miRNA display CGI


Results 1 - 16 of 16 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
18735 3' -56.5 NC_004682.1 + 25405 0.66 0.639745
Target:  5'- -aUUUCGGU-CCUCGGGAGgggGGCUUUu -3'
miRNA:   3'- gaAGGGCCAuGGGGUCCUUa--CCGAGG- -5'
18735 3' -56.5 NC_004682.1 + 44514 0.66 0.639745
Target:  5'- -gUCCCGGa--CCCAGcGggUcGGCcugUCCg -3'
miRNA:   3'- gaAGGGCCaugGGGUC-CuuA-CCG---AGG- -5'
18735 3' -56.5 NC_004682.1 + 44573 0.66 0.639745
Target:  5'- uUUCCCGcu-CUUCGGGggUGGcCUCa -3'
miRNA:   3'- gAAGGGCcauGGGGUCCuuACC-GAGg -5'
18735 3' -56.5 NC_004682.1 + 26108 0.66 0.639745
Target:  5'- cCUUCUCGGUaaccggcuggcuGCCguacugcuCCAGGAAgagcuGCUCCa -3'
miRNA:   3'- -GAAGGGCCA------------UGG--------GGUCCUUac---CGAGG- -5'
18735 3' -56.5 NC_004682.1 + 50477 0.66 0.628807
Target:  5'- -cUCCCGGaggggaGCCgCuuGGGGGcGGCUCCu -3'
miRNA:   3'- gaAGGGCCa-----UGGgG--UCCUUaCCGAGG- -5'
18735 3' -56.5 NC_004682.1 + 2161 0.67 0.584091
Target:  5'- ---aCCGGUccacaagGCCCCaAGGGAgacacgGGUUCCc -3'
miRNA:   3'- gaagGGCCA-------UGGGG-UCCUUa-----CCGAGG- -5'
18735 3' -56.5 NC_004682.1 + 62 0.67 0.574343
Target:  5'- --gCCCaGGaagGCCCCGuGGAGaGGCUCa -3'
miRNA:   3'- gaaGGG-CCa--UGGGGU-CCUUaCCGAGg -5'
18735 3' -56.5 NC_004682.1 + 7473 0.67 0.552827
Target:  5'- ---gCCGacGUACCCCuacgacuuggGGGAGUGGCcCCg -3'
miRNA:   3'- gaagGGC--CAUGGGG----------UCCUUACCGaGG- -5'
18735 3' -56.5 NC_004682.1 + 13464 0.68 0.531558
Target:  5'- --aCCCGGUacGCCCCGGcccUGGCUg- -3'
miRNA:   3'- gaaGGGCCA--UGGGGUCcuuACCGAgg -5'
18735 3' -56.5 NC_004682.1 + 21319 0.68 0.521034
Target:  5'- --aCCCGcGUACCgCAGGAGguguUGGCcgacaacgucuUCCg -3'
miRNA:   3'- gaaGGGC-CAUGGgGUCCUU----ACCG-----------AGG- -5'
18735 3' -56.5 NC_004682.1 + 19383 0.68 0.510592
Target:  5'- --aCCUGGUggACCCCAGGcccuucaaggaaGGUGGCaUCg -3'
miRNA:   3'- gaaGGGCCA--UGGGGUCC------------UUACCG-AGg -5'
18735 3' -56.5 NC_004682.1 + 8500 0.68 0.489979
Target:  5'- --aCCUGGacgACCCCGaagugcGGAGcUGGCUCUa -3'
miRNA:   3'- gaaGGGCCa--UGGGGU------CCUU-ACCGAGG- -5'
18735 3' -56.5 NC_004682.1 + 50809 0.68 0.489979
Target:  5'- --gCCaGGUACCCCAGGGG-GGUaugCCc -3'
miRNA:   3'- gaaGGgCCAUGGGGUCCUUaCCGa--GG- -5'
18735 3' -56.5 NC_004682.1 + 21767 0.69 0.479819
Target:  5'- uCUUCCUGGccUUCCAGGAGUacccgacGCUCCg -3'
miRNA:   3'- -GAAGGGCCauGGGGUCCUUAc------CGAGG- -5'
18735 3' -56.5 NC_004682.1 + 2795 0.72 0.325811
Target:  5'- uCUUCCUGGgcaACuCCCAGGuAUGGC-CUg -3'
miRNA:   3'- -GAAGGGCCa--UG-GGGUCCuUACCGaGG- -5'
18735 3' -56.5 NC_004682.1 + 38396 1.11 0.000505
Target:  5'- aCUUCCCGGUACCCCAGGAAUGGCUCCc -3'
miRNA:   3'- -GAAGGGCCAUGGGGUCCUUACCGAGG- -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.