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
21162	5'	-47.2	NC_004777.1	+	891	1.05	0.005969
	Target:  5'- gAUACCCUUGAGUUAUCCGCUAUUCAUg -3' miRNA:   3'- -UAUGGGAACUCAAUAGGCGAUAAGUA- -5'
21162	5'	-47.2	NC_004777.1	+	21855	0.73	0.62905
	Target:  5'- cUGCCgcUGAGUUAUCCGCUGUg--- -3' miRNA:   3'- uAUGGgaACUCAAUAGGCGAUAagua -5'
21162	5'	-47.2	NC_004777.1	+	36163	0.71	0.737999
	Target:  5'- -gACCCUUGAGUUGcUCGCUAa---- -3' miRNA:   3'- uaUGGGAACUCAAUaGGCGAUaagua -5'
21162	5'	-47.2	NC_004777.1	+	26565	0.7	0.794607
	Target:  5'- -cACCgUUGAGUUccacUCgGCUGUUCAUg -3' miRNA:   3'- uaUGGgAACUCAAu---AGgCGAUAAGUA- -5'
21162	5'	-47.2	NC_004777.1	+	12662	0.66	0.954356
	Target:  5'- -cACCCUUGuGcUGUCgCGCUugAUUCAc -3' miRNA:   3'- uaUGGGAACuCaAUAG-GCGA--UAAGUa -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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