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
766	3'	-46.4	NC_000852.3	+	262755	0.66	1
	Target:  5'- gCUUGAAUGUgcuguUUUUUUGCUUCCgAGUu -3' miRNA:   3'- -GAGUUUGCA-----GAAAAACGAAGGgUCGu -5'
766	3'	-46.4	NC_000852.3	+	281754	0.66	0.999999
	Target:  5'- cCUCGGGCuUCUUguggucaaguugGUUUCCCGGCu -3' miRNA:   3'- -GAGUUUGcAGAAaaa---------CGAAGGGUCGu -5'
766	3'	-46.4	NC_000852.3	+	79923	0.67	0.999995
	Target:  5'- -gCAcGCGUUcUUUUGCUUCCUcgaaaAGCAc -3' miRNA:   3'- gaGUuUGCAGaAAAACGAAGGG-----UCGU- -5'
766	3'	-46.4	NC_000852.3	+	272120	0.68	0.999993
	Target:  5'- -gCAcGCGUUcUUUUGCUUCCUcgacaAGCAu -3' miRNA:   3'- gaGUuUGCAGaAAAACGAAGGG-----UCGU- -5'
766	3'	-46.4	NC_000852.3	+	107040	0.68	0.99999
	Target:  5'- uCUCGAGCuUCUUggcgaGCUUCUgAGCAu -3' miRNA:   3'- -GAGUUUGcAGAAaaa--CGAAGGgUCGU- -5'
766	3'	-46.4	NC_000852.3	+	182893	0.69	0.999952
	Target:  5'- gUCGAACGUCUgcggUGCauucUUCCCgAGUg -3' miRNA:   3'- gAGUUUGCAGAaaa-ACG----AAGGG-UCGu -5'
766	3'	-46.4	NC_000852.3	+	60809	0.69	0.999937
	Target:  5'- aUCGAGCaauUCUUgcaaUUGUUUCCCAGUg -3' miRNA:   3'- gAGUUUGc--AGAAa---AACGAAGGGUCGu -5'
766	3'	-46.4	NC_000852.3	+	301573	1.11	0.035757
	Target:  5'- aCUCAAACGUCUUUUUGCUUCCCAGCAg -3' miRNA:   3'- -GAGUUUGCAGAAAAACGAAGGGUCGU- -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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