miRNA display CGI


Results 1 - 20 of 29 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
1519 3' -56.4 NC_001335.1 + 2853 0.66 0.648511
Target:  5'- -gUGCGGCCGucguGGCUuagauCGcCCAUCUCg -3'
miRNA:   3'- aaACGCUGGCu---UCGGc----GCaGGUAGGG- -5'
1519 3' -56.4 NC_001335.1 + 47778 0.66 0.637513
Target:  5'- --cGCGG-CGuuGCUGCGgugaugcCCGUCCCa -3'
miRNA:   3'- aaaCGCUgGCuuCGGCGCa------GGUAGGG- -5'
1519 3' -56.4 NC_001335.1 + 3115 0.66 0.637513
Target:  5'- --aGCGGCgGGAGCUGaugGUCC--CCCg -3'
miRNA:   3'- aaaCGCUGgCUUCGGCg--CAGGuaGGG- -5'
1519 3' -56.4 NC_001335.1 + 14474 0.66 0.62651
Target:  5'- -gUGUGGCCGAcGCU-CGUCCAaCCg -3'
miRNA:   3'- aaACGCUGGCUuCGGcGCAGGUaGGg -5'
1519 3' -56.4 NC_001335.1 + 22468 0.66 0.615513
Target:  5'- -cUGCauUCGAGGCUGCGgucugcagccacUCCAUCUCa -3'
miRNA:   3'- aaACGcuGGCUUCGGCGC------------AGGUAGGG- -5'
1519 3' -56.4 NC_001335.1 + 7571 0.66 0.615513
Target:  5'- -gUGuCGGCCGgcGCuuccagCGCGUCguacauCAUCCCg -3'
miRNA:   3'- aaAC-GCUGGCuuCG------GCGCAG------GUAGGG- -5'
1519 3' -56.4 NC_001335.1 + 11227 0.66 0.615513
Target:  5'- --cGCGGCgGuAAGCCGC--CgAUCCCg -3'
miRNA:   3'- aaaCGCUGgC-UUCGGCGcaGgUAGGG- -5'
1519 3' -56.4 NC_001335.1 + 23258 0.66 0.611117
Target:  5'- -gUGCccuGGCCGAGGuuGCGguuacgagccuggCCuUCCCa -3'
miRNA:   3'- aaACG---CUGGCUUCggCGCa------------GGuAGGG- -5'
1519 3' -56.4 NC_001335.1 + 41933 0.66 0.604529
Target:  5'- gUUUGCGGCCu-GGCCGauccgaGaUCCA-CCCg -3'
miRNA:   3'- -AAACGCUGGcuUCGGCg-----C-AGGUaGGG- -5'
1519 3' -56.4 NC_001335.1 + 25204 0.67 0.59357
Target:  5'- --cGCGAgCC-AGGCUucgGCGUCCAUCUUg -3'
miRNA:   3'- aaaCGCU-GGcUUCGG---CGCAGGUAGGG- -5'
1519 3' -56.4 NC_001335.1 + 33852 0.67 0.582643
Target:  5'- -aUGUGGCCGAGGuuGCa--CGgcUCCCa -3'
miRNA:   3'- aaACGCUGGCUUCggCGcagGU--AGGG- -5'
1519 3' -56.4 NC_001335.1 + 31746 0.67 0.539427
Target:  5'- --cGCuGGCaCGAGGCCGCGgaugCCGagaUCCg -3'
miRNA:   3'- aaaCG-CUG-GCUUCGGCGCa---GGU---AGGg -5'
1519 3' -56.4 NC_001335.1 + 44943 0.68 0.528784
Target:  5'- gUUGUGuuccCCGAcGCCGUGgCCGUCUCc -3'
miRNA:   3'- aAACGCu---GGCUuCGGCGCaGGUAGGG- -5'
1519 3' -56.4 NC_001335.1 + 17230 0.68 0.518219
Target:  5'- -cUGCGACCu-GGCCGagggCCGUCgCCa -3'
miRNA:   3'- aaACGCUGGcuUCGGCgca-GGUAG-GG- -5'
1519 3' -56.4 NC_001335.1 + 19515 0.68 0.493222
Target:  5'- --aGCGACC-AGGCCGCGcaggcggaagucgCCAUCgCg -3'
miRNA:   3'- aaaCGCUGGcUUCGGCGCa------------GGUAGgG- -5'
1519 3' -56.4 NC_001335.1 + 37708 0.69 0.465782
Target:  5'- --cGUGACCGgcGCgaacaGCGUucucacgugagcaCCAUCCCa -3'
miRNA:   3'- aaaCGCUGGCuuCGg----CGCA-------------GGUAGGG- -5'
1519 3' -56.4 NC_001335.1 + 12930 0.69 0.456812
Target:  5'- --aGCGACCGAcaCCGCGccccgauugUCUAUCCg -3'
miRNA:   3'- aaaCGCUGGCUucGGCGC---------AGGUAGGg -5'
1519 3' -56.4 NC_001335.1 + 30582 0.7 0.418115
Target:  5'- gUUGCcGCCGAAGUCGUGgcugaCCAagCCCu -3'
miRNA:   3'- aAACGcUGGCUUCGGCGCa----GGUa-GGG- -5'
1519 3' -56.4 NC_001335.1 + 15962 0.7 0.407828
Target:  5'- -aUGCagccaaGACCGAAGCUgccaaggGCGUUCAcgUCCCg -3'
miRNA:   3'- aaACG------CUGGCUUCGG-------CGCAGGU--AGGG- -5'
1519 3' -56.4 NC_001335.1 + 48898 0.7 0.390437
Target:  5'- --gGCuGACCGGAGaagcuaCCGCGUCCgGUCgCCg -3'
miRNA:   3'- aaaCG-CUGGCUUC------GGCGCAGG-UAG-GG- -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.