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
19731 5' -56.2 NC_004686.1 + 3514 0.66 0.655879
Target:  5'- aGGCGcgucGGGCCaUGGCCGacaaACGCCG-Cg -3'
miRNA:   3'- aCCGUc---UCUGGaACCGGU----UGUGGCaG- -5'
19731 5' -56.2 NC_004686.1 + 44823 0.66 0.655879
Target:  5'- cGGUuucuGGGACg-UGGCCccauuACAUCGUCa -3'
miRNA:   3'- aCCGu---CUCUGgaACCGGu----UGUGGCAG- -5'
19731 5' -56.2 NC_004686.1 + 47881 0.66 0.644845
Target:  5'- uUGGCuG-GGCCUgagGGCCuGC-CCGUg -3'
miRNA:   3'- -ACCGuCuCUGGAa--CCGGuUGuGGCAg -5'
19731 5' -56.2 NC_004686.1 + 7106 0.66 0.644845
Target:  5'- cGGCAGGGugCacggcGGCCAcaaggACGCUGg- -3'
miRNA:   3'- aCCGUCUCugGaa---CCGGU-----UGUGGCag -5'
19731 5' -56.2 NC_004686.1 + 839 0.66 0.622752
Target:  5'- gUGGUAGAGGuggaaGCCGGgGCCGUCa -3'
miRNA:   3'- -ACCGUCUCUggaacCGGUUgUGGCAG- -5'
19731 5' -56.2 NC_004686.1 + 9711 0.67 0.567827
Target:  5'- cGGCaacgauGGAGACgagUUUGucugcGCCAACACCGUUg -3'
miRNA:   3'- aCCG------UCUCUG---GAAC-----CGGUUGUGGCAG- -5'
19731 5' -56.2 NC_004686.1 + 37930 0.67 0.55372
Target:  5'- aUGGUGGGGACaaccaccaaaccaaCUgGGCCGACcugcCCGUCa -3'
miRNA:   3'- -ACCGUCUCUG--------------GAaCCGGUUGu---GGCAG- -5'
19731 5' -56.2 NC_004686.1 + 4880 0.67 0.546166
Target:  5'- gUGGCGGGGcuuCUUUGGCCccggucgugcaGAUACUGUUc -3'
miRNA:   3'- -ACCGUCUCu--GGAACCGG-----------UUGUGGCAG- -5'
19731 5' -56.2 NC_004686.1 + 14765 0.68 0.514201
Target:  5'- aGGUGGAGACC--GGgCAGCAC-GUCa -3'
miRNA:   3'- aCCGUCUCUGGaaCCgGUUGUGgCAG- -5'
19731 5' -56.2 NC_004686.1 + 9251 0.68 0.493318
Target:  5'- cGGgAGGuGGCCggUGGCUAACggaacugaacugGCCGUCg -3'
miRNA:   3'- aCCgUCU-CUGGa-ACCGGUUG------------UGGCAG- -5'
19731 5' -56.2 NC_004686.1 + 47555 0.68 0.492284
Target:  5'- -uGCGGAGuuggagcGCCggcUGGCCcGCGCUGUCg -3'
miRNA:   3'- acCGUCUC-------UGGa--ACCGGuUGUGGCAG- -5'
19731 5' -56.2 NC_004686.1 + 673 0.69 0.483023
Target:  5'- aGGCGuGAGAUg-UGGCCGACgauGCCGaUCg -3'
miRNA:   3'- aCCGU-CUCUGgaACCGGUUG---UGGC-AG- -5'
19731 5' -56.2 NC_004686.1 + 8796 0.69 0.462753
Target:  5'- -cGCGGAGAUCgcgcaGGCCAAgGCCGa- -3'
miRNA:   3'- acCGUCUCUGGaa---CCGGUUgUGGCag -5'
19731 5' -56.2 NC_004686.1 + 12155 0.71 0.351633
Target:  5'- cGGCGGucAGGCCgcggGGCCAGCGgCGg- -3'
miRNA:   3'- aCCGUC--UCUGGaa--CCGGUUGUgGCag -5'
19731 5' -56.2 NC_004686.1 + 28150 0.71 0.343268
Target:  5'- cGGCGGAGauGCCgacggacGCCAACACCGcuUCa -3'
miRNA:   3'- aCCGUCUC--UGGaac----CGGUUGUGGC--AG- -5'
19731 5' -56.2 NC_004686.1 + 14601 0.72 0.310484
Target:  5'- cGGCGGcaccgcauuugacGGAC--UGGCCcGCACCGUCg -3'
miRNA:   3'- aCCGUC-------------UCUGgaACCGGuUGUGGCAG- -5'
19731 5' -56.2 NC_004686.1 + 27328 0.73 0.254162
Target:  5'- -aGCAGcAGACC--GGCgAACACCGUCa -3'
miRNA:   3'- acCGUC-UCUGGaaCCGgUUGUGGCAG- -5'
19731 5' -56.2 NC_004686.1 + 55554 1.1 0.000568
Target:  5'- aUGGCAGAGACCUUGGCCAACACCGUCg -3'
miRNA:   3'- -ACCGUCUCUGGAACCGGUUGUGGCAG- -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.