGCAuCcgGGCCGCg -3'
miRNA:   3'- -CG-CAAGUGGa--UGGUCGUcGa-UUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 38941 0.75 0.469259
Target:  5'- cCGgcCACCgUGCaucuGCGGCUGACCGCg -3'
miRNA:   3'- cGCaaGUGG-AUGgu--CGUCGAUUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 14544 0.75 0.470265
Target:  5'- gGCGUUCGCCUccGCCucgcgGGCGGCguagauuuucgccucGGCCGCc -3'
miRNA:   3'- -CGCAAGUGGA--UGG-----UCGUCGa--------------UUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 60042 0.75 0.479374
Target:  5'- gGCGgcucccgCACCUGgCAcCGGCUGACCGUg -3'
miRNA:   3'- -CGCaa-----GUGGAUgGUcGUCGAUUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 15458 0.74 0.499917
Target:  5'- gGCGaaCGCCuUACCcucGGCGGUUAGCUGCu -3'
miRNA:   3'- -CGCaaGUGG-AUGG---UCGUCGAUUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 42361 0.74 0.510334
Target:  5'- cCGUgaaggCGCCUuccgcgggcgggACCAGCAGCUcggcGGCCGUg -3'
miRNA:   3'- cGCAa----GUGGA------------UGGUCGUCGA----UUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 17631 0.73 0.552835
Target:  5'- cGCGUUCACgucgcacuaCUACCGGCccGCUGGCgGUu -3'
miRNA:   3'- -CGCAAGUG---------GAUGGUCGu-CGAUUGgCG- -5'
18397 3' -52.2 NC_004681.1 + 69142 0.73 0.585393
Target:  5'- ---cUCGCCUACCGGCucGGCUAcaccACCGg -3'
miRNA:   3'- cgcaAGUGGAUGGUCG--UCGAU----UGGCg -5'
18397 3' -52.2 NC_004681.1 + 29765 0.73 0.585393
Target:  5'- cGCGacCugCUGCCAGguGC-AGCCaGCu -3'
miRNA:   3'- -CGCaaGugGAUGGUCguCGaUUGG-CG- -5'
18397 3' -52.2 NC_004681.1 + 7317 0.72 0.596334
Target:  5'- cGCGgugUCGCCguUACCGGCA-CcGGCCGCc -3'
miRNA:   3'- -CGCa--AGUGG--AUGGUCGUcGaUUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 18491 0.71 0.673252
Target:  5'- gGCGUUUGCC-GCC-GCGGCc-GCCGCc -3'
miRNA:   3'- -CGCAAGUGGaUGGuCGUCGauUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 26991 0.71 0.695035
Target:  5'- uCGUUCAaggugUCUGgCAGCGGCUAcggauggcacACCGCc -3'
miRNA:   3'- cGCAAGU-----GGAUgGUCGUCGAU----------UGGCG- -5'
18397 3' -52.2 NC_004681.1 + 48904 0.71 0.706917
Target:  5'- cGCGggCACCgucccguacaagaccAuCCAGCAGC--GCCGCa -3'
miRNA:   3'- -CGCaaGUGGa--------------U-GGUCGUCGauUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 60164 0.71 0.710143
Target:  5'- cGCGUccucgauggccacggUCAgCCggUGCCAGguGCgggAGCCGCc -3'
miRNA:   3'- -CGCA---------------AGU-GG--AUGGUCguCGa--UUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 43813 0.7 0.727223
Target:  5'- -aGUUCACCgagGgCGGCGGUguACUGCg -3'
miRNA:   3'- cgCAAGUGGa--UgGUCGUCGauUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 18718 0.7 0.727223
Target:  5'- gGCG-UCGuCUUGCCAGCGGUguucucccCCGCg -3'
miRNA:   3'- -CGCaAGU-GGAUGGUCGUCGauu-----GGCG- -5'
18397 3' -52.2 NC_004681.1 + 24378 0.7 0.727223
Target:  5'- cGCGUUCuacgugaacgUCUACCAGguGCUGgaaaACgGCg -3'
miRNA:   3'- -CGCAAGu---------GGAUGGUCguCGAU----UGgCG- -5'
18397 3' -52.2 NC_004681.1 + 28925 0.7 0.736727
Target:  5'- cCGUgccugCGCCUGCCAGUcgguauaugacgaGGCU-GCCGUu -3'
miRNA:   3'- cGCAa----GUGGAUGGUCG-------------UCGAuUGGCG- -5'
18397 3' -52.2 NC_004681.1 + 14577 0.7 0.748227
Target:  5'- cGCagUCGCCUucggcACCGGCaAGCUGGCUGg -3'
miRNA:   3'- -CGcaAGUGGA-----UGGUCG-UCGAUUGGCg -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.