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
13060 5' -52.4 NC_003390.1 + 2483 0.66 0.829374
Target:  5'- uCCAGUGGaagGGCugGGGACgcaCAGUC-Ca -3'
miRNA:   3'- -GGUCGUCg--UCGugCUCUGa--GUUAGaG- -5'
13060 5' -52.4 NC_003390.1 + 29272 0.67 0.769469
Target:  5'- uCCGGUAGaCAaucaGCGAGGCUCAcUCUg -3'
miRNA:   3'- -GGUCGUC-GUcg--UGCUCUGAGUuAGAg -5'
13060 5' -52.4 NC_003390.1 + 18628 0.67 0.748146
Target:  5'- gCAGCAGCGGCAUauccuGACUgAAUUg- -3'
miRNA:   3'- gGUCGUCGUCGUGcu---CUGAgUUAGag -5'
13060 5' -52.4 NC_003390.1 + 20273 0.67 0.737288
Target:  5'- gCCGGCGGUGG-AgGGGGCUCGggCUUa -3'
miRNA:   3'- -GGUCGUCGUCgUgCUCUGAGUuaGAG- -5'
13060 5' -52.4 NC_003390.1 + 29517 0.67 0.737288
Target:  5'- gCCGGCGGUGG-AgGGGGCUCGggCUUa -3'
miRNA:   3'- -GGUCGUCGUCgUgCUCUGAGUuaGAG- -5'
13060 5' -52.4 NC_003390.1 + 20908 0.67 0.726315
Target:  5'- aCAGaGGCAGCACGAcagGAUUCGGaUUCg -3'
miRNA:   3'- gGUCgUCGUCGUGCU---CUGAGUUaGAG- -5'
13060 5' -52.4 NC_003390.1 + 14972 0.7 0.556399
Target:  5'- aCCGGUAGgcaAGCucacAUGAGACcCAAUCUCg -3'
miRNA:   3'- -GGUCGUCg--UCG----UGCUCUGaGUUAGAG- -5'
13060 5' -52.4 NC_003390.1 + 21454 0.7 0.556399
Target:  5'- uCCAGCAGCAGCAgGcuGCUCug-Ca- -3'
miRNA:   3'- -GGUCGUCGUCGUgCucUGAGuuaGag -5'
13060 5' -52.4 NC_003390.1 + 43848 0.72 0.469452
Target:  5'- aCCAGCAgGCAGCcugggAUGAG-CUCGAggCUCg -3'
miRNA:   3'- -GGUCGU-CGUCG-----UGCUCuGAGUUa-GAG- -5'
13060 5' -52.4 NC_003390.1 + 7500 0.76 0.281036
Target:  5'- cCUAGCAGCAGCACGcucuuGGGCgaucugaucggCAGUCUUg -3'
miRNA:   3'- -GGUCGUCGUCGUGC-----UCUGa----------GUUAGAG- -5'
13060 5' -52.4 NC_003390.1 + 47527 0.76 0.259598
Target:  5'- gCCAGUAGCAGCACGAcccuugagGAUagccuuagCGGUCUCg -3'
miRNA:   3'- -GGUCGUCGUCGUGCU--------CUGa-------GUUAGAG- -5'
13060 5' -52.4 NC_003390.1 + 9556 1.12 0.000843
Target:  5'- uCCAGCAGCAGCACGAGACUCAAUCUCa -3'
miRNA:   3'- -GGUCGUCGUCGUGCUCUGAGUUAGAG- -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.