miRNA display CGI


Results 1 - 20 of 21 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
21345 5' -58.2 NC_004778.3 + 53162 0.66 0.793065
Target:  5'- uGGC-GGCgGuuGCUGUgGCGGCGguugCGGc -3'
miRNA:   3'- -UCGuCCGgCu-CGACAaCGUCGCa---GCC- -5'
21345 5' -58.2 NC_004778.3 + 41354 0.66 0.793065
Target:  5'- cAGCuGGUgUGGGagUGUUGC-GCGUCGGa -3'
miRNA:   3'- -UCGuCCG-GCUCg-ACAACGuCGCAGCC- -5'
21345 5' -58.2 NC_004778.3 + 57945 0.66 0.774656
Target:  5'- uGguGGCCGAua---UGCAGCuGUCGGa -3'
miRNA:   3'- uCguCCGGCUcgacaACGUCG-CAGCC- -5'
21345 5' -58.2 NC_004778.3 + 29336 0.66 0.774656
Target:  5'- uGGCu-GCCGAGCgacgacccGUgGCAGCGUCa- -3'
miRNA:   3'- -UCGucCGGCUCGa-------CAaCGUCGCAGcc -5'
21345 5' -58.2 NC_004778.3 + 32945 0.66 0.765256
Target:  5'- gGGCGGacgacaccGCCGcguGGCUGUgcgGCcGCGUCGa -3'
miRNA:   3'- -UCGUC--------CGGC---UCGACAa--CGuCGCAGCc -5'
21345 5' -58.2 NC_004778.3 + 27952 0.67 0.726567
Target:  5'- aAGCGGcCCGuGCaUGcggUGCAGCG-CGGg -3'
miRNA:   3'- -UCGUCcGGCuCG-ACa--ACGUCGCaGCC- -5'
21345 5' -58.2 NC_004778.3 + 73727 0.67 0.726567
Target:  5'- aGGUAGGCCGuG-UGUU-CGGCGUCa- -3'
miRNA:   3'- -UCGUCCGGCuCgACAAcGUCGCAGcc -5'
21345 5' -58.2 NC_004778.3 + 21112 0.67 0.703693
Target:  5'- gAGCGGacguugcccagaucGCCGAcgugccGCUc-UGCGGCGUCGGg -3'
miRNA:   3'- -UCGUC--------------CGGCU------CGAcaACGUCGCAGCC- -5'
21345 5' -58.2 NC_004778.3 + 4058 0.68 0.686575
Target:  5'- gGGCAGGCCGAGCgccUGCcugauGgGUCc- -3'
miRNA:   3'- -UCGUCCGGCUCGacaACGu----CgCAGcc -5'
21345 5' -58.2 NC_004778.3 + 26883 0.68 0.656076
Target:  5'- uGCAGGCCGcGGCguUUGCGGCGg--- -3'
miRNA:   3'- uCGUCCGGC-UCGacAACGUCGCagcc -5'
21345 5' -58.2 NC_004778.3 + 83247 0.68 0.635633
Target:  5'- gGGCGauuGGCUGcGUUGUUGCAGaCGcgCGGa -3'
miRNA:   3'- -UCGU---CCGGCuCGACAACGUC-GCa-GCC- -5'
21345 5' -58.2 NC_004778.3 + 61811 0.68 0.635633
Target:  5'- cGGCuGGCCcAGCaUGcgcGCGGCGUUGGc -3'
miRNA:   3'- -UCGuCCGGcUCG-ACaa-CGUCGCAGCC- -5'
21345 5' -58.2 NC_004778.3 + 44008 0.68 0.635633
Target:  5'- gAGCcGGCac--CUGUUGCcGCGUCGGa -3'
miRNA:   3'- -UCGuCCGgcucGACAACGuCGCAGCC- -5'
21345 5' -58.2 NC_004778.3 + 30962 0.69 0.593758
Target:  5'- cGGCcGGUCGAGCUGccccGUAGCGUacaauucCGGg -3'
miRNA:   3'- -UCGuCCGGCUCGACaa--CGUCGCA-------GCC- -5'
21345 5' -58.2 NC_004778.3 + 127443 0.69 0.574482
Target:  5'- cGCAGGuaGAGCuUGcUGguGgGUCGGu -3'
miRNA:   3'- uCGUCCggCUCG-ACaACguCgCAGCC- -5'
21345 5' -58.2 NC_004778.3 + 121403 0.7 0.564393
Target:  5'- uGGCAcgugcGGCUGAGCaGcagGCAcGCGUCGGc -3'
miRNA:   3'- -UCGU-----CCGGCUCGaCaa-CGU-CGCAGCC- -5'
21345 5' -58.2 NC_004778.3 + 112440 0.7 0.551348
Target:  5'- cGCGGGCCGcAGCgUGUaaucgauaaggaugUGCGGCaGUCGc -3'
miRNA:   3'- uCGUCCGGC-UCG-ACA--------------ACGUCG-CAGCc -5'
21345 5' -58.2 NC_004778.3 + 90829 0.72 0.439489
Target:  5'- gGGCAcGCCGAGaaGUacGCAGCGUCGa -3'
miRNA:   3'- -UCGUcCGGCUCgaCAa-CGUCGCAGCc -5'
21345 5' -58.2 NC_004778.3 + 58295 0.72 0.412906
Target:  5'- uGGCGcGCUGGGCU-UUGCAgGCGUCGGc -3'
miRNA:   3'- -UCGUcCGGCUCGAcAACGU-CGCAGCC- -5'
21345 5' -58.2 NC_004778.3 + 34400 0.77 0.21688
Target:  5'- cAGCucguGGCCGGGCUGcuccgGCAGCG-CGGc -3'
miRNA:   3'- -UCGu---CCGGCUCGACaa---CGUCGCaGCC- -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.