miRNA display CGI


Results 1 - 20 of 69 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
11439 3' -52.2 NC_003085.1 + 38135 0.67 0.771297
Target:  5'- gGCUCGccGCCcuGCUGgCGUugGugGUGGCGCu -3'
miRNA:   3'- -CGAGU--CGG--UGACaGCG--UugUACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 48095 0.7 0.616384
Target:  5'- uCUCAGCCcgucGCUGUCGU-ACuUGGCGg -3'
miRNA:   3'- cGAGUCGG----UGACAGCGuUGuACUGCg -5'
11439 3' -52.2 NC_003085.1 + 38812 0.69 0.650401
Target:  5'- cGCUCAGCCAg-G-CGUgugAGCAgGGCGCa -3'
miRNA:   3'- -CGAGUCGGUgaCaGCG---UUGUaCUGCG- -5'
11439 3' -52.2 NC_003085.1 + 26230 0.69 0.673008
Target:  5'- cCUCGGCCAggauaUGgugCGCGACuaccagugGACGCa -3'
miRNA:   3'- cGAGUCGGUg----ACa--GCGUUGua------CUGCG- -5'
11439 3' -52.2 NC_003085.1 + 15961 0.68 0.717633
Target:  5'- cGCUCccuuGGCCGCUGggaggUGgGGCGUGAgCGUc -3'
miRNA:   3'- -CGAG----UCGGUGACa----GCgUUGUACU-GCG- -5'
11439 3' -52.2 NC_003085.1 + 12592 0.68 0.728596
Target:  5'- uGCUCguGGuCCgACUGaCGCG-CGUGGCGCc -3'
miRNA:   3'- -CGAG--UC-GG-UGACaGCGUuGUACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 3327 0.68 0.750201
Target:  5'- aUUCAGgCGCUgGUCGCcGCAcagacGACGCu -3'
miRNA:   3'- cGAGUCgGUGA-CAGCGuUGUa----CUGCG- -5'
11439 3' -52.2 NC_003085.1 + 23431 0.68 0.750201
Target:  5'- cGCUUcGCCcaGCaGgCGCAGCAggGACGCa -3'
miRNA:   3'- -CGAGuCGG--UGaCaGCGUUGUa-CUGCG- -5'
11439 3' -52.2 NC_003085.1 + 10205 0.68 0.750201
Target:  5'- uGCUCacccgcgggaGGCCGCcagaaauucGUCGCAG-GUGGCGCa -3'
miRNA:   3'- -CGAG----------UCGGUGa--------CAGCGUUgUACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 35142 0.7 0.593761
Target:  5'- -gUgGGCCgGCUGcCGCAACAUGA-GCg -3'
miRNA:   3'- cgAgUCGG-UGACaGCGUUGUACUgCG- -5'
11439 3' -52.2 NC_003085.1 + 42249 0.71 0.582497
Target:  5'- gGCUCGcGCUACUccaGCGGCAgGGCGCg -3'
miRNA:   3'- -CGAGU-CGGUGAcagCGUUGUaCUGCG- -5'
11439 3' -52.2 NC_003085.1 + 40360 0.71 0.571276
Target:  5'- gGCa-AGCCGCUGcugccCGCGGCGcUGACGCc -3'
miRNA:   3'- -CGagUCGGUGACa----GCGUUGU-ACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 2462 0.79 0.195955
Target:  5'- uGCgUCAGCCACUGaCGCAuaGUGugGCc -3'
miRNA:   3'- -CG-AGUCGGUGACaGCGUugUACugCG- -5'
11439 3' -52.2 NC_003085.1 + 7772 0.75 0.358051
Target:  5'- -aUCAGCCAUcGUCGCGGCGa-GCGCa -3'
miRNA:   3'- cgAGUCGGUGaCAGCGUUGUacUGCG- -5'
11439 3' -52.2 NC_003085.1 + 32812 0.74 0.394335
Target:  5'- aGUgaagCAGCgGCUGUCGCGACugauUGGgGCc -3'
miRNA:   3'- -CGa---GUCGgUGACAGCGUUGu---ACUgCG- -5'
11439 3' -52.2 NC_003085.1 + 24804 0.74 0.403771
Target:  5'- cGCUCAGCC-C-GUCGCGGC---GCGCg -3'
miRNA:   3'- -CGAGUCGGuGaCAGCGUUGuacUGCG- -5'
11439 3' -52.2 NC_003085.1 + 29848 0.74 0.413348
Target:  5'- cUUCGauGCC-CUGUUGCAGCAgaUGACGCc -3'
miRNA:   3'- cGAGU--CGGuGACAGCGUUGU--ACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 3702 0.72 0.484078
Target:  5'- --gCGGCCACgcagCGCGACGUGccACGCg -3'
miRNA:   3'- cgaGUCGGUGaca-GCGUUGUAC--UGCG- -5'
11439 3' -52.2 NC_003085.1 + 32168 0.72 0.49466
Target:  5'- gGCgUCGGCCagGCUG-CGCcaGugGUGGCGCg -3'
miRNA:   3'- -CG-AGUCGG--UGACaGCG--UugUACUGCG- -5'
11439 3' -52.2 NC_003085.1 + 18786 0.72 0.505345
Target:  5'- aGCgaaGGCgGCUGUCGCugagcgacgaGACGUGGCGa -3'
miRNA:   3'- -CGag-UCGgUGACAGCG----------UUGUACUGCg -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.