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
7849	5'	-58.3	NC_001973.1	+	100048	0.66	0.814451
	Target:  5'- -cGG-GGCCGAaGGCgCUCUUCcgGCGGa -3' miRNA:   3'- aaCCaCCGGCUcCUG-GGGAAGa-UGCC- -5'
7849	5'	-58.3	NC_001973.1	+	66931	0.66	0.813596
	Target:  5'- --cGUGGCCGAGGACa--UUCUgaacaagcucgacGCGGa -3' miRNA:   3'- aacCACCGGCUCCUGgggAAGA-------------UGCC- -5'
7849	5'	-58.3	NC_001973.1	+	27052	0.67	0.766232
	Target:  5'- -cGGUGGCCGugcucgcguccacGGugCCCgUCU-CGGu -3' miRNA:   3'- aaCCACCGGCu------------CCugGGGaAGAuGCC- -5'
7849	5'	-58.3	NC_001973.1	+	36344	0.67	0.760643
	Target:  5'- -cGGUGGCCGAGcuguacGGCaggUUCUACGGc -3' miRNA:   3'- aaCCACCGGCUC------CUGgggAAGAUGCC- -5'
7849	5'	-58.3	NC_001973.1	+	49212	0.68	0.722464
	Target:  5'- gUGGaUGGCCGAGGACggcucgcacgCCCaaaUCUGCu- -3' miRNA:   3'- aACC-ACCGGCUCCUG----------GGGa--AGAUGcc -5'
7849	5'	-58.3	NC_001973.1	+	64171	0.71	0.572966
	Target:  5'- gUGGUGGCCGcGGAUCUgUgcgCgGCGGg -3' miRNA:   3'- aACCACCGGCuCCUGGGgAa--GaUGCC- -5'
7849	5'	-58.3	NC_001973.1	+	38477	0.71	0.544376
	Target:  5'- gUGGUGGCCGGacGGGCgCCgguccgaaucuuugCUGCGGc -3' miRNA:   3'- aACCACCGGCU--CCUGgGGaa------------GAUGCC- -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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