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
17491	5'	-56.1	NC_004456.1	+	36493	0.66	0.560384
	Target:  5'- -aGCGGCcauAUUGGCGGUAacaaauGUCAucCACCa -3' miRNA:   3'- gaCGCCG---UGACCGUCGU------UAGU--GUGGa -5'
17491	5'	-56.1	NC_004456.1	+	35169	0.66	0.538261
	Target:  5'- aCUGguacCGGCACUGGUAGCGGccugcaaugacUcCGCGCUg -3' miRNA:   3'- -GAC----GCCGUGACCGUCGUU-----------A-GUGUGGa -5'
17491	5'	-56.1	NC_004456.1	+	13556	0.66	0.52731
	Target:  5'- aUGUGGCGCaucaacGGCAGCGGcuucUCGCAUg- -3' miRNA:   3'- gACGCCGUGa-----CCGUCGUU----AGUGUGga -5'
17491	5'	-56.1	NC_004456.1	+	28006	0.69	0.394728
	Target:  5'- -aGCGGUGCUGGCAaCAAUgGuuCACCg -3' miRNA:   3'- gaCGCCGUGACCGUcGUUAgU--GUGGa -5'
17491	5'	-56.1	NC_004456.1	+	32438	0.71	0.278349
	Target:  5'- -gGCGGuCGgUGGCGGCAAgaugaaACACCUu -3' miRNA:   3'- gaCGCC-GUgACCGUCGUUag----UGUGGA- -5'
17491	5'	-56.1	NC_004456.1	+	23482	0.72	0.250539
	Target:  5'- -aGCGGCAggcugccgGGUAGCGGUCAuCACCg -3' miRNA:   3'- gaCGCCGUga------CCGUCGUUAGU-GUGGa -5'
17491	5'	-56.1	NC_004456.1	+	35668	1.08	0.000555
	Target:  5'- gCUGCGGCACUGGCAGCAAUCACACCUg -3' miRNA:   3'- -GACGCCGUGACCGUCGUUAGUGUGGA- -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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