miRNA display CGI


Results 1 - 20 of 41 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
28970 3' -54.6 NC_006146.1 + 14178 0.67 0.877767
Target:  5'- uGCGCCAGGcuggacccccggAGCCUggACGGGGAggcgGUGg -3'
miRNA:   3'- uCGCGGUCU------------UCGGG--UGUCUCUa---CAUu -5'
28970 3' -54.6 NC_006146.1 + 14824 1.06 0.004798
Target:  5'- gAGCGCCAGAAGCCCACAGAGAUGUAAg -3'
miRNA:   3'- -UCGCGGUCUUCGGGUGUCUCUACAUU- -5'
28970 3' -54.6 NC_006146.1 + 17902 1.06 0.004798
Target:  5'- gAGCGCCAGAAGCCCACAGAGAUGUAAg -3'
miRNA:   3'- -UCGCGGUCUUCGGGUGUCUCUACAUU- -5'
28970 3' -54.6 NC_006146.1 + 18962 0.71 0.715593
Target:  5'- uGCGCCAGcGGCCCcUAGAGAg---- -3'
miRNA:   3'- uCGCGGUCuUCGGGuGUCUCUacauu -5'
28970 3' -54.6 NC_006146.1 + 20979 1.06 0.004798
Target:  5'- gAGCGCCAGAAGCCCACAGAGAUGUAAg -3'
miRNA:   3'- -UCGCGGUCUUCGGGUGUCUCUACAUU- -5'
28970 3' -54.6 NC_006146.1 + 24057 1.06 0.004798
Target:  5'- gAGCGCCAGAAGCCCACAGAGAUGUAAg -3'
miRNA:   3'- -UCGCGGUCUUCGGGUGUCUCUACAUU- -5'
28970 3' -54.6 NC_006146.1 + 27135 1.06 0.004798
Target:  5'- gAGCGCCAGAAGCCCACAGAGAUGUAAg -3'
miRNA:   3'- -UCGCGGUCUUCGGGUGUCUCUACAUU- -5'
28970 3' -54.6 NC_006146.1 + 29071 0.69 0.812264
Target:  5'- uGUGagaCUAGAGGCCCacaaaaGCAGAGGUGUGc -3'
miRNA:   3'- uCGC---GGUCUUCGGG------UGUCUCUACAUu -5'
28970 3' -54.6 NC_006146.1 + 31014 0.71 0.684677
Target:  5'- uAGCGaCCcuAGGUCCACAGAGAcGUAAu -3'
miRNA:   3'- -UCGC-GGucUUCGGGUGUCUCUaCAUU- -5'
28970 3' -54.6 NC_006146.1 + 43892 0.69 0.794004
Target:  5'- uGCGCaggcuGGGAGCCCACAGAGc----- -3'
miRNA:   3'- uCGCGg----UCUUCGGGUGUCUCuacauu -5'
28970 3' -54.6 NC_006146.1 + 44370 0.71 0.715593
Target:  5'- aGGUGCCAGAcccccGCCCGgGGGGcGUGUGGg -3'
miRNA:   3'- -UCGCGGUCUu----CGGGUgUCUC-UACAUU- -5'
28970 3' -54.6 NC_006146.1 + 49258 0.67 0.898708
Target:  5'- cAGgGCCGGuAGCCCccugUAGAGGUGg-- -3'
miRNA:   3'- -UCgCGGUCuUCGGGu---GUCUCUACauu -5'
28970 3' -54.6 NC_006146.1 + 54997 0.67 0.877767
Target:  5'- gGGUgGCCGGAAGCCCcccggGCGG-GAUGg-- -3'
miRNA:   3'- -UCG-CGGUCUUCGGG-----UGUCuCUACauu -5'
28970 3' -54.6 NC_006146.1 + 60732 0.69 0.803216
Target:  5'- cGGCGCU-GAGGCCCuggACAGAGAUc--- -3'
miRNA:   3'- -UCGCGGuCUUCGGG---UGUCUCUAcauu -5'
28970 3' -54.6 NC_006146.1 + 65201 0.69 0.803216
Target:  5'- aGGCGCUcugggggcccuGGGAGCCCGggcgucCAGAGGUGa-- -3'
miRNA:   3'- -UCGCGG-----------UCUUCGGGU------GUCUCUACauu -5'
28970 3' -54.6 NC_006146.1 + 65824 0.67 0.905206
Target:  5'- uGCGCCAGGcgcucgAGCCCuuugaggaccAUGGAcGAUGUGAc -3'
miRNA:   3'- uCGCGGUCU------UCGGG----------UGUCU-CUACAUU- -5'
28970 3' -54.6 NC_006146.1 + 74722 0.66 0.923211
Target:  5'- cAGgGCCAGAaaGGCCCugGaGGGAcccaGUGAg -3'
miRNA:   3'- -UCgCGGUCU--UCGGGugU-CUCUa---CAUU- -5'
28970 3' -54.6 NC_006146.1 + 75256 0.66 0.933959
Target:  5'- cGgGCguGggGUgCACGGGGAUGg-- -3'
miRNA:   3'- uCgCGguCuuCGgGUGUCUCUACauu -5'
28970 3' -54.6 NC_006146.1 + 75459 0.66 0.923211
Target:  5'- uAGCuCCAGAggcaGGCCC-CAGAGAUa--- -3'
miRNA:   3'- -UCGcGGUCU----UCGGGuGUCUCUAcauu -5'
28970 3' -54.6 NC_006146.1 + 85646 0.68 0.854755
Target:  5'- aGGgGCUGGuuGGCCCACGGGGAcccugGUGGa -3'
miRNA:   3'- -UCgCGGUCu-UCGGGUGUCUCUa----CAUU- -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.