miRNA display CGI


Results 1 - 20 of 21 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
1428 5' -54.7 NC_001335.1 + 360 0.66 0.750697
Target:  5'- -cGGAUC-UCaagGCCGCGCCAGuGCGCg -3'
miRNA:   3'- ccUCUAGcAGg--UGGCGUGGUU-CGUGa -5'
1428 5' -54.7 NC_001335.1 + 33478 0.66 0.740214
Target:  5'- cGGAGAcuccuggcaucuUCG-CCACCGUGCCuguggGAGCGa- -3'
miRNA:   3'- -CCUCU------------AGCaGGUGGCGUGG-----UUCGUga -5'
1428 5' -54.7 NC_001335.1 + 5354 0.66 0.740214
Target:  5'- cGAGAUCG-CCugCGCG---AGCGCg -3'
miRNA:   3'- cCUCUAGCaGGugGCGUgguUCGUGa -5'
1428 5' -54.7 NC_001335.1 + 47025 0.66 0.740214
Target:  5'- aGGAcaaGGUCGccaagCUGCUGCGCCAGGC-Cg -3'
miRNA:   3'- -CCU---CUAGCa----GGUGGCGUGGUUCGuGa -5'
1428 5' -54.7 NC_001335.1 + 4997 0.66 0.72962
Target:  5'- cGGGGUgGUCCAUCGuCAUCAAcGUGCa -3'
miRNA:   3'- cCUCUAgCAGGUGGC-GUGGUU-CGUGa -5'
1428 5' -54.7 NC_001335.1 + 39223 0.66 0.708149
Target:  5'- cGGAGAccUC-UUCGCCGC-CCucGGCACg -3'
miRNA:   3'- -CCUCU--AGcAGGUGGCGuGGu-UCGUGa -5'
1428 5' -54.7 NC_001335.1 + 24855 0.67 0.697294
Target:  5'- uGGAcAUCGU-CGCCGCugagaucuUCGAGCACUa -3'
miRNA:   3'- -CCUcUAGCAgGUGGCGu-------GGUUCGUGA- -5'
1428 5' -54.7 NC_001335.1 + 13665 0.67 0.697294
Target:  5'- gGGuGGUCGaguUCUGCCGCGCCAgauuGGCu-- -3'
miRNA:   3'- -CCuCUAGC---AGGUGGCGUGGU----UCGuga -5'
1428 5' -54.7 NC_001335.1 + 35246 0.67 0.697294
Target:  5'- aGGucAUCGUCCAgCGggacgagACCAAGCACc -3'
miRNA:   3'- -CCucUAGCAGGUgGCg------UGGUUCGUGa -5'
1428 5' -54.7 NC_001335.1 + 16827 0.67 0.686375
Target:  5'- cGGAGAucucuUCGUCuCGCUGaUGCC-GGCGCUg -3'
miRNA:   3'- -CCUCU-----AGCAG-GUGGC-GUGGuUCGUGA- -5'
1428 5' -54.7 NC_001335.1 + 32848 0.67 0.675403
Target:  5'- cGAGGcCGUCguCACCGuCGCCGacGGCGCg -3'
miRNA:   3'- cCUCUaGCAG--GUGGC-GUGGU--UCGUGa -5'
1428 5' -54.7 NC_001335.1 + 30142 0.67 0.664391
Target:  5'- uGGAGGUCGaaggaggcguUCUGgaGCACCAuGCGCUu -3'
miRNA:   3'- -CCUCUAGC----------AGGUggCGUGGUuCGUGA- -5'
1428 5' -54.7 NC_001335.1 + 51147 0.67 0.653347
Target:  5'- --cGAUCauUCCAUCGCGCCAAGaGCUa -3'
miRNA:   3'- ccuCUAGc-AGGUGGCGUGGUUCgUGA- -5'
1428 5' -54.7 NC_001335.1 + 21013 0.68 0.587026
Target:  5'- cGAGAUCGgUUACCGCgaaccgaagaACCcAGCACUa -3'
miRNA:   3'- cCUCUAGCaGGUGGCG----------UGGuUCGUGA- -5'
1428 5' -54.7 NC_001335.1 + 9560 0.69 0.576053
Target:  5'- uGGAGAcCGUCUGgCGagacCCGAGCACUc -3'
miRNA:   3'- -CCUCUaGCAGGUgGCgu--GGUUCGUGA- -5'
1428 5' -54.7 NC_001335.1 + 17478 0.69 0.536994
Target:  5'- uGGAGAugaucuccgugagguUCG-CCAgCGCGCCGaugAGCGCg -3'
miRNA:   3'- -CCUCU---------------AGCaGGUgGCGUGGU---UCGUGa -5'
1428 5' -54.7 NC_001335.1 + 39808 0.7 0.500978
Target:  5'- --cGGUCGUCCACgGCGgCGcucgcGGCGCUg -3'
miRNA:   3'- ccuCUAGCAGGUGgCGUgGU-----UCGUGA- -5'
1428 5' -54.7 NC_001335.1 + 2822 0.7 0.480294
Target:  5'- cGGGGAUCGU-CACCagACCGGGCAUc -3'
miRNA:   3'- -CCUCUAGCAgGUGGcgUGGUUCGUGa -5'
1428 5' -54.7 NC_001335.1 + 14391 0.7 0.47011
Target:  5'- aGGAGcagCGgugCCugCGCACCGAcGUACa -3'
miRNA:   3'- -CCUCua-GCa--GGugGCGUGGUU-CGUGa -5'
1428 5' -54.7 NC_001335.1 + 20629 0.79 0.142996
Target:  5'- gGGAGGucaaUCGcUCCaccgACCGCGCCGAGCGCg -3'
miRNA:   3'- -CCUCU----AGC-AGG----UGGCGUGGUUCGUGa -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.