miRNA display CGI


Results 1 - 20 of 33 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
1434 3' -54.3 NC_001335.1 + 1563 0.67 0.663996
Target:  5'- cCG-GUCGAcUCAAGUcgcuguucgaGGUCGGCuucucAGCCg -3'
miRNA:   3'- uGCuCAGCU-AGUUCG----------UCAGCCG-----UCGG- -5'
1434 3' -54.3 NC_001335.1 + 2486 0.66 0.761089
Target:  5'- ---cGUUGAUCuggcaAAGcCAGUUGGCAGCa -3'
miRNA:   3'- ugcuCAGCUAG-----UUC-GUCAGCCGUCGg -5'
1434 3' -54.3 NC_001335.1 + 2825 1.12 0.000703
Target:  5'- uACGAGUCGAUCAAGCAGUCGGCAGCCg -3'
miRNA:   3'- -UGCUCAGCUAGUUCGUCAGCCGUCGG- -5'
1434 3' -54.3 NC_001335.1 + 2947 0.72 0.419657
Target:  5'- gGCGAGUCGGgcCAucuGcCAGUCGGuCGGCUc -3'
miRNA:   3'- -UGCUCAGCUa-GUu--C-GUCAGCC-GUCGG- -5'
1434 3' -54.3 NC_001335.1 + 3074 0.68 0.619554
Target:  5'- cGCGGcGUCGGUCAccuuCGGUCaGCAGCa -3'
miRNA:   3'- -UGCU-CAGCUAGUuc--GUCAGcCGUCGg -5'
1434 3' -54.3 NC_001335.1 + 3684 0.66 0.729514
Target:  5'- aACGuGUCGAagAAGUcGUUcGCGGCCu -3'
miRNA:   3'- -UGCuCAGCUagUUCGuCAGcCGUCGG- -5'
1434 3' -54.3 NC_001335.1 + 5529 0.68 0.630673
Target:  5'- gGCGGGcUCGAc---GCugAGUCGGCGGCUg -3'
miRNA:   3'- -UGCUC-AGCUaguuCG--UCAGCCGUCGG- -5'
1434 3' -54.3 NC_001335.1 + 7843 0.67 0.675057
Target:  5'- gACGGGUCGAagucCAAcgacuggaccgcGCucGUCGGCuGCCg -3'
miRNA:   3'- -UGCUCAGCUa---GUU------------CGu-CAGCCGuCGG- -5'
1434 3' -54.3 NC_001335.1 + 7972 0.66 0.746486
Target:  5'- -aGAuGUCGAUgAcgaacAGCAGgccgucgcugacaCGGCAGCCg -3'
miRNA:   3'- ugCU-CAGCUAgU-----UCGUCa------------GCCGUCGG- -5'
1434 3' -54.3 NC_001335.1 + 8914 0.69 0.553402
Target:  5'- -gGGGUCGAUCucGGCgugcauucgGGUgGGCGGCUc -3'
miRNA:   3'- ugCUCAGCUAGu-UCG---------UCAgCCGUCGG- -5'
1434 3' -54.3 NC_001335.1 + 9275 0.66 0.729514
Target:  5'- cUGAGggcaaGAUCcAGCAGUUcucuGCAGCCg -3'
miRNA:   3'- uGCUCag---CUAGuUCGUCAGc---CGUCGG- -5'
1434 3' -54.3 NC_001335.1 + 11318 0.66 0.750683
Target:  5'- uCGGGUCaccGUUcAGCGGgaUCGGCGGCUu -3'
miRNA:   3'- uGCUCAGc--UAGuUCGUC--AGCCGUCGG- -5'
1434 3' -54.3 NC_001335.1 + 12125 0.68 0.619554
Target:  5'- gACGuGGUCGcUCAGGaUGGUCGGacgGGCCa -3'
miRNA:   3'- -UGC-UCAGCuAGUUC-GUCAGCCg--UCGG- -5'
1434 3' -54.3 NC_001335.1 + 14199 0.67 0.675057
Target:  5'- -aGGGUCuGAUCAGGC--UCGGCGuCCg -3'
miRNA:   3'- ugCUCAG-CUAGUUCGucAGCCGUcGG- -5'
1434 3' -54.3 NC_001335.1 + 17598 0.68 0.652904
Target:  5'- gGCGGGaUGGUCAGcGCAG-CGGUcaacaaGGCCa -3'
miRNA:   3'- -UGCUCaGCUAGUU-CGUCaGCCG------UCGG- -5'
1434 3' -54.3 NC_001335.1 + 18871 0.74 0.307402
Target:  5'- gACGGGUCGAaCcGGguGUCGGUcuuggucuuGGCCg -3'
miRNA:   3'- -UGCUCAGCUaGuUCguCAGCCG---------UCGG- -5'
1434 3' -54.3 NC_001335.1 + 21807 0.66 0.74438
Target:  5'- aACGAGUCGAUCAaccucgagcgccgugAGCGGaUCGaaGgAGaCCg -3'
miRNA:   3'- -UGCUCAGCUAGU---------------UCGUC-AGC--CgUC-GG- -5'
1434 3' -54.3 NC_001335.1 + 22866 0.66 0.729514
Target:  5'- gACGAccaacGUC-AUCuucuGGUAGUCGGUGGCUg -3'
miRNA:   3'- -UGCU-----CAGcUAGu---UCGUCAGCCGUCGG- -5'
1434 3' -54.3 NC_001335.1 + 24919 0.74 0.307402
Target:  5'- cCGuGcCgGAUCGAGCAGaaGGCAGCCg -3'
miRNA:   3'- uGCuCaG-CUAGUUCGUCagCCGUCGG- -5'
1434 3' -54.3 NC_001335.1 + 26623 0.74 0.306634
Target:  5'- cGCGAGUCGGUCGAGgAGcugaugcgacccaUCGGCaaguaGGCUg -3'
miRNA:   3'- -UGCUCAGCUAGUUCgUC-------------AGCCG-----UCGG- -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.