miRNA display CGI


Results 1 - 20 of 48 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
13954 3' -53.3 NC_003521.1 + 24593 1.1 0.008639
Target:  5'- gCCGCCGAUUCAUCGGAUCGUCGCUGUg -3'
miRNA:   3'- -GGCGGCUAAGUAGCCUAGCAGCGACA- -5'
13954 3' -53.3 NC_003521.1 + 196973 0.77 0.620702
Target:  5'- gCCGCCGGUgaaGUCGGc-CGUCGCUGc -3'
miRNA:   3'- -GGCGGCUAag-UAGCCuaGCAGCGACa -5'
13954 3' -53.3 NC_003521.1 + 187766 0.77 0.660555
Target:  5'- -aGCCGucUCGUCGGAUCGUCGUg-- -3'
miRNA:   3'- ggCGGCuaAGUAGCCUAGCAGCGaca -5'
13954 3' -53.3 NC_003521.1 + 89999 0.76 0.680382
Target:  5'- aCCGCCGAccCcUCGGGUCGggcCGCUGg -3'
miRNA:   3'- -GGCGGCUaaGuAGCCUAGCa--GCGACa -5'
13954 3' -53.3 NC_003521.1 + 100816 0.72 0.892894
Target:  5'- aCGCCGAgggcgaguaucgUCGUCGGAUCcccaGCUGUc -3'
miRNA:   3'- gGCGGCUa-----------AGUAGCCUAGcag-CGACA- -5'
13954 3' -53.3 NC_003521.1 + 162298 0.71 0.918185
Target:  5'- aCGCCGGgagUCcgCGGAauccgCGUCGCgUGUc -3'
miRNA:   3'- gGCGGCUa--AGuaGCCUa----GCAGCG-ACA- -5'
13954 3' -53.3 NC_003521.1 + 1327 0.71 0.923622
Target:  5'- cCCGCCGAUg-GUCGG-UCGa-GCUGUa -3'
miRNA:   3'- -GGCGGCUAagUAGCCuAGCagCGACA- -5'
13954 3' -53.3 NC_003521.1 + 160286 0.7 0.928834
Target:  5'- -aGCCGucgUCGUCGuacucGUCGUCGCUGc -3'
miRNA:   3'- ggCGGCua-AGUAGCc----UAGCAGCGACa -5'
13954 3' -53.3 NC_003521.1 + 15459 0.7 0.938575
Target:  5'- uCCGCCGAUUCGUCuaacuuucccuuGGAauuUCGUgGCg-- -3'
miRNA:   3'- -GGCGGCUAAGUAG------------CCU---AGCAgCGaca -5'
13954 3' -53.3 NC_003521.1 + 20625 0.7 0.943108
Target:  5'- aCGCCGAggaccucgUCGUCGGAcaCGUUGgaGUa -3'
miRNA:   3'- gGCGGCUa-------AGUAGCCUa-GCAGCgaCA- -5'
13954 3' -53.3 NC_003521.1 + 1790 0.69 0.951105
Target:  5'- aCCGCCauccccuGAggCGuUCGuGGUCGUUGCUGUg -3'
miRNA:   3'- -GGCGG-------CUaaGU-AGC-CUAGCAGCGACA- -5'
13954 3' -53.3 NC_003521.1 + 30596 0.69 0.962471
Target:  5'- gCCGCCGAcUCGcUGGcgCaGUUGCUGg -3'
miRNA:   3'- -GGCGGCUaAGUaGCCuaG-CAGCGACa -5'
13954 3' -53.3 NC_003521.1 + 196895 0.69 0.965708
Target:  5'- -gGCCGGggCGgaaggCGGGUCGUCGUUcGUa -3'
miRNA:   3'- ggCGGCUaaGUa----GCCUAGCAGCGA-CA- -5'
13954 3' -53.3 NC_003521.1 + 164652 0.69 0.965708
Target:  5'- gCGaCCGuugUCGUUGGGguuacCGUCGCUGg -3'
miRNA:   3'- gGC-GGCua-AGUAGCCUa----GCAGCGACa -5'
13954 3' -53.3 NC_003521.1 + 142903 0.68 0.971581
Target:  5'- aCCGCUGAggCcgCGGuucuccUUGUUGCUGUc -3'
miRNA:   3'- -GGCGGCUaaGuaGCCu-----AGCAGCGACA- -5'
13954 3' -53.3 NC_003521.1 + 116223 0.68 0.97423
Target:  5'- gCCGCCGcUUCGUCGuccUCGUCggccaucgGCUGUc -3'
miRNA:   3'- -GGCGGCuAAGUAGCcu-AGCAG--------CGACA- -5'
13954 3' -53.3 NC_003521.1 + 233361 0.68 0.976694
Target:  5'- cCUGCUGGaUCcgCGGAUgCGUCGCcGg -3'
miRNA:   3'- -GGCGGCUaAGuaGCCUA-GCAGCGaCa -5'
13954 3' -53.3 NC_003521.1 + 200317 0.68 0.976694
Target:  5'- gCCgGCCGGUcggacguguuUCGggccggCGGGUCGUCGCgGg -3'
miRNA:   3'- -GG-CGGCUA----------AGUa-----GCCUAGCAGCGaCa -5'
13954 3' -53.3 NC_003521.1 + 240999 0.68 0.976694
Target:  5'- gCCgGCCGGUcggacguguuUCGggccggCGGGUCGUCGCgGg -3'
miRNA:   3'- -GG-CGGCUA----------AGUa-----GCCUAGCAGCGaCa -5'
13954 3' -53.3 NC_003521.1 + 450 0.68 0.976694
Target:  5'- gCCgGCCGGUcggacguguuUCGggccggCGGGUCGUCGCgGg -3'
miRNA:   3'- -GG-CGGCUA----------AGUa-----GCCUAGCAGCGaCa -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.