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
31450	5'	-46.8	NC_006646.1	+	1308	0.71	0.737779
	Target:  5'- -cUUGAUCAGGUcUGAuCAGGcCUGAg -3' miRNA:   3'- caGACUAGUCUAuACUuGUCCaGACU- -5'
31450	5'	-46.8	NC_006646.1	+	1215	0.73	0.629048
	Target:  5'- aUUUGAugcuUCAGAUAUGAACAGGcaUGAa -3' miRNA:   3'- cAGACU----AGUCUAUACUUGUCCagACU- -5'
31450	5'	-46.8	NC_006646.1	+	1372	0.76	0.463087
	Target:  5'- -cUUGAUCAGGUcUGuuCAGGUCUGAg -3' miRNA:   3'- caGACUAGUCUAuACuuGUCCAGACU- -5'
31450	5'	-46.8	NC_006646.1	+	1105	0.78	0.359591
	Target:  5'- --aUGAaCAGAcAUGGACAGGUCUGAu -3' miRNA:   3'- cagACUaGUCUaUACUUGUCCAGACU- -5'
31450	5'	-46.8	NC_006646.1	+	1160	0.8	0.281191
	Target:  5'- -cUUGAUCAGGUcUGAuCAGGUCUGAg -3' miRNA:   3'- caGACUAGUCUAuACUuGUCCAGACU- -5'
31450	5'	-46.8	NC_006646.1	+	1244	0.82	0.236865
	Target:  5'- -cUUGAUCAGAUcUGAuCAGGUCUGAg -3' miRNA:   3'- caGACUAGUCUAuACUuGUCCAGACU- -5'
31450	5'	-46.8	NC_006646.1	+	1014	0.84	0.160772
	Target:  5'- -cCUGAUCAGGUAUGAuCAGGcCUGAa -3' miRNA:   3'- caGACUAGUCUAUACUuGUCCaGACU- -5'
31450	5'	-46.8	NC_006646.1	+	1035	1.1	0.003001
	Target:  5'- aGUCUGAUCAGAUAUGAACAGGUCUGAu -3' miRNA:   3'- -CAGACUAGUCUAUACUUGUCCAGACU- -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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