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
2072 5' -57.6 NC_001348.1 + 121615 0.65 0.82979
Target:  5'- gCCCUGCCGgGAagaucccacgcaCCAGA--CCCGAUu -3'
miRNA:   3'- -GGGACGGCgCUa-----------GGUCUugGGGCUAu -5'
2072 5' -57.6 NC_001348.1 + 108177 0.65 0.82979
Target:  5'- gCCCUGCCGgGAagaucccacgcaCCAGA--CCCGAUu -3'
miRNA:   3'- -GGGACGGCgCUa-----------GGUCUugGGGCUAu -5'
2072 5' -57.6 NC_001348.1 + 106518 0.66 0.805621
Target:  5'- aUCUGCCGC-AUCCAGGcgcACCuCCGu-- -3'
miRNA:   3'- gGGACGGCGcUAGGUCU---UGG-GGCuau -5'
2072 5' -57.6 NC_001348.1 + 123274 0.66 0.805621
Target:  5'- aUCUGCCGC-AUCCAGGcgcACCuCCGu-- -3'
miRNA:   3'- gGGACGGCGcUAGGUCU---UGG-GGCuau -5'
2072 5' -57.6 NC_001348.1 + 124005 0.67 0.740225
Target:  5'- -gCUGCCcCGAgccCCAG-ACCCCGAg- -3'
miRNA:   3'- ggGACGGcGCUa--GGUCuUGGGGCUau -5'
2072 5' -57.6 NC_001348.1 + 110573 0.68 0.690499
Target:  5'- cCCCUgaacgGCCGgGAuacgUCgCGGGGCCCCGGc- -3'
miRNA:   3'- -GGGA-----CGGCgCU----AG-GUCUUGGGGCUau -5'
2072 5' -57.6 NC_001348.1 + 119219 0.68 0.690499
Target:  5'- cCCCUgaacgGCCGgGAuacgUCgCGGGGCCCCGGc- -3'
miRNA:   3'- -GGGA-----CGGCgCU----AG-GUCUUGGGGCUau -5'
2072 5' -57.6 NC_001348.1 + 69905 0.69 0.649786
Target:  5'- uUCCgcaaagGUCGCGAUCCAccgcCCCCGAUc -3'
miRNA:   3'- -GGGa-----CGGCGCUAGGUcuu-GGGGCUAu -5'
2072 5' -57.6 NC_001348.1 + 103945 0.69 0.649786
Target:  5'- aCCUGCUGUucGAU-CGGcGCCCCGGUGg -3'
miRNA:   3'- gGGACGGCG--CUAgGUCuUGGGGCUAU- -5'
2072 5' -57.6 NC_001348.1 + 73336 0.71 0.508635
Target:  5'- uUCCgggggacGCUGCGGUCCGGGAaggucuacgucCCCCGGUGc -3'
miRNA:   3'- -GGGa------CGGCGCUAGGUCUU-----------GGGGCUAU- -5'
2072 5' -57.6 NC_001348.1 + 42554 0.78 0.198056
Target:  5'- uCCCUGuuGCGGuuguugUCCAGAagACCCCGAc- -3'
miRNA:   3'- -GGGACggCGCU------AGGUCU--UGGGGCUau -5'
2072 5' -57.6 NC_001348.1 + 121974 1.08 0.001888
Target:  5'- uCCCUGCCGCGAUCCAGAACCCCGAUAa -3'
miRNA:   3'- -GGGACGGCGCUAGGUCUUGGGGCUAU- -5'
2072 5' -57.6 NC_001348.1 + 107818 1.08 0.001888
Target:  5'- uCCCUGCCGCGAUCCAGAACCCCGAUAa -3'
miRNA:   3'- -GGGACGGCGCUAGGUCUUGGGGCUAU- -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.