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
12228 3' -55 NC_003309.1 + 26754 0.66 0.726361
Target:  5'- cGGCG-AAGcccgccugaccuUGAACGGCAucuaaGCGGCGc -3'
miRNA:   3'- uCCGCgUUC------------ACUUGCUGUug---CGCCGC- -5'
12228 3' -55 NC_003309.1 + 46674 0.66 0.715664
Target:  5'- uAGGCGCucAGGUGAcCGGgcCGGCGCGuaauGCGc -3'
miRNA:   3'- -UCCGCG--UUCACUuGCU--GUUGCGC----CGC- -5'
12228 3' -55 NC_003309.1 + 53317 0.66 0.704883
Target:  5'- cGGCGCAuccgccGGGCgGGCAACGacgGGCGg -3'
miRNA:   3'- uCCGCGUuca---CUUG-CUGUUGCg--CCGC- -5'
12228 3' -55 NC_003309.1 + 31886 0.66 0.694032
Target:  5'- -uGCGgAcGUGuuCGACAACGCGGUc -3'
miRNA:   3'- ucCGCgUuCACuuGCUGUUGCGCCGc -5'
12228 3' -55 NC_003309.1 + 10703 0.67 0.63909
Target:  5'- cGGCGCGcucGAGCuccuGCuGCGCGGCGg -3'
miRNA:   3'- uCCGCGUucaCUUGc---UGuUGCGCCGC- -5'
12228 3' -55 NC_003309.1 + 4630 0.68 0.616994
Target:  5'- gAGGCGCGAacuu-CGGCAGCGauGCGa -3'
miRNA:   3'- -UCCGCGUUcacuuGCUGUUGCgcCGC- -5'
12228 3' -55 NC_003309.1 + 48810 0.68 0.573036
Target:  5'- cAGGCuGC---UGAACGGCgAAUGCGGCu -3'
miRNA:   3'- -UCCG-CGuucACUUGCUG-UUGCGCCGc -5'
12228 3' -55 NC_003309.1 + 37595 0.73 0.338924
Target:  5'- aAGGUGCAAcgcuacGGCGACGAcCGCGGCGu -3'
miRNA:   3'- -UCCGCGUUcac---UUGCUGUU-GCGCCGC- -5'
12228 3' -55 NC_003309.1 + 41444 0.73 0.314922
Target:  5'- uGGCGCAAGggacucccaGAcCGGCAagaaGCGCGGCa -3'
miRNA:   3'- uCCGCGUUCa--------CUuGCUGU----UGCGCCGc -5'
12228 3' -55 NC_003309.1 + 7879 0.74 0.27083
Target:  5'- cGGCGUcGGUGAACGuCGGCGCGuaGCa -3'
miRNA:   3'- uCCGCGuUCACUUGCuGUUGCGC--CGc -5'
12228 3' -55 NC_003309.1 + 32960 0.76 0.225823
Target:  5'- gAGGCGCGAGaGcGCGACGAcccugagcugauCGCGGCa -3'
miRNA:   3'- -UCCGCGUUCaCuUGCUGUU------------GCGCCGc -5'
12228 3' -55 NC_003309.1 + 5360 0.76 0.205245
Target:  5'- cAGGCGCGggauGGUGAuguugccguucgagaGCGGCAGCGUGcGCGc -3'
miRNA:   3'- -UCCGCGU----UCACU---------------UGCUGUUGCGC-CGC- -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.