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
32783	5'	-55.7	NC_007346.1	+	401497	0.68	0.972753
	Target:  5'- gGCAGCuAGUUGAcUUGAUUCCAUCGc -3' miRNA:   3'- gCGUCGcUCAGCU-AGCUGAGGUGGUc -5'
32783	5'	-55.7	NC_007346.1	+	176963	0.68	0.964301
	Target:  5'- cCGCcacGCGAuUCGGUCGACUacCCGCCu- -3' miRNA:   3'- -GCGu--CGCUcAGCUAGCUGA--GGUGGuc -5'
32783	5'	-55.7	NC_007346.1	+	263214	0.7	0.942244
	Target:  5'- uGCugaguuuGCuGAGUCGAcUCGACUCUGCUGGg -3' miRNA:   3'- gCGu------CG-CUCAGCU-AGCUGAGGUGGUC- -5'
32783	5'	-55.7	NC_007346.1	+	343161	0.7	0.928473
	Target:  5'- cCGUAGaCGAGUUGuuAUCGGCUCCGgUGGa -3' miRNA:   3'- -GCGUC-GCUCAGC--UAGCUGAGGUgGUC- -5'
32783	5'	-55.7	NC_007346.1	+	202956	0.71	0.901363
	Target:  5'- gGCAGUcGGUCacauccguaAUCGACUCCACCAc -3' miRNA:   3'- gCGUCGcUCAGc--------UAGCUGAGGUGGUc -5'
32783	5'	-55.7	NC_007346.1	+	238676	0.72	0.876021
	Target:  5'- uGguG-GAGUCGAUCGACUCgCugCGa -3' miRNA:   3'- gCguCgCUCAGCUAGCUGAG-GugGUc -5'
32783	5'	-55.7	NC_007346.1	+	62205	0.73	0.832414
	Target:  5'- aGCAGCGAGggGGUgaAUUCCACCAGc -3' miRNA:   3'- gCGUCGCUCagCUAgcUGAGGUGGUC- -5'
32783	5'	-55.7	NC_007346.1	+	239108	1.08	0.011192
	Target:  5'- uCGCAGCGAGUCGAUCGACUCCACCAGc -3' miRNA:   3'- -GCGUCGCUCAGCUAGCUGAGGUGGUC- -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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