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
21739 3' -53.3 NC_004813.1 + 24556 1.09 0.001685
Target:  5'- cCGGGACGACAGGUUUACCAUCCACCAg -3'
miRNA:   3'- -GCCCUGCUGUCCAAAUGGUAGGUGGU- -5'
21739 3' -53.3 NC_004813.1 + 50258 0.75 0.348642
Target:  5'- uGGGAUGGCAGGUcucAUCAUCCAUgGa -3'
miRNA:   3'- gCCCUGCUGUCCAaa-UGGUAGGUGgU- -5'
21739 3' -53.3 NC_004813.1 + 33224 0.74 0.401632
Target:  5'- aGGGGCGGCAGGUUcucCCGUUUACgGg -3'
miRNA:   3'- gCCCUGCUGUCCAAau-GGUAGGUGgU- -5'
21739 3' -53.3 NC_004813.1 + 37260 0.71 0.542828
Target:  5'- aGGuuACGGCGGGUUUucGCCA-CCACCGa -3'
miRNA:   3'- gCCc-UGCUGUCCAAA--UGGUaGGUGGU- -5'
21739 3' -53.3 NC_004813.1 + 33918 0.71 0.5645
Target:  5'- cCGGGGUGAgAcuUUUACCGUCCGCCGg -3'
miRNA:   3'- -GCCCUGCUgUccAAAUGGUAGGUGGU- -5'
21739 3' -53.3 NC_004813.1 + 33756 0.71 0.5645
Target:  5'- cCGGGGUGAgAcuUUUACCGUCCGCCGg -3'
miRNA:   3'- -GCCCUGCUgUccAAAUGGUAGGUGGU- -5'
21739 3' -53.3 NC_004813.1 + 34079 0.71 0.5645
Target:  5'- cCGGGGUGAgAcuUUUGCCGUCCGCCGg -3'
miRNA:   3'- -GCCCUGCUgUccAAAUGGUAGGUGGU- -5'
21739 3' -53.3 NC_004813.1 + 34241 0.69 0.66375
Target:  5'- cCGGGGUGAUAcuUUUACCGUCUGCCGg -3'
miRNA:   3'- -GCCCUGCUGUccAAAUGGUAGGUGGU- -5'
21739 3' -53.3 NC_004813.1 + 48055 0.68 0.739598
Target:  5'- cCGGcauguGACGGCGGGaau-CCcUCCACCAa -3'
miRNA:   3'- -GCC-----CUGCUGUCCaaauGGuAGGUGGU- -5'
21739 3' -53.3 NC_004813.1 + 53095 0.66 0.828673
Target:  5'- uGGGGUGGCGGGUcucAUCGUCCAUgGa -3'
miRNA:   3'- gCCCUGCUGUCCAaa-UGGUAGGUGgU- -5'
21739 3' -53.3 NC_004813.1 + 41963 0.66 0.854982
Target:  5'- uCGGauauccGugGugGGGUUgucgaACuCAUCCGCCAc -3'
miRNA:   3'- -GCC------CugCugUCCAAa----UG-GUAGGUGGU- -5'
21739 3' -53.3 NC_004813.1 + 42283 0.66 0.854982
Target:  5'- cCGGGAUGACu-GUggACCAgugCCACa- -3'
miRNA:   3'- -GCCCUGCUGucCAaaUGGUa--GGUGgu -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.