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
30323	5'	-65.8	NC_006383.2	+	12773	0.66	0.085594
	Target:  5'- aUCGGGCACCUCCaacccauagauuGGucuCCCGCgaGCCa -3' miRNA:   3'- cGGCCCGUGGGGG------------UCu--GGGCGg-UGGc -5'
30323	5'	-65.8	NC_006383.2	+	4715	1.1	0.000014
	Target:  5'- cGCCGGGCACCCCCAGACCCGCCACCGg -3' miRNA:   3'- -CGGCCCGUGGGGGUCUGGGCGGUGGC- -5'
30323	5'	-65.8	NC_006383.2	+	4586	0.75	0.016163
	Target:  5'- gGCgGGGgGCCCCCccccGACCUGCCgggcGCCGa -3' miRNA:   3'- -CGgCCCgUGGGGGu---CUGGGCGG----UGGC- -5'
30323	5'	-65.8	NC_006383.2	+	5340	0.72	0.028623
	Target:  5'- aCCGGGacaggggcucCGCCaCCaCAGACCagaGCCACCGa -3' miRNA:   3'- cGGCCC----------GUGG-GG-GUCUGGg--CGGUGGC- -5'
30323	5'	-65.8	NC_006383.2	+	5096	0.72	0.030391
	Target:  5'- gGCCGGGCGCacaCCAGACU--CCACCa -3' miRNA:   3'- -CGGCCCGUGgg-GGUCUGGgcGGUGGc -5'
30323	5'	-65.8	NC_006383.2	+	9160	0.67	0.073978
	Target:  5'- cGCCacucaGGCAgUCCCuuGAgUCGCCACCGa -3' miRNA:   3'- -CGGc----CCGUgGGGGu-CUgGGCGGUGGC- -5'
30323	5'	-65.8	NC_006383.2	+	6156	0.66	0.088118
	Target:  5'- uUCGGGCccaGCCUUCgAGACCCgauaGCUGCCGa -3' miRNA:   3'- cGGCCCG---UGGGGG-UCUGGG----CGGUGGC- -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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