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
7119	5'	-54.5	NC_001895.1	+	19206	0.67	0.546076
	Target:  5'- aCACUGAgucgaaaaucuccguGGUCuGCACcuauuuccgGCUGACGAUGg -3' miRNA:   3'- gGUGACU---------------CCGG-UGUGa--------CGACUGCUAC- -5'
7119	5'	-54.5	NC_001895.1	+	20434	0.67	0.541603
	Target:  5'- cCCACUGAGGCCAUAUUuCcGGCc--- -3' miRNA:   3'- -GGUGACUCCGGUGUGAcGaCUGcuac -5'
7119	5'	-54.5	NC_001895.1	+	4934	0.68	0.497628
	Target:  5'- aCCGCUGguAGGUUACcgauGCguuucugGCUGAUGAUGa -3' miRNA:   3'- -GGUGAC--UCCGGUG----UGa------CGACUGCUAC- -5'
7119	5'	-54.5	NC_001895.1	+	11498	0.69	0.42491
	Target:  5'- ---aUGAGGCCGCACg---GGCGGUGa -3' miRNA:   3'- ggugACUCCGGUGUGacgaCUGCUAC- -5'
7119	5'	-54.5	NC_001895.1	+	20248	0.69	0.415043
	Target:  5'- cCCACaGcGGCCAguuccCGCUGCUGGCGu-- -3' miRNA:   3'- -GGUGaCuCCGGU-----GUGACGACUGCuac -5'
7119	5'	-54.5	NC_001895.1	+	18536	0.7	0.377023
	Target:  5'- -gGCUGAGGCgCACA-UGUgGGCGGUGg -3' miRNA:   3'- ggUGACUCCG-GUGUgACGaCUGCUAC- -5'
7119	5'	-54.5	NC_001895.1	+	22465	0.71	0.341419
	Target:  5'- -aACUGAccGGCgGCAa-GCUGACGAUGa -3' miRNA:   3'- ggUGACU--CCGgUGUgaCGACUGCUAC- -5'
7119	5'	-54.5	NC_001895.1	+	13166	1.11	0.000476
	Target:  5'- uCCACUGAGGCCACACUGCUGACGAUGa -3' miRNA:   3'- -GGUGACUCCGGUGUGACGACUGCUAC- -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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