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
368	5'	-61.5	AC_000011.1	+	15988	0.66	0.309708
	Target:  5'- gUACUGGGUGCGCGaCgccgccaccGGUgUGCGCGu -3' miRNA:   3'- -GUGGCCCACGCGC-Gaca------CCG-ACGUGC- -5'
368	5'	-61.5	AC_000011.1	+	15832	0.66	0.294773
	Target:  5'- cCGCCGGGcgaUGCGcCGCcGccGGCUcuugGCGCGg -3' miRNA:   3'- -GUGGCCC---ACGC-GCGaCa-CCGA----CGUGC- -5'
368	5'	-61.5	AC_000011.1	+	24678	0.67	0.259907
	Target:  5'- gCGCCGGGccucccCGCGCaggGUGGUgugcaGCACGu -3' miRNA:   3'- -GUGGCCCac----GCGCGa--CACCGa----CGUGC- -5'
368	5'	-61.5	AC_000011.1	+	19794	0.69	0.184918
	Target:  5'- aCAUCGGG-GCGCGCUGgucGCUGgAUc -3' miRNA:   3'- -GUGGCCCaCGCGCGACac-CGACgUGc -5'
368	5'	-61.5	AC_000011.1	+	17828	0.71	0.129686
	Target:  5'- gCACCGGGUccagGCG-GCUGUugaucugccGCUGCACGg -3' miRNA:   3'- -GUGGCCCA----CGCgCGACAc--------CGACGUGC- -5'
368	5'	-61.5	AC_000011.1	+	5223	0.71	0.126136
	Target:  5'- ---gGGGUGCGCGCcG-GGCUGgGCGc -3' miRNA:   3'- guggCCCACGCGCGaCaCCGACgUGC- -5'
368	5'	-61.5	AC_000011.1	+	22647	1.08	0.000149
	Target:  5'- gCACCGGGUGCGCGCUGUGGCUGCACGg -3' miRNA:   3'- -GUGGCCCACGCGCGACACCGACGUGC- -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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