miRNA display CGI


Results 1 - 20 of 72 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
7198 3' -55.6 NC_001900.1 + 967 0.66 0.694646
Target:  5'- gCUGCUGGCCuacGGCCGGcugcGGUACUgCGCg -3'
miRNA:   3'- -GGUGGCCGGu--UUGGCCa---CUAUGG-GUG- -5'
7198 3' -55.6 NC_001900.1 + 1213 0.68 0.53099
Target:  5'- gCACCGGCaacgCAGgcACCGGUGGUguACUCGg -3'
miRNA:   3'- gGUGGCCG----GUU--UGGCCACUA--UGGGUg -5'
7198 3' -55.6 NC_001900.1 + 3282 0.7 0.439155
Target:  5'- gUCACCGGCCGcgacuuccGCUGGUcGAUccCCCACc -3'
miRNA:   3'- -GGUGGCCGGUu-------UGGCCA-CUAu-GGGUG- -5'
7198 3' -55.6 NC_001900.1 + 3503 0.7 0.439155
Target:  5'- cCCGCagGGUCuGGCCGGUGAcAUCCAg -3'
miRNA:   3'- -GGUGg-CCGGuUUGGCCACUaUGGGUg -5'
7198 3' -55.6 NC_001900.1 + 3928 0.72 0.324211
Target:  5'- -aGCUGGCCGAgacGCCGGU---ACCCGCc -3'
miRNA:   3'- ggUGGCCGGUU---UGGCCAcuaUGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 4138 0.66 0.672852
Target:  5'- gCCgACCGGCgAAgcgGCCGGcGGUGacCCCAa -3'
miRNA:   3'- -GG-UGGCCGgUU---UGGCCaCUAU--GGGUg -5'
7198 3' -55.6 NC_001900.1 + 4185 0.66 0.705458
Target:  5'- uCUACCGGCaaccCCGGUaGGcGCaCCACu -3'
miRNA:   3'- -GGUGGCCGguuuGGCCA-CUaUG-GGUG- -5'
7198 3' -55.6 NC_001900.1 + 6006 0.75 0.22718
Target:  5'- -aAUCGGCgCGAGCCGGUGAccUCCGCg -3'
miRNA:   3'- ggUGGCCG-GUUUGGCCACUauGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 7142 0.69 0.489154
Target:  5'- gCCAUCGGCCGGAUC-GUGAUgaagGCCaGCg -3'
miRNA:   3'- -GGUGGCCGGUUUGGcCACUA----UGGgUG- -5'
7198 3' -55.6 NC_001900.1 + 8639 0.66 0.661891
Target:  5'- gCACCGGCgCcccGCUGGUGuu-CCUGCa -3'
miRNA:   3'- gGUGGCCG-Guu-UGGCCACuauGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 8778 0.71 0.383212
Target:  5'- gCCgACCGGCCAca-CGGUcGAggacaugACCCGCg -3'
miRNA:   3'- -GG-UGGCCGGUuugGCCA-CUa------UGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 9769 0.7 0.419985
Target:  5'- cCCACgGGCuCGGcgcggucCCGGUGGU-CCCGCu -3'
miRNA:   3'- -GGUGgCCG-GUUu------GGCCACUAuGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 12246 0.67 0.633291
Target:  5'- aCCACgGGCCAGAagaucCCGcacugggucggcgacGUGAgUGCCCAg -3'
miRNA:   3'- -GGUGgCCGGUUU-----GGC---------------CACU-AUGGGUg -5'
7198 3' -55.6 NC_001900.1 + 13452 0.68 0.552396
Target:  5'- gUCACCGGCCuGAUCGGUGGcgaUGagUACg -3'
miRNA:   3'- -GGUGGCCGGuUUGGCCACU---AUggGUG- -5'
7198 3' -55.6 NC_001900.1 + 14242 0.68 0.552396
Target:  5'- aCCGa-GGUCuccgagauccuGAGCCGGUG-UGCCCGCg -3'
miRNA:   3'- -GGUggCCGG-----------UUUGGCCACuAUGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 17259 0.66 0.683773
Target:  5'- uUCACCgGGCuCGGGCCGGUcaucucgACCgGCa -3'
miRNA:   3'- -GGUGG-CCG-GUUUGGCCAcua----UGGgUG- -5'
7198 3' -55.6 NC_001900.1 + 17466 0.72 0.348642
Target:  5'- -aACCGGCCGAACCGccaGAaGCUCACc -3'
miRNA:   3'- ggUGGCCGGUUUGGCca-CUaUGGGUG- -5'
7198 3' -55.6 NC_001900.1 + 18024 0.68 0.541658
Target:  5'- -uGCCGGUCAucguGCCGGUGG--UCCAg -3'
miRNA:   3'- ggUGGCCGGUu---UGGCCACUauGGGUg -5'
7198 3' -55.6 NC_001900.1 + 18348 0.72 0.348642
Target:  5'- aCCcCCGGCCuuucgGGGCCGGUGGguucGgCCACu -3'
miRNA:   3'- -GGuGGCCGG-----UUUGGCCACUa---UgGGUG- -5'
7198 3' -55.6 NC_001900.1 + 18580 0.66 0.694646
Target:  5'- aCCGCUGGUgcccgacgUGAGCCGGccguUGGUGCCgUACg -3'
miRNA:   3'- -GGUGGCCG--------GUUUGGCC----ACUAUGG-GUG- -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.