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
22239 5' -56.5 NC_005045.1 + 4536 0.66 0.601604
Target:  5'- gGACGCggaccggUC-ACCUUGGCAGGgcCGu -3'
miRNA:   3'- aCUGCGga-----AGcUGGAGCCGUCCauGC- -5'
22239 5' -56.5 NC_005045.1 + 13590 0.66 0.599399
Target:  5'- aUGAUGUCgcgcagcccuugUUGACCUCGGCGgcGGUGu- -3'
miRNA:   3'- -ACUGCGGa-----------AGCUGGAGCCGU--CCAUgc -5'
22239 5' -56.5 NC_005045.1 + 38926 0.66 0.590591
Target:  5'- gGugGCCgagguacggUCacccaugcgGGCCUCGgggcGCAGGUACGc -3'
miRNA:   3'- aCugCGGa--------AG---------CUGGAGC----CGUCCAUGC- -5'
22239 5' -56.5 NC_005045.1 + 4852 0.67 0.546976
Target:  5'- aGACGugaucaCCUUCGACCaUGGCAaGG-GCGa -3'
miRNA:   3'- aCUGC------GGAAGCUGGaGCCGU-CCaUGC- -5'
22239 5' -56.5 NC_005045.1 + 28757 0.67 0.513889
Target:  5'- gGugGCCggUCuGAUgUCGGCGGGUucccuguACGc -3'
miRNA:   3'- aCugCGGa-AG-CUGgAGCCGUCCA-------UGC- -5'
22239 5' -56.5 NC_005045.1 + 16688 0.67 0.500256
Target:  5'- cGGCGCCgugggcaacguggUCGGCCagGGUccgaAGGUGCu -3'
miRNA:   3'- aCUGCGGa------------AGCUGGagCCG----UCCAUGc -5'
22239 5' -56.5 NC_005045.1 + 11464 0.68 0.483701
Target:  5'- cGG-GUCUUCGGCUUCGGCccGGcUGCGg -3'
miRNA:   3'- aCUgCGGAAGCUGGAGCCGu-CC-AUGC- -5'
22239 5' -56.5 NC_005045.1 + 9741 0.68 0.453396
Target:  5'- cGACGCCgaCaGCCUUGGcCGGGUGa- -3'
miRNA:   3'- aCUGCGGaaGcUGGAGCC-GUCCAUgc -5'
22239 5' -56.5 NC_005045.1 + 18587 0.69 0.433777
Target:  5'- aGGCGCagguagUCG-CCgUCGGCAGGU-CGa -3'
miRNA:   3'- aCUGCGga----AGCuGG-AGCCGUCCAuGC- -5'
22239 5' -56.5 NC_005045.1 + 3638 0.69 0.42034
Target:  5'- -cACGCCUUCGucgaacuaugguuCCUCGGCGGcGUGg- -3'
miRNA:   3'- acUGCGGAAGCu------------GGAGCCGUC-CAUgc -5'
22239 5' -56.5 NC_005045.1 + 18716 0.69 0.414659
Target:  5'- cUGGCGCCgccgCGACCcUGGaacgacuGGUGCGa -3'
miRNA:   3'- -ACUGCGGaa--GCUGGaGCCgu-----CCAUGC- -5'
22239 5' -56.5 NC_005045.1 + 28149 0.69 0.414659
Target:  5'- gGGCGUCgugUCGuACCaCGGCuGGUugGg -3'
miRNA:   3'- aCUGCGGa--AGC-UGGaGCCGuCCAugC- -5'
22239 5' -56.5 NC_005045.1 + 6842 0.7 0.352011
Target:  5'- cGGUGCCUUCGACCUgucCGGCcugauGGUAgGu -3'
miRNA:   3'- aCUGCGGAAGCUGGA---GCCGu----CCAUgC- -5'
22239 5' -56.5 NC_005045.1 + 7936 0.7 0.338666
Target:  5'- -cGCGCCUUcaucuucuuggauggCGACC-CGGCAGGUGu- -3'
miRNA:   3'- acUGCGGAA---------------GCUGGaGCCGUCCAUgc -5'
22239 5' -56.5 NC_005045.1 + 26281 0.71 0.319345
Target:  5'- uUGAUGUCggugcggUCGGCCUCGGgcuuuacacuCAGGUugGc -3'
miRNA:   3'- -ACUGCGGa------AGCUGGAGCC----------GUCCAugC- -5'
22239 5' -56.5 NC_005045.1 + 19215 0.71 0.311542
Target:  5'- aUGAUGCUcUCGAacaaCUCGGUAGaGUGCa -3'
miRNA:   3'- -ACUGCGGaAGCUg---GAGCCGUC-CAUGc -5'
22239 5' -56.5 NC_005045.1 + 15027 0.72 0.254326
Target:  5'- aGcACGCUUUgGGCCUCGGCAG-UACc -3'
miRNA:   3'- aC-UGCGGAAgCUGGAGCCGUCcAUGc -5'
22239 5' -56.5 NC_005045.1 + 3907 1.09 0.000546
Target:  5'- aUGACGCCUUCGACCUCGGCAGGUACGa -3'
miRNA:   3'- -ACUGCGGAAGCUGGAGCCGUCCAUGC- -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.