AlignACE 3.0 10/20/99
AlignACE2 -i BS/BS_fusions045_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944242207
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	tsf	101	elongation factor Ts
#1	panB	245	ketopantoate hydroxymethyltransferase
#2	ypfD	232	alternate gene name: jofD; similar to ribosomal protein S1 homolog
#3	cmk	78	cytidylate kinase
#4	ypfB	44	alternate gene name: jofB
#5	ypfA	92	alternate gene name: jofA
#6	ypeB	34	alternate gene name: joeB, yzuA; similar to hypothetical proteins
#7	sleB	138	spore cortex-lytic enzyme

Motif 1
AAAGGCAGTCCCTCTTATCACCTTTTGAAT	0	13	0
AGAGGGACTGCCTTTTATCACCTTTTTTCA	0	28	1
CCTTTTATCACCTTTTTTCAAGAAAAATGT	0	38	1
GCGAACTGCACCTATTATTAAAATAGATAG	1	64	1
CTGTCCCAGTCCTTTTTTGGATCAAGGCAG	1	107	0
GCAAATGCCACTTTTTTTGAATTTTTCAAC	2	15	1
ACAAACCTGTCCTTTTATTAGAAGTTAATA	2	67	1
ACTAATAAAACTTTTTATTGATCATTCAAA	2	96	1
CATTCAAAAAACTTTTTTGGATGATTCTTT	2	118	1
CAATTTTTCACCCTTTTTCATAAAGTTCGT	3	18	1
ATGTCTTTTCCTTTTTTTCATTACGTGCTT	5	30	1
  TTATCACACCTCTTTTTATGCTTTCTCA	6	16	0
AACCGTGCGGCTTTTTTGTGTGCAGTTTTT	7	22	1
          **********
MAP Score: 16.6946

Motif 2
TAAACATGAGGAGGAGAAAAC         	1	234	1
ACAATCCTTAGAGGAGAAAAGAGCAAGGAG	3	51	1
CTCATGTTTAGAGGAGATGATCTGCCGTTT	1	214	0
TTCTTGAAAAAAGGTGATAAAAGGCAGTCC	0	32	0
 CCTATTCAAAAGGTGATAAGAGGGACTGC	0	9	1
AGAAAAGAGCAAGGAGAGGAATT       	3	65	1
       AAACAGGAGGAAAGGACTAAATG	5	3	1
TTTATGAAAAAGGGTGAAAAATTGATGAAT	3	12	0
TAATGAAAAAAAGGAAAAGACATTTAGTCC	5	23	0
TTAAACATATAAGGAGGAATACAA      	0	87	1
GGTTTGGACCAAGGAGGTTATTCAA     	2	217	1
CGAACTTTAGAAAGTGAAGAATCCTTCTCG	1	152	1
TTTTGGCTTGCAGAAGAAAACGGCAGATCA	1	197	1
          **********
MAP Score: 13.0063

Motif 3
   CCTATTCAAAAGGTGATAAGAGGGACTGC	0	7	1
TTTTCTTGAAAAAAGGTGATAAAAGGCAGTCC	0	32	0
TTTTTTCAAGAAAAATGTGTAATATACATACT	0	50	1
TTATATGTTTAAACAAGAGTATGTATATTACA	0	67	0
CCGAACTTTAGAAAGTGAAGAATCCTTCTCGT	1	151	1
CATCTCCTCTAAACATGAGGAGGAGAAAAC  	1	225	1
AAAAATTCAAAAAAAGTGGCATTTGCCATCC 	2	9	0
ATATTCGGCTAAAAGCGGGCATGTTATATGTT	2	153	1
AACTTTATGAAAAAGGGTGAAAAATTGATGAA	3	13	0
TCCTTAGAGGAGAAAAGAGCAAGGAGAGGAAT	3	55	1
          AAACAGGAGGAAAGGACTAAAT	5	0	1
CACGTAATGAAAAAAAGGAAAAGACATTTAGT	5	25	0
GCTTTAATAAAAACGTGAGTATATTGAATGCG	5	56	1
TATTGAATGCGAAAGAGTGAAGTCA       	5	77	1
GGATAACAAGGAAAGAGTGTATAAAAATAACC	7	62	1
GATTACACTTAAAAATTTGCAGTAGGAGGCTT	7	110	1
          ***** *** **
MAP Score: 12.6374

Motif 4
TCAAAAGGTGATAAGAGGGACTGCCTTTTATCA	0	15	1
GTATACCAAAATCAACGGGCTTGTACCAACACA	1	10	0
GCCTTGATCCAAAAAAGGACTGGGACAGAGGGA	1	109	1
TCTCCTCTAAACATGAGGAGGAGAAAAC     	1	227	1
TTAACTTCTAATAAAAGGACAGGTTTGTCAAGC	2	62	0
ATATTCGGCTAAAAGCGGGCATGTTATATGTTC	2	153	1
TCCTTAGAGGAGAAAAGAGCAAGGAGAGGAATT	3	55	1
        AAACAGGAGGAAAGGACTAAATGTC	5	2	1
CACGTAATGAAAAAAAGGAAAAGACATTTAGTC	5	24	0
ATGAGAAAGCATAAAAAGAGGTGTGATAA    	6	15	1
GTTCTGAGGGATAACAAGGAAAGAGTGTATAAA	7	54	1
          * ********  *
MAP Score: 8.90502

Motif 5
TAAGAGGGACTGCCTTTTATCACCTTTTTTCAAGAAAAA	0	26	1
TCTTTCGCATTCAATATACTCACGTTTTTATTAAAGCAC	5	54	0
AAAAGACATTTAGTCCTTTCCTCCTGTTT          	5	0	0
   TTATTCATCAATTTTTCACCCTTTTTCATAAAGTTC	3	7	1
         GTTTTCTCCTCCTCATGTTTAGAGGAGATG	1	225	0
TAAAAGGCAGTCCCTCTTATCACCTTTTGAATAGG    	0	6	0
GTTTCATCCCTCTGTCCCAGTCCTTTTTTGGATCAAGGC	1	109	0
TTTTTATTGATCATTCAAAAAACTTTTTTGGATGATTCT	2	107	1
       GGATGGCAAATGCCACTTTTTTTGAATTTTTC	2	3	1
AAAAATGTGTAATATACATACTCTTGTTTAAACATATAA	0	60	1
        AATTCCTCTCCTTGCTCTTTTCTCCTCTAAG	3	57	0
TGTTATATGTTCAGCTTTCAAACCGTTTTAATTAAGCTG	2	174	1
GTAACGAGGTTATTTTTATACACTCTTTCCTTGTTATCC	7	62	0
          *   * *   * * *****
MAP Score: 3.53799