AlignACE 3.0 10/20/99
AlignACE2 -i WIT_ctrl_PID078_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943391991
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	bglF	133	PTS system beta-glucosides, enzyme II, cryptic
#1	bglG	285	positive regulation of bgl operon
#2	pstB	182	ATP-binding component of high-affinity phosphate-specific transport system
#3	pstC	86	high-affinity phosphate-specific transport system, cytoplasmic membrane component
#4	pstS	300	high-affinity phosphate-specific transport system; periplasmic phosphate-binding protein

Motif 1
GGTTTTGCCCGCTTAGTGCGGTAACAATCCT	0	28	0
GAAAAAAATTGCTTGATTCACGTCAGGCCGT	0	60	1
ATAACGAACATCCAGGTTCGGAAATTAATTT	1	153	0
TTAACACTTTGCCGGATGCGGCGTGAACGCC	2	98	1
CGGCGTGAACGCCTGATCCGGCCTACGGTAA	2	116	1
CCTACGGTAAGCCTGATTAGCGAAGTGCATC	2	137	1
TCCTCATCGTGCCTGATGCACTTCGCTAATC	2	151	0
AAAACTCCAGGCCGGGTACGGTGTTTTACGC	3	11	1
ATTTTGTAATGCCGGATGCGGCGTAAAACAC	3	31	0
          ******* ***
MAP Score: 17.7742

Motif 2
CTGAGTAAAGGATTGTTACCGCACTAAGCGGG	0	20	1
ATTTTTTTCAGGTTTTGCCCGCTTAGTGCGGT	0	37	0
ACGTCAGGCCGTTTTTTTCAGGTTTTTTTTTG	0	79	1
TTTTTTTTTGGAGTTTTGCCGCAAAGCGGTAG	0	101	1
TAAGTTATTGGGATTTGTCTGGTGAA      	1	4	0
AGCGCATTGCTATTTTCTCTGCACGCAATTAA	1	123	1
TAAATGACTGGATTGTTACTGCATTCGCAGGC	1	196	1
GGTTATGTCAGGTTTTGCCTGCGAATGCAGTA	1	212	0
TTGCTGACACGGTTTTCCCCTCACCCTAACCC	2	12	1
CGGGTACGGTGTTTTACGCCGCATCCGGCATT	3	23	1
CGTAAGCGGGGCATTTTTCTTCCTGTTATGTT	4	12	1
GAAGATGACGGTTTGTCACATGGAGTTGGCAG	4	58	0
          * ***** ****
MAP Score: 11.9813

Motif 3
GTAACAATCCTTTACTCAGTAATAATATT 	0	9	0
ATCAAGCAATTTTTTTCAGGTTTTGCCCGC	0	47	0
GTCAGGCCGTTTTTTTCAGGTTTTTTTTTG	0	81	1
TTTTTCAGGTTTTTTTTTGGAGTTTTGCCG	0	92	1
AGTTATTGGGATTTGTCTGGTGAA      	1	4	0
CGCATTGCTATTTTCTCTGCACGCAATTAA	1	125	1
TTATGTCAGGTTTTGCCTGCGAATGCAGTA	1	212	0
ACTTCACCAGTATTCTCTGGTTATGTCAGG	1	232	0
GAGCGCCTTTTTGACTCTGTACACGGTTAA	2	72	1
CGGGGCATTTTTCTTCCTGTTATGTTTTTA	4	18	1
TTCGGCTACTTTTTCTCTGTCACAGAATGA	4	87	1
CAGAAAAATTTTCATTCTGTGACAGAGAAA	4	98	0
CAGAATGAAAATTTTTCTGTCATCTCTTCG	4	109	1
TGAAGACTTTATCTCTCTGTCATAAAACTG	4	188	1
          **********
MAP Score: 11.4898

Motif 4
AAGCAATTTTTTTCAGGTTTTGCCCGCTTAGT	0	42	0
AGGCCGTTTTTTTCAGGTTTTTTTTTGGAGTT	0	84	1
CAGGTTTTTTTTTGGAGTTTTGCCGCAAAGCG	0	97	1
ATAATTAAGTTATTGGGATTTGTCTGGTGAA 	1	9	0
ATAACTTAATTATTGGGATTTGTTATATATAA	1	28	1
TCTCTGGTTATGTCAGGTTTTGCCTGCGAATG	1	217	0
TCACCAGTATTCTCTGGTTATGTCAGGTTTTG	1	227	0
ATACTGGTGAAGTCGGGTTTTTTTGTTTATAA	1	249	1
TTTTTCTTCCTGTTATGTTTTTAATCAAACAT	4	25	1
          * ** *******
MAP Score: 11.1866

Motif 5
TGACGTGAATCAAGCAATTTTTTTCAGGTTTTG	0	52	0
TGATTCACGTCAGGCCGTTTTTTTCAGGTTTTT	0	73	1
CCGTTTTTTTCAGGTTTTTTTTTGGAGTTTTGC	0	87	1
CTGGTGAAGTCGGGTTTTTTTGTTTATAAAAAA	1	252	1
        AGCAAGGACCTTTTTTATAAACAAA	1	270	0
GGGGACCGACCGAGCGCCTTTTTGACTCTGTAC	2	61	1
  TGCGTAAGCGGGGCATTTTTCTTCCTGTTAT	4	8	1
CCGTCATCTTCGGCTACTTTTTCTCTGTCACAG	4	79	1
          ****   ******
MAP Score: 8.68535

Motif 6
          TATTGCTGACACGGTTTTCCCC	2	0	1
GGGGCATTTTTCTTCCTGTTATGTTTTTAATC	4	19	1
TCGGCTACTTTTTCTCTGTCACAGAATGAAAA	4	88	1
AGAATGAAAATTTTTCTGTCATCTCTTCGTTA	4	110	1
GAAGACTTTATCTCTCTGTCATAAAACTGTCA	4	189	1
CTCTCTGTCATAAAACTGTCATATTCCTTACA	4	200	1
ATTCCTTACATATAACTGTCACCTGTTTGTCC	4	222	1
          ***  *******
MAP Score: 7.99529

Motif 7
AATATTATTACTGAGTAAAGGATTGTTACCGCACT	0	10	1
TACCGCACTAAGCGGGCAAAACCTGAAAAAAATTG	0	36	1
TAAAATTACACAAAGTTAATAACTGCGAGCATGGT	1	73	1
TATAAAAACCATTAATAAATGACTGGATTGTTACT	1	181	1
TTACTGCATTCGCAGGCAAAACCTGACATAACCAG	1	211	1
CCCAGAGGGGCGAGGGGACCGACCGAGCGCCTTTT	2	48	1
TTGCCGGATGCGGCGTGAACGCCTGATCCGGCCTA	2	106	1
ATCAGGCACGATGAGGAAAAGATTGCA        	2	165	1
ATGCCGGATGCGGCGTAAAACACCGTACCCGGCCT	3	19	0
ACGCCGCATCCGGCATTACAAAATGACTTTGTAAA	3	38	1
CCTGCCAACTCCATGTGACAAACCGTCATCTTCGG	4	57	1
GCTACTTTTTCTCTGTCACAGAATGAAAATTTTTC	4	91	1
          *   ** ** *****
MAP Score: 7.4677

Motif 8
ATTATTGGGATTTGTTATATATAACTTTATAA	1	36	1
TGTTATATATAACTTTATAAATTCCTAAAATT	1	48	1
GCATGGTCATATTTTTATCAATAGCGCATTGC	1	101	1
AACCTGGATGTTCGTTATAAAAACCATTAATA	1	166	1
AACAATCCAGTCATTTATTAATGGTTTTTATA	1	181	0
AGCAAGGACCTTTTTTATAAACAAAAAAACCC	1	263	0
TTCTTCCTGTTATGTTTTTAATCAAACATCCT	4	28	1
CTGTCATCTCTTCGTTATTAATGTTTGTAATT	4	125	1
CAACAAACAATGCTTTATGAATCCTCCCAGGA	4	272	1
          * ****** ***
MAP Score: 2.75141