miRNA display CGI


Results 1 - 20 of 66 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
15862 5' -57.5 NC_004065.1 + 229568 0.71 0.698288
Target:  5'- cCAgGGUCCCCGgacguuacGCcGCGAGGGcGGCu -3'
miRNA:   3'- uGUgCUAGGGGUa-------CGaCGCUCCU-CCG- -5'
15862 5' -57.5 NC_004065.1 + 215812 0.69 0.764569
Target:  5'- gGCACGcgUUUCGUGCgauauUGUGAcGGAGGCg -3'
miRNA:   3'- -UGUGCuaGGGGUACG-----ACGCU-CCUCCG- -5'
15862 5' -57.5 NC_004065.1 + 208193 0.67 0.891122
Target:  5'- cCGCGGUaucCCCCggGCggGCGAGGAuucaagaGGUg -3'
miRNA:   3'- uGUGCUA---GGGGuaCGa-CGCUCCU-------CCG- -5'
15862 5' -57.5 NC_004065.1 + 200365 0.66 0.926656
Target:  5'- -gGCG-UCCUCuucGCcgGCGAGGAGGg -3'
miRNA:   3'- ugUGCuAGGGGua-CGa-CGCUCCUCCg -5'
15862 5' -57.5 NC_004065.1 + 194345 0.71 0.67876
Target:  5'- cGCGCGAUCUCCugGCUcGCGAGcGAcguGGCg -3'
miRNA:   3'- -UGUGCUAGGGGuaCGA-CGCUC-CU---CCG- -5'
15862 5' -57.5 NC_004065.1 + 193694 0.67 0.871425
Target:  5'- -gAUGcgCCgUCAcgGCcGCGAGGAGGCa -3'
miRNA:   3'- ugUGCuaGG-GGUa-CGaCGCUCCUCCG- -5'
15862 5' -57.5 NC_004065.1 + 193379 0.66 0.898131
Target:  5'- uGCGCGAUCgCCGacGUUGaucuGGGGGGCg -3'
miRNA:   3'- -UGUGCUAGgGGUa-CGACgc--UCCUCCG- -5'
15862 5' -57.5 NC_004065.1 + 188339 0.74 0.522248
Target:  5'- cCGCG-UCCCUcgcgAUGCUcagccccaGCGAGGGGGCg -3'
miRNA:   3'- uGUGCuAGGGG----UACGA--------CGCUCCUCCG- -5'
15862 5' -57.5 NC_004065.1 + 182405 0.68 0.841524
Target:  5'- -aACGAUCCaCCGUGUcgGCGAuguaucgagaGGAGGa -3'
miRNA:   3'- ugUGCUAGG-GGUACGa-CGCU----------CCUCCg -5'
15862 5' -57.5 NC_004065.1 + 181167 0.67 0.881151
Target:  5'- cGCACGAcguccUCCCUAaaaggaaaguacgucUGCUGCggugaGAGGAuGGUg -3'
miRNA:   3'- -UGUGCU-----AGGGGU---------------ACGACG-----CUCCU-CCG- -5'
15862 5' -57.5 NC_004065.1 + 172068 0.72 0.616601
Target:  5'- uCAUGGUCUCCAaggggGCUGUggguggaggggccgGGGGAGGCg -3'
miRNA:   3'- uGUGCUAGGGGUa----CGACG--------------CUCCUCCG- -5'
15862 5' -57.5 NC_004065.1 + 167124 0.7 0.707011
Target:  5'- uUugGAugUCCCCAUGcCUGaCGAcgggcagGGAGGCc -3'
miRNA:   3'- uGugCU--AGGGGUAC-GAC-GCU-------CCUCCG- -5'
15862 5' -57.5 NC_004065.1 + 158760 0.79 0.293916
Target:  5'- gGCACGGUCCUUAcacaccuucccuUGCUGCGAGGaAGGg -3'
miRNA:   3'- -UGUGCUAGGGGU------------ACGACGCUCC-UCCg -5'
15862 5' -57.5 NC_004065.1 + 158704 0.68 0.825484
Target:  5'- cCGCGAUgCCCAacaGgaGCGAGGAGa- -3'
miRNA:   3'- uGUGCUAgGGGUa--CgaCGCUCCUCcg -5'
15862 5' -57.5 NC_004065.1 + 158338 0.68 0.824664
Target:  5'- gACGCGccgCuCCCGuugccgccgccgcUGCUGCugcuGAGGAGGCc -3'
miRNA:   3'- -UGUGCua-G-GGGU-------------ACGACG----CUCCUCCG- -5'
15862 5' -57.5 NC_004065.1 + 147337 0.69 0.764569
Target:  5'- uCAUGG-CCacgcaCAUGCUGCGccucucggccAGGAGGCa -3'
miRNA:   3'- uGUGCUaGGg----GUACGACGC----------UCCUCCG- -5'
15862 5' -57.5 NC_004065.1 + 146327 0.66 0.898131
Target:  5'- uGCGCGA-UgCCAUGCaGCGccucuucaAGGAGGUc -3'
miRNA:   3'- -UGUGCUaGgGGUACGaCGC--------UCCUCCG- -5'
15862 5' -57.5 NC_004065.1 + 143493 0.68 0.856853
Target:  5'- uCugGAUCCCCAcuucgcccgggaUGCUGUGAGcAGcGUc -3'
miRNA:   3'- uGugCUAGGGGU------------ACGACGCUCcUC-CG- -5'
15862 5' -57.5 NC_004065.1 + 139837 0.66 0.921395
Target:  5'- cCugGAgUCCCGggagGCggGCGAcggcGGAGGCg -3'
miRNA:   3'- uGugCUaGGGGUa---CGa-CGCU----CCUCCG- -5'
15862 5' -57.5 NC_004065.1 + 132983 0.73 0.550982
Target:  5'- cACACGAUCaggCCCGUGCcgaUGCagaaGAGGaAGGCg -3'
miRNA:   3'- -UGUGCUAG---GGGUACG---ACG----CUCC-UCCG- -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.