miRNA display CGI


Results 1 - 20 of 145 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
6614 3' -54.5 NC_001847.1 + 79765 1.1 0.002995
Target:  5'- gCGAUCAGCGGCACCAGAAACCAGGUCu -3'
miRNA:   3'- -GCUAGUCGCCGUGGUCUUUGGUCCAG- -5'
6614 3' -54.5 NC_001847.1 + 63285 0.81 0.218528
Target:  5'- aGAUgAGCGGCGgCGGAAgcACCGGGUCc -3'
miRNA:   3'- gCUAgUCGCCGUgGUCUU--UGGUCCAG- -5'
6614 3' -54.5 NC_001847.1 + 54493 0.78 0.314634
Target:  5'- aCGA-CGGCGGCGCC-GggGCCGGGg- -3'
miRNA:   3'- -GCUaGUCGCCGUGGuCuuUGGUCCag -5'
6614 3' -54.5 NC_001847.1 + 100876 0.78 0.344351
Target:  5'- gGGUCGGCGGCaggggcgcggccgGCgGGAGACgGGGUCg -3'
miRNA:   3'- gCUAGUCGCCG-------------UGgUCUUUGgUCCAG- -5'
6614 3' -54.5 NC_001847.1 + 130652 0.76 0.430293
Target:  5'- aGAUCGGCgaggacgccGGCGCCAGGGACgCGGGg- -3'
miRNA:   3'- gCUAGUCG---------CCGUGGUCUUUG-GUCCag -5'
6614 3' -54.5 NC_001847.1 + 27839 0.76 0.430293
Target:  5'- aGAUCGGCgaggacgccGGCGCCAGGGACgCGGGg- -3'
miRNA:   3'- gCUAGUCG---------CCGUGGUCUUUG-GUCCag -5'
6614 3' -54.5 NC_001847.1 + 90841 0.75 0.458145
Target:  5'- aGAUCagcgAGCGGCGCCccGggGCCGGGg- -3'
miRNA:   3'- gCUAG----UCGCCGUGGu-CuuUGGUCCag -5'
6614 3' -54.5 NC_001847.1 + 85241 0.75 0.477238
Target:  5'- gCGGcCGGCGGCGCCAGGugcGCgAGGUa -3'
miRNA:   3'- -GCUaGUCGCCGUGGUCUu--UGgUCCAg -5'
6614 3' -54.5 NC_001847.1 + 3969 0.75 0.486931
Target:  5'- cCGG-CGGCgagGGCGCCGGggGCCGGG-Cg -3'
miRNA:   3'- -GCUaGUCG---CCGUGGUCuuUGGUCCaG- -5'
6614 3' -54.5 NC_001847.1 + 8456 0.74 0.516545
Target:  5'- gGGUCggaGGCGGCGCCGG--GCCGGGg- -3'
miRNA:   3'- gCUAG---UCGCCGUGGUCuuUGGUCCag -5'
6614 3' -54.5 NC_001847.1 + 111269 0.74 0.516545
Target:  5'- gGGUCggaGGCGGCGCCGG--GCCGGGg- -3'
miRNA:   3'- gCUAG---UCGCCGUGGUCuuUGGUCCag -5'
6614 3' -54.5 NC_001847.1 + 100332 0.74 0.516545
Target:  5'- cCGGUCGGCcugccGCGCCAGcgGCCgcGGGUCg -3'
miRNA:   3'- -GCUAGUCGc----CGUGGUCuuUGG--UCCAG- -5'
6614 3' -54.5 NC_001847.1 + 93075 0.73 0.557089
Target:  5'- cCGAUgcgccgCAGCGGCACCAGcc-CCAGG-Ca -3'
miRNA:   3'- -GCUA------GUCGCCGUGGUCuuuGGUCCaG- -5'
6614 3' -54.5 NC_001847.1 + 2139 0.73 0.557089
Target:  5'- gGGUCgaaGGCGaGCGCCGGgcGCCAGGg- -3'
miRNA:   3'- gCUAG---UCGC-CGUGGUCuuUGGUCCag -5'
6614 3' -54.5 NC_001847.1 + 104952 0.73 0.557089
Target:  5'- gGGUCgaaGGCGaGCGCCGGgcGCCAGGg- -3'
miRNA:   3'- gCUAG---UCGC-CGUGGUCuuUGGUCCag -5'
6614 3' -54.5 NC_001847.1 + 28687 0.73 0.557089
Target:  5'- gCGuAUCGGCGGCGCUGGccuACCGGGa- -3'
miRNA:   3'- -GC-UAGUCGCCGUGGUCuu-UGGUCCag -5'
6614 3' -54.5 NC_001847.1 + 62754 0.73 0.567376
Target:  5'- aCGAacacCAGCaccGGCGCUAGGAccACCGGGUCu -3'
miRNA:   3'- -GCUa---GUCG---CCGUGGUCUU--UGGUCCAG- -5'
6614 3' -54.5 NC_001847.1 + 97006 0.73 0.598493
Target:  5'- gGGUCGGCGGCGCUGGccGCgGGGg- -3'
miRNA:   3'- gCUAGUCGCCGUGGUCuuUGgUCCag -5'
6614 3' -54.5 NC_001847.1 + 85086 0.73 0.598493
Target:  5'- uGAUCAGCGcCAgCAGGccgccGGCCAGGUUg -3'
miRNA:   3'- gCUAGUCGCcGUgGUCU-----UUGGUCCAG- -5'
6614 3' -54.5 NC_001847.1 + 78135 0.73 0.608927
Target:  5'- ---gCAGCaGGCACCAGGAcgugGCCAGG-Cg -3'
miRNA:   3'- gcuaGUCG-CCGUGGUCUU----UGGUCCaG- -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.