miRNA display CGI


Results 1 - 20 of 106 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
29055 3' -58.7 NC_006146.1 + 93356 1.09 0.002036
Target:  5'- gGACAGCGCCACGUACACGUGGCCCGGu -3'
miRNA:   3'- -CUGUCGCGGUGCAUGUGCACCGGGCC- -5'
29055 3' -58.7 NC_006146.1 + 127157 0.77 0.280706
Target:  5'- gGACGGCGUCAU--GCGCGaccaccUGGCCCGGg -3'
miRNA:   3'- -CUGUCGCGGUGcaUGUGC------ACCGGGCC- -5'
29055 3' -58.7 NC_006146.1 + 94788 0.76 0.300357
Target:  5'- uGCGG-GCCACGUcCACGUaggccaGGCCCGGg -3'
miRNA:   3'- cUGUCgCGGUGCAuGUGCA------CCGGGCC- -5'
29055 3' -58.7 NC_006146.1 + 111725 0.75 0.332521
Target:  5'- aGCAGCGCaaccuauccgacgACGUGCugGUGGCCCu- -3'
miRNA:   3'- cUGUCGCGg------------UGCAUGugCACCGGGcc -5'
29055 3' -58.7 NC_006146.1 + 159924 0.75 0.335434
Target:  5'- cGGCAGCGCCGCcugcuuuagGUGCACuGUGGCaggCUGGg -3'
miRNA:   3'- -CUGUCGCGGUG---------CAUGUG-CACCG---GGCC- -5'
29055 3' -58.7 NC_006146.1 + 24508 0.75 0.335434
Target:  5'- gGACAa-GCCAC-UGCACGUaGGCCCGGg -3'
miRNA:   3'- -CUGUcgCGGUGcAUGUGCA-CCGGGCC- -5'
29055 3' -58.7 NC_006146.1 + 167803 0.75 0.350279
Target:  5'- --gGGCGUgGCGggcGCGCGUGGCCCGc -3'
miRNA:   3'- cugUCGCGgUGCa--UGUGCACCGGGCc -5'
29055 3' -58.7 NC_006146.1 + 168735 0.75 0.350279
Target:  5'- --gGGCGUgGCGggcGCGCGUGGCCCGc -3'
miRNA:   3'- cugUCGCGgUGCa--UGUGCACCGGGCc -5'
29055 3' -58.7 NC_006146.1 + 169667 0.75 0.350279
Target:  5'- --gGGCGUgGCGggcGCGCGUGGCCCGc -3'
miRNA:   3'- cugUCGCGgUGCa--UGUGCACCGGGCc -5'
29055 3' -58.7 NC_006146.1 + 167640 0.74 0.381349
Target:  5'- cGCGGgGCCcggcGCGUGC-CGggGGCCCGGg -3'
miRNA:   3'- cUGUCgCGG----UGCAUGuGCa-CCGGGCC- -5'
29055 3' -58.7 NC_006146.1 + 102863 0.74 0.397558
Target:  5'- gGGCAGcCGCCACcUGguCGUGGCCgGGc -3'
miRNA:   3'- -CUGUC-GCGGUGcAUguGCACCGGgCC- -5'
29055 3' -58.7 NC_006146.1 + 76115 0.74 0.405827
Target:  5'- -uCGGC-CUACGUGgACGUGGCCCGc -3'
miRNA:   3'- cuGUCGcGGUGCAUgUGCACCGGGCc -5'
29055 3' -58.7 NC_006146.1 + 113485 0.74 0.405827
Target:  5'- -uCAGCGCCACGUAgaggcgUGCGUcGGCCgGGc -3'
miRNA:   3'- cuGUCGCGGUGCAU------GUGCA-CCGGgCC- -5'
29055 3' -58.7 NC_006146.1 + 50856 0.73 0.475662
Target:  5'- aGCAGCGCCACcaGUcuccGCGCGgggucUGuGCCCGGa -3'
miRNA:   3'- cUGUCGCGGUG--CA----UGUGC-----AC-CGGGCC- -5'
29055 3' -58.7 NC_006146.1 + 47629 0.72 0.494048
Target:  5'- cGAUAGgGCCACGaGC-CGUcucuggccgcGGCCCGGc -3'
miRNA:   3'- -CUGUCgCGGUGCaUGuGCA----------CCGGGCC- -5'
29055 3' -58.7 NC_006146.1 + 117875 0.72 0.503363
Target:  5'- cGGCGGCgGCCGCGgccagcCGCGUgaGGCCCaGGg -3'
miRNA:   3'- -CUGUCG-CGGUGCau----GUGCA--CCGGG-CC- -5'
29055 3' -58.7 NC_006146.1 + 40437 0.72 0.503363
Target:  5'- cGGCAGCgGCCcCGUAgGCGggugcggcaaUGGCCUGGu -3'
miRNA:   3'- -CUGUCG-CGGuGCAUgUGC----------ACCGGGCC- -5'
29055 3' -58.7 NC_006146.1 + 148133 0.72 0.531741
Target:  5'- --gAGUGCCGCaugggcuucGUGCugGUcagGGCCCGGg -3'
miRNA:   3'- cugUCGCGGUG---------CAUGugCA---CCGGGCC- -5'
29055 3' -58.7 NC_006146.1 + 138766 0.71 0.545184
Target:  5'- cACGGCccuggcuaaccuGCUACGUGCugGgagagcuucggaugGGCCCGGg -3'
miRNA:   3'- cUGUCG------------CGGUGCAUGugCa-------------CCGGGCC- -5'
29055 3' -58.7 NC_006146.1 + 70209 0.71 0.570422
Target:  5'- cGCAGCGCCGgGUGC-CGagGGCCgCGa -3'
miRNA:   3'- cUGUCGCGGUgCAUGuGCa-CCGG-GCc -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.