miRNA display CGI


Results 1 - 20 of 27 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
23072 5' -57.3 NC_005178.1 + 1423 1.13 0.000216
Target:  5'- aUCUUCGAUGUUCCGCAGCCGGCCCGCg -3'
miRNA:   3'- -AGAAGCUACAAGGCGUCGGCCGGGCG- -5'
23072 5' -57.3 NC_005178.1 + 11775 0.78 0.087197
Target:  5'- --aUgGggGUUCCGCcgcaGGCCGGCCUGCa -3'
miRNA:   3'- agaAgCuaCAAGGCG----UCGGCCGGGCG- -5'
23072 5' -57.3 NC_005178.1 + 16048 0.71 0.270363
Target:  5'- ---gCGGgcUGUUCCGCGuGCUGGCCUGg -3'
miRNA:   3'- agaaGCU--ACAAGGCGU-CGGCCGGGCg -5'
23072 5' -57.3 NC_005178.1 + 7098 0.71 0.270363
Target:  5'- cUCggUCGA-GUgcagcgaguaccUCCaGCGGCCGGCgCCGCu -3'
miRNA:   3'- -AGa-AGCUaCA------------AGG-CGUCGGCCG-GGCG- -5'
23072 5' -57.3 NC_005178.1 + 31961 0.7 0.291878
Target:  5'- --gUCGgcGUUCCGUAGCCuGGUCUauGCa -3'
miRNA:   3'- agaAGCuaCAAGGCGUCGG-CCGGG--CG- -5'
23072 5' -57.3 NC_005178.1 + 11659 0.7 0.306952
Target:  5'- --gUCGGUGaUCUGC-GCCGGCaacugCCGCa -3'
miRNA:   3'- agaAGCUACaAGGCGuCGGCCG-----GGCG- -5'
23072 5' -57.3 NC_005178.1 + 25976 0.7 0.284561
Target:  5'- aUCUUCGG-GUUgUGCgggAGCUGGCCCuGCc -3'
miRNA:   3'- -AGAAGCUaCAAgGCG---UCGGCCGGG-CG- -5'
23072 5' -57.3 NC_005178.1 + 28319 0.69 0.322615
Target:  5'- aUCUUCGAUGcUUCggagucgugcaGCGGCgGGCCUuGCa -3'
miRNA:   3'- -AGAAGCUAC-AAGg----------CGUCGgCCGGG-CG- -5'
23072 5' -57.3 NC_005178.1 + 2173 0.69 0.347212
Target:  5'- cUCgcUGGUGUUCgucaGCAGCCGGgCCUGg -3'
miRNA:   3'- -AGaaGCUACAAGg---CGUCGGCC-GGGCg -5'
23072 5' -57.3 NC_005178.1 + 33914 0.69 0.347212
Target:  5'- gCggCGAUGcUCgGCGGCCGGUgCCGg -3'
miRNA:   3'- aGaaGCUACaAGgCGUCGGCCG-GGCg -5'
23072 5' -57.3 NC_005178.1 + 9035 0.68 0.364341
Target:  5'- gCUUCGAccUGgagcaaugCCGC-GCCGcGCUCGCg -3'
miRNA:   3'- aGAAGCU--ACaa------GGCGuCGGC-CGGGCG- -5'
23072 5' -57.3 NC_005178.1 + 6732 0.68 0.364341
Target:  5'- ---cUGAUGcgCCGCGuagacGCCGGCCCa- -3'
miRNA:   3'- agaaGCUACaaGGCGU-----CGGCCGGGcg -5'
23072 5' -57.3 NC_005178.1 + 7551 0.68 0.381146
Target:  5'- cUUUCGAcgaauacggguUGUUCUGCAccgaguuGCCGGgCUGCg -3'
miRNA:   3'- aGAAGCU-----------ACAAGGCGU-------CGGCCgGGCG- -5'
23072 5' -57.3 NC_005178.1 + 11926 0.68 0.382045
Target:  5'- cUCggCGGUGgcuuucgCCGCAGCCucGG-CCGCu -3'
miRNA:   3'- -AGaaGCUACaa-----GGCGUCGG--CCgGGCG- -5'
23072 5' -57.3 NC_005178.1 + 8820 0.68 0.39111
Target:  5'- ---aCGAUGUaauggucgCCGCccuuGCCGGCCCa- -3'
miRNA:   3'- agaaGCUACAa-------GGCGu---CGGCCGGGcg -5'
23072 5' -57.3 NC_005178.1 + 11878 0.68 0.399387
Target:  5'- --gUCGAUGg-CCGCgagcaguuugcccAGCuCGGCCUGCu -3'
miRNA:   3'- agaAGCUACaaGGCG-------------UCG-GCCGGGCG- -5'
23072 5' -57.3 NC_005178.1 + 14295 0.67 0.45631
Target:  5'- gUCUUCGGcuccggcaagcgGaUgCGCGGCCuucgacacGGCCCGCa -3'
miRNA:   3'- -AGAAGCUa-----------CaAgGCGUCGG--------CCGGGCG- -5'
23072 5' -57.3 NC_005178.1 + 27225 0.67 0.468416
Target:  5'- gCUUCGccccUCCGCGcCCGGCCCu- -3'
miRNA:   3'- aGAAGCuacaAGGCGUcGGCCGGGcg -5'
23072 5' -57.3 NC_005178.1 + 25756 0.67 0.458316
Target:  5'- ----gGGUGUccuggUCCauguGCAgGCCGGCCUGCg -3'
miRNA:   3'- agaagCUACA-----AGG----CGU-CGGCCGGGCG- -5'
23072 5' -57.3 NC_005178.1 + 25303 0.67 0.458316
Target:  5'- ---cCGAguaguuUGUUggUCGCuGUCGGCCCGCu -3'
miRNA:   3'- agaaGCU------ACAA--GGCGuCGGCCGGGCG- -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.