miRNA display CGI


Results 1 - 11 of 11 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
17969 3' -53.8 NC_004665.1 + 26858 0.66 0.666156
Target:  5'- cGUCgaUGCUCauguucuugguGGCCUUCUCAGCGGc--- -3'
miRNA:   3'- -CGG--ACGAG-----------CUGGAAGAGUCGCUcaag -5'
17969 3' -53.8 NC_004665.1 + 18617 0.66 0.6547
Target:  5'- gGUCgGCUCGACagCUUCUUgaGGCaGGUUCg -3'
miRNA:   3'- -CGGaCGAGCUG--GAAGAG--UCGcUCAAG- -5'
17969 3' -53.8 NC_004665.1 + 3832 0.66 0.643221
Target:  5'- aCCUGCUCGAUUUccUCgaaggagCGGCGAGc-- -3'
miRNA:   3'- cGGACGAGCUGGA--AGa------GUCGCUCaag -5'
17969 3' -53.8 NC_004665.1 + 24865 0.67 0.608764
Target:  5'- gGCCUGCaugUUGACC---UCAGCGAGc-- -3'
miRNA:   3'- -CGGACG---AGCUGGaagAGUCGCUCaag -5'
17969 3' -53.8 NC_004665.1 + 32443 0.67 0.597307
Target:  5'- aCCU-CUgCGACCaaCUCuGCGAGUUCu -3'
miRNA:   3'- cGGAcGA-GCUGGaaGAGuCGCUCAAG- -5'
17969 3' -53.8 NC_004665.1 + 16770 0.67 0.597307
Target:  5'- aCCaGCUCGACCcaCUCAuCGAGUg- -3'
miRNA:   3'- cGGaCGAGCUGGaaGAGUcGCUCAag -5'
17969 3' -53.8 NC_004665.1 + 3291 0.68 0.518541
Target:  5'- cCCgGCgaaUCGACCUgauguucCUCGGCGAcGUUCg -3'
miRNA:   3'- cGGaCG---AGCUGGAa------GAGUCGCU-CAAG- -5'
17969 3' -53.8 NC_004665.1 + 14403 0.69 0.47538
Target:  5'- aGCCUGUUgggccaccuuagCGACgaUCUCAGCGAucUCg -3'
miRNA:   3'- -CGGACGA------------GCUGgaAGAGUCGCUcaAG- -5'
17969 3' -53.8 NC_004665.1 + 29529 0.71 0.385526
Target:  5'- uGCUUGCUCagcauGGCCUUCUUGGCGuucGUUg -3'
miRNA:   3'- -CGGACGAG-----CUGGAAGAGUCGCu--CAAg -5'
17969 3' -53.8 NC_004665.1 + 14635 0.72 0.323851
Target:  5'- cGCCcuucaGCUcagCGAUCUUCUCAGCGGGg-- -3'
miRNA:   3'- -CGGa----CGA---GCUGGAAGAGUCGCUCaag -5'
17969 3' -53.8 NC_004665.1 + 4496 1.11 0.000554
Target:  5'- cGCCUGCUCGACCUUCUCAGCGAGUUCc -3'
miRNA:   3'- -CGGACGAGCUGGAAGAGUCGCUCAAG- -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.