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
8174 3' -54.6 NC_001978.2 + 25257 0.79 0.139437
Target:  5'- uCAGCUCCGUCGGCCUgaagugGuCCGacuuguucaacGCGUCGg -3'
miRNA:   3'- -GUUGAGGCAGCUGGAa-----C-GGC-----------UGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 9973 0.66 0.713643
Target:  5'- gGGCaUCgGUCGACUaUGgCGACgGUCGg -3'
miRNA:   3'- gUUG-AGgCAGCUGGaACgGCUG-CAGC- -5'
8174 3' -54.6 NC_001978.2 + 11168 0.66 0.702761
Target:  5'- cCGACUCCGccauuUCGAU--UGUCGGgGUCGa -3'
miRNA:   3'- -GUUGAGGC-----AGCUGgaACGGCUgCAGC- -5'
8174 3' -54.6 NC_001978.2 + 34605 0.66 0.696198
Target:  5'- aAGCUCCG-CGACCgacugaacgcccagcUUGCCGGguUCGa -3'
miRNA:   3'- gUUGAGGCaGCUGG---------------AACGGCUgcAGC- -5'
8174 3' -54.6 NC_001978.2 + 22728 0.66 0.680797
Target:  5'- uGGCaUUCGUCGGCgUcguguucgucgcUGCCGuCGUCGg -3'
miRNA:   3'- gUUG-AGGCAGCUGgA------------ACGGCuGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 5316 0.67 0.669739
Target:  5'- uGGCg-CGUCGACCUU-CaCGACGUCc -3'
miRNA:   3'- gUUGagGCAGCUGGAAcG-GCUGCAGc -5'
8174 3' -54.6 NC_001978.2 + 5933 0.67 0.658644
Target:  5'- -cGCUCCGugUCGACCguucgGuuGACG-CGa -3'
miRNA:   3'- guUGAGGC--AGCUGGaa---CggCUGCaGC- -5'
8174 3' -54.6 NC_001978.2 + 29964 0.67 0.647523
Target:  5'- ----gCCGaCGACCUUGCCGACc--- -3'
miRNA:   3'- guugaGGCaGCUGGAACGGCUGcagc -5'
8174 3' -54.6 NC_001978.2 + 20397 0.67 0.614117
Target:  5'- gAAgUCgaGUCGcGCCggucgGCCGACGUCGc -3'
miRNA:   3'- gUUgAGg-CAGC-UGGaa---CGGCUGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 30712 0.68 0.603001
Target:  5'- uCGACgcccuugCCGUCcuucacGCCgccgUGUCGACGUCGa -3'
miRNA:   3'- -GUUGa------GGCAGc-----UGGa---ACGGCUGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 28716 0.68 0.603001
Target:  5'- gCGACUUCG-CGGCUcaaacgcUGCCGuCGUCGg -3'
miRNA:   3'- -GUUGAGGCaGCUGGa------ACGGCuGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 35834 0.68 0.580854
Target:  5'- aCGAC-CUGggcgcCGACCUucccuUGcCCGACGUCGg -3'
miRNA:   3'- -GUUGaGGCa----GCUGGA-----AC-GGCUGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 28398 0.68 0.580854
Target:  5'- uCGACUCCGUCaACUccggcgcccaggUUGCCGaaGCGUUGc -3'
miRNA:   3'- -GUUGAGGCAGcUGG------------AACGGC--UGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 32885 0.68 0.558881
Target:  5'- uCAGCgcuaCGUCGACCacGCCGACacugagccgGUCGu -3'
miRNA:   3'- -GUUGag--GCAGCUGGaaCGGCUG---------CAGC- -5'
8174 3' -54.6 NC_001978.2 + 16061 0.69 0.534991
Target:  5'- gGGCUCCGUCaacucugugaacgguGACCUagggccggaUaucacccuugccgcuGCCGACGUCGg -3'
miRNA:   3'- gUUGAGGCAG---------------CUGGA---------A---------------CGGCUGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 25407 0.7 0.463781
Target:  5'- cCGACUacgCCGcCGACCgguucggGCuCGACGUCGc -3'
miRNA:   3'- -GUUGA---GGCaGCUGGaa-----CG-GCUGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 33216 0.7 0.44378
Target:  5'- cCAACUCCGUUcagGACa-UGCCGACuUCGc -3'
miRNA:   3'- -GUUGAGGCAG---CUGgaACGGCUGcAGC- -5'
8174 3' -54.6 NC_001978.2 + 18652 0.71 0.395999
Target:  5'- -cGCUCCGaaUCGACCcgcucauuCCGACGUCGu -3'
miRNA:   3'- guUGAGGC--AGCUGGaac-----GGCUGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 18362 0.75 0.23429
Target:  5'- ---gUCCGUCGucgucgcCCUUGUCGGCGUCGc -3'
miRNA:   3'- guugAGGCAGCu------GGAACGGCUGCAGC- -5'
8174 3' -54.6 NC_001978.2 + 15467 1.08 0.001112
Target:  5'- aCAACUCCGUCGACCUUGCCGACGUCGc -3'
miRNA:   3'- -GUUGAGGCAGCUGGAACGGCUGCAGC- -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.