AlignACE 3.0 10/20/99
AlignACE2 -i MP/MP_fusions006_300.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944246519
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	putative	300	Mycoplasma pneumoniae, putative lipoprotein, MG338 homolog, from M. genitalium
#1	MG307	300	Mycoplasma pneumoniae, MG307 homolog, from M. genitalium
#2	putative	155	Mycoplasma pneumoniae, putative lipoprotein, MG307 homolog, from M. genitalium
#3	MG307	55	Mycoplasma pneumoniae, MG307 homolog, from M. genitalium
#4	MG307	217	Mycoplasma pneumoniae, MG307 homolog, from M. genitalium

Motif 1
AAGAGGAACGTTTACAAAATATAAAAGTTACGAAAAAA	0	26	1
AGTTGTATCTTGAGGAAAATGAGATAGTATTAACGGTT	0	70	1
GCAAAAGAACTCACAAAATTGTAAAAGCGGTTTGAAGT	0	170	1
AATAGGTGAAGGTGAAAAACTTCAAACCGCTTTTACAA	0	188	0
GTGCCATTCATGAGATAATTAGCAAACTATTATTCTTT	0	256	1
CCACAAAAGTGGAACAAAAAACTAATCTAGGCAAGTTA	1	44	1
AAAGGCAGCGGAAATTAAAACGCAAACCCCACAAGCAA	1	96	1
TGTTGTTTTGCGAAATAAATCGCAAACTCAACAAAAGA	1	141	1
TTGGCTTAAGGTTTTTAAATTTTAAAGCACCTCGATAT	2	78	0
TTAAAAACCTTAAGCCAAAAAGTAAGCTTGCTTTTTTC	2	98	1
TGCCGTTTGTTCTAAAAAAGAAAAAAGCAAGCTTACTT	2	117	0
ATAACAAAGATAAGTTAAAGGATAAACTTACTCCTTCC	3	26	1
AGGTTTCATTTAACGGAAACGAAAAGGCATATTTGGTG	4	28	0
AGGCAAATTTTGATCAAAAGGATAAAGCAAACAAAGCT	4	120	1
AACAAAGCTTTAACTGAAGCCTTAAAGCCTTACAAGGA	4	149	1
          * *   ***    *****
MAP Score: 11.859

Motif 2
AGAGGCACTGTTGTTTTGCGAAATAAATCGCAA	1	133	1
ATTTCTAAACTTTTTTTGCAAAAAGTTGTTAGG	2	33	0
ATTTTGTGAGTTCTTTTGCCCAATTAAAACATT	0	156	0
TATGCACCAATTGGTTTGGCCACAACC      	4	200	1
TTGGTGCCGCCTTGTTTGAAAACT         	4	1	0
CGTAACTTTTATATTTTGTAAACGTTCCTCTTA	0	25	0
CCTTTTTAATTTGTTCTGCTAACTTGCCTAGAT	1	68	0
TGCTTTTTTCTTTTTTAGAACAAACGGCACTAT	2	126	1
        TTTTAGTTAGGCAACTGTAGATGTG	1	285	0
CCTTGAAAGGTTGATTTGATAAACACCGCGAAC	4	63	1
TTTTGTTCCACTTTTGTGGCAAAGATGTCATCT	1	30	0
GTTTGCTTTATCCTTTTGATCAAAATTTGCCTT	4	119	0
AGCACCTCGATATTTTTGAAAAATTATTTCTAA	2	58	0
CAATCTAATGCTGGTCTGCCCAATGTTTTAATT	0	135	1
AAACAGTTGTATCTTGAGGAAAATGAGATAGTA	0	66	1
          ** *****  ***
MAP Score: 11.38

Motif 3
AAAAGTTACGAAAAAATGAAACAGTTGTATCTT	0	48	1
TAGCAGAACAAATTAAAAAGGCAGCGGAAATTA	1	80	1
AAGGCAGCGGAAATTAAAACGCAAACCCCACAA	1	97	1
GCAAACCCCACAAGCAAGAGGCACTGTTGTTTT	1	117	1
TAAGGTTTTTAAATTTTAAAGCACCTCGATATT	2	77	0
TAAAATTTAAAAACCTTAAGCCAAAAAGTAAGC	2	92	1
TTGTTCTAAAAAAGAAAAAAGCAAGCTTACTTT	2	116	0
TTTCTTTTTTAGAACAAACGGCACTATTGTTAA	2	132	1
   AGTTTTCAAACAAGGCGGCACCAAATATGC	4	7	1
CATTTAACGGAAACGAAAAGGCATATTTGGTGC	4	27	0
ATTTTGATCAAAAGGATAAAGCAAACAAAGCTT	4	126	1
ATTTACTGGCAGAATATGCACCAATTGGTTTGG	4	186	1
          ***  * ******
MAP Score: 11.3569

Motif 4
TTGTGAGTTCTTTTGCCCAATTAAAACATTG	0	155	0
TTGTTCCACTTTTGTGGCAAAGATGTCATCT	1	30	0
GGCACTGTTGTTTTGCGAAATAAATCGCAAA	1	136	1
TCTAAACTTTTTTTGCAAAAAGTTGTTAGGC	2	32	0
TTAGAAATAATTTTTCAAAAATATCGAGGTG	2	58	1
TTTTTTCTTTTTTAGAACAAACGGCACTATT	2	129	1
        GGTTTAGGTCAAATTTATAACAA	3	2	1
TTAGGTCAAATTTATAACAAAGATAAGTTAA	3	13	1
TAGTTCGCGGTGTTTATCAAATCAACCTTTC	4	67	0
TAAAGGCAAATTTTGATCAAAAGGATAAAGC	4	117	1
        GGTTGTGGCCAAACCAATTGGTG	4	204	0
          ****** ****
MAP Score: 6.60129

Motif 5
CAGACCAGCATTAGATTGCTATGGTATATTTA	0	121	0
ATTTTGTGAGTTCTTTTGCCCAATTAAAACAT	0	157	0
TTAAAGAATAATAGTTTGCTAATTATCTCATG	0	264	0
      AAATTGTGTGTCCGTTAAAGAATAAT	0	284	0
GGTTTGCGTTTTAATTTCCGCTGCCTTTTTAA	1	92	0
TCTTGCTTGTGGGGTTTGCGTTTTAATTTCCG	1	104	0
AGAGGCACTGTTGTTTTGCGAAATAAATCGCA	1	133	1
GTTCTTTTGTTGAGTTTGCGATTTATTTCGCA	1	149	0
ATTTCTAAACTTTTTTTGCAAAAAGTTGTTAG	2	34	0
AATATGCCTTTTCGTTTCCGTTAAATGAAACC	4	33	1
TTCGCTAAGATTAGTTCGCGGTGTTTATCAAA	4	77	0
CCTTTACCAAAGCGTTCGCTAAGATTAGTTCG	4	91	0
CAGTTAAAGCTTTGTTTGCTTTATCCTTTTGA	4	133	0
TATGCACCAATTGGTTTGGCCACAACC     	4	200	1
          ** ******* *
MAP Score: 4.70262

Motif 6
GTATGAATGATAAGAGGAACGTTTACAAAATATAAAAGTT	0	15	1
CTTTTACAATTTTGTGAGTTCTTTTGCCCAATTAAAACAT	0	157	0
ATTAGTGCCATTCATGAGATAATTAGCAAACTATTATTCT	0	252	1
GCCCAAGCTTTAGATGACATCTTTGCCACAAAAGTGGAAC	1	19	1
TTTTGTTGAGTTTGCGATTTATTTCGCAAAACAACAGTGC	1	137	0
CAAAAAAAGTTTAGAAATAATTTTTCAAAAATATCGAGGT	2	48	1
        GGTTTAGGTCAAATTTATAACAAAGATAAGTT	3	2	1
AATGAAACCTTGAAAGGTTGATTTGATAAACACCGCGAAC	4	56	1
CGAACTAATCTTAGCGAACGCTTTGGTAAAGGCAAATTTT	4	91	1
          *  * **    ***   ***
MAP Score: 2.66957