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
3514	5'	-51.7	NC_001623.1	+	6404	0.66	0.975978
	Target:  5'- aCGAUugUGG-GCAccGGCGCAGgCGc- -3' miRNA:   3'- -GUUAugAUCgCGUuaCCGCGUC-GCac -5'
3514	5'	-51.7	NC_001623.1	+	37338	0.66	0.975978
	Target:  5'- ------gGGCGCuuguUGGUGCGGCGg- -3' miRNA:   3'- guuaugaUCGCGuu--ACCGCGUCGCac -5'
3514	5'	-51.7	NC_001623.1	+	76630	0.66	0.973244
	Target:  5'- ---cGCUAGUGCccguggguAUGGCGCcGCGa- -3' miRNA:   3'- guuaUGAUCGCGu-------UACCGCGuCGCac -5'
3514	5'	-51.7	NC_001623.1	+	6027	0.68	0.938015
	Target:  5'- uCGGUGgaGGCGCAGgcggGGCugGCGGCGg- -3' miRNA:   3'- -GUUAUgaUCGCGUUa---CCG--CGUCGCac -5'
3514	5'	-51.7	NC_001623.1	+	87594	0.68	0.921654
	Target:  5'- ---gGCU-GCGCg--GGCGCGGCGg- -3' miRNA:   3'- guuaUGAuCGCGuuaCCGCGUCGCac -5'
3514	5'	-51.7	NC_001623.1	+	11936	0.69	0.889111
	Target:  5'- ------cGGCGCcGUGGCGCGGCa-- -3' miRNA:   3'- guuaugaUCGCGuUACCGCGUCGcac -5'
3514	5'	-51.7	NC_001623.1	+	87654	0.71	0.815291
	Target:  5'- ---gGCU-GCGCGGacgcUGGCGCGGCGa- -3' miRNA:   3'- guuaUGAuCGCGUU----ACCGCGUCGCac -5'
3514	5'	-51.7	NC_001623.1	+	120308	1.08	0.006586
	Target:  5'- gCAAUACUAGCGCAAUGGCGCAGCGUGc -3' miRNA:   3'- -GUUAUGAUCGCGUUACCGCGUCGCAC- -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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