miRNA display CGI


Results 1 - 20 of 25 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
28499 5' -60.6 NC_005946.1 + 49545 0.66 0.605535
Target:  5'- cGUCGUGGUaCAUGGCCgccagccuggaGGAcgcuGCCCUGGu -3'
miRNA:   3'- uCGGCGCCG-GUAUCGG-----------UCU----CGGGAUC- -5'
28499 5' -60.6 NC_005946.1 + 43554 0.66 0.595262
Target:  5'- aGGCCGCguguGGCgCAgccGCCGGuGCCUUGa -3'
miRNA:   3'- -UCGGCG----CCG-GUau-CGGUCuCGGGAUc -5'
28499 5' -60.6 NC_005946.1 + 49514 0.66 0.594236
Target:  5'- aGGCCGUcugugacGGCCG-AGuCCAgGAGCCCg-- -3'
miRNA:   3'- -UCGGCG-------CCGGUaUC-GGU-CUCGGGauc -5'
28499 5' -60.6 NC_005946.1 + 102946 0.66 0.585015
Target:  5'- -aCCGCGGagGUcGCCAGGGCCUUc- -3'
miRNA:   3'- ucGGCGCCggUAuCGGUCUCGGGAuc -5'
28499 5' -60.6 NC_005946.1 + 47975 0.66 0.585015
Target:  5'- --aCGUGGCCuggAUGcaccucuuggcuGCCAGGGCCCUGu -3'
miRNA:   3'- ucgGCGCCGG---UAU------------CGGUCUCGGGAUc -5'
28499 5' -60.6 NC_005946.1 + 17726 0.66 0.568695
Target:  5'- gAGUCGUGGaggguaguggggguaCCGUGGCuCAG-GCCCUGu -3'
miRNA:   3'- -UCGGCGCC---------------GGUAUCG-GUCuCGGGAUc -5'
28499 5' -60.6 NC_005946.1 + 78473 0.66 0.564633
Target:  5'- cGGCCGagaugaGGCUccugaGGUCGGuGCCCUGGu -3'
miRNA:   3'- -UCGGCg-----CCGGua---UCGGUCuCGGGAUC- -5'
28499 5' -60.6 NC_005946.1 + 85061 0.66 0.544442
Target:  5'- aGGCUGCGgcagacGCCGUGGCaaAGAGCCUg-- -3'
miRNA:   3'- -UCGGCGC------CGGUAUCGg-UCUCGGGauc -5'
28499 5' -60.6 NC_005946.1 + 47802 0.66 0.544442
Target:  5'- uGGCCGCGGCgCcgGGCaugccuGCCCUcaAGa -3'
miRNA:   3'- -UCGGCGCCG-GuaUCGgucu--CGGGA--UC- -5'
28499 5' -60.6 NC_005946.1 + 69557 0.67 0.534433
Target:  5'- gGGCCGCGGCgGcGGCCcacucugggaaAGAGUCgaGGu -3'
miRNA:   3'- -UCGGCGCCGgUaUCGG-----------UCUCGGgaUC- -5'
28499 5' -60.6 NC_005946.1 + 23197 0.67 0.504824
Target:  5'- uGGCCGCaaagucGGCCAcggcAGCUcacgucggAGGGCCCUAc -3'
miRNA:   3'- -UCGGCG------CCGGUa---UCGG--------UCUCGGGAUc -5'
28499 5' -60.6 NC_005946.1 + 89978 0.67 0.495111
Target:  5'- uGCCgagGCGGUCGUGGCCAugGAGgCCg-- -3'
miRNA:   3'- uCGG---CGCCGGUAUCGGU--CUCgGGauc -5'
28499 5' -60.6 NC_005946.1 + 77316 0.67 0.485483
Target:  5'- cGGCCGgGGCCGUGguGCCgGGAGUCa--- -3'
miRNA:   3'- -UCGGCgCCGGUAU--CGG-UCUCGGgauc -5'
28499 5' -60.6 NC_005946.1 + 11516 0.69 0.412007
Target:  5'- aGGCCGCccuGGCguacacUGUGGCCAGAGCCg--- -3'
miRNA:   3'- -UCGGCG---CCG------GUAUCGGUCUCGGgauc -5'
28499 5' -60.6 NC_005946.1 + 12028 0.69 0.403313
Target:  5'- uGGCCGCaGCgGUAGa-AGAGCCCaGGg -3'
miRNA:   3'- -UCGGCGcCGgUAUCggUCUCGGGaUC- -5'
28499 5' -60.6 NC_005946.1 + 83707 0.69 0.386277
Target:  5'- uAGCgGCGGCUAcccucgGGCUGGcuGCCCUGGc -3'
miRNA:   3'- -UCGgCGCCGGUa-----UCGGUCu-CGGGAUC- -5'
28499 5' -60.6 NC_005946.1 + 41657 0.69 0.377939
Target:  5'- aGGCCGCcugaGCCAUGuCCAGGGCcucCCUGGu -3'
miRNA:   3'- -UCGGCGc---CGGUAUcGGUCUCG---GGAUC- -5'
28499 5' -60.6 NC_005946.1 + 84478 0.71 0.315701
Target:  5'- gGGCUaCGGCaagcaaAUcGCCAGAGCCCUGa -3'
miRNA:   3'- -UCGGcGCCGg-----UAuCGGUCUCGGGAUc -5'
28499 5' -60.6 NC_005946.1 + 26897 0.73 0.237386
Target:  5'- uAGCCgGCGGCCAcggaggcggcgUAcGCCAGGGCCggGGg -3'
miRNA:   3'- -UCGG-CGCCGGU-----------AU-CGGUCUCGGgaUC- -5'
28499 5' -60.6 NC_005946.1 + 32260 0.73 0.226035
Target:  5'- aGGCCGUGGCCAUgugugGGCUGGGGUCUUu- -3'
miRNA:   3'- -UCGGCGCCGGUA-----UCGGUCUCGGGAuc -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.