miRNA display CGI


Results 1 - 20 of 40 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
12816 3' -60.3 NC_003387.1 + 51116 0.66 0.436528
Target:  5'- --cCCACAC-GCGCCcggccgaacaugccaGGGcGCGUCUGa -3'
miRNA:   3'- cuuGGUGUGaCGCGG---------------CCCaCGCGGAC- -5'
12816 3' -60.3 NC_003387.1 + 21603 0.66 0.432748
Target:  5'- cGGGCgGCGCccaccugGCGCUcggGGGUGCGUCg- -3'
miRNA:   3'- -CUUGgUGUGa------CGCGG---CCCACGCGGac -5'
12816 3' -60.3 NC_003387.1 + 46906 0.66 0.423383
Target:  5'- --cCCGCcUUGCGCgGGGuUGCGCUUc -3'
miRNA:   3'- cuuGGUGuGACGCGgCCC-ACGCGGAc -5'
12816 3' -60.3 NC_003387.1 + 14486 0.66 0.423383
Target:  5'- aAGCCcuCAUUGCgguaGCCGcggccauacaGGUGCGCCUGc -3'
miRNA:   3'- cUUGGu-GUGACG----CGGC----------CCACGCGGAC- -5'
12816 3' -60.3 NC_003387.1 + 6945 0.66 0.423383
Target:  5'- cGGCCuGCGCaGCGgCGGGcagGCGCCa- -3'
miRNA:   3'- cUUGG-UGUGaCGCgGCCCa--CGCGGac -5'
12816 3' -60.3 NC_003387.1 + 3563 0.66 0.41414
Target:  5'- cGACCGC-CUGCGCgCuGGUGUGCa-- -3'
miRNA:   3'- cUUGGUGuGACGCG-GcCCACGCGgac -5'
12816 3' -60.3 NC_003387.1 + 30611 0.66 0.405022
Target:  5'- -uGCCGCcaggGcCGCCGGGgaugGCGCCg- -3'
miRNA:   3'- cuUGGUGuga-C-GCGGCCCa---CGCGGac -5'
12816 3' -60.3 NC_003387.1 + 5835 0.66 0.405022
Target:  5'- cGACCucGgGCUGCGCCgcagguGGGgGCGCCg- -3'
miRNA:   3'- cUUGG--UgUGACGCGG------CCCaCGCGGac -5'
12816 3' -60.3 NC_003387.1 + 28998 0.66 0.405022
Target:  5'- uGGAUCGC-CUGCGCCGaGUcguucGCcGCCUGg -3'
miRNA:   3'- -CUUGGUGuGACGCGGCcCA-----CG-CGGAC- -5'
12816 3' -60.3 NC_003387.1 + 1953 0.66 0.387172
Target:  5'- cGGCCGCGgguCUG-GCCGGGcaGCGCCa- -3'
miRNA:   3'- cUUGGUGU---GACgCGGCCCa-CGCGGac -5'
12816 3' -60.3 NC_003387.1 + 15096 0.66 0.387172
Target:  5'- gGAGCCccCGCggaucgGCGUcaaCGGG-GCGCCUGa -3'
miRNA:   3'- -CUUGGu-GUGa-----CGCG---GCCCaCGCGGAC- -5'
12816 3' -60.3 NC_003387.1 + 44885 0.66 0.387172
Target:  5'- cGAGCUgACGCaGcCGCCGGGcGCGCUa- -3'
miRNA:   3'- -CUUGG-UGUGaC-GCGGCCCaCGCGGac -5'
12816 3' -60.3 NC_003387.1 + 19859 0.66 0.387172
Target:  5'- -cGCCgACGCgGCGCUGGGcGC-CCUGc -3'
miRNA:   3'- cuUGG-UGUGaCGCGGCCCaCGcGGAC- -5'
12816 3' -60.3 NC_003387.1 + 24568 0.66 0.385416
Target:  5'- cGAGCCGaGCUG-GCCGGGcucgaucgugggGCGCUUGc -3'
miRNA:   3'- -CUUGGUgUGACgCGGCCCa-----------CGCGGAC- -5'
12816 3' -60.3 NC_003387.1 + 7484 0.67 0.378443
Target:  5'- cGAGCCGCGCacccgcaccCGCUGGGUGacgaGUCUGc -3'
miRNA:   3'- -CUUGGUGUGac-------GCGGCCCACg---CGGAC- -5'
12816 3' -60.3 NC_003387.1 + 11354 0.67 0.369848
Target:  5'- uGGGCCGuCACUGCagacgGCCGGGU-CGUCg- -3'
miRNA:   3'- -CUUGGU-GUGACG-----CGGCCCAcGCGGac -5'
12816 3' -60.3 NC_003387.1 + 33237 0.67 0.369848
Target:  5'- uGAACCACACgucGC-CCGcGGUG-GCCUc -3'
miRNA:   3'- -CUUGGUGUGa--CGcGGC-CCACgCGGAc -5'
12816 3' -60.3 NC_003387.1 + 41974 0.67 0.364755
Target:  5'- gGAGCUGCGCgcggagGcCGCCGcGGUGCucaagcgguggggccGCCUGg -3'
miRNA:   3'- -CUUGGUGUGa-----C-GCGGC-CCACG---------------CGGAC- -5'
12816 3' -60.3 NC_003387.1 + 1118 0.67 0.361386
Target:  5'- uGAGCgACGCUaggGCGCaCGGuGUgcucgGCGCCUGc -3'
miRNA:   3'- -CUUGgUGUGA---CGCG-GCC-CA-----CGCGGAC- -5'
12816 3' -60.3 NC_003387.1 + 48416 0.67 0.353061
Target:  5'- uGAGCCACuGCcGgGUCGcGGUGCGCUg- -3'
miRNA:   3'- -CUUGGUG-UGaCgCGGC-CCACGCGGac -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.