miRNA display CGI


Results 1 - 20 of 35 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
21404 3' -53.1 NC_004812.1 + 4353 0.66 0.971549
Target:  5'- -gGCG-GCUCAUGGCGAcgGCgGCggCGg -3'
miRNA:   3'- caUGCgCGAGUACCGCU--CGaUGaaGU- -5'
21404 3' -53.1 NC_004812.1 + 147982 0.66 0.971548
Target:  5'- --cCGUGCUCAUGGCGccgGGCgGCg--- -3'
miRNA:   3'- cauGCGCGAGUACCGC---UCGaUGaagu -5'
21404 3' -53.1 NC_004812.1 + 129861 0.66 0.971548
Target:  5'- -gGCG-GCUCAUGGCGAcgGCgGCggCGg -3'
miRNA:   3'- caUGCgCGAGUACCGCU--CGaUGaaGU- -5'
21404 3' -53.1 NC_004812.1 + 20166 0.66 0.970964
Target:  5'- -gGCgGCGCUCGggccccgacccgGGCGAGCgggcgcguCUUCGa -3'
miRNA:   3'- caUG-CGCGAGUa-----------CCGCUCGau------GAAGU- -5'
21404 3' -53.1 NC_004812.1 + 79339 0.66 0.96854
Target:  5'- gGUGCGgcggaGCUCGggccUGGcCGAGCUcgagcGCUUCGa -3'
miRNA:   3'- -CAUGCg----CGAGU----ACC-GCUCGA-----UGAAGU- -5'
21404 3' -53.1 NC_004812.1 + 101019 0.66 0.965312
Target:  5'- ---aGCGCUCGcUGGCGAGCcugggGCg--- -3'
miRNA:   3'- caugCGCGAGU-ACCGCUCGa----UGaagu -5'
21404 3' -53.1 NC_004812.1 + 36004 0.66 0.961858
Target:  5'- -gAgGCGCUCcaggcugcgGUGGCGGGCgGCgaugUCGg -3'
miRNA:   3'- caUgCGCGAG---------UACCGCUCGaUGa---AGU- -5'
21404 3' -53.1 NC_004812.1 + 15216 0.66 0.961858
Target:  5'- uUGCGCGCggCcUGGCcGA-CUGCUUCGc -3'
miRNA:   3'- cAUGCGCGa-GuACCG-CUcGAUGAAGU- -5'
21404 3' -53.1 NC_004812.1 + 49131 0.66 0.958172
Target:  5'- --cCGCGCUCGUGGUccuccagcGGCUGC-UCGc -3'
miRNA:   3'- cauGCGCGAGUACCGc-------UCGAUGaAGU- -5'
21404 3' -53.1 NC_004812.1 + 151719 0.67 0.951781
Target:  5'- -cGCGCGCgccgcCGUGGCcgggcgcgacgccacGGGCcGCUUCAc -3'
miRNA:   3'- caUGCGCGa----GUACCG---------------CUCGaUGAAGU- -5'
21404 3' -53.1 NC_004812.1 + 26211 0.67 0.951781
Target:  5'- -cGCGCGCgccgcCGUGGCcgggcgcgacgccacGGGCcGCUUCAc -3'
miRNA:   3'- caUGCGCGa----GUACCG---------------CUCGaUGAAGU- -5'
21404 3' -53.1 NC_004812.1 + 64705 0.67 0.950086
Target:  5'- -gGCGgGCccUCAgggcccccGCGGGCUGCUUCAc -3'
miRNA:   3'- caUGCgCG--AGUac------CGCUCGAUGAAGU- -5'
21404 3' -53.1 NC_004812.1 + 111748 0.67 0.945677
Target:  5'- --cCGCGCUCGUGcGCGcgcGCUACg--- -3'
miRNA:   3'- cauGCGCGAGUAC-CGCu--CGAUGaagu -5'
21404 3' -53.1 NC_004812.1 + 67309 0.67 0.94102
Target:  5'- -aGCGgGCUCGgggaGGCGAGCgcggGCgcUCAc -3'
miRNA:   3'- caUGCgCGAGUa---CCGCUCGa---UGa-AGU- -5'
21404 3' -53.1 NC_004812.1 + 87032 0.68 0.913951
Target:  5'- cGU-CGCGCUCGgaGGCG-GCUGCggCGc -3'
miRNA:   3'- -CAuGCGCGAGUa-CCGCuCGAUGaaGU- -5'
21404 3' -53.1 NC_004812.1 + 86369 0.68 0.903957
Target:  5'- gGUGCGCGCUgGgugggcggaagagggUGGCG-GCUGCgggUCc -3'
miRNA:   3'- -CAUGCGCGAgU---------------ACCGCuCGAUGa--AGu -5'
21404 3' -53.1 NC_004812.1 + 6781 0.68 0.901359
Target:  5'- aUGCGCGCg---GGCGAGCcgUGCcUCGg -3'
miRNA:   3'- cAUGCGCGaguaCCGCUCG--AUGaAGU- -5'
21404 3' -53.1 NC_004812.1 + 37682 0.68 0.901359
Target:  5'- aUGCGCGCg---GGCGAGCcgUGCcUCGg -3'
miRNA:   3'- cAUGCGCGaguaCCGCUCG--AUGaAGU- -5'
21404 3' -53.1 NC_004812.1 + 136789 0.68 0.901359
Target:  5'- cGUGCGCGCUgGUGGCccugGAGC-GCg--- -3'
miRNA:   3'- -CAUGCGCGAgUACCG----CUCGaUGaagu -5'
21404 3' -53.1 NC_004812.1 + 68523 0.69 0.890574
Target:  5'- uGU-CGCGCUCGcuggaaagucuagaGGCGAGCUACgUCu -3'
miRNA:   3'- -CAuGCGCGAGUa-------------CCGCUCGAUGaAGu -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.