miRNA display CGI


Results 1 - 12 of 12 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
22100 3' -50.1 NC_004927.1 + 35886 0.66 0.972131
Target:  5'- uGAGcuGGAUGGGGugGU----UGGAAGCg -3'
miRNA:   3'- -CUC--UCUGCCCCugUAuuggACUUUCG- -5'
22100 3' -50.1 NC_004927.1 + 75424 0.66 0.968978
Target:  5'- cGGGGACGGgcacuucuguugGGGCuugaguGCCUGAAcGCa -3'
miRNA:   3'- cUCUCUGCC------------CCUGuau---UGGACUUuCG- -5'
22100 3' -50.1 NC_004927.1 + 346 0.66 0.961548
Target:  5'- cGAGAGACGGcccguauGGACG-GGCa-GggGGCg -3'
miRNA:   3'- -CUCUCUGCC-------CCUGUaUUGgaCuuUCG- -5'
22100 3' -50.1 NC_004927.1 + 75863 0.66 0.961548
Target:  5'- cGAGAGACGGcccguauGGACG-GGCa-GggGGCg -3'
miRNA:   3'- -CUCUCUGCC-------CCUGUaUUGgaCuuUCG- -5'
22100 3' -50.1 NC_004927.1 + 64916 0.67 0.953834
Target:  5'- cAGAGACGGacGGGCuUGACgaGGAuacGGCg -3'
miRNA:   3'- cUCUCUGCC--CCUGuAUUGgaCUU---UCG- -5'
22100 3' -50.1 NC_004927.1 + 21519 0.68 0.934354
Target:  5'- ---cGGCGGGaGugAUGACCUuggcGAAGGUg -3'
miRNA:   3'- cucuCUGCCC-CugUAUUGGA----CUUUCG- -5'
22100 3' -50.1 NC_004927.1 + 137 0.69 0.902943
Target:  5'- cGGGGGACaGGGGACGggGGCCgguuaGAacauuaagguagaGAGCg -3'
miRNA:   3'- -CUCUCUG-CCCCUGUa-UUGGa----CU-------------UUCG- -5'
22100 3' -50.1 NC_004927.1 + 75654 0.69 0.902943
Target:  5'- cGGGGGACaGGGGACGggGGCCgguuaGAacauuaagguagaGAGCg -3'
miRNA:   3'- -CUCUCUG-CCCCUGUa-UUGGa----CU-------------UUCG- -5'
22100 3' -50.1 NC_004927.1 + 267 0.69 0.896639
Target:  5'- cGAGAGACGGGcaggggagaGACGgacgGGCa-GggGGCa -3'
miRNA:   3'- -CUCUCUGCCC---------CUGUa---UUGgaCuuUCG- -5'
22100 3' -50.1 NC_004927.1 + 75784 0.69 0.896639
Target:  5'- cGAGAGACGGGcaggggagaGACGgacgGGCa-GggGGCa -3'
miRNA:   3'- -CUCUCUGCCC---------CUGUa---UUGgaCuuUCG- -5'
22100 3' -50.1 NC_004927.1 + 13174 0.71 0.783209
Target:  5'- cGGGGGACGGcccGGACuUAACCaGAAcGCg -3'
miRNA:   3'- -CUCUCUGCC---CCUGuAUUGGaCUUuCG- -5'
22100 3' -50.1 NC_004927.1 + 439 0.77 0.479431
Target:  5'- gGAGAGACGGGGAgAgacggacggAACCgGAGAGa -3'
miRNA:   3'- -CUCUCUGCCCCUgUa--------UUGGaCUUUCg -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.