miRNA display CGI


Results 1 - 20 of 35 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
21391 5' -51.3 NC_004812.1 + 132402 1.06 0.009468
Target:  5'- gGAAUAUCCGGGGCAGAAAUCUGGCAAa -3'
miRNA:   3'- -CUUAUAGGCCCCGUCUUUAGACCGUU- -5'
21391 5' -51.3 NC_004812.1 + 70329 0.78 0.497902
Target:  5'- -----gCCGGGGCAGggGUC-GGCGAg -3'
miRNA:   3'- cuuauaGGCCCCGUCuuUAGaCCGUU- -5'
21391 5' -51.3 NC_004812.1 + 60103 0.76 0.581539
Target:  5'- cGggUGcCCGGGGCAGGGuccgccgCUGGCGg -3'
miRNA:   3'- -CuuAUaGGCCCCGUCUUua-----GACCGUu -5'
21391 5' -51.3 NC_004812.1 + 92331 0.75 0.635337
Target:  5'- uGGAUGaugCUGGGGUAGAGG-CUGGCAAa -3'
miRNA:   3'- -CUUAUa--GGCCCCGUCUUUaGACCGUU- -5'
21391 5' -51.3 NC_004812.1 + 66773 0.72 0.795011
Target:  5'- cGAAUGUggcgagcgccgugggUCGGGGCAGAAAUacCUGGUAc -3'
miRNA:   3'- -CUUAUA---------------GGCCCCGUCUUUA--GACCGUu -5'
21391 5' -51.3 NC_004812.1 + 71776 0.71 0.836086
Target:  5'- ---cGUCCGGcuGGCAGAgguccgucaggguGAUCUGGCGc -3'
miRNA:   3'- cuuaUAGGCC--CCGUCU-------------UUAGACCGUu -5'
21391 5' -51.3 NC_004812.1 + 83805 0.71 0.868347
Target:  5'- gGggUGaCCGGGGCGGGAGUUgcccgacgcgagGGCGc -3'
miRNA:   3'- -CuuAUaGGCCCCGUCUUUAGa-----------CCGUu -5'
21391 5' -51.3 NC_004812.1 + 35358 0.69 0.912762
Target:  5'- aGggUGUCCGGGGCGacgccccccgUGGCAAa -3'
miRNA:   3'- -CuuAUAGGCCCCGUcuuuag----ACCGUU- -5'
21391 5' -51.3 NC_004812.1 + 121198 0.69 0.918272
Target:  5'- cGAcgAUCCGGcGGCAGcuGGcgCUGGCc- -3'
miRNA:   3'- -CUuaUAGGCC-CCGUC--UUuaGACCGuu -5'
21391 5' -51.3 NC_004812.1 + 93664 0.69 0.924143
Target:  5'- -----cCCGGGGCAGAAGUUgucGCAc -3'
miRNA:   3'- cuuauaGGCCCCGUCUUUAGac-CGUu -5'
21391 5' -51.3 NC_004812.1 + 109838 0.69 0.929748
Target:  5'- -----aCCGGGGCgAGAucuccgCUGGCGAg -3'
miRNA:   3'- cuuauaGGCCCCG-UCUuua---GACCGUU- -5'
21391 5' -51.3 NC_004812.1 + 114090 0.69 0.935088
Target:  5'- uGGUGUgCCGGGGCGGAcgGAUg-GGCGGg -3'
miRNA:   3'- cUUAUA-GGCCCCGUCU--UUAgaCCGUU- -5'
21391 5' -51.3 NC_004812.1 + 154886 0.68 0.944974
Target:  5'- gGAGgcgCgCGGGGCcgggcGGAGUCUGGCGGa -3'
miRNA:   3'- -CUUauaG-GCCCCGu----CUUUAGACCGUU- -5'
21391 5' -51.3 NC_004812.1 + 98092 0.68 0.944974
Target:  5'- --cUAUCgGGGGCGGGGAgaacaggGGCGAg -3'
miRNA:   3'- cuuAUAGgCCCCGUCUUUaga----CCGUU- -5'
21391 5' -51.3 NC_004812.1 + 29378 0.68 0.944974
Target:  5'- gGAGgcgCgCGGGGCcgggcGGAGUCUGGCGGa -3'
miRNA:   3'- -CUUauaG-GCCCCGu----CUUUAGACCGUU- -5'
21391 5' -51.3 NC_004812.1 + 19273 0.68 0.953818
Target:  5'- cGAAUAUCgGGGGCAGGGcccCcGGCc- -3'
miRNA:   3'- -CUUAUAGgCCCCGUCUUua-GaCCGuu -5'
21391 5' -51.3 NC_004812.1 + 74165 0.68 0.953818
Target:  5'- ---cGUCCGGGGuCAGGuagCUGGUc- -3'
miRNA:   3'- cuuaUAGGCCCC-GUCUuuaGACCGuu -5'
21391 5' -51.3 NC_004812.1 + 38615 0.67 0.965196
Target:  5'- ---aGUCCGcGGCGGggGUCUccgcgccgGGCGAg -3'
miRNA:   3'- cuuaUAGGCcCCGUCuuUAGA--------CCGUU- -5'
21391 5' -51.3 NC_004812.1 + 7714 0.67 0.965196
Target:  5'- ---aGUCCGcGGCGGggGUCUccgcgccgGGCGAg -3'
miRNA:   3'- cuuaUAGGCcCCGUCuuUAGA--------CCGUU- -5'
21391 5' -51.3 NC_004812.1 + 146861 0.67 0.974445
Target:  5'- --cUGUCgagCGGGGCGGGGAcgUGGCAu -3'
miRNA:   3'- cuuAUAG---GCCCCGUCUUUagACCGUu -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.