AlignACE 3.0 10/20/99
AlignACE2 -i AG/AG_sum_all032_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944247070
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	AF0659	45	type II secretion system protein (gspE-2)
#1	AF0663	133	heterodisulfide reductase, subunit A (hdrA-1)
#2	AF0996	60	type II secretion system protein (gspE-3)
#3	AF0997	71	N-ethylammeline chlorohydrolase (trzA-2)
#4	AF1049	102	type II secretion system protein (gspE-4)

Motif 1
AATATATGCTTTTCTTGCAAAT        	0	2	0
AAAAGCATATATTTTGGGAAATATAACATT	0	19	1
GAAATCCAGGATTTTTGGAAACCGAAAACA	1	37	0
AAGTTAATAAATGTATCGAAATTAAGCCAC	1	71	0
ATTTTCTCCTATTTTTGCAAGCATTCTGG 	2	9	0
CTTTGCTTTCATTTTTGGGATTACACTGCA	4	25	0
          **********
MAP Score: 4.18053

Motif 2
 ATTTGCAAGAAAAGCATATATTTTGGGAAATATAACATTT	0	9	1
   ACTAAATAAACAATTTAACCTTAAAAATGTTTTCGGTT	1	7	1
AAATGTATCGAAATTAAGCCACATTCGAAATCCAGGATTTT	1	52	0
AAAATAGGAGAAAATTTTAATTATTTCTTATGTTAACATCA	2	24	1
         AAAATATGTTTATTTTCAGCATTTTAAGCTTT	3	1	1
CTTTACCGCGAAAGGTATTAATCTTAAAGATTGAGGACCTT	3	38	1
GTTAATAGCAACATCAGTTGATAGTAGTAATAGTTATTATA	4	55	1
          ***    *  ** **    **
MAP Score: 2.5464

Motif 3
TTTGCAAGAAAAGCATATATTTTGGGAAATA	0	11	1
ATTTAACCTTAAAAATGTTTTCGGTTTCCAA	1	22	1
GGTTTCCAAAAATCCTGGATTTCGAATGTGG	1	44	1
CTTCTTTTCAAGCCAGAGGTTGAAACAGGCA	1	98	1
TGAAACAGGCAATCAGGTGTTAGCT      	1	118	1
TGCTGAAAATAAACATATTTT          	3	0	0
CCAAAAATGAAAGCAAAGGTTAATAGCAACA	4	37	1
          ** ********
MAP Score: 0.559153