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
2226 3' -56.5 NC_001405.1 + 13981 0.66 0.536156
Target:  5'- aGACCCcgcugacggucGUGCcuuugacgacggguGGGCGgGCGCggGCCGg -3'
miRNA:   3'- gUUGGG-----------UAUG--------------CUCGCgCGCGaaCGGC- -5'
2226 3' -56.5 NC_001405.1 + 17841 0.66 0.496267
Target:  5'- -cGCgCAUGCGAcgguGCGaCGCGCgccGCCGc -3'
miRNA:   3'- guUGgGUAUGCU----CGC-GCGCGaa-CGGC- -5'
2226 3' -56.5 NC_001405.1 + 18077 0.67 0.464936
Target:  5'- --uCCCAUgaACGGGCGCGaGCcgUGUCGc -3'
miRNA:   3'- guuGGGUA--UGCUCGCGCgCGa-ACGGC- -5'
2226 3' -56.5 NC_001405.1 + 15168 0.68 0.415131
Target:  5'- ---gCCAcACGGGCggaggagaaGCGCGCUgagGCCGa -3'
miRNA:   3'- guugGGUaUGCUCG---------CGCGCGAa--CGGC- -5'
2226 3' -56.5 NC_001405.1 + 16290 0.69 0.359019
Target:  5'- uCGGCCgGUGCGAcGUGCGCGgUUaagcaggGCCGc -3'
miRNA:   3'- -GUUGGgUAUGCU-CGCGCGCgAA-------CGGC- -5'
2226 3' -56.5 NC_001405.1 + 23302 0.69 0.334266
Target:  5'- gAGCCC--ACGGGCuGCGCGUUgugGCUGc -3'
miRNA:   3'- gUUGGGuaUGCUCG-CGCGCGAa--CGGC- -5'
2226 3' -56.5 NC_001405.1 + 12257 0.7 0.309999
Target:  5'- -cGCCgCcgACGuugccAGCGCGCGCgggUGCCa -3'
miRNA:   3'- guUGG-GuaUGC-----UCGCGCGCGa--ACGGc -5'
2226 3' -56.5 NC_001405.1 + 3702 0.71 0.265548
Target:  5'- cCGGCCCAUGgGGGCaUGCGCgUUGUCa -3'
miRNA:   3'- -GUUGGGUAUgCUCGcGCGCG-AACGGc -5'
2226 3' -56.5 NC_001405.1 + 5454 0.72 0.232569
Target:  5'- cCAGCCCcuccgcgGCGuggcccuuGGCGCGCaGCUUGCCc -3'
miRNA:   3'- -GUUGGGua-----UGC--------UCGCGCG-CGAACGGc -5'
2226 3' -56.5 NC_001405.1 + 12313 0.72 0.220374
Target:  5'- gGACCCggcgGUGCGGGCG-GCGCUgcagaGCCa -3'
miRNA:   3'- gUUGGG----UAUGCUCGCgCGCGAa----CGGc -5'
2226 3' -56.5 NC_001405.1 + 6702 1.07 0.000553
Target:  5'- uCAACCCAUACGAGCGCGCGCUUGCCGc -3'
miRNA:   3'- -GUUGGGUAUGCUCGCGCGCGAACGGC- -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.