]> motiph motiph -oc motiph_example_output_files --seed 0 --bg 2 --pseudocount 0.01 spiked.aln yeast.tree MCM1.meme.html MCM1.meme.html clustal-w alignment 0.0001 TTTCCTAAATGGG 6.15e-15 TAACCTCTTTGGG 9.37e-06 GAGCCCGTTTAGG 0.00172 CGACCGAATCAGG 0.00278 TTTGCCAATTTAG 0.00435 TTCCTAAATGGGT 0.00435 TTGCCAATTTAGC 0.00729 TAATCAAAAAAGG 0.00729 TTTGCTCTTAATG 0.00729 yes CCCGTTTAGGAAA 5.98e-12 CCTAAATGGGTAA 1.09e-08 CCTCTTTGGGGAA 1.55e-07 CTCTTTGGGGAAA 2.5e-07 CCGAATCAGGAAA 9.47e-07 CTCTTAATGGAAA 0.000407 CCTCGAGGAAATA 0.00209 CCTCAAGAAGTAA 0.00209 CCAAATGCGGGTA 0.00359 CTAAATGGGTAAA 0.00399 TCCTAAATGGGTA 0.00433 yes