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
13043 5' -61.7 NC_003390.1 + 3802 0.66 0.346785
Target:  5'- aGGCuGuCCCugAGGUGUUCGcuGGUCCCg -3'
miRNA:   3'- aCCG-CuGGG--UCCACGAGUu-CCGGGGg -5'
13043 5' -61.7 NC_003390.1 + 38083 0.67 0.311002
Target:  5'- aGGUGAUCCAgguaacgacGGUGCUgauggggcuaccgggCcugAAGGUCCCCa -3'
miRNA:   3'- aCCGCUGGGU---------CCACGA---------------G---UUCCGGGGG- -5'
13043 5' -61.7 NC_003390.1 + 11364 0.67 0.293476
Target:  5'- aUGGCGGCCaCGuccucGGcGCUCAu-GUCCCCa -3'
miRNA:   3'- -ACCGCUGG-GU-----CCaCGAGUucCGGGGG- -5'
13043 5' -61.7 NC_003390.1 + 14851 0.68 0.265996
Target:  5'- gGGCuGACCUccugcGGUccGCUCcuuAGGCUCCCa -3'
miRNA:   3'- aCCG-CUGGGu----CCA--CGAGu--UCCGGGGG- -5'
13043 5' -61.7 NC_003390.1 + 25507 0.68 0.265996
Target:  5'- aGGCGACCUGaucgucGGUaaGCUCGcuauGGGCUCCg -3'
miRNA:   3'- aCCGCUGGGU------CCA--CGAGU----UCCGGGGg -5'
13043 5' -61.7 NC_003390.1 + 38402 0.68 0.246781
Target:  5'- uUGGCccccaaGGCCCAGaagGCccUCAAGGUCUCCa -3'
miRNA:   3'- -ACCG------CUGGGUCca-CG--AGUUCCGGGGG- -5'
13043 5' -61.7 NC_003390.1 + 38020 0.69 0.222966
Target:  5'- aGGUaACCCAGGUGCUgAuGGCgCUg -3'
miRNA:   3'- aCCGcUGGGUCCACGAgUuCCGgGGg -5'
13043 5' -61.7 NC_003390.1 + 7714 0.7 0.195974
Target:  5'- aGG-GACCCGGa-GCUCucGGGCCCUCu -3'
miRNA:   3'- aCCgCUGGGUCcaCGAGu-UCCGGGGG- -5'
13043 5' -61.7 NC_003390.1 + 9217 0.71 0.167392
Target:  5'- aUGGCGAgaCCGGcucuagagGCuUCAAGGCCCCUc -3'
miRNA:   3'- -ACCGCUg-GGUCca------CG-AGUUCCGGGGG- -5'
13043 5' -61.7 NC_003390.1 + 38329 0.71 0.167392
Target:  5'- gGGUGAgCaGGG-GCUaCAAGGCCCUCa -3'
miRNA:   3'- aCCGCUgGgUCCaCGA-GUUCCGGGGG- -5'
13043 5' -61.7 NC_003390.1 + 6526 0.71 0.154548
Target:  5'- gGGCGAUCCAugucgcGGaUGCUCA--GCCCCUg -3'
miRNA:   3'- aCCGCUGGGU------CC-ACGAGUucCGGGGG- -5'
13043 5' -61.7 NC_003390.1 + 38365 0.71 0.150469
Target:  5'- aGGUGAuacuggccCCCAGGgucCUCAAGGCCUgCa -3'
miRNA:   3'- aCCGCU--------GGGUCCac-GAGUUCCGGGgG- -5'
13043 5' -61.7 NC_003390.1 + 43842 0.72 0.131509
Target:  5'- aGGCaGCCUGGGaugaGCUCGAGGCUCgCCu -3'
miRNA:   3'- aCCGcUGGGUCCa---CGAGUUCCGGG-GG- -5'
13043 5' -61.7 NC_003390.1 + 38155 0.74 0.094668
Target:  5'- aGGUGACaCAGGUGaugcuGGCCCCCa -3'
miRNA:   3'- aCCGCUGgGUCCACgaguuCCGGGGG- -5'
13043 5' -61.7 NC_003390.1 + 37930 0.77 0.054069
Target:  5'- aGGCaACCCGGGcGaUCAAGGUCCCCa -3'
miRNA:   3'- aCCGcUGGGUCCaCgAGUUCCGGGGG- -5'
13043 5' -61.7 NC_003390.1 + 37958 1.11 0.000127
Target:  5'- cUGGCGACCCAGGUGCUCAAGGCCCCCa -3'
miRNA:   3'- -ACCGCUGGGUCCACGAGUUCCGGGGG- -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.