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Table 2 Frequency of tetramers in MNase-digested LRs and CLRs

From: Physical properties of naked DNA influence nucleosome positioning and correlate with transcription start and termination sites in yeast

Naked DNA ratio p-val Nucleosomal DNA ratio p-val Common low regions (CLR) ratio p-val
AAAA.TTTT 3.87 < 10-18 TATA.TATA 4.06 < 10-18 AAAA.TTTT 4.48 < 10-18
TAAA.TTTA 2.38 < 10-18 ATAT.ATAT 3.09 < 10-18 TATA.TATA 3.18 < 10-18
TATA.TATA 2.38 9.05 × 10-4 AAAA.TTTT 2.91 < 10-18 TAAA.TTTA 2.67 < 10-18
AAAT.ATTT 2.16 < 10-18 ATAA.TTAT 2.21 < 10-18 ATAA.TTAT 2.62 < 10-18
ATAA.TTAT 2.13 < 10-18 AATA.TATT 2.08 < 10-18 ATAT.ATAT 2.57 < 10-18
TTAA.TTAA 2.10 7.54 × 10-3 ATTA.TAAT 1.99 10-4 AATA.TATT 2.43 < 10-18
AATA.TATT 2.02 < 10-18 TAAA.TTTA 1.84 7.04 × 10-4 TTAA.TTAA 2.29 3.22 × 10-3
ATAT.ATAT 2.00 4.62 × 10-3 AAAT.ATTT 1.62 4.22 × 10-3 AAAT.ATTT 2.27 < 10-18
AATT.AATT 1.84 5.53 × 10-3     ATTA.TAAT 2.15 < 10-18
ATTA.TAAT 1.79 3.62 × 10-3     AATT.AATT 1.81 1.30 × 10-2
GAAA.TTTC 1.45 3.44 × 10-2       
  1. Experimentally detected and expected frequency ratios of different tetramers in MNase-digested LRs for naked (left) and nucleosomal (center) DNAs, and in CLRs (right). Displayed tetramers show a significant enrichment (p < 0.05) respect to genome average (Additional File 1: Additional Methods).