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
30464	5'	-55.4	NC_006548.1	+	14314	0.66	0.542657
	Target:  5'- cGCAgUUCCCGaGCcagGCCGAAgCCg-- -3' miRNA:   3'- uCGUgAAGGGCaCGa--CGGCUU-GGaac -5'
30464	5'	-55.4	NC_006548.1	+	32775	0.67	0.520639
	Target:  5'- gGGCGCUgCCgGUGUgGCCGGACa--- -3' miRNA:   3'- -UCGUGAaGGgCACGaCGGCUUGgaac -5'
30464	5'	-55.4	NC_006548.1	+	27920	0.68	0.467271
	Target:  5'- cAGCGCgUUCCCGgcgcguucucGCUGCCGccaaGGCCcUGg -3' miRNA:   3'- -UCGUG-AAGGGCa---------CGACGGC----UUGGaAC- -5'
30464	5'	-55.4	NC_006548.1	+	20580	0.69	0.388262
	Target:  5'- cGGUGCUUCCgCGUcagcggcagagGCUGaCCGGACCUc- -3' miRNA:   3'- -UCGUGAAGG-GCA-----------CGAC-GGCUUGGAac -5'
30464	5'	-55.4	NC_006548.1	+	7054	0.73	0.238702
	Target:  5'- aGGCGCUUCgCGUuaUGUCGGGCCgagUGg -3' miRNA:   3'- -UCGUGAAGgGCAcgACGGCUUGGa--AC- -5'
30464	5'	-55.4	NC_006548.1	+	24946	0.73	0.225506
	Target:  5'- cGGCACUUCCagcucacgggcagUGUGCUGUaCGAcACCUUGa -3' miRNA:   3'- -UCGUGAAGG-------------GCACGACG-GCU-UGGAAC- -5'
30464	5'	-55.4	NC_006548.1	+	26778	1.09	0.000521
	Target:  5'- cAGCACUUCCCGUGCUGCCGAACCUUGg -3' miRNA:   3'- -UCGUGAAGGGCACGACGGCUUGGAAC- -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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