miRNA display CGI


Results 1 - 20 of 23 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
13387 5' -60.6 NC_003409.1 + 112928 0.66 0.712894
Target:  5'- cGGGcGcGUUgCGCUCGGGCGGUUgUGUGCa -3'
miRNA:   3'- -UCCuC-CAA-GCGGGCCUGUCGG-ACGCG- -5'
13387 5' -60.6 NC_003409.1 + 14233 0.66 0.707043
Target:  5'- cGGGAGGUUuugcgucuuguagucCGCCagCGGGCGGCUUaGCu- -3'
miRNA:   3'- -UCCUCCAA---------------GCGG--GCCUGUCGGA-CGcg -5'
13387 5' -60.6 NC_003409.1 + 131476 0.66 0.693309
Target:  5'- uGGAGcaUCaCCUGGGCAGCCUaaGgGCc -3'
miRNA:   3'- uCCUCcaAGcGGGCCUGUCGGA--CgCG- -5'
13387 5' -60.6 NC_003409.1 + 95581 0.66 0.673528
Target:  5'- -------cCGCCUGGACAGUgaGCGCg -3'
miRNA:   3'- uccuccaaGCGGGCCUGUCGgaCGCG- -5'
13387 5' -60.6 NC_003409.1 + 132375 0.66 0.663586
Target:  5'- uAGGAGGUUgGCCaUGGACggagugauGGCCUccaccGUGUc -3'
miRNA:   3'- -UCCUCCAAgCGG-GCCUG--------UCGGA-----CGCG- -5'
13387 5' -60.6 NC_003409.1 + 33498 0.66 0.663586
Target:  5'- aAGGAcacgGGggCGUuuGGAuUAGCCUGCa- -3'
miRNA:   3'- -UCCU----CCaaGCGggCCU-GUCGGACGcg -5'
13387 5' -60.6 NC_003409.1 + 66774 0.66 0.663586
Target:  5'- cAGGAGGacagCGCCUcaGCgaGGaCCUGCGCa -3'
miRNA:   3'- -UCCUCCaa--GCGGGccUG--UC-GGACGCG- -5'
13387 5' -60.6 NC_003409.1 + 19154 0.66 0.653619
Target:  5'- gAGGAGGg--GCCCgcggGGGCAGCUccagGCGa -3'
miRNA:   3'- -UCCUCCaagCGGG----CCUGUCGGa---CGCg -5'
13387 5' -60.6 NC_003409.1 + 111145 0.66 0.653619
Target:  5'- cGGGAGGgcgccggccUUCGCCCucaguccgGGGgGGCUggaGCGCc -3'
miRNA:   3'- -UCCUCC---------AAGCGGG--------CCUgUCGGa--CGCG- -5'
13387 5' -60.6 NC_003409.1 + 117180 0.67 0.643636
Target:  5'- gGGGAGGUUauCCauaaGCAGCCUaaGCGCa -3'
miRNA:   3'- -UCCUCCAAgcGGgcc-UGUCGGA--CGCG- -5'
13387 5' -60.6 NC_003409.1 + 121963 0.67 0.633644
Target:  5'- aGGGugcGGUgcuGCCCaGGACGGCCggaUGCGg -3'
miRNA:   3'- -UCCu--CCAag-CGGG-CCUGUCGG---ACGCg -5'
13387 5' -60.6 NC_003409.1 + 107512 0.67 0.632645
Target:  5'- cGGAguaccaacgccguGGUUCGCCCcuuccGGCGGCCguggguccaGCGCu -3'
miRNA:   3'- uCCU-------------CCAAGCGGGc----CUGUCGGa--------CGCG- -5'
13387 5' -60.6 NC_003409.1 + 24739 0.67 0.623651
Target:  5'- gAGGGGGcgCGCCgGGGCu-CCUGgGg -3'
miRNA:   3'- -UCCUCCaaGCGGgCCUGucGGACgCg -5'
13387 5' -60.6 NC_003409.1 + 42498 0.67 0.593738
Target:  5'- uGGAGGcgUUCcCCCaGGAgUAGUCUGCGUa -3'
miRNA:   3'- uCCUCC--AAGcGGG-CCU-GUCGGACGCG- -5'
13387 5' -60.6 NC_003409.1 + 101594 0.68 0.573918
Target:  5'- cGGAGGUggguggCGCgCCGGuGCGGUguuCUGCGg -3'
miRNA:   3'- uCCUCCAa-----GCG-GGCC-UGUCG---GACGCg -5'
13387 5' -60.6 NC_003409.1 + 52152 0.68 0.573918
Target:  5'- cGGGGGGUg-GCCUGuGGC-GUgUGCGCg -3'
miRNA:   3'- -UCCUCCAagCGGGC-CUGuCGgACGCG- -5'
13387 5' -60.6 NC_003409.1 + 57199 0.68 0.564064
Target:  5'- uGGGAa--UCGCCUGGGCuuuGCCgGUGCa -3'
miRNA:   3'- -UCCUccaAGCGGGCCUGu--CGGaCGCG- -5'
13387 5' -60.6 NC_003409.1 + 132977 0.68 0.544498
Target:  5'- uGGAGGUacugcagCGCgCCGcGC-GCCUGUGCg -3'
miRNA:   3'- uCCUCCAa------GCG-GGCcUGuCGGACGCG- -5'
13387 5' -60.6 NC_003409.1 + 20806 0.69 0.506083
Target:  5'- aGGGA-GUUCcugGCCgGGcGCGGCCUGgCGCa -3'
miRNA:   3'- -UCCUcCAAG---CGGgCC-UGUCGGAC-GCG- -5'
13387 5' -60.6 NC_003409.1 + 6393 0.69 0.496657
Target:  5'- cAGGcGGGggUGCCaUGGACGGCCgaggGUGUg -3'
miRNA:   3'- -UCC-UCCaaGCGG-GCCUGUCGGa---CGCG- -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.