AlignACE 3.0 10/20/99
AlignACE2 -i MP/MP_fusions004_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944246389
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	MG260	300	Mycoplasma pneumoniae, MG260 homolog, from M. genitalium
#1	MG260	297	Mycoplasma pneumoniae, MG260 homolog, from M. genitalium
#2	putative	175	Mycoplasma pneumoniae, putative lipoprotein, MG260 homolog, from M. genitalium
#3	MG260	38	Mycoplasma pneumoniae, MG260 homolog, from M. genitalium
#4	putative	131	Mycoplasma pneumoniae, putative lipoprotein, MG260 homolog, from M. genitalium
#5	MG260	300	Mycoplasma pneumoniae, MG260 homolog, from M. genitalium
#6	MG260	210	Mycoplasma pneumoniae, MG260 homolog, from M. genitalium

Motif 1
TTAGTTGCTGGTATTTTTATTCACTTTGAAGAGAA	0	33	1
TTTAAACAAATGATTTTTCTCTTCAAAGTGAATAA	0	49	0
CTATCTTTATTTATTTTGTATGTGCCAAATTATTT	0	162	1
ATGTGCCAAATTATTTTTGACACATCAAATCAAAT	0	181	1
AAATCAAATATTATTTTTTATCATTCCCCTAAATT	0	207	1
TGCTTTTAGTGGCTTTTTAGGTCTAGGTG      	0	281	1
GGCTCCGTTATTATTTTTAGCTTGCTCTAGTTTTT	1	17	0
TTCAGACTTATCCTTTTTCTCGGCTCCGTTATTAT	1	38	0
TTCAAAGACATGCTTTTTGTCAGCATTCAGGAAAC	1	122	0
TCTTGCGGTCGTATTTTTCATCATTAAGCTTGCTA	1	159	0
TTATCCAGTTTTATTTTTTATAGTTTTAG      	2	4	0
TGCGCTTAATTTCTTTTGGGGAGTTACACCGGGTA	2	81	1
TGTAAGATTTGGCTTTCTTTCTAGTGTTGCTGAA 	2	151	1
CCGTTAATAGTGCTTTTTAGCAGTCAAATTTGAAA	4	13	0
GCTATCCAACTTATTTTTAACTTTTAAAAATAAAG	4	57	1
TTAGCTTACAGTATTTCTTCCACTTCTGGCTTTAA	5	34	1
ATTGTCATCAGTATTTTGACCATTTTGTTGGTCTG	5	164	0
AAAGGTTTTCTTCTTTTTTACTGTTATTGTCATCA	5	189	0
       ACCTTAGTTTTAACTAATTCTCAATTGG	6	3	1
TAGTTGGGTTTTCTTTTGTTTGCTCTTGAGATCTA	6	84	1
AAAAAGAATCTGATTTTTGGGCAATTAATGGCTTT	6	133	0
AAAAATCAGATTCTTTTTACTTTCTTAAAAATATT	6	150	1
          ********  *   *
MAP Score: 18.4961

Motif 2
TTCTCTTCAAAGTGAATAAAAATACCAGCAACTAA	0	33	0
AATTTAGGGGAATGATAAAAAATAATATTTGATTT	0	207	0
AACTAAAACCAATGAAAACAAAGGCACAGTCATCG	1	72	1
GAGTTTCCTGAATGCTGACAAAAAGCATGTCTTTG	1	120	1
TAGCAAGCTTAATGATGAAAAATACGACCGCAAGA	1	159	1
TGGTAAATACAGTGCCGAAAACCAGCATAAGGTA 	1	273	1
TTCAAATTTGACTGCTAAAAAGCACTATTAACGGA	4	14	1
CTTGAAGTTTAGTGACGACAACACCTTCGTTGAAT	5	99	1
GACTTAATTTCCTGAGTAAAATCAGGATATTCAAC	5	127	0
TGGTCAAAATACTGATGACAATAACAGTAAAAAAG	5	177	1
AAACCCAACTACTGGCAAAAACAGCCTTATAAAGG	6	60	0
AGATCTAATTAATGCATACAAAAAGCCATTAATTG	6	112	1
AAAGCCATTAATTGCCCAAAAATCAGATTCTTTTT	6	133	1
          * ***  ****  **
MAP Score: 16.0766

Motif 3
GTTGCTGGTATTTTTATTCACTTTGAAGAGAAAA	0	36	1
CGCTAAACTATCTTTATTTATTTTGTATGTGCCA	0	155	1
GGTGCAGTTGCTTTTAGTGGCTTTTTAGGTCTAG	0	273	1
GGCTCCGTTATTATTTTTAGCTTGCTCTAGTTTT	1	18	0
TGTGCCTTTGTTTTCATTGGTTTTAGTTTCAGAC	1	66	0
AAAGACATGCTTTTTGTCAGCATTCAGGAAACTC	1	120	0
TCCAGTTTTATTTTTTATAGTTTTAG        	2	2	0
GCTTAGCGCGTTTTTGTAAGATTTGGCTTTCTTT	2	137	1
GATTTGGCTTTCTTTCTAGTGTTGCTGAA     	2	156	1
GCTATCCAACTTATTTTTAACTTTTAAAAATAAA	4	57	1
TAATTTCCCATCTTTTTGGTGTTTTGTAAG    	4	111	1
ACCTAAAAGGTTTTCTTCTTTTTTACTGTTATTG	5	195	0
TCCTTTCCCGCCTTTATTAGATTTCGAGTAATCT	5	243	0
AGTAGTTGGGTTTTCTTTTGTTTGCTCTTGAGAT	6	82	1
AATTAATGGCTTTTTGTATGCATTAATTAGATCT	6	112	0
CTTAAAAATATTTTTTTAAGATTTGCCATCTTTT	6	173	1
AGATTTGCCATCTTTTTTCGCTTGGGAAG     	6	191	1
          ***** *  * ***
MAP Score: 15.7984

Motif 4
AAATACCCCTGAAATTTAGGGGAATGATAAAAAA	0	220	0
   TTAATTCAAAAACTAGAGCAAGCTAAAAATA	1	7	1
TAACGGAGCCGAGAAAAAGGATAAGTCTGAAACT	1	42	1
GGATAAGTCTGAAACTAAAACCAATGAAAACAAA	1	60	1
AAAACCAATGAAAACAAAGGCACAGTCATCGGTT	1	76	1
GCTACTGAGGAACAATTAGATCAATCAAGTACGT	1	205	1
ATACAGTGCCGAAAACCAGCATAAGGTA      	1	279	1
        CTAAAACTATAAAAAATAAAACTGGA	2	2	1
CTCCCCAAAAGAAATTAAGCGCAAATTAACTATG	2	70	0
AGCAACACTAGAAAGAAAGCCAAATCTTACAAAA	2	148	0
ACAAAACACCAAAAAGATGGGAAATTATACAGCA	4	104	0
TCGCCAGACCAACAAAATGGTCAAAATACTGATG	5	160	1
GACAATAACAGTAAAAAAGAAGAAAACCTTTTAG	5	193	1
CGGGAAAGGAAAAAGTAAGGGTAAAGGCGGAAGC	5	267	1
AAGAGCAAACAAAAGAAAACCCAACTACTGGCAA	6	77	0
ATATTTTTAAGAAAGTAAAAAGAATCTGATTTTT	6	150	0
TCCCAAGCGAAAAAAGATGGCAAATCTTAAAAAA	6	184	0
          ****  ****  **
MAP Score: 10.9337

Motif 5
TGCTGTATAATTTCCCATCTTTTTGGTGTTTTGTAA	4	104	1
       TACCTTATGCTGGTTTTCGGCACTGTATT	1	278	0
TTATTTTTAGCTTGCTCTAGTTTTTGAATTAA    	1	6	0
TGTGCCTTTGTTTTCATTGGTTTTAGTTTCAGACTT	1	64	0
TCCAGTTTTATTTTTTATAGTTTTAG          	2	0	0
TTAATTTGCGCTTAATTTCTTTTGGGGAGTTACACC	2	75	1
TAGTTTCAGACTTATCCTTTTTCTCGGCTCCGTTAT	1	41	0
TTTTTTAAGATTTGCCATCTTTTTTCGCTTGGGAAG	6	184	1
TGCAGTTGCTTTTAGTGGCTTTTTAGGTCTAGGTG 	0	275	1
CACCAATTAGCTTACAGTATTTCTTCCACTTCTGGC	5	28	1
ACCTAAAAGGTTTTCTTCTTTTTTACTGTTATTGTC	5	193	0
TGCTGGTATGCTTAGCGCGTTTTTGTAAGATTTGGC	2	128	1
AGTAGTTGGGTTTTCTTTTGTTTGCTCTTGAGATCT	6	82	1
TTTGTAAGATTTGGCTTTCTTTCTAGTGTTGCTGAA	2	149	1
TAGAGATTAGTTGCTGGTATTTTTATTCACTTTGAA	0	27	1
GTCATCAGTATTTTGACCATTTTGTTGGTCTGGCGA	5	160	0
GCTAAACTATCTTTATTTATTTTGTATGTGCCAAAT	0	156	1
CTTTCCCGCCTTTATTAGATTTCGAGTAATCTTTAA	5	239	0
          ***    * ***** *
MAP Score: 10.9017

Motif 6
CCTCAGCATTTTTTAAAAATTATTGACCTTTTTGAGTTTA	0	80	0
TTCCCCTAAATTTCAGGGGTATTTGAGTATGCGATTTAAA	0	230	1
GTGCAGTTGCTTTTAGTGGCTTTTTAGGTCTAGGTG    	0	274	1
AGACTTATCCTTTTTCTCGGCTCCGTTATTATTTTTAGCT	1	30	0
TGTGCCTTTGTTTTCATTGGTTTTAGTTTCAGACTTATCC	1	60	0
GCTTAGCGCGTTTTTGTAAGATTTGGCTTTCTTTCTAGTG	2	137	1
TGCTGTATAATTTCCCATCTTTTTGGTGTTTTGTAAG   	4	104	1
GCTTACAGTATTTCTTCCACTTCTGGCTTTAAGTATTCGT	5	37	1
GTTTTCTTCTTTTTTACTGTTATTGTCATCAGTATTTTGA	5	180	0
GAAGAAAACCTTTTAGGTACCTTTGAAGTTAAAGATTACT	5	211	1
ATAAGGCTGTTTTTGCCAGTAGTTGGGTTTTCTTTTGTTT	6	65	1
TTGGGTTTTCTTTTGTTTGCTCTTGAGATCTAATTAATGC	6	87	1
CTTAAAAATATTTTTTTAAGATTTGCCATCTTTTTTCGCT	6	173	1
          ****    *   ***   **
MAP Score: 9.89238