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
32588	5'	-48.7	NC_007151.1	+	47722	1.14	0.008566
	Target:  5'- aCCUCUCGAUCGUUAUCGAUUCGGGUCa -3' miRNA:   3'- -GGAGAGCUAGCAAUAGCUAAGCCCAG- -5'
32588	5'	-48.7	NC_007151.1	+	140697	1.14	0.008566
	Target:  5'- aCCUCUCGAUCGUUAUCGAUUCGGGUCa -3' miRNA:   3'- -GGAGAGCUAGCAAUAGCUAAGCCCAG- -5'
32588	5'	-48.7	NC_007151.1	+	73826	0.72	0.952554
	Target:  5'- uUCUgUCGG-CGaUUGUCGA-UCGGGUCg -3' miRNA:   3'- -GGAgAGCUaGC-AAUAGCUaAGCCCAG- -5'
32588	5'	-48.7	NC_007151.1	+	51370	0.68	0.996788
	Target:  5'- gUCUCUUGGUCuUUGUCGAUuUCGGcGg- -3' miRNA:   3'- -GGAGAGCUAGcAAUAGCUA-AGCC-Cag -5'
32588	5'	-48.7	NC_007151.1	+	105996	0.67	0.998679
	Target:  5'- gCUCUUGAgaUCGggAUCGAUuccgUCGaGUCg -3' miRNA:   3'- gGAGAGCU--AGCaaUAGCUA----AGCcCAG- -5'
32588	5'	-48.7	NC_007151.1	+	62142	0.67	0.998679
	Target:  5'- gCUCUucagCGGUCGU-----GUUCGGGUCg -3' miRNA:   3'- gGAGA----GCUAGCAauagcUAAGCCCAG- -5'
32588	5'	-48.7	NC_007151.1	+	109492	0.67	0.998776
	Target:  5'- uCCUCUUGAUCuGUcgcaaaucgauucgAUCGAaUCGGGa- -3' miRNA:   3'- -GGAGAGCUAG-CAa-------------UAGCUaAGCCCag -5'
32588	5'	-48.7	NC_007151.1	+	495	0.66	0.999526
	Target:  5'- uUUCUUGGUCGUUAaCGAUg-GGGa- -3' miRNA:   3'- gGAGAGCUAGCAAUaGCUAagCCCag -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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