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
29343	3'	-51.2	NC_006150.1	+	122571	0.66	0.998357
	Target:  5'- cCACACCACGuuUCGUGGcacuaccGuGcCGUCc -3' miRNA:   3'- -GUGUGGUGUuuAGCACC-------CuCaGCAGu -5'
29343	3'	-51.2	NC_006150.1	+	88396	0.67	0.992957
	Target:  5'- cCAUACCGCAgGAUCcagcccgcggcgggGUGGG-GUUGUCGa -3' miRNA:   3'- -GUGUGGUGU-UUAG--------------CACCCuCAGCAGU- -5'
29343	3'	-51.2	NC_006150.1	+	1626	0.68	0.991134
	Target:  5'- uGCugCGCAGggCGUGGGcGUaggcaGUCAc -3' miRNA:   3'- gUGugGUGUUuaGCACCCuCAg----CAGU- -5'
29343	3'	-51.2	NC_006150.1	+	201550	0.69	0.983565
	Target:  5'- uUugACCGCGGAUugCGUGGcGAGgcUCGUCu -3' miRNA:   3'- -GugUGGUGUUUA--GCACC-CUC--AGCAGu -5'
29343	3'	-51.2	NC_006150.1	+	204917	0.71	0.955192
	Target:  5'- aCACGCCGCAGAUUGUGGuuGGGcUCaUCGa -3' miRNA:   3'- -GUGUGGUGUUUAGCACC--CUC-AGcAGU- -5'
29343	3'	-51.2	NC_006150.1	+	216989	0.75	0.795313
	Target:  5'- gACACCACuuGUCGUGGGuuUCG-CGa -3' miRNA:   3'- gUGUGGUGuuUAGCACCCucAGCaGU- -5'
29343	3'	-51.2	NC_006150.1	+	183991	1.09	0.012438
	Target:  5'- gCACACCACAAAUCGUGGGAGUCGUCAg -3' miRNA:   3'- -GUGUGGUGUUUAGCACCCUCAGCAGU- -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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