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
8771	3'	-45.2	NC_002371.2	+	35273	0.66	0.99414
	Target:  5'- aGACgaaGGAgGACGuAUGGCAcgacagcgACGAAGUa -3' miRNA:   3'- gUUGa--CCUaUUGC-UACCGU--------UGUUUCA- -5'
8771	3'	-45.2	NC_002371.2	+	8719	0.67	0.985194
	Target:  5'- aGACUGGAUGGaccgcGGCAACAG-GUa -3' miRNA:   3'- gUUGACCUAUUgcua-CCGUUGUUuCA- -5'
8771	3'	-45.2	NC_002371.2	+	34895	0.67	0.980601
	Target:  5'- aAACUGGcaugGACGAUGGCuuGACGcugaaagcugAAGUg -3' miRNA:   3'- gUUGACCua--UUGCUACCG--UUGU----------UUCA- -5'
8771	3'	-45.2	NC_002371.2	+	4976	0.73	0.831285
	Target:  5'- gGGCUGGGauuUAACGAUaaaGCGACAGGGUu -3' miRNA:   3'- gUUGACCU---AUUGCUAc--CGUUGUUUCA- -5'
8771	3'	-45.2	NC_002371.2	+	5521	1.08	0.009112
	Target:  5'- gCAACUGGAUAACGAUGGCAACAAAGUu -3' miRNA:   3'- -GUUGACCUAUUGCUACCGUUGUUUCA- -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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