miRNA display CGI


Results 1 - 20 of 49 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
25533 3' -55.4 NC_005337.1 + 116111 1.11 0.001969
Target:  5'- aGUUCGUCGAGCAGGAGCUCGUGGAGCu -3'
miRNA:   3'- -CAAGCAGCUCGUCCUCGAGCACCUCG- -5'
25533 3' -55.4 NC_005337.1 + 108885 0.67 0.848679
Target:  5'- -gUCGUCGAcggcggcgGCAGcGAGCgCGUG-AGCa -3'
miRNA:   3'- caAGCAGCU--------CGUC-CUCGaGCACcUCG- -5'
25533 3' -55.4 NC_005337.1 + 24586 0.67 0.87916
Target:  5'- ---aG-CGAGCAGaccaucGAGCUCGUGGccuucGGCg -3'
miRNA:   3'- caagCaGCUCGUC------CUCGAGCACC-----UCG- -5'
25533 3' -55.4 NC_005337.1 + 13398 0.66 0.918072
Target:  5'- --cCGUgCGGGC-GGAGCga-UGGAGCu -3'
miRNA:   3'- caaGCA-GCUCGuCCUCGagcACCUCG- -5'
25533 3' -55.4 NC_005337.1 + 95887 0.72 0.607244
Target:  5'- -aUCGUCuAGCAGGGcGCUCGUGcucgcGGCg -3'
miRNA:   3'- caAGCAGcUCGUCCU-CGAGCACc----UCG- -5'
25533 3' -55.4 NC_005337.1 + 24215 0.72 0.627926
Target:  5'- --gCGUCGAGguGGAGCUgcccccggcCGUGGccucgcucaucaAGCa -3'
miRNA:   3'- caaGCAGCUCguCCUCGA---------GCACC------------UCG- -5'
25533 3' -55.4 NC_005337.1 + 133444 0.7 0.714136
Target:  5'- cUUCGUCGAGCccGGGcccgcgcgcgcggacGGCUCcGcGGAGCu -3'
miRNA:   3'- cAAGCAGCUCG--UCC---------------UCGAG-CaCCUCG- -5'
25533 3' -55.4 NC_005337.1 + 70137 0.69 0.769137
Target:  5'- --cCGUCaGGGaCAGGuGCUUGUuucGGAGCg -3'
miRNA:   3'- caaGCAG-CUC-GUCCuCGAGCA---CCUCG- -5'
25533 3' -55.4 NC_005337.1 + 72228 0.69 0.778594
Target:  5'- -aUCGUCGAGUGGGGGCgcgccuUCGUaGAcGCc -3'
miRNA:   3'- caAGCAGCUCGUCCUCG------AGCAcCU-CG- -5'
25533 3' -55.4 NC_005337.1 + 2388 0.68 0.832208
Target:  5'- --gCGUCGAcgacacgcGCAGGcggaAGCggucgcaCGUGGAGCg -3'
miRNA:   3'- caaGCAGCU--------CGUCC----UCGa------GCACCUCG- -5'
25533 3' -55.4 NC_005337.1 + 892 0.68 0.823689
Target:  5'- --gCGcCGAGCAGGAGCccgagcgCGacGAGCg -3'
miRNA:   3'- caaGCaGCUCGUCCUCGa------GCacCUCG- -5'
25533 3' -55.4 NC_005337.1 + 130712 0.69 0.778594
Target:  5'- cGUcCG-CGuGCGuGGAGCUCGUcGAGCg -3'
miRNA:   3'- -CAaGCaGCuCGU-CCUCGAGCAcCUCG- -5'
25533 3' -55.4 NC_005337.1 + 41850 0.83 0.162809
Target:  5'- -cUCGUCGGGCGGGAGCgggcUCGUGGcGUa -3'
miRNA:   3'- caAGCAGCUCGUCCUCG----AGCACCuCG- -5'
25533 3' -55.4 NC_005337.1 + 56312 0.68 0.823689
Target:  5'- -cUCGagaUCucGCAGGAGCgcuUCGUGGuGCu -3'
miRNA:   3'- caAGC---AGcuCGUCCUCG---AGCACCuCG- -5'
25533 3' -55.4 NC_005337.1 + 66326 0.75 0.412802
Target:  5'- -gUCG-CGGGCuGGcgacacguGCUCGUGGAGCg -3'
miRNA:   3'- caAGCaGCUCGuCCu-------CGAGCACCUCG- -5'
25533 3' -55.4 NC_005337.1 + 17589 0.69 0.769137
Target:  5'- aUUUGgcauugGAGCGGGAGCUgGagcgGGAGCu -3'
miRNA:   3'- cAAGCag----CUCGUCCUCGAgCa---CCUCG- -5'
25533 3' -55.4 NC_005337.1 + 105476 0.68 0.831364
Target:  5'- -gUCGUgcugcggcgcaUGAGCaagauccGGGAGUUCGUGGcGCa -3'
miRNA:   3'- caAGCA-----------GCUCG-------UCCUCGAGCACCuCG- -5'
25533 3' -55.4 NC_005337.1 + 113126 0.67 0.870378
Target:  5'- --gCGUCGAGCAGGAcgcgcugcgguacguGCUguucgcggugcgcugCGUGGcGGCc -3'
miRNA:   3'- caaGCAGCUCGUCCU---------------CGA---------------GCACC-UCG- -5'
25533 3' -55.4 NC_005337.1 + 60479 0.75 0.439699
Target:  5'- ---aGUCGAGCGuGAGCUCGUGcGGCu -3'
miRNA:   3'- caagCAGCUCGUcCUCGAGCACcUCG- -5'
25533 3' -55.4 NC_005337.1 + 100237 0.7 0.710101
Target:  5'- --cCGUCGAcgGCA--AGCUCGUGGAGg -3'
miRNA:   3'- caaGCAGCU--CGUccUCGAGCACCUCg -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.