miRNA display CGI


Results 1 - 20 of 23 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
8041 3' -53 NC_001973.1 + 44868 0.66 0.980687
Target:  5'- -aGGCGuCCacgaUGCCCACGCacacggagGUGCg -3'
miRNA:   3'- gaUUGCuGGaca-ACGGGUGCGa-------CACG- -5'
8041 3' -53 NC_001973.1 + 61315 0.66 0.975997
Target:  5'- -aGGCGGCCUcGUcGCCgGCGCgcagcUGCu -3'
miRNA:   3'- gaUUGCUGGA-CAaCGGgUGCGac---ACG- -5'
8041 3' -53 NC_001973.1 + 64980 0.66 0.973362
Target:  5'- -cGACGAUCUGUUcaaGCUCACGgaGaaGCa -3'
miRNA:   3'- gaUUGCUGGACAA---CGGGUGCgaCa-CG- -5'
8041 3' -53 NC_001973.1 + 76063 0.66 0.973362
Target:  5'- -cGugGGCCUGUcGCUCGCGgUgaucGUGUg -3'
miRNA:   3'- gaUugCUGGACAaCGGGUGCgA----CACG- -5'
8041 3' -53 NC_001973.1 + 58805 0.66 0.973362
Target:  5'- --cGCGAgCUGgaGCUgcUGCUGUGCa -3'
miRNA:   3'- gauUGCUgGACaaCGGguGCGACACG- -5'
8041 3' -53 NC_001973.1 + 23579 0.66 0.967475
Target:  5'- -gGACGcGCC----GCCCGCGCUGcGCg -3'
miRNA:   3'- gaUUGC-UGGacaaCGGGUGCGACaCG- -5'
8041 3' -53 NC_001973.1 + 102774 0.66 0.967158
Target:  5'- -cGACGcCCUGcUGCCgCAcuuaaguacguguCGUUGUGCa -3'
miRNA:   3'- gaUUGCuGGACaACGG-GU-------------GCGACACG- -5'
8041 3' -53 NC_001973.1 + 46018 0.67 0.960721
Target:  5'- -gAGCG-CCUGUcugGCCaugggCGCGCUGcUGCu -3'
miRNA:   3'- gaUUGCuGGACAa--CGG-----GUGCGAC-ACG- -5'
8041 3' -53 NC_001973.1 + 77367 0.67 0.953055
Target:  5'- --cGCGGCCgcgcGCCCGCGCgccgGCg -3'
miRNA:   3'- gauUGCUGGacaaCGGGUGCGaca-CG- -5'
8041 3' -53 NC_001973.1 + 22724 0.68 0.943985
Target:  5'- -cGACGACCUGg-GCgagCCGCGgccguauCUGUGCg -3'
miRNA:   3'- gaUUGCUGGACaaCG---GGUGC-------GACACG- -5'
8041 3' -53 NC_001973.1 + 74271 0.68 0.939771
Target:  5'- gUGAUGuACgUGUgGCCgGCGCcGUGCg -3'
miRNA:   3'- gAUUGC-UGgACAaCGGgUGCGaCACG- -5'
8041 3' -53 NC_001973.1 + 136485 0.68 0.929691
Target:  5'- -cGGCGGCgUG--GCCgACGCUGUGg -3'
miRNA:   3'- gaUUGCUGgACaaCGGgUGCGACACg -5'
8041 3' -53 NC_001973.1 + 5311 0.68 0.929691
Target:  5'- -aGGCGcACUgcagGUuggUGCCguCGCUGUGCg -3'
miRNA:   3'- gaUUGC-UGGa---CA---ACGGguGCGACACG- -5'
8041 3' -53 NC_001973.1 + 76980 0.69 0.91862
Target:  5'- ---cCGACCUGUUcagcgGCgCCACGCUGa-- -3'
miRNA:   3'- gauuGCUGGACAA-----CG-GGUGCGACacg -5'
8041 3' -53 NC_001973.1 + 29755 0.69 0.900167
Target:  5'- -cGACGGCCUGUgcgagacGCUCcagGCGCUG-GCc -3'
miRNA:   3'- gaUUGCUGGACAa------CGGG---UGCGACaCG- -5'
8041 3' -53 NC_001973.1 + 93583 0.7 0.886659
Target:  5'- -gAGCGGUCgcguagUGCCCGCGCUG-GCg -3'
miRNA:   3'- gaUUGCUGGaca---ACGGGUGCGACaCG- -5'
8041 3' -53 NC_001973.1 + 110846 0.72 0.796979
Target:  5'- -cAACGACCg---GCCCACGgUGUacGCg -3'
miRNA:   3'- gaUUGCUGGacaaCGGGUGCgACA--CG- -5'
8041 3' -53 NC_001973.1 + 27839 0.72 0.787735
Target:  5'- uCUuGCGGCCcgGUUgGCCgGCGCUG-GCg -3'
miRNA:   3'- -GAuUGCUGGa-CAA-CGGgUGCGACaCG- -5'
8041 3' -53 NC_001973.1 + 86837 0.72 0.784932
Target:  5'- -cAACGGCCgGUgucgcgaggcccagUGCUCGCGCUGcgGCa -3'
miRNA:   3'- gaUUGCUGGaCA--------------ACGGGUGCGACa-CG- -5'
8041 3' -53 NC_001973.1 + 122833 0.73 0.719492
Target:  5'- gUAcCGACCgccGUugaUGCgCACGCUGUGCc -3'
miRNA:   3'- gAUuGCUGGa--CA---ACGgGUGCGACACG- -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.