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 + 450 0.68 0.976694
Target:  5'- gCCgGCCGGUcggacguguuUCGggccggCGGGUCGUCGCgGg -3'
miRNA:   3'- -GG-CGGCUA----------AGUa-----GCCUAGCAGCGaCa -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 + 1790 0.69 0.951105
Target:  5'- aCCGCCauccccuGAggCGuUCGuGGUCGUUGCUGUg -3'
miRNA:   3'- -GGCGG-------CUaaGU-AGC-CUAGCAGCGACA- -5'
13954 3' -53.3 NC_003521.1 + 5554 0.67 0.986494
Target:  5'- gCCGCCGccaUCGUUGuuccGUcCGUCGCUGUc -3'
miRNA:   3'- -GGCGGCua-AGUAGCc---UA-GCAGCGACA- -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 + 16945 0.66 0.99175
Target:  5'- aCCGCCGuuacCGUCGGGga-UUGCUGg -3'
miRNA:   3'- -GGCGGCuaa-GUAGCCUagcAGCGACa -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 + 24593 1.1 0.008639
Target:  5'- gCCGCCGAUUCAUCGGAUCGUCGCUGUg -3'
miRNA:   3'- -GGCGGCUAAGUAGCCUAGCAGCGACA- -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 + 31363 0.66 0.993685
Target:  5'- gCGCCGcgUgUAcCGGccgccgccGUCGUCGCUGUu -3'
miRNA:   3'- gGCGGCuaA-GUaGCC--------UAGCAGCGACA- -5'
13954 3' -53.3 NC_003521.1 + 43238 0.67 0.984846
Target:  5'- gUCGUCGGUgggCGccggCGGGUCGcgcUCGCUGg -3'
miRNA:   3'- -GGCGGCUAa--GUa---GCCUAGC---AGCGACa -5'
13954 3' -53.3 NC_003521.1 + 58035 0.68 0.981097
Target:  5'- aCGgCGAUU-GUgGGAUCGUCGCcGUc -3'
miRNA:   3'- gGCgGCUAAgUAgCCUAGCAGCGaCA- -5'
13954 3' -53.3 NC_003521.1 + 71520 0.67 0.98305
Target:  5'- uCCGCCGAUguuggCgGGAUCGUggcgucugUGCUGUc -3'
miRNA:   3'- -GGCGGCUAagua-G-CCUAGCA--------GCGACA- -5'
13954 3' -53.3 NC_003521.1 + 71627 0.67 0.989374
Target:  5'- gCgGCgGGUUCGUCGccaggcgcGUCGUCGUUGg -3'
miRNA:   3'- -GgCGgCUAAGUAGCc-------UAGCAGCGACa -5'
13954 3' -53.3 NC_003521.1 + 74143 0.66 0.993685
Target:  5'- uUGCgGAUcUCGggCGGGgggaggcucUCGUCGCUGUg -3'
miRNA:   3'- gGCGgCUA-AGUa-GCCU---------AGCAGCGACA- -5'
13954 3' -53.3 NC_003521.1 + 82527 0.66 0.994505
Target:  5'- cCUGCUGAgUCGUcCGGGUgGUCGUa-- -3'
miRNA:   3'- -GGCGGCUaAGUA-GCCUAgCAGCGaca -5'
13954 3' -53.3 NC_003521.1 + 83019 0.66 0.99342
Target:  5'- cCCGCCGGUcgcgcgugaucUCGUcccgcaagCGGAcccgcaacgcagccUCGUUGCUGg -3'
miRNA:   3'- -GGCGGCUA-----------AGUA--------GCCU--------------AGCAGCGACa -5'
13954 3' -53.3 NC_003521.1 + 86446 0.66 0.992769
Target:  5'- aCGUCGAUgagGUCGuGAUCGuuguagUCGCUGg -3'
miRNA:   3'- gGCGGCUAag-UAGC-CUAGC------AGCGACa -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' 
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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.