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
7121	3'	-54	NC_001895.1	+	3073	0.66	0.638011
	Target:  5'- aGCCAU-CCGGgacUGAUGGCgGaGGAUGCg -3' miRNA:   3'- -UGGUAcGGCU---GUUACCGgCaCCUAUG- -5'
7121	3'	-54	NC_001895.1	+	22931	0.66	0.591634
	Target:  5'- aACgAUGCCGACg--GGCagGUcGGGUGCc -3' miRNA:   3'- -UGgUACGGCUGuuaCCGg-CA-CCUAUG- -5'
7121	3'	-54	NC_001895.1	+	7279	0.66	0.590479
	Target:  5'- gGCCAgaacagguaaagcUGCUGAUAGcgaccggaGGCCGUGGAUu- -3' miRNA:   3'- -UGGU-------------ACGGCUGUUa-------CCGGCACCUAug -5'
7121	3'	-54	NC_001895.1	+	21502	0.68	0.512279
	Target:  5'- cGCCAgugcaccGCCGGCAAUGauGCCGaUGGuugACg -3' miRNA:   3'- -UGGUa------CGGCUGUUAC--CGGC-ACCua-UG- -5'
7121	3'	-54	NC_001895.1	+	21595	0.7	0.411559
	Target:  5'- cGCCAUcggggcuauuagcugGCCGGuuGUGGCCGUGGugGCu -3' miRNA:   3'- -UGGUA---------------CGGCUguUACCGGCACCuaUG- -5'
7121	3'	-54	NC_001895.1	+	10495	0.74	0.205804
	Target:  5'- --gGUGCUGAUucUGGCCGUGGGUGg -3' miRNA:   3'- uggUACGGCUGuuACCGGCACCUAUg -5'
7121	3'	-54	NC_001895.1	+	17759	1.1	0.000504
	Target:  5'- gACCAUGCCGACAAUGGCCGUGGAUACg -3' miRNA:   3'- -UGGUACGGCUGUUACCGGCACCUAUG- -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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