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
8216 3' -54.5 NC_001978.2 + 20849 0.66 0.675398
Target:  5'- uCGGAcGCGACGGCaagggacucuuugcgGuCCgGACCGUCGAa- -3'
miRNA:   3'- -GCUU-CGUUGCCG---------------C-GG-CUGGUAGCUau -5'
8216 3' -54.5 NC_001978.2 + 33629 0.68 0.56936
Target:  5'- cCGAcGGUcACGGCGCCGACaagggCGAc- -3'
miRNA:   3'- -GCU-UCGuUGCCGCGGCUGgua--GCUau -5'
8216 3' -54.5 NC_001978.2 + 13199 0.67 0.603064
Target:  5'- uGAAGCGuguCGGgGUCGGCagCGUCGAg- -3'
miRNA:   3'- gCUUCGUu--GCCgCGGCUG--GUAGCUau -5'
8216 3' -54.5 NC_001978.2 + 11525 0.67 0.614364
Target:  5'- -cAGGUcgAGCGGCGCCGACCGcUUGcGUGc -3'
miRNA:   3'- gcUUCG--UUGCCGCGGCUGGU-AGC-UAU- -5'
8216 3' -54.5 NC_001978.2 + 8599 0.67 0.624549
Target:  5'- gCGAAGCAucggggcACGGCGCgaacCGGCCuuguucagggAUCGAg- -3'
miRNA:   3'- -GCUUCGU-------UGCCGCG----GCUGG----------UAGCUau -5'
8216 3' -54.5 NC_001978.2 + 34707 0.66 0.637003
Target:  5'- aCGggGCucaguCGGCGUCGGC--UCGAa- -3'
miRNA:   3'- -GCuuCGuu---GCCGCGGCUGguAGCUau -5'
8216 3' -54.5 NC_001978.2 + 29214 0.76 0.179871
Target:  5'- -cGAGCGGCaGGCGCCGACCcgUGAc- -3'
miRNA:   3'- gcUUCGUUG-CCGCGGCUGGuaGCUau -5'
8216 3' -54.5 NC_001978.2 + 35737 0.71 0.356878
Target:  5'- aCGggGCuuCGaGUGCCGACCGgucuUCGGg- -3'
miRNA:   3'- -GCuuCGuuGC-CGCGGCUGGU----AGCUau -5'
8216 3' -54.5 NC_001978.2 + 16767 0.69 0.503623
Target:  5'- gGGcAGCGgaACGGCGCCGACaugCGUUGAc- -3'
miRNA:   3'- gCU-UCGU--UGCCGCGGCUG---GUAGCUau -5'
8216 3' -54.5 NC_001978.2 + 4450 0.67 0.580553
Target:  5'- uCGcAGCGACGGCGCCccugccCCAggaaCGAUGc -3'
miRNA:   3'- -GCuUCGUUGCCGCGGcu----GGUa---GCUAU- -5'
8216 3' -54.5 NC_001978.2 + 36968 0.67 0.614364
Target:  5'- aCGGuGGCAG-GGUGCCGACCGgcagCGGc- -3'
miRNA:   3'- -GCU-UCGUUgCCGCGGCUGGUa---GCUau -5'
8216 3' -54.5 NC_001978.2 + 11886 0.66 0.670898
Target:  5'- uCGGAGCcuuCGGCGUucgUGACCGUCu--- -3'
miRNA:   3'- -GCUUCGuu-GCCGCG---GCUGGUAGcuau -5'
8216 3' -54.5 NC_001978.2 + 37544 0.69 0.492973
Target:  5'- ---cGCAACGG-GCCGACCAcgUUGAa- -3'
miRNA:   3'- gcuuCGUUGCCgCGGCUGGU--AGCUau -5'
8216 3' -54.5 NC_001978.2 + 7261 0.66 0.659623
Target:  5'- aGAAGCGAacCGGCuCCGG-CGUCGAg- -3'
miRNA:   3'- gCUUCGUU--GCCGcGGCUgGUAGCUau -5'
8216 3' -54.5 NC_001978.2 + 25808 0.67 0.591791
Target:  5'- cCGGacGGCAACGGCgucauaGCCGACCGauaCGGc- -3'
miRNA:   3'- -GCU--UCGUUGCCG------CGGCUGGUa--GCUau -5'
8216 3' -54.5 NC_001978.2 + 16329 0.69 0.461671
Target:  5'- aCGucGGCAGCGGUaaGCgUGACCGUCGGa- -3'
miRNA:   3'- -GCu-UCGUUGCCG--CG-GCUGGUAGCUau -5'
8216 3' -54.5 NC_001978.2 + 5210 0.66 0.648321
Target:  5'- aCGAAG-AACGGCGUCG-UCGUCGu-- -3'
miRNA:   3'- -GCUUCgUUGCCGCGGCuGGUAGCuau -5'
8216 3' -54.5 NC_001978.2 + 13872 0.68 0.558222
Target:  5'- --cGGguGCGGCuCCGGCCGUCGcUAu -3'
miRNA:   3'- gcuUCguUGCCGcGGCUGGUAGCuAU- -5'
8216 3' -54.5 NC_001978.2 + 5620 0.66 0.637003
Target:  5'- aCGGAcGCGAcCGGCGCCaacgcuGCCuUCGGUGa -3'
miRNA:   3'- -GCUU-CGUU-GCCGCGGc-----UGGuAGCUAU- -5'
8216 3' -54.5 NC_001978.2 + 33560 0.66 0.637003
Target:  5'- uGucGCccuuguCGGCGCCGugACCGUCGGg- -3'
miRNA:   3'- gCuuCGuu----GCCGCGGC--UGGUAGCUau -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.