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
8910	5'	-52.5	NC_002484.1	+	35807	0.68	0.75857
	Target:  5'- cACGGcuuaccaagGCU-CGCGAGCgcGCCAAGCg -3' miRNA:   3'- cUGCUcaa------CGAaGCGCUCG--UGGUUCG- -5'
8910	5'	-52.5	NC_002484.1	+	40583	0.68	0.7265
	Target:  5'- aGCGAGggGCUgUUGCG-GCGuCUGAGCg -3' miRNA:   3'- cUGCUCaaCGA-AGCGCuCGU-GGUUCG- -5'
8910	5'	-52.5	NC_002484.1	+	49039	0.68	0.715596
	Target:  5'- uGGCGccGGacucGCguaggUCGCuGAGCACCGGGCg -3' miRNA:   3'- -CUGC--UCaa--CGa----AGCG-CUCGUGGUUCG- -5'
8910	5'	-52.5	NC_002484.1	+	7740	0.7	0.626262
	Target:  5'- gGGCGGGguuaggcgGCUUCuagccCGAGCACCAucuGCa -3' miRNA:   3'- -CUGCUCaa------CGAAGc----GCUCGUGGUu--CG- -5'
8910	5'	-52.5	NC_002484.1	+	48979	0.7	0.615004
	Target:  5'- cGCG-GUUgaGCUggcagagCGgGAGCACCGGGCa -3' miRNA:   3'- cUGCuCAA--CGAa------GCgCUCGUGGUUCG- -5'
8910	5'	-52.5	NC_002484.1	+	45554	0.71	0.548118
	Target:  5'- aGGCcGGaugGCggCGUGAGCAUCAAGCg -3' miRNA:   3'- -CUGcUCaa-CGaaGCGCUCGUGGUUCG- -5'
8910	5'	-52.5	NC_002484.1	+	4368	0.73	0.452842
	Target:  5'- uGAUGAGUUcauugcgcugGCUUCGCGGcauuccGCugCGAGCc -3' miRNA:   3'- -CUGCUCAA----------CGAAGCGCU------CGugGUUCG- -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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