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
31383	3'	-45.1	NC_006623.1	+	130884	0.66	0.999984
	Target:  5'- uAGUGCUGcGCGGuaugaguguaguaAUGGCUg--GCUCu -3' miRNA:   3'- cUCACGACuUGUC-------------UACUGAaaaUGAG- -5'
31383	3'	-45.1	NC_006623.1	+	17275	0.69	0.999527
	Target:  5'- gGAGUa-UGAgGCAGAUGACUggaUGCUCg -3' miRNA:   3'- -CUCAcgACU-UGUCUACUGAaa-AUGAG- -5'
31383	3'	-45.1	NC_006623.1	+	131331	0.72	0.992085
	Target:  5'- cGAGUaCUGAACcGgcGAUUUUUACUCg -3' miRNA:   3'- -CUCAcGACUUGuCuaCUGAAAAUGAG- -5'
31383	3'	-45.1	NC_006623.1	+	131037	0.78	0.863783
	Target:  5'- cGAGUaCUGAACAGgcGGCUcUUACUCa -3' miRNA:   3'- -CUCAcGACUUGUCuaCUGAaAAUGAG- -5'
31383	3'	-45.1	NC_006623.1	+	131106	1.13	0.017272
	Target:  5'- cGAGUGCUGAACAGAUGACUUUUACUCa -3' miRNA:   3'- -CUCACGACUUGUCUACUGAAAAUGAG- -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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