miRNA display CGI


Results 1 - 20 of 26 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
2927 3' -51.1 NC_001493.1 + 105568 0.66 0.986589
Target:  5'- aUCACGGCCCcca-GGAGggUuccAUCg -3'
miRNA:   3'- gAGUGCCGGGagagUCUCuuGuu-UAG- -5'
2927 3' -51.1 NC_001493.1 + 35218 0.66 0.986589
Target:  5'- uCUCACuuCCCUCUguGGGAcCAAAUg -3'
miRNA:   3'- -GAGUGccGGGAGAguCUCUuGUUUAg -5'
2927 3' -51.1 NC_001493.1 + 80662 0.66 0.982873
Target:  5'- gUCGCGGCUCaUgUCAcGGGGACGGAc- -3'
miRNA:   3'- gAGUGCCGGG-AgAGU-CUCUUGUUUag -5'
2927 3' -51.1 NC_001493.1 + 49070 0.66 0.98162
Target:  5'- --gACGGCCauggucuucuggagcUUCUCGGAGAGCAccUCc -3'
miRNA:   3'- gagUGCCGG---------------GAGAGUCUCUUGUuuAG- -5'
2927 3' -51.1 NC_001493.1 + 91617 0.66 0.980747
Target:  5'- gUCGCGGgcgcaCCCUCcgUCuGGGAACGggGAUCg -3'
miRNA:   3'- gAGUGCC-----GGGAG--AGuCUCUUGU--UUAG- -5'
2927 3' -51.1 NC_001493.1 + 34466 0.66 0.980747
Target:  5'- --gACGGCCgUCUauaucuGGAGcGACAGAUCa -3'
miRNA:   3'- gagUGCCGGgAGAg-----UCUC-UUGUUUAG- -5'
2927 3' -51.1 NC_001493.1 + 16680 0.67 0.97938
Target:  5'- cCUCAcCGGUCCUCUCAccGGGGguugugccacgggugGCGGAUa -3'
miRNA:   3'- -GAGU-GCCGGGAGAGU--CUCU---------------UGUUUAg -5'
2927 3' -51.1 NC_001493.1 + 87671 0.67 0.975912
Target:  5'- ---cCGGCuCCUCguacgccgCGGGGGGCAGGUCc -3'
miRNA:   3'- gaguGCCG-GGAGa-------GUCUCUUGUUUAG- -5'
2927 3' -51.1 NC_001493.1 + 87819 0.67 0.975912
Target:  5'- aUC-CGGUCCUCguacgcccCGGGGggUAGGUCc -3'
miRNA:   3'- gAGuGCCGGGAGa-------GUCUCuuGUUUAG- -5'
2927 3' -51.1 NC_001493.1 + 50272 0.67 0.970243
Target:  5'- -aCAUGGCguCCU-UCGGAGAGCGAAUg -3'
miRNA:   3'- gaGUGCCG--GGAgAGUCUCUUGUUUAg -5'
2927 3' -51.1 NC_001493.1 + 111227 0.67 0.967076
Target:  5'- gCUCgAUGGCCCUCacCGGGGAGgCGAGa- -3'
miRNA:   3'- -GAG-UGCCGGGAGa-GUCUCUU-GUUUag -5'
2927 3' -51.1 NC_001493.1 + 20466 0.68 0.963678
Target:  5'- uUCAagaGGCUCUgUCggcggugauggaGGAGAACGGGUCa -3'
miRNA:   3'- gAGUg--CCGGGAgAG------------UCUCUUGUUUAG- -5'
2927 3' -51.1 NC_001493.1 + 94659 0.68 0.960042
Target:  5'- --aACGGCCCUg-CGGGGGACAcgaggggaGGUCg -3'
miRNA:   3'- gagUGCCGGGAgaGUCUCUUGU--------UUAG- -5'
2927 3' -51.1 NC_001493.1 + 129730 0.68 0.960042
Target:  5'- cCUCGugaccCGGCCCUCaacgagcucgCGGGGGACGAggacGUCg -3'
miRNA:   3'- -GAGU-----GCCGGGAGa---------GUCUCUUGUU----UAG- -5'
2927 3' -51.1 NC_001493.1 + 20775 0.68 0.947655
Target:  5'- cCUCA-GGCCgCUCUCGgcGAGAgucGCGAAUUg -3'
miRNA:   3'- -GAGUgCCGG-GAGAGU--CUCU---UGUUUAG- -5'
2927 3' -51.1 NC_001493.1 + 87777 0.69 0.938121
Target:  5'- aUC-CGGCuCCUCguacgcccCGGGGGGCAGGUCc -3'
miRNA:   3'- gAGuGCCG-GGAGa-------GUCUCUUGUUUAG- -5'
2927 3' -51.1 NC_001493.1 + 42158 0.69 0.921857
Target:  5'- gUCACGGUgUCUCUCGGGGAucggACGGcgCg -3'
miRNA:   3'- gAGUGCCG-GGAGAGUCUCU----UGUUuaG- -5'
2927 3' -51.1 NC_001493.1 + 30495 0.69 0.921857
Target:  5'- aCUCGgGGCCCUggUCGGGGGGauCGGGUCg -3'
miRNA:   3'- -GAGUgCCGGGAg-AGUCUCUU--GUUUAG- -5'
2927 3' -51.1 NC_001493.1 + 87902 0.71 0.867106
Target:  5'- aUC-CGGCuCCUCguacgccgCGGGGGGCAGGUCc -3'
miRNA:   3'- gAGuGCCG-GGAGa-------GUCUCUUGUUUAG- -5'
2927 3' -51.1 NC_001493.1 + 87723 0.71 0.867106
Target:  5'- aUC-CGGCuCCUCguacgccgCGGGGGGCAGGUCc -3'
miRNA:   3'- gAGuGCCG-GGAGa-------GUCUCUUGUUUAG- -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.