miRNA display CGI


Results 1 - 15 of 15 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
12447 3' -61.6 NC_003324.1 + 5573 0.66 0.412463
Target:  5'- -cCGCGGGCGUCa-UCGGccugACCGuGAUc -3'
miRNA:   3'- uuGCGCCCGCGGgaAGCC----UGGCuCUG- -5'
12447 3' -61.6 NC_003324.1 + 42487 0.66 0.412463
Target:  5'- uGGCGCuGGCGCUgUUgCGGACCcGcGACc -3'
miRNA:   3'- -UUGCGcCCGCGGgAA-GCCUGG-CuCUG- -5'
12447 3' -61.6 NC_003324.1 + 48797 0.66 0.412463
Target:  5'- cGACGCGguuGGCGCCCUUuucguauuucUGGACCugcuGGAa -3'
miRNA:   3'- -UUGCGC---CCGCGGGAA----------GCCUGGc---UCUg -5'
12447 3' -61.6 NC_003324.1 + 38124 0.66 0.403532
Target:  5'- -uUGUGGG-GCgUUUCGGACC-AGACg -3'
miRNA:   3'- uuGCGCCCgCGgGAAGCCUGGcUCUG- -5'
12447 3' -61.6 NC_003324.1 + 24870 0.67 0.360767
Target:  5'- -uCGCGGGCGgCCUcgUUGGAaccgUCGAGGa -3'
miRNA:   3'- uuGCGCCCGCgGGA--AGCCU----GGCUCUg -5'
12447 3' -61.6 NC_003324.1 + 48511 0.67 0.360767
Target:  5'- cGGCGC-GGCGCUCUUCGa--UGAGGCg -3'
miRNA:   3'- -UUGCGcCCGCGGGAAGCcugGCUCUG- -5'
12447 3' -61.6 NC_003324.1 + 6190 0.67 0.344568
Target:  5'- aGGCGCGGGUaacgacuucGCCaagUUGGACCGAcuugcccucGGCg -3'
miRNA:   3'- -UUGCGCCCG---------CGGga-AGCCUGGCU---------CUG- -5'
12447 3' -61.6 NC_003324.1 + 43274 0.67 0.344568
Target:  5'- aGACGUGGGUGCgccuugCCUUCG--UCGAGGCu -3'
miRNA:   3'- -UUGCGCCCGCG------GGAAGCcuGGCUCUG- -5'
12447 3' -61.6 NC_003324.1 + 42744 0.7 0.228196
Target:  5'- aAGCGUGGGCGCUCUcccaugcgcggaUCGGcaACgGAGAa -3'
miRNA:   3'- -UUGCGCCCGCGGGA------------AGCC--UGgCUCUg -5'
12447 3' -61.6 NC_003324.1 + 20273 0.7 0.228196
Target:  5'- gGGCGCGuuacgcGCGCCUcUCuGACCGAGGCu -3'
miRNA:   3'- -UUGCGCc-----CGCGGGaAGcCUGGCUCUG- -5'
12447 3' -61.6 NC_003324.1 + 11295 0.7 0.216934
Target:  5'- cACGgGGGuCGCCUcauuuggCGuGACCGAGGCg -3'
miRNA:   3'- uUGCgCCC-GCGGGaa-----GC-CUGGCUCUG- -5'
12447 3' -61.6 NC_003324.1 + 38425 0.71 0.195835
Target:  5'- cAGCGCcgccccGGUGCCC-UCGuGAUCGAGACg -3'
miRNA:   3'- -UUGCGc-----CCGCGGGaAGC-CUGGCUCUG- -5'
12447 3' -61.6 NC_003324.1 + 45858 0.72 0.158976
Target:  5'- cGGCGCgGGGCGCCUgaugCGaGGCCGuGAUg -3'
miRNA:   3'- -UUGCG-CCCGCGGGaa--GC-CUGGCuCUG- -5'
12447 3' -61.6 NC_003324.1 + 584 0.76 0.074436
Target:  5'- gGGCGCGaacuGCGUCCgUUGGACCGAGGCg -3'
miRNA:   3'- -UUGCGCc---CGCGGGaAGCCUGGCUCUG- -5'
12447 3' -61.6 NC_003324.1 + 28511 1.06 0.000448
Target:  5'- cAACGCGGGCGCCCUUCGGACCGAGACc -3'
miRNA:   3'- -UUGCGCCCGCGGGAAGCCUGGCUCUG- -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.