miRNA display CGI


Results 1 - 16 of 16 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
2688 5' -53.2 NC_001491.2 + 63521 0.66 0.967885
Target:  5'- uGUCUGaggcGGCGGCCAUcaUGCggCaCGUa -3'
miRNA:   3'- -CAGAUau--CCGCCGGUA--ACGuaGcGCG- -5'
2688 5' -53.2 NC_001491.2 + 20705 0.66 0.953416
Target:  5'- -gCUGUGGuuguaGCGGCCGUUGUGggagcCGCGg -3'
miRNA:   3'- caGAUAUC-----CGCCGGUAACGUa----GCGCg -5'
2688 5' -53.2 NC_001491.2 + 3901 0.66 0.953416
Target:  5'- cUCUcgGGuaGGCCAUguccGCGUagGCGCg -3'
miRNA:   3'- cAGAuaUCcgCCGGUAa---CGUAg-CGCG- -5'
2688 5' -53.2 NC_001491.2 + 108924 0.67 0.94475
Target:  5'- aUCUcgAUccGCGGCCuUUGCGgcuuccaccaccUCGCGCa -3'
miRNA:   3'- cAGA--UAucCGCCGGuAACGU------------AGCGCG- -5'
2688 5' -53.2 NC_001491.2 + 24624 0.67 0.935091
Target:  5'- -----gGGGCGGCCGcUGCcgCG-GCg -3'
miRNA:   3'- cagauaUCCGCCGGUaACGuaGCgCG- -5'
2688 5' -53.2 NC_001491.2 + 146503 0.68 0.926089
Target:  5'- aGUCUGUcaucucggacgugAGGCGGUCGUguucgcugggagaguUGCAcucuUCGCGg -3'
miRNA:   3'- -CAGAUA-------------UCCGCCGGUA---------------ACGU----AGCGCg -5'
2688 5' -53.2 NC_001491.2 + 92397 0.68 0.924424
Target:  5'- aGUCcuugGUGGGCGGCuCAgagGCGggaCGUGUg -3'
miRNA:   3'- -CAGa---UAUCCGCCG-GUaa-CGUa--GCGCG- -5'
2688 5' -53.2 NC_001491.2 + 1097 0.68 0.924424
Target:  5'- aGUCU--AGGCGGagucUGCGUUGUGCu -3'
miRNA:   3'- -CAGAuaUCCGCCgguaACGUAGCGCG- -5'
2688 5' -53.2 NC_001491.2 + 65299 0.68 0.912746
Target:  5'- cGUCaaa--GCGGCCAUcgGCAUCGCa- -3'
miRNA:   3'- -CAGauaucCGCCGGUAa-CGUAGCGcg -5'
2688 5' -53.2 NC_001491.2 + 12524 0.68 0.897411
Target:  5'- cGUCgcggcGGCGGCCGUggaccgagcgggcGCGggagCGCGCg -3'
miRNA:   3'- -CAGauau-CCGCCGGUAa------------CGUa---GCGCG- -5'
2688 5' -53.2 NC_001491.2 + 79468 0.7 0.822711
Target:  5'- -cCUGgaAGGCGuCCAUcUGCGUUGCGCg -3'
miRNA:   3'- caGAUa-UCCGCcGGUA-ACGUAGCGCG- -5'
2688 5' -53.2 NC_001491.2 + 81727 0.7 0.813843
Target:  5'- cGUCUAgucacGGaGCGGCCGgugGCcaCGCGCa -3'
miRNA:   3'- -CAGAUa----UC-CGCCGGUaa-CGuaGCGCG- -5'
2688 5' -53.2 NC_001491.2 + 108827 0.71 0.804799
Target:  5'- cGUCUGacgAGGUGGCC-UUGUccaGCGCg -3'
miRNA:   3'- -CAGAUa--UCCGCCGGuAACGuagCGCG- -5'
2688 5' -53.2 NC_001491.2 + 62469 0.71 0.786226
Target:  5'- uGUUUGUGGGCGGaCAgaUGUAUCGCa- -3'
miRNA:   3'- -CAGAUAUCCGCCgGUa-ACGUAGCGcg -5'
2688 5' -53.2 NC_001491.2 + 54793 0.74 0.606348
Target:  5'- aGUCUGUccaucAGGCGGCCGaaaaaccccgcggagUUGaCcUCGCGCa -3'
miRNA:   3'- -CAGAUA-----UCCGCCGGU---------------AAC-GuAGCGCG- -5'
2688 5' -53.2 NC_001491.2 + 52068 1.13 0.002605
Target:  5'- aGUCUAUAGGCGGCCAUUGCAUCGCGCa -3'
miRNA:   3'- -CAGAUAUCCGCCGGUAACGUAGCGCG- -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.