AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_fusions043_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944242134
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	yitA	300	similar to sulfate adenylyltransferase
#1	cysH	300	phosphoadenosine phosphosulfate
#2	ylnB	48	similar to sulfate adenylyltransferase

Motif 1
TCTTTTCTGCACTTAATGAAAGTTTGACATCAGC	0	50	0
TGGAGGTTGAACACGTTGAATGGAAACGAACCCC	0	103	1
ATCCCGCATGCCATTTTGAAGGGTGCGCGTGCCA	0	164	1
GCTCCAGATCACTCAGTGCAAGCTGATCCAGCTC	0	202	0
GATTATCATTCCGTTGTGAAAGAG          	0	286	1
AGCACCTTACAAACTATGCAGGTTGCCGGGCTTC	1	77	0
AAAATGAATTCCATTTTGAAAGATAAGGGCTGCA	1	120	1
TTTGAAAGATAAGGGCTGCATGCTGTTCCTGTCT	1	134	1
TTTCTTTCCGCCGGATTGAAAGTTTTTTATTTTA	1	167	1
GGAAAAGACAACCGGCAGAAAGCTACTGTTTGTT	1	251	1
          ** *  ****** *
MAP Score: 7.49346

Motif 2
TGGAGCTTATTGCGATCGGCGGCTACAGCCCGTT	0	230	1
TCCCATGTAATGTGATTCGCGGCTGCTGATATAC	1	220	0
TCTAAAAACTTATCAAGAGCGGCTGAGGGACTGG	1	37	1
AATGAAAGTTTGACATCAGCGCCTTAACATCATT	0	36	0
GGACTGGACCTATGAAGCCCGGCAACCTGCATAG	1	64	1
TTCATTTTGCTGGAAGTAGCACCTTACAAACTAT	1	94	0
TTACATGGGAAAAGACAACCGGCAGAAAGCTACT	1	244	1
CCATTTTGAAAGATAAGGGCTGCATGCTGTTCCT	1	130	1
CAGCTCTGCTTGGCACGCGCACCCTTCAAAATGG	0	174	0
GCGGAAAGAAAGACAGGAACAGCATGCAGCCCTT	1	144	0
          **  *  *******
MAP Score: 5.35305

Motif 3
TTCATTAAGTGCAGAAAAGAAAACAAGGAAA	0	64	1
AAGAAAACAAGGAAACGTATAAATGGAGGTT	0	80	1
CACGTTGAATGGAAACGAACCCCACGGAGGG	0	114	1
AGGTTTTTTGGGAGAAAAAGATTATCATTCC	0	267	1
TCAATCCGGCGGAAAGAAAGACAGGAACAGC	1	155	0
ACATTACATGGGAAAAGACAACCGGCAGAAA	1	241	1
AAGACAACCGGCAGAAAGCTACTGTTTGTTT	1	255	1
TCCTCCTTTCGGAGACAAACAAACAGTAGCT	1	271	0
TCCGAAAGGAGGAAAGAAGAA          	1	289	1
TTAACTAGGAGGAGATGGATATT        	2	35	1
          ********* *
MAP Score: 4.32333

Motif 4
ATGTCAAACTTTCATTAAGTGCAGAAAAGAAAAC	0	54	1
CGGAGGGGTATTAATCAACCGCTGTGATCCCGCA	0	138	1
TCAGTGCAAGCTGATCCAGCTCTGCTTGGCACGC	0	190	0
TGATCTGGAGCTTATTGCGATCGGCGGCTACAGC	0	225	1
CCCAAAAAACCTGTTAACGGGCTGTAGCCGCCGA	0	245	0
          CTCTTTCACAACGGAATGATAATC	0	286	0
AATCTAAAAACTTATCAAGAGCGGCTGAGGGACT	1	35	1
AGGGACTGGACCTATGAAGCCCGGCAACCTGCAT	1	62	1
          ** ** ***  ***
MAP Score: 3.84196

Motif 5
CGCATGCCATTTTGAAGGGTGCGCGTGCCA	0	168	1
GCTACAGCCCGTTAACAGGTTTTTTGGGAG	0	251	1
ACCTGCATAGTTTGTAAGGTGCTACTTCCA	1	88	1
TGAATTCCATTTTGAAAGATAAGGGCTGCA	1	124	1
TTTCCGCCGGATTGAAAGTTTTTTATTTTA	1	171	1
AGTTTTTTATTTTAAGAGGTAAAAAGGCTA	1	187	1
TCTGAGTAATTTTATAAGTTAACTAGGAGG	2	17	1
          **********
MAP Score: 1.95286

Motif 6
TGTGAGAATCGAAATGATGTTAAGGCGCTGATGTCAAACTTTCATT	0	24	1
ATTAAGTGCAGAAAAGAAAACAAGGAAACGTATAAATGGAGGTTGA	0	67	1
AATGGAGGTTGAACACGTTGAATGGAAACGAACCCCACGGAGGGGT	0	101	1
GGGTGCGCGTGCCAAGCAGAGCTGGATCAGCTTGCACTGAGTGATC	0	184	1
AAAAACTTATCAAGAGCGGCTGAGGGACTGGACCTATGAAGCCCGG	1	40	1
CCGGCAACCTGCATAGTTTGTAAGGTGCTACTTCCAGCAAAATGAA	1	82	1
TCAATCCGGCGGAAAGAAAGACAGGAACAGCATGCAGCCCTTATCT	1	140	0
CATTACATGGGAAAAGACAACCGGCAGAAAGCTACTGTTTGTTTGT	1	242	1
          * * **       **  * *    **
MAP Score: 0.616191

Motif 7
  TGGCAGGTTCTTGATGTGAGAATCGAAATG	0	8	1
ACAAGGAAACGTATAAATGGAGGTTGAACACG	0	86	1
CCGCATGCCATTTTGAAGGGTGCGCGTGCCAA	0	167	1
AGCTGGATCAGCTTGCACTGAGTGATCTGGAG	0	203	1
CCGTTAACAGGTTTTTTGGGAGAAAAAGATTA	0	259	1
AACCTGCATAGTTTGTAAGGTGCTACTTCCAG	1	87	1
ATGGAATTCATTTTGCTGGAAGTAGCACCTTA	1	102	0
ATTGAAAGTTTTTTATTTTAAGAGGTAAAAAG	1	181	1
AATTTTATAAGTTAACTAGGAGGAGATGGATA	2	24	1
          ***** * ****
MAP Score: 0.563289