AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_fusions035_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944241859
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	ydcS	264	similar to hypothetical proteins from B. subtilis
#1	ydcT	38	similar to hypothetical proteins from B. subtilis
#2	ykfA	300	similar to immunity to bacteriotoxins
#3	yocH	247	similar to cell wall-binding protein
#4	yvcE	300	alternate gene name: yzkA; similar to cell wall-binding protein

Motif 1
TACCGGAACGAAGTGAGGATAAGGAGTTGA	0	69	1
CCCCCGAATCATCGGGGGACTCCCTCGCCG	0	160	0
ATTCGGGGGAATAGGGGGATAGATTAACAG	0	181	1
TTATGACTTTAAAGGGGGAACATCAG    	1	22	1
AAAAGCTAACAAGGGAGGATTTACTT    	3	231	1
ATACGATTCCAAATGAGGACAGGTTCACAG	4	260	1
TTCACAGTAAAAGGGAGGATATAAAAA   	4	283	1
          **********
MAP Score: 7.37848

Motif 2
GTTCAAAATACGATTCCAAATGAGGACAGGTTCACAGTAA	4	253	1
CCTACGTATACGTGCAAGAAAGAGGAAAAATACCGC    	2	6	0
CCCGATGATTCGGGGGAATAGGGGGATAGATTAACAGCAA	0	174	1
AAAACCAGCACGGCTATTTAGCGGGACAGGATGATGAGCG	2	220	1
TCAACGGTACCGGAACGAAGTGAGGATAAGGAGTTGACAT	0	62	1
AAGCCGAAAGCGTTGAACAAGGGTGATACAGTCGGAGTGA	2	84	1
TGCACGTATACGTAGGGTGCAGAGCAAATGAAAGGAGTGT	2	30	1
GTGAAATAAACGCTATACAACCAGAATAAGAGATGCACAG	4	156	1
   TTTTACACGCTTAAGAAAAATGACAAATGATGTGTGA	4	7	1
GGGACTCCCTCGCCGGTAGGCAGGAACAAACGGTTGTTTG	0	135	0
          **       * ***** * *
MAP Score: 5.8588

Motif 3
CAACCGTTTGTTCCTGCCTACCGGCGAGGGAGTCCC	0	139	1
TATCCCCCTATTCCCCCGAATCATCGGGGGACTCCC	0	166	0
GGGGATAGATTAACAGCAATCCAACGAGCTACCGTT	0	195	1
CAACGCTTTCGGCTTGTAATTCAACGAAAACACTCC	2	63	0
TCCGACTGTATCACCCTTGTTCAACGCTTTCGGCTT	2	84	0
GAGTGATCGCGCCCGCAAGTCCGCCGGATCCAAAAA	2	118	1
TTTCAGCGCCTTGCCCAACTTCACCTGAAGACCGAG	2	186	0
TAAATAGCCGTGCTGGTTTTTCAGCGCCTTGCCCAA	2	204	0
CATCATCCTGTCCCGCTAAATAGCCGTGCTGGTTTT	2	220	0
  AACACTGCTTTTACCTCATCGTCTCTGAACATCT	2	276	0
CACATTTTATTTTCTCTGTTTCGCCTCAAAATAAAA	3	45	1
TGTGTTACGATATCACCTGTTAGCCGCCAATAAAAA	3	199	1
TAATAAAATTTATCGCTAATTTGTCGAAACTTGATG	4	73	1
          *  * **  **** **
MAP Score: 5.44692

Motif 4
CTTAATAAACACAGGTGATGCGATTAAACG	0	26	1
GGTACCGGAACGAAGTGAGGATAAGGAGTT	0	67	1
CTGGCGATCTCCATGAGATGTTCAGAGACG	2	261	1
TTGGCGGCTAACAGGTGATATCGTAACACA	3	199	0
TAAAAAGCTAACAAGGGAGGATTTACTT  	3	229	1
AAGAAAAATGACAAATGATGTGTGACTTGA	4	22	1
AGTGTTTTTTACATATGATGTGAAATAAAC	4	137	1
TACAACCAGAATAAGAGATGCACAGAATAA	4	171	1
AAATACGATTCCAAATGAGGACAGGTTCAC	4	258	1
GGTTCACAGTAAAAGGGAGGATATAAAAA 	4	281	1
          **********
MAP Score: 5.29027

Motif 5
CGAAAACACTCCTTTCATTTGCTCTGCACC	2	45	0
TTGACACCGCGCTTTTATTTTTAGAAGAGC	2	157	1
    AACACTGCTTTTACCTCATCGTCTCT	2	284	0
GAAAAACAATCTTTTTTTCTATAAAAAACA	3	17	1
ATAAAAAACACATTTTATTTTCTCTGTTTC	3	37	1
CTTCGCAGGTCTTTTTATTTTGAGGCGAAA	3	63	0
CCCTTGTTAGCTTTTTATTGGCGGCTAACA	3	216	0
CATCATTTGTCATTTTTCTTAAGCGTGTAA	4	12	0
TGGTTGTATAGCGTTTATTTCACATCATAT	4	149	0
TTATATCCTCCCTTTTACTGTGAACCTGTC	4	277	0
          **********
MAP Score: 3.06348

Motif 6
GGTTTGGGTAGCGCTGAATATGTCAACTCCTT	0	89	0
CCCCGAATCATCGGGGGACTCCCTCGCCGGTA	0	157	0
CCCCGATGATTCGGGGGAATAGGGGGATAGAT	0	173	1
CAACGGTAGCTCGTTGGATTGCTGTTAATCTA	0	200	0
GAGCTACCGTTGGTGGGTTTGGGTGAAACCCA	0	220	1
AGAACTAACTTGGAGGGATAAG          	0	252	1
ATGACTTTAAAGGGGGAACATCAG        	1	24	1
AGGAGTGTTTTCGTTGAATTACAAGCCGAAAG	2	62	1
CAAGCCGAAAGCGTTGAACAAGGGTGATACAG	2	83	1
GTTGGGCAAGGCGCTGAAAAACCAGCACGGCT	2	203	1
CACGGCTATTTAGCGGGACAGGATGATGAGCG	2	228	1
AAGCTAACAAGGGAGGATTTACTT        	3	233	1
TCTCTTATTCTGGTTGTATAGCGTTTATTTCA	4	157	0
CGAGGAATGATGGTTGTTTATGGTTAATTATT	4	196	0
          *** ****** *
MAP Score: 2.74356

Motif 7
TTTAATCGCATCACCTGTGTTTATTAAGGTTTAGCAGCTTGGTT	0	10	0
AACGGTTGTTTGTTCAATGCCAAGAGGGTTTGGGTAGCGCTGAA	0	103	0
AGTCCCCCGATGATTCGGGGGAATAGGGGGATAGATTAACAGCA	0	169	1
CCGAAAGCGTTGAACAAGGGTGATACAGTCGGAGTGATCGCGCC	2	87	1
CTCCATGAGATGTTCAGAGACGATGAGGTAAAAGCAGTGTT   	2	269	1
GATGGTATAATGATTCTCGTACATAAGGAATTAGTGTTTTTTAC	4	105	1
CAACCATCATTCCTCGTAGAGTATGAGGAACGAAACTTGATGTT	4	212	1
          **  *   *   **  **    **
MAP Score: 2.55643

Motif 8
AACGTATGTGTCAACGGTACCGGAACGAAGTGAGGA	0	52	1
GTTGACATATTCAGCGCTACCCAAACCCTCTTGGCA	0	94	1
GGGGATAGATTAACAGCAATCCAACGAGCTACCGTT	0	195	1
ACAGTCGGAGTGATCGCGCCCGCAAGTCCGCCGGAT	2	111	1
GCACGGCTATTTAGCGGGACAGGATGATGAGCGGCT	2	227	1
ACCCTTGATATAATAGGCTTCGCAGGTCTTTTTATT	3	74	0
GCCTATTATATCAAGGGTTCAGCAAGTCTTTCCATC	3	92	1
TGATGTGAAATAAACGCTATACAACCAGAATAAGAG	4	152	1
          * * ***  *** * *
MAP Score: 2.55354

Motif 9
AAATAGCCGTGCTGGTTTTTCAGCGCCTTG	2	209	0
TAGAAAAAAAGATTGTTTTTCTGTTTTT  	3	8	0
TCCCTTGTTAGCTTTTTATTGGCGGCTAAC	3	217	0
TTGACACCGCGCTTTTATTTTTAGAAGAGC	2	157	1
AACGCTTTCGGCTTGTAATTCAACGAAAAC	2	68	0
TGGTTGTATAGCGTTTATTTCACATCATAT	4	149	0
TACGAGGAATGATGGTTGTTTATGGTTAAT	4	200	0
CTAAATCATATCTTTTTGTTATTGATTTGA	3	161	1
GCTTCGCAGGTCTTTTTATTTTGAGGCGAA	3	64	0
CATAAGGAATTAGTGTTTTTTACATATGAT	4	126	1
CAAATGAAAGGAGTGTTTTCGTTGAATTAC	2	54	1
TCGTTGGATTGCTGTTAATCTATCCCCCTA	0	192	0
          **********
MAP Score: 2.46546

Motif 10
CGAGCTACCGTTGGTGGGTTTGGGTGAAACC	0	219	1
TCCAAGTTAGTTCTTGGGTTTCACCCAAACC	0	235	0
 GCGGTATTTTTCCTCTTTCTTGCACGTATA	2	9	1
CTAAATAGCCGTGCTGGTTTTTCAGCGCCTT	2	210	0
AAAGATTGTTTTTCTGTTTTT          	3	0	0
CACATTTTATTTTCTCTGTTTCGCCTCAAAA	3	45	1
TCACACATCATTTGTCATTTTTCTTAAGCGT	4	16	0
ACATAAGGAATTAGTGTTTTTTACATATGAT	4	125	1
          ** ********
MAP Score: 0.244135