miRNA display CGI


Results 1 - 20 of 49 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
30460 3' -62.5 NC_006548.1 + 1148 0.68 0.204628
Target:  5'- gGGC-GUCaGCGAugcugagcuGCGCCgGCUGGGUCg -3'
miRNA:   3'- aCCGuCAG-CGCU---------CGCGGaCGGUCCGG- -5'
30460 3' -62.5 NC_006548.1 + 1936 0.7 0.144441
Target:  5'- gGuGCAGcCGCGcGCGCUUGCCcgcGGCa -3'
miRNA:   3'- aC-CGUCaGCGCuCGCGGACGGu--CCGg -5'
30460 3' -62.5 NC_006548.1 + 2341 0.74 0.067907
Target:  5'- aUGGCAGcacacuugaGCGAGgCGCacccGCCAGGCCg -3'
miRNA:   3'- -ACCGUCag-------CGCUC-GCGga--CGGUCCGG- -5'
30460 3' -62.5 NC_006548.1 + 2945 0.72 0.100842
Target:  5'- aUGGCcGacaacaucgccuUCGaCGAGCGCCUGCaggcGGCCa -3'
miRNA:   3'- -ACCGuC------------AGC-GCUCGCGGACGgu--CCGG- -5'
30460 3' -62.5 NC_006548.1 + 4483 0.67 0.227118
Target:  5'- cUGGCucgucuuGUCGCGGcCGCUggUGCuCAGGCg -3'
miRNA:   3'- -ACCGu------CAGCGCUcGCGG--ACG-GUCCGg -5'
30460 3' -62.5 NC_006548.1 + 4577 0.66 0.271481
Target:  5'- cGGCAuccaggCGCugaucGAGCGCCUGagcaCCAgcGGCCg -3'
miRNA:   3'- aCCGUca----GCG-----CUCGCGGAC----GGU--CCGG- -5'
30460 3' -62.5 NC_006548.1 + 7324 0.66 0.271481
Target:  5'- cGGCAGcuacaGAGCGCCgGUCAGGg- -3'
miRNA:   3'- aCCGUCagcg-CUCGCGGaCGGUCCgg -5'
30460 3' -62.5 NC_006548.1 + 7774 0.7 0.133058
Target:  5'- aGGacaAGgaagCGCagGGGCGCCUGCU-GGCCa -3'
miRNA:   3'- aCCg--UCa---GCG--CUCGCGGACGGuCCGG- -5'
30460 3' -62.5 NC_006548.1 + 10107 0.66 0.258136
Target:  5'- cGGCuccugaugCGCucGCGCUUGCUgcguGGGCCa -3'
miRNA:   3'- aCCGuca-----GCGcuCGCGGACGG----UCCGG- -5'
30460 3' -62.5 NC_006548.1 + 11970 0.66 0.271481
Target:  5'- aGGaCGaUCaGCGAGCGgCgcaGCCAGGCa -3'
miRNA:   3'- aCC-GUcAG-CGCUCGCgGa--CGGUCCGg -5'
30460 3' -62.5 NC_006548.1 + 12545 0.66 0.257483
Target:  5'- cUGGCcuGGUucgauucCGuCGAGCGCUUcaacGCCGGGCg -3'
miRNA:   3'- -ACCG--UCA-------GC-GCUCGCGGA----CGGUCCGg -5'
30460 3' -62.5 NC_006548.1 + 12588 0.66 0.264741
Target:  5'- aGGcCAGcUgGUcGGCGCCggaUGCCgAGGCCa -3'
miRNA:   3'- aCC-GUC-AgCGcUCGCGG---ACGG-UCCGG- -5'
30460 3' -62.5 NC_006548.1 + 12774 0.72 0.102835
Target:  5'- aGGCAGUCGCGAcuuccuaccgGCaCCUgagcuguauugcucGCCAGuGCCg -3'
miRNA:   3'- aCCGUCAGCGCU----------CGcGGA--------------CGGUC-CGG- -5'
30460 3' -62.5 NC_006548.1 + 12832 0.67 0.239129
Target:  5'- cGGUaggaAGUCGCGAcUGCCUGCgAacaGCCg -3'
miRNA:   3'- aCCG----UCAGCGCUcGCGGACGgUc--CGG- -5'
30460 3' -62.5 NC_006548.1 + 13109 0.75 0.054022
Target:  5'- -aGCAgGUCGCGcGCGCCaaCCAGGCCg -3'
miRNA:   3'- acCGU-CAGCGCuCGCGGacGGUCCGG- -5'
30460 3' -62.5 NC_006548.1 + 13530 0.66 0.264074
Target:  5'- gUGGCAGUUGaucacucugcugcUGAccuuccucgGUGCCUGCgCGGGCg -3'
miRNA:   3'- -ACCGUCAGC-------------GCU---------CGCGGACG-GUCCGg -5'
30460 3' -62.5 NC_006548.1 + 14245 0.67 0.227118
Target:  5'- gGGCcuacaUCGagGGGCGCCUgGCCGauGGCCg -3'
miRNA:   3'- aCCGuc---AGCg-CUCGCGGA-CGGU--CCGG- -5'
30460 3' -62.5 NC_006548.1 + 17457 0.67 0.227118
Target:  5'- cGGUGGaaggCGUcGGCGCCgugGCCucGGCCu -3'
miRNA:   3'- aCCGUCa---GCGcUCGCGGa--CGGu-CCGG- -5'
30460 3' -62.5 NC_006548.1 + 19619 0.66 0.271481
Target:  5'- -uGCAGcgcgcgcucCGCGAacGCGCCUGaaAGGCCc -3'
miRNA:   3'- acCGUCa--------GCGCU--CGCGGACggUCCGG- -5'
30460 3' -62.5 NC_006548.1 + 20845 0.67 0.227118
Target:  5'- cGGCAGcagGCG-GCcgGCCuUGaCCAGGCCu -3'
miRNA:   3'- aCCGUCag-CGCuCG--CGG-AC-GGUCCGG- -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.