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
3633	5'	-50.3	NC_001650.1	+	60966	0.66	0.998126
	Target:  5'- aACACGCGCCucugcaUGGCG-CUGUCgGUcAUGg -3' miRNA:   3'- -UGUGUGUGG------ACCGUaGAUAGaCA-UGC- -5'
3633	5'	-50.3	NC_001650.1	+	73650	0.66	0.997761
	Target:  5'- cGCAgGUGCCUGGCGUCgggcccgUUGUGCu -3' miRNA:   3'- -UGUgUGUGGACCGUAGaua----GACAUGc -5'
3633	5'	-50.3	NC_001650.1	+	82957	0.67	0.994115
	Target:  5'- -gGCAgACCaGGCA-CUGUCUGgagACGu -3' miRNA:   3'- ugUGUgUGGaCCGUaGAUAGACa--UGC- -5'
3633	5'	-50.3	NC_001650.1	+	164946	0.7	0.96869
	Target:  5'- aGCGCGCgACCUcccccuccucgcucaGGCGgcccuggagagcuUCUGUCUGUGCa -3' miRNA:   3'- -UGUGUG-UGGA---------------CCGU-------------AGAUAGACAUGc -5'
3633	5'	-50.3	NC_001650.1	+	42944	0.7	0.953165
	Target:  5'- -aGCGCGCgUGGUAgugGUCUGUGCa -3' miRNA:   3'- ugUGUGUGgACCGUagaUAGACAUGc -5'
3633	5'	-50.3	NC_001650.1	+	118321	0.78	0.663005
	Target:  5'- gGCGgGCACCUGGCGggg--CUGUACGg -3' miRNA:   3'- -UGUgUGUGGACCGUagauaGACAUGC- -5'
3633	5'	-50.3	NC_001650.1	+	41505	1.1	0.009992
	Target:  5'- uACACACACCUGGCAUCUAUCUGUACGg -3' miRNA:   3'- -UGUGUGUGGACCGUAGAUAGACAUGC- -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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