miRNA display CGI


Results 1 - 16 of 16 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
5252 3' -59.9 NC_001798.1 + 27403 0.66 0.741365
Target:  5'- gGUGCgaCUGGcGUCUUCGGGGg-GGCg -3'
miRNA:   3'- gUACGg-GACC-CAGAGGUCCCagUCGa -5'
5252 3' -59.9 NC_001798.1 + 2378 0.66 0.712251
Target:  5'- --gGCCCgcgGGGcgcaguaggcCUCCAGGG-CGGCg -3'
miRNA:   3'- guaCGGGa--CCCa---------GAGGUCCCaGUCGa -5'
5252 3' -59.9 NC_001798.1 + 35784 0.66 0.702403
Target:  5'- gGUG-CUUGGGUCUCCuucgucGGG-CGGCg -3'
miRNA:   3'- gUACgGGACCCAGAGGu-----CCCaGUCGa -5'
5252 3' -59.9 NC_001798.1 + 103483 0.66 0.692497
Target:  5'- cCGUG-UCUGGG--UCCAGGGcCAGCUc -3'
miRNA:   3'- -GUACgGGACCCagAGGUCCCaGUCGA- -5'
5252 3' -59.9 NC_001798.1 + 129139 0.67 0.682542
Target:  5'- cCGUGgCCUGGaG-CUCCGGGG--AGCUg -3'
miRNA:   3'- -GUACgGGACC-CaGAGGUCCCagUCGA- -5'
5252 3' -59.9 NC_001798.1 + 122029 0.67 0.682542
Target:  5'- --cGCCCU-GGUCcaCCAGGccGUCAGCg -3'
miRNA:   3'- guaCGGGAcCCAGa-GGUCC--CAGUCGa -5'
5252 3' -59.9 NC_001798.1 + 76031 0.67 0.662521
Target:  5'- --cGCCCUGGGcCccgaggccaUCCAGGcG-CGGCUg -3'
miRNA:   3'- guaCGGGACCCaG---------AGGUCC-CaGUCGA- -5'
5252 3' -59.9 NC_001798.1 + 27908 0.67 0.63233
Target:  5'- cCAUGuCCCgccgccgGGGUCcccgccgCCGGGGUCccGGCg -3'
miRNA:   3'- -GUAC-GGGa------CCCAGa------GGUCCCAG--UCGa -5'
5252 3' -59.9 NC_001798.1 + 69978 0.67 0.63233
Target:  5'- --cGCCCgGGGUUUCgaAGGGUCcccgGGCg -3'
miRNA:   3'- guaCGGGaCCCAGAGg-UCCCAG----UCGa -5'
5252 3' -59.9 NC_001798.1 + 52324 0.68 0.622256
Target:  5'- -cUGcCCCUGGGcagCcCCGGGGUCguGGCg -3'
miRNA:   3'- guAC-GGGACCCa--GaGGUCCCAG--UCGa -5'
5252 3' -59.9 NC_001798.1 + 2461 0.68 0.573131
Target:  5'- --cGCCCUgcGGGUCggggcccucggcgggCCGgcGGGUCAGCg -3'
miRNA:   3'- guaCGGGA--CCCAGa--------------GGU--CCCAGUCGa -5'
5252 3' -59.9 NC_001798.1 + 23561 0.68 0.572136
Target:  5'- gGUGCCCgcgaGGGcC-CCGGGGgCGGCg -3'
miRNA:   3'- gUACGGGa---CCCaGaGGUCCCaGUCGa -5'
5252 3' -59.9 NC_001798.1 + 70787 0.69 0.513395
Target:  5'- uCGUGCaagaGGGUCUCCGGuucuuggcccuGGUCAGCa -3'
miRNA:   3'- -GUACGgga-CCCAGAGGUC-----------CCAGUCGa -5'
5252 3' -59.9 NC_001798.1 + 130238 0.7 0.484948
Target:  5'- --aGCCC-GGGUCUCC-GGG-CGGCc -3'
miRNA:   3'- guaCGGGaCCCAGAGGuCCCaGUCGa -5'
5252 3' -59.9 NC_001798.1 + 123932 0.72 0.387926
Target:  5'- uGUGCCCUGGGUC-CgGGGGccuggUGGCa -3'
miRNA:   3'- gUACGGGACCCAGaGgUCCCa----GUCGa -5'
5252 3' -59.9 NC_001798.1 + 57081 1.07 0.001602
Target:  5'- aCAUGCCCUGGGUCUCCAGGGUCAGCUc -3'
miRNA:   3'- -GUACGGGACCCAGAGGUCCCAGUCGA- -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.