miRNA display CGI


Results 1 - 16 of 16 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
1502 3' -56.4 NC_001335.1 + 15684 0.66 0.646099
Target:  5'- aUCAcgauUCGCCAGCaGcAGGAUGUgGuuGCCc -3'
miRNA:   3'- -AGU----AGCGGUCGcCcUCCUACAgC--UGG- -5'
1502 3' -56.4 NC_001335.1 + 37904 0.66 0.646099
Target:  5'- aUCAUCccgauGCCAGaaGGcGAGGAUGUCaACUc -3'
miRNA:   3'- -AGUAG-----CGGUCg-CC-CUCCUACAGcUGG- -5'
1502 3' -56.4 NC_001335.1 + 11605 0.66 0.645012
Target:  5'- aCGUCGCCGguccaguGCGGGAucuucuGGccgGUCGugCc -3'
miRNA:   3'- aGUAGCGGU-------CGCCCU------CCua-CAGCugG- -5'
1502 3' -56.4 NC_001335.1 + 31684 0.66 0.635222
Target:  5'- cUCGU-GCCAGCGGGccuuGAUGaCGuACCg -3'
miRNA:   3'- -AGUAgCGGUCGCCCuc--CUACaGC-UGG- -5'
1502 3' -56.4 NC_001335.1 + 24058 0.66 0.635222
Target:  5'- --cUUuCCGGCGacgcuGAGGAUGUCGAUCa -3'
miRNA:   3'- aguAGcGGUCGCc----CUCCUACAGCUGG- -5'
1502 3' -56.4 NC_001335.1 + 28952 0.67 0.624343
Target:  5'- gUCGUCGUC-GCGGGAcGuGAccUGUCGGgCu -3'
miRNA:   3'- -AGUAGCGGuCGCCCU-C-CU--ACAGCUgG- -5'
1502 3' -56.4 NC_001335.1 + 48336 0.67 0.591783
Target:  5'- aCGUgGCCGcuGCGGu-GGAUGacUCGACCc -3'
miRNA:   3'- aGUAgCGGU--CGCCcuCCUAC--AGCUGG- -5'
1502 3' -56.4 NC_001335.1 + 32088 0.68 0.548868
Target:  5'- aUCGagGCCAGCaGGucGGUGcUGACCg -3'
miRNA:   3'- -AGUagCGGUCGcCCucCUACaGCUGG- -5'
1502 3' -56.4 NC_001335.1 + 34265 0.69 0.486534
Target:  5'- ---gCGCCGGuCGGcGcGGAUGUCGAUg -3'
miRNA:   3'- aguaGCGGUC-GCC-CuCCUACAGCUGg -5'
1502 3' -56.4 NC_001335.1 + 7606 0.69 0.480479
Target:  5'- -gAUCcuCCuucuGCGGGGGGAucucggagaccggggUGUCGGCCg -3'
miRNA:   3'- agUAGc-GGu---CGCCCUCCU---------------ACAGCUGG- -5'
1502 3' -56.4 NC_001335.1 + 35244 0.7 0.418372
Target:  5'- gUCAUCGuCCAGCGGGAcGA----GACCa -3'
miRNA:   3'- -AGUAGC-GGUCGCCCUcCUacagCUGG- -5'
1502 3' -56.4 NC_001335.1 + 34323 0.71 0.382121
Target:  5'- gCAUCGCC-GCGau-GGAgGUCGACCa -3'
miRNA:   3'- aGUAGCGGuCGCccuCCUaCAGCUGG- -5'
1502 3' -56.4 NC_001335.1 + 4120 0.73 0.293732
Target:  5'- ---cUGCCAGCGGcagcgguuGGGGAucuUGUCGGCCu -3'
miRNA:   3'- aguaGCGGUCGCC--------CUCCU---ACAGCUGG- -5'
1502 3' -56.4 NC_001335.1 + 28576 0.74 0.252646
Target:  5'- cUCGUCGCCuGCGGGAaGGUGgcgcacUCGGCg -3'
miRNA:   3'- -AGUAGCGGuCGCCCUcCUAC------AGCUGg -5'
1502 3' -56.4 NC_001335.1 + 17212 0.76 0.189695
Target:  5'- cCGUCGCCAGCGccGGGAUGUgCGggGCCa -3'
miRNA:   3'- aGUAGCGGUCGCccUCCUACA-GC--UGG- -5'
1502 3' -56.4 NC_001335.1 + 35752 1.13 0.000435
Target:  5'- uUCAUCGCCAGCGGGAGGAUGUCGACCa -3'
miRNA:   3'- -AGUAGCGGUCGCCCUCCUACAGCUGG- -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.