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
32318	3'	-55.6	NC_007024.1	+	54782	0.66	0.657119
	Target:  5'- gAUGAuuUCCUGGgcggcgccuucuCGGCCGGCgUGGUCUGg -3' miRNA:   3'- -UAUU--AGGACC------------GUUGGUCGaGCCGGAC- -5'
32318	3'	-55.6	NC_007024.1	+	39604	0.68	0.534767
	Target:  5'- -gAAUCCaagacGGCGauuGCCaaaaAGCUCGGUCUGg -3' miRNA:   3'- uaUUAGGa----CCGU---UGG----UCGAGCCGGAC- -5'
32318	3'	-55.6	NC_007024.1	+	6938	0.68	0.490967
	Target:  5'- gGUGAUCCaUGGCGugggcagGCCGGUgaaguggCGGCCa- -3' miRNA:   3'- -UAUUAGG-ACCGU-------UGGUCGa------GCCGGac -5'
32318	3'	-55.6	NC_007024.1	+	34159	0.69	0.431075
	Target:  5'- --uAUCCUGGCAgucgaGCCGGgUgCGGgCCUGa -3' miRNA:   3'- uauUAGGACCGU-----UGGUCgA-GCC-GGAC- -5'
32318	3'	-55.6	NC_007024.1	+	12078	0.7	0.421351
	Target:  5'- -gAAUCUUGGCGGCCA--UCGGCgUGc -3' miRNA:   3'- uaUUAGGACCGUUGGUcgAGCCGgAC- -5'
32318	3'	-55.6	NC_007024.1	+	9860	0.77	0.14909
	Target:  5'- --uAUCCgcagcGGCGGCCGGCUUGGCCg- -3' miRNA:   3'- uauUAGGa----CCGUUGGUCGAGCCGGac -5'
32318	3'	-55.6	NC_007024.1	+	28017	1.07	0.00093
	Target:  5'- gAUAAUCCUGGCAACCAGCUCGGCCUGg -3' miRNA:   3'- -UAUUAGGACCGUUGGUCGAGCCGGAC- -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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