AlignACE 3.0 10/20/99
AlignACE2 -i EC_fusions049_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	943438724
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	b2386	21	putative transport protein
#1	b2387	218	putative PTS system enzyme IIB component
#2	pepP	25	proline aminopeptidase P II
#3	ygfB	161	orf, hypothetical protein
#4	pepQ	189	proline dipeptidase

Motif 1
        ATCCTTCCTTTTATATCGGGAG	1	2	1
  AACACTCTCCTTACGTTTTTTGTTT   	2	7	0
      GCCACCTTCCTGCTGATTGACTGC	3	4	1
GACTGCGCTGCCTTCGTCTTTAGACCCATG	3	28	1
CCTTCGCAGACCATGGGTCTAAAGACGAAG	3	39	0
GACCAGATCACCTTGCGGATTCAGGAGACT	4	13	0
GTTTTTTTGACCTTAAGTCTCCGCATCTTA	4	156	0
   TTTTTACCCTTCTGTTTTTTTGACCTT	4	172	0
          **********
MAP Score: 4.42896

Motif 2
AGTGATAGTTGACGAGTGAAATTATGAACGTGCAAAACA	1	173	0
CATGGTCTGCGAAGGGGCGACACTATAGCTACCCTGATG	3	54	1
TAGCTACCCTGATGAGAAGAGACAAGCCCTTTTCTGGTC	3	79	1
GGTCGTACCAGATGAGTCGAAGTGTGTATTTTGTGTTAA	4	39	1
AAAGATTAAAGAAATGCCGATCTGATCACGCTCGGCAGA	4	91	1
GATGTGCTAAGATGCGGAGACTTAAGGTCAAAAAAACAG	4	149	1
          ** * *  **  * **  *
MAP Score: 3.09239

Motif 3
        ATCCTTCCTTTTATATCGGGAG	1	2	1
GTTTATTCAATTTTTCTTTGTGTCCCCTCA	1	64	1
GTAAATGCATTATTTGTCTGGTAACGGCGA	1	141	1
 AACACTCTCCTTACGTTTTTTGTTT    	2	6	0
GACTGCGCTGCCTTCGTCTTTAGACCCATG	3	28	1
CAGAAAAGGGCTTGTCTCTTCTCATCAGGG	3	85	0
CATGAATATTCCTCCCTTTGACGACGA   	3	144	1
TTTCTTTAATCTTTTGTTTGCATATTTTTA	4	75	0
ATCAGATCGGCATTTCTTTAATCTTTTGTT	4	87	0
  TTTTTACCCTTCTGTTTTTTTGACCTTA	4	171	0
          **********
MAP Score: 2.24993

Motif 4
AAGTGTGACGCAGGTCGACCTTGTGAGGGGACACAA	1	81	0
CATAATTTCACTCGTCAACTATCACTGAACGAGGAA	1	186	1
TGCTGATTGACTGCGCTGCCTTCGTCTTTAGACCCA	3	20	1
CTTGTCTCTTCTCATCAGGGTAGCTATAGTGTCGCC	3	69	0
AAGCCCTTTTCTGGTCCACCAGGGCCCAAAGTGGTA	3	102	1
CTGGTACGACCAGATCACCTTGCGGATTCAGGAGAC	4	14	0
CACACTTCGACTCATCTGGTACGACCAGATCACCTT	4	29	0
AAATGCCGATCTGATCACGCTCGGCAGAAATCACGC	4	102	1
GACCTTAAGTCTCCGCATCTTAGCACATCGTTCATC	4	142	0
          *** **  *** *  *
MAP Score: 1.15309

Motif 5
TATTCGACAGGGATAATTGTT          	0	10	1
ACAGTTTATTCAATTTTTCTTTGTGTCCCCT	1	61	1
CGTACAGCGGGATTAATTCTCCAGTAAATGC	1	118	1
CCAGTAAATGCATTATTTGTCTGGTAACGGC	1	138	1
GTCTGGTAACGGCGATTTGTTTTGCACGTTC	1	156	1
          CGTTAATTCCTCGTTCAGTGA	1	207	0
ACTCTCCTTACGTTTTTTGTTT         	2	1	0
GTGATCAGATCGGCATTTCTTTAATCTTTTG	4	89	0
TCATCCAGAGCGTGATTTCTGCCGAGCGTGA	4	116	0
          ** ********
MAP Score: 0.202206