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
32857	5'	-47	NC_007383.1	+	56325	0.66	0.999776
	Target:  5'- aGCGCUAgAcCGAcuaaGCCUCGAaacGAAUCg -3' miRNA:   3'- -UGUGAUgUuGCUca--CGGAGCU---UUUAG- -5'
32857	5'	-47	NC_007383.1	+	96653	0.66	0.999776
	Target:  5'- uACACUauuaACAAUGAauuaugcaucuGUGCUUCGAGGggCg -3' miRNA:   3'- -UGUGA----UGUUGCU-----------CACGGAGCUUUuaG- -5'
32857	5'	-47	NC_007383.1	+	94282	0.67	0.999276
	Target:  5'- aGCGCUACAuuugucggcgAUGAGuUGCCUagcAAAGUCg -3' miRNA:   3'- -UGUGAUGU----------UGCUC-ACGGAgc-UUUUAG- -5'
32857	5'	-47	NC_007383.1	+	18510	0.67	0.998896
	Target:  5'- ----aGCAACGAGuUGuCCUCGAGGAa- -3' miRNA:   3'- ugugaUGUUGCUC-AC-GGAGCUUUUag -5'
32857	5'	-47	NC_007383.1	+	73640	0.7	0.986935
	Target:  5'- uACACUACAAUGGGauacgauacGUCUCGuAGGUCg -3' miRNA:   3'- -UGUGAUGUUGCUCa--------CGGAGCuUUUAG- -5'
32857	5'	-47	NC_007383.1	+	46873	0.74	0.936925
	Target:  5'- aACACUACAcucacuuuguGCGAGaUGUUUCGAAAacGUCa -3' miRNA:   3'- -UGUGAUGU----------UGCUC-ACGGAGCUUU--UAG- -5'
32857	5'	-47	NC_007383.1	+	94105	1.11	0.014679
	Target:  5'- aACACUACAACGAGUGCCUCGAAAAUCu -3' miRNA:   3'- -UGUGAUGUUGCUCACGGAGCUUUUAG- -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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