miRNA display CGI


Results 1 - 16 of 16 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
11932 3' -50.6 NC_003278.1 + 6034 0.66 0.874059
Target:  5'- gUGG-CGAUCuucucgGUUGCCGGcuGGUCc- -3'
miRNA:   3'- gACCuGCUAGua----CAACGGCU--UCAGcg -5'
11932 3' -50.6 NC_003278.1 + 22506 0.66 0.874059
Target:  5'- gCUGGGCGAUgucGUUGCCGucGacCGUg -3'
miRNA:   3'- -GACCUGCUAguaCAACGGCuuCa-GCG- -5'
11932 3' -50.6 NC_003278.1 + 20329 0.66 0.865644
Target:  5'- cCUGGACGccagcGUUGCCGAgcagGGcCGUg -3'
miRNA:   3'- -GACCUGCuaguaCAACGGCU----UCaGCG- -5'
11932 3' -50.6 NC_003278.1 + 31450 0.66 0.856956
Target:  5'- gCUGGGCGAgugCGaGccGCCGAcguGGUUGUg -3'
miRNA:   3'- -GACCUGCUa--GUaCaaCGGCU---UCAGCG- -5'
11932 3' -50.6 NC_003278.1 + 26949 0.66 0.856956
Target:  5'- cCUGGccgcACGA-CA---UGCCGAAGUCGg -3'
miRNA:   3'- -GACC----UGCUaGUacaACGGCUUCAGCg -5'
11932 3' -50.6 NC_003278.1 + 3606 0.66 0.856956
Target:  5'- -aGGGCGAcccgaUCAUccUGCCGAAcggCGCg -3'
miRNA:   3'- gaCCUGCU-----AGUAcaACGGCUUca-GCG- -5'
11932 3' -50.6 NC_003278.1 + 7778 0.66 0.848004
Target:  5'- uCUGGuuaGCGAUCAcgGUgGCCauuAGUUGCa -3'
miRNA:   3'- -GACC---UGCUAGUa-CAaCGGcu-UCAGCG- -5'
11932 3' -50.6 NC_003278.1 + 30648 0.66 0.848004
Target:  5'- uCUGG-CGggCGUG-UGCCGAA--CGCa -3'
miRNA:   3'- -GACCuGCuaGUACaACGGCUUcaGCG- -5'
11932 3' -50.6 NC_003278.1 + 28775 0.66 0.827427
Target:  5'- gCUGGAUGuUCAUcgaugacgcgGCCGAGcgcGUCGCg -3'
miRNA:   3'- -GACCUGCuAGUAcaa-------CGGCUU---CAGCG- -5'
11932 3' -50.6 NC_003278.1 + 32782 0.67 0.809756
Target:  5'- aCUGGccGCGAUCAcGgUGCCGGcugggccgucccAGUCGg -3'
miRNA:   3'- -GACC--UGCUAGUaCaACGGCU------------UCAGCg -5'
11932 3' -50.6 NC_003278.1 + 12967 0.67 0.799641
Target:  5'- cCUGGGCGcuggccagCAUGUUGgCGAgAGcCGCc -3'
miRNA:   3'- -GACCUGCua------GUACAACgGCU-UCaGCG- -5'
11932 3' -50.6 NC_003278.1 + 3501 0.68 0.757343
Target:  5'- uCUGGACGuUCAaGUUcaaggaGCUGAacaaGGUCGCc -3'
miRNA:   3'- -GACCUGCuAGUaCAA------CGGCU----UCAGCG- -5'
11932 3' -50.6 NC_003278.1 + 15719 0.68 0.735277
Target:  5'- uUGGACGaAUCGgucGUUGCgGggGaaGCg -3'
miRNA:   3'- gACCUGC-UAGUa--CAACGgCuuCagCG- -5'
11932 3' -50.6 NC_003278.1 + 32157 0.71 0.596821
Target:  5'- gCUGGGCGGUCug---GCCc-AGUCGCg -3'
miRNA:   3'- -GACCUGCUAGuacaaCGGcuUCAGCG- -5'
11932 3' -50.6 NC_003278.1 + 19649 0.73 0.473155
Target:  5'- -aGGucGCGcUCAUGcugGCCGAGGUUGCg -3'
miRNA:   3'- gaCC--UGCuAGUACaa-CGGCUUCAGCG- -5'
11932 3' -50.6 NC_003278.1 + 21342 1.13 0.001057
Target:  5'- cCUGGACGAUCAUGUUGCCGAAGUCGCu -3'
miRNA:   3'- -GACCUGCUAGUACAACGGCUUCAGCG- -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.