miRNA display CGI


Results 1 - 17 of 17 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
8206 3' -57.4 NC_001978.2 + 40104 0.66 0.530219
Target:  5'- --aCACGCGCuUGUcGUCUACUGAcGCgCGc -3'
miRNA:   3'- caaGUGCGCG-GCA-CGGAUGACU-CG-GC- -5'
8206 3' -57.4 NC_001978.2 + 38539 0.66 0.530219
Target:  5'- cGUUgGCGCuacGCUGUGUC-GCUGGGCUu -3'
miRNA:   3'- -CAAgUGCG---CGGCACGGaUGACUCGGc -5'
8206 3' -57.4 NC_001978.2 + 12228 0.66 0.50576
Target:  5'- --cCACGUgccgcccccaGCCGUGCCcccgauaaggaccgUGCcgGAGCCGa -3'
miRNA:   3'- caaGUGCG----------CGGCACGG--------------AUGa-CUCGGC- -5'
8206 3' -57.4 NC_001978.2 + 17617 0.66 0.487997
Target:  5'- --cCACGC-CUGacaaGCCcGCUGAGCCGu -3'
miRNA:   3'- caaGUGCGcGGCa---CGGaUGACUCGGC- -5'
8206 3' -57.4 NC_001978.2 + 26183 0.67 0.418258
Target:  5'- -cUCACGCGCuUGUGgCauggACUGAcgGCCGg -3'
miRNA:   3'- caAGUGCGCG-GCACgGa---UGACU--CGGC- -5'
8206 3' -57.4 NC_001978.2 + 17161 0.68 0.408795
Target:  5'- aUUCGCcUGCCGUGCCgggGCuUGAGUgGu -3'
miRNA:   3'- cAAGUGcGCGGCACGGa--UG-ACUCGgC- -5'
8206 3' -57.4 NC_001978.2 + 34064 0.68 0.390277
Target:  5'- --gUugGCGCCGU-CCUugUGAacGCCa -3'
miRNA:   3'- caaGugCGCGGCAcGGAugACU--CGGc -5'
8206 3' -57.4 NC_001978.2 + 9885 0.68 0.372316
Target:  5'- cGUUCACGCGCgGU-CUUcagACUGGGuuGg -3'
miRNA:   3'- -CAAGUGCGCGgCAcGGA---UGACUCggC- -5'
8206 3' -57.4 NC_001978.2 + 28994 0.71 0.272524
Target:  5'- -gUCGCGCuUCGUcGCCUcaagccccuugaugaGCUGAGCCGu -3'
miRNA:   3'- caAGUGCGcGGCA-CGGA---------------UGACUCGGC- -5'
8206 3' -57.4 NC_001978.2 + 41194 0.72 0.209549
Target:  5'- cUUCACacuGCGCUGUGCCUgauagguggcgugguGCUGAGCa- -3'
miRNA:   3'- cAAGUG---CGCGGCACGGA---------------UGACUCGgc -5'
8206 3' -57.4 NC_001978.2 + 2519 0.72 0.207312
Target:  5'- -cUCGCGCGCaugGUGCCUGCcacucaGGCCGu -3'
miRNA:   3'- caAGUGCGCGg--CACGGAUGac----UCGGC- -5'
8206 3' -57.4 NC_001978.2 + 34251 0.74 0.148827
Target:  5'- -gUCAUGCGCCGUcggcggaGCUUGCcgGAGCCa -3'
miRNA:   3'- caAGUGCGCGGCA-------CGGAUGa-CUCGGc -5'
8206 3' -57.4 NC_001978.2 + 2556 0.75 0.141135
Target:  5'- --aCGCGUGCCGUGaCggucgACUGAGCCa -3'
miRNA:   3'- caaGUGCGCGGCACgGa----UGACUCGGc -5'
8206 3' -57.4 NC_001978.2 + 19867 0.77 0.103355
Target:  5'- --aUugGCGCCGUGCCgg--GGGCCGa -3'
miRNA:   3'- caaGugCGCGGCACGGaugaCUCGGC- -5'
8206 3' -57.4 NC_001978.2 + 19682 0.77 0.100437
Target:  5'- -cUCGCGCGCUGgGCauggACUGGGCCGa -3'
miRNA:   3'- caAGUGCGCGGCaCGga--UGACUCGGC- -5'
8206 3' -57.4 NC_001978.2 + 27838 0.8 0.057849
Target:  5'- cUUCAUGCGCCGUGCCgaACUGAaCCGu -3'
miRNA:   3'- cAAGUGCGCGGCACGGa-UGACUcGGC- -5'
8206 3' -57.4 NC_001978.2 + 32293 1.09 0.000394
Target:  5'- cGUUCACGCGCCGUGCCUACUGAGCCGa -3'
miRNA:   3'- -CAAGUGCGCGGCACGGAUGACUCGGC- -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.