miRNA display CGI


Results 1 - 20 of 53 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
29932 5' -58.8 NC_006273.1 + 63189 1.1 0.00197
Target:  5'- gAACCCACCGCCUCUGGAGGCAAGAGCa -3'
miRNA:   3'- -UUGGGUGGCGGAGACCUCCGUUCUCG- -5'
29932 5' -58.8 NC_006273.1 + 4923 0.76 0.341492
Target:  5'- cGCCCGCCgggGCUUCUGGAGaacGCcGGAGCa -3'
miRNA:   3'- uUGGGUGG---CGGAGACCUC---CGuUCUCG- -5'
29932 5' -58.8 NC_006273.1 + 147518 0.73 0.456082
Target:  5'- cGGCCCGCuCG-CUCgGGAGGCGaugGGGGCg -3'
miRNA:   3'- -UUGGGUG-GCgGAGaCCUCCGU---UCUCG- -5'
29932 5' -58.8 NC_006273.1 + 174278 0.73 0.492457
Target:  5'- cGACCaugaGCCgCUGGAGGCAugGGAGCa -3'
miRNA:   3'- -UUGGguggCGGaGACCUCCGU--UCUCG- -5'
29932 5' -58.8 NC_006273.1 + 188405 0.72 0.50176
Target:  5'- aGAUCCACCGCCUCgaccGuGGUgAAGGGCg -3'
miRNA:   3'- -UUGGGUGGCGGAGac--CuCCG-UUCUCG- -5'
29932 5' -58.8 NC_006273.1 + 129842 0.72 0.51114
Target:  5'- uGACaUCACCGCCUCccGAGGCAcgucGGGGCu -3'
miRNA:   3'- -UUG-GGUGGCGGAGacCUCCGU----UCUCG- -5'
29932 5' -58.8 NC_006273.1 + 94357 0.72 0.520591
Target:  5'- -uCCCACCGCC-CUGGA-GCAccauccGGGGCc -3'
miRNA:   3'- uuGGGUGGCGGaGACCUcCGU------UCUCG- -5'
29932 5' -58.8 NC_006273.1 + 104239 0.72 0.549333
Target:  5'- cACCuCGCCGCCguguucGGGCGAGAGCa -3'
miRNA:   3'- uUGG-GUGGCGGagacc-UCCGUUCUCG- -5'
29932 5' -58.8 NC_006273.1 + 147906 0.71 0.568766
Target:  5'- cGCCCggGCCGCCUgaGGAagGGgAGGAGUg -3'
miRNA:   3'- uUGGG--UGGCGGAgaCCU--CCgUUCUCG- -5'
29932 5' -58.8 NC_006273.1 + 193074 0.71 0.598213
Target:  5'- -cCCCACgcaGCCgCUGGAcGGCuGGAGCu -3'
miRNA:   3'- uuGGGUGg--CGGaGACCU-CCGuUCUCG- -5'
29932 5' -58.8 NC_006273.1 + 142803 0.7 0.617972
Target:  5'- --gCCGCCGUCgCUGGuGGGCAcGGGCg -3'
miRNA:   3'- uugGGUGGCGGaGACC-UCCGUuCUCG- -5'
29932 5' -58.8 NC_006273.1 + 73729 0.69 0.687062
Target:  5'- -cCCCGCCGCCaugGGuGGCGGcGGCg -3'
miRNA:   3'- uuGGGUGGCGGagaCCuCCGUUcUCG- -5'
29932 5' -58.8 NC_006273.1 + 153805 0.69 0.687062
Target:  5'- --gCCGCCGCCugcgaggaccUCUcGGAGcuguGCGAGAGCa -3'
miRNA:   3'- uugGGUGGCGG----------AGA-CCUC----CGUUCUCG- -5'
29932 5' -58.8 NC_006273.1 + 197387 0.69 0.706536
Target:  5'- cACCCGCgCGCCgcgCUGuGGGcGCGcGAGCc -3'
miRNA:   3'- uUGGGUG-GCGGa--GAC-CUC-CGUuCUCG- -5'
29932 5' -58.8 NC_006273.1 + 2494 0.69 0.706536
Target:  5'- cACCCGCgCGCCgcgCUGuGGGcGCGcGAGCc -3'
miRNA:   3'- uUGGGUG-GCGGa--GAC-CUC-CGUuCUCG- -5'
29932 5' -58.8 NC_006273.1 + 211703 0.69 0.716188
Target:  5'- gAAUCUcgGCgGgCCUCUGGGGGCcgcacGGAGCg -3'
miRNA:   3'- -UUGGG--UGgC-GGAGACCUCCGu----UCUCG- -5'
29932 5' -58.8 NC_006273.1 + 112181 0.69 0.716188
Target:  5'- gGACCCuCCGUCUUUGGAcGauuGGAGCu -3'
miRNA:   3'- -UUGGGuGGCGGAGACCUcCgu-UCUCG- -5'
29932 5' -58.8 NC_006273.1 + 190360 0.69 0.716188
Target:  5'- cAGgCCGCCGCCg-UGGGGGCcgcGGAGg -3'
miRNA:   3'- -UUgGGUGGCGGagACCUCCGu--UCUCg -5'
29932 5' -58.8 NC_006273.1 + 179077 0.69 0.716188
Target:  5'- cAACCCuCUGCUUUUGcGGGCAAGcGCg -3'
miRNA:   3'- -UUGGGuGGCGGAGACcUCCGUUCuCG- -5'
29932 5' -58.8 NC_006273.1 + 96659 0.69 0.716188
Target:  5'- cGCCCGaucCCGCCUCcGGuAGGCGAuuuGCa -3'
miRNA:   3'- uUGGGU---GGCGGAGaCC-UCCGUUcu-CG- -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.