Microarray analysis of the in vivo sequence preferences of a minor groove binding drug

BMC Genomics

Table 4 Difference criterion sequences in direct gene category

5-mer	Directly Affected	Difference	6-mer	Directly Affected	Difference
aataa	71%	31%	tatata	61%	33%
ataag	58	29	atataa	58	32
agaat	50	25	aaaaga	45	23
aacaa	55	24	aaataa	45	21
aaata	74	23	aaaata	37	20
atata	74	23	tataag	34	20
tataa	74	23	taataa	32	19
cataa	42	22	gaaata	29	18
gtaaa	47	22	aaagaa	47	16
aaaga	66	19	aataat	29	16

Sequences found to be most overrepresented in the upstream regions of genes hypothesized to be directly affected by berenil compared to unaffected genes. The percentage of affected genes and difference in percentage between affected and unaffected genes having each sequence is listed. Bolded sequences are shared with Table 5.

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