miRNA display CGI


Results 1 - 20 of 44 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
17002 3' -55.5 NC_004333.2 + 1129 0.68 0.536578
Target:  5'- gUCGGuGCCGUgcUGCGcGCGAcGUUGCACu -3'
miRNA:   3'- gAGUC-UGGCA--GCGCuUGCU-CGACGUG- -5'
17002 3' -55.5 NC_004333.2 + 2590 0.66 0.63557
Target:  5'- aUCAcGAUC-UCGCGAcCGGGCUGguCg -3'
miRNA:   3'- gAGU-CUGGcAGCGCUuGCUCGACguG- -5'
17002 3' -55.5 NC_004333.2 + 2902 0.66 0.657776
Target:  5'- uUCGGGaCGUCGUucGCGAGCcaagGCGCc -3'
miRNA:   3'- gAGUCUgGCAGCGcuUGCUCGa---CGUG- -5'
17002 3' -55.5 NC_004333.2 + 3685 0.69 0.504644
Target:  5'- gUCuGAgCCGUCGCGu-CGuAGCUGCGg -3'
miRNA:   3'- gAGuCU-GGCAGCGCuuGC-UCGACGUg -5'
17002 3' -55.5 NC_004333.2 + 3781 0.66 0.657776
Target:  5'- -gCAGGCCGUuguaccgcgcaCGCGccgcCGAGCaGCGCa -3'
miRNA:   3'- gaGUCUGGCA-----------GCGCuu--GCUCGaCGUG- -5'
17002 3' -55.5 NC_004333.2 + 5568 0.67 0.569186
Target:  5'- -gCAGACCGUucagcucgauugUGCGGccauCGGGCaUGCGCa -3'
miRNA:   3'- gaGUCUGGCA------------GCGCUu---GCUCG-ACGUG- -5'
17002 3' -55.5 NC_004333.2 + 7802 0.69 0.473557
Target:  5'- -cCAGGCCGagCGCGGACGAGUaGUuuaGCu -3'
miRNA:   3'- gaGUCUGGCa-GCGCUUGCUCGaCG---UG- -5'
17002 3' -55.5 NC_004333.2 + 10501 0.69 0.483816
Target:  5'- -cCGGGCCGgcCGaCGAGCGGGUcggGCGCg -3'
miRNA:   3'- gaGUCUGGCa-GC-GCUUGCUCGa--CGUG- -5'
17002 3' -55.5 NC_004333.2 + 10617 0.7 0.443462
Target:  5'- -gUAGACCaaCGCGucgGCGAGCUGaCGCa -3'
miRNA:   3'- gaGUCUGGcaGCGCu--UGCUCGAC-GUG- -5'
17002 3' -55.5 NC_004333.2 + 10984 0.66 0.645569
Target:  5'- aCUCGGcaccggcGCgCGUCGUGAGCGGcgugucgccgcGCUGCGg -3'
miRNA:   3'- -GAGUC-------UG-GCAGCGCUUGCU-----------CGACGUg -5'
17002 3' -55.5 NC_004333.2 + 12062 0.67 0.591198
Target:  5'- -gCAGGCCGUCGCcaaccuuGCGuacguGGCUGgCGCg -3'
miRNA:   3'- gaGUCUGGCAGCGcu-----UGC-----UCGAC-GUG- -5'
17002 3' -55.5 NC_004333.2 + 13878 0.7 0.405074
Target:  5'- -cCGcGCCG-CGCGAagucggccggcACGGGCUGCGCg -3'
miRNA:   3'- gaGUcUGGCaGCGCU-----------UGCUCGACGUG- -5'
17002 3' -55.5 NC_004333.2 + 13967 0.76 0.184187
Target:  5'- uUCAGgcggcgGCCGgUGCGcGCGAGCUGCGCg -3'
miRNA:   3'- gAGUC------UGGCaGCGCuUGCUCGACGUG- -5'
17002 3' -55.5 NC_004333.2 + 15755 0.68 0.536578
Target:  5'- --gAGACacUCGUcAGCGAGCUGCGCg -3'
miRNA:   3'- gagUCUGgcAGCGcUUGCUCGACGUG- -5'
17002 3' -55.5 NC_004333.2 + 20626 0.69 0.470501
Target:  5'- gUCGGGCCaauucgacgcgagcGUCGC-AACGGcGCUGCGCc -3'
miRNA:   3'- gAGUCUGG--------------CAGCGcUUGCU-CGACGUG- -5'
17002 3' -55.5 NC_004333.2 + 20747 0.67 0.591198
Target:  5'- -cCGGACa-UCGCcGACGcGGCUGCGCg -3'
miRNA:   3'- gaGUCUGgcAGCGcUUGC-UCGACGUG- -5'
17002 3' -55.5 NC_004333.2 + 23042 0.67 0.591198
Target:  5'- aUCGGGCagGcCGCGAACGuGC-GCGCc -3'
miRNA:   3'- gAGUCUGg-CaGCGCUUGCuCGaCGUG- -5'
17002 3' -55.5 NC_004333.2 + 23189 0.67 0.624457
Target:  5'- -aCAGGCgG-CGCGGACGcagacGUUGCGCu -3'
miRNA:   3'- gaGUCUGgCaGCGCUUGCu----CGACGUG- -5'
17002 3' -55.5 NC_004333.2 + 24428 0.69 0.473557
Target:  5'- ---cGACuCGUCGCGcguCGAGCUGCcCg -3'
miRNA:   3'- gaguCUG-GCAGCGCuu-GCUCGACGuG- -5'
17002 3' -55.5 NC_004333.2 + 25472 0.67 0.624457
Target:  5'- --gGGAUCGUCGCGGcgacagcCGGGUUGCGu -3'
miRNA:   3'- gagUCUGGCAGCGCUu------GCUCGACGUg -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.