miRNA display CGI


Results 1 - 20 of 40 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
12807 3' -54.8 NC_003387.1 + 52081 0.67 0.617231
Target:  5'- -aUCGGG-CGucGCUgccgCGGCGGCgacGCu -3'
miRNA:   3'- aaAGCCCaGCu-CGAa---GCCGUCGaa-CG- -5'
12807 3' -54.8 NC_003387.1 + 51742 0.71 0.397062
Target:  5'- ----cGGUCGAGCgccUCGGCGGCg-GCa -3'
miRNA:   3'- aaagcCCAGCUCGa--AGCCGUCGaaCG- -5'
12807 3' -54.8 NC_003387.1 + 51472 0.66 0.662099
Target:  5'- ---gGGGUCcgucGGCUUCGGUGGCguaccgGCc -3'
miRNA:   3'- aaagCCCAGc---UCGAAGCCGUCGaa----CG- -5'
12807 3' -54.8 NC_003387.1 + 49449 0.66 0.673271
Target:  5'- -gUCgGGGUCGucGUccauUUCGGCGGCcagGCg -3'
miRNA:   3'- aaAG-CCCAGCu-CG----AAGCCGUCGaa-CG- -5'
12807 3' -54.8 NC_003387.1 + 48831 0.66 0.673271
Target:  5'- -gUCaGGGUCGGGCagCGGCgccGGUUccgGCa -3'
miRNA:   3'- aaAG-CCCAGCUCGaaGCCG---UCGAa--CG- -5'
12807 3' -54.8 NC_003387.1 + 48255 0.7 0.465503
Target:  5'- cUUCGcGG-CGGGC-UCGGCGGUcgGCu -3'
miRNA:   3'- aAAGC-CCaGCUCGaAGCCGUCGaaCG- -5'
12807 3' -54.8 NC_003387.1 + 47299 0.73 0.319163
Target:  5'- -cUC-GGUCGAGUUguccUCGGCGGgCUUGCc -3'
miRNA:   3'- aaAGcCCAGCUCGA----AGCCGUC-GAACG- -5'
12807 3' -54.8 NC_003387.1 + 46918 0.69 0.496658
Target:  5'- ---gGGGUUGcGCUUCGGUggugcgggcGGCUUGUu -3'
miRNA:   3'- aaagCCCAGCuCGAAGCCG---------UCGAACG- -5'
12807 3' -54.8 NC_003387.1 + 46761 0.72 0.343799
Target:  5'- --cCGGGUCGAGCgacucgcggUUCGGCgAGCUg-- -3'
miRNA:   3'- aaaGCCCAGCUCG---------AAGCCG-UCGAacg -5'
12807 3' -54.8 NC_003387.1 + 44923 0.66 0.706497
Target:  5'- ---aGGcGUUGcAGCUcggccugcaccUCgGGCAGCUUGCg -3'
miRNA:   3'- aaagCC-CAGC-UCGA-----------AG-CCGUCGAACG- -5'
12807 3' -54.8 NC_003387.1 + 44633 0.66 0.706497
Target:  5'- -cUCGGG-CGGGUUggcgccgacCGGCAGCggGUu -3'
miRNA:   3'- aaAGCCCaGCUCGAa--------GCCGUCGaaCG- -5'
12807 3' -54.8 NC_003387.1 + 43737 0.68 0.550512
Target:  5'- --gCGGGagcccgCGAGCgugUUGGCGGCUaccGCg -3'
miRNA:   3'- aaaGCCCa-----GCUCGa--AGCCGUCGAa--CG- -5'
12807 3' -54.8 NC_003387.1 + 43727 0.7 0.429507
Target:  5'- --cCGaGUCGAgcaccagcgagcaacGCUUgGGCAGCUUGCu -3'
miRNA:   3'- aaaGCcCAGCU---------------CGAAgCCGUCGAACG- -5'
12807 3' -54.8 NC_003387.1 + 42738 0.67 0.606022
Target:  5'- --aCGGGUCGGGUgcgcccugCGGCGGauucuuaUGCg -3'
miRNA:   3'- aaaGCCCAGCUCGaa------GCCGUCga-----ACG- -5'
12807 3' -54.8 NC_003387.1 + 41182 0.67 0.606022
Target:  5'- ----cGGUCGcaccGUUUCGGCGGCgUGCa -3'
miRNA:   3'- aaagcCCAGCu---CGAAGCCGUCGaACG- -5'
12807 3' -54.8 NC_003387.1 + 40912 0.66 0.706497
Target:  5'- -aUCGcGGUCGGGCggUGGCcugauggacGGCgaGCu -3'
miRNA:   3'- aaAGC-CCAGCUCGaaGCCG---------UCGaaCG- -5'
12807 3' -54.8 NC_003387.1 + 37954 0.72 0.327225
Target:  5'- -gUCGGuGUCauacAGCUUgGGCAGCUUGa -3'
miRNA:   3'- aaAGCC-CAGc---UCGAAgCCGUCGAACg -5'
12807 3' -54.8 NC_003387.1 + 37828 0.66 0.710883
Target:  5'- -aUCGGGcCGAGCgaggucgggcaccccUgcgccCGGCGGCUcGCc -3'
miRNA:   3'- aaAGCCCaGCUCG---------------Aa----GCCGUCGAaCG- -5'
12807 3' -54.8 NC_003387.1 + 37461 0.67 0.628454
Target:  5'- -cUCGGcGUCGAccGaCUucUCGGCGGCgaccgUGCc -3'
miRNA:   3'- aaAGCC-CAGCU--C-GA--AGCCGUCGa----ACG- -5'
12807 3' -54.8 NC_003387.1 + 35888 0.68 0.550512
Target:  5'- --gCGGcGU-GAGUUUCGGCAG-UUGCa -3'
miRNA:   3'- aaaGCC-CAgCUCGAAGCCGUCgAACG- -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.