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
32322	5'	-55.5	NC_007024.1	+	25092	0.66	0.643081
	Target:  5'- aUUGuCCAAUaggacUGGGCcCCAGUUCUGAg -3' miRNA:   3'- -AACuGGUUAa----GCCCGuGGUCGAGGCU- -5'
32322	5'	-55.5	NC_007024.1	+	55200	0.66	0.643081
	Target:  5'- -cGGCCGg--CGGGUucugcacuucACCGGCUUCGGc -3' miRNA:   3'- aaCUGGUuaaGCCCG----------UGGUCGAGGCU- -5'
32322	5'	-55.5	NC_007024.1	+	8431	0.67	0.625255
	Target:  5'- cUUGGCgGAUUCcgccaggguaacgguGGGCAUUuugAGCUCCGGa -3' miRNA:   3'- -AACUGgUUAAG---------------CCCGUGG---UCGAGGCU- -5'
32322	5'	-55.5	NC_007024.1	+	32554	0.67	0.587476
	Target:  5'- gUUGGCCGGUgaccaGGGUG-CAGCUCUGGg -3' miRNA:   3'- -AACUGGUUAag---CCCGUgGUCGAGGCU- -5'
32322	5'	-55.5	NC_007024.1	+	39676	0.68	0.554496
	Target:  5'- gUGGCCAAUUCguggauuauGGGCAUUAGgaUCGAu -3' miRNA:   3'- aACUGGUUAAG---------CCCGUGGUCgaGGCU- -5'
32322	5'	-55.5	NC_007024.1	+	34733	0.69	0.500884
	Target:  5'- -aGACgCAGUaUCGGGuCGgCAGCUUCGAc -3' miRNA:   3'- aaCUG-GUUA-AGCCC-GUgGUCGAGGCU- -5'
32322	5'	-55.5	NC_007024.1	+	34306	1.06	0.001275
	Target:  5'- cUUGACCAAUUCGGGCACCAGCUCCGAu -3' miRNA:   3'- -AACUGGUUAAGCCCGUGGUCGAGGCU- -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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