AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_fusions023_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944241362
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	tenA	248	transcriptional regulator
#1	thiD	148	phosphomethylpyrimidine kinase
#2	ywbI	105	alternate gene name: ipa-24d; similar to transcriptional regulator (LysR family)

Motif 1
AGGATTCGTGTTAATATAGAGGTGCAGAACA	0	24	1
GCAGAACAATTCAATATGTATTCGTTTAACC	0	47	1
CTACCTAGTTTTCTTATGTAGCATTTTACGA	1	23	1
TGTCAAATGATTCCTATAGATCTTCTATATA	1	68	1
CTATAGATCTTCTATATATTGTGATACAGAG	1	81	1
ATAGTTAGATTTTCTCTGTATCACAATATAT	1	94	0
GTTTTGTCTTTCATTATAGTTAGATTTTCTC	1	109	0
GTACATAAGGTCTCTCTATAGGTAAAATATA	2	36	1
CTTCTTATTCTTAATATATATTTTACCTATA	2	52	0
AAGTATTCCTTTTGTCTATAGAAAGGGTGAA	2	80	1
          *** *******
MAP Score: 4.87065

Motif 2
TGACCAAATAAGGATTCGTGTTAATATAGAG	0	14	1
CAATTCAATATGTATTCGTTTAACCACTAGG	0	53	1
GAAGTGGAGCGGTATTTGTGTTATTTTACTA	0	161	1
GCGGGAAAGTGGTTTTTTTATTTTCAGAGGG	0	217	1
ACCCCTACCTAGTTTTCTTATGTAGCATTTT	1	19	1
AGATTGTCAAATGATTCCTATAGATCTTCTA	1	64	1
CATTATAGTTAGATTTTCTCTGTATCACAAT	1	98	0
AACCTCCATCATGTTTTGTCTTTCATTATAG	1	121	0
AAGAATAAGAAGTATTCCTTTTGTCTATAGA	2	71	1
          ********* *
MAP Score: 4.5138

Motif 3
ATTGAATTGTTCTGCACCTCTATATTAACACG	0	30	0
ATATGTATTCGTTTAACCACTAGGGGTGTCCT	0	60	1
CACACTTTTATCTCAGCCCTTATGAAGGACAC	0	85	0
CCTACGCAGGTCTGAACCTGTTCAAGTTATGA	0	129	0
CTATGCCAATTCCAAACCACTTTTCCTTGCGG	0	189	1
      CATCTCAAAACCCCTACCTAGTTTTC	1	4	1
        GCGCTTCACCCTTTCTATAGACAA	2	91	0
          *** **** ***
MAP Score: 2.9827

Motif 4
GGTTAAACGAATACATATTGAATTGTTCTG	0	48	0
CCTCCCTTATATACTTATTGTACATAAGGT	2	17	1
TATAGATCTTCTATATATTGTGATACAGAG	1	82	1
CTTATTCTTAATATATATTTTACCTATAGA	2	50	0
ATTAACACGAATCCTTATTTGGTCAAGAT 	0	9	0
          **********
MAP Score: 2.26583

Motif 5
 ATCTTGACCAAATAAGGATTCGTGTTAATATAGAGGT	0	9	1
CAGAACAATTCAATATGTATTCGTTTAACCACTAGGGG	0	48	1
CGTTTAACCACTAGGGGTGTCCTTCATAAGGGCTGAGA	0	69	1
AAGGGCTGAGATAAAAGTGTGACTTTTAGACCCTCATA	0	96	1
TTGACAATCTCAACGGGCTTTCGTAAAATGCTACATAA	1	36	0
          ATTGATGCCTCCCTTATATACTTATTGT	2	0	1
TACTTATTGTACATAAGGTCTCTCTATAGGTAAAATAT	2	28	1
TTTCTATAGACAAAAGGAATACTTCTTATTCTTAATAT	2	66	0
          * * * *  * * * ***
MAP Score: 1.46228

Motif 6
GAGCGGTATTTGTGTTATTTTACTATGCCAATTCCA	0	167	1
TCCTTGCGGGAAAGTGGTTTTTTTATTTTCAGAGGG	0	212	1
TCAAAACCCCTACCTAGTTTTCTTATGTAGCATTTT	1	14	1
ATGATTCCTATAGATCTTCTATATATTGTGATACAG	1	74	1
 ATTGATGCCTCCCTTATATACTTATTGTACATAAG	2	9	1
TTATTCTTAATATATATTTTACCTATAGAGAGACCT	2	43	0
AAAGGAATACTTCTTATTCTTAATATATATTTTACC	2	56	0
          *   *  ***** ***
MAP Score: 0.270921

Motif 7
GCAGAACAATTCAATATGTATTCGTTTAAC	0	47	1
CTATAGATCTTCTATATATTGTGATACAGA	1	81	1
ATAAGGTCTCTCTATAGGTAAAATATATAT	2	40	1
CTTCTTATTCTTAATATATATTTTACCTAT	2	53	0
ATTCCTTTTGTCTATAGAAAGGGTGAAGCG	2	84	1
          **********
MAP Score: 0.0436033