miRNA display CGI


Results 1 - 20 of 30 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
1378 5' -54.8 NC_001335.1 + 650 0.67 0.706723
Target:  5'- -gUCCcccGAGCGCCUUCU-CGACCg-- -3'
miRNA:   3'- cgAGGu--CUUGCGGAGGAaGCUGGagg -5'
1378 5' -54.8 NC_001335.1 + 804 0.68 0.641344
Target:  5'- cGUUCCAuagcuGCGCCgCCUUCGGCauguucgUCCa -3'
miRNA:   3'- -CGAGGUcu---UGCGGaGGAAGCUGg------AGG- -5'
1378 5' -54.8 NC_001335.1 + 1173 0.72 0.384899
Target:  5'- gGUUCCGGGACcgggGCCgCCUUuacuucccCGGCCUCCc -3'
miRNA:   3'- -CGAGGUCUUG----CGGaGGAA--------GCUGGAGG- -5'
1378 5' -54.8 NC_001335.1 + 1203 0.77 0.19504
Target:  5'- gGCUCCA--GCGCCUCUgcgguugCGugCUCCg -3'
miRNA:   3'- -CGAGGUcuUGCGGAGGaa-----GCugGAGG- -5'
1378 5' -54.8 NC_001335.1 + 1248 0.66 0.7593
Target:  5'- aGCUCCAccccCGCCUCCgaCG-CCgCCu -3'
miRNA:   3'- -CGAGGUcuu-GCGGAGGaaGCuGGaGG- -5'
1378 5' -54.8 NC_001335.1 + 3538 0.67 0.695944
Target:  5'- uGCgUCCAGAGCGUCUUggaugUCG-CCUgCCa -3'
miRNA:   3'- -CG-AGGUCUUGCGGAGga---AGCuGGA-GG- -5'
1378 5' -54.8 NC_001335.1 + 5811 0.69 0.564795
Target:  5'- uCUCCA--GCGCCUgCUU-GACCUUCg -3'
miRNA:   3'- cGAGGUcuUGCGGAgGAAgCUGGAGG- -5'
1378 5' -54.8 NC_001335.1 + 10908 0.69 0.564795
Target:  5'- gGUUCCAu--CGgCUUC-UCGACCUCCg -3'
miRNA:   3'- -CGAGGUcuuGCgGAGGaAGCUGGAGG- -5'
1378 5' -54.8 NC_001335.1 + 11046 0.68 0.619372
Target:  5'- cGCUCagcGAGCuugGCCUCgUacUCGGCCUUCa -3'
miRNA:   3'- -CGAGgu-CUUG---CGGAGgA--AGCUGGAGG- -5'
1378 5' -54.8 NC_001335.1 + 12762 0.66 0.748999
Target:  5'- gGC-CCGGAACGUCgCCgacgcagCGGCUUUCa -3'
miRNA:   3'- -CGaGGUCUUGCGGaGGaa-----GCUGGAGG- -5'
1378 5' -54.8 NC_001335.1 + 14334 0.72 0.403027
Target:  5'- uGCUCCu--ACGCCggCCUugcucaagaccaUCGACCUCa -3'
miRNA:   3'- -CGAGGucuUGCGGa-GGA------------AGCUGGAGg -5'
1378 5' -54.8 NC_001335.1 + 15088 0.7 0.48062
Target:  5'- aGgaCCGGAGCGUaCUUCUUCuuGACCUCUu -3'
miRNA:   3'- -CgaGGUCUUGCG-GAGGAAG--CUGGAGG- -5'
1378 5' -54.8 NC_001335.1 + 18021 0.67 0.706723
Target:  5'- gGUUCUgcAGCGCCUC--UCGGCCUgCCu -3'
miRNA:   3'- -CGAGGucUUGCGGAGgaAGCUGGA-GG- -5'
1378 5' -54.8 NC_001335.1 + 18925 0.67 0.663282
Target:  5'- -aUCCGcAGCGUCUCCUUgGGcaguuCCUCCc -3'
miRNA:   3'- cgAGGUcUUGCGGAGGAAgCU-----GGAGG- -5'
1378 5' -54.8 NC_001335.1 + 19141 0.66 0.7593
Target:  5'- ---gCAGAuCGCUUCCgagUCGGgCUCCc -3'
miRNA:   3'- cgagGUCUuGCGGAGGa--AGCUgGAGG- -5'
1378 5' -54.8 NC_001335.1 + 19846 0.67 0.674213
Target:  5'- aGCUUguGGACGCUgCCUgaUGACC-CCa -3'
miRNA:   3'- -CGAGguCUUGCGGaGGAa-GCUGGaGG- -5'
1378 5' -54.8 NC_001335.1 + 21995 0.7 0.501148
Target:  5'- aGCUCCAGu-CGCCcCCacCGAUCUCg -3'
miRNA:   3'- -CGAGGUCuuGCGGaGGaaGCUGGAGg -5'
1378 5' -54.8 NC_001335.1 + 22177 0.66 0.7593
Target:  5'- aGCgCCGgugaccgugucGAAUG-CUCCUUCGACCcagUCCg -3'
miRNA:   3'- -CGaGGU-----------CUUGCgGAGGAAGCUGG---AGG- -5'
1378 5' -54.8 NC_001335.1 + 24473 0.66 0.748999
Target:  5'- --gCCGGAACuCCgcaUCCa-CGACCUCCg -3'
miRNA:   3'- cgaGGUCUUGcGG---AGGaaGCUGGAGG- -5'
1378 5' -54.8 NC_001335.1 + 27278 0.7 0.501148
Target:  5'- uUUCCAGGuACGCCUCggcgaggUUGGCCUCg -3'
miRNA:   3'- cGAGGUCU-UGCGGAGga-----AGCUGGAGg -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.