miRNA display CGI


Results 1 - 20 of 29 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
18523 5' -53.9 NC_004681.1 + 1049 0.66 0.847273
Target:  5'- cGGACGccgagaggaUGUACGGCCcgauggagcccugGCaGCGCg -3'
miRNA:   3'- -CCUGCuaag-----ACAUGCCGGa------------CGaCGCG- -5'
18523 5' -53.9 NC_004681.1 + 1595 0.68 0.769561
Target:  5'- gGGACGAgua--UugGGCCauggugGUUGCGCa -3'
miRNA:   3'- -CCUGCUaagacAugCCGGa-----CGACGCG- -5'
18523 5' -53.9 NC_004681.1 + 4235 0.76 0.355641
Target:  5'- cGAUGGggUUGUugcgggccucaGCGGCCUGCuUGCGCa -3'
miRNA:   3'- cCUGCUaaGACA-----------UGCCGGACG-ACGCG- -5'
18523 5' -53.9 NC_004681.1 + 8918 0.69 0.692933
Target:  5'- cGGCGGguaccccggcGUcaACGGCCUGCUGCaGCg -3'
miRNA:   3'- cCUGCUaaga------CA--UGCCGGACGACG-CG- -5'
18523 5' -53.9 NC_004681.1 + 9937 0.67 0.817369
Target:  5'- cGGAUGAUgCUGcaACGGcCCUGUccUGgGCg -3'
miRNA:   3'- -CCUGCUAaGACa-UGCC-GGACG--ACgCG- -5'
18523 5' -53.9 NC_004681.1 + 9946 0.68 0.779438
Target:  5'- uGGGcCGGUUCgucuucgccuUGCGGCC-GCUGCGg -3'
miRNA:   3'- -CCU-GCUAAGac--------AUGCCGGaCGACGCg -5'
18523 5' -53.9 NC_004681.1 + 14492 0.66 0.84388
Target:  5'- aGGGCGcg-CUGgu-GGCCggUGCUGgCGCg -3'
miRNA:   3'- -CCUGCuaaGACaugCCGG--ACGAC-GCG- -5'
18523 5' -53.9 NC_004681.1 + 16299 0.66 0.883671
Target:  5'- uGGCcGUUCUGcuUGGCCUGCUcUGCc -3'
miRNA:   3'- cCUGcUAAGACauGCCGGACGAcGCG- -5'
18523 5' -53.9 NC_004681.1 + 17085 0.66 0.875425
Target:  5'- cGGugGAUUCUGgGCucagaugGGCCagaagaucGCggGCGCg -3'
miRNA:   3'- -CCugCUAAGACaUG-------CCGGa-------CGa-CGCG- -5'
18523 5' -53.9 NC_004681.1 + 19777 0.69 0.743265
Target:  5'- uGGACGcUggUGUgcggcuccgcuaagaACGGCCgccaguaccgcgUGCUGCGCg -3'
miRNA:   3'- -CCUGCuAagACA---------------UGCCGG------------ACGACGCG- -5'
18523 5' -53.9 NC_004681.1 + 19835 0.66 0.883671
Target:  5'- gGGGCGAUcagcaACGGCCUGauccaUGUGUg -3'
miRNA:   3'- -CCUGCUAagacaUGCCGGACg----ACGCG- -5'
18523 5' -53.9 NC_004681.1 + 20639 0.67 0.826407
Target:  5'- cGGCGGUUgcugcgUUGUACgGGUCUGCgcggagGCGUg -3'
miRNA:   3'- cCUGCUAA------GACAUG-CCGGACGa-----CGCG- -5'
18523 5' -53.9 NC_004681.1 + 23177 0.66 0.84388
Target:  5'- uGAUGA-UCUGcUGCuGGuCCUGC-GCGCg -3'
miRNA:   3'- cCUGCUaAGAC-AUG-CC-GGACGaCGCG- -5'
18523 5' -53.9 NC_004681.1 + 24005 0.71 0.568029
Target:  5'- uGACGAUUgUGUcgagcAUGGCCUGgaUGCGUc -3'
miRNA:   3'- cCUGCUAAgACA-----UGCCGGACg-ACGCG- -5'
18523 5' -53.9 NC_004681.1 + 26790 0.67 0.834372
Target:  5'- cGGugG-UUCUGUcaacuucaccgcgGCGGCCaacGCUGaCGUc -3'
miRNA:   3'- -CCugCuAAGACA-------------UGCCGGa--CGAC-GCG- -5'
18523 5' -53.9 NC_004681.1 + 37061 0.66 0.852298
Target:  5'- aGGGCG-UUCcgGUgACGGCC-GCcGCGUg -3'
miRNA:   3'- -CCUGCuAAGa-CA-UGCCGGaCGaCGCG- -5'
18523 5' -53.9 NC_004681.1 + 38904 0.66 0.860494
Target:  5'- cGGAUGG-UCUcgGCGGaCUUGC-GCGCg -3'
miRNA:   3'- -CCUGCUaAGAcaUGCC-GGACGaCGCG- -5'
18523 5' -53.9 NC_004681.1 + 38997 0.68 0.773528
Target:  5'- cGACGAggaaggcgucaacgUCg--ACGGCCUGCugguggUGCGCc -3'
miRNA:   3'- cCUGCUa-------------AGacaUGCCGGACG------ACGCG- -5'
18523 5' -53.9 NC_004681.1 + 39893 0.7 0.643452
Target:  5'- cGGGCGGagacccccagCgc-GCGGCCaGCUGCGCa -3'
miRNA:   3'- -CCUGCUaa--------GacaUGCCGGaCGACGCG- -5'
18523 5' -53.9 NC_004681.1 + 40377 0.67 0.817369
Target:  5'- uGGCuucggCUGUACuGGCuaCUGCUGUGCg -3'
miRNA:   3'- cCUGcuaa-GACAUG-CCG--GACGACGCG- -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.