miRNA display CGI


Results 1 - 20 of 35 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
1402 3' -56.2 NC_001335.1 + 29772 0.66 0.709129
Target:  5'- uCGCGgUCGcUCGCCGagaaguGGUUGGcCGAUCa -3'
miRNA:   3'- -GCGUgAGU-AGCGGC------CUAGCC-GCUAGg -5'
1402 3' -56.2 NC_001335.1 + 10671 0.66 0.709129
Target:  5'- aCGCGCUCcgaCGCCGccuagcacgCGGCGAaaucaccaugUCCa -3'
miRNA:   3'- -GCGUGAGua-GCGGCcua------GCCGCU----------AGG- -5'
1402 3' -56.2 NC_001335.1 + 3955 0.66 0.698508
Target:  5'- gGCugUaguaGCCGGaAUCGGCugcagcccaaggGAUCCg -3'
miRNA:   3'- gCGugAguagCGGCC-UAGCCG------------CUAGG- -5'
1402 3' -56.2 NC_001335.1 + 7501 0.66 0.698508
Target:  5'- gGUACUCGUCccauGCCuucUCGGCGA-CCg -3'
miRNA:   3'- gCGUGAGUAG----CGGccuAGCCGCUaGG- -5'
1402 3' -56.2 NC_001335.1 + 24831 0.66 0.698508
Target:  5'- uCGCGCUCAUCgGCUGccuUCuGCucGAUCCg -3'
miRNA:   3'- -GCGUGAGUAG-CGGCcu-AGcCG--CUAGG- -5'
1402 3' -56.2 NC_001335.1 + 39307 0.66 0.686754
Target:  5'- aCGCGCg---UGCCGaGggCGGCGAagaggucUCCg -3'
miRNA:   3'- -GCGUGaguaGCGGC-CuaGCCGCU-------AGG- -5'
1402 3' -56.2 NC_001335.1 + 46254 0.66 0.67709
Target:  5'- aGCGCgugguUCAUCGCCGcGuugCGGCcGUCg -3'
miRNA:   3'- gCGUG-----AGUAGCGGC-Cua-GCCGcUAGg -5'
1402 3' -56.2 NC_001335.1 + 5530 0.66 0.67709
Target:  5'- gCGgGCUCGaCGCUGaGUCGGCGG-CUg -3'
miRNA:   3'- -GCgUGAGUaGCGGCcUAGCCGCUaGG- -5'
1402 3' -56.2 NC_001335.1 + 12738 0.66 0.67709
Target:  5'- gGCuuUCA-CGuCCaGGUCGGgGAUCCg -3'
miRNA:   3'- gCGugAGUaGC-GGcCUAGCCgCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 15359 0.66 0.67709
Target:  5'- uGCAUaCAgcucUGCgCGGAUaCGGgGAUCCg -3'
miRNA:   3'- gCGUGaGUa---GCG-GCCUA-GCCgCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 9605 0.66 0.67709
Target:  5'- aGCAUguccgggggaaCGUCGCCGcccuucauGAUCcgguaGGCGAUCCg -3'
miRNA:   3'- gCGUGa----------GUAGCGGC--------CUAG-----CCGCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 9852 0.66 0.651178
Target:  5'- gGgGCUCGgggagccugggacCGUCGGGUCGGCGucgaCCa -3'
miRNA:   3'- gCgUGAGUa------------GCGGCCUAGCCGCua--GG- -5'
1402 3' -56.2 NC_001335.1 + 5565 0.67 0.644678
Target:  5'- uGC-C-CAgcagUGCCGGggCGGCGGUgCCg -3'
miRNA:   3'- gCGuGaGUa---GCGGCCuaGCCGCUA-GG- -5'
1402 3' -56.2 NC_001335.1 + 39407 0.67 0.622999
Target:  5'- uCGCGCUCAUCGuccucaCCGaagucgaacucGAUgcUGGCGAUCUc -3'
miRNA:   3'- -GCGUGAGUAGC------GGC-----------CUA--GCCGCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 45322 0.67 0.622999
Target:  5'- aGUACaUCAaggcuacggguUCGUCGGGccgcugUCGGCGAagUCCg -3'
miRNA:   3'- gCGUG-AGU-----------AGCGGCCU------AGCCGCU--AGG- -5'
1402 3' -56.2 NC_001335.1 + 29400 0.67 0.622999
Target:  5'- aCGCuGC-CGUCGUCGGAcuggaucgugCGGCGAUgCu -3'
miRNA:   3'- -GCG-UGaGUAGCGGCCUa---------GCCGCUAgG- -5'
1402 3' -56.2 NC_001335.1 + 37779 0.68 0.557359
Target:  5'- aCGCugUUcgCGCCGGucaCGGUGuacacccGUCCc -3'
miRNA:   3'- -GCGugAGuaGCGGCCua-GCCGC-------UAGG- -5'
1402 3' -56.2 NC_001335.1 + 12700 0.68 0.547815
Target:  5'- uGCGCUCgAUCuGCUGGAgcCGGCGcUCg -3'
miRNA:   3'- gCGUGAG-UAG-CGGCCUa-GCCGCuAGg -5'
1402 3' -56.2 NC_001335.1 + 15351 0.69 0.523672
Target:  5'- cCGCGC-CcUCGCCGagcuGAUCgacaaguucggcggGGCGAUCCu -3'
miRNA:   3'- -GCGUGaGuAGCGGC----CUAG--------------CCGCUAGG- -5'
1402 3' -56.2 NC_001335.1 + 28565 0.69 0.515369
Target:  5'- aGCAgcuucucCUCGUCGCCugcgGGAagguggcgcacUCGGCGcUCCa -3'
miRNA:   3'- gCGU-------GAGUAGCGG----CCU-----------AGCCGCuAGG- -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.