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
30284	3'	-58.4	NC_006324.1	+	16458	0.66	0.429499
	Target:  5'- cACACGAgUGCGGCgaaguggaagacugGCGCGgCgCgcGCCu -3' miRNA:   3'- -UGUGCUgACGCCGa-------------CGCGUgG-Ga-UGG- -5'
30284	3'	-58.4	NC_006324.1	+	20970	0.66	0.406514
	Target:  5'- uGCACGACaauggGCGGUUuCGUGCCa-ACCa -3' miRNA:   3'- -UGUGCUGa----CGCCGAcGCGUGGgaUGG- -5'
30284	3'	-58.4	NC_006324.1	+	11469	0.67	0.352562
	Target:  5'- aACAcCGuguCUGCGGC-GCGCAaUCCUaacGCCu -3' miRNA:   3'- -UGU-GCu--GACGCCGaCGCGU-GGGA---UGG- -5'
30284	3'	-58.4	NC_006324.1	+	14904	0.68	0.319512
	Target:  5'- cUACGGCaGCGG-UGCGCGCCgCUAg- -3' miRNA:   3'- uGUGCUGaCGCCgACGCGUGG-GAUgg -5'
30284	3'	-58.4	NC_006324.1	+	18259	0.7	0.240815
	Target:  5'- cUACGuCUGgGGCgccagGCGCGCCUccaGCCa -3' miRNA:   3'- uGUGCuGACgCCGa----CGCGUGGGa--UGG- -5'
30284	3'	-58.4	NC_006324.1	+	14967	0.74	0.117473
	Target:  5'- aACGCu-CUaGCGGC-GCGCACCgCUGCCg -3' miRNA:   3'- -UGUGcuGA-CGCCGaCGCGUGG-GAUGG- -5'
30284	3'	-58.4	NC_006324.1	+	12916	1.11	0.000165
	Target:  5'- uACACGACUGCGGCUGCGCACCCUACCg -3' miRNA:   3'- -UGUGCUGACGCCGACGCGUGGGAUGG- -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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