miRNA display CGI


Results 1 - 20 of 30 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
7738 3' -54.9 NC_001973.1 + 15417 0.66 0.957955
Target:  5'- uCCgCGAUGcGGuCGUgCAGAUCGUGCg -3'
miRNA:   3'- cGGgGCUGCaCU-GCGaGUCUAGCAUG- -5'
7738 3' -54.9 NC_001973.1 + 41079 0.66 0.957955
Target:  5'- aCCCCGGCc-GGCGCguaAGAUCcUACg -3'
miRNA:   3'- cGGGGCUGcaCUGCGag-UCUAGcAUG- -5'
7738 3' -54.9 NC_001973.1 + 96704 0.66 0.950136
Target:  5'- uCCCCGACGaGGCGUgUCGGcgcgCGUAUc -3'
miRNA:   3'- cGGGGCUGCaCUGCG-AGUCua--GCAUG- -5'
7738 3' -54.9 NC_001973.1 + 6218 0.66 0.945884
Target:  5'- gGUgCCGGCGcGGCGCccugUCGGAUUGcGCg -3'
miRNA:   3'- -CGgGGCUGCaCUGCG----AGUCUAGCaUG- -5'
7738 3' -54.9 NC_001973.1 + 120757 0.66 0.945447
Target:  5'- aGCCgCCGACGUGuucCGCaagcugaccggcuUCgAGggCGUGCg -3'
miRNA:   3'- -CGG-GGCUGCACu--GCG-------------AG-UCuaGCAUG- -5'
7738 3' -54.9 NC_001973.1 + 121324 0.66 0.945007
Target:  5'- cGCgCCGACGagcucaccgacaGGCGgUCGcGGUCGUGCg -3'
miRNA:   3'- -CGgGGCUGCa-----------CUGCgAGU-CUAGCAUG- -5'
7738 3' -54.9 NC_001973.1 + 61428 0.66 0.941402
Target:  5'- uCCCCGAcCGcGACGCUCucGUCGg-- -3'
miRNA:   3'- cGGGGCU-GCaCUGCGAGucUAGCaug -5'
7738 3' -54.9 NC_001973.1 + 43764 0.66 0.941402
Target:  5'- uCCCUGACGcGcgccGCGCUCGG-UCGcUGCa -3'
miRNA:   3'- cGGGGCUGCaC----UGCGAGUCuAGC-AUG- -5'
7738 3' -54.9 NC_001973.1 + 46064 0.67 0.936686
Target:  5'- aCCauGGCGUGGCuGUUCGGAcugacguggcUCGUGCg -3'
miRNA:   3'- cGGggCUGCACUG-CGAGUCU----------AGCAUG- -5'
7738 3' -54.9 NC_001973.1 + 8059 0.67 0.926547
Target:  5'- uCCUCGucGCGcUGGCGCUCGGcgCGcACg -3'
miRNA:   3'- cGGGGC--UGC-ACUGCGAGUCuaGCaUG- -5'
7738 3' -54.9 NC_001973.1 + 55440 0.67 0.921123
Target:  5'- gGgCCCGACG--GCGCggCGGAUCGUc- -3'
miRNA:   3'- -CgGGGCUGCacUGCGa-GUCUAGCAug -5'
7738 3' -54.9 NC_001973.1 + 157867 0.67 0.921123
Target:  5'- cCCCgCGACGaGGCGCUgCGGcUCGUGu -3'
miRNA:   3'- cGGG-GCUGCaCUGCGA-GUCuAGCAUg -5'
7738 3' -54.9 NC_001973.1 + 31985 0.68 0.89708
Target:  5'- cGCgCCGAucucCGccGCGCUCAGGcCGUGCa -3'
miRNA:   3'- -CGgGGCU----GCacUGCGAGUCUaGCAUG- -5'
7738 3' -54.9 NC_001973.1 + 46279 0.68 0.886432
Target:  5'- cGCCCugcgcaaguaccgcaCGGuCGUGGCGCUCGGcgCGa-- -3'
miRNA:   3'- -CGGG---------------GCU-GCACUGCGAGUCuaGCaug -5'
7738 3' -54.9 NC_001973.1 + 89773 0.68 0.883681
Target:  5'- uCCaCCGACGagucGACGCaCAGGUCGUcuuGCa -3'
miRNA:   3'- cGG-GGCUGCa---CUGCGaGUCUAGCA---UG- -5'
7738 3' -54.9 NC_001973.1 + 41624 0.68 0.883681
Target:  5'- -aUCUGAUGUGGCGCUC-GAUCGc-- -3'
miRNA:   3'- cgGGGCUGCACUGCGAGuCUAGCaug -5'
7738 3' -54.9 NC_001973.1 + 24157 0.68 0.882987
Target:  5'- cGCCUCGGCGcUGGCGCUgccgcugcggccgCGGcgCGUcaGCg -3'
miRNA:   3'- -CGGGGCUGC-ACUGCGA-------------GUCuaGCA--UG- -5'
7738 3' -54.9 NC_001973.1 + 74032 0.69 0.861941
Target:  5'- cGCaCUCGAUGUGGCGCacCAcuUCGUACu -3'
miRNA:   3'- -CG-GGGCUGCACUGCGa-GUcuAGCAUG- -5'
7738 3' -54.9 NC_001973.1 + 94587 0.69 0.861941
Target:  5'- aGCCCCGACGcGGuCGCguacgagCGGcUCGUGa -3'
miRNA:   3'- -CGGGGCUGCaCU-GCGa------GUCuAGCAUg -5'
7738 3' -54.9 NC_001973.1 + 97302 0.69 0.841604
Target:  5'- uGCgCCGACGUGACGUucgacgccaacagucUCGGAacgcUCGUuCg -3'
miRNA:   3'- -CGgGGCUGCACUGCG---------------AGUCU----AGCAuG- -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.