miRNA display CGI


Results 1 - 20 of 30 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
18504 5' -56.5 NC_004681.1 + 25039 0.66 0.755148
Target:  5'- uUGGcGaCAACaCGGuG-ACCGCAGAGGg -3'
miRNA:   3'- cACC-CaGUUG-GUCuCgUGGCGUCUCC- -5'
18504 5' -56.5 NC_004681.1 + 6891 0.66 0.755148
Target:  5'- -gGGGUUG---AGAGCACCGCGGuGa -3'
miRNA:   3'- caCCCAGUuggUCUCGUGGCGUCuCc -5'
18504 5' -56.5 NC_004681.1 + 11610 0.66 0.745065
Target:  5'- cUGGGcUUuACCAGGGCAaCGCGGAu- -3'
miRNA:   3'- cACCC-AGuUGGUCUCGUgGCGUCUcc -5'
18504 5' -56.5 NC_004681.1 + 5891 0.66 0.734874
Target:  5'- uUGGGgCGGCCAGcGUucuuccacaucGCCGCGGuGGc -3'
miRNA:   3'- cACCCaGUUGGUCuCG-----------UGGCGUCuCC- -5'
18504 5' -56.5 NC_004681.1 + 16360 0.66 0.734874
Target:  5'- gGUGGGUggCGACgAGGGCGCCa-AGuGGg -3'
miRNA:   3'- -CACCCA--GUUGgUCUCGUGGcgUCuCC- -5'
18504 5' -56.5 NC_004681.1 + 41280 0.66 0.734874
Target:  5'- -aGGcG-CAGCUugacaAGAGCgcagGCCGCGGAGGu -3'
miRNA:   3'- caCC-CaGUUGG-----UCUCG----UGGCGUCUCC- -5'
18504 5' -56.5 NC_004681.1 + 59446 0.66 0.724585
Target:  5'- gGUGGGgccagUGACUAGGGCuCCGCcguccGGGGu -3'
miRNA:   3'- -CACCCa----GUUGGUCUCGuGGCGu----CUCC- -5'
18504 5' -56.5 NC_004681.1 + 1415 0.66 0.714209
Target:  5'- aUGGGcCAcgaauacacgGCCAuuGGCGCCGCGGGcGGg -3'
miRNA:   3'- cACCCaGU----------UGGUc-UCGUGGCGUCU-CC- -5'
18504 5' -56.5 NC_004681.1 + 66847 0.66 0.714209
Target:  5'- gGUGGuUCAGCCGGA-CACUGCgAGcAGGc -3'
miRNA:   3'- -CACCcAGUUGGUCUcGUGGCG-UC-UCC- -5'
18504 5' -56.5 NC_004681.1 + 44683 0.66 0.714209
Target:  5'- aGUGcGG-CGGCCGcGAGCGCgGCGgcgauGAGGg -3'
miRNA:   3'- -CAC-CCaGUUGGU-CUCGUGgCGU-----CUCC- -5'
18504 5' -56.5 NC_004681.1 + 62534 0.66 0.714209
Target:  5'- -cGGGUUu-CCuGGGCGgCGgAGAGGg -3'
miRNA:   3'- caCCCAGuuGGuCUCGUgGCgUCUCC- -5'
18504 5' -56.5 NC_004681.1 + 66748 0.67 0.693238
Target:  5'- -cGGGUacccccCGAugcCCAGAGCGCCGUccAGAGc -3'
miRNA:   3'- caCCCA------GUU---GGUCUCGUGGCG--UCUCc -5'
18504 5' -56.5 NC_004681.1 + 67071 0.67 0.682663
Target:  5'- cUGGGUCAACC--AGUugCGC-GAGa -3'
miRNA:   3'- cACCCAGUUGGucUCGugGCGuCUCc -5'
18504 5' -56.5 NC_004681.1 + 16686 0.68 0.618603
Target:  5'- --aGGUCGACCGGGGaCGCCGgGGGc- -3'
miRNA:   3'- cacCCAGUUGGUCUC-GUGGCgUCUcc -5'
18504 5' -56.5 NC_004681.1 + 33708 0.68 0.618603
Target:  5'- cUGGGUgaucucaGACCAGgaguGGCACCGCA-AGGu -3'
miRNA:   3'- cACCCAg------UUGGUC----UCGUGGCGUcUCC- -5'
18504 5' -56.5 NC_004681.1 + 25199 0.68 0.606844
Target:  5'- gGUGGGUCcgcggccAACCGaGGUGCCGaGGAGGc -3'
miRNA:   3'- -CACCCAG-------UUGGUcUCGUGGCgUCUCC- -5'
18504 5' -56.5 NC_004681.1 + 48474 0.68 0.586598
Target:  5'- cUGGGUCAuUCAGcGCaucaaggaacucGCCGCGGAGa -3'
miRNA:   3'- cACCCAGUuGGUCuCG------------UGGCGUCUCc -5'
18504 5' -56.5 NC_004681.1 + 25921 0.68 0.586598
Target:  5'- cUGGauu-GCCAuGAGCACCGCGGuGGc -3'
miRNA:   3'- cACCcaguUGGU-CUCGUGGCGUCuCC- -5'
18504 5' -56.5 NC_004681.1 + 11040 0.68 0.586598
Target:  5'- uGUGGGU--GCgGGAGUGCgGguGGGGa -3'
miRNA:   3'- -CACCCAguUGgUCUCGUGgCguCUCC- -5'
18504 5' -56.5 NC_004681.1 + 57787 0.68 0.586598
Target:  5'- -cGGGUUGGCCGaggauugcgucGAGCGCUGCGcGGGu -3'
miRNA:   3'- caCCCAGUUGGU-----------CUCGUGGCGUcUCC- -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.