miRNA display CGI


Results 21 - 35 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 + 26094 0.68 0.513127
Target:  5'- gCCGAacaGGCCGGGuagaccaccgccaGCC-GCACCGcCCGc -3'
miRNA:   3'- -GGCU---UCGGCCC-------------UGGcCGUGGCaGGCc -5'
20477 3' -61.4 NC_004688.1 + 44373 0.69 0.504731
Target:  5'- gCCGAccucGGUCuccuugacccaGGGuuCGGCACCGaCCGGg -3'
miRNA:   3'- -GGCU----UCGG-----------CCCugGCCGUGGCaGGCC- -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 + 40250 0.69 0.477192
Target:  5'- -aGAGGUagaacaGGGGCCGGC-CCGUCagaaguCGGg -3'
miRNA:   3'- ggCUUCGg-----CCCUGGCCGuGGCAG------GCC- -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 + 85893 0.7 0.441676
Target:  5'- aCCGGAGCguUGGGACCGaGC-CCc-CCGGu -3'
miRNA:   3'- -GGCUUCG--GCCCUGGC-CGuGGcaGGCC- -5'
20477 3' -61.4 NC_004688.1 + 89799 0.7 0.424487
Target:  5'- gCGAuGUCGGGGCC-GCGCCaG-CCGGg -3'
miRNA:   3'- gGCUuCGGCCCUGGcCGUGG-CaGGCC- -5'
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 + 28425 0.73 0.302555
Target:  5'- aCGu-GCCGGGGCCGuacacCACCagGUCCGGg -3'
miRNA:   3'- gGCuuCGGCCCUGGCc----GUGG--CAGGCC- -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 + 20022 0.74 0.24108
Target:  5'- aCGAAGCCggcgGGGAUgaugggGGCGCCGUCgGGg -3'
miRNA:   3'- gGCUUCGG----CCCUGg-----CCGUGGCAGgCC- -5'
20477 3' -61.4 NC_004688.1 + 82907 0.75 0.211427
Target:  5'- aCCGAgguaGGCgGGGACCGGCcaguggccuauugucACCGUCUccuGGg -3'
miRNA:   3'- -GGCU----UCGgCCCUGGCCG---------------UGGCAGG---CC- -5'
20477 3' -61.4 NC_004688.1 + 50865 0.76 0.181434
Target:  5'- aCGcAGGCC--GACCGGCGCCGUaCCGGg -3'
miRNA:   3'- gGC-UUCGGccCUGGCCGUGGCA-GGCC- -5'
20477 3' -61.4 NC_004688.1 + 44255 0.78 0.135232
Target:  5'- uCCGGccgcaagcAGUCGGGGCCGGCgauGCCG-CCGGu -3'
miRNA:   3'- -GGCU--------UCGGCCCUGGCCG---UGGCaGGCC- -5'
20477 3' -61.4 NC_004688.1 + 43861 1.1 0.000733
Target:  5'- cCCGAAGCCGGGACCGGCACCGUCCGGc -3'
miRNA:   3'- -GGCUUCGGCCCUGGCCGUGGCAGGCC- -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.