miRNA display CGI


Results 1 - 18 of 18 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
23447 5' -56.7 NC_005259.1 + 56048 0.66 0.728793
Target:  5'- gGCGGCuGcgGGUacuugaUGGCGUCGagaCCGUc -3'
miRNA:   3'- gCGCCGuCuaCCA------GCCGUAGUa--GGCG- -5'
23447 5' -56.7 NC_005259.1 + 27299 0.66 0.708052
Target:  5'- aCGCGcCGGAcacGGUCaGCAUCGUUgCGCg -3'
miRNA:   3'- -GCGCcGUCUa--CCAGcCGUAGUAG-GCG- -5'
23447 5' -56.7 NC_005259.1 + 49635 0.66 0.697572
Target:  5'- gGCGGCAGccGcGUCGGCGauggcggccUCGauaCGCg -3'
miRNA:   3'- gCGCCGUCuaC-CAGCCGU---------AGUag-GCG- -5'
23447 5' -56.7 NC_005259.1 + 49830 0.67 0.67644
Target:  5'- aGCGa-----GGUCGGCuaaGUCAUCCGCa -3'
miRNA:   3'- gCGCcgucuaCCAGCCG---UAGUAGGCG- -5'
23447 5' -56.7 NC_005259.1 + 29956 0.67 0.67644
Target:  5'- uCGCGGCuGGUGGggcgggCGGUgacCGUCCa- -3'
miRNA:   3'- -GCGCCGuCUACCa-----GCCGua-GUAGGcg -5'
23447 5' -56.7 NC_005259.1 + 46562 0.67 0.644471
Target:  5'- cCGC-GCcuAUGGUcgCGGCGUCGaCCGCg -3'
miRNA:   3'- -GCGcCGucUACCA--GCCGUAGUaGGCG- -5'
23447 5' -56.7 NC_005259.1 + 47708 0.67 0.644471
Target:  5'- gCGCGGCAGugccuuGUCGGCGaaCGUCC-Cg -3'
miRNA:   3'- -GCGCCGUCuac---CAGCCGUa-GUAGGcG- -5'
23447 5' -56.7 NC_005259.1 + 50877 0.67 0.63378
Target:  5'- uCGauGCcGAUGGUCGG-AUCAggaaCCGCu -3'
miRNA:   3'- -GCgcCGuCUACCAGCCgUAGUa---GGCG- -5'
23447 5' -56.7 NC_005259.1 + 16436 0.68 0.611336
Target:  5'- aGCGGCccaaaccGGGcaccGUCGGCAUCGguaccccgCCGCa -3'
miRNA:   3'- gCGCCG-------UCUac--CAGCCGUAGUa-------GGCG- -5'
23447 5' -56.7 NC_005259.1 + 57534 0.68 0.559387
Target:  5'- cCGaCGGC-GAUGGcguccUCGGUgaaCAUCCGCg -3'
miRNA:   3'- -GC-GCCGuCUACC-----AGCCGua-GUAGGCG- -5'
23447 5' -56.7 NC_005259.1 + 27392 0.69 0.54892
Target:  5'- gGCGGCGGu--GUCGGCAgcggcggcagcUCGgugcCCGCg -3'
miRNA:   3'- gCGCCGUCuacCAGCCGU-----------AGUa---GGCG- -5'
23447 5' -56.7 NC_005259.1 + 62060 0.69 0.538513
Target:  5'- uCGC-GCAGAUaugGGUCGGCAuagacacgcUCGaCCGCc -3'
miRNA:   3'- -GCGcCGUCUA---CCAGCCGU---------AGUaGGCG- -5'
23447 5' -56.7 NC_005259.1 + 10347 0.7 0.497633
Target:  5'- gGCGGCAGcgGGcUCGaCAUCGggcucggaaguaUCCGUg -3'
miRNA:   3'- gCGCCGUCuaCC-AGCcGUAGU------------AGGCG- -5'
23447 5' -56.7 NC_005259.1 + 53924 0.7 0.487627
Target:  5'- aCG-GGCAGAUcGUUGGCGUCGaCCaGCg -3'
miRNA:   3'- -GCgCCGUCUAcCAGCCGUAGUaGG-CG- -5'
23447 5' -56.7 NC_005259.1 + 29195 0.7 0.477717
Target:  5'- uGgGGCGGAUGGuUCGcccccGCAUgGUUCGCc -3'
miRNA:   3'- gCgCCGUCUACC-AGC-----CGUAgUAGGCG- -5'
23447 5' -56.7 NC_005259.1 + 22133 0.71 0.429753
Target:  5'- cCGC-GCAGccacGUCGGCAUCGUgCGCg -3'
miRNA:   3'- -GCGcCGUCuac-CAGCCGUAGUAgGCG- -5'
23447 5' -56.7 NC_005259.1 + 40893 0.73 0.304552
Target:  5'- cCGUGGCGG--GGUCGGCAgCGUCCcacGCu -3'
miRNA:   3'- -GCGCCGUCuaCCAGCCGUaGUAGG---CG- -5'
23447 5' -56.7 NC_005259.1 + 47176 0.74 0.269533
Target:  5'- aGCGGC-GAaGGUCGGCGgugcCGUCgGCg -3'
miRNA:   3'- gCGCCGuCUaCCAGCCGUa---GUAGgCG- -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.