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
15398	5'	-51.1	NC_003907.2	+	2671	0.66	0.869435
	Target:  5'- gACUGAacaacugugUGCUGUAUuCGGGGGCuGuACCa -3' miRNA:   3'- aUGAUU---------GCGACGUAuGUUCCCG-C-UGG- -5'
15398	5'	-51.1	NC_003907.2	+	15409	0.67	0.824268
	Target:  5'- cACUGugGCguaacgaggaUGCAaccauccagaagUACAAGGGUuGCCg -3' miRNA:   3'- aUGAUugCG----------ACGU------------AUGUUCCCGcUGG- -5'
15398	5'	-51.1	NC_003907.2	+	6720	0.67	0.808565
	Target:  5'- cACUAACagGCUGCGcucaccacUaucaccaccacggcaACAGGGGCaGACCa -3' miRNA:   3'- aUGAUUG--CGACGU--------A---------------UGUUCCCG-CUGG- -5'
15398	5'	-51.1	NC_003907.2	+	33341	0.68	0.773511
	Target:  5'- aUGCUAAcuuCGCUGCAUAcCAAGauauCGACCc -3' miRNA:   3'- -AUGAUU---GCGACGUAU-GUUCcc--GCUGG- -5'
15398	5'	-51.1	NC_003907.2	+	33453	0.69	0.707405
	Target:  5'- -cCUGACGCUGag-ACAGGGGauGCUa -3' miRNA:   3'- auGAUUGCGACguaUGUUCCCgcUGG- -5'
15398	5'	-51.1	NC_003907.2	+	19213	0.69	0.707405
	Target:  5'- ---aGAUGUUGCAggugaGCAAGGGC-ACCa -3' miRNA:   3'- augaUUGCGACGUa----UGUUCCCGcUGG- -5'
15398	5'	-51.1	NC_003907.2	+	29054	0.98	0.011829
	Target:  5'- cUACUAAC-CUGCAUACAAGGGCGACCc -3' miRNA:   3'- -AUGAUUGcGACGUAUGUUCCCGCUGG- -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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