miRNA display CGI


Results 1 - 15 of 15 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
20691 5' -58.9 NC_004688.1 + 79400 0.66 0.728899
Target:  5'- cCGGGGUGGaccaGGAgcugcucguGGAugccugcugUUCUGCGCGCa -3'
miRNA:   3'- -GCUCCGCCg---UCU---------UCU---------AGGACGCGCGc -5'
20691 5' -58.9 NC_004688.1 + 86295 0.66 0.719005
Target:  5'- uCGAGcGCGGCGcGccGAaccuucUCCUGCGCauccGCGa -3'
miRNA:   3'- -GCUC-CGCCGU-CuuCU------AGGACGCG----CGC- -5'
20691 5' -58.9 NC_004688.1 + 105148 0.66 0.719005
Target:  5'- aGGGGCGGCAGcaccuUCgCUGCcuuuCGCGg -3'
miRNA:   3'- gCUCCGCCGUCuucu-AG-GACGc---GCGC- -5'
20691 5' -58.9 NC_004688.1 + 79575 0.66 0.699003
Target:  5'- gGAGGCggggucguucaGGCGGGcaaucAGGUCCacGCGCGUa -3'
miRNA:   3'- gCUCCG-----------CCGUCU-----UCUAGGa-CGCGCGc -5'
20691 5' -58.9 NC_004688.1 + 2264 0.67 0.678775
Target:  5'- gCGAGcaauuCGGCcGAcuGAUCCgGCGCGCGc -3'
miRNA:   3'- -GCUCc----GCCGuCUu-CUAGGaCGCGCGC- -5'
20691 5' -58.9 NC_004688.1 + 10154 0.67 0.648168
Target:  5'- gGAGGCGGaguGAAGGUCgaCUGgGCGg- -3'
miRNA:   3'- gCUCCGCCgu-CUUCUAG--GACgCGCgc -5'
20691 5' -58.9 NC_004688.1 + 79217 0.67 0.626661
Target:  5'- -aGGGCGGaCAGcucggccGAGGUCUUGgGCGCc -3'
miRNA:   3'- gcUCCGCC-GUC-------UUCUAGGACgCGCGc -5'
20691 5' -58.9 NC_004688.1 + 104634 0.68 0.611306
Target:  5'- aGAGGCGcuuacgcucgcccguGCGGAGuuGcUCCaGCGCGCGg -3'
miRNA:   3'- gCUCCGC---------------CGUCUU--CuAGGaCGCGCGC- -5'
20691 5' -58.9 NC_004688.1 + 27696 0.69 0.516807
Target:  5'- cCGcGGGCGGUuGggGGUgUUGCGCGgGu -3'
miRNA:   3'- -GC-UCCGCCGuCuuCUAgGACGCGCgC- -5'
20691 5' -58.9 NC_004688.1 + 53513 0.7 0.450379
Target:  5'- aGAGGCugaauuGCAGggGGcUCaUGCGCGCGc -3'
miRNA:   3'- gCUCCGc-----CGUCuuCU-AGgACGCGCGC- -5'
20691 5' -58.9 NC_004688.1 + 47898 0.71 0.44127
Target:  5'- gCGcGGCGGCGG-AGAUCaCcGCGUGCu -3'
miRNA:   3'- -GCuCCGCCGUCuUCUAG-GaCGCGCGc -5'
20691 5' -58.9 NC_004688.1 + 40352 0.71 0.397359
Target:  5'- gGGGGCGGCcGAAGucGUCCaGCGCcCGg -3'
miRNA:   3'- gCUCCGCCGuCUUC--UAGGaCGCGcGC- -5'
20691 5' -58.9 NC_004688.1 + 10242 0.71 0.397359
Target:  5'- gCGGGGCauGGCAGgcGAUUCUGCuacugcugGCGCu -3'
miRNA:   3'- -GCUCCG--CCGUCuuCUAGGACG--------CGCGc -5'
20691 5' -58.9 NC_004688.1 + 104336 0.72 0.380598
Target:  5'- uCGGGcguGCGGUAGAGGAUCa-GgGCGCGa -3'
miRNA:   3'- -GCUC---CGCCGUCUUCUAGgaCgCGCGC- -5'
20691 5' -58.9 NC_004688.1 + 54830 0.72 0.364316
Target:  5'- gCGGGGCGuGCGGAAucUCCUGUugccGCGCu -3'
miRNA:   3'- -GCUCCGC-CGUCUUcuAGGACG----CGCGc -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.