miRNA display CGI


Results 1 - 20 of 40 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
9379 3' -51.6 NC_002512.2 + 3177 0.68 0.986821
Target:  5'- cUCuACUCGuuUCGCGucgaCGUCGUCGUCg -3'
miRNA:   3'- aAGuUGGGC--AGUGCua--GUAGCAGCAG- -5'
9379 3' -51.6 NC_002512.2 + 3866 0.66 0.996174
Target:  5'- -aCGACCU-UCACcGUCAUCGgCGUCa -3'
miRNA:   3'- aaGUUGGGcAGUGcUAGUAGCaGCAG- -5'
9379 3' -51.6 NC_002512.2 + 43269 0.66 0.997221
Target:  5'- -gCAACCCuguUCAUGAUgGUCGuguuuaUCGUCa -3'
miRNA:   3'- aaGUUGGGc--AGUGCUAgUAGC------AGCAG- -5'
9379 3' -51.6 NC_002512.2 + 77396 0.66 0.996732
Target:  5'- cUCcACCCGUgGCGc-CGUCG-CGUCa -3'
miRNA:   3'- aAGuUGGGCAgUGCuaGUAGCaGCAG- -5'
9379 3' -51.6 NC_002512.2 + 88994 0.66 0.997647
Target:  5'- gUCGACCCGgagCGCGGgga-CGUCGg- -3'
miRNA:   3'- aAGUUGGGCa--GUGCUaguaGCAGCag -5'
9379 3' -51.6 NC_002512.2 + 96101 0.72 0.915987
Target:  5'- gUCGucCCCGcCGCcgccGUCGUCGUCGUCg -3'
miRNA:   3'- aAGUu-GGGCaGUGc---UAGUAGCAGCAG- -5'
9379 3' -51.6 NC_002512.2 + 99620 0.69 0.96865
Target:  5'- ---cGCUCGUCGCGGUCGUCGcCcUCg -3'
miRNA:   3'- aaguUGGGCAGUGCUAGUAGCaGcAG- -5'
9379 3' -51.6 NC_002512.2 + 99672 0.66 0.99554
Target:  5'- -gCAGCUcgggCGUCGCG-UCGcugUCGUCGUCc -3'
miRNA:   3'- aaGUUGG----GCAGUGCuAGU---AGCAGCAG- -5'
9379 3' -51.6 NC_002512.2 + 106323 0.66 0.997647
Target:  5'- -cCAGCCCGUCGCucUCccccUCGaCGUCc -3'
miRNA:   3'- aaGUUGGGCAGUGcuAGu---AGCaGCAG- -5'
9379 3' -51.6 NC_002512.2 + 107218 0.69 0.971578
Target:  5'- -gCGGCCgGggagcCGCGGUCAcCGUCGUCc -3'
miRNA:   3'- aaGUUGGgCa----GUGCUAGUaGCAGCAG- -5'
9379 3' -51.6 NC_002512.2 + 108059 0.8 0.515694
Target:  5'- cUCcccCCCGUCcggccgacgGCGAUCGUCGUCGUCg -3'
miRNA:   3'- aAGuu-GGGCAG---------UGCUAGUAGCAGCAG- -5'
9379 3' -51.6 NC_002512.2 + 117984 0.74 0.846401
Target:  5'- -aCAACCCG-CGCGGcCGcUCGUCGUCc -3'
miRNA:   3'- aaGUUGGGCaGUGCUaGU-AGCAGCAG- -5'
9379 3' -51.6 NC_002512.2 + 126838 0.83 0.404661
Target:  5'- gUCGcGCUCGUCGCGGUCGUCGcCGUCg -3'
miRNA:   3'- aAGU-UGGGCAGUGCUAGUAGCaGCAG- -5'
9379 3' -51.6 NC_002512.2 + 128050 0.72 0.897489
Target:  5'- -aCGGCCCcgacgGUCGCGG-CGUCGUCGUg -3'
miRNA:   3'- aaGUUGGG-----CAGUGCUaGUAGCAGCAg -5'
9379 3' -51.6 NC_002512.2 + 132726 0.67 0.994016
Target:  5'- cUCGGCCCGUgccgCAgGcgCAgcgcggCGUCGUCc -3'
miRNA:   3'- aAGUUGGGCA----GUgCuaGUa-----GCAGCAG- -5'
9379 3' -51.6 NC_002512.2 + 151046 0.66 0.99554
Target:  5'- -gCGGCCCGUCACGcgGUCcUCGaCGg- -3'
miRNA:   3'- aaGUUGGGCAGUGC--UAGuAGCaGCag -5'
9379 3' -51.6 NC_002512.2 + 152061 0.81 0.496243
Target:  5'- --aGACCgGUCGCGGUCAUCGcCGUCc -3'
miRNA:   3'- aagUUGGgCAGUGCUAGUAGCaGCAG- -5'
9379 3' -51.6 NC_002512.2 + 156183 0.69 0.96865
Target:  5'- -gCGACCagcUCAUGGUCAUggaCGUCGUCa -3'
miRNA:   3'- aaGUUGGgc-AGUGCUAGUA---GCAGCAG- -5'
9379 3' -51.6 NC_002512.2 + 158648 0.67 0.990972
Target:  5'- cUUCGACCCcgacgucgagGcCACGGUCAUCGcCGg- -3'
miRNA:   3'- -AAGUUGGG----------CaGUGCUAGUAGCaGCag -5'
9379 3' -51.6 NC_002512.2 + 167630 0.67 0.992098
Target:  5'- aUCGgguGCCCGUCGCccagcUCGuccucUCGUCGUCc -3'
miRNA:   3'- aAGU---UGGGCAGUGcu---AGU-----AGCAGCAG- -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.