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
7888	3'	-51.4	NC_001973.1	+	133511	0.66	0.994696
	Target:  5'- gCUCGgcuUGUCGGGcagcAGaGGCGAGgGCc -3' miRNA:   3'- gGAGCaauACAGCUC----UC-CCGCUCaUG- -5'
7888	3'	-51.4	NC_001973.1	+	44084	0.66	0.993772
	Target:  5'- --aCGUacGUGUCGAuGAGGGUcgaauacauuuccGAGUGCa -3' miRNA:   3'- ggaGCAa-UACAGCU-CUCCCG-------------CUCAUG- -5'
7888	3'	-51.4	NC_001973.1	+	122520	0.67	0.987971
	Target:  5'- uCCUCGUcuuUGUCGGG-GGaCGAGcgGCg -3' miRNA:   3'- -GGAGCAau-ACAGCUCuCCcGCUCa-UG- -5'
7888	3'	-51.4	NC_001973.1	+	55958	0.67	0.986391
	Target:  5'- gCC-CGUUcUGUCGGGAGaGGCGcGcgACg -3' miRNA:   3'- -GGaGCAAuACAGCUCUC-CCGCuCa-UG- -5'
7888	3'	-51.4	NC_001973.1	+	94934	0.67	0.982757
	Target:  5'- gCCUacuuc-GUCGAGuGGGGCGuGUACg -3' miRNA:   3'- -GGAgcaauaCAGCUC-UCCCGCuCAUG- -5'
7888	3'	-51.4	NC_001973.1	+	6342	0.68	0.978436
	Target:  5'- gCgUCGUgugcggcGUCGAGGGGGcCGAGccuUGCg -3' miRNA:   3'- -GgAGCAaua----CAGCUCUCCC-GCUC---AUG- -5'
7888	3'	-51.4	NC_001973.1	+	109043	0.68	0.975997
	Target:  5'- aCCUCGUcucgguUGUCGGGcc-GCGGGUGCc -3' miRNA:   3'- -GGAGCAau----ACAGCUCuccCGCUCAUG- -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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