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
7338	3'	-55.3	NC_001900.1	+	18339	0.66	0.648181
	Target:  5'- aGCugGUGGAccCCCGGCcuuucggggCCgGUGGGu -3' miRNA:   3'- -CGugUACCUaaGGGUCGa--------GG-CACCCu -5'
7338	3'	-55.3	NC_001900.1	+	19640	0.66	0.648181
	Target:  5'- cGCACcgaaGUGGAccgUUCCCGGCUCCa----- -3' miRNA:   3'- -CGUG----UACCU---AAGGGUCGAGGcacccu -5'
7338	3'	-55.3	NC_001900.1	+	29483	0.67	0.63707
	Target:  5'- gGUACG-GGGUgaaUCCGGCUUCGUGGaGGc -3' miRNA:   3'- -CGUGUaCCUAa--GGGUCGAGGCACC-CU- -5'
7338	3'	-55.3	NC_001900.1	+	39663	0.67	0.627067
	Target:  5'- aGCACcgGGuucaUCCGGCaccugugauguaucgCCGUGGGAa -3' miRNA:   3'- -CGUGuaCCuaa-GGGUCGa--------------GGCACCCU- -5'
7338	3'	-55.3	NC_001900.1	+	39294	0.68	0.52728
	Target:  5'- cCACcgGGAccgcgCCgAGC-CCGUGGGGg -3' miRNA:   3'- cGUGuaCCUaa---GGgUCGaGGCACCCU- -5'
7338	3'	-55.3	NC_001900.1	+	12807	0.71	0.397025
	Target:  5'- gGCuuCAUGGGUgacuucUCCCAGCUCaucUGGGGc -3' miRNA:   3'- -CGu-GUACCUA------AGGGUCGAGgc-ACCCU- -5'
7338	3'	-55.3	NC_001900.1	+	32451	1.11	0.000656
	Target:  5'- gGCACAUGGAUUCCCAGCUCCGUGGGAu -3' miRNA:   3'- -CGUGUACCUAAGGGUCGAGGCACCCU- -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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