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 + 8060 0.68 0.206254
Target:  5'- aGCaCCGG-CAGcCCCuCGGCCaGGAUCGc -3'
miRNA:   3'- -CG-GGCCgGUCuGGGcGCCGG-CCUAGU- -5'
12999 3' -64.4 NC_003387.1 + 38085 0.67 0.251245
Target:  5'- cGCCCucGGCCuuGCCCuucgcguacacGuCGGCCGGGUUg -3'
miRNA:   3'- -CGGG--CCGGucUGGG-----------C-GCCGGCCUAGu -5'
12999 3' -64.4 NC_003387.1 + 29364 0.67 0.251245
Target:  5'- aGCUCGGCCAucacuuGCUCGCGGgugagcagCGGGUCAu -3'
miRNA:   3'- -CGGGCCGGUc-----UGGGCGCCg-------GCCUAGU- -5'
12999 3' -64.4 NC_003387.1 + 47924 0.67 0.235795
Target:  5'- uGCCguugUGGCCgucgccgcGGGCCUGCGacaugaagucacggcGCCGGAUCGa -3'
miRNA:   3'- -CGG----GCCGG--------UCUGGGCGC---------------CGGCCUAGU- -5'
12999 3' -64.4 NC_003387.1 + 49055 0.67 0.233491
Target:  5'- gGCCuCGGUCAGG-CCGCucaGCCGGggCAc -3'
miRNA:   3'- -CGG-GCCGGUCUgGGCGc--CGGCCuaGU- -5'
12999 3' -64.4 NC_003387.1 + 5805 0.67 0.233491
Target:  5'- uGCCCGGCuCAaGCgUGCGGCCGug-CAc -3'
miRNA:   3'- -CGGGCCG-GUcUGgGCGCCGGCcuaGU- -5'
12999 3' -64.4 NC_003387.1 + 17095 0.67 0.233491
Target:  5'- cGCCCGGCCgccucggcGGGCUccuCGgGGCCGuaggcGAUCGc -3'
miRNA:   3'- -CGGGCCGG--------UCUGG---GCgCCGGC-----CUAGU- -5'
12999 3' -64.4 NC_003387.1 + 9748 0.68 0.227811
Target:  5'- aGgUCGGCCAGGCUcaCGCGcauGCCGGggCGg -3'
miRNA:   3'- -CgGGCCGGUCUGG--GCGC---CGGCCuaGU- -5'
12999 3' -64.4 NC_003387.1 + 13308 0.68 0.206254
Target:  5'- cGCCCGGUCAccucGACCCacucGCGcGCCaGGcgCAc -3'
miRNA:   3'- -CGGGCCGGU----CUGGG----CGC-CGG-CCuaGU- -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 + 30487 0.66 0.274656
Target:  5'- uGCCCGuuauaggugaaauuGCCGGGgCCGgGGCCGcGAg-- -3'
miRNA:   3'- -CGGGC--------------CGGUCUgGGCgCCGGC-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 + 33383 0.66 0.304019
Target:  5'- cGCCCGGCCAGguucucgccgcGCUCGUcGCUGuacucGGUCAc -3'
miRNA:   3'- -CGGGCCGGUC-----------UGGGCGcCGGC-----CUAGU- -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 + 11821 0.66 0.296981
Target:  5'- cGCCCGaGCCGcGA-UCGCGGCCuuGAUUAg -3'
miRNA:   3'- -CGGGC-CGGU-CUgGGCGCCGGc-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 + 6851 0.66 0.29282
Target:  5'- cGCUCGGCCGcGGCgCGCaGCCgcagcagcucgcgcaGGAUCu -3'
miRNA:   3'- -CGGGCCGGU-CUGgGCGcCGG---------------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 + 34997 0.66 0.283286
Target:  5'- gGCCCGGCCGGGCCgggGCGcaCCGccUCGa -3'
miRNA:   3'- -CGGGCCGGUCUGGg--CGCc-GGCcuAGU- -5'
12999 3' -64.4 NC_003387.1 + 23413 0.66 0.283286
Target:  5'- gGCCUGGCgCucguGCCCGCGgucGCCGGGg-- -3'
miRNA:   3'- -CGGGCCG-Guc--UGGGCGC---CGGCCUagu -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.