miRNA display CGI

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ID	Location	Perfect MFE.*	RefSeq Acc.	strand	Start Position	R_P_ratio#	P value
	Predicted miRNA align pattern
766	5'	-52.7	NC_000852.3	+	210443	0.66	0.99754
	Target:  5'- uUCU-CCCGCAuugauAACGCCACucUGUCUc- -3' miRNA:   3'- -AGAcGGGCGU-----UUGUGGUGu-GCAGAaa -5'
766	5'	-52.7	NC_000852.3	+	200323	0.67	0.99196
	Target:  5'- -gUGUCUGCAAACACCAagaAUGUUa-- -3' miRNA:   3'- agACGGGCGUUUGUGGUg--UGCAGaaa -5'
766	5'	-52.7	NC_000852.3	+	165131	0.67	0.991301
	Target:  5'- gUUUGCCCGCcuagcucagucgguaGAGCGCCAgAC-UCUUa -3' miRNA:   3'- -AGACGGGCG---------------UUUGUGGUgUGcAGAAa -5'
766	5'	-52.7	NC_000852.3	+	96653	0.67	0.990839
	Target:  5'- uUCUGCCCGUugcagucacAGACGCCGCGa-UCg-- -3' miRNA:   3'- -AGACGGGCG---------UUUGUGGUGUgcAGaaa -5'
766	5'	-52.7	NC_000852.3	+	301538	1.07	0.015027
	Target:  5'- aUCUGCCCGCAAACACCACACGUCUUUg -3' miRNA:   3'- -AGACGGGCGUUUGUGGUGUGCAGAAA- -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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