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
15265	5'	-53.3	NC_003840.1	+	538	0.67	0.187145
	Target:  5'- cGCAAAGGCaGCA-AUUU-GCUGCCa- -3' miRNA:   3'- -CGUUUCCGcCGUaUGAAuCGGCGGaa -5'
15265	5'	-53.3	NC_003840.1	+	505	0.68	0.153407
	Target:  5'- aGCAGagaagccAGGgGGCAguaagAGCCGCCUc -3' miRNA:   3'- -CGUU-------UCCgCCGUaugaaUCGGCGGAa -5'
15265	5'	-53.3	NC_003840.1	+	618	0.71	0.091784
	Target:  5'- cGC-AAGGCGGCuaaguauGCCGCCUUu -3' miRNA:   3'- -CGuUUCCGCCGuaugaauCGGCGGAA- -5'
15265	5'	-53.3	NC_003840.1	+	655	0.73	0.061566
	Target:  5'- -aGAAGGCGGCAgcugUGGCUGCCc- -3' miRNA:   3'- cgUUUCCGCCGUaugaAUCGGCGGaa -5'
15265	5'	-53.3	NC_003840.1	+	654	1.08	8.7e-05
	Target:  5'- gGCAAAGGCGGCAUACUUAGCCGCCUUg -3' miRNA:   3'- -CGUUUCCGCCGUAUGAAUCGGCGGAA- -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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