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
10677	5'	-51.1	NC_002730.1	+	8132	0.66	0.843943
	Target:  5'- gUGGCUUGGAUCGUCuuUGGuuuaucuauGGCCGu -3' miRNA:   3'- gACCGAGUUUAGCAGucGCUu--------UCGGC- -5'
10677	5'	-51.1	NC_002730.1	+	24301	0.67	0.778327
	Target:  5'- aUGGCUUAGGUaagagccagcaauuaCGcCAGCGuguAGCCGc -3' miRNA:   3'- gACCGAGUUUA---------------GCaGUCGCuu-UCGGC- -5'
10677	5'	-51.1	NC_002730.1	+	4077	0.67	0.76333
	Target:  5'- uUGGCUUuAcgCGUUGGCGAAuaaucauuucuGCCGg -3' miRNA:   3'- gACCGAGuUuaGCAGUCGCUUu----------CGGC- -5'
10677	5'	-51.1	NC_002730.1	+	26129	0.7	0.626464
	Target:  5'- -cGGCUCAAcAUCaGUCAGCGAugcauuagAAGCa- -3' miRNA:   3'- gaCCGAGUU-UAG-CAGUCGCU--------UUCGgc -5'
10677	5'	-51.1	NC_002730.1	+	19055	0.71	0.534186
	Target:  5'- aCUGGCUUggGUUGUUucGCGGuacuGCCGu -3' miRNA:   3'- -GACCGAGuuUAGCAGu-CGCUuu--CGGC- -5'
10677	5'	-51.1	NC_002730.1	+	34064	0.8	0.167404
	Target:  5'- cCUGGCUUu-GUUGUUGGCGGAAGCCu -3' miRNA:   3'- -GACCGAGuuUAGCAGUCGCUUUCGGc -5'
10677	5'	-51.1	NC_002730.1	+	11799	1.09	0.001671
	Target:  5'- uCUGGCUCAAAUCGUCAGCGAAAGCCGu -3' miRNA:   3'- -GACCGAGUUUAGCAGUCGCUUUCGGC- -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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