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
32277	3'	-46.1	NC_007023.1	+	90284	0.66	0.999973
	Target:  5'- aAGUUA-ACUGGAACAGGCGaucaUGUaGuGCg -3' miRNA:   3'- -UCAGUaUGACUUUGUCCGU----ACA-CuUG- -5'
32277	3'	-46.1	NC_007023.1	+	180136	0.66	0.999972
	Target:  5'- uGGUUAUGCUGAccguuaaugcaaaAACuGGU--GUGAACa -3' miRNA:   3'- -UCAGUAUGACU-------------UUGuCCGuaCACUUG- -5'
32277	3'	-46.1	NC_007023.1	+	154211	0.67	0.99995
	Target:  5'- cAGUCGcuUACaGuu-CAGGCAUG-GAGCg -3' miRNA:   3'- -UCAGU--AUGaCuuuGUCCGUACaCUUG- -5'
32277	3'	-46.1	NC_007023.1	+	22487	0.68	0.999678
	Target:  5'- cGGUCGUgcguuccugaacACUGAAACGGGUGaacUG-GAACu -3' miRNA:   3'- -UCAGUA------------UGACUUUGUCCGU---ACaCUUG- -5'
32277	3'	-46.1	NC_007023.1	+	173825	0.72	0.993139
	Target:  5'- cAGUCAacUACUGggGCAGGUucuaucGAACu -3' miRNA:   3'- -UCAGU--AUGACuuUGUCCGuaca--CUUG- -5'
32277	3'	-46.1	NC_007023.1	+	121844	0.72	0.992054
	Target:  5'- cGGUCGUACUGgcACGGGUg---GAACu -3' miRNA:   3'- -UCAGUAUGACuuUGUCCGuacaCUUG- -5'
32277	3'	-46.1	NC_007023.1	+	90529	1.12	0.017826
	Target:  5'- aAGUCAUACUGAAACAGGCAUGUGAACg -3' miRNA:   3'- -UCAGUAUGACUUUGUCCGUACACUUG- -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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