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
18321	5'	-58	NC_004681.1	+	16383	0.67	0.534808
	Target:  5'- aGUGGGUUGCcucggCCACCUCcaAGGGuGAc -3' miRNA:   3'- -CACCCAACGa----GGUGGAGccUCUC-CUu -5'
18321	5'	-58	NC_004681.1	+	31833	0.68	0.48384
	Target:  5'- -cGGGUcgGCgccugCCACUUCGGAcAGGAGc -3' miRNA:   3'- caCCCAa-CGa----GGUGGAGCCUcUCCUU- -5'
18321	5'	-58	NC_004681.1	+	64550	0.68	0.477876
	Target:  5'- -gGGGUggGaCUUCAuguaucggucccagcCCUCGGAGAGGAGc -3' miRNA:   3'- caCCCAa-C-GAGGU---------------GGAGCCUCUCCUU- -5'
18321	5'	-58	NC_004681.1	+	10295	0.69	0.454398
	Target:  5'- uGUGGccggUGCUCCA-CUCGGAGccGGGGAg -3' miRNA:   3'- -CACCca--ACGAGGUgGAGCCUC--UCCUU- -5'
18321	5'	-58	NC_004681.1	+	61691	0.69	0.41671
	Target:  5'- aGUGGGUgcagucaaugUGCUucCUugUUCGGAGGGGGc -3' miRNA:   3'- -CACCCA----------ACGA--GGugGAGCCUCUCCUu -5'
18321	5'	-58	NC_004681.1	+	14709	0.73	0.234684
	Target:  5'- gGUGGGUUaCaCCGCCUCGGAGuugcAGGAAg -3' miRNA:   3'- -CACCCAAcGaGGUGGAGCCUC----UCCUU- -5'
18321	5'	-58	NC_004681.1	+	51671	1.05	0.001277
	Target:  5'- gGUGGGUUGCUCCACCUCGGAGAGGAAc -3' miRNA:   3'- -CACCCAACGAGGUGGAGCCUCUCCUU- -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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