miRNA display CGI


Results 1 - 20 of 46 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
23338 3' -53.6 NC_005259.1 + 24882 0.66 0.869454
Target:  5'- uGAC-CGCU-AUCGAGucagccgaggacggCGAGCGGGUc -3'
miRNA:   3'- -CUGuGCGAgUAGCUCua------------GCUCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 53427 0.66 0.86866
Target:  5'- aGCGCGaCUUA-CGcAGAcUGAGCAGGUg -3'
miRNA:   3'- cUGUGC-GAGUaGC-UCUaGCUCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 46583 0.66 0.86866
Target:  5'- cGAcCGCGC-CGccCGAGG-CGAGCAGcGCg -3'
miRNA:   3'- -CU-GUGCGaGUa-GCUCUaGCUCGUC-CG- -5'
23338 3' -53.6 NC_005259.1 + 14726 0.66 0.86866
Target:  5'- -cCGCGCUCGUcgcCGAGAUguacgcgcuggcCGGGCcGGUg -3'
miRNA:   3'- cuGUGCGAGUA---GCUCUA------------GCUCGuCCG- -5'
23338 3' -53.6 NC_005259.1 + 33331 0.66 0.860588
Target:  5'- -uCACGCggaagugAUCGGGGUCGAuGCaaucGGGCg -3'
miRNA:   3'- cuGUGCGag-----UAGCUCUAGCU-CG----UCCG- -5'
23338 3' -53.6 NC_005259.1 + 10746 0.66 0.85228
Target:  5'- cGCGCGCUgc-CGGGcgaucaucauGUCGGGCGGGUc -3'
miRNA:   3'- cUGUGCGAguaGCUC----------UAGCUCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 51044 0.66 0.843742
Target:  5'- gGGCACGCgcCAUCcuuGAaccaaUCGAGCAGcGCc -3'
miRNA:   3'- -CUGUGCGa-GUAGcu-CU-----AGCUCGUC-CG- -5'
23338 3' -53.6 NC_005259.1 + 50530 0.66 0.842876
Target:  5'- cGACGCGCUCGccUCGGG--CGAggaaaccGCAcGGCa -3'
miRNA:   3'- -CUGUGCGAGU--AGCUCuaGCU-------CGU-CCG- -5'
23338 3' -53.6 NC_005259.1 + 57432 0.66 0.826014
Target:  5'- cGGCuCGCUUAcgcggCGAGGUUGgugcgacgcugcGGCAGGCc -3'
miRNA:   3'- -CUGuGCGAGUa----GCUCUAGC------------UCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 58909 0.66 0.826014
Target:  5'- -uCGgGCUCGUCGGcGGUCuugucgucGGCGGGCg -3'
miRNA:   3'- cuGUgCGAGUAGCU-CUAGc-------UCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 35616 0.66 0.826014
Target:  5'- -cCACGCUgCGUCGAGuaguUCGGGCc-GCc -3'
miRNA:   3'- cuGUGCGA-GUAGCUCu---AGCUCGucCG- -5'
23338 3' -53.6 NC_005259.1 + 50694 0.66 0.826014
Target:  5'- aGGCGCuGCUCGUCGucgcGcUUGAGcCGGGUg -3'
miRNA:   3'- -CUGUG-CGAGUAGCu---CuAGCUC-GUCCG- -5'
23338 3' -53.6 NC_005259.1 + 66107 0.67 0.816841
Target:  5'- cGCACGCg---CGAcuucuacgcgcGUCGAGCAGGCc -3'
miRNA:   3'- cUGUGCGaguaGCUc----------UAGCUCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 27169 0.67 0.816841
Target:  5'- --gAUGC-CGUCGGcGAU-GAGCAGGCu -3'
miRNA:   3'- cugUGCGaGUAGCU-CUAgCUCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 42325 0.67 0.807475
Target:  5'- gGGCACcCUCGUCGuaaaccacGGggCGAGCucGGGCc -3'
miRNA:   3'- -CUGUGcGAGUAGC--------UCuaGCUCG--UCCG- -5'
23338 3' -53.6 NC_005259.1 + 14029 0.67 0.807475
Target:  5'- cGGCACGaUCAUCGAG--CG-GCAGcGCa -3'
miRNA:   3'- -CUGUGCgAGUAGCUCuaGCuCGUC-CG- -5'
23338 3' -53.6 NC_005259.1 + 18111 0.67 0.807475
Target:  5'- -uCGCGCUCAUCGAcuacgaGGGCAacaucGGCa -3'
miRNA:   3'- cuGUGCGAGUAGCUcuag--CUCGU-----CCG- -5'
23338 3' -53.6 NC_005259.1 + 8065 0.67 0.797927
Target:  5'- cGC-CGCcgaCAUCGAGAUCGuGCcgcgcuGGCg -3'
miRNA:   3'- cUGuGCGa--GUAGCUCUAGCuCGu-----CCG- -5'
23338 3' -53.6 NC_005259.1 + 40118 0.67 0.797927
Target:  5'- aAUGCGCUCGUgGA-AUUG-GCGGGCg -3'
miRNA:   3'- cUGUGCGAGUAgCUcUAGCuCGUCCG- -5'
23338 3' -53.6 NC_005259.1 + 51795 0.67 0.795029
Target:  5'- --gGCGCUCggCG-GGUCGgucagcucaggcagGGCGGGCa -3'
miRNA:   3'- cugUGCGAGuaGCuCUAGC--------------UCGUCCG- -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.