miRNA display CGI


Results 1 - 20 of 154 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
28816 3' -58 NC_006146.1 + 52859 0.75 0.403019
Target:  5'- cCCCCgcccgggGGCUCCAGGUCCgugGUcCUcgcGGCCc -3'
miRNA:   3'- -GGGG-------CCGAGGUCUAGGa--CAuGA---CCGG- -5'
28816 3' -58 NC_006146.1 + 129815 0.7 0.677748
Target:  5'- gCCUGGCUCCcc-UCgCUGUccCUGGCCu -3'
miRNA:   3'- gGGGCCGAGGucuAG-GACAu-GACCGG- -5'
28816 3' -58 NC_006146.1 + 69249 0.7 0.691514
Target:  5'- cCCCCagGGCcaggUCCGGGUCCUccucgaagaugcaGCUGGCCc -3'
miRNA:   3'- -GGGG--CCG----AGGUCUAGGAca-----------UGACCGG- -5'
28816 3' -58 NC_006146.1 + 48160 0.66 0.885349
Target:  5'- aCCCCucguagggGGcCUCCAGAUCCgUGUugaccgucgccgACUuGGCa -3'
miRNA:   3'- -GGGG--------CC-GAGGUCUAGG-ACA------------UGA-CCGg -5'
28816 3' -58 NC_006146.1 + 137736 0.72 0.530987
Target:  5'- aCCCGGUUCUGGAgcUCCUGgggguccgcucguccGCUGGUCc -3'
miRNA:   3'- gGGGCCGAGGUCU--AGGACa--------------UGACCGG- -5'
28816 3' -58 NC_006146.1 + 47215 0.72 0.539647
Target:  5'- cCCCUGGCcgccuccgCCAcGAUCUUGaGCUGGCg -3'
miRNA:   3'- -GGGGCCGa-------GGU-CUAGGACaUGACCGg -5'
28816 3' -58 NC_006146.1 + 148512 0.72 0.566874
Target:  5'- aCCCCGGggCCAGGguggagagcaUGcUGCUGGCCa -3'
miRNA:   3'- -GGGGCCgaGGUCUagg-------AC-AUGACCGG- -5'
28816 3' -58 NC_006146.1 + 160171 0.72 0.568833
Target:  5'- gCCCCGGCUggcucuggcugcCCAGAUuauccucgccagUCUGUGCUG-CCu -3'
miRNA:   3'- -GGGGCCGA------------GGUCUA------------GGACAUGACcGG- -5'
28816 3' -58 NC_006146.1 + 71449 0.71 0.608307
Target:  5'- cCCCCGGCUCUGGGgauguggaaCUGUuuccagGGCCu -3'
miRNA:   3'- -GGGGCCGAGGUCUag-------GACAuga---CCGG- -5'
28816 3' -58 NC_006146.1 + 33320 0.7 0.661932
Target:  5'- gUCCUggGGCUCCgGGGUCCggGUGCuccggggcagccgggUGGCCg -3'
miRNA:   3'- -GGGG--CCGAGG-UCUAGGa-CAUG---------------ACCGG- -5'
28816 3' -58 NC_006146.1 + 75238 0.71 0.618234
Target:  5'- gCCCCGGCUacacauaugCCAGAUCCcaugGCaggGGCUu -3'
miRNA:   3'- -GGGGCCGA---------GGUCUAGGaca-UGa--CCGG- -5'
28816 3' -58 NC_006146.1 + 37587 0.71 0.578654
Target:  5'- uCCCCGcaCUCUAGAUCCUuaa-UGGCCu -3'
miRNA:   3'- -GGGGCc-GAGGUCUAGGAcaugACCGG- -5'
28816 3' -58 NC_006146.1 + 41430 0.74 0.446828
Target:  5'- aCCCgaguuuucuaGGCUCCuAGAUCUgggGCUGGCCu -3'
miRNA:   3'- gGGG----------CCGAGG-UCUAGGacaUGACCGG- -5'
28816 3' -58 NC_006146.1 + 152266 0.7 0.63811
Target:  5'- uCCCUGGCUgCCuGGAgUgCUcUGCUGGCCa -3'
miRNA:   3'- -GGGGCCGA-GG-UCU-AgGAcAUGACCGG- -5'
28816 3' -58 NC_006146.1 + 150951 0.74 0.446828
Target:  5'- cCCCCGGC-CCuGAUCUUGcccagGgaGGCCg -3'
miRNA:   3'- -GGGGCCGaGGuCUAGGACa----UgaCCGG- -5'
28816 3' -58 NC_006146.1 + 65713 0.72 0.568833
Target:  5'- cCCCCGGCUCCccggccccGGUCaCUGgACggugcGGCCu -3'
miRNA:   3'- -GGGGCCGAGGu-------CUAG-GACaUGa----CCGG- -5'
28816 3' -58 NC_006146.1 + 40716 0.7 0.657968
Target:  5'- cCCUCGGgUCuCAGGUCCgGgcagGCgGGCCc -3'
miRNA:   3'- -GGGGCCgAG-GUCUAGGaCa---UGaCCGG- -5'
28816 3' -58 NC_006146.1 + 41349 0.7 0.687589
Target:  5'- aUCUGGC-CCAGggCCUggcgGUGgUGGCCg -3'
miRNA:   3'- gGGGCCGaGGUCuaGGA----CAUgACCGG- -5'
28816 3' -58 NC_006146.1 + 53339 0.72 0.51952
Target:  5'- gCCCGGCggCCgcggggcggcgugAGGUCUUG-GCUGGCCc -3'
miRNA:   3'- gGGGCCGa-GG-------------UCUAGGACaUGACCGG- -5'
28816 3' -58 NC_006146.1 + 130028 0.72 0.539647
Target:  5'- gCCCCGGCUCCGucUCCggaccGCgagccgGGCCu -3'
miRNA:   3'- -GGGGCCGAGGUcuAGGaca--UGa-----CCGG- -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.