miRNA display CGI


Results 1 - 20 of 25 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
1586 3' -52.2 NC_001347.2 + 1849 0.66 0.993806
Target:  5'- -cGCACcccGCGUC--GCUGcUGACGGCc -3'
miRNA:   3'- uaCGUGa--CGCAGuuUGACcACUGCUG- -5'
1586 3' -52.2 NC_001347.2 + 125029 0.66 0.993806
Target:  5'- -gGCgGCUGCuGUugcaCGGGCUcgGGUGACGGCg -3'
miRNA:   3'- uaCG-UGACG-CA----GUUUGA--CCACUGCUG- -5'
1586 3' -52.2 NC_001347.2 + 88680 0.66 0.992864
Target:  5'- -gGCGCcgGCG-CGcccuGCUGG-GACGACg -3'
miRNA:   3'- uaCGUGa-CGCaGUu---UGACCaCUGCUG- -5'
1586 3' -52.2 NC_001347.2 + 79316 0.66 0.992864
Target:  5'- gGUGCGCgGCGaCAAGCU-GUGGCuGCa -3'
miRNA:   3'- -UACGUGaCGCaGUUUGAcCACUGcUG- -5'
1586 3' -52.2 NC_001347.2 + 95471 0.66 0.991812
Target:  5'- -gGCGC-GCGUCAcgcGGCgccGGUGuCGGCg -3'
miRNA:   3'- uaCGUGaCGCAGU---UUGa--CCACuGCUG- -5'
1586 3' -52.2 NC_001347.2 + 182215 0.66 0.991812
Target:  5'- -cGgGCUGCGUCGccuucGGUGACGuCg -3'
miRNA:   3'- uaCgUGACGCAGUuuga-CCACUGCuG- -5'
1586 3' -52.2 NC_001347.2 + 170622 0.66 0.990264
Target:  5'- uUGUGCUGCGUCAcauGgaggaucuacccaaGCUGGcgaggaGACGGCg -3'
miRNA:   3'- uACGUGACGCAGU---U--------------UGACCa-----CUGCUG- -5'
1586 3' -52.2 NC_001347.2 + 144672 0.67 0.988496
Target:  5'- gGUGCgcaACUGCGaCGAACacgaggcucucgacuUGGUGACGcGCg -3'
miRNA:   3'- -UACG---UGACGCaGUUUG---------------ACCACUGC-UG- -5'
1586 3' -52.2 NC_001347.2 + 195320 0.67 0.987904
Target:  5'- -gGCACggggGCGUCGugaaggaggaGACU-GUGAUGACu -3'
miRNA:   3'- uaCGUGa---CGCAGU----------UUGAcCACUGCUG- -5'
1586 3' -52.2 NC_001347.2 + 117865 0.67 0.986323
Target:  5'- -gGCgACcGCGUCAGAC-GG-GGCGACc -3'
miRNA:   3'- uaCG-UGaCGCAGUUUGaCCaCUGCUG- -5'
1586 3' -52.2 NC_001347.2 + 203015 0.67 0.982689
Target:  5'- -gGCugUGUgccGUUAAAUaccuugGGUGACGACa -3'
miRNA:   3'- uaCGugACG---CAGUUUGa-----CCACUGCUG- -5'
1586 3' -52.2 NC_001347.2 + 129743 0.67 0.98062
Target:  5'- ---uGCUGCG-CAAGCUGGUgGugGAa -3'
miRNA:   3'- uacgUGACGCaGUUUGACCA-CugCUg -5'
1586 3' -52.2 NC_001347.2 + 163953 0.67 0.98062
Target:  5'- uGUGCACgcGCGUCAgcAGCUGcGUGcucaGACg -3'
miRNA:   3'- -UACGUGa-CGCAGU--UUGAC-CACug--CUG- -5'
1586 3' -52.2 NC_001347.2 + 104449 0.67 0.980185
Target:  5'- gGUGCACggacaaaaggccGCGUgCGAACUaauccuuacgccGGUGACGAUg -3'
miRNA:   3'- -UACGUGa-----------CGCA-GUUUGA------------CCACUGCUG- -5'
1586 3' -52.2 NC_001347.2 + 171707 0.68 0.973305
Target:  5'- -cGUGCUGCG-CGAGUUGGUGACcgaGGCg -3'
miRNA:   3'- uaCGUGACGCaGUUUGACCACUG---CUG- -5'
1586 3' -52.2 NC_001347.2 + 110859 0.68 0.970473
Target:  5'- -cGCAUcGCGcCGAGgUGGUGgcGCGACa -3'
miRNA:   3'- uaCGUGaCGCaGUUUgACCAC--UGCUG- -5'
1586 3' -52.2 NC_001347.2 + 142438 0.69 0.95699
Target:  5'- -gGCGCgGCGUCcGGCgucgggGGUGGCGGu -3'
miRNA:   3'- uaCGUGaCGCAGuUUGa-----CCACUGCUg -5'
1586 3' -52.2 NC_001347.2 + 158340 0.69 0.956607
Target:  5'- cGUGCACUGCucgcucugcggcaGUCAGcgGgUGGUG-CGGCa -3'
miRNA:   3'- -UACGUGACG-------------CAGUU--UgACCACuGCUG- -5'
1586 3' -52.2 NC_001347.2 + 192648 0.69 0.953054
Target:  5'- -aGaCGCUGCGUCGGuuuCUGcGcGGCGACa -3'
miRNA:   3'- uaC-GUGACGCAGUUu--GAC-CaCUGCUG- -5'
1586 3' -52.2 NC_001347.2 + 15604 0.69 0.944471
Target:  5'- cUGCAUUGC------CUGGUGACGACg -3'
miRNA:   3'- uACGUGACGcaguuuGACCACUGCUG- -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.