AlignACE 3.0 10/20/99
AlignACE2 -i PA/PA_fusions015_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944248736
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	PAB1502	131	PAB1502
#1	PAB1498	90	PAB1498
#2	pyrC	286	PAB1149

Motif 1
GAAATAATCTCTCGAAATTTTTTAATATTTT	0	17	1
TATTTTACCCCTCGAATTCTAATTTCCTCCC	0	42	1
AATTTCCTCCCAGGAGTTCTTTGCATATATA	0	62	1
ATAGGCTAAGCTTGAGTTTTAATAACCGTTT	0	97	0
TGACGTAACCCTTAAATATTTATTCTGGTGT	2	58	0
TTGGAAAGGGCTAAAGATCTTGGGATGTCTT	2	94	0
AAAGCCTTATCAGCAATATTTTCAGGAAATA	2	130	1
GCAATATTTTCAGGAAATATAAACCATAAAT	2	142	1
AAATATAAACCATAAATATTTGCTGGTGCAT	2	156	1
TCGATTTTCGCATGAGAATTATGCACCAGCA	2	176	0
AATCGAAATACAGGAAATTTAAATTTTTAAC	2	201	1
AATAGGGGTTCTTAAGTTTTTTCTAGGTTTC	2	240	0
          ** ********
MAP Score: 9.86762

Motif 2
GGTAAAATATTAAAAAATTTCGAGAGATTA	0	21	0
GATATATAAATAAAAACCTTTTCGTAAAGG	1	33	1
AGCTTGGGTATATAAACCTTTACGAAAAGG	1	49	0
TTTCCAAGTTTAAAAGCCTTATCAGCAATA	2	118	1
TTTCAGGAAATATAAACCATAAATATTTGC	2	149	1
CTGTGGCAAGTTAAAAATTTAAATTTCCTG	2	211	0
CAGAAACCTAGAAAAAACTTAAGAACCCCT	2	238	1
          **********
MAP Score: 6.86631