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
30916	5'	-51.2	NC_006552.1	+	2913	0.66	0.929829
	Target:  5'- cGCCGAuAGCg--CCGgcGGCaUGGUcGAUa -3' miRNA:   3'- -CGGCU-UCGuaaGGCauUCG-ACCA-CUG- -5'
30916	5'	-51.2	NC_006552.1	+	15259	0.67	0.89043
	Target:  5'- cGUCGucuGCcgUCCGcu-GCUGGUGGu -3' miRNA:   3'- -CGGCuu-CGuaAGGCauuCGACCACUg -5'
30916	5'	-51.2	NC_006552.1	+	64437	0.67	0.875061
	Target:  5'- cGCCGcccucGGCcuggCCGUGguggGGCUGGUGGa -3' miRNA:   3'- -CGGCu----UCGuaa-GGCAU----UCGACCACUg -5'
30916	5'	-51.2	NC_006552.1	+	51545	0.68	0.85352
	Target:  5'- cGCCGAGGCGaagcggaucaccgCCGca--CUGGUGACg -3' miRNA:   3'- -CGGCUUCGUaa-----------GGCauucGACCACUG- -5'
30916	5'	-51.2	NC_006552.1	+	32555	0.68	0.850926
	Target:  5'- gGCCGuAGCGguccuuggcgaaugCCGccAGGCUGGUGAa -3' miRNA:   3'- -CGGCuUCGUaa------------GGCa-UUCGACCACUg -5'
30916	5'	-51.2	NC_006552.1	+	33277	0.68	0.831261
	Target:  5'- cGCCGAuggcgaggcaguaGGCGgaauugaUCgCGUGGGCgaUGGUGGCg -3' miRNA:   3'- -CGGCU-------------UCGUa------AG-GCAUUCG--ACCACUG- -5'
30916	5'	-51.2	NC_006552.1	+	40556	0.7	0.742103
	Target:  5'- cGCCGGAGaagUCCGcgcGCUuGGUGGCc -3' miRNA:   3'- -CGGCUUCguaAGGCauuCGA-CCACUG- -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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