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
31307	5'	-54.5	NC_006623.1	+	2646	1.09	0.003833
	Target:  5'- uUCACUGAGCCGACCAGAUCCACUGAGu -3' miRNA:   3'- -AGUGACUCGGCUGGUCUAGGUGACUC- -5'
31307	5'	-54.5	NC_006623.1	+	2505	0.69	0.808576
	Target:  5'- gCACUGAuCUGuCCAGGUgCACUGAa -3' miRNA:   3'- aGUGACUcGGCuGGUCUAgGUGACUc -5'
31307	5'	-54.5	NC_006623.1	+	45702	0.66	0.930789
	Target:  5'- gUACUgGAGCCGuACCAGAaugCCGgUGGu -3' miRNA:   3'- aGUGA-CUCGGC-UGGUCUa--GGUgACUc -5'
31307	5'	-54.5	NC_006623.1	+	130517	0.66	0.94533
	Target:  5'- -gACUGAGCCG-CCGGGg--ACUGAa -3' miRNA:   3'- agUGACUCGGCuGGUCUaggUGACUc -5'
31307	5'	-54.5	NC_006623.1	+	45909	0.66	0.949692
	Target:  5'- -uGCUGcuccuacaauGCCGGCCAauUCUGCUGAGa -3' miRNA:   3'- agUGACu---------CGGCUGGUcuAGGUGACUC- -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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