miRNA display CGI


Results 1 - 7 of 7 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
13068 5' -56.8 NC_003390.1 + 40547 0.66 0.631283
Target:  5'- aUCUCauCACCGGC-AACGguguaaagaaAGAcCCGCCCc -3'
miRNA:   3'- aAGAG--GUGGCUGcUUGC----------UCU-GGCGGG- -5'
13068 5' -56.8 NC_003390.1 + 27005 0.66 0.631283
Target:  5'- gUCaaggCCGCCGA----UGAGGCCGCCa -3'
miRNA:   3'- aAGa---GGUGGCUgcuuGCUCUGGCGGg -5'
13068 5' -56.8 NC_003390.1 + 28654 0.66 0.6094
Target:  5'- gUCUCUACCacccggagcuguGACGcccaucuUGGGGCCGUCCu -3'
miRNA:   3'- aAGAGGUGG------------CUGCuu-----GCUCUGGCGGG- -5'
13068 5' -56.8 NC_003390.1 + 11296 0.66 0.576744
Target:  5'- ----gCGCCGA-GGACGuGGCCGCCa -3'
miRNA:   3'- aagagGUGGCUgCUUGCuCUGGCGGg -5'
13068 5' -56.8 NC_003390.1 + 18869 0.67 0.555185
Target:  5'- aUCUCgGCgGGCGGAC-AGGCUGUCa -3'
miRNA:   3'- aAGAGgUGgCUGCUUGcUCUGGCGGg -5'
13068 5' -56.8 NC_003390.1 + 1971 0.69 0.432668
Target:  5'- cUUCUgaGCCuAUGAACGAGACCgaaucaucGCCCg -3'
miRNA:   3'- -AAGAggUGGcUGCUUGCUCUGG--------CGGG- -5'
13068 5' -56.8 NC_003390.1 + 24385 1.1 0.000569
Target:  5'- cUUCUCCACCGACGAACGAGACCGCCCg -3'
miRNA:   3'- -AAGAGGUGGCUGCUUGCUCUGGCGGG- -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.