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
32859	3'	-49.6	NC_007383.1	+	95628	0.66	0.994611
	Target:  5'- --aGAGUCcaa-GACGUCGAAAUGCAa -3' miRNA:   3'- aagCUCAGcacgCUGUAGUUUUGCGU- -5'
32859	3'	-49.6	NC_007383.1	+	107786	0.66	0.993725
	Target:  5'- aUUCGAcGUCG-GCGACAUUAAauucGACuGCu -3' miRNA:   3'- -AAGCU-CAGCaCGCUGUAGUU----UUG-CGu -5'
32859	3'	-49.6	NC_007383.1	+	20641	0.66	0.993725
	Target:  5'- -aUGGcGUCG-GCGACAaCGGAACGCc -3' miRNA:   3'- aaGCU-CAGCaCGCUGUaGUUUUGCGu -5'
32859	3'	-49.6	NC_007383.1	+	76952	0.68	0.974353
	Target:  5'- gUCGAuGUCGUGCuuCAUCAAuaaauaauGGCGCc -3' miRNA:   3'- aAGCU-CAGCACGcuGUAGUU--------UUGCGu -5'
32859	3'	-49.6	NC_007383.1	+	94722	0.7	0.936587
	Target:  5'- gUUCGAGaUGUGUGACAUCGGAuugacgagaaccagcAUGCGu -3' miRNA:   3'- -AAGCUCaGCACGCUGUAGUUU---------------UGCGU- -5'
32859	3'	-49.6	NC_007383.1	+	130175	0.71	0.911225
	Target:  5'- -cCGAGUCGacaggacucGCGAguguCGUCAAAACGCAc -3' miRNA:   3'- aaGCUCAGCa--------CGCU----GUAGUUUUGCGU- -5'
32859	3'	-49.6	NC_007383.1	+	94919	1.07	0.013224
	Target:  5'- gUUCGAGUCGUGCGACAUCAAAACGCAu -3' miRNA:   3'- -AAGCUCAGCACGCUGUAGUUUUGCGU- -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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