miRNA display CGI


Results 1 - 20 of 27 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
12029 5' -57.9 NC_003278.1 + 21741 0.66 0.464703
Target:  5'- -aUGGCCUg--CGCcGggGCGCUggcgCCg -3'
miRNA:   3'- agACCGGGucaGCGcCuuCGCGAa---GG- -5'
12029 5' -57.9 NC_003278.1 + 3392 0.66 0.464703
Target:  5'- --aGGUCCG---GCGGuAGCGCUUCUg -3'
miRNA:   3'- agaCCGGGUcagCGCCuUCGCGAAGG- -5'
12029 5' -57.9 NC_003278.1 + 21459 0.66 0.464703
Target:  5'- cCUGGCCCAGg-GCcucGGCGCcggCCa -3'
miRNA:   3'- aGACCGGGUCagCGccuUCGCGaa-GG- -5'
12029 5' -57.9 NC_003278.1 + 5114 0.66 0.454612
Target:  5'- aCUGGCuggCCAGUUGCuGGGucUGCUUCUu -3'
miRNA:   3'- aGACCG---GGUCAGCG-CCUucGCGAAGG- -5'
12029 5' -57.9 NC_003278.1 + 29764 0.66 0.444641
Target:  5'- cCUGGCCUuccucGUCcgccCGGccGAGCaGCUUCCa -3'
miRNA:   3'- aGACCGGGu----CAGc---GCC--UUCG-CGAAGG- -5'
12029 5' -57.9 NC_003278.1 + 14640 0.66 0.434794
Target:  5'- --cGGCCUGGUCgGCGGuGGCGauuugUCUg -3'
miRNA:   3'- agaCCGGGUCAG-CGCCuUCGCga---AGG- -5'
12029 5' -57.9 NC_003278.1 + 21045 0.66 0.434794
Target:  5'- cCUGGCaauugCCGccGUCGUGGcGGUGCUggCCg -3'
miRNA:   3'- aGACCG-----GGU--CAGCGCCuUCGCGAa-GG- -5'
12029 5' -57.9 NC_003278.1 + 10648 0.67 0.396711
Target:  5'- -gUGGCUCAuaggcgcugcGUCGgGGuuGCGCUgugCCa -3'
miRNA:   3'- agACCGGGU----------CAGCgCCuuCGCGAa--GG- -5'
12029 5' -57.9 NC_003278.1 + 28236 0.67 0.396711
Target:  5'- cCUGGCCCAugccCGCGGcuucgaccuGGCGCUgaUCg -3'
miRNA:   3'- aGACCGGGUca--GCGCCu--------UCGCGA--AGg -5'
12029 5' -57.9 NC_003278.1 + 34257 0.67 0.369595
Target:  5'- -aUGGCCUcgcuGaCGCGGggGcCGCU-CCa -3'
miRNA:   3'- agACCGGGu---CaGCGCCuuC-GCGAaGG- -5'
12029 5' -57.9 NC_003278.1 + 30876 0.68 0.360842
Target:  5'- cUCUGGCCgCuGUCGCgcuGGGcgaucggcagcaGGCGUUUCa -3'
miRNA:   3'- -AGACCGG-GuCAGCG---CCU------------UCGCGAAGg -5'
12029 5' -57.9 NC_003278.1 + 2687 0.68 0.360842
Target:  5'- cCUGGCCCAGgCGCuGAuG-GCUaUCCg -3'
miRNA:   3'- aGACCGGGUCaGCGcCUuCgCGA-AGG- -5'
12029 5' -57.9 NC_003278.1 + 29580 0.68 0.342937
Target:  5'- uUCUGGUUCGGcucgcuguUCGCGGAGcagauccGCGCcgagUUCCa -3'
miRNA:   3'- -AGACCGGGUC--------AGCGCCUU-------CGCG----AAGG- -5'
12029 5' -57.9 NC_003278.1 + 2925 0.68 0.327296
Target:  5'- ---cGCCCGGUacCGcCGGAGGCGCcaCCa -3'
miRNA:   3'- agacCGGGUCA--GC-GCCUUCGCGaaGG- -5'
12029 5' -57.9 NC_003278.1 + 2996 0.68 0.327296
Target:  5'- --gGGUCUGGUgGUGGuGGCGCcUCCg -3'
miRNA:   3'- agaCCGGGUCAgCGCCuUCGCGaAGG- -5'
12029 5' -57.9 NC_003278.1 + 13274 0.68 0.319279
Target:  5'- -aUGGCCagcaGGUcCGCcGggGCGCUgCCg -3'
miRNA:   3'- agACCGGg---UCA-GCGcCuuCGCGAaGG- -5'
12029 5' -57.9 NC_003278.1 + 18267 0.69 0.281413
Target:  5'- gCUGGCCCGcaaGaUGGAGGC-CUUCCg -3'
miRNA:   3'- aGACCGGGUcagC-GCCUUCGcGAAGG- -5'
12029 5' -57.9 NC_003278.1 + 31788 0.7 0.267295
Target:  5'- --cGGCCaggcgcucgaAGUCGCGGAGGCcgGCcgggUCCa -3'
miRNA:   3'- agaCCGGg---------UCAGCGCCUUCG--CGa---AGG- -5'
12029 5' -57.9 NC_003278.1 + 19636 0.7 0.253755
Target:  5'- gCUGGCCgaGGUUGCGG--GUGCUgagCCg -3'
miRNA:   3'- aGACCGGg-UCAGCGCCuuCGCGAa--GG- -5'
12029 5' -57.9 NC_003278.1 + 26674 0.7 0.247199
Target:  5'- --aGGCCCAGgcggGCGGcGGCGCauucgcgUCCg -3'
miRNA:   3'- agaCCGGGUCag--CGCCuUCGCGa------AGG- -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.