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
32274	5'	-43.1	NC_007023.1	+	79690	0.67	1
	Target:  5'- --cGCUUCUGgGUAugGGUAAUuuuUGAa -3' miRNA:   3'- guuUGAAGACgUAUugUCGUUGu--ACU- -5'
32274	5'	-43.1	NC_007023.1	+	173075	0.66	1
	Target:  5'- gUAAAgUUCggGCAUAugaacauccaauuGCAGCAACAUa- -3' miRNA:   3'- -GUUUgAAGa-CGUAU-------------UGUCGUUGUAcu -5'
32274	5'	-43.1	NC_007023.1	+	17195	0.66	1
	Target:  5'- gGGACgugcUUUGCGUGACAauGCAGCAg-- -3' miRNA:   3'- gUUUGa---AGACGUAUUGU--CGUUGUacu -5'
32274	5'	-43.1	NC_007023.1	+	80216	0.67	1
	Target:  5'- aAAACUUCUGUucguACAGCAAUc--- -3' miRNA:   3'- gUUUGAAGACGuau-UGUCGUUGuacu -5'
32274	5'	-43.1	NC_007023.1	+	178029	0.67	1
	Target:  5'- uCAAACagcgUCUGCAaaUGACGGguACuguUGAg -3' miRNA:   3'- -GUUUGa---AGACGU--AUUGUCguUGu--ACU- -5'
32274	5'	-43.1	NC_007023.1	+	168137	0.68	0.999999
	Target:  5'- uCAAACcaUCaGCAguugcAACAGCAAUAUGAc -3' miRNA:   3'- -GUUUGa-AGaCGUa----UUGUCGUUGUACU- -5'
32274	5'	-43.1	NC_007023.1	+	145084	0.69	0.99999
	Target:  5'- -cAGgUUCUGCugcAUAGCAAUAUGAa -3' miRNA:   3'- guUUgAAGACGuauUGUCGUUGUACU- -5'
32274	5'	-43.1	NC_007023.1	+	43375	1.12	0.03868
	Target:  5'- aCAAACUUCUGCAUAACAGCAACAUGAg -3' miRNA:   3'- -GUUUGAAGACGUAUUGUCGUUGUACU- -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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