miRNA display CGI


Results 1 - 20 of 28 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
15935 3' -54.2 NC_004065.1 + 1524 1.1 0.004414
Target:  5'- aAGAAGAGUGGGCACGCAAGCCUACACg -3'
miRNA:   3'- -UCUUCUCACCCGUGCGUUCGGAUGUG- -5'
15935 3' -54.2 NC_004065.1 + 34457 0.74 0.655371
Target:  5'- -cGAGcGUGGGCACGCAGGUCUcgGCu -3'
miRNA:   3'- ucUUCuCACCCGUGCGUUCGGAugUG- -5'
15935 3' -54.2 NC_004065.1 + 197988 0.72 0.783421
Target:  5'- --cAGAGUGGGCAgGaCGGGacaCUGCGCg -3'
miRNA:   3'- ucuUCUCACCCGUgC-GUUCg--GAUGUG- -5'
15935 3' -54.2 NC_004065.1 + 2898 0.72 0.783421
Target:  5'- uGGAGGGGUGGGUucgGCAGGCCa---- -3'
miRNA:   3'- -UCUUCUCACCCGug-CGUUCGGaugug -5'
15935 3' -54.2 NC_004065.1 + 124179 0.71 0.792574
Target:  5'- --cAGGGUGuGCGCGCAGGCCgccgaguaGCACg -3'
miRNA:   3'- ucuUCUCACcCGUGCGUUCGGa-------UGUG- -5'
15935 3' -54.2 NC_004065.1 + 61244 0.71 0.827656
Target:  5'- cGGAGAGgaaGGCGuCGaAGGCCUGCGCg -3'
miRNA:   3'- uCUUCUCac-CCGU-GCgUUCGGAUGUG- -5'
15935 3' -54.2 NC_004065.1 + 67149 0.71 0.836001
Target:  5'- gAGAAaAGUGGGCACGUAAucuaCCgcgACGCa -3'
miRNA:   3'- -UCUUcUCACCCGUGCGUUc---GGa--UGUG- -5'
15935 3' -54.2 NC_004065.1 + 201446 0.7 0.859895
Target:  5'- uGGucGGGUGGGgGCuCGAGCCggACGCu -3'
miRNA:   3'- -UCuuCUCACCCgUGcGUUCGGa-UGUG- -5'
15935 3' -54.2 NC_004065.1 + 45827 0.7 0.866709
Target:  5'- ---cGGGUGGGCAUGUAucggaccGGCC-GCACg -3'
miRNA:   3'- ucuuCUCACCCGUGCGU-------UCGGaUGUG- -5'
15935 3' -54.2 NC_004065.1 + 189945 0.69 0.895532
Target:  5'- cGAAGucaGGGCgGCGCAGGUCaGCACg -3'
miRNA:   3'- uCUUCucaCCCG-UGCGUUCGGaUGUG- -5'
15935 3' -54.2 NC_004065.1 + 29775 0.69 0.901985
Target:  5'- uGGGAGAcGUacggGGGCGCuccgGCGGGCCguUACACg -3'
miRNA:   3'- -UCUUCU-CA----CCCGUG----CGUUCGG--AUGUG- -5'
15935 3' -54.2 NC_004065.1 + 30974 0.69 0.91419
Target:  5'- aAGAcGAGUGGGaUGCGCucGCCgcgucggGCGCu -3'
miRNA:   3'- -UCUuCUCACCC-GUGCGuuCGGa------UGUG- -5'
15935 3' -54.2 NC_004065.1 + 138446 0.69 0.91419
Target:  5'- cGAGGGGUcgGGGCGgGCGAGCa-GCAa -3'
miRNA:   3'- uCUUCUCA--CCCGUgCGUUCGgaUGUg -5'
15935 3' -54.2 NC_004065.1 + 108726 0.68 0.919937
Target:  5'- cAGAAG-G-GGGCGCGCGucGCCcucACGCg -3'
miRNA:   3'- -UCUUCuCaCCCGUGCGUu-CGGa--UGUG- -5'
15935 3' -54.2 NC_004065.1 + 4409 0.68 0.925445
Target:  5'- cGGAGcGGUGGcCACgGCGGGCCUgACGCu -3'
miRNA:   3'- uCUUC-UCACCcGUG-CGUUCGGA-UGUG- -5'
15935 3' -54.2 NC_004065.1 + 148102 0.68 0.930713
Target:  5'- cGGAGAGaUGGuGCAC-CAcGCCUACGa -3'
miRNA:   3'- uCUUCUC-ACC-CGUGcGUuCGGAUGUg -5'
15935 3' -54.2 NC_004065.1 + 148634 0.67 0.945088
Target:  5'- ---cGGGUGGGCAaGUAcuGCCUGCAg -3'
miRNA:   3'- ucuuCUCACCCGUgCGUu-CGGAUGUg -5'
15935 3' -54.2 NC_004065.1 + 32660 0.67 0.948985
Target:  5'- aGGAGGAGUuccucgcGGGCgcgguucucGCGCAGcGCCUucgggACGCg -3'
miRNA:   3'- -UCUUCUCA-------CCCG---------UGCGUU-CGGA-----UGUG- -5'
15935 3' -54.2 NC_004065.1 + 129150 0.67 0.953095
Target:  5'- cGGAGGAGaacuaccUGGG-GCGC-AGCCUGgACg -3'
miRNA:   3'- -UCUUCUC-------ACCCgUGCGuUCGGAUgUG- -5'
15935 3' -54.2 NC_004065.1 + 124711 0.67 0.953494
Target:  5'- gGGAacAGAG-GuGGCGaGCAucaaAGCCUACGCg -3'
miRNA:   3'- -UCU--UCUCaC-CCGUgCGU----UCGGAUGUG- -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.