miRNA display CGI


Results 1 - 17 of 17 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
1265 3' -56.7 NC_001317.1 + 17847 0.66 0.44311
Target:  5'- uAAACGCAGCGGUgagcCGGUcaaGUUuGCCg -3'
miRNA:   3'- uUUUGCGUCGCCGu---GCCG---UAGuCGGg -5'
1265 3' -56.7 NC_001317.1 + 14513 0.66 0.431931
Target:  5'- cAAGGCGCugcuaacugccgaAGCGGuCAcCGGCGUUaAGCCg -3'
miRNA:   3'- -UUUUGCG-------------UCGCC-GU-GCCGUAG-UCGGg -5'
1265 3' -56.7 NC_001317.1 + 1732 0.66 0.422909
Target:  5'- -uAACcuuuCGGCGcGCGuCGGCGUCAGUCUu -3'
miRNA:   3'- uuUUGc---GUCGC-CGU-GCCGUAGUCGGG- -5'
1265 3' -56.7 NC_001317.1 + 9491 0.67 0.384222
Target:  5'- cAAggUGCAGCgcauGGCGCGgguGCAUCAGUa- -3'
miRNA:   3'- -UUuuGCGUCG----CCGUGC---CGUAGUCGgg -5'
1265 3' -56.7 NC_001317.1 + 15475 0.67 0.368505
Target:  5'- ---uCGCGGCGGCGguaugaaUGGCGcugcagcgauugaccUCGGCCUc -3'
miRNA:   3'- uuuuGCGUCGCCGU-------GCCGU---------------AGUCGGG- -5'
1265 3' -56.7 NC_001317.1 + 9913 0.67 0.365778
Target:  5'- cGAACGac-CGGCGCGGgugGUCAGCCa -3'
miRNA:   3'- uUUUGCgucGCCGUGCCg--UAGUCGGg -5'
1265 3' -56.7 NC_001317.1 + 23731 0.67 0.356787
Target:  5'- cGAGCGguGCGGUaucugAUGaGCGUCugaccacuGCCCg -3'
miRNA:   3'- uUUUGCguCGCCG-----UGC-CGUAGu-------CGGG- -5'
1265 3' -56.7 NC_001317.1 + 6001 0.67 0.351468
Target:  5'- -uGGCGCAGCGgggcuuguucccgcuGCGCGGCuugagaGGCCg -3'
miRNA:   3'- uuUUGCGUCGC---------------CGUGCCGuag---UCGGg -5'
1265 3' -56.7 NC_001317.1 + 8736 0.67 0.347953
Target:  5'- ---cUGCAGCGcGCA-GGCAgUCAGCgCCc -3'
miRNA:   3'- uuuuGCGUCGC-CGUgCCGU-AGUCG-GG- -5'
1265 3' -56.7 NC_001317.1 + 6430 0.68 0.314197
Target:  5'- uGAAUGCAGaGGCGCuGGCGcaguuUCAGCgCg -3'
miRNA:   3'- uUUUGCGUCgCCGUG-CCGU-----AGUCGgG- -5'
1265 3' -56.7 NC_001317.1 + 8940 0.68 0.306155
Target:  5'- ---cCGguGCaGGCAUGGCugcgugaacAUCAGCCg -3'
miRNA:   3'- uuuuGCguCG-CCGUGCCG---------UAGUCGGg -5'
1265 3' -56.7 NC_001317.1 + 18753 0.69 0.290545
Target:  5'- gGAggUGCuGCGcCGgGGCAUCAGCUUg -3'
miRNA:   3'- -UUuuGCGuCGCcGUgCCGUAGUCGGG- -5'
1265 3' -56.7 NC_001317.1 + 7021 0.69 0.261212
Target:  5'- uAAACcCGGCGGCAgucUGGCG-CAGCCg -3'
miRNA:   3'- uUUUGcGUCGCCGU---GCCGUaGUCGGg -5'
1265 3' -56.7 NC_001317.1 + 14834 0.71 0.209821
Target:  5'- cAAAACGCugucuaacguuGGCGuGCAgggcguuacCGGCAUCAGCgCCu -3'
miRNA:   3'- -UUUUGCG-----------UCGC-CGU---------GCCGUAGUCG-GG- -5'
1265 3' -56.7 NC_001317.1 + 8823 0.73 0.13674
Target:  5'- ----aGCuGCGGCACGGCGuuaaUCAGCgCu -3'
miRNA:   3'- uuuugCGuCGCCGUGCCGU----AGUCGgG- -5'
1265 3' -56.7 NC_001317.1 + 16086 0.77 0.077782
Target:  5'- cGAACGCAgGCacccuGCGCGGCGUCAGUCUg -3'
miRNA:   3'- uUUUGCGU-CGc----CGUGCCGUAGUCGGG- -5'
1265 3' -56.7 NC_001317.1 + 15655 1.07 0.000377
Target:  5'- cAAACGCAGCGGCACGGCAUCAGCCCc -3'
miRNA:   3'- uUUUGCGUCGCCGUGCCGUAGUCGGG- -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.