miRNA display CGI


Results 1 - 20 of 23 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
23201 5' -56.8 NC_005259.1 + 14843 0.66 0.779295
Target:  5'- gCAUCGUGGacacGGUCGU---GCUCGCGa -3'
miRNA:   3'- gGUAGCGCU----CCAGCGcucUGAGCGCc -5'
23201 5' -56.8 NC_005259.1 + 33815 0.66 0.778345
Target:  5'- aUCAUCGUGAcggGGUCcgGCGAGAgcuuuauCUCGCc- -3'
miRNA:   3'- -GGUAGCGCU---CCAG--CGCUCU-------GAGCGcc -5'
23201 5' -56.8 NC_005259.1 + 55892 0.66 0.750239
Target:  5'- aCC-UCG-GGGGUCGCGccGGGgUCGCuGGc -3'
miRNA:   3'- -GGuAGCgCUCCAGCGC--UCUgAGCG-CC- -5'
23201 5' -56.8 NC_005259.1 + 41880 0.66 0.750239
Target:  5'- aCCGUgGCGGGccgauacgcaUGCGGGAUgagCGCGGg -3'
miRNA:   3'- -GGUAgCGCUCca--------GCGCUCUGa--GCGCC- -5'
23201 5' -56.8 NC_005259.1 + 29942 0.66 0.729302
Target:  5'- gCCA-CGCGGcccGGUCGCGgcuggugGGGCggGCGGu -3'
miRNA:   3'- -GGUaGCGCU---CCAGCGC-------UCUGagCGCC- -5'
23201 5' -56.8 NC_005259.1 + 32510 0.67 0.710023
Target:  5'- aCAcCGUGAGGUaGuCGAGGCggGCGGc -3'
miRNA:   3'- gGUaGCGCUCCAgC-GCUCUGagCGCC- -5'
23201 5' -56.8 NC_005259.1 + 5335 0.67 0.710023
Target:  5'- gCCGUUGU--GGUgGUGAGAUUCGCa- -3'
miRNA:   3'- -GGUAGCGcuCCAgCGCUCUGAGCGcc -5'
23201 5' -56.8 NC_005259.1 + 49303 0.68 0.658264
Target:  5'- aCAUCGuCGGGGUccaucaggCGCGAGAauaCGCGu -3'
miRNA:   3'- gGUAGC-GCUCCA--------GCGCUCUga-GCGCc -5'
23201 5' -56.8 NC_005259.1 + 48433 0.68 0.658264
Target:  5'- aCCA-C-CGAGG-CGCGAGGCa-GCGGc -3'
miRNA:   3'- -GGUaGcGCUCCaGCGCUCUGagCGCC- -5'
23201 5' -56.8 NC_005259.1 + 27837 0.68 0.62687
Target:  5'- ---gCGCGAGGUaggcCGCGAGG-UCGCGc -3'
miRNA:   3'- gguaGCGCUCCA----GCGCUCUgAGCGCc -5'
23201 5' -56.8 NC_005259.1 + 7640 0.68 0.625823
Target:  5'- aCCGUCGcCGAGuucgaccgccgucGUCGUGAGcgccccgcCUCGUGGg -3'
miRNA:   3'- -GGUAGC-GCUC-------------CAGCGCUCu-------GAGCGCC- -5'
23201 5' -56.8 NC_005259.1 + 53189 0.69 0.595512
Target:  5'- cCCGUCGCGGuGUCcccgGCGAucaGAUUCGCGu -3'
miRNA:   3'- -GGUAGCGCUcCAG----CGCU---CUGAGCGCc -5'
23201 5' -56.8 NC_005259.1 + 21631 0.69 0.595512
Target:  5'- -uGUCGCGcGGaguguUCGcCGAGGCucUCGCGGa -3'
miRNA:   3'- ggUAGCGCuCC-----AGC-GCUCUG--AGCGCC- -5'
23201 5' -56.8 NC_005259.1 + 58686 0.7 0.543904
Target:  5'- uCCAUCGCGGGGUCG----GCUCGUc- -3'
miRNA:   3'- -GGUAGCGCUCCAGCgcucUGAGCGcc -5'
23201 5' -56.8 NC_005259.1 + 57965 0.7 0.523652
Target:  5'- cCCAUgGuCGAGGUCGCcGGGA-UCGUGa -3'
miRNA:   3'- -GGUAgC-GCUCCAGCG-CUCUgAGCGCc -5'
23201 5' -56.8 NC_005259.1 + 28006 0.7 0.513633
Target:  5'- gCCGggGCGGGGUCGCcGGGgUUGCGc -3'
miRNA:   3'- -GGUagCGCUCCAGCGcUCUgAGCGCc -5'
23201 5' -56.8 NC_005259.1 + 63897 0.71 0.455356
Target:  5'- uCCAUaucCGCacgagcgagucGAGGUCGCGAuugaACUCGUGGg -3'
miRNA:   3'- -GGUA---GCG-----------CUCCAGCGCUc---UGAGCGCC- -5'
23201 5' -56.8 NC_005259.1 + 57690 0.72 0.436729
Target:  5'- aCCGUgGCcAGGUUGcCGGgcuugcccGACUCGCGGg -3'
miRNA:   3'- -GGUAgCGcUCCAGC-GCU--------CUGAGCGCC- -5'
23201 5' -56.8 NC_005259.1 + 27897 0.72 0.392161
Target:  5'- uCCA-CcUGGGGUCGcCGAGACcgCGCGGg -3'
miRNA:   3'- -GGUaGcGCUCCAGC-GCUCUGa-GCGCC- -5'
23201 5' -56.8 NC_005259.1 + 28961 0.75 0.290969
Target:  5'- gCAUCGcCGAGGUCGgugcCGAGGC-CGCGa -3'
miRNA:   3'- gGUAGC-GCUCCAGC----GCUCUGaGCGCc -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.