miRNA display CGI


Results 1 - 20 of 57 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
12376 5' -53.5 NC_003324.1 + 133 0.73 0.344291
Target:  5'- -aGCgugGCUGCGGCAgGCAGACGgGu-- -3'
miRNA:   3'- gaCGa--CGACGCCGU-CGUUUGCgUuug -5'
12376 5' -53.5 NC_003324.1 + 1022 0.69 0.57677
Target:  5'- -aGCUcGCUGaCGGCGGCGGGCuCAAu- -3'
miRNA:   3'- gaCGA-CGAC-GCCGUCGUUUGcGUUug -5'
12376 5' -53.5 NC_003324.1 + 1742 0.66 0.766595
Target:  5'- -cGCcGUcaGCGuCAGCAGGCGCAGGCc -3'
miRNA:   3'- gaCGaCGa-CGCcGUCGUUUGCGUUUG- -5'
12376 5' -53.5 NC_003324.1 + 1781 0.78 0.172038
Target:  5'- -aGCUGCUGCuGCAGCAcaaggacgaugaGACGCGAGa -3'
miRNA:   3'- gaCGACGACGcCGUCGU------------UUGCGUUUg -5'
12376 5' -53.5 NC_003324.1 + 5325 0.72 0.407913
Target:  5'- -cGCUGgUGCGGCGGCcaacuGAUGCucGAACc -3'
miRNA:   3'- gaCGACgACGCCGUCGu----UUGCG--UUUG- -5'
12376 5' -53.5 NC_003324.1 + 5630 0.74 0.295686
Target:  5'- -gGCgaagGUUGCGGCGGCAAcCGgGAACu -3'
miRNA:   3'- gaCGa---CGACGCCGUCGUUuGCgUUUG- -5'
12376 5' -53.5 NC_003324.1 + 5938 0.67 0.723516
Target:  5'- -cGCUGCUGgcuaucaGGCAGCGAACuacccgcCGAAUg -3'
miRNA:   3'- gaCGACGACg------CCGUCGUUUGc------GUUUG- -5'
12376 5' -53.5 NC_003324.1 + 6301 0.68 0.667572
Target:  5'- gCUGCUGCUGCGccuCGGCcuucAugGCuucGACg -3'
miRNA:   3'- -GACGACGACGCc--GUCGu---UugCGu--UUG- -5'
12376 5' -53.5 NC_003324.1 + 7870 0.66 0.777026
Target:  5'- uUGUUcGCcGCGGCGGCAAAgcccguUGCGAucGCg -3'
miRNA:   3'- gACGA-CGaCGCCGUCGUUU------GCGUU--UG- -5'
12376 5' -53.5 NC_003324.1 + 8185 0.66 0.756015
Target:  5'- cCUGCUcaCUGCccGGCGGCGcGCGCcuGGCa -3'
miRNA:   3'- -GACGAc-GACG--CCGUCGUuUGCGu-UUG- -5'
12376 5' -53.5 NC_003324.1 + 8203 0.67 0.690141
Target:  5'- -aGCUGCccgGCGGgugaguuuCAGCAcaGGCGCAAcgGCg -3'
miRNA:   3'- gaCGACGa--CGCC--------GUCGU--UUGCGUU--UG- -5'
12376 5' -53.5 NC_003324.1 + 11606 0.66 0.733373
Target:  5'- aCUGgUGC-GaCGGCAGCGAugaacguGCGCuuGAACg -3'
miRNA:   3'- -GACgACGaC-GCCGUCGUU-------UGCG--UUUG- -5'
12376 5' -53.5 NC_003324.1 + 12502 0.66 0.752814
Target:  5'- gCUGCUGUUGCuGCAuCGAAUcgggaugggugccgGCGAGCa -3'
miRNA:   3'- -GACGACGACGcCGUcGUUUG--------------CGUUUG- -5'
12376 5' -53.5 NC_003324.1 + 12994 0.66 0.766595
Target:  5'- -cGCUGUUcGCGGCuGGCGAucUGCAGGg -3'
miRNA:   3'- gaCGACGA-CGCCG-UCGUUu-GCGUUUg -5'
12376 5' -53.5 NC_003324.1 + 13169 0.69 0.565536
Target:  5'- -gGCUGCgucgGCGGCGGUcgGCGgcGGCg -3'
miRNA:   3'- gaCGACGa---CGCCGUCGuuUGCguUUG- -5'
12376 5' -53.5 NC_003324.1 + 14377 0.67 0.701342
Target:  5'- -gGCUGCUGCcaaucaacGcGCcGCAAccgagcGCGCAAACg -3'
miRNA:   3'- gaCGACGACG--------C-CGuCGUU------UGCGUUUG- -5'
12376 5' -53.5 NC_003324.1 + 14581 0.71 0.43734
Target:  5'- cCUGCcgGCgcaaGCGGcCGGCG-GCGCAGGCg -3'
miRNA:   3'- -GACGa-CGa---CGCC-GUCGUuUGCGUUUG- -5'
12376 5' -53.5 NC_003324.1 + 19007 0.68 0.610727
Target:  5'- -gGCUGCacGCGGCuGGCcucGAACGCGAuGCg -3'
miRNA:   3'- gaCGACGa-CGCCG-UCG---UUUGCGUU-UG- -5'
12376 5' -53.5 NC_003324.1 + 21377 0.67 0.701342
Target:  5'- -cGCcgGCga-GGCGGCGAACGCGGc- -3'
miRNA:   3'- gaCGa-CGacgCCGUCGUUUGCGUUug -5'
12376 5' -53.5 NC_003324.1 + 22292 0.67 0.690141
Target:  5'- -aGgUGC-GCGGCGGCAAGCcCAccAACa -3'
miRNA:   3'- gaCgACGaCGCCGUCGUUUGcGU--UUG- -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.