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
8136	5'	-61.5	NC_001978.2	+	5370	0.66	0.356334
	Target:  5'- -cACGGGUCGGGCGacc-GCCGGGa- -3' miRNA:   3'- caUGCCCGGCCUGCccuuCGGCCUca -5'
8136	5'	-61.5	NC_001978.2	+	15992	0.68	0.260091
	Target:  5'- ---aGGGCCGGA-GGGu--CCGGAGg -3' miRNA:   3'- caugCCCGGCCUgCCCuucGGCCUCa -5'
8136	5'	-61.5	NC_001978.2	+	4168	0.72	0.124371
	Target:  5'- -gGCGGaagaGCCGGACGaaGAGCCGGAGc -3' miRNA:   3'- caUGCC----CGGCCUGCccUUCGGCCUCa -5'
8136	5'	-61.5	NC_001978.2	+	11262	0.76	0.063706
	Target:  5'- --uUGGGCCGGACGGGAcuaccugaacGGUCGGAc- -3' miRNA:   3'- cauGCCCGGCCUGCCCU----------UCGGCCUca -5'
8136	5'	-61.5	NC_001978.2	+	31617	1.06	0.000321
	Target:  5'- uGUACGGGCCGGACGGGAAGCCGGAGUc -3' miRNA:   3'- -CAUGCCCGGCCUGCCCUUCGGCCUCA- -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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