Table 3

Motifs discovered by di-nucleotide PWM from -7 to 0 [TSS]
Motif Score Match
minFN minSum minFP
TGATAG -0.14 Found Not found Not found
AGATTA -1.19 Not found Not found Not found
CGATTA -1.66 Not found Not found Not found
GGATAT -2.71 Found Not found Not found

New sites found in human promoter sequences by new PWMs and Match. The sites selected with highest score by the di-nucleotide PWM are shown. The column Motif shows the sites picked up from the human promoters in EPD database and the column Score shows the score given to these sites. The column Match shows the sites found by the Match program with the threshold provided in TRANSFAC as a minimum FN, minimum SUM and minimum FP level in the same database EPD.

Nandi and Ioshikhes

Nandi and Ioshikhes BMC Genomics 2012 13:416   doi:10.1186/1471-2164-13-416

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