miRNA display CGI


Results 1 - 20 of 24 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
5505 3' -56.3 NC_001798.1 + 152052 0.66 0.922924
Target:  5'- gGGGCggcgcaCGGCCCac---GGGGGUCCCc -3'
miRNA:   3'- -CCUGa-----GCCGGGagaauCUCCUAGGGc -5'
5505 3' -56.3 NC_001798.1 + 107412 0.66 0.917382
Target:  5'- aGGACUgGGgCCggCUgacGGGGGUCgCCGc -3'
miRNA:   3'- -CCUGAgCCgGGa-GAau-CUCCUAG-GGC- -5'
5505 3' -56.3 NC_001798.1 + 69727 0.66 0.899371
Target:  5'- cGGGCgaaggCGGCuuccgCCUC-UGGuGGGUUCCGg -3'
miRNA:   3'- -CCUGa----GCCG-----GGAGaAUCuCCUAGGGC- -5'
5505 3' -56.3 NC_001798.1 + 59672 0.66 0.898097
Target:  5'- cGACUCGGCUCgcgUGGGGGcggcgggcacgCCCGu -3'
miRNA:   3'- cCUGAGCCGGGagaAUCUCCua---------GGGC- -5'
5505 3' -56.3 NC_001798.1 + 2079 0.66 0.892912
Target:  5'- -cGCUCGGCggaccaCUCcgGGGGGggCCCGc -3'
miRNA:   3'- ccUGAGCCGg-----GAGaaUCUCCuaGGGC- -5'
5505 3' -56.3 NC_001798.1 + 75621 0.67 0.872215
Target:  5'- cGGGCgccUGGCCCUCgcuaAGcuGGUCCUGg -3'
miRNA:   3'- -CCUGa--GCCGGGAGaa--UCucCUAGGGC- -5'
5505 3' -56.3 NC_001798.1 + 131353 0.67 0.86489
Target:  5'- cGACgUCGGCgcccggcgcggCCUC--GGGGGAUCCCc -3'
miRNA:   3'- cCUG-AGCCG-----------GGAGaaUCUCCUAGGGc -5'
5505 3' -56.3 NC_001798.1 + 95558 0.67 0.86489
Target:  5'- cGACgCGGCCCU---GGAGGuggCCCa -3'
miRNA:   3'- cCUGaGCCGGGAgaaUCUCCua-GGGc -5'
5505 3' -56.3 NC_001798.1 + 125089 0.67 0.857362
Target:  5'- --cCUUGGCCCguuUCUUcGGGGggCCCGu -3'
miRNA:   3'- ccuGAGCCGGG---AGAAuCUCCuaGGGC- -5'
5505 3' -56.3 NC_001798.1 + 46513 0.67 0.857362
Target:  5'- gGGAgCUCGGCUCggugagggUCggGGGGGuggCCCGg -3'
miRNA:   3'- -CCU-GAGCCGGG--------AGaaUCUCCua-GGGC- -5'
5505 3' -56.3 NC_001798.1 + 2545 0.68 0.849634
Target:  5'- gGGGCgCGGCCCcCgcgGGAGGGgcggCCgCGg -3'
miRNA:   3'- -CCUGaGCCGGGaGaa-UCUCCUa---GG-GC- -5'
5505 3' -56.3 NC_001798.1 + 21758 0.68 0.849634
Target:  5'- gGGACgcCGGCCCUUUaugugcgcGAGGAacggCCCGc -3'
miRNA:   3'- -CCUGa-GCCGGGAGAau------CUCCUa---GGGC- -5'
5505 3' -56.3 NC_001798.1 + 48815 0.68 0.841715
Target:  5'- aGGGCccCGGCCUuuuUCUgucGcGGGUCCCGg -3'
miRNA:   3'- -CCUGa-GCCGGG---AGAau-CuCCUAGGGC- -5'
5505 3' -56.3 NC_001798.1 + 79285 0.68 0.816871
Target:  5'- cGGACcUGGCCC-CgugggcggUGGAGGAgUUCCGg -3'
miRNA:   3'- -CCUGaGCCGGGaGa-------AUCUCCU-AGGGC- -5'
5505 3' -56.3 NC_001798.1 + 29666 0.68 0.816871
Target:  5'- cGGAgCggCGGCCCggcgGGAGGAggagaCCCGg -3'
miRNA:   3'- -CCU-Ga-GCCGGGagaaUCUCCUa----GGGC- -5'
5505 3' -56.3 NC_001798.1 + 141603 0.69 0.799479
Target:  5'- cGGCgUGGCCgagUUCUUGGAGGAgUCCCc -3'
miRNA:   3'- cCUGaGCCGG---GAGAAUCUCCU-AGGGc -5'
5505 3' -56.3 NC_001798.1 + 20821 0.69 0.781497
Target:  5'- cGACUCGGUCga---GGAGGAUUCCGa -3'
miRNA:   3'- cCUGAGCCGGgagaaUCUCCUAGGGC- -5'
5505 3' -56.3 NC_001798.1 + 50998 0.69 0.781497
Target:  5'- cGACUC-GCCCg--UGGAGGAcgagCCCGa -3'
miRNA:   3'- cCUGAGcCGGGagaAUCUCCUa---GGGC- -5'
5505 3' -56.3 NC_001798.1 + 80541 0.69 0.781497
Target:  5'- -cGCUCGGCCCggCggGGGGGcgcgaggcGUCCCu -3'
miRNA:   3'- ccUGAGCCGGGa-GaaUCUCC--------UAGGGc -5'
5505 3' -56.3 NC_001798.1 + 60029 0.69 0.762992
Target:  5'- gGGACgUCGGCCgUgaggaagaaCUU-GAGGGUCCCc -3'
miRNA:   3'- -CCUG-AGCCGGgA---------GAAuCUCCUAGGGc -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.