miRNA display CGI


Results 1 - 20 of 35 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
20477 3' -61.4 NC_004688.1 + 2066 0.72 0.316211
Target:  5'- cCCGAAGCCGGcGAUCuuccCACUGgUCCGGa -3'
miRNA:   3'- -GGCUUCGGCC-CUGGcc--GUGGC-AGGCC- -5'
20477 3' -61.4 NC_004688.1 + 6321 0.67 0.571359
Target:  5'- aCCcAGGCCGGGGuuGGCcAUCGcCCa- -3'
miRNA:   3'- -GGcUUCGGCCCUggCCG-UGGCaGGcc -5'
20477 3' -61.4 NC_004688.1 + 8470 0.66 0.659512
Target:  5'- gCCGAguucGGCUGGGGuuCUuGCGCCGguucuUCCGGc -3'
miRNA:   3'- -GGCU----UCGGCCCU--GGcCGUGGC-----AGGCC- -5'
20477 3' -61.4 NC_004688.1 + 17430 0.69 0.477192
Target:  5'- aCGAAGUCGGGugCGGUGCUccaggCGGa -3'
miRNA:   3'- gGCUUCGGCCCugGCCGUGGcag--GCC- -5'
20477 3' -61.4 NC_004688.1 + 18215 0.67 0.610413
Target:  5'- gCCGguGauGGGGCCcguGGCGCCGgugCCGa -3'
miRNA:   3'- -GGCuuCggCCCUGG---CCGUGGCa--GGCc -5'
20477 3' -61.4 NC_004688.1 + 18454 0.69 0.459251
Target:  5'- gCgGAAGCggcaacCGGGaACCGGCACCucgGUgCGGa -3'
miRNA:   3'- -GgCUUCG------GCCC-UGGCCGUGG---CAgGCC- -5'
20477 3' -61.4 NC_004688.1 + 18874 0.66 0.630055
Target:  5'- gCCGGucuGGUaCGGGugUGGCAcgcCCGUCUGu -3'
miRNA:   3'- -GGCU---UCG-GCCCugGCCGU---GGCAGGCc -5'
20477 3' -61.4 NC_004688.1 + 20022 0.74 0.24108
Target:  5'- aCGAAGCCggcgGGGAUgaugggGGCGCCGUCgGGg -3'
miRNA:   3'- gGCUUCGG----CCCUGg-----CCGUGGCAGgCC- -5'
20477 3' -61.4 NC_004688.1 + 24218 0.66 0.630055
Target:  5'- uCCGucgcGCCcgugGGGACCGuuGCCGgugcCCGGg -3'
miRNA:   3'- -GGCuu--CGG----CCCUGGCcgUGGCa---GGCC- -5'
20477 3' -61.4 NC_004688.1 + 25429 0.66 0.659512
Target:  5'- gCCGAAcgcGCCGGGGCCGcugaauccaGCuACgGgcgugCCGGu -3'
miRNA:   3'- -GGCUU---CGGCCCUGGC---------CG-UGgCa----GGCC- -5'
20477 3' -61.4 NC_004688.1 + 25746 0.68 0.514064
Target:  5'- uUCGccccGCCGGGGCCgccuugGGgGCCG-CCGGa -3'
miRNA:   3'- -GGCuu--CGGCCCUGG------CCgUGGCaGGCC- -5'
20477 3' -61.4 NC_004688.1 + 26094 0.68 0.513127
Target:  5'- gCCGAacaGGCCGGGuagaccaccgccaGCC-GCACCGcCCGc -3'
miRNA:   3'- -GGCU---UCGGCCC-------------UGGcCGUGGCaGGCc -5'
20477 3' -61.4 NC_004688.1 + 26393 0.74 0.252483
Target:  5'- gCCGAGGCCGccggagcugccGGACCGGCcAUCG-CCGa -3'
miRNA:   3'- -GGCUUCGGC-----------CCUGGCCG-UGGCaGGCc -5'
20477 3' -61.4 NC_004688.1 + 27003 0.67 0.610413
Target:  5'- uCCGugaccCCGGGcCaCGGCGCCaGUCCGc -3'
miRNA:   3'- -GGCuuc--GGCCCuG-GCCGUGG-CAGGCc -5'
20477 3' -61.4 NC_004688.1 + 27654 0.66 0.630055
Target:  5'- aUCGAAGCCGa-GCCGGauaGCgGUCgGGc -3'
miRNA:   3'- -GGCUUCGGCccUGGCCg--UGgCAGgCC- -5'
20477 3' -61.4 NC_004688.1 + 28395 0.68 0.514064
Target:  5'- -gGAAGCCGGG-CUGGuCGCCGaagUUGGu -3'
miRNA:   3'- ggCUUCGGCCCuGGCC-GUGGCa--GGCC- -5'
20477 3' -61.4 NC_004688.1 + 28425 0.73 0.302555
Target:  5'- aCGu-GCCGGGGCCGuacacCACCagGUCCGGg -3'
miRNA:   3'- gGCuuCGGCCCUGGCc----GUGG--CAGGCC- -5'
20477 3' -61.4 NC_004688.1 + 28476 0.66 0.649703
Target:  5'- -gGggGCCGaacucgaucgucGGAUUGGCGCCGggcCCGu -3'
miRNA:   3'- ggCuuCGGC------------CCUGGCCGUGGCa--GGCc -5'
20477 3' -61.4 NC_004688.1 + 28736 0.66 0.6389
Target:  5'- aUCGAGGCCgcgcgcaGGGACCGGCuuUGaCCa- -3'
miRNA:   3'- -GGCUUCGG-------CCCUGGCCGugGCaGGcc -5'
20477 3' -61.4 NC_004688.1 + 30901 0.66 0.639882
Target:  5'- aCCGggGUCaccaccggguugGGGGUgGGCAgcggaUCGUCCGGg -3'
miRNA:   3'- -GGCuuCGG------------CCCUGgCCGU-----GGCAGGCC- -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.