miRNA display CGI


Results 1 - 13 of 13 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
28095 3' -58.7 NC_005887.1 + 29720 0.66 0.494037
Target:  5'- aCCUGCGggcaguggcugGUCGGGCUuCuGCGUCa-- -3'
miRNA:   3'- -GGACGUa----------CAGCCCGGuGcCGCAGagc -5'
28095 3' -58.7 NC_005887.1 + 14189 0.66 0.483916
Target:  5'- aUUGCAcgcgcUGUCGGG-CGCGGC--CUCGg -3'
miRNA:   3'- gGACGU-----ACAGCCCgGUGCCGcaGAGC- -5'
28095 3' -58.7 NC_005887.1 + 292 0.66 0.473896
Target:  5'- aCUGCGUGgcgugaucagCGaGGCCGCGGUG-CgcgCGu -3'
miRNA:   3'- gGACGUACa---------GC-CCGGUGCCGCaGa--GC- -5'
28095 3' -58.7 NC_005887.1 + 25946 0.66 0.473895
Target:  5'- gCC-GCGUGagcuUCcGGCCgGCGGCcGUCUCGa -3'
miRNA:   3'- -GGaCGUAC----AGcCCGG-UGCCG-CAGAGC- -5'
28095 3' -58.7 NC_005887.1 + 29875 0.66 0.454174
Target:  5'- uCCUGCGg--CaGGCCgagcguACGGCGUUUCu -3'
miRNA:   3'- -GGACGUacaGcCCGG------UGCCGCAGAGc -5'
28095 3' -58.7 NC_005887.1 + 27114 0.66 0.454174
Target:  5'- gCCUGCu--UCGGGCCGCcguuguagucGGCGaUCaUCGc -3'
miRNA:   3'- -GGACGuacAGCCCGGUG----------CCGC-AG-AGC- -5'
28095 3' -58.7 NC_005887.1 + 13132 0.67 0.425451
Target:  5'- aCCUcgaGCGUGcCGGGCCu---CGUCUCGu -3'
miRNA:   3'- -GGA---CGUACaGCCCGGugccGCAGAGC- -5'
28095 3' -58.7 NC_005887.1 + 27979 0.67 0.419838
Target:  5'- gCCgccGCcgGcUCGGGCCGaaucgcgucgucggcCGGCGUUUCu -3'
miRNA:   3'- -GGa--CGuaC-AGCCCGGU---------------GCCGCAGAGc -5'
28095 3' -58.7 NC_005887.1 + 6466 0.67 0.41612
Target:  5'- aCCUGaa-GUaCGGG-CGCGGCGUCgCGg -3'
miRNA:   3'- -GGACguaCA-GCCCgGUGCCGCAGaGC- -5'
28095 3' -58.7 NC_005887.1 + 15402 0.69 0.309965
Target:  5'- gCCUGCAggaucUGUgGGGCCagcagugguucgucgACGGCGgccagcgaCUCGg -3'
miRNA:   3'- -GGACGU-----ACAgCCCGG---------------UGCCGCa-------GAGC- -5'
28095 3' -58.7 NC_005887.1 + 26146 0.7 0.299528
Target:  5'- aCCUGCGUGUCcGGUCGCaGCGcggcCUCu -3'
miRNA:   3'- -GGACGUACAGcCCGGUGcCGCa---GAGc -5'
28095 3' -58.7 NC_005887.1 + 30751 0.71 0.226896
Target:  5'- aCCUGCGUGUCGaGcGCCGaucCGGUGU-UCGg -3'
miRNA:   3'- -GGACGUACAGC-C-CGGU---GCCGCAgAGC- -5'
28095 3' -58.7 NC_005887.1 + 2362 1.09 0.000379
Target:  5'- uCCUGCAUGUCGGGCCACGGCGUCUCGc -3'
miRNA:   3'- -GGACGUACAGCCCGGUGCCGCAGAGC- -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.