miRNA display CGI


Results 1 - 20 of 69 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
12999 3' -64.4 NC_003387.1 + 42354 0.65 0.310462
Target:  5'- -gCgGGCCAG-CuuGCGGCCcaggcccuuaccgGGGUCGg -3'
miRNA:   3'- cgGgCCGGUCuGggCGCCGG-------------CCUAGU- -5'
12999 3' -64.4 NC_003387.1 + 47034 0.66 0.304019
Target:  5'- gGCCCGGCCGGGCauGaGGCgUGGcgCu -3'
miRNA:   3'- -CGGGCCGGUCUGggCgCCG-GCCuaGu -5'
12999 3' -64.4 NC_003387.1 + 22302 0.66 0.304019
Target:  5'- aCCCGGCaAGccGCCUgGUGGCgcCGGAUCAg -3'
miRNA:   3'- cGGGCCGgUC--UGGG-CGCCG--GCCUAGU- -5'
12999 3' -64.4 NC_003387.1 + 40438 0.66 0.304019
Target:  5'- gGCCCGGCCcGGCCUGacaGcGCCGa---- -3'
miRNA:   3'- -CGGGCCGGuCUGGGCg--C-CGGCcuagu -5'
12999 3' -64.4 NC_003387.1 + 7813 0.66 0.304019
Target:  5'- aGCCCGGCgacgcgauaCGGauaugcgcGCCCgGCGGCUGcGUCAg -3'
miRNA:   3'- -CGGGCCG---------GUC--------UGGG-CGCCGGCcUAGU- -5'
12999 3' -64.4 NC_003387.1 + 33383 0.66 0.304019
Target:  5'- cGCCCGGCCAGguucucgccgcGCUCGUcGCUGuacucGGUCAc -3'
miRNA:   3'- -CGGGCCGGUC-----------UGGGCGcCGGC-----CUAGU- -5'
12999 3' -64.4 NC_003387.1 + 35690 0.66 0.296981
Target:  5'- cGCCCGGCgaGGGCggcagccgCCGCGGUuuGAUUAg -3'
miRNA:   3'- -CGGGCCGg-UCUG--------GGCGCCGgcCUAGU- -5'
12999 3' -64.4 NC_003387.1 + 11821 0.66 0.296981
Target:  5'- cGCCCGaGCCGcGA-UCGCGGCCuuGAUUAg -3'
miRNA:   3'- -CGGGC-CGGU-CUgGGCGCCGGc-CUAGU- -5'
12999 3' -64.4 NC_003387.1 + 6851 0.66 0.29282
Target:  5'- cGCUCGGCCGcGGCgCGCaGCCgcagcagcucgcgcaGGAUCu -3'
miRNA:   3'- -CGGGCCGGU-CUGgGCGcCGG---------------CCUAGu -5'
12999 3' -64.4 NC_003387.1 + 49072 0.66 0.29007
Target:  5'- -aCCGGgCAGGCUCGCGGCgcgcaGGcgUAc -3'
miRNA:   3'- cgGGCCgGUCUGGGCGCCGg----CCuaGU- -5'
12999 3' -64.4 NC_003387.1 + 16094 0.66 0.288022
Target:  5'- cGCCgucgggcaucgcggCGGCCAGcAgCCGCGagucgaacGCCGGGUUAc -3'
miRNA:   3'- -CGG--------------GCCGGUC-UgGGCGC--------CGGCCUAGU- -5'
12999 3' -64.4 NC_003387.1 + 23413 0.66 0.283286
Target:  5'- gGCCUGGCgCucguGCCCGCGgucGCCGGGg-- -3'
miRNA:   3'- -CGGGCCG-Guc--UGGGCGC---CGGCCUagu -5'
12999 3' -64.4 NC_003387.1 + 34997 0.66 0.283286
Target:  5'- gGCCCGGCCGGGCCgggGCGcaCCGccUCGa -3'
miRNA:   3'- -CGGGCCGGUCUGGg--CGCc-GGCcuAGU- -5'
12999 3' -64.4 NC_003387.1 + 21691 0.66 0.282615
Target:  5'- cGCCCuGGCCGccucggcgagcgcGGCCCGC-GCCGaccuGGUCGu -3'
miRNA:   3'- -CGGG-CCGGU-------------CUGGGCGcCGGC----CUAGU- -5'
12999 3' -64.4 NC_003387.1 + 7765 0.66 0.276629
Target:  5'- uCgCGGCCuGAgCCGCGGCCuGAg-- -3'
miRNA:   3'- cGgGCCGGuCUgGGCGCCGGcCUagu -5'
12999 3' -64.4 NC_003387.1 + 21427 0.66 0.276629
Target:  5'- gGCCCGGCgCAGcAgCUaCGGCUGG-UCAa -3'
miRNA:   3'- -CGGGCCG-GUC-UgGGcGCCGGCCuAGU- -5'
12999 3' -64.4 NC_003387.1 + 30487 0.66 0.274656
Target:  5'- uGCCCGuuauaggugaaauuGCCGGGgCCGgGGCCGcGAg-- -3'
miRNA:   3'- -CGGGC--------------CGGUCUgGGCgCCGGC-CUagu -5'
12999 3' -64.4 NC_003387.1 + 7049 0.67 0.263055
Target:  5'- gGCCCGGCCgcucgcccugaccGGACaCCuucggcgccagGCGGCC-GAUCu -3'
miRNA:   3'- -CGGGCCGG-------------UCUG-GG-----------CGCCGGcCUAGu -5'
12999 3' -64.4 NC_003387.1 + 21459 0.67 0.257405
Target:  5'- aCCCGGCCccgcuGGcgcaGCCCGCG-CCGG-UCGg -3'
miRNA:   3'- cGGGCCGG-----UC----UGGGCGCcGGCCuAGU- -5'
12999 3' -64.4 NC_003387.1 + 29364 0.67 0.251245
Target:  5'- aGCUCGGCCAucacuuGCUCGCGGgugagcagCGGGUCAu -3'
miRNA:   3'- -CGGGCCGGUc-----UGGGCGCCg-------GCCUAGU- -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.