miRNA display CGI


Results 1 - 20 of 50 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
14178 3' -57.6 NC_003521.1 + 27545 0.66 0.924643
Target:  5'- -cGUAGACGGUCUccaccGUCGuCCGG-GCg -3'
miRNA:   3'- caCGUCUGCCAGGu----CAGC-GGCUaCGa -5'
14178 3' -57.6 NC_003521.1 + 15226 0.66 0.919299
Target:  5'- cUGCAGGCGG-CCgagcgcgaGGcCGCCGA-GCg -3'
miRNA:   3'- cACGUCUGCCaGG--------UCaGCGGCUaCGa -5'
14178 3' -57.6 NC_003521.1 + 217342 0.66 0.919299
Target:  5'- -gGCGGACGGcggCCGGUCcUCGuacuUGCUg -3'
miRNA:   3'- caCGUCUGCCa--GGUCAGcGGCu---ACGA- -5'
14178 3' -57.6 NC_003521.1 + 90040 0.66 0.913733
Target:  5'- -gGUAGACGGccUCCAGcuccgggaCGCCGAcGCg -3'
miRNA:   3'- caCGUCUGCC--AGGUCa-------GCGGCUaCGa -5'
14178 3' -57.6 NC_003521.1 + 225855 0.66 0.907946
Target:  5'- cGUGguGguGCGGgcaCAGgUGCCGGUGCUc -3'
miRNA:   3'- -CACguC--UGCCag-GUCaGCGGCUACGA- -5'
14178 3' -57.6 NC_003521.1 + 164687 0.66 0.907355
Target:  5'- uGUGCgcgucgaGGACcuGGUgCuGUCGUCGGUGCUg -3'
miRNA:   3'- -CACG-------UCUG--CCAgGuCAGCGGCUACGA- -5'
14178 3' -57.6 NC_003521.1 + 156602 0.66 0.901939
Target:  5'- gGUGCAGcGCGG-CCucucgCGCCuGGUGCUg -3'
miRNA:   3'- -CACGUC-UGCCaGGuca--GCGG-CUACGA- -5'
14178 3' -57.6 NC_003521.1 + 100671 0.66 0.901939
Target:  5'- cUGCGGAUGGUgaUAGUggugaUGCUGAUGCg -3'
miRNA:   3'- cACGUCUGCCAg-GUCA-----GCGGCUACGa -5'
14178 3' -57.6 NC_003521.1 + 102552 0.66 0.901939
Target:  5'- gGUGCuucuGGCccuuGGagaCCAGUCGCCaGAUGCa -3'
miRNA:   3'- -CACGu---CUG----CCa--GGUCAGCGG-CUACGa -5'
14178 3' -57.6 NC_003521.1 + 59359 0.67 0.895716
Target:  5'- cUGCAGGCGGcgcgCCAGcCGCUGGacGCc -3'
miRNA:   3'- cACGUCUGCCa---GGUCaGCGGCUa-CGa -5'
14178 3' -57.6 NC_003521.1 + 99826 0.67 0.889278
Target:  5'- aUGCAGcccaGGUCCAgGUUGCUGA-GCUu -3'
miRNA:   3'- cACGUCug--CCAGGU-CAGCGGCUaCGA- -5'
14178 3' -57.6 NC_003521.1 + 221691 0.67 0.889278
Target:  5'- -cGCcGugGGUCUcGUUGCCGA-GCa -3'
miRNA:   3'- caCGuCugCCAGGuCAGCGGCUaCGa -5'
14178 3' -57.6 NC_003521.1 + 97827 0.67 0.889278
Target:  5'- -cGCGGACGG-CgCGacCGCCGGUGCg -3'
miRNA:   3'- caCGUCUGCCaG-GUcaGCGGCUACGa -5'
14178 3' -57.6 NC_003521.1 + 92033 0.67 0.875773
Target:  5'- -gGCGGugGGUCCgggGGUCcCCGggGUg -3'
miRNA:   3'- caCGUCugCCAGG---UCAGcGGCuaCGa -5'
14178 3' -57.6 NC_003521.1 + 115400 0.67 0.875773
Target:  5'- -cGCGGGCGGccgccacggccUCCGGacucagCGCCGcgGCg -3'
miRNA:   3'- caCGUCUGCC-----------AGGUCa-----GCGGCuaCGa -5'
14178 3' -57.6 NC_003521.1 + 211140 0.67 0.875076
Target:  5'- -cGCAG-CGGaucauccUCCAGUCGCCcauGGUGUUu -3'
miRNA:   3'- caCGUCuGCC-------AGGUCAGCGG---CUACGA- -5'
14178 3' -57.6 NC_003521.1 + 186316 0.67 0.868714
Target:  5'- cGUGCAGAuccUGGUCCA--CGCCGG-GCc -3'
miRNA:   3'- -CACGUCU---GCCAGGUcaGCGGCUaCGa -5'
14178 3' -57.6 NC_003521.1 + 125593 0.67 0.861457
Target:  5'- -cGCAGAUGuacugcguGUCCGuGUCGCCgcgGAUGCa -3'
miRNA:   3'- caCGUCUGC--------CAGGU-CAGCGG---CUACGa -5'
14178 3' -57.6 NC_003521.1 + 225561 0.68 0.854008
Target:  5'- aGUGCAGACGGggacCCGuGUCGUCcugGCg -3'
miRNA:   3'- -CACGUCUGCCa---GGU-CAGCGGcuaCGa -5'
14178 3' -57.6 NC_003521.1 + 210262 0.68 0.854008
Target:  5'- -cGCGGACGGgCCuucuGUgGCCGgcGCg -3'
miRNA:   3'- caCGUCUGCCaGGu---CAgCGGCuaCGa -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.