miRNA display CGI


Results 1 - 20 of 35 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
30449 3' -56.2 NC_006548.1 + 7326 0.66 0.577778
Target:  5'- aCCGGCAGCUacaGAgCGCCGGucaggGGCag-Cg -3'
miRNA:   3'- -GGUCGUCGAg--CUaGUGGCC-----UCGgaaG- -5'
30449 3' -56.2 NC_006548.1 + 20954 0.66 0.577778
Target:  5'- gCAGCAcCUCGGcCGCCGGcuuugugaccuGGCCgUCg -3'
miRNA:   3'- gGUCGUcGAGCUaGUGGCC-----------UCGGaAG- -5'
30449 3' -56.2 NC_006548.1 + 30740 0.66 0.577778
Target:  5'- aCCAGCGGgUUGcaacGUCGCCacgguaGGAGCCc-- -3'
miRNA:   3'- -GGUCGUCgAGC----UAGUGG------CCUCGGaag -5'
30449 3' -56.2 NC_006548.1 + 27278 0.66 0.566664
Target:  5'- gCAGCGcguuGCUCGGUCGCCGccuGCUg-- -3'
miRNA:   3'- gGUCGU----CGAGCUAGUGGCcu-CGGaag -5'
30449 3' -56.2 NC_006548.1 + 24938 0.66 0.566664
Target:  5'- gCAGCGGUacagggugaCGAUCACCGGcuCCUg- -3'
miRNA:   3'- gGUCGUCGa--------GCUAGUGGCCucGGAag -5'
30449 3' -56.2 NC_006548.1 + 29718 0.66 0.54461
Target:  5'- aCCAGCAuGUUCGGcuUCGCCGaGgguGGCCa-- -3'
miRNA:   3'- -GGUCGU-CGAGCU--AGUGGC-C---UCGGaag -5'
30449 3' -56.2 NC_006548.1 + 29570 0.66 0.54461
Target:  5'- gCAGCAGCUCccGUCACCaugcuGGuGUCUUg -3'
miRNA:   3'- gGUCGUCGAGc-UAGUGG-----CCuCGGAAg -5'
30449 3' -56.2 NC_006548.1 + 29036 0.66 0.533686
Target:  5'- gCAGCAGCUCcaggaccaaGUCgACCGGA-UCUUCg -3'
miRNA:   3'- gGUCGUCGAGc--------UAG-UGGCCUcGGAAG- -5'
30449 3' -56.2 NC_006548.1 + 14980 0.66 0.533686
Target:  5'- gCAGCAGUgCGcUCACCGGcAGCa--- -3'
miRNA:   3'- gGUCGUCGaGCuAGUGGCC-UCGgaag -5'
30449 3' -56.2 NC_006548.1 + 32799 0.67 0.512084
Target:  5'- uCCAGCuGCUgGcaagcGUCACCGcGGCCggCg -3'
miRNA:   3'- -GGUCGuCGAgC-----UAGUGGCcUCGGaaG- -5'
30449 3' -56.2 NC_006548.1 + 21273 0.67 0.512084
Target:  5'- aUCAGCAGCgcaGugcUACCGGcAGCCUg- -3'
miRNA:   3'- -GGUCGUCGag-Cua-GUGGCC-UCGGAag -5'
30449 3' -56.2 NC_006548.1 + 36006 0.67 0.501417
Target:  5'- uCCAgguGCGGCUCGAUCGgCGc-GCCUa- -3'
miRNA:   3'- -GGU---CGUCGAGCUAGUgGCcuCGGAag -5'
30449 3' -56.2 NC_006548.1 + 26337 0.67 0.501417
Target:  5'- uUCGGCGGCcgggUCGAUgGCCaGAGCUa-- -3'
miRNA:   3'- -GGUCGUCG----AGCUAgUGGcCUCGGaag -5'
30449 3' -56.2 NC_006548.1 + 35168 0.67 0.49085
Target:  5'- uCCAuGCAGUgCGAUCACCu--GCCUUg -3'
miRNA:   3'- -GGU-CGUCGaGCUAGUGGccuCGGAAg -5'
30449 3' -56.2 NC_006548.1 + 34065 0.67 0.480387
Target:  5'- uCCAGUGGaugucccagaCGGUCAgugUUGGAGCCUUCg -3'
miRNA:   3'- -GGUCGUCga--------GCUAGU---GGCCUCGGAAG- -5'
30449 3' -56.2 NC_006548.1 + 4990 0.67 0.470034
Target:  5'- gCCAGgacguagGGCUCGAuagggaUCACUGGAGCaUUCu -3'
miRNA:   3'- -GGUCg------UCGAGCU------AGUGGCCUCGgAAG- -5'
30449 3' -56.2 NC_006548.1 + 4254 0.67 0.459797
Target:  5'- --cGguGCUCGAUCGCCGGcuGUUcaUUCg -3'
miRNA:   3'- gguCguCGAGCUAGUGGCCu-CGG--AAG- -5'
30449 3' -56.2 NC_006548.1 + 2318 0.68 0.449679
Target:  5'- gUCGGCuGCgcggCGG-CGCCGGAGCUg-- -3'
miRNA:   3'- -GGUCGuCGa---GCUaGUGGCCUCGGaag -5'
30449 3' -56.2 NC_006548.1 + 10177 0.68 0.449679
Target:  5'- cCCAcGCAGCaagcgCGAgcgCAUCaGGAGCCgUUCg -3'
miRNA:   3'- -GGU-CGUCGa----GCUa--GUGG-CCUCGG-AAG- -5'
30449 3' -56.2 NC_006548.1 + 14618 0.68 0.429818
Target:  5'- gCCAGCAGUccgacgCGAUCAgCCGGGuCCaUCu -3'
miRNA:   3'- -GGUCGUCGa-----GCUAGU-GGCCUcGGaAG- -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.