miRNA display CGI


Results 1 - 20 of 22 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
32269 3' -34.5 NC_007022.1 + 112136 0.66 1
Target:  5'- ---aGUUUUGUCAGgAGAAACGu--- -3'
miRNA:   3'- uugaCAAAAUAGUUgUUUUUGUuuuu -5'
32269 3' -34.5 NC_007022.1 + 62452 0.71 1
Target:  5'- cGAUUGgu---UCAGCGAAAACAAGAu -3'
miRNA:   3'- -UUGACaaaauAGUUGUUUUUGUUUUu -5'
32269 3' -34.5 NC_007022.1 + 62123 0.71 1
Target:  5'- cGACUGUagauaUUUGcguUCAGCGGAAACGGAu- -3'
miRNA:   3'- -UUGACA-----AAAU---AGUUGUUUUUGUUUuu -5'
32269 3' -34.5 NC_007022.1 + 33721 0.7 1
Target:  5'- aAACUGUUUUGUUAuuucuUAGAAGCAGu-- -3'
miRNA:   3'- -UUGACAAAAUAGUu----GUUUUUGUUuuu -5'
32269 3' -34.5 NC_007022.1 + 12483 0.68 1
Target:  5'- -----aUUUGUCAACAGAAGCAu--- -3'
miRNA:   3'- uugacaAAAUAGUUGUUUUUGUuuuu -5'
32269 3' -34.5 NC_007022.1 + 35568 0.68 1
Target:  5'- aAACUGUUUUucaAAUAAAAACAAc-- -3'
miRNA:   3'- -UUGACAAAAuagUUGUUUUUGUUuuu -5'
32269 3' -34.5 NC_007022.1 + 98268 0.67 1
Target:  5'- cAGCUGUUga--CAGCGAugGCAAAAu -3'
miRNA:   3'- -UUGACAAaauaGUUGUUuuUGUUUUu -5'
32269 3' -34.5 NC_007022.1 + 135550 0.67 1
Target:  5'- -uCUGg---GUCAAUGGAGACAGAAu -3'
miRNA:   3'- uuGACaaaaUAGUUGUUUUUGUUUUu -5'
32269 3' -34.5 NC_007022.1 + 47851 0.66 1
Target:  5'- uGGCUGUUguugccggUGUUGACAAGGcCAAAAAu -3'
miRNA:   3'- -UUGACAAa-------AUAGUUGUUUUuGUUUUU- -5'
32269 3' -34.5 NC_007022.1 + 166407 0.74 1
Target:  5'- aAACUGUUUUGugaaaaagauuUCAAUAAAAACAAc-- -3'
miRNA:   3'- -UUGACAAAAU-----------AGUUGUUUUUGUUuuu -5'
32269 3' -34.5 NC_007022.1 + 9659 0.74 1
Target:  5'- aAACUGUUUUGugaaaaagauuUCAAUAAAAACAAc-- -3'
miRNA:   3'- -UUGACAAAAU-----------AGUUGUUUUUGUUuuu -5'
32269 3' -34.5 NC_007022.1 + 4182 0.74 1
Target:  5'- aAACUGUUUUGugaaaaagauuUCAAUAAAAACAAc-- -3'
miRNA:   3'- -UUGACAAAAU-----------AGUUGUUUUUGUUuuu -5'
32269 3' -34.5 NC_007022.1 + 134796 0.66 1
Target:  5'- cAACUGaagcUAUCAAUAuGAGCAAAAc -3'
miRNA:   3'- -UUGACaaa-AUAGUUGUuUUUGUUUUu -5'
32269 3' -34.5 NC_007022.1 + 154276 0.66 1
Target:  5'- aAGCcagGUuccUUUGUCAACAAAcAGCAAGAGc -3'
miRNA:   3'- -UUGa--CA---AAAUAGUUGUUU-UUGUUUUU- -5'
32269 3' -34.5 NC_007022.1 + 148095 0.68 1
Target:  5'- aAACuUGUgUUAUCAGCAuucgucGAAACAAAAc -3'
miRNA:   3'- -UUG-ACAaAAUAGUUGU------UUUUGUUUUu -5'
32269 3' -34.5 NC_007022.1 + 22463 0.69 1
Target:  5'- gAAC-GUUUUGUCGAUAAcgGCAAAc- -3'
miRNA:   3'- -UUGaCAAAAUAGUUGUUuuUGUUUuu -5'
32269 3' -34.5 NC_007022.1 + 45797 0.7 1
Target:  5'- gAGC-GUUUUAUCAGCGaacuucgcGAAGCAGGAu -3'
miRNA:   3'- -UUGaCAAAAUAGUUGU--------UUUUGUUUUu -5'
32269 3' -34.5 NC_007022.1 + 70865 0.66 1
Target:  5'- --aUGUUUUGUCGACcagcuGACGAAu- -3'
miRNA:   3'- uugACAAAAUAGUUGuuu--UUGUUUuu -5'
32269 3' -34.5 NC_007022.1 + 115673 0.75 1
Target:  5'- uGCUGggUUGUCAACGAuagaaAAGCGAAu- -3'
miRNA:   3'- uUGACaaAAUAGUUGUU-----UUUGUUUuu -5'
32269 3' -34.5 NC_007022.1 + 172265 0.66 1
Target:  5'- aAACUGUgggugGUCAcCAGAGGCAu--- -3'
miRNA:   3'- -UUGACAaaa--UAGUuGUUUUUGUuuuu -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.