miRNA display CGI


Results 1 - 20 of 26 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
26866 3' -59.7 NC_005809.1 + 676 0.69 0.262875
Target:  5'- cCAGGCCgCCuacggcGGCgCCGGCCGGGc-- -3'
miRNA:   3'- aGUUCGG-GGuu----CCG-GGCCGGCUCuug -5'
26866 3' -59.7 NC_005809.1 + 1166 0.68 0.3087
Target:  5'- gUCAcGCCCCAcauagucucgccgccGGGgUCGGCCGGGu-- -3'
miRNA:   3'- -AGUuCGGGGU---------------UCCgGGCCGGCUCuug -5'
26866 3' -59.7 NC_005809.1 + 6339 0.68 0.298178
Target:  5'- ---cGCCCCAGccaaagcgcccGGCCCgaaGGCCGGGGc- -3'
miRNA:   3'- aguuCGGGGUU-----------CCGGG---CCGGCUCUug -5'
26866 3' -59.7 NC_005809.1 + 9444 0.67 0.340311
Target:  5'- aCAAGCCCgaucacggcgacauuCAGGGCCUuggguucauGGgCGAGGAUg -3'
miRNA:   3'- aGUUCGGG---------------GUUCCGGG---------CCgGCUCUUG- -5'
26866 3' -59.7 NC_005809.1 + 12949 0.77 0.072277
Target:  5'- aUCAAGCCCggccaCAAGcGCCCGGCCu-GGACa -3'
miRNA:   3'- -AGUUCGGG-----GUUC-CGGGCCGGcuCUUG- -5'
26866 3' -59.7 NC_005809.1 + 13201 0.66 0.405674
Target:  5'- cCGAGUCCgAGGGCuggggcaaggccaCCGGCgcgugguuCGAGGACu -3'
miRNA:   3'- aGUUCGGGgUUCCG-------------GGCCG--------GCUCUUG- -5'
26866 3' -59.7 NC_005809.1 + 13477 0.68 0.298178
Target:  5'- gCAAGUCCCGcacGGGCCUGaccucggcGCcCGAGGAUg -3'
miRNA:   3'- aGUUCGGGGU---UCCGGGC--------CG-GCUCUUG- -5'
26866 3' -59.7 NC_005809.1 + 15131 0.69 0.249735
Target:  5'- aCcAGCgCCAGGGCCugCGGCCGccGGGCg -3'
miRNA:   3'- aGuUCGgGGUUCCGG--GCCGGCu-CUUG- -5'
26866 3' -59.7 NC_005809.1 + 20142 0.67 0.328986
Target:  5'- aCGAGUCCgccgccguCAAGGCgUGGCUGGcGAACg -3'
miRNA:   3'- aGUUCGGG--------GUUCCGgGCCGGCU-CUUG- -5'
26866 3' -59.7 NC_005809.1 + 22346 0.74 0.110751
Target:  5'- -aAGGCaCCCAAGGCcaacagCCGGCCGcGGGCg -3'
miRNA:   3'- agUUCG-GGGUUCCG------GGCCGGCuCUUG- -5'
26866 3' -59.7 NC_005809.1 + 22440 0.68 0.313295
Target:  5'- cCAGGCCCCcgAAGGCgUGGCauuCGAcGACg -3'
miRNA:   3'- aGUUCGGGG--UUCCGgGCCG---GCUcUUG- -5'
26866 3' -59.7 NC_005809.1 + 23885 0.7 0.20199
Target:  5'- ---uGCUgaCCGAGGCCCgcgugguguaacaGGCCGGGGGCg -3'
miRNA:   3'- aguuCGG--GGUUCCGGG-------------CCGGCUCUUG- -5'
26866 3' -59.7 NC_005809.1 + 25472 1.08 0.000259
Target:  5'- gUCAAGCCCCAAGGCCCGGCCGAGAACc -3'
miRNA:   3'- -AGUUCGGGGUUCCGGGCCGGCUCUUG- -5'
26866 3' -59.7 NC_005809.1 + 27249 0.7 0.225083
Target:  5'- cCGGcGCCCC-AGGCUCuuGGCCGAGGc- -3'
miRNA:   3'- aGUU-CGGGGuUCCGGG--CCGGCUCUug -5'
26866 3' -59.7 NC_005809.1 + 29086 0.68 0.305665
Target:  5'- cUCGGGCgCCGAGGUCaGGCCcgugcGGGACu -3'
miRNA:   3'- -AGUUCGgGGUUCCGGgCCGGc----UCUUG- -5'
26866 3' -59.7 NC_005809.1 + 29670 0.66 0.394696
Target:  5'- ---uGCCCagCAGGGCgCGGCCGuguguuugaaaaucGGAACu -3'
miRNA:   3'- aguuCGGG--GUUCCGgGCCGGC--------------UCUUG- -5'
26866 3' -59.7 NC_005809.1 + 31517 0.68 0.298178
Target:  5'- uUCGAGCaguUCGucGCCaaugCGGCCGAGAACg -3'
miRNA:   3'- -AGUUCGg--GGUucCGG----GCCGGCUCUUG- -5'
26866 3' -59.7 NC_005809.1 + 32368 0.7 0.21355
Target:  5'- ---cGCCgCCGAGGcCCCGGCCGcccAGCa -3'
miRNA:   3'- aguuCGG-GGUUCC-GGGCCGGCuc-UUG- -5'
26866 3' -59.7 NC_005809.1 + 35107 0.67 0.345249
Target:  5'- gUCGAGUCCuggugCAAGGCCauucgcgcgaaGGCCGAagccGAACu -3'
miRNA:   3'- -AGUUCGGG-----GUUCCGGg----------CCGGCU----CUUG- -5'
26866 3' -59.7 NC_005809.1 + 35728 0.68 0.298178
Target:  5'- -gGGGCCUacgaaAAGGCCgucGCCGAGGGCa -3'
miRNA:   3'- agUUCGGGg----UUCCGGgc-CGGCUCUUG- -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.