miRNA display CGI


Results 1 - 17 of 17 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
10355 3' -54.9 NC_002687.1 + 263519 0.66 0.983217
Target:  5'- gACGCCGCUCgUUCGauuacuucggcGGA-UCCuGUACu -3'
miRNA:   3'- -UGUGGCGAGgAAGU-----------CCUgAGGuCAUG- -5'
10355 3' -54.9 NC_002687.1 + 312831 0.66 0.983217
Target:  5'- -gGCCGUcgCCgc--GGAUUCCAGUGCu -3'
miRNA:   3'- ugUGGCGa-GGaaguCCUGAGGUCAUG- -5'
10355 3' -54.9 NC_002687.1 + 97339 0.66 0.983217
Target:  5'- cCACUugGCgaagagCag-CAGGGCUCCGGUGCa -3'
miRNA:   3'- uGUGG--CGa-----GgaaGUCCUGAGGUCAUG- -5'
10355 3' -54.9 NC_002687.1 + 159106 0.67 0.979219
Target:  5'- cGC-CCGCggCUUUCAGcGGCcuggguUCCGGUGCa -3'
miRNA:   3'- -UGuGGCGa-GGAAGUC-CUG------AGGUCAUG- -5'
10355 3' -54.9 NC_002687.1 + 233959 0.67 0.976973
Target:  5'- cACGCCGCUUuaCUUCgAGGACUugUCGGUuuaACa -3'
miRNA:   3'- -UGUGGCGAG--GAAG-UCCUGA--GGUCA---UG- -5'
10355 3' -54.9 NC_002687.1 + 163156 0.67 0.974554
Target:  5'- --gUCGCguguaCUUCAGcGACUCCAGUGg -3'
miRNA:   3'- uguGGCGag---GAAGUC-CUGAGGUCAUg -5'
10355 3' -54.9 NC_002687.1 + 79562 0.67 0.974554
Target:  5'- --cCCGUUCagcaGGGACUCCGGUAg -3'
miRNA:   3'- uguGGCGAGgaagUCCUGAGGUCAUg -5'
10355 3' -54.9 NC_002687.1 + 275922 0.67 0.974302
Target:  5'- cCACCaCUCCUUUuuuguguAGGAUgUCCAGUAUg -3'
miRNA:   3'- uGUGGcGAGGAAG-------UCCUG-AGGUCAUG- -5'
10355 3' -54.9 NC_002687.1 + 128790 0.67 0.973016
Target:  5'- cGCACCGUUCUucguagucgguaaaaUUguGGAg-CCAGUGCa -3'
miRNA:   3'- -UGUGGCGAGG---------------AAguCCUgaGGUCAUG- -5'
10355 3' -54.9 NC_002687.1 + 7252 0.67 0.96917
Target:  5'- gGCACCgGCUUCUUCGaGugUuuUCAGUGCa -3'
miRNA:   3'- -UGUGG-CGAGGAAGUcCugA--GGUCAUG- -5'
10355 3' -54.9 NC_002687.1 + 248698 0.68 0.966193
Target:  5'- cCGCCGuCUCCgcagcuaAGGugUCCAGUu- -3'
miRNA:   3'- uGUGGC-GAGGaag----UCCugAGGUCAug -5'
10355 3' -54.9 NC_002687.1 + 84103 0.68 0.966193
Target:  5'- -uGCCGCUCCUUCuGGGACgcaCCGc--- -3'
miRNA:   3'- ugUGGCGAGGAAG-UCCUGa--GGUcaug -5'
10355 3' -54.9 NC_002687.1 + 239958 0.69 0.935413
Target:  5'- uCGCCGUUCUUguccggguggugcugCAGGGCgagacgCCGGUACg -3'
miRNA:   3'- uGUGGCGAGGAa--------------GUCCUGa-----GGUCAUG- -5'
10355 3' -54.9 NC_002687.1 + 306649 0.71 0.883031
Target:  5'- uUACCGUcgUUCUcgaucucCGGGACUCCGGUGCu -3'
miRNA:   3'- uGUGGCG--AGGAa------GUCCUGAGGUCAUG- -5'
10355 3' -54.9 NC_002687.1 + 263713 0.72 0.817938
Target:  5'- gGCACCGCUCUcgacacguggagacgUuccaucggugUCAGGaAUUCCAGUACu -3'
miRNA:   3'- -UGUGGCGAGG---------------A----------AGUCC-UGAGGUCAUG- -5'
10355 3' -54.9 NC_002687.1 + 296379 0.92 0.08634
Target:  5'- uGCACCGCgCCUUgCAGGACUCCGGUGCu -3'
miRNA:   3'- -UGUGGCGaGGAA-GUCCUGAGGUCAUG- -5'
10355 3' -54.9 NC_002687.1 + 199519 1.1 0.006655
Target:  5'- cACACCGCUCCUUCAGGACUCCAGUACg -3'
miRNA:   3'- -UGUGGCGAGGAAGUCCUGAGGUCAUG- -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.