miRNA display CGI


Results 1 - 20 of 39 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
18974 3' -58.1 NC_004683.1 + 56256 1.06 0.000809
Target:  5'- aACGCGCUACAGCGCGCAGGACACGUAc -3'
miRNA:   3'- -UGCGCGAUGUCGCGCGUCCUGUGCAU- -5'
18974 3' -58.1 NC_004683.1 + 8152 0.66 0.525948
Target:  5'- uACGCGCU-CGGCGCcgAGGcCGCGa- -3'
miRNA:   3'- -UGCGCGAuGUCGCGcgUCCuGUGCau -5'
18974 3' -58.1 NC_004683.1 + 42579 0.66 0.525948
Target:  5'- aGCGCGCcGCGGCG-GuCGGGGC-CGg- -3'
miRNA:   3'- -UGCGCGaUGUCGCgC-GUCCUGuGCau -5'
18974 3' -58.1 NC_004683.1 + 33273 0.66 0.535433
Target:  5'- cACGCuucGCggACGGUGCGCuGGgugggauGCACGUAg -3'
miRNA:   3'- -UGCG---CGa-UGUCGCGCGuCC-------UGUGCAU- -5'
18974 3' -58.1 NC_004683.1 + 250 0.66 0.547106
Target:  5'- cCGCuGCUGCccGCG-GCGGGGCugGUc -3'
miRNA:   3'- uGCG-CGAUGu-CGCgCGUCCUGugCAu -5'
18974 3' -58.1 NC_004683.1 + 6877 0.66 0.547106
Target:  5'- gGC-CGCUggACGGCGCGCGacGGCGCGa- -3'
miRNA:   3'- -UGcGCGA--UGUCGCGCGUc-CUGUGCau -5'
18974 3' -58.1 NC_004683.1 + 25284 0.66 0.547106
Target:  5'- cCGCGCUGCcgGGCcUGCAGGcGCACa-- -3'
miRNA:   3'- uGCGCGAUG--UCGcGCGUCC-UGUGcau -5'
18974 3' -58.1 NC_004683.1 + 12471 0.66 0.557786
Target:  5'- gAUGCgGCUGuccgaGGCGCaGCAGGGCACc-- -3'
miRNA:   3'- -UGCG-CGAUg----UCGCG-CGUCCUGUGcau -5'
18974 3' -58.1 NC_004683.1 + 53679 0.66 0.557786
Target:  5'- gGCGCGaCU-CcGCGaCGCuGGGCAUGUGu -3'
miRNA:   3'- -UGCGC-GAuGuCGC-GCGuCCUGUGCAU- -5'
18974 3' -58.1 NC_004683.1 + 37717 0.67 0.484629
Target:  5'- cGCGCGCUGCcccuuccacuCGCGCAGGGggucacccuCugGUGa -3'
miRNA:   3'- -UGCGCGAUGuc--------GCGCGUCCU---------GugCAU- -5'
18974 3' -58.1 NC_004683.1 + 3179 0.67 0.454684
Target:  5'- aACGUGC-GCGGCgGCGguGaGACACGc- -3'
miRNA:   3'- -UGCGCGaUGUCG-CGCguC-CUGUGCau -5'
18974 3' -58.1 NC_004683.1 + 56401 0.67 0.454684
Target:  5'- cCGCaugGCaACAGCGCGCAGGGguUGa- -3'
miRNA:   3'- uGCG---CGaUGUCGCGCGUCCUguGCau -5'
18974 3' -58.1 NC_004683.1 + 12697 0.73 0.200413
Target:  5'- gGCGgGCacgGCauccucggcauccucGGCGCGCGGGGCGCGUu -3'
miRNA:   3'- -UGCgCGa--UG---------------UCGCGCGUCCUGUGCAu -5'
18974 3' -58.1 NC_004683.1 + 40077 0.71 0.285303
Target:  5'- gACGCGCUGuucgcccgggccCAGCGCGCcuugacagaccagccGGACGCGg- -3'
miRNA:   3'- -UGCGCGAU------------GUCGCGCGu--------------CCUGUGCau -5'
18974 3' -58.1 NC_004683.1 + 12339 0.69 0.346014
Target:  5'- gGCGCGCaACAGCGuCGagucGGCGCGUAu -3'
miRNA:   3'- -UGCGCGaUGUCGC-GCguc-CUGUGCAU- -5'
18974 3' -58.1 NC_004683.1 + 12766 0.69 0.354328
Target:  5'- uACGCGCaGCAGgGCuacggcuacccgGCGGGAUACGc- -3'
miRNA:   3'- -UGCGCGaUGUCgCG------------CGUCCUGUGCau -5'
18974 3' -58.1 NC_004683.1 + 35072 0.69 0.380107
Target:  5'- cCGUGCUACAGacaGCAGGAcCGCGa- -3'
miRNA:   3'- uGCGCGAUGUCgcgCGUCCU-GUGCau -5'
18974 3' -58.1 NC_004683.1 + 11707 0.68 0.397977
Target:  5'- -aGCGCUGCAGCGgcaCGCcgacgguuGGGACACc-- -3'
miRNA:   3'- ugCGCGAUGUCGC---GCG--------UCCUGUGcau -5'
18974 3' -58.1 NC_004683.1 + 44431 0.68 0.416376
Target:  5'- cGCGCGC-ACAacGCGCGCAGcGCGCc-- -3'
miRNA:   3'- -UGCGCGaUGU--CGCGCGUCcUGUGcau -5'
18974 3' -58.1 NC_004683.1 + 6665 0.68 0.425769
Target:  5'- cCGUGCUggccGCGGCGCGCcgcuGGuguggcugGCACGUGu -3'
miRNA:   3'- uGCGCGA----UGUCGCGCGu---CC--------UGUGCAU- -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.