miRNA display CGI


Results 1 - 20 of 21 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
11026 3' -68.1 NC_002794.1 + 8444 0.66 0.468671
Target:  5'- gCGGGUgaaaagcggGGACCUgaCCCGGCUgUUCCg- -3'
miRNA:   3'- -GCCCGa--------CCUGGG--GGGCCGGgAGGGac -5'
11026 3' -68.1 NC_002794.1 + 36014 0.66 0.435382
Target:  5'- uCGGGCggcGGaauccGCCgUCCGGCCCggccgCCCg- -3'
miRNA:   3'- -GCCCGa--CC-----UGGgGGGCCGGGa----GGGac -5'
11026 3' -68.1 NC_002794.1 + 90947 0.66 0.427275
Target:  5'- gCGGGCUGuGCgCCgaGGCCCgggCCCg- -3'
miRNA:   3'- -GCCCGACcUGgGGggCCGGGa--GGGac -5'
11026 3' -68.1 NC_002794.1 + 85939 0.66 0.41687
Target:  5'- cCGGGCUcGGaACCgacccggaacggggCCgCGGCCCUCUCa- -3'
miRNA:   3'- -GCCCGA-CC-UGG--------------GGgGCCGGGAGGGac -5'
11026 3' -68.1 NC_002794.1 + 34594 0.67 0.40117
Target:  5'- cCGaGUUGGACCCgauCCCGGaggagcaccucuucCUCUCCCUGa -3'
miRNA:   3'- -GCcCGACCUGGG---GGGCC--------------GGGAGGGAC- -5'
11026 3' -68.1 NC_002794.1 + 99272 0.67 0.395764
Target:  5'- gGGGCUccGGcgcGCUCCCgGGCUCUUCCg- -3'
miRNA:   3'- gCCCGA--CC---UGGGGGgCCGGGAGGGac -5'
11026 3' -68.1 NC_002794.1 + 84769 0.67 0.395764
Target:  5'- aGGGCcguccGaGGCCCggCCCGGCUCUCUCUc -3'
miRNA:   3'- gCCCGa----C-CUGGG--GGGCCGGGAGGGAc -5'
11026 3' -68.1 NC_002794.1 + 71146 0.67 0.372398
Target:  5'- gCGGGCUGuGCCgCCCCGGCaagcgcaccagcaCCcCCCg- -3'
miRNA:   3'- -GCCCGACcUGG-GGGGCCG-------------GGaGGGac -5'
11026 3' -68.1 NC_002794.1 + 80426 0.68 0.358548
Target:  5'- cCGGGCgGGGCCgCCgccggcggccgCCGGCCCgucggcggCCCg- -3'
miRNA:   3'- -GCCCGaCCUGG-GG-----------GGCCGGGa-------GGGac -5'
11026 3' -68.1 NC_002794.1 + 68864 0.68 0.351405
Target:  5'- cCGGaGCUcGGGCUCgCCGGCCUcgCCCg- -3'
miRNA:   3'- -GCC-CGA-CCUGGGgGGCCGGGa-GGGac -5'
11026 3' -68.1 NC_002794.1 + 186004 0.68 0.344363
Target:  5'- cCGGGCUccgccgcuccGGGCCCgggCCCGGaCCCgggCCCc- -3'
miRNA:   3'- -GCCCGA----------CCUGGG---GGGCC-GGGa--GGGac -5'
11026 3' -68.1 NC_002794.1 + 86098 0.68 0.344363
Target:  5'- cCGGGaC-GGAUgCUCCGGCCCgagCCCg- -3'
miRNA:   3'- -GCCC-GaCCUGgGGGGCCGGGa--GGGac -5'
11026 3' -68.1 NC_002794.1 + 86650 0.68 0.344363
Target:  5'- cCGGGaC-GGAUgCUCCGGCCCgagCCCg- -3'
miRNA:   3'- -GCCC-GaCCUGgGGGGCCGGGa--GGGac -5'
11026 3' -68.1 NC_002794.1 + 86290 0.68 0.344363
Target:  5'- cCGGGaC-GGAUgCUCCGGCCCgagCCCg- -3'
miRNA:   3'- -GCCC-GaCCUGgGGGGCCGGGa--GGGac -5'
11026 3' -68.1 NC_002794.1 + 13346 0.68 0.337424
Target:  5'- gGGGgUGGcggcGCCCCUCgcccgGGCCCUCCUc- -3'
miRNA:   3'- gCCCgACC----UGGGGGG-----CCGGGAGGGac -5'
11026 3' -68.1 NC_002794.1 + 16318 0.69 0.304264
Target:  5'- -cGGCUGGAUCCCCCuGCCCcuggCCg-- -3'
miRNA:   3'- gcCCGACCUGGGGGGcCGGGa---GGgac -5'
11026 3' -68.1 NC_002794.1 + 180664 0.69 0.29794
Target:  5'- aGGGCgugccggGGaACUCgCCGGCCgCUCCCg- -3'
miRNA:   3'- gCCCGa------CC-UGGGgGGCCGG-GAGGGac -5'
11026 3' -68.1 NC_002794.1 + 4103 0.69 0.279582
Target:  5'- gCGGGCccaGGACCCCCCa-CCC-CCCg- -3'
miRNA:   3'- -GCCCGa--CCUGGGGGGccGGGaGGGac -5'
11026 3' -68.1 NC_002794.1 + 138733 0.7 0.251002
Target:  5'- -cGGCUcgacGGGgUCCCCGGCCCUCCg-- -3'
miRNA:   3'- gcCCGA----CCUgGGGGGCCGGGAGGgac -5'
11026 3' -68.1 NC_002794.1 + 191371 0.77 0.090738
Target:  5'- aCGGGCcGGACCCUCCGcGCCCgcggccgCCCa- -3'
miRNA:   3'- -GCCCGaCCUGGGGGGC-CGGGa------GGGac -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.