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
423	5'	-55.7	AC_000011.1	+	24919	0.66	0.566715
	Target:  5'- -cGAacGCUCcggaauCCUGcccgCCACCUGCUCg -3' miRNA:   3'- gaCU--CGAGauu---GGACa---GGUGGGCGAG- -5'
423	5'	-55.7	AC_000011.1	+	8208	0.66	0.544343
	Target:  5'- -cGAGgUCUgGACCUG-CCuCCCGCg- -3' miRNA:   3'- gaCUCgAGA-UUGGACaGGuGGGCGag -5'
423	5'	-55.7	AC_000011.1	+	27596	0.66	0.541011
	Target:  5'- gCUGAGCggc--CCUGccaaccuuacuuuuUCCACCCGCa- -3' miRNA:   3'- -GACUCGagauuGGAC--------------AGGUGGGCGag -5'
423	5'	-55.7	AC_000011.1	+	8262	0.67	0.489831
	Target:  5'- cCUGgacAGCUCcGGCCUgcgcgcccucGUCCucgcucuccgACCCGCUCg -3' miRNA:   3'- -GAC---UCGAGaUUGGA----------CAGG----------UGGGCGAG- -5'
423	5'	-55.7	AC_000011.1	+	11004	0.68	0.418166
	Target:  5'- gCUG-GUgaUCaUAACuCUGUCCAgcCCCGCUCa -3' miRNA:   3'- -GACuCG--AG-AUUG-GACAGGU--GGGCGAG- -5'
423	5'	-55.7	AC_000011.1	+	4680	0.73	0.203141
	Target:  5'- uUGAGCUCggaggggggGAUCaUGUCCACCUGCg- -3' miRNA:   3'- gACUCGAGa--------UUGG-ACAGGUGGGCGag -5'
423	5'	-55.7	AC_000011.1	+	36116	1.09	0.000443
	Target:  5'- gCUGAGCUCUAACCUGUCCACCCGCUCu -3' miRNA:   3'- -GACUCGAGAUUGGACAGGUGGGCGAG- -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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