miRNA display CGI


Results 1 - 20 of 29 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
12009 3' -62.4 NC_003278.1 + 13194 0.66 0.261923
Target:  5'- aGGCcgCCcagggcaacggcaGCGCCC---CGGCGGACCUg -3'
miRNA:   3'- -UCGuaGG-------------CGCGGGcgaGUCGCCUGGA- -5'
12009 3' -62.4 NC_003278.1 + 13686 0.66 0.24953
Target:  5'- cGCucaAUCUGCGCCaggGCuUCGGCGG-CCa -3'
miRNA:   3'- uCG---UAGGCGCGGg--CG-AGUCGCCuGGa -5'
12009 3' -62.4 NC_003278.1 + 34779 0.66 0.243205
Target:  5'- aAGUuUCaGCGCCUGaUUCAGCaGACCUa -3'
miRNA:   3'- -UCGuAGgCGCGGGC-GAGUCGcCUGGA- -5'
12009 3' -62.4 NC_003278.1 + 15774 0.66 0.237013
Target:  5'- cGCGUgUGCGaaggcaCCGCccagaucgCAGCGGACCc -3'
miRNA:   3'- uCGUAgGCGCg-----GGCGa-------GUCGCCUGGa -5'
12009 3' -62.4 NC_003278.1 + 33497 0.66 0.237013
Target:  5'- aGGCAacgaaucuUCUugGCCCGCUU-GCGGGCCUa -3'
miRNA:   3'- -UCGU--------AGGcgCGGGCGAGuCGCCUGGA- -5'
12009 3' -62.4 NC_003278.1 + 4275 0.66 0.237013
Target:  5'- uAGC-UCCGCGCCCuacaaucccGCUUgauuGCuGGGCCg -3'
miRNA:   3'- -UCGuAGGCGCGGG---------CGAGu---CG-CCUGGa -5'
12009 3' -62.4 NC_003278.1 + 2219 0.67 0.225027
Target:  5'- -uCAUCCcgcacCGCCUGCUCAGcCGGGCg- -3'
miRNA:   3'- ucGUAGGc----GCGGGCGAGUC-GCCUGga -5'
12009 3' -62.4 NC_003278.1 + 8030 0.67 0.224441
Target:  5'- cGGCAugcuguUCgGUGCCCuGCUCGGCGccuggcuGGCCa -3'
miRNA:   3'- -UCGU------AGgCGCGGG-CGAGUCGC-------CUGGa -5'
12009 3' -62.4 NC_003278.1 + 31274 0.67 0.206921
Target:  5'- cAGCAcUCGCaGCCCGgagcagccuggCGGCGGGCCUc -3'
miRNA:   3'- -UCGUaGGCG-CGGGCga---------GUCGCCUGGA- -5'
12009 3' -62.4 NC_003278.1 + 3532 0.67 0.202596
Target:  5'- uGCAauUCCGCG-CCGUUCGGCaGGAUg- -3'
miRNA:   3'- uCGU--AGGCGCgGGCGAGUCG-CCUGga -5'
12009 3' -62.4 NC_003278.1 + 19946 0.67 0.197299
Target:  5'- uGCcgCaGCGCCUGCaUCuGCGGAUCg -3'
miRNA:   3'- uCGuaGgCGCGGGCG-AGuCGCCUGGa -5'
12009 3' -62.4 NC_003278.1 + 6392 0.67 0.196777
Target:  5'- aGGCGUUCGCGCCUuccaugcccugguGCggggCAGUGGccGCCg -3'
miRNA:   3'- -UCGUAGGCGCGGG-------------CGa---GUCGCC--UGGa -5'
12009 3' -62.4 NC_003278.1 + 8406 0.68 0.18657
Target:  5'- cAGCGUCuCGUugcucgccaGCCUGCUCGGCGcauccauGGCCa -3'
miRNA:   3'- -UCGUAG-GCG---------CGGGCGAGUCGC-------CUGGa -5'
12009 3' -62.4 NC_003278.1 + 31839 0.68 0.18657
Target:  5'- aGGCAaccccggaggaaaUCCGcCGCgCCGC-CGGCGGGCg- -3'
miRNA:   3'- -UCGU-------------AGGC-GCG-GGCGaGUCGCCUGga -5'
12009 3' -62.4 NC_003278.1 + 26655 0.68 0.168004
Target:  5'- cGCAUUCGCGUCCGC-CAGgguaGGcGCCg -3'
miRNA:   3'- uCGUAGGCGCGGGCGaGUCg---CC-UGGa -5'
12009 3' -62.4 NC_003278.1 + 19204 0.69 0.159139
Target:  5'- uGCAgCUGCGCgugCUGCUCAGCGcGAUCg -3'
miRNA:   3'- uCGUaGGCGCG---GGCGAGUCGC-CUGGa -5'
12009 3' -62.4 NC_003278.1 + 9100 0.69 0.154867
Target:  5'- gAGCGUUCgccagGCGCUggUGCUCGGCGGugCc -3'
miRNA:   3'- -UCGUAGG-----CGCGG--GCGAGUCGCCugGa -5'
12009 3' -62.4 NC_003278.1 + 22004 0.69 0.146633
Target:  5'- cGCAUCgGUGCCCaGC-CGGCGcGCCa -3'
miRNA:   3'- uCGUAGgCGCGGG-CGaGUCGCcUGGa -5'
12009 3' -62.4 NC_003278.1 + 23214 0.69 0.145433
Target:  5'- cAGCGUggcaGCGCCaCGCUCAGCuacgcgcucgccagGGGCCg -3'
miRNA:   3'- -UCGUAgg--CGCGG-GCGAGUCG--------------CCUGGa -5'
12009 3' -62.4 NC_003278.1 + 21871 0.7 0.1388
Target:  5'- cGCcUgCGCGCCCGC-CuGCaGGACCg -3'
miRNA:   3'- uCGuAgGCGCGGGCGaGuCG-CCUGGa -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.