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
2516 3' -59.3 NC_001454.1 + 14659 0.66 0.376837
Target:  5'- cUGCugCGCaGCGGCaGGguuCCGUGAucugugAgGGCg -3'
miRNA:   3'- -ACGugGCG-CGCCG-CC---GGUACU------UgUCG- -5'
2516 3' -59.3 NC_001454.1 + 16113 0.66 0.367973
Target:  5'- aGC-CCGUGCGGUugcGGCCAcgcgagaGAugGGUu -3'
miRNA:   3'- aCGuGGCGCGCCG---CCGGUa------CUugUCG- -5'
2516 3' -59.3 NC_001454.1 + 11409 0.67 0.325835
Target:  5'- aUGCugCGUucgacgGCGGUGGCgGacgGGucGCAGCa -3'
miRNA:   3'- -ACGugGCG------CGCCGCCGgUa--CU--UGUCG- -5'
2516 3' -59.3 NC_001454.1 + 6559 0.67 0.310012
Target:  5'- uUGCACCaGgGCGGCGGuaacaagcacauCCAgGGcACAGUa -3'
miRNA:   3'- -ACGUGG-CgCGCCGCC------------GGUaCU-UGUCG- -5'
2516 3' -59.3 NC_001454.1 + 20750 0.67 0.310012
Target:  5'- aGgACCGUuuuCGGCGGCCu---GCGGCc -3'
miRNA:   3'- aCgUGGCGc--GCCGCCGGuacuUGUCG- -5'
2516 3' -59.3 NC_001454.1 + 9900 0.67 0.310012
Target:  5'- gGUgauGCCG-GCGGCGGUaGUG-GCGGCg -3'
miRNA:   3'- aCG---UGGCgCGCCGCCGgUACuUGUCG- -5'
2516 3' -59.3 NC_001454.1 + 11235 0.67 0.287387
Target:  5'- aGC-UCGCGaCGGCGGCUGgcgcucACAGCu -3'
miRNA:   3'- aCGuGGCGC-GCCGCCGGUacu---UGUCG- -5'
2516 3' -59.3 NC_001454.1 + 16385 0.67 0.287387
Target:  5'- gUGCGCCuugaGCGGCGGC---GGACAGa -3'
miRNA:   3'- -ACGUGGcg--CGCCGCCGguaCUUGUCg -5'
2516 3' -59.3 NC_001454.1 + 10733 0.68 0.273038
Target:  5'- cGCACCcugguggcGCGCgaggaGGUGGCCAUuGGGCugauGCa -3'
miRNA:   3'- aCGUGG--------CGCG-----CCGCCGGUA-CUUGu---CG- -5'
2516 3' -59.3 NC_001454.1 + 32067 0.68 0.25927
Target:  5'- gUGCugCGCucgucggacGCGGCGGCUGcUGGccaagGCGGUg -3'
miRNA:   3'- -ACGugGCG---------CGCCGCCGGU-ACU-----UGUCG- -5'
2516 3' -59.3 NC_001454.1 + 16600 0.68 0.2526
Target:  5'- cUGCGCaaagCGCGuCGGCGGCCAcugcccgccaUGccucuccuACGGCg -3'
miRNA:   3'- -ACGUG----GCGC-GCCGCCGGU----------ACu-------UGUCG- -5'
2516 3' -59.3 NC_001454.1 + 15179 0.69 0.233439
Target:  5'- cGC-CCGUcaggccGCGGCGGCUAUugcCAGCa -3'
miRNA:   3'- aCGuGGCG------CGCCGCCGGUAcuuGUCG- -5'
2516 3' -59.3 NC_001454.1 + 10642 0.7 0.198782
Target:  5'- gGCGCaCGUGuCGGCGGCCGauuUGGuaACcGCg -3'
miRNA:   3'- aCGUG-GCGC-GCCGCCGGU---ACU--UGuCG- -5'
2516 3' -59.3 NC_001454.1 + 11890 0.7 0.188266
Target:  5'- aUGUGCCGCGCGGgcaggaGGaCUAUGu-CAGCu -3'
miRNA:   3'- -ACGUGGCGCGCCg-----CC-GGUACuuGUCG- -5'
2516 3' -59.3 NC_001454.1 + 17492 0.7 0.183193
Target:  5'- aGCcCCGCGagGGCGGCgGgcggGggUAGCc -3'
miRNA:   3'- aCGuGGCGCg-CCGCCGgUa---CuuGUCG- -5'
2516 3' -59.3 NC_001454.1 + 141 0.71 0.164095
Target:  5'- gGCGCgGUGCGGCGGaaGUGA-CGGa -3'
miRNA:   3'- aCGUGgCGCGCCGCCggUACUuGUCg -5'
2516 3' -59.3 NC_001454.1 + 10976 0.71 0.159609
Target:  5'- aGCugGCCGacaagGUGGCGGCCAUuaauuACAGCa -3'
miRNA:   3'- aCG--UGGCg----CGCCGCCGGUAcu---UGUCG- -5'
2516 3' -59.3 NC_001454.1 + 34074 0.73 0.110631
Target:  5'- gGCGCgGUGCGGCGGaaGUGAcgauaugugaaACAGUa -3'
miRNA:   3'- aCGUGgCGCGCCGCCggUACU-----------UGUCG- -5'
2516 3' -59.3 NC_001454.1 + 16662 0.74 0.104474
Target:  5'- uUGCGCCuaugGCGGCGGCgAUGAugGGa -3'
miRNA:   3'- -ACGUGGcg--CGCCGCCGgUACUugUCg -5'
2516 3' -59.3 NC_001454.1 + 15131 0.74 0.101518
Target:  5'- aGUACCGCccgaGCGGCaGUCAUG-GCGGCa -3'
miRNA:   3'- aCGUGGCG----CGCCGcCGGUACuUGUCG- -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.