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
18619	5'	-55	NC_004682.1	+	41476	0.65	0.774086
	Target:  5'- cUGUUGGGGaUCG-GGaUGACCGGg--- -3' miRNA:   3'- aGCAACUCC-AGCgCC-ACUGGCCaacc -5'
18619	5'	-55	NC_004682.1	+	33052	0.65	0.774086
	Target:  5'- gUGgcGAGGgccgggaugUGCGGUG-CCaGGUUGGu -3' miRNA:   3'- aGCaaCUCCa--------GCGCCACuGG-CCAACC- -5'
18619	5'	-55	NC_004682.1	+	9566	0.66	0.764051
	Target:  5'- aCGgUGAaGaacCGUGGUGGCCGGUcGGa -3' miRNA:   3'- aGCaACUcCa--GCGCCACUGGCCAaCC- -5'
18619	5'	-55	NC_004682.1	+	50283	0.66	0.753883
	Target:  5'- gUCGUcG-GGUagGCGGguUGACCGGUcacUGGu -3' miRNA:   3'- -AGCAaCuCCAg-CGCC--ACUGGCCA---ACC- -5'
18619	5'	-55	NC_004682.1	+	19015	0.66	0.722691
	Target:  5'- cCGgcaUGAGGUCGCGGgcaccacgguagUGAuCCGcGUcgUGGa -3' miRNA:   3'- aGCa--ACUCCAGCGCC------------ACU-GGC-CA--ACC- -5'
18619	5'	-55	NC_004682.1	+	47740	0.71	0.467177
	Target:  5'- cCGgcGAuGGUCGCGGUGgugggguaGCCGGgcUGGc -3' miRNA:   3'- aGCaaCU-CCAGCGCCAC--------UGGCCa-ACC- -5'
18619	5'	-55	NC_004682.1	+	12765	1.11	0.000846
	Target:  5'- cUCGUUGAGGUCGCGGUGACCGGUUGGa -3' miRNA:   3'- -AGCAACUCCAGCGCCACUGGCCAACC- -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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