miRNA display CGI


Results 1 - 20 of 26 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
32227 3' -55.3 NC_007016.1 + 5245 0.66 0.927568
Target:  5'- uCCCUUCgcUGA-GGCGUCaauacucggCAACaGGCCa -3'
miRNA:   3'- -GGGAAG--ACUaCCGUAG---------GUUGcCCGGg -5'
32227 3' -55.3 NC_007016.1 + 17381 0.66 0.927568
Target:  5'- aCC--CUGGUGGCcgCCGcCGcGCCCu -3'
miRNA:   3'- gGGaaGACUACCGuaGGUuGCcCGGG- -5'
32227 3' -55.3 NC_007016.1 + 26229 0.66 0.922119
Target:  5'- aCCggCUGcGUGGCAaggCCGGCGugguGGCUCg -3'
miRNA:   3'- gGGaaGAC-UACCGUa--GGUUGC----CCGGG- -5'
32227 3' -55.3 NC_007016.1 + 22995 0.66 0.916428
Target:  5'- gUCCauuggacgCUGgcGGCAgCCAAUGGGCgCg -3'
miRNA:   3'- -GGGaa------GACuaCCGUaGGUUGCCCGgG- -5'
32227 3' -55.3 NC_007016.1 + 6235 0.66 0.916428
Target:  5'- aCCCUauccUCUGAUGagucGCAaCCGucaaauAUGGGCCa -3'
miRNA:   3'- -GGGA----AGACUAC----CGUaGGU------UGCCCGGg -5'
32227 3' -55.3 NC_007016.1 + 62716 0.66 0.916428
Target:  5'- aCCgCUUUUGGUGGU---CAACGG-CCCg -3'
miRNA:   3'- -GG-GAAGACUACCGuagGUUGCCcGGG- -5'
32227 3' -55.3 NC_007016.1 + 130185 0.66 0.916428
Target:  5'- gCCggg-GgcGGCggCC-GCGGGCCCg -3'
miRNA:   3'- gGGaagaCuaCCGuaGGuUGCCCGGG- -5'
32227 3' -55.3 NC_007016.1 + 73696 0.66 0.897913
Target:  5'- gCCCgccgcCUG--GGCGUCUGGCGGGCa- -3'
miRNA:   3'- -GGGaa---GACuaCCGUAGGUUGCCCGgg -5'
32227 3' -55.3 NC_007016.1 + 121256 0.66 0.897913
Target:  5'- uCCCUUCcaGA-GG-AUCCGAaacacgGGGCCCa -3'
miRNA:   3'- -GGGAAGa-CUaCCgUAGGUUg-----CCCGGG- -5'
32227 3' -55.3 NC_007016.1 + 123555 0.66 0.895944
Target:  5'- uCCUUUCUGuagaguuccugcgcgGGCGUgaAGCuGGGCCCc -3'
miRNA:   3'- -GGGAAGACua-------------CCGUAggUUG-CCCGGG- -5'
32227 3' -55.3 NC_007016.1 + 26085 0.67 0.891268
Target:  5'- gCCggCUGcacgcUGGCcUCCAcCgGGGCCCg -3'
miRNA:   3'- gGGaaGACu----ACCGuAGGUuG-CCCGGG- -5'
32227 3' -55.3 NC_007016.1 + 107373 0.67 0.891268
Target:  5'- gCCCUUCUGA-GGag-CCugacguuuAgGGGCCUg -3'
miRNA:   3'- -GGGAAGACUaCCguaGGu-------UgCCCGGG- -5'
32227 3' -55.3 NC_007016.1 + 20223 0.67 0.891268
Target:  5'- gCCCUcCUGAc-GUAUCUAauagcgcacgucACGGGCCUg -3'
miRNA:   3'- -GGGAaGACUacCGUAGGU------------UGCCCGGG- -5'
32227 3' -55.3 NC_007016.1 + 13451 0.67 0.883693
Target:  5'- gCCUgcagacgUCUGGUGGCggCUgAACGGcGCCg -3'
miRNA:   3'- gGGA-------AGACUACCGuaGG-UUGCC-CGGg -5'
32227 3' -55.3 NC_007016.1 + 116365 0.67 0.862427
Target:  5'- ------aGGUGGCG-CCGAUGGGCCg -3'
miRNA:   3'- gggaagaCUACCGUaGGUUGCCCGGg -5'
32227 3' -55.3 NC_007016.1 + 125268 0.68 0.838568
Target:  5'- uCCCagguggCUGAUGGUAga-GGCGGGUUCg -3'
miRNA:   3'- -GGGaa----GACUACCGUaggUUGCCCGGG- -5'
32227 3' -55.3 NC_007016.1 + 124091 0.68 0.838568
Target:  5'- uCCCggggUCUGGUGGUGUCC----GGCCa -3'
miRNA:   3'- -GGGa---AGACUACCGUAGGuugcCCGGg -5'
32227 3' -55.3 NC_007016.1 + 49670 0.68 0.837742
Target:  5'- gUUUUCUGcUGGUAUCCAACGuucugccggaaucGcGCCCg -3'
miRNA:   3'- gGGAAGACuACCGUAGGUUGC-------------C-CGGG- -5'
32227 3' -55.3 NC_007016.1 + 115896 0.68 0.812998
Target:  5'- aCCCggC-GAUGGCA-CCG-CGGGCgCg -3'
miRNA:   3'- -GGGaaGaCUACCGUaGGUuGCCCGgG- -5'
32227 3' -55.3 NC_007016.1 + 122966 0.69 0.757602
Target:  5'- aCCCgUCUGccaacucggccGUGGCcgCCAucacgucaccggACGGGCgCCa -3'
miRNA:   3'- -GGGaAGAC-----------UACCGuaGGU------------UGCCCG-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.