AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_fusions016_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944241084
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	opuAA	289	glycine betaine ABC transporter (ATP-binding protein)
#1	opuBA	274	choline ABC transporter (ATP-binding protein)
#2	opuCB	22	glycine betaine/carnitine/choline ABC transporter (membrane protein)
#3	opuCA	263	glycine betaine/carnitine/choline ABC transporter (ATP-binding protein)

Motif 1
ATATAGGAGGATTACAGAGCATTTAGAAGCATAAATA	0	140	1
CGATGTCAATATACCACATTTTTGATACGGCGAAAAT	1	28	1
TAAATCAGCGTTTACACATACTTTATAAATAATATGA	1	129	1
AAATAAAAAGTTTACAATTTGTTCATATTATTTATAA	1	151	0
TAAACTTTTTATTTTATAAACTTTATTCTATAATGGG	1	174	1
TAAATTTAATTTTTCAGACAATTGAATGCTTCCCATT	1	205	0
AAATTAAGTTTATTCAATTTGTTCAGTTTAAATTTAA	1	233	0
TTATATGTTATTTATAGATTATTTATTGTTATGACCG	3	138	0
AAATAAAAAGTTTACAATGTGTTGAAATTATATGTTA	3	165	0
TAAACTTTTTATTTTACAAAGTTCAAACTATAATAAG	3	188	1
AGGATTATACTTTTCAGAAAATTTAAAGGAAACCTGC	3	223	1
          *** ** *   ** * *
MAP Score: 11.3454

Motif 2
       AATGGGTGTTGAAAAAGCAACTTATTTTTC	0	3	1
TAAAGGAGCAGGAAGTCATAAGAGGAAGGAGGAATTC	0	43	1
CAATCATATAGGAGGATTACAGAGCATTTAGAAGCAT	0	135	1
GTGGTCACATGGATGTTTATAAAGAAATGGTACAGAA	0	184	1
ACGGCGAAAATGCTGTCAAAAGAGAATTTGGCAGGAA	1	54	1
AGAGAATTTGGCAGGAAATTGGAGCAATAAGGAGATC	1	74	1
TGTTGAAAATAGCTGAATGCAGAGGAAGTGGGAGGTA	3	68	1
AGAGGAAGTGGGAGGTATCCGGAGTAATTGTAAGAAC	3	88	1
          **  **    **** **
MAP Score: 8.60546

Motif 3
GTACAGAATAAAAGAGAATATGCTGTTTGTGTGGGAA	0	213	1
TTTTCCCTCCATATTAAGCAATCTTTATTACCGTAAC	0	261	0
AATAATATGAACAAATTGTAAACTTTTTATTTTATAA	1	156	1
TTTTTATTTTATAAACTTTATTCTATAATGGGAAGCA	1	179	1
TAAACTGAACAAATTGAATAAACTTAATTTTGGAGGT	1	240	1
CTCGGTCATAACAATAAATAATCTATAAATAACATAT	3	136	1
TATAATTTCAACACATTGTAAACTTTTTATTTTACAA	3	170	1
TTTTTATTTTACAAAGTTCAAACTATAATAAGGATTA	3	193	1
TCAAACTATAATAAGGATTATACTTTTCAGAAAATTT	3	210	1
          * *   * *** ** **
MAP Score: 7.16632

Motif 4
ATTTAGAAGCATAAATAAGATCATGTGGTCACA	0	160	1
AAGTTTATAAAATAAAAAGTTTACAATTTGTTC	1	164	0
TTCCCATTATAGAATAAAGTTTATAAAATAAAA	1	180	0
AATTGTCTGAAAAATTAAATTTAAACTGAACAA	1	219	1
TCGCACCTCCAAAATTAAGTTTATTCAATTTGT	1	248	0
AACTTTGTAAAATAAAAAGTTTACAATGTGTTG	3	178	0
AACTTTTTATTTTACAAAGTTCAAACTATAATA	3	190	1
GATTATACTTTTCAGAAAATTTAAAGGAAACCT	3	225	1
          *  * ********
MAP Score: 7.08108

Motif 5
TAAAGGTAGGAGAAAAATCACCCGTAAAATACAATC	0	104	1
TAGAAGCATAAATAAGATCATGTGGTCACATGGATG	0	163	1
TGTTACGGTAATAAAGATTGCTTAATATGGAGGGAA	0	260	1
CATATTATTTATAAAGTATGTGTAAACGCTGATTTA	1	129	0
TTTATAAAATAAAAAGTTTACAATTTGTTCATATTA	1	158	0
CCATTATAGAATAAAGTTTATAAAATAAAAAGTTTA	1	174	0
TGTCTGAAAAATTAAATTTAAACTGAACAAATTGAA	1	222	1
CACCTCCAAAATTAAGTTTATTCAATTTGTTCAGTT	1	242	0
TTTGTAAAATAAAAAGTTTACAATGTGTTGAAATTA	3	172	0
TTTTTATTTTACAAAGTTCAAACTATAATAAGGATT	3	193	1
TCAAACTATAATAAGGATTATACTTTTCAGAAAATT	3	210	1
TATACTTTTCAGAAAATTTAAAGGAAACCTGCGGAG	3	228	1
          * ********     *
MAP Score: 6.14659

Motif 6
ATTCTCTTTTATTCTGTACCATTTCTTTATAAACATCCATG	0	191	0
CTCTTTTGACAGCATTTTCGCCGTATCAAAAATGTGGTATA	1	37	0
CGGGTAAATCAGCGTTTACACATACTTTATAAATAATATGA	1	125	1
TATAAAATAAAAAGTTTACAATTTGTTCATATTATTTATAA	1	151	0
TTGTAAGAACACCCTTTCCGTCTCGGTCATAACAATAAATA	3	115	1
TGTAAAATAAAAAGTTTACAATGTGTTGAAATTATATGTTA	3	165	0
AATAAGGATTATACTTTTCAGAAAATTTAAAGGAAACCTGC	3	219	1
          *   *** *      ** ***
MAP Score: 3.78828

Motif 7
AATTCCGATGTCAATATACCACATTTTTGATACGGCGAAAAT	1	23	1
AAATAATATGAACAAATTGTAAACTTTTTATTTTATAAACTT	1	155	1
AATGCTTCCCATTATAGAATAAAGTTTATAAAATAAAAAGTT	1	176	0
CAATTTGTTCAGTTTAAATTTAATTTTTCAGACAATTGAATG	1	214	0
CTGAACAAATTGAATAAACTTAATTTTGGAGGTGCGATGT  	1	244	1
AAATAATCTATAAATAACATATAATTTCAACACATTGTAAAC	3	151	1
ATATAATTTCAACACATTGTAAACTTTTTATTTTACAAAGTT	3	169	1
TATAATCCTTATTATAGTTTGAACTTTGTAAAATAAAAAGTT	3	190	0
TTCAAACTATAATAAGGATTATACTTTTCAGAAAATTTAAAG	3	209	1
          *  * *   *  * ***  * *
MAP Score: 3.78539

Motif 8
CAGTAAAGGAGCAGGAAGTCATAAGAGGAAGGA	0	40	1
GGAAGTCATAAGAGGAAGGAGGAATTCAATTCC	0	53	1
CAATCATATAGGAGGATTACAGAGCATTTAGAA	0	135	1
AGAGAATTTGGCAGGAAATTGGAGCAATAAGGA	1	74	1
ACTTAATTTTGGAGGTGCGATGT          	1	261	1
TTCAACACCAGGAAGAAATATGATATATTGACA	3	42	0
AGCTGAATGCAGAGGAAGTGGGAGGTATCCGGA	3	78	1
GGAAACCTGCGGAGGTGCACGGA          	3	250	1
          *******   ***
MAP Score: 2.38858