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Table 1 Enumeration of core promoter elements in the human genome, with and without considering conservation in the mouse genome

From: Genome-wide analysis of core promoter elements from conserved human and mouse orthologous pairs

Motif (core, PWM score cutoffs) Number of promoter elements found in 9,010 promoter sequences Number of promoter elements that are conserved in the orthologous mouse promoters Significance of increase in signal-to-noise ratio (one-tailed)a
  Real sequences Randomized sequences Real sequences Randomized sequences  
BRE (N/Ab, 0.81) 2696 (29.9%) 2503 (27.8%) 1952 (21.7%) 1476 (16.4%) 1.90 × 10-6
TATA (0.73, 0.58) 1848 (20.5%) 1167 (13.0%) 1483 (16.5%) 567 (6.3%) 1.70 × 10-16
INR (0.72, 0.62) 5949 (66.0%) 4527 (50.2%) 5648 (62.7%) 4040 (44.8%) 0.02
MTE (0.79, 0.53) 5833 (64.7%) 5464 (60.6%) 5123 (56.9%) 4555 (50.6%) 0.03
DPE (0.92, 0.92) 1733 (19.2%) 1650 (18.3%) 1078 (12.0%) 695 (7.7%) 2.90 × 10-11
  1. aOne-tailed Fisher's exact test of the real:randomized ratio in columns 4 and 5 versus columns 2 and 3. The p-value in the BRE row, for example, indicates that 1952/1476 is significantly greater than 2696/2503.
  2. bThe "core score" was found to be uninformative for the BRE element, so only the PWM score was used in this case.