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
659	5'	-49.2	AC_000017.1	+	2874	0.66	0.915767
	Target:  5'- aGGCUGuGCCUUUUacugcugcuggaagGGGGUGGuguGUCgccCCa -3' miRNA:   3'- -CCGAUuUGGGAAG--------------UCCCACU---UAGa--GG- -5'
659	5'	-49.2	AC_000017.1	+	6185	0.66	0.903953
	Target:  5'- cGGUgauGCCUUUgAGGGUGGccgCgUCCa -3' miRNA:   3'- -CCGauuUGGGAAgUCCCACUua-G-AGG- -5'
659	5'	-49.2	AC_000017.1	+	4212	0.67	0.888908
	Target:  5'- gGGCaUAAGCCCgucUCuGGGGUGGAgguagCaCCa -3' miRNA:   3'- -CCG-AUUUGGGa--AG-UCCCACUUa----GaGG- -5'
659	5'	-49.2	AC_000017.1	+	6068	0.67	0.872662
	Target:  5'- cGCUGucugcgagGGCCagcugUUGGGGUGAGUaCUCCc -3' miRNA:   3'- cCGAU--------UUGGga---AGUCCCACUUA-GAGG- -5'
659	5'	-49.2	AC_000017.1	+	16674	0.68	0.807295
	Target:  5'- gGGCUuguAAUCCUgcucuuccuucuUCGGGGggccauaGAUCUCCg -3' miRNA:   3'- -CCGAu--UUGGGA------------AGUCCCac-----UUAGAGG- -5'
659	5'	-49.2	AC_000017.1	+	7621	0.72	0.615072
	Target:  5'- aGgUAAGCUCUUCAGGG-GAGUUgagCCc -3' miRNA:   3'- cCgAUUUGGGAAGUCCCaCUUAGa--GG- -5'
659	5'	-49.2	AC_000017.1	+	34552	1.16	0.000937
	Target:  5'- aGGCUAAACCCUUCAGGGUGAAUCUCCu -3' miRNA:   3'- -CCGAUUUGGGAAGUCCCACUUAGAGG- -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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