miRNA display CGI


Results 1 - 16 of 16 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
19713 3' -59.1 NC_004686.1 + 46050 0.66 0.535482
Target:  5'- cGCGCCGAGc----CGCCCcaAGGCgGCGu -3'
miRNA:   3'- cUGCGGCUCaaguaGCGGG--UCCG-CGC- -5'
19713 3' -59.1 NC_004686.1 + 29318 0.66 0.535482
Target:  5'- -uCGUCGAGggUAUUGCgggCAGGCGUGa -3'
miRNA:   3'- cuGCGGCUCaaGUAGCGg--GUCCGCGC- -5'
19713 3' -59.1 NC_004686.1 + 4668 0.66 0.535482
Target:  5'- cGACGaaGAGacucUCAcUGCCCAGGCGa- -3'
miRNA:   3'- -CUGCggCUCa---AGUaGCGGGUCCGCgc -5'
19713 3' -59.1 NC_004686.1 + 17742 0.66 0.525148
Target:  5'- uGGCGCagGAGUUCA-CGCCgaAGGUGUu -3'
miRNA:   3'- -CUGCGg-CUCAAGUaGCGGg-UCCGCGc -5'
19713 3' -59.1 NC_004686.1 + 51036 0.66 0.494628
Target:  5'- gGACGCCGAGUugacgagacUCGUCaGCCCAcuugacuuccuGGCu-- -3'
miRNA:   3'- -CUGCGGCUCA---------AGUAG-CGGGU-----------CCGcgc -5'
19713 3' -59.1 NC_004686.1 + 31210 0.67 0.484634
Target:  5'- --gGCCG---UCGUCGCUgCGGGCGCGc -3'
miRNA:   3'- cugCGGCucaAGUAGCGG-GUCCGCGC- -5'
19713 3' -59.1 NC_004686.1 + 49210 0.67 0.478683
Target:  5'- ---cCCGAGUUgAUCGCcgaaguugagcgucuCCGGGCGCa -3'
miRNA:   3'- cugcGGCUCAAgUAGCG---------------GGUCCGCGc -5'
19713 3' -59.1 NC_004686.1 + 10629 0.67 0.455253
Target:  5'- cACaCCGGGUUCGcUCGCCCAauGCGCc -3'
miRNA:   3'- cUGcGGCUCAAGU-AGCGGGUc-CGCGc -5'
19713 3' -59.1 NC_004686.1 + 12062 0.68 0.408528
Target:  5'- gGGCGCCGAGgcgaUCAacggucugaUCGaCCAGGCGg- -3'
miRNA:   3'- -CUGCGGCUCa---AGU---------AGCgGGUCCGCgc -5'
19713 3' -59.1 NC_004686.1 + 38399 0.68 0.390694
Target:  5'- cGAUGCCGcuGcUCAUCGCCgCGGGCa-- -3'
miRNA:   3'- -CUGCGGCu-CaAGUAGCGG-GUCCGcgc -5'
19713 3' -59.1 NC_004686.1 + 12450 0.69 0.364915
Target:  5'- cGACGCCGAuGgcgCGgcgGCCCAGGuUGCGu -3'
miRNA:   3'- -CUGCGGCU-Caa-GUag-CGGGUCC-GCGC- -5'
19713 3' -59.1 NC_004686.1 + 28290 0.69 0.364915
Target:  5'- cACGCgGuGUcUCAUCGUUCGGGUGUGg -3'
miRNA:   3'- cUGCGgCuCA-AGUAGCGGGUCCGCGC- -5'
19713 3' -59.1 NC_004686.1 + 30103 0.69 0.340335
Target:  5'- cGugGCCgGAGUUCugcCaCCCAGGCaGCGu -3'
miRNA:   3'- -CugCGG-CUCAAGua-GcGGGUCCG-CGC- -5'
19713 3' -59.1 NC_004686.1 + 29465 0.7 0.324627
Target:  5'- cGAUGCCGAGUUUcUCGCCgAucacGGCGaCa -3'
miRNA:   3'- -CUGCGGCUCAAGuAGCGGgU----CCGC-Gc -5'
19713 3' -59.1 NC_004686.1 + 36278 0.91 0.010257
Target:  5'- aAUGCCGAGUUaGUCGCCCAGGCGCGc -3'
miRNA:   3'- cUGCGGCUCAAgUAGCGGGUCCGCGC- -5'
19713 3' -59.1 NC_004686.1 + 49173 1.07 0.000612
Target:  5'- gGACGCCGAGUUCAUCGCCCAGGCGCGc -3'
miRNA:   3'- -CUGCGGCUCAAGUAGCGGGUCCGCGC- -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.