miRNA display CGI


Results 1 - 20 of 105 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
29632 3' -63.1 NC_006151.1 + 50372 0.86 0.027623
Target:  5'- cGCCGGCGGGGGCGAGacgcgggcCCCGCGGUCc- -3'
miRNA:   3'- -UGGCCGCCCCUGCUC--------GGGCGCUAGuu -5'
29632 3' -63.1 NC_006151.1 + 2281 0.78 0.098048
Target:  5'- gGCCGGCGGGGcgcccgcggcggcgACGGcGCCCGgGGUCAGc -3'
miRNA:   3'- -UGGCCGCCCC--------------UGCU-CGGGCgCUAGUU- -5'
29632 3' -63.1 NC_006151.1 + 104268 0.75 0.17517
Target:  5'- cGCCGGCGcGGcGGCGGGCCCGCcgcugCAGg -3'
miRNA:   3'- -UGGCCGC-CC-CUGCUCGGGCGcua--GUU- -5'
29632 3' -63.1 NC_006151.1 + 8237 0.74 0.192933
Target:  5'- cCCGGCGGGGAgggcCGGGCCgGCGcgCc- -3'
miRNA:   3'- uGGCCGCCCCU----GCUCGGgCGCuaGuu -5'
29632 3' -63.1 NC_006151.1 + 57975 0.74 0.192933
Target:  5'- aGCCGGUGGGcGGCGAGCgcgCCGCGGa--- -3'
miRNA:   3'- -UGGCCGCCC-CUGCUCG---GGCGCUaguu -5'
29632 3' -63.1 NC_006151.1 + 13965 0.74 0.197614
Target:  5'- cGCCGGCcaugGGGGAgcCGGGCCCGCG-UCc- -3'
miRNA:   3'- -UGGCCG----CCCCU--GCUCGGGCGCuAGuu -5'
29632 3' -63.1 NC_006151.1 + 26923 0.74 0.197614
Target:  5'- gACCGGCGGGGA-GAGgaCgCGCGGUCGu -3'
miRNA:   3'- -UGGCCGCCCCUgCUCg-G-GCGCUAGUu -5'
29632 3' -63.1 NC_006151.1 + 64482 0.73 0.212255
Target:  5'- -gCGGCGGGGAC--GCCCGCGggCGc -3'
miRNA:   3'- ugGCCGCCCCUGcuCGGGCGCuaGUu -5'
29632 3' -63.1 NC_006151.1 + 32850 0.73 0.216826
Target:  5'- gGCCGGCGGGGAUGGGgaagaaggcccgaCCCGCGc---- -3'
miRNA:   3'- -UGGCCGCCCCUGCUC-------------GGGCGCuaguu -5'
29632 3' -63.1 NC_006151.1 + 13405 0.73 0.217339
Target:  5'- cGCCGGCcaaugGGGGAgcCGGGCCCGCG-UCc- -3'
miRNA:   3'- -UGGCCG-----CCCCU--GCUCGGGCGCuAGuu -5'
29632 3' -63.1 NC_006151.1 + 98202 0.73 0.233218
Target:  5'- cGCCGcGCGGGGuCGAgugcgcggcggcGCCCGCGcgCGGa -3'
miRNA:   3'- -UGGC-CGCCCCuGCU------------CGGGCGCuaGUU- -5'
29632 3' -63.1 NC_006151.1 + 659 0.73 0.233218
Target:  5'- gGCgCGGCcGGGGCGGGCuCCGCgGAUCGc -3'
miRNA:   3'- -UG-GCCGcCCCUGCUCG-GGCG-CUAGUu -5'
29632 3' -63.1 NC_006151.1 + 85641 0.73 0.233218
Target:  5'- cGCCaGCGGGGACGcGCCCGCcucGcgCAGc -3'
miRNA:   3'- -UGGcCGCCCCUGCuCGGGCG---CuaGUU- -5'
29632 3' -63.1 NC_006151.1 + 125256 0.73 0.238725
Target:  5'- cCCGGCGGGGACGcccgagccGCCgGCcGUCAAc -3'
miRNA:   3'- uGGCCGCCCCUGCu-------CGGgCGcUAGUU- -5'
29632 3' -63.1 NC_006151.1 + 20119 0.72 0.255896
Target:  5'- cCCGGCgacggggcugGGGGGCGGGCgCCGCGGgggCGg -3'
miRNA:   3'- uGGCCG----------CCCCUGCUCG-GGCGCUa--GUu -5'
29632 3' -63.1 NC_006151.1 + 116736 0.72 0.261241
Target:  5'- cACC-GCGGGGucguccgagucgcACGAGCCCGCGAg--- -3'
miRNA:   3'- -UGGcCGCCCC-------------UGCUCGGGCGCUaguu -5'
29632 3' -63.1 NC_006151.1 + 129461 0.72 0.267897
Target:  5'- gGCCGuGgGcGGGACGAGCCCGUccaGGUCc- -3'
miRNA:   3'- -UGGC-CgC-CCCUGCUCGGGCG---CUAGuu -5'
29632 3' -63.1 NC_006151.1 + 46055 0.72 0.274067
Target:  5'- aGCCGGUaGGGGgGGGCuUCGCGGUCAu -3'
miRNA:   3'- -UGGCCGcCCCUgCUCG-GGCGCUAGUu -5'
29632 3' -63.1 NC_006151.1 + 59131 0.71 0.280349
Target:  5'- uGCCGGU-GGGugGcGCCCGCGggCGGg -3'
miRNA:   3'- -UGGCCGcCCCugCuCGGGCGCuaGUU- -5'
29632 3' -63.1 NC_006151.1 + 28785 0.71 0.306624
Target:  5'- gUCGGCGGGG-CGguccGGCCCGCGGg--- -3'
miRNA:   3'- uGGCCGCCCCuGC----UCGGGCGCUaguu -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.