miRNA display CGI


Results 1 - 20 of 24 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
30208 3' -56.4 NC_006273.1 + 48176 0.66 0.956558
Target:  5'- aGGGGAgcGGAUCGCGGUaaugUCGUUuugacauUCUCu -3'
miRNA:   3'- -CCCCUauCUUGGCGCCG----GGUAG-------AGAG- -5'
30208 3' -56.4 NC_006273.1 + 154445 0.66 0.953172
Target:  5'- uGGGcGAcuc-GCCGCaGCCCGUCgagCUCu -3'
miRNA:   3'- -CCC-CUaucuUGGCGcCGGGUAGa--GAG- -5'
30208 3' -56.4 NC_006273.1 + 233238 0.66 0.949206
Target:  5'- cGGGGAUuguGAACCGUGGCUgAg----- -3'
miRNA:   3'- -CCCCUAu--CUUGGCGCCGGgUagagag -5'
30208 3' -56.4 NC_006273.1 + 211132 0.66 0.949206
Target:  5'- gGGGGAcuuuUAGAugUuuggGCGGCCCGcggUUCUa -3'
miRNA:   3'- -CCCCU----AUCUugG----CGCCGGGUa--GAGAg -5'
30208 3' -56.4 NC_006273.1 + 230860 0.66 0.945023
Target:  5'- uGGGGAacGggUCgGCGGCCgGUCggCUUc -3'
miRNA:   3'- -CCCCUauCuuGG-CGCCGGgUAGa-GAG- -5'
30208 3' -56.4 NC_006273.1 + 234331 0.67 0.935997
Target:  5'- cGGGGuucuacccgGUGGAcGCCGUGGCCCGgcgUCg- -3'
miRNA:   3'- -CCCC---------UAUCU-UGGCGCCGGGUag-AGag -5'
30208 3' -56.4 NC_006273.1 + 166240 0.67 0.935997
Target:  5'- aGGuGGUAGAAgUCGCGGCCgGUgUCa- -3'
miRNA:   3'- cCC-CUAUCUU-GGCGCCGGgUAgAGag -5'
30208 3' -56.4 NC_006273.1 + 39438 0.67 0.935997
Target:  5'- cGGGGuucuacccgGUGGAcGCCGUGGCCCGgcgUCg- -3'
miRNA:   3'- -CCCC---------UAUCU-UGGCGCCGGGUag-AGag -5'
30208 3' -56.4 NC_006273.1 + 228685 0.67 0.92608
Target:  5'- cGGGAggcuGAUCGCGGCCUucagcGUCUCa- -3'
miRNA:   3'- cCCCUauc-UUGGCGCCGGG-----UAGAGag -5'
30208 3' -56.4 NC_006273.1 + 121291 0.67 0.92399
Target:  5'- aGGGGAcauacccaccACCGCcGCCCG-CUCUCg -3'
miRNA:   3'- -CCCCUaucu------UGGCGcCGGGUaGAGAG- -5'
30208 3' -56.4 NC_006273.1 + 140134 0.67 0.920786
Target:  5'- gGGGGAaaAGAACgGCGGUggGUCUCg- -3'
miRNA:   3'- -CCCCUa-UCUUGgCGCCGggUAGAGag -5'
30208 3' -56.4 NC_006273.1 + 36270 0.67 0.917503
Target:  5'- cGGGAUuggccucguacagcGAGCUGCGGUCCAcggggccgaugCUCUCg -3'
miRNA:   3'- cCCCUAu-------------CUUGGCGCCGGGUa----------GAGAG- -5'
30208 3' -56.4 NC_006273.1 + 84086 0.67 0.915269
Target:  5'- aGGGGAacugccucGAGCgGCGGCCCAggaacgCUUg -3'
miRNA:   3'- -CCCCUau------CUUGgCGCCGGGUaga---GAG- -5'
30208 3' -56.4 NC_006273.1 + 37348 0.68 0.903569
Target:  5'- -cGGAgguGGGCCGgGGCCCGUUUUg- -3'
miRNA:   3'- ccCCUau-CUUGGCgCCGGGUAGAGag -5'
30208 3' -56.4 NC_006273.1 + 69739 0.68 0.897389
Target:  5'- aGGGGAacagAGAccggGCCGCGGCaCCGUgCUg-- -3'
miRNA:   3'- -CCCCUa---UCU----UGGCGCCG-GGUA-GAgag -5'
30208 3' -56.4 NC_006273.1 + 41849 0.68 0.877569
Target:  5'- cGGGAUguucaaGGGACCGCuGGUCgGUUUCUg -3'
miRNA:   3'- cCCCUA------UCUUGGCG-CCGGgUAGAGAg -5'
30208 3' -56.4 NC_006273.1 + 165626 0.68 0.870547
Target:  5'- -uGGAgacucAGAcgcagcacgguGCCGCGGCCCgGUCUCUg -3'
miRNA:   3'- ccCCUa----UCU-----------UGGCGCCGGG-UAGAGAg -5'
30208 3' -56.4 NC_006273.1 + 99691 0.68 0.870547
Target:  5'- gGGGGAcugggaGGGACCGCGG-UCGUCUUg- -3'
miRNA:   3'- -CCCCUa-----UCUUGGCGCCgGGUAGAGag -5'
30208 3' -56.4 NC_006273.1 + 147497 0.69 0.863324
Target:  5'- aGGGGGccaUGGcgauAGCgGCGGCCCGcUCgCUCg -3'
miRNA:   3'- -CCCCU---AUC----UUGgCGCCGGGU-AGaGAG- -5'
30208 3' -56.4 NC_006273.1 + 156265 0.69 0.8483
Target:  5'- cGGcGGGUGGAGgCGCGGgUCAUCUa-- -3'
miRNA:   3'- -CC-CCUAUCUUgGCGCCgGGUAGAgag -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.