. 2010 Jul 29;38(17):e170. doi: 10.1093/nar/gkq670

Table 3.

Top 10 oligonucleotides with the largest absolute correlations with Inline graphic

Human tissue		Yeast_random_hexamer		Yeast_oligo(dT)		Mouse tissue
Motif	Corr	Motif	Corr	Motif	Corr	Motif	Corr
ACT or AGT	−0.312	ATA or TAT	−0.550	ATA or TAT	−0.543	AG or CT	−0.350
A or T	−0.311	ATAA or TTAT	−0.507	ATAA or TTAT	−0.495	AGAG or CTCT	−0.349
TA	−0.310	AATA or TATT	−0.495	AATA or TATT	−0.488	CAG or CTG	−0.347
TTTC or GAAA	−0.308	TAAA or TTTA	−0.495	TAAA or TTTA	−0.484	CTC or GAG	−0.346
ATTC or GAAT	−0.308	AT	−0.486	AT	−0.474	TC or GA	−0.342
TCA or TGA	−0.308	AAAA or TTTT	−0.481	AAAA or TTTT	−0.469	TCTG or CAGA	−0.342
TAG or CTA	−0.308	ATG or CAT	−0.478	AAAT or ATTT	−0.462	AGC or GCT	−0.341
AT	−0.307	AAAT or ATTT	−0.473	ATG or CAT	−0.462	C or G	−0.340
TTCA or TGAA	−0.306	ATTA or TAAT	−0.471	ATTA or TAAT	−0.458	TCC or GGA	−0.339
ACA or TGT	−0.306	TA	−0.468	TA	−0.458	AGA or TCT	−0.339

Every possible oligonucleotide with length ≤6 was considered. The occurrences of the oligonucleotides and their reverse complementary counterparts were pooled together for each gene. The correlation between the log of the oligonucleotide frequency and Inline graphic was calculated and ranked based on the absolute value. For the human tissue data, the average across the nine tissues was used. For the yeast data, the samples were prepared using random hexamer or oligo(dT) primers. For the mouse data, the average across three tissues were used. The hydrolysis of RNA was performed before cDNA priming for the mouse data.