miRNA display CGI


Results 1 - 20 of 34 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
12389 5' -54.9 NC_003324.1 + 54491 0.72 0.402114
Target:  5'- gCC-CGGCAGCgGUCC-CGggGAGUUGCCg -3'
miRNA:   3'- -GGcGUCGUCG-UAGGaGCa-CUCGAUGG- -5'
12389 5' -54.9 NC_003324.1 + 54316 0.68 0.629217
Target:  5'- aCCGguGCcGCGcCUUCGcuuUGAGCaGCCg -3'
miRNA:   3'- -GGCguCGuCGUaGGAGC---ACUCGaUGG- -5'
12389 5' -54.9 NC_003324.1 + 53654 0.71 0.439884
Target:  5'- aCCGCcguGCGGCA-CCUUG-GAGC-GCCg -3'
miRNA:   3'- -GGCGu--CGUCGUaGGAGCaCUCGaUGG- -5'
12389 5' -54.9 NC_003324.1 + 53293 0.66 0.737471
Target:  5'- uCCGCAGCuu--UCgUUGUGAagccggccgccaGCUACCa -3'
miRNA:   3'- -GGCGUCGucguAGgAGCACU------------CGAUGG- -5'
12389 5' -54.9 NC_003324.1 + 47018 0.72 0.402114
Target:  5'- aCCGCAGCGGCuaUCUCGUcGAuugaggcgGUUGCCu -3'
miRNA:   3'- -GGCGUCGUCGuaGGAGCA-CU--------CGAUGG- -5'
12389 5' -54.9 NC_003324.1 + 45981 0.67 0.705593
Target:  5'- -aGCGGCGGCG-CCgaaUCGagGAGCgUGCCc -3'
miRNA:   3'- ggCGUCGUCGUaGG---AGCa-CUCG-AUGG- -5'
12389 5' -54.9 NC_003324.1 + 44877 1.15 0.000475
Target:  5'- cCCGCAGCAGCAUCCUCGUGAGCUACCa -3'
miRNA:   3'- -GGCGUCGUCGUAGGAGCACUCGAUGG- -5'
12389 5' -54.9 NC_003324.1 + 44827 0.67 0.683965
Target:  5'- -gGgGGCGGCGUCauuggCGUGcccgcuGCUGCCg -3'
miRNA:   3'- ggCgUCGUCGUAGga---GCACu-----CGAUGG- -5'
12389 5' -54.9 NC_003324.1 + 43131 0.67 0.671979
Target:  5'- cCCGCAGguuGcCGUCCUCGacggcgagcuuguUGAGCgagcGCCa -3'
miRNA:   3'- -GGCGUCgu-C-GUAGGAGC-------------ACUCGa---UGG- -5'
12389 5' -54.9 NC_003324.1 + 41916 0.66 0.737471
Target:  5'- gUCGCAGUcgccGCAUCCg---GAGgUACCg -3'
miRNA:   3'- -GGCGUCGu---CGUAGGagcaCUCgAUGG- -5'
12389 5' -54.9 NC_003324.1 + 38648 0.66 0.726935
Target:  5'- aCCGCAucacGC-GCGUgCCcuaUCGcccgGAGCUGCCg -3'
miRNA:   3'- -GGCGU----CGuCGUA-GG---AGCa---CUCGAUGG- -5'
12389 5' -54.9 NC_003324.1 + 37179 0.69 0.542194
Target:  5'- gCCGCGGCAGgAUCUugaaaUCGguacGGCUGCg -3'
miRNA:   3'- -GGCGUCGUCgUAGG-----AGCac--UCGAUGg -5'
12389 5' -54.9 NC_003324.1 + 35038 0.71 0.459512
Target:  5'- gCgGCAGCAGCggCCugaUCGUcGucGCUGCCg -3'
miRNA:   3'- -GgCGUCGUCGuaGG---AGCA-Cu-CGAUGG- -5'
12389 5' -54.9 NC_003324.1 + 34990 0.66 0.7479
Target:  5'- uCCGagccuGCAGCGUUUgCGUuuGCUGCCg -3'
miRNA:   3'- -GGCgu---CGUCGUAGGaGCAcuCGAUGG- -5'
12389 5' -54.9 NC_003324.1 + 33007 0.71 0.430251
Target:  5'- cCCGCAGUGGCGUCUUUGUcaauGaAGUUGCa -3'
miRNA:   3'- -GGCGUCGUCGUAGGAGCA----C-UCGAUGg -5'
12389 5' -54.9 NC_003324.1 + 31146 0.74 0.30194
Target:  5'- gCGCuGCAgGCcugCCUCGcgGAGCUGCCc -3'
miRNA:   3'- gGCGuCGU-CGua-GGAGCa-CUCGAUGG- -5'
12389 5' -54.9 NC_003324.1 + 30675 0.71 0.43409
Target:  5'- uCCG-GGCGGCAUCCUCGcucgcggcaaguaucUGAGCaugaucGCCg -3'
miRNA:   3'- -GGCgUCGUCGUAGGAGC---------------ACUCGa-----UGG- -5'
12389 5' -54.9 NC_003324.1 + 28469 0.68 0.607265
Target:  5'- cCCGCuguugGGCGGUAUCCgUUG-GAGCUuugggacaagGCCg -3'
miRNA:   3'- -GGCG-----UCGUCGUAGG-AGCaCUCGA----------UGG- -5'
12389 5' -54.9 NC_003324.1 + 26725 0.7 0.520981
Target:  5'- -gGCAGguGuCAcCCUCGccGGCUACCa -3'
miRNA:   3'- ggCGUCguC-GUaGGAGCacUCGAUGG- -5'
12389 5' -54.9 NC_003324.1 + 25294 0.66 0.746862
Target:  5'- aCCGuCAGuCGGCGcaggcaacuUCCUUggucucaugccugGUGAGCUGCg -3'
miRNA:   3'- -GGC-GUC-GUCGU---------AGGAG-------------CACUCGAUGg -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.