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
27206	5'	-48.9	NC_005832.1	+	46618	0.66	0.996107
	Target:  5'- -cGUCgagaaggUCaGUGAGGAU-GGUGGGCa -3' miRNA:   3'- gaCAGaa-----AGcUACUCUUAcCCACCUG- -5'
27206	5'	-48.9	NC_005832.1	+	36051	0.66	0.995413
	Target:  5'- -cGUCgaggGGUGGGcc-GGGUGGACg -3' miRNA:   3'- gaCAGaaagCUACUCuuaCCCACCUG- -5'
27206	5'	-48.9	NC_005832.1	+	16419	0.66	0.994622
	Target:  5'- -aGUCUgccguaaUUGGUGGauccGGAUGGGUGGGg -3' miRNA:   3'- gaCAGAa------AGCUACU----CUUACCCACCUg -5'
27206	5'	-48.9	NC_005832.1	+	67173	0.66	0.994622
	Target:  5'- -aGUUUaagcUCGAggaggGGGGAUGGGcgUGGACa -3' miRNA:   3'- gaCAGAa---AGCUa----CUCUUACCC--ACCUG- -5'
27206	5'	-48.9	NC_005832.1	+	108	0.66	0.994622
	Target:  5'- uCUGg--UUUGggGGGAGUGGGgGGAUc -3' miRNA:   3'- -GACagaAAGCuaCUCUUACCCaCCUG- -5'
27206	5'	-48.9	NC_005832.1	+	79443	0.66	0.992708
	Target:  5'- uCUGgggCUUUgGAuuuucUGGGAGgccUGGGUGGAg -3' miRNA:   3'- -GACa--GAAAgCU-----ACUCUU---ACCCACCUg -5'
27206	5'	-48.9	NC_005832.1	+	94379	0.66	0.992708
	Target:  5'- -cGUCUgggaGAgcaGGGGAgacGGGUGGACu -3' miRNA:   3'- gaCAGAaag-CUa--CUCUUa--CCCACCUG- -5'
27206	5'	-48.9	NC_005832.1	+	67726	1.12	0.006461
	Target:  5'- gCUGUCUUUCGAUGAGAAUGGGUGGACa -3' miRNA:   3'- -GACAGAAAGCUACUCUUACCCACCUG- -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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