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
2614	3'	-52.4	NC_001488.1	+	380	0.67	0.276077
	Target:  5'- gAGGa-UGGAUcCCCAAGGugAGucuccguGACCa -3' miRNA:   3'- -UCCgcACCUGuGGGUUCCugUU-------UUGG- -5'
2614	3'	-52.4	NC_001488.1	+	1820	1.13	0.000071
	Target:  5'- cAGGCGUGGACACCCAAGGACAAAACCa -3' miRNA:   3'- -UCCGCACCUGUGGGUUCCUGUUUUGG- -5'
2614	3'	-52.4	NC_001488.1	+	3625	0.71	0.144046
	Target:  5'- cAGGCcaGUaGGugAcCCCAAGGACAuAAACUg -3' miRNA:   3'- -UCCG--CA-CCugU-GGGUUCCUGU-UUUGG- -5'
2614	3'	-52.4	NC_001488.1	+	4158	0.7	0.169113
	Target:  5'- cAGGCGgccuuGcCACCCcuacugcAGGGCAAGACCa -3' miRNA:   3'- -UCCGCac---CuGUGGGu------UCCUGUUUUGG- -5'
2614	3'	-52.4	NC_001488.1	+	4327	0.7	0.171279
	Target:  5'- gAGGcCGUGGAgGCCUuGGGGCGucaggggaacaagggGAGCUa -3' miRNA:   3'- -UCC-GCACCUgUGGGuUCCUGU---------------UUUGG- -5'
2614	3'	-52.4	NC_001488.1	+	4372	0.66	0.339089
	Target:  5'- uGGUGUGG-CGCCaaAAGaGACuAGAGCCc -3' miRNA:   3'- uCCGCACCuGUGGg-UUC-CUG-UUUUGG- -5'
2614	3'	-52.4	NC_001488.1	+	8561	0.67	0.276077
	Target:  5'- gAGGa-UGGAUcCCCAAGGugAGucuccguGACCa -3' miRNA:   3'- -UCCgcACCUGuGGGUUCCugUU-------UUGG- -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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