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
1344 5' -64.2 NC_001335.1 + 32516 0.66 0.31928
Target:  5'- aCGCCCGacuUGuaGACCauCUCGCCguGCu -3'
miRNA:   3'- cGCGGGCc--ACcgCUGG--GAGCGGguCG- -5'
1344 5' -64.2 NC_001335.1 + 50533 0.66 0.31928
Target:  5'- cGUGCCCGacGUGGCcgucaugUCUUCGCCCcagucGGCg -3'
miRNA:   3'- -CGCGGGC--CACCGcu-----GGGAGCGGG-----UCG- -5'
1344 5' -64.2 NC_001335.1 + 51641 0.66 0.318544
Target:  5'- -gGCCgGGUGGCugucaaGCCCUaaucgcaaauuggUGCCCuAGCu -3'
miRNA:   3'- cgCGGgCCACCGc-----UGGGA-------------GCGGG-UCG- -5'
1344 5' -64.2 NC_001335.1 + 38843 0.66 0.311978
Target:  5'- -gGCCCGuuUGaaGAacucgaugcaguCCCUCGCCCAGCc -3'
miRNA:   3'- cgCGGGCc-ACcgCU------------GGGAGCGGGUCG- -5'
1344 5' -64.2 NC_001335.1 + 32690 0.66 0.311978
Target:  5'- aGCGCCuugaacucggCGGUGuuGACCUUgG-CCAGCa -3'
miRNA:   3'- -CGCGG----------GCCACcgCUGGGAgCgGGUCG- -5'
1344 5' -64.2 NC_001335.1 + 7038 0.66 0.304803
Target:  5'- aGCGCggCGGUGaacgGAUCCUUGCcCCAGCc -3'
miRNA:   3'- -CGCGg-GCCACcg--CUGGGAGCG-GGUCG- -5'
1344 5' -64.2 NC_001335.1 + 25892 0.66 0.297756
Target:  5'- gGUGCCCuuGGUGGUcgacGGCCUgacgcucgUCGCCaCGGUc -3'
miRNA:   3'- -CGCGGG--CCACCG----CUGGG--------AGCGG-GUCG- -5'
1344 5' -64.2 NC_001335.1 + 25129 0.66 0.277374
Target:  5'- gGCG-CUGGcGGCuGCCUucuUCGCCCGGUc -3'
miRNA:   3'- -CGCgGGCCaCCGcUGGG---AGCGGGUCG- -5'
1344 5' -64.2 NC_001335.1 + 17235 0.67 0.270832
Target:  5'- cGCGCCUGcGaccUGGCcgagGGCCgUCG-CCAGCg -3'
miRNA:   3'- -CGCGGGC-C---ACCG----CUGGgAGCgGGUCG- -5'
1344 5' -64.2 NC_001335.1 + 46942 0.67 0.270832
Target:  5'- -gGCCUGGcgcagcagcuUGGCGA-CCUUGUCCuGCa -3'
miRNA:   3'- cgCGGGCC----------ACCGCUgGGAGCGGGuCG- -5'
1344 5' -64.2 NC_001335.1 + 46009 0.67 0.258121
Target:  5'- cCGuCCCGGUugucguugucccGGCGGgCUUCGCCCuucGGUg -3'
miRNA:   3'- cGC-GGGCCA------------CCGCUgGGAGCGGG---UCG- -5'
1344 5' -64.2 NC_001335.1 + 20486 0.67 0.257498
Target:  5'- -gGCCCuggugaacaucGGUGGCGACcugcugaCCUCGUucaucaacagCCAGCu -3'
miRNA:   3'- cgCGGG-----------CCACCGCUG-------GGAGCG----------GGUCG- -5'
1344 5' -64.2 NC_001335.1 + 50835 0.67 0.248306
Target:  5'- cGCGCCCaaGGUGcGCcGCCCccggccgacgacucgUCGCUgGGCc -3'
miRNA:   3'- -CGCGGG--CCAC-CGcUGGG---------------AGCGGgUCG- -5'
1344 5' -64.2 NC_001335.1 + 50927 0.67 0.239974
Target:  5'- cUGCCCGGUGacgccCGGCCUgUCGgCCUGGCu -3'
miRNA:   3'- cGCGGGCCACc----GCUGGG-AGC-GGGUCG- -5'
1344 5' -64.2 NC_001335.1 + 5940 0.68 0.233591
Target:  5'- uCuaCCGGUGGCaGCCCaUCGgcaacuaCCCGGCa -3'
miRNA:   3'- cGcgGGCCACCGcUGGG-AGC-------GGGUCG- -5'
1344 5' -64.2 NC_001335.1 + 27558 0.68 0.222904
Target:  5'- aGC-CCCGGUGGa---CUUCGCCCAcuGCu -3'
miRNA:   3'- -CGcGGGCCACCgcugGGAGCGGGU--CG- -5'
1344 5' -64.2 NC_001335.1 + 12137 0.68 0.222904
Target:  5'- cGUGCCCGa-GGCGACgUggUCGCUCAGg -3'
miRNA:   3'- -CGCGGGCcaCCGCUGgG--AGCGGGUCg -5'
1344 5' -64.2 NC_001335.1 + 43588 0.68 0.219073
Target:  5'- uGUGCCCGuucgaggcucaucucGCGGCCCUCGgCCAGa -3'
miRNA:   3'- -CGCGGGCcac------------CGCUGGGAGCgGGUCg -5'
1344 5' -64.2 NC_001335.1 + 29264 0.69 0.201762
Target:  5'- uGCGCCUGGUagucgacugaGGCcAUCacaUCGCCUGGCu -3'
miRNA:   3'- -CGCGGGCCA----------CCGcUGGg--AGCGGGUCG- -5'
1344 5' -64.2 NC_001335.1 + 15377 0.69 0.177804
Target:  5'- -aGUUCGGcggGGCGAUCCUCGCagaccugcuCCAGUa -3'
miRNA:   3'- cgCGGGCCa--CCGCUGGGAGCG---------GGUCG- -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.