AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_fusions042_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944242084
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	ptsG	238	phosphotransferase system (PTS) glucose-specific enzyme IIABC component
#1	ptsH	97	histidine-containing phosphocarrier protein of the phosphotransferase system (PTS) (HPr protein)
#2	pps	300	phosphoenolpyruvate synthase
#3	pykA	42	pyruvate kinase
#4	pfk	183	6-phosphofructokinase
#5	yvkC	300	similar to pyruvate,water dikinase

Motif 1
TTACACAACAAAAAGGCATGAGCAAAATTGGGTGCG	0	108	0
TTGTTGTGTAAAAGGGCAAATGTAAACGGTTAAACT	0	133	1
TCAGACTAGTAAAAAGAGGAGGTCAATTCTT     	0	217	1
GCTTTAAGTTAAAAGGAGAATGATAAAA        	1	79	1
GGAAATTAAGAAAAGAACCTGGTGAAATTTCCCAGG	2	124	1
GTGCAATATAAAAAGAACCTGGGAAATTTCACCAGG	2	141	0
CTTTCTAGTTAAAAAGTTATAGATATCCATCTTATA	2	213	1
TCCCCTTCAAAAAAAAATATTGACAAGAGCTTCCTA	2	266	0
TGTCACAAAAAATAAACGTGAGCCAAAGGCTTCACG	4	15	0
TTCCGAGAATAAAAGAAAATAGGCATACAGTACCAG	5	81	1
GCCTGTGTTTAAAAAATGATAGTAAACACTATCATT	5	214	0
CTCCGCAATAAAAAGACTAGAGAGAAAAACAAAATG	5	249	1
GAGAAAAACAAAATGAATGAAGAAAAGAGGGGTTTC	5	270	1
          *******    *  **
MAP Score: 17.5938

Motif 2
AGAATGAACTTCCCGTTTTTTTCCCTCAATCA	0	66	0
GGAAGTTCATTCTCGTTCTTTTGCGCACCCAA	0	85	1
GAATTCGTTGTCATGATTTTTAGCTGTAAGGT	0	186	1
TCAGCTCAAACCAAGTTTTTTAATGCGACTAG	2	88	1
GGAAATTTCACCAGGTTCTTTTCTTAATTTCC	2	124	0
GTGAAATTTCCCAGGTTCTTTTTATATTGCAC	2	145	1
GAAGCTCTTGTCAATATTTTTTTTTGAAGGGG	2	269	1
AGCCTTTGGCTCACGTTTATTTTTTGTGACAT	4	20	1
TTATTTAAAAACAATTTATTTAATTGTATAAT	4	62	1
AGATCCCTTTTCATTGTTTTTAGGGCAATGAT	4	119	1
AGGGCAATGATCATGTTATGTTTAATCATATA	4	140	1
CTAATCAGCGGCACTTTTTTTATTACATCATC	5	34	1
ACTTAACTATTCATTTTATTTAGGACTTTCTG	5	148	1
TTTTCTTCATTCATTTTGTTTTTCTCTCTAGT	5	264	0
          *** *** ****
MAP Score: 15.6494

Motif 3
TTTGTGCAATATAAAAAGAACCTGGGAAATTTCA	2	146	0
AGGCTCCGCAATAAAAAGACTAGAGAGAAAAACA	5	246	1
TATATTGCACAAAAACAGACACGGTGATATAATC	2	167	1
GCCTGTGTTTAAAAAATGATAGTAAACACTATCA	5	216	0
TATGGAAATTAAGAAAAGAACCTGGTGAAATTTC	2	121	1
GGTCAGACTAGTAAAAAGAGGAGGTCAATTCTT 	0	215	1
AAAGTCCTAAATAAAATGAATAGTTAAGTTGGTT	5	143	0
GGAATGTCACAAAAAATAAACGTGAGCCAAAGGC	4	21	0
TCTCCCCTTCAAAAAAAAATATTGACAAGAGCTT	2	270	0
AAAACCTACAATTAAATGATAGTGTTTACTATCA	5	200	1
ATTGCCCTAAAAACAATGAAAAGGGATCTCCATC	4	114	0
TGGGTGCGCAAAAGAACGAGAATGAACTTCCCGT	0	82	0
AGATTCCGAGAATAAAAGAAAATAGGCATACAGT	5	78	1
AAAATGAATGAAGAAAAGAGGGGTTTCAAAT   	5	279	1
AAGCTTTAAGTTAAAAGGAGAATGATAAAA    	1	77	1
CGTTATAAGGATAAACTGAATTTATGAAATT   	0	7	0
AGCTAGTCGCATTAAAAAACTTGGTTTGAGCTGA	2	88	0
GATTGAGGGAAAAAAACGGGAAGTTCATTCTCGT	0	67	1
AGACTAGAGAGAAAAACAAAATGAATGAAGAAAA	5	262	1
CTATTATACAATTAAATAAATTGTTTTTAAATAA	4	62	0
          ****** **   **
MAP Score: 11.7923

Motif 4
GTGATTGAGGGAAAAAAACGGGAAGTTCAT	0	65	1
ATTGGGTGCGCAAAAGAACGAGAATGAACT	0	88	0
CCTTTTACACAACAAAAAGGCATGAGCAAA	0	118	0
CTTGTCATCTGACAAGCACGGCGTACTAAC	1	14	0
CTTGTCAGATGACAAGTACGGTTGTATGAT	1	28	1
AAGTAAGTTCAAAAAGAACCCAACTTTAGG	2	39	1
TGGAAATTAAGAAAAGAACCTGGTGAAATT	2	123	1
TGTGCAATATAAAAAGAACCTGGGAAATTT	2	148	0
AAAAAATATTGACAAGAGCTTCCTAGCAGG	2	261	0
GATGTAATAAAAAAAGTGCCGCTGATTAGA	5	33	0
ATATTATCCTGAAAAATGCGGCCGTACTGG	5	113	0
AATGAATGAAGAAAAGAGGGGTTTCAAAT 	5	281	1
          **********
MAP Score: 11.2179

Motif 5
ATTGAGGGAAAAAAACGGGAAGTTCATTCT	0	68	1
GGGTGCGCAAAAGAACGAGAATGAACTTCC	0	85	0
TTTTGTTGTGTAAAAGGGCAAATGTAAACG	0	131	1
TCAGACTAGTAAAAAGAGGAGGTCAATTCT	0	217	1
AGCTTTAAGTTAAAAGGAGAATGATAAAA 	1	78	1
      TTTATGAATGGGGACTCTACGAAC	2	4	1
ATATTTTTTTTTGAAGGGGAGATGTAGA  	2	282	1
TTTCATAGGGAGGATGGAGATCCCTTTTCA	4	102	1
CTAAAAACAATGAAAAGGGATCTCCATCCT	4	112	0
GTTGCTGAGGTGAATGGAGA          	4	173	1
AAAAACAAAATGAATGAAGAAAAGAGGGGT	5	273	1
          **********
MAP Score: 6.55438

Motif 6
TAACCGTTTACATTTGCCCTTTTACACAACAAAAA	0	130	0
    TTTTATCATTCTCCTTTTAACTTAAAGCTTT	1	76	0
      TCTACATCTCCCCTTCAAAAAAAAATATT	2	281	0
    TTGGTTCACTTCCTTCTGAAATCTTCAGCCT	3	21	0
AAGGGATCTCCATCCTCCCTATGAAACCTTACCTA	4	93	0
ATAACATGATCATTGCCCTAAAAACAATGAAAAGG	4	124	0
      TCTCCATTCACCTCAGCAACATATATGAT	4	164	0
TAATCAGCGGCACTTTTTTTATTACATCATCAAGT	5	35	1
AAGTTGGTTATATTATCCTGAAAAATGCGGCCGTA	5	117	0
CTTAACTATTCATTTTATTTAGGACTTTCTGCGTT	5	149	1
CGTTTGACAGCATTTTCCTGAAAACCTACAATTAA	5	180	1
          ****  *** *  **
MAP Score: 6.28345

Motif 7
AATCACTGATGCCTGATCGAATCAGTAACACGTTA	0	36	0
GGTGTTAGTACGCCGTGCTTGTCAGATGACAAGTA	1	11	1
TACAGCTGAAGGCTGAAGATTTCAGAAGGAAGTGA	3	12	1
TCCATGGTGCCGCTGTTCTAATCAGCGGCACTTTT	5	17	1
TCATCAAGTCCGCCGCCAGATTCCGAGAATAAAAG	5	61	1
GTACCAGTACGGCCGCATTTTTCAGGATAATATAA	5	110	1
TTCAGGAAAATGCTGTCAAACGCAGAAAGTCCTAA	5	167	0
          *****    * ****
MAP Score: 5.77748

Motif 8
ACTTCCCGTTTTTTTCCCTCAATCACTGATGC	0	59	0
GTTGTCATGATTTTTAGCTGTAAGGTCAGACT	0	192	1
CAAACCAAGTTTTTTAATGCGACTAGCTATGG	2	94	1
CACCGTGTCTGTTTTTGTGCAATATAAAAAGA	2	161	0
TATCTATAACTTTTTAACTAGAAAGCGCACGT	2	206	0
CTTGTCAATATTTTTTTTTGAAGGGGAGATGT	2	275	1
CTCACGTTTATTTTTTGTGACATTCCTTAAAT	4	29	1
AAATAAATTGTTTTTAAATAAAATTTAAGGAA	4	51	0
CTTTTCATTGTTTTTAGGGCAATGATCATGTT	4	125	1
CAGCGGCACTTTTTTTATTACATCATCAAGTC	5	39	1
TACGGCCGCATTTTTCAGGATAATATAACCAA	5	117	1
TTAATTGTAGGTTTTCAGGAAAATGCTGTCAA	5	183	0
CTCTCTAGTCTTTTTATTGCGGAGCCTGTGTT	5	241	0
ATTCATTTTGTTTTTCTCTCTAGTCTTTTTAT	5	256	0
          ****** *** *
MAP Score: 5.21805