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
7124	5'	-53.8	NC_001895.1	+	4020	0.66	0.676575
	Target:  5'- aCCgCCGGUGGCuuugCu--GCGGCGCUGc -3' miRNA:   3'- -GG-GGCUACCGcca-GuauUGUCGUGAC- -5'
7124	5'	-53.8	NC_001895.1	+	6685	0.66	0.665144
	Target:  5'- gUUCGAcGGCGGUgccgUGUGGCAGCACc- -3' miRNA:   3'- gGGGCUaCCGCCA----GUAUUGUCGUGac -5'
7124	5'	-53.8	NC_001895.1	+	12812	0.66	0.630697
	Target:  5'- aCCaCGAUGGCcGUCGggGAUGGCGgUGg -3' miRNA:   3'- gGG-GCUACCGcCAGUa-UUGUCGUgAC- -5'
7124	5'	-53.8	NC_001895.1	+	5247	0.66	0.630697
	Target:  5'- uUCCCGcUGcGCGGUCAUcgcugccgaGACccgcaucauguGGCGCUGu -3' miRNA:   3'- -GGGGCuAC-CGCCAGUA---------UUG-----------UCGUGAC- -5'
7124	5'	-53.8	NC_001895.1	+	10757	0.69	0.453461
	Target:  5'- aCCCCGGaGGUGGUCugcaccAACAG-GCUGa -3' miRNA:   3'- -GGGGCUaCCGCCAGua----UUGUCgUGAC- -5'
7124	5'	-53.8	NC_001895.1	+	19714	0.74	0.228804
	Target:  5'- aCCUGAUGGCGGaUGUGGCAGUgauauuucACUGg -3' miRNA:   3'- gGGGCUACCGCCaGUAUUGUCG--------UGAC- -5'
7124	5'	-53.8	NC_001895.1	+	21638	0.96	0.00648
	Target:  5'- gCCCCGAUGGCGGUCAUAACA-CACUGc -3' miRNA:   3'- -GGGGCUACCGCCAGUAUUGUcGUGAC- -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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