miRNA display CGI


Results 1 - 13 of 13 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
12419 5' -54.5 NC_003324.1 + 5760 1.08 0.001612
Target:  5'- uCGAGCGGGACCAUUACGGACGCUUCGu -3'
miRNA:   3'- -GCUCGCCCUGGUAAUGCCUGCGAAGC- -5'
12419 5' -54.5 NC_003324.1 + 37019 0.75 0.315588
Target:  5'- cCGAGCuGGACCucgacgACGGACGCUa-- -3'
miRNA:   3'- -GCUCGcCCUGGuaa---UGCCUGCGAagc -5'
12419 5' -54.5 NC_003324.1 + 20583 0.72 0.456427
Target:  5'- gCGAGCGGGAuCCggUGCuGugGCgccgUCGc -3'
miRNA:   3'- -GCUCGCCCU-GGuaAUGcCugCGa---AGC- -5'
12419 5' -54.5 NC_003324.1 + 3537 0.72 0.466315
Target:  5'- gGAGCGGaACCGgcugcaaACGG-CGCUUCGg -3'
miRNA:   3'- gCUCGCCcUGGUaa-----UGCCuGCGAAGC- -5'
12419 5' -54.5 NC_003324.1 + 7861 0.71 0.490485
Target:  5'- gGGGCGGcaguGACCGUUACccauuucggccuaugGGACGCaUCGa -3'
miRNA:   3'- gCUCGCC----CUGGUAAUG---------------CCUGCGaAGC- -5'
12419 5' -54.5 NC_003324.1 + 16442 0.71 0.506918
Target:  5'- aGAGCGGGGCUGUUGuCGGGCuUggCGg -3'
miRNA:   3'- gCUCGCCCUGGUAAU-GCCUGcGaaGC- -5'
12419 5' -54.5 NC_003324.1 + 57032 0.71 0.517307
Target:  5'- gGAGCGGcGGCgAgggcGCGGAUGcCUUCGa -3'
miRNA:   3'- gCUCGCC-CUGgUaa--UGCCUGC-GAAGC- -5'
12419 5' -54.5 NC_003324.1 + 49733 0.7 0.548952
Target:  5'- -aGGCGGGAUgGUUcaGCGGGCGCa--- -3'
miRNA:   3'- gcUCGCCCUGgUAA--UGCCUGCGaagc -5'
12419 5' -54.5 NC_003324.1 + 40311 0.7 0.567154
Target:  5'- uCGAGCGGGAgCCAgcaccgaagcCGGugaaguucgagaaGCGCUUCGu -3'
miRNA:   3'- -GCUCGCCCU-GGUaau-------GCC-------------UGCGAAGC- -5'
12419 5' -54.5 NC_003324.1 + 30273 0.68 0.657405
Target:  5'- --cGCGGaGCCGUUGCagaGGGCGuCUUCGa -3'
miRNA:   3'- gcuCGCCcUGGUAAUG---CCUGC-GAAGC- -5'
12419 5' -54.5 NC_003324.1 + 702 0.66 0.779377
Target:  5'- --uGUGGGuACCAUUGCGGGCaccgagcaaaaaaCUUCGg -3'
miRNA:   3'- gcuCGCCC-UGGUAAUGCCUGc------------GAAGC- -5'
12419 5' -54.5 NC_003324.1 + 11465 0.66 0.783322
Target:  5'- aCGcGCaGGGGCaCAUUGCGGucaagaGCGCcgUCGa -3'
miRNA:   3'- -GCuCG-CCCUG-GUAAUGCC------UGCGa-AGC- -5'
12419 5' -54.5 NC_003324.1 + 28483 0.66 0.808333
Target:  5'- aCGAGCGuGGccuuACCAUccuugauggcaacGCGGGCGCccUUCGg -3'
miRNA:   3'- -GCUCGC-CC----UGGUAa------------UGCCUGCG--AAGC- -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.