miRNA display CGI


Results 1 - 20 of 20 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
25044 3' -56.6 NC_005336.1 + 120921 0.66 0.825049
Target:  5'- -aGGCGCUCGagggcGGGUUCggcgacgugcucgGCAAGCUg- -3'
miRNA:   3'- gaCCGCGAGC-----CUCAAGa------------CGUUCGGuu -5'
25044 3' -56.6 NC_005336.1 + 19930 0.66 0.819808
Target:  5'- gCUGGCGCaggCGGuGUggcgcgccaguuUCUGCuGGCCc- -3'
miRNA:   3'- -GACCGCGa--GCCuCA------------AGACGuUCGGuu -5'
25044 3' -56.6 NC_005336.1 + 76141 0.66 0.81093
Target:  5'- -aGGUcCUCGGGGUUC-GCGAGCg-- -3'
miRNA:   3'- gaCCGcGAGCCUCAAGaCGUUCGguu -5'
25044 3' -56.6 NC_005336.1 + 30588 0.67 0.792674
Target:  5'- -cGGCGCU-GGAGUUCgcgcgcacgGCGGGCg-- -3'
miRNA:   3'- gaCCGCGAgCCUCAAGa--------CGUUCGguu -5'
25044 3' -56.6 NC_005336.1 + 109652 0.67 0.792674
Target:  5'- -aGGUGCUCGaGGcUCUGCucaAGGCCGGu -3'
miRNA:   3'- gaCCGCGAGCcUCaAGACG---UUCGGUU- -5'
25044 3' -56.6 NC_005336.1 + 104330 0.67 0.792674
Target:  5'- -cGcGCGCgUGGAGcgCgUGCAGGCCGAc -3'
miRNA:   3'- gaC-CGCGaGCCUCaaG-ACGUUCGGUU- -5'
25044 3' -56.6 NC_005336.1 + 57117 0.67 0.764177
Target:  5'- aUGGCGCuguUCGGcGUaaagCUGCcGGCCAu -3'
miRNA:   3'- gACCGCG---AGCCuCAa---GACGuUCGGUu -5'
25044 3' -56.6 NC_005336.1 + 53552 0.68 0.744549
Target:  5'- -cGGCGCUgcugcaGGAGUUCUacccGC-AGCCAu -3'
miRNA:   3'- gaCCGCGAg-----CCUCAAGA----CGuUCGGUu -5'
25044 3' -56.6 NC_005336.1 + 95343 0.68 0.744549
Target:  5'- aUGuGCGCgCGcGAGUUCUGCAuGaCCAGg -3'
miRNA:   3'- gAC-CGCGaGC-CUCAAGACGUuC-GGUU- -5'
25044 3' -56.6 NC_005336.1 + 66985 0.68 0.721473
Target:  5'- uUGGCGCgcccgUCGGgcguGGUgugcggguuguugcUCUGCGAGCCGc -3'
miRNA:   3'- gACCGCG-----AGCC----UCA--------------AGACGUUCGGUu -5'
25044 3' -56.6 NC_005336.1 + 94106 0.69 0.662705
Target:  5'- -cGGC-CUCGGAGUUC-GC-GGCCGGu -3'
miRNA:   3'- gaCCGcGAGCCUCAAGaCGuUCGGUU- -5'
25044 3' -56.6 NC_005336.1 + 69796 0.69 0.652259
Target:  5'- -cGGCGCUCGGAcaacGUgcugCUGCGcgcgcuggacacGGCCGu -3'
miRNA:   3'- gaCCGCGAGCCU----CAa---GACGU------------UCGGUu -5'
25044 3' -56.6 NC_005336.1 + 103655 0.69 0.641796
Target:  5'- -aGGUGCa-GGAGUUCUccuccgcguacGCAGGCCAc -3'
miRNA:   3'- gaCCGCGagCCUCAAGA-----------CGUUCGGUu -5'
25044 3' -56.6 NC_005336.1 + 127955 0.7 0.620856
Target:  5'- uUGGCGC-CGGAcGcgCUGguGGCCGg -3'
miRNA:   3'- gACCGCGaGCCU-CaaGACguUCGGUu -5'
25044 3' -56.6 NC_005336.1 + 112435 0.71 0.558498
Target:  5'- --aGCGCUCGGAGauagagcugugUCUGguGGCCAGc -3'
miRNA:   3'- gacCGCGAGCCUCa----------AGACguUCGGUU- -5'
25044 3' -56.6 NC_005336.1 + 62581 0.71 0.538064
Target:  5'- gUGGCGUcgucagcgUCGGGGUUCUGCuccauGGUCGc -3'
miRNA:   3'- gACCGCG--------AGCCUCAAGACGu----UCGGUu -5'
25044 3' -56.6 NC_005336.1 + 136613 0.72 0.50792
Target:  5'- --cGCGCUCGGAGUggCUGCGgcAGCUGGa -3'
miRNA:   3'- gacCGCGAGCCUCAa-GACGU--UCGGUU- -5'
25044 3' -56.6 NC_005336.1 + 136613 0.72 0.50792
Target:  5'- --cGCGCUCGGAGUggCUGCGgcAGCUGGa -3'
miRNA:   3'- gacCGCGAGCCUCAa-GACGU--UCGGUU- -5'
25044 3' -56.6 NC_005336.1 + 102012 0.73 0.44997
Target:  5'- -cGGCGC-CGGAGUUCUcGCccaucguGGCCAGc -3'
miRNA:   3'- gaCCGCGaGCCUCAAGA-CGu------UCGGUU- -5'
25044 3' -56.6 NC_005336.1 + 128943 1.06 0.002674
Target:  5'- aCUGGCGCUCGGAGUUCUGCAAGCCAAu -3'
miRNA:   3'- -GACCGCGAGCCUCAAGACGUUCGGUU- -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.