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
696	3'	-57.9	AC_000018.1	+	3826	0.67	0.367956
	Target:  5'- cUGUCUaaGCAGgUggCCCAGUUGCgUGAGCa -3' miRNA:   3'- -ACGGA--CGUUgG--GGGUCAACG-ACUCGc -5'
696	3'	-57.9	AC_000018.1	+	10536	0.66	0.424192
	Target:  5'- gGCCUGCAcaaaACCUCCAGgauacGgaG-GCGg -3' miRNA:   3'- aCGGACGU----UGGGGGUCaa---CgaCuCGC- -5'
696	3'	-57.9	AC_000018.1	+	13932	0.71	0.180975
	Target:  5'- cUGCUUGUAGCCCCCAauaucCUGGGCu -3' miRNA:   3'- -ACGGACGUUGGGGGUcaac-GACUCGc -5'
696	3'	-57.9	AC_000018.1	+	25609	1.09	0.000241
	Target:  5'- uUGCCUGCAACCCCCAGUUGCUGAGCGa -3' miRNA:   3'- -ACGGACGUUGGGGGUCAACGACUCGC- -5'
696	3'	-57.9	AC_000018.1	+	27017	0.67	0.367956
	Target:  5'- cGCCUGCugccAACCCCauuuGggGCUGAuaGCu -3' miRNA:   3'- aCGGACG----UUGGGGgu--CaaCGACU--CGc -5'
696	3'	-57.9	AC_000018.1	+	27773	0.68	0.309106
	Target:  5'- cGCCUGCAucgaaucuuCUCCCAGcgacccgUGCugauUGAGCGc -3' miRNA:   3'- aCGGACGUu--------GGGGGUCa------ACG----ACUCGC- -5'
696	3'	-57.9	AC_000018.1	+	31258	0.66	0.414465
	Target:  5'- aGCagugaaUGCAcCCCUUAGUaucuccacuuUGCUGAGUGa -3' miRNA:   3'- aCGg-----ACGUuGGGGGUCA----------ACGACUCGC- -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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