miRNA display CGI


Results 1 - 20 of 35 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
12344 3' -54.8 NC_003324.1 + 20582 1.07 0.001391
Target:  5'- gGGCACGCCCUCGCUCAAUCGCAACAUc -3'
miRNA:   3'- -CCGUGCGGGAGCGAGUUAGCGUUGUA- -5'
12344 3' -54.8 NC_003324.1 + 56204 0.75 0.254991
Target:  5'- cGGCAgccuCGCCUaUCGCUCGAUCgGCGGCGa -3'
miRNA:   3'- -CCGU----GCGGG-AGCGAGUUAG-CGUUGUa -5'
12344 3' -54.8 NC_003324.1 + 7760 0.73 0.336726
Target:  5'- aGCACG-CCUCGCagggaggcgCGAUCGCAACGg -3'
miRNA:   3'- cCGUGCgGGAGCGa--------GUUAGCGUUGUa -5'
12344 3' -54.8 NC_003324.1 + 29007 0.72 0.379733
Target:  5'- cGGCACGCUCaaaGCaggagccggaaUCGGUCGCAGCGa -3'
miRNA:   3'- -CCGUGCGGGag-CG-----------AGUUAGCGUUGUa -5'
12344 3' -54.8 NC_003324.1 + 36511 0.71 0.407245
Target:  5'- cGGCAUGCCCUacgGCaUGAUCcGCAACAUc -3'
miRNA:   3'- -CCGUGCGGGAg--CGaGUUAG-CGUUGUA- -5'
12344 3' -54.8 NC_003324.1 + 55813 0.71 0.416689
Target:  5'- cGGCGUGCCCUCGUggauuUUGCGGCAg -3'
miRNA:   3'- -CCGUGCGGGAGCGaguu-AGCGUUGUa -5'
12344 3' -54.8 NC_003324.1 + 40607 0.71 0.426266
Target:  5'- aGGCuucuCGCCg-CGCUCGAUCGUGGCu- -3'
miRNA:   3'- -CCGu---GCGGgaGCGAGUUAGCGUUGua -5'
12344 3' -54.8 NC_003324.1 + 5184 0.71 0.444817
Target:  5'- aGGCAucauUGCCCUCGCUUAccccucuAUCGCuGGCGc -3'
miRNA:   3'- -CCGU----GCGGGAGCGAGU-------UAGCG-UUGUa -5'
12344 3' -54.8 NC_003324.1 + 4 0.7 0.476023
Target:  5'- uGGCAUGUCCUCgaccugguGCUCAGUCcCAACc- -3'
miRNA:   3'- -CCGUGCGGGAG--------CGAGUUAGcGUUGua -5'
12344 3' -54.8 NC_003324.1 + 36446 0.69 0.539263
Target:  5'- gGGCAUGCCgUCGCgcc--CGCGGCGc -3'
miRNA:   3'- -CCGUGCGGgAGCGaguuaGCGUUGUa -5'
12344 3' -54.8 NC_003324.1 + 53895 0.69 0.539263
Target:  5'- uGGUGCGCCC-CGCcgCAAgaucaucagCGCGGCAa -3'
miRNA:   3'- -CCGUGCGGGaGCGa-GUUa--------GCGUUGUa -5'
12344 3' -54.8 NC_003324.1 + 48936 0.69 0.549012
Target:  5'- uGGUcaAgGCCgUCGCUucuucggCAGUCGCGGCAUa -3'
miRNA:   3'- -CCG--UgCGGgAGCGA-------GUUAGCGUUGUA- -5'
12344 3' -54.8 NC_003324.1 + 57245 0.68 0.615107
Target:  5'- cGGCAgGCCCUUGgcuucgcaCUCAGUCGggggcguCAGCAg -3'
miRNA:   3'- -CCGUgCGGGAGC--------GAGUUAGC-------GUUGUa -5'
12344 3' -54.8 NC_003324.1 + 49906 0.68 0.627341
Target:  5'- cGGCGCGCUCgUGCUCGccuUCGCuGCc- -3'
miRNA:   3'- -CCGUGCGGGaGCGAGUu--AGCGuUGua -5'
12344 3' -54.8 NC_003324.1 + 26198 0.68 0.627341
Target:  5'- gGGCuGCGucugcgucgucCCCUCGCUCGGcaGCAGCAa -3'
miRNA:   3'- -CCG-UGC-----------GGGAGCGAGUUagCGUUGUa -5'
12344 3' -54.8 NC_003324.1 + 54703 0.67 0.654036
Target:  5'- cGCACGUCCUCgagucuuucgaucuuGCUCGAUCG--ACGUa -3'
miRNA:   3'- cCGUGCGGGAG---------------CGAGUUAGCguUGUA- -5'
12344 3' -54.8 NC_003324.1 + 20455 0.67 0.660696
Target:  5'- cGGC-CGUCauugagaacgCGCUCGAUCGCcGCAUc -3'
miRNA:   3'- -CCGuGCGGga--------GCGAGUUAGCGuUGUA- -5'
12344 3' -54.8 NC_003324.1 + 3057 0.67 0.671774
Target:  5'- gGGCGCGgUCUCuCUCAAUgGCcGCAc -3'
miRNA:   3'- -CCGUGCgGGAGcGAGUUAgCGuUGUa -5'
12344 3' -54.8 NC_003324.1 + 57095 0.67 0.671774
Target:  5'- aGGCugG-CCUCGCcC--UCGCAGCGc -3'
miRNA:   3'- -CCGugCgGGAGCGaGuuAGCGUUGUa -5'
12344 3' -54.8 NC_003324.1 + 183 0.67 0.671774
Target:  5'- cGGCGCGCgCCauagCGCUCuccugugaguGGUCacaGCAGCAUg -3'
miRNA:   3'- -CCGUGCG-GGa---GCGAG----------UUAG---CGUUGUA- -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.