miRNA display CGI


Results 1 - 20 of 87 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
3978 3' -63.3 NC_001650.1 + 122215 1.1 0.000731
Target:  5'- aCCGCGGCGAGGGAGCUGGUGCCCGAGg -3'
miRNA:   3'- -GGCGCCGCUCCCUCGACCACGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 133219 0.83 0.063443
Target:  5'- -aGCGGCGuGGGGGCUGGgagcgggccGCCCGAGa -3'
miRNA:   3'- ggCGCCGCuCCCUCGACCa--------CGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 65475 0.79 0.117953
Target:  5'- -gGCGGCGAGGGGGC-GGUGUaCGAGa -3'
miRNA:   3'- ggCGCCGCUCCCUCGaCCACGgGCUC- -5'
3978 3' -63.3 NC_001650.1 + 28631 0.78 0.136435
Target:  5'- aCGCGGCcuccAGGGGGCUGGUGCaggggcugguggCCGAGc -3'
miRNA:   3'- gGCGCCGc---UCCCUCGACCACG------------GGCUC- -5'
3978 3' -63.3 NC_001650.1 + 88728 0.76 0.181565
Target:  5'- gCCGgGGaGGGGGAGCcucuUGG-GCCCGAGg -3'
miRNA:   3'- -GGCgCCgCUCCCUCG----ACCaCGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 23748 0.75 0.213634
Target:  5'- cUCGCGGCGcgcGGGGGGC-GGagacccGCCCGAGg -3'
miRNA:   3'- -GGCGCCGC---UCCCUCGaCCa-----CGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 80756 0.75 0.218593
Target:  5'- gCGCGGCccugGAGaaGGAGCUGGUGCCgGuGa -3'
miRNA:   3'- gGCGCCG----CUC--CCUCGACCACGGgCuC- -5'
3978 3' -63.3 NC_001650.1 + 66413 0.73 0.273745
Target:  5'- -aGgGGCGAGGGGGagGGUGCCgGGGc -3'
miRNA:   3'- ggCgCCGCUCCCUCgaCCACGGgCUC- -5'
3978 3' -63.3 NC_001650.1 + 89751 0.73 0.279835
Target:  5'- cCCGCcuuGCGuGGG-GCUGGUGUCUGGGu -3'
miRNA:   3'- -GGCGc--CGCuCCCuCGACCACGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 127051 0.73 0.279835
Target:  5'- gUCGCgauGGaCGAGGGGGCgccGG-GCCCGGGg -3'
miRNA:   3'- -GGCG---CC-GCUCCCUCGa--CCaCGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 125372 0.73 0.284162
Target:  5'- cCCGCGGaCGuGGGGGCUcaucugccucucccGG-GCCCGAu -3'
miRNA:   3'- -GGCGCC-GCuCCCUCGA--------------CCaCGGGCUc -5'
3978 3' -63.3 NC_001650.1 + 88314 0.73 0.29875
Target:  5'- gCGCGGCG-GGGAGgUGuucGUGUUCGAGg -3'
miRNA:   3'- gGCGCCGCuCCCUCgAC---CACGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 142394 0.72 0.305271
Target:  5'- cCCGgGGCGGuGGGAGaggggGGUcucuacggGCCCGAGg -3'
miRNA:   3'- -GGCgCCGCU-CCCUCga---CCA--------CGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 133397 0.72 0.339507
Target:  5'- cUCGCGcGCcGGGGccGC-GGUGCCCGAGa -3'
miRNA:   3'- -GGCGC-CGcUCCCu-CGaCCACGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 82423 0.72 0.339507
Target:  5'- gCUGCGGCugcugaGAGGcGGGCUGGUaccuggGCUCGGGg -3'
miRNA:   3'- -GGCGCCG------CUCC-CUCGACCA------CGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 121076 0.72 0.34668
Target:  5'- gCCGCGGCGcGGGGGGCgcccguccuggGGU-UCCGGGa -3'
miRNA:   3'- -GGCGCCGC-UCCCUCGa----------CCAcGGGCUC- -5'
3978 3' -63.3 NC_001650.1 + 6452 0.71 0.360605
Target:  5'- gCCGCGGUGGGaaagagaGGGGC-GuGUGCCCGGa -3'
miRNA:   3'- -GGCGCCGCUC-------CCUCGaC-CACGGGCUc -5'
3978 3' -63.3 NC_001650.1 + 173159 0.71 0.360605
Target:  5'- gCCGCGGUGGGaaagagaGGGGC-GuGUGCCCGGa -3'
miRNA:   3'- -GGCGCCGCUC-------CCUCGaC-CACGGGCUc -5'
3978 3' -63.3 NC_001650.1 + 156675 0.71 0.368844
Target:  5'- aCCGCGGCGGugucuGGAGCUGG-GCCa--- -3'
miRNA:   3'- -GGCGCCGCUc----CCUCGACCaCGGgcuc -5'
3978 3' -63.3 NC_001650.1 + 155743 0.71 0.376444
Target:  5'- gCGCGGCcAGGG-GCUcGGUGCagCCGGGc -3'
miRNA:   3'- gGCGCCGcUCCCuCGA-CCACG--GGCUC- -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.