miRNA display CGI


Results 1 - 19 of 19 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
18755 3' -59.8 NC_004683.1 + 49097 0.66 0.505885
Target:  5'- gAGCGCUucccggUCGgGcUUGAGGGCGG-CGGg -3'
miRNA:   3'- -UCGCGG------AGCgC-AGCUCUCGUCaGCCa -5'
18755 3' -59.8 NC_004683.1 + 55771 0.66 0.505885
Target:  5'- cGaCGCCa-GCGUUGAGcAGCGGaCGGUc -3'
miRNA:   3'- uC-GCGGagCGCAGCUC-UCGUCaGCCA- -5'
18755 3' -59.8 NC_004683.1 + 16516 0.66 0.460398
Target:  5'- cAGCGCCugcggguugagcccgUCGCGcUCGAucGCGGUCaGGa -3'
miRNA:   3'- -UCGCGG---------------AGCGC-AGCUcuCGUCAG-CCa -5'
18755 3' -59.8 NC_004683.1 + 22727 0.67 0.446986
Target:  5'- cGGCGCacgCGCGUCGAuGGGCGGcCuGa -3'
miRNA:   3'- -UCGCGga-GCGCAGCU-CUCGUCaGcCa -5'
18755 3' -59.8 NC_004683.1 + 25876 0.67 0.446036
Target:  5'- uGCGgCUCgGCGUCGAGuucgccgGGCAGacgcuggccgccUCGGUg -3'
miRNA:   3'- uCGCgGAG-CGCAGCUC-------UCGUC------------AGCCA- -5'
18755 3' -59.8 NC_004683.1 + 51190 0.67 0.418999
Target:  5'- cGCGCCggcCGCGcccCGccAGUAGUCGGUg -3'
miRNA:   3'- uCGCGGa--GCGCa--GCucUCGUCAGCCA- -5'
18755 3' -59.8 NC_004683.1 + 42545 0.67 0.410812
Target:  5'- uGGCGCCgCGCGacgcacaccaugagCGAGgccgagcgcgccgcGGCGGUCGGg -3'
miRNA:   3'- -UCGCGGaGCGCa-------------GCUC--------------UCGUCAGCCa -5'
18755 3' -59.8 NC_004683.1 + 7945 0.67 0.409909
Target:  5'- uGCGCCUUG-GUCG--GGguGUCGGg -3'
miRNA:   3'- uCGCGGAGCgCAGCucUCguCAGCCa -5'
18755 3' -59.8 NC_004683.1 + 18276 0.67 0.400942
Target:  5'- cGUGCagacacagCGCGUCGuGcuGCAGUCGGg -3'
miRNA:   3'- uCGCGga------GCGCAGCuCu-CGUCAGCCa -5'
18755 3' -59.8 NC_004683.1 + 44453 0.69 0.333877
Target:  5'- cGGCGaUCUCGcCGUCGAu-GUAGUCGGc -3'
miRNA:   3'- -UCGC-GGAGC-GCAGCUcuCGUCAGCCa -5'
18755 3' -59.8 NC_004683.1 + 52155 0.7 0.296319
Target:  5'- cGGuCGCCUccCGCGUCGAcgaucagccaGGGCGcGUCGGg -3'
miRNA:   3'- -UC-GCGGA--GCGCAGCU----------CUCGU-CAGCCa -5'
18755 3' -59.8 NC_004683.1 + 2535 0.7 0.275404
Target:  5'- cAGCGCUUgCGCGaCGGGAaGCcGUCGGa -3'
miRNA:   3'- -UCGCGGA-GCGCaGCUCU-CGuCAGCCa -5'
18755 3' -59.8 NC_004683.1 + 51961 0.71 0.249376
Target:  5'- cGGCGCCacucacggaUCGCGcgguggugcagcUCGAGcGCGGUCGGc -3'
miRNA:   3'- -UCGCGG---------AGCGC------------AGCUCuCGUCAGCCa -5'
18755 3' -59.8 NC_004683.1 + 51056 0.71 0.249376
Target:  5'- cGGCGCCUUgGCGgCGGGuGCGGcCGGa -3'
miRNA:   3'- -UCGCGGAG-CGCaGCUCuCGUCaGCCa -5'
18755 3' -59.8 NC_004683.1 + 45552 0.71 0.243195
Target:  5'- gGGCGCgUCGCGcgCGAGAagugcuGCGG-CGGUg -3'
miRNA:   3'- -UCGCGgAGCGCa-GCUCU------CGUCaGCCA- -5'
18755 3' -59.8 NC_004683.1 + 159 0.72 0.219736
Target:  5'- aAGCGCCUCgGCGUCGAcaccccAGCAGccgcCGGUu -3'
miRNA:   3'- -UCGCGGAG-CGCAGCUc-----UCGUCa---GCCA- -5'
18755 3' -59.8 NC_004683.1 + 40242 0.73 0.168542
Target:  5'- cGCGCCgagcugcaggcgCGCGUCGAuGAGUuggAGUCGGa -3'
miRNA:   3'- uCGCGGa-----------GCGCAGCU-CUCG---UCAGCCa -5'
18755 3' -59.8 NC_004683.1 + 40874 0.74 0.160698
Target:  5'- --gGCCUCGcCGUCGGcGAGCGcGUCGGUc -3'
miRNA:   3'- ucgCGGAGC-GCAGCU-CUCGU-CAGCCA- -5'
18755 3' -59.8 NC_004683.1 + 2351 1.06 0.000612
Target:  5'- cAGCGCCUCGCGUCGAGAGCAGUCGGUc -3'
miRNA:   3'- -UCGCGGAGCGCAGCUCUCGUCAGCCA- -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.