miRNA display CGI


Results 1 - 11 of 11 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
20725 3' -53.7 NC_004688.1 + 98604 0.66 0.917685
Target:  5'- --cGUACccgauGCCGGGcUGCUGCUCg -3'
miRNA:   3'- ggcCAUGauuu-CGGUCCaGCGACGAG- -5'
20725 3' -53.7 NC_004688.1 + 42025 0.67 0.904631
Target:  5'- aCCGGUcCUGAucgcauaGGCCGGG-CGCccgGcCUCg -3'
miRNA:   3'- -GGCCAuGAUU-------UCGGUCCaGCGa--C-GAG- -5'
20725 3' -53.7 NC_004688.1 + 101059 0.67 0.877452
Target:  5'- cCCGGaugucGCUcuuaucgagggAGGGCCGGGUCGUUuaUCg -3'
miRNA:   3'- -GGCCa----UGA-----------UUUCGGUCCAGCGAcgAG- -5'
20725 3' -53.7 NC_004688.1 + 79390 0.67 0.875959
Target:  5'- gCGG-GC-GAGGCCGGGguggaccaggaGCUGCUCg -3'
miRNA:   3'- gGCCaUGaUUUCGGUCCag---------CGACGAG- -5'
20725 3' -53.7 NC_004688.1 + 93688 0.67 0.869892
Target:  5'- gUCGGUuuc--GGCUAGG-CGCUGCUUu -3'
miRNA:   3'- -GGCCAugauuUCGGUCCaGCGACGAG- -5'
20725 3' -53.7 NC_004688.1 + 23866 0.68 0.862101
Target:  5'- -gGGUcuucaACUcuucgGAGGUCAGGUCGCUGaUCa -3'
miRNA:   3'- ggCCA-----UGA-----UUUCGGUCCAGCGACgAG- -5'
20725 3' -53.7 NC_004688.1 + 93427 0.68 0.845852
Target:  5'- gCCGGgugaAC-GAAGUCGGGUgCGgUGCUCc -3'
miRNA:   3'- -GGCCa---UGaUUUCGGUCCA-GCgACGAG- -5'
20725 3' -53.7 NC_004688.1 + 33784 0.68 0.828765
Target:  5'- aCGauGUGCU--GGCCGGuGUCGUUGCUg -3'
miRNA:   3'- gGC--CAUGAuuUCGGUC-CAGCGACGAg -5'
20725 3' -53.7 NC_004688.1 + 99932 0.69 0.810904
Target:  5'- uCUGGUGCUucu-CCAGGgCGCUGC-Cg -3'
miRNA:   3'- -GGCCAUGAuuucGGUCCaGCGACGaG- -5'
20725 3' -53.7 NC_004688.1 + 82274 0.69 0.781862
Target:  5'- gCGGUGCagGAAGUCcuggaagaacgggAGGUC-CUGCUCg -3'
miRNA:   3'- gGCCAUGa-UUUCGG-------------UCCAGcGACGAG- -5'
20725 3' -53.7 NC_004688.1 + 60372 0.7 0.742371
Target:  5'- uCCGGgaAUUGGGGCCcgagggcAGGUCGCUuCUCa -3'
miRNA:   3'- -GGCCa-UGAUUUCGG-------UCCAGCGAcGAG- -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.