miRNA display CGI


Results 1 - 19 of 19 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
11954 3' -56.7 NC_003278.1 + 26886 0.66 0.500938
Target:  5'- -cGCUGCGCGAUGgagaGAUCgaCGAGg- -3'
miRNA:   3'- gaCGACGCGCUGCg---CUAGgaGUUCgc -5'
11954 3' -56.7 NC_003278.1 + 19445 0.67 0.449155
Target:  5'- cCUGUUGCGCGgccaGCGCGGUgCUgAccugcuccagGGCGc -3'
miRNA:   3'- -GACGACGCGC----UGCGCUAgGAgU----------UCGC- -5'
11954 3' -56.7 NC_003278.1 + 23200 0.67 0.439154
Target:  5'- gCUGUagGUGUGGCGCaGGUCCUuCAGGUu -3'
miRNA:   3'- -GACGa-CGCGCUGCG-CUAGGA-GUUCGc -5'
11954 3' -56.7 NC_003278.1 + 2780 0.68 0.409935
Target:  5'- -aGCUGCGCGACGCcaGAgCC-CAugccGGUGg -3'
miRNA:   3'- gaCGACGCGCUGCG--CUaGGaGU----UCGC- -5'
11954 3' -56.7 NC_003278.1 + 29872 0.68 0.372916
Target:  5'- -cGCcgGCGCGGCuguugucgcuGCGGUcggCCUCGAGCa -3'
miRNA:   3'- gaCGa-CGCGCUG----------CGCUA---GGAGUUCGc -5'
11954 3' -56.7 NC_003278.1 + 16755 0.68 0.364022
Target:  5'- gUGCUGaGCGuCGUGGUaccaaCCUCGAGCu -3'
miRNA:   3'- gACGACgCGCuGCGCUA-----GGAGUUCGc -5'
11954 3' -56.7 NC_003278.1 + 19207 0.69 0.338235
Target:  5'- -aGCUGCGCGugcugcucaGCGCGAUCgaCAgAGCc -3'
miRNA:   3'- gaCGACGCGC---------UGCGCUAGgaGU-UCGc -5'
11954 3' -56.7 NC_003278.1 + 11876 0.69 0.32994
Target:  5'- -cGCUGCGCGGCaUGGUCCaccgcGGCGa -3'
miRNA:   3'- gaCGACGCGCUGcGCUAGGagu--UCGC- -5'
11954 3' -56.7 NC_003278.1 + 19263 0.69 0.32994
Target:  5'- aUGCaagGCaGCGACGCGAcggCC-CGGGCGc -3'
miRNA:   3'- gACGa--CG-CGCUGCGCUa--GGaGUUCGC- -5'
11954 3' -56.7 NC_003278.1 + 19358 0.69 0.321795
Target:  5'- gCUGCUucagGCGCu-CGCGAguugCCUUGAGCGc -3'
miRNA:   3'- -GACGA----CGCGcuGCGCUa---GGAGUUCGC- -5'
11954 3' -56.7 NC_003278.1 + 30908 0.69 0.321795
Target:  5'- -aGCUGCGCGGCcucgacccaGCGcUgUUCGAGCGu -3'
miRNA:   3'- gaCGACGCGCUG---------CGCuAgGAGUUCGC- -5'
11954 3' -56.7 NC_003278.1 + 29240 0.71 0.261374
Target:  5'- cCUGCUcgGCGUGGCcgccgguGCGAUCUUCAccggcAGCGg -3'
miRNA:   3'- -GACGA--CGCGCUG-------CGCUAGGAGU-----UCGC- -5'
11954 3' -56.7 NC_003278.1 + 25666 0.71 0.248609
Target:  5'- cCUGCUGCGguUGGCGUGcgCuCUCAGGgGg -3'
miRNA:   3'- -GACGACGC--GCUGCGCuaG-GAGUUCgC- -5'
11954 3' -56.7 NC_003278.1 + 32887 0.72 0.223424
Target:  5'- -cGCuUGUGCGugGCGGUCC-CAAGgCa -3'
miRNA:   3'- gaCG-ACGCGCugCGCUAGGaGUUC-Gc -5'
11954 3' -56.7 NC_003278.1 + 7788 0.74 0.156152
Target:  5'- -cGCcgGCGUGACcgagGCGGUCCUCGAGgCGa -3'
miRNA:   3'- gaCGa-CGCGCUG----CGCUAGGAGUUC-GC- -5'
11954 3' -56.7 NC_003278.1 + 20460 0.76 0.117482
Target:  5'- ----aGCGCGGCGCGAUCUUCAAGg- -3'
miRNA:   3'- gacgaCGCGCUGCGCUAGGAGUUCgc -5'
11954 3' -56.7 NC_003278.1 + 7467 0.77 0.104668
Target:  5'- -cGCUGgGCGAucCGCGAcuUUCUCAAGCGu -3'
miRNA:   3'- gaCGACgCGCU--GCGCU--AGGAGUUCGC- -5'
11954 3' -56.7 NC_003278.1 + 27856 0.77 0.093177
Target:  5'- -gGCUGCGCGGCaaGCGcAUCCUCGAGg- -3'
miRNA:   3'- gaCGACGCGCUG--CGC-UAGGAGUUCgc -5'
11954 3' -56.7 NC_003278.1 + 5614 1.08 0.000473
Target:  5'- cCUGCUGCGCGACGCGAUCCUCAAGCGc -3'
miRNA:   3'- -GACGACGCGCUGCGCUAGGAGUUCGC- -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.