AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_fusions040_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944242024
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	yveR	24	similar to spore coat polysaccharide biosynthesis
#1	yveM	258	similar to capsular polysaccharide biosynthesis
#2	ggaA	300	membrane-bound protein
#3	tagE	160	UDP-glucose:polyglycerol phosphate glucosyltransferase
#4	tagA	300	tagA
#5	tagB	32	tagB

Motif 1
GCCCACTTATCTCATATATACATAGGACGTA	1	131	1
GATCTCCCGGCTTATAGAGACTGTATCAGAG	2	69	1
AAGTGAAGAACTTATAGATACGGTAAAAGAG	2	149	1
TTACATAATCCTTATATAGATCATAACTATG	2	183	1
TTCAATTACTCTTTTAGAAGCCTTGCCTCTT	2	244	0
TAAAGTACTTCTTATTGAAATAAGAAGTACT	3	45	1
ATAAGAAGTACTTTTTGATGCTTACATTGAT	3	64	1
AGTACTTAACCTTTTTTAGGCGGTATGCTAT	4	41	0
CTTGATTTTGCTTTTAGAAACTCTCGGTTTT	4	238	1
          ******** **
MAP Score: 11.1867

Motif 2
TGATAATATGAATTTTTAAAAAAACCTTGTATTT	2	26	1
TTTTTTGCTGAAAATTAAAGTAAAAACCTCTGAT	2	93	0
CCTCATAGTTATGATCTATATAAGGATTATGTAA	2	183	0
CTAAATTACAAAATTTATTATAAAAATCCTCATA	2	210	0
ACGATCCTTTAACTTCTAAATAAAGAGGTACAAA	2	275	1
TCATTGGTTCAATATCTAATTAAAGTACTTCTTA	3	25	1
TTTAGTCACAAAAATCAATGTAAGCATCAAAAAG	3	74	0
AAACATATTTAAATTTAATGTAAAGATAATGTTA	4	167	1
TTTTAACATAAATCTTCAACAAAGGATTAACATT	4	194	0
ATATAAATAGAATCTTAAAGGAAGGAGGAGCCAG	4	274	1
    AAACAAAACTTTCAAATAAATGGATGATAA	5	6	1
          **  ** ** ****
MAP Score: 7.86006

Motif 3
TGTATATATGAGATAAGTGGGCATTTAACCCATCCTCA	1	115	0
CTTATCTCATATATACATAGGACGTATTGTCGGTTTAG	1	136	1
CATACACAAAAAATACAAGGTTTTTTTAAAAATTCATA	2	32	0
TAGTTATGATCTATATAAGGATTATGTAACAACTCTTT	2	174	0
TATAGATCATAACTATGAGGATTTTTATAATAAATTTT	2	197	1
CTTCTTATTTCAATAAGAAGTACTTTAATTAGATATTG	3	34	0
CTTCTTATTGAAATAAGAAGTACTTTTTGATGCTTACA	3	52	1
ATTTATGTTAAAATATAAGGTAGCTTGATTTTGCTTTT	4	215	1
GTTTTTAACTATATAAATAGAATCTTAAAGGAAGGAGG	4	264	1
CAAAACTTTCAAATAAATGGATGATAAAA         	5	13	1
          * *** ****    *  *
MAP Score: 5.98355

Motif 4
 TTTATGCACGAGGAGCCGGTCATT       	0	9	1
CGCCCCGCCAGCGACGACCAGCATCTAAGGCA	1	83	0
ATTTTTTGGAGAGACGAAAACCGCCGCAGCTA	1	183	1
TGAGTTACCGGAGAAGACTGTCA         	1	245	1
ATTACTCTTTTAGAAGCCTTGCCTCTTCTAAA	2	239	0
TTAATGATCAGTGAAGACATACGAGAAAT   	4	7	0
AAGTACTCATGAGGAGAAAAACATTCCAAAAT	4	65	1
TTAAAGGAAGGAGGAGCCAGAC          	4	288	1
          ******** * *
MAP Score: 5.01351

Motif 5
ATTGGAAACATATTTAAATTTAATGTAAAGATAATGT	4	162	1
TGAAGATTTATGTTAAAATATAAGGTAGCTTGATTTT	4	210	1
AAGTACTTCTTATTGAAATAAGAAGTACTTTTTGATG	3	47	1
TGGCGTTTTTTGCTGAAAATTAAAGTAAAAACCTCTG	2	95	0
GATACTTTAGTCACAAAAATCAATGTAAGCATCAAAA	3	76	0
ACTTATCTCATATATACATAGGACGTATTGTCGGTTT	1	135	1
GGAAACTTGCTTCAAACAAGTGAAGAACTTATAGATA	2	132	1
ATCCTTTAACTTCTAAATAAAGAGGTACAAAC     	2	278	1
ATGTTTCCAATTTTACAATTGAATGAACGAATGAACA	4	136	0
AAATTCATATTATCAAAAAAGACAGAAGAAT      	2	4	0
GAGATCATACACAAAAAATACAAGGTTTTTTTAAAAA	2	38	0
          *    ****  ** ***
MAP Score: 2.3787

Motif 6
CAGAGCCGAGTGCCTCCATTGATACAGGTCAGG	1	30	0
CAGCTGAAGTTGCTGCCTTAGATGCTGGTCGTC	1	70	1
TAGGACGTATTGTCGGTTTAGCTGCTGCCGATT	1	153	1
CTAATTCTTTTATCGGTTTAGCTGCGGCGGTTT	1	200	0
   ATTCTTCTGTCTTTTTTGATAATATGAATT	2	7	1
TACTTTTTGATGCTTACATTGATTTTTGTGACT	3	72	1
TTGAAATTTATATCTACCCGGATACTTTAGTCA	3	100	0
ATTTCTCGTATGTCTTCACTGATCATTAATTAT	4	10	1
          ***** * * ***
MAP Score: 1.72033