AlignACE 3.0 10/20/99
AlignACE2 -i MP/MP_operons015_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944247294
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	vacB	273	Mycoplasma pneumoniae, virulence associated protein homolog; similar to GenBank Accession Number G64098, from H. influenzae
#1	ung	24	Mycoplasma pneumoniae, uracil DNA glycosylase; similar to Swiss-Prot Accession Number P12295, from E. coli
#2	MG288	300	Mycoplasma pneumoniae, MG288 homolog, from M. genitalium
#3	rpsF	56	Mycoplasma pneumoniae, ribosomal protein S6; similar to Swiss-Prot Accession Number P02358, from E. coli
#4	fus	22	Mycoplasma pneumoniae, elongation factor G; similar to Swiss-Prot Accession Number P13551, from T. aquaticus
#5	rpsG	53	Mycoplasma pneumoniae, ribosomal protein S7; similar to Swiss-Prot Accession Number P22744, from B. stearothermophilus
#6	rpsL	28	Mycoplasma pneumoniae, ribosomal protein S12; similar to Swiss-Prot Accession Number P09901, from B. stearothermophilus
#7	rplK	55	Mycoplasma pneumoniae, ribosomal protein L11; similar to Swiss-Prot Accession Number P29395, from T. maritima
#8	oppB	275	Mycoplasma pneumoniae, oligopeptide transport system permease protein OppB; similar to Swiss-Prot Accession Number P24138 and P24691, from B. subtilis

Motif 1
ATTACAAACATTACTATTTGAATTGCGTCCATGC	0	40	0
GATGTTTATTTTAGTAGTGCTTTTTCTTATTTTA	0	212	1
TATTTTAGGGTTAGTTTTTCATTTTGCGCTTTAA	0	239	1
CAGCTTTTATTTCCTTTTGCAGTTGGGGAATTGT	2	28	0
AGAAGCACGCTTATTTGACTTTTTGGGCAGTGGC	2	108	1
GCGGACAACGTTGCTAGTTTGTTTGAACAGTTTC	2	178	1
GCATAAATCTTTACTTTTATATTTAGTTTTCCCA	3	22	1
CTCCCACAATTTGCTAGAAATTTTAAA       	7	3	0
      GTACTTACTAGTATCGTTTTTTTGTAGA	8	4	1
GTATCGTTTTTTTGTAGAATGTTTTGAACCACTA	8	20	1
GAGAACCAGGTTCCTTTTTCTTTTTTATTAGTAT	8	200	1
          ** *****   ***
MAP Score: 8.84722

Motif 2
TTCAGGTCAAGATTTGGAAATTTTTCGCAAAACCAA	0	143	1
CAAAACCAAAGACCGCGGAATTGTCAAAATTCTCCA	0	170	1
TCCTTTTGCAGTTGGGGAATTGTTTCAAGTACACCA	2	15	0
AATAAAAGCTGCTAATGACATTTTCCCTGTCAATGA	2	51	1
TCTACACGGGGAATTTGACTTTGTTCATTGACAGGG	2	75	0
TGACTTTTTGGGCAGTGGCTTTTTCCCGGTATTGAA	2	123	1
TCCCGGTATTGAACCCGAAAGGTTTAGGGTTAGCGG	2	146	1
TTTATTGATGCTAGCTGAAACTGTTCAAACAAACTA	2	192	0
GTACCTTACTCTTAATGACAATGTCATGCGTTTTAA	2	254	0
CATTTTAGTCGCTAAAAACATTGTTAGTGGTTCAAA	8	42	0
TTTTTTATTAGTATTCGAAAGTGTTCAAGTATATTC	8	220	1
TTAAACGTTTGGGTTTGGCAGTGTTAGCG       	8	256	1
          *     **** *****
MAP Score: 5.45748

Motif 3
AAATTAACACACATTAAAGCATGGACGCAA	0	22	1
CCAAATCTTGACCTGAAAGCGAAGCAAGTC	0	130	0
   CTGTTAGATTTTAAAGCGCAAAATGAA	0	256	0
AATCAGTTTGACTTCAAAACCACTTAAGTT	2	226	0
      TTGCACTTCAAAGCTGTAACGTAC	2	286	0
TTTACGAAAAACATTAACTCAATCAATTAA	5	27	1
TGGACTGGTTACATCAAATCTTTCAGGTAA	8	143	1
TTAAGAATATACTTGAACACTTTCGAATAC	8	230	0
          **********
MAP Score: 5.41788

Motif 4
ACGCAATTCAAATAGTAATGTTTGTAATGGCAA	0	46	1
CCATGGTTCTACTGGCGGACTTGCTTCGCTTTC	0	113	1
AAATTCTCCAAATTACGATGTTTATTTTAGTAG	0	196	1
       TTGACTGGTGTACTTGAAACAATTCC	2	3	1
CCGGTATTGAACCCGAAAGGTTTAGGGTTAGCG	2	148	1
GTTCAAACAAACTAGCAACGTTGTCCGCTAACC	2	173	0
GCATCAATAAACTTAAGTGGTTTTGAAGTCAAA	2	217	1
    GTACTTACTAGTATCGTTTTTTTGTAGAA	8	6	1
GTTTTGAACCACTAACAATGTTTTTAGCGACTA	8	40	1
TTAAGAATATACTTGAACACTTTCGAATACTAA	8	227	0
          *** ***  ****
MAP Score: 4.87784

Motif 5
TTTCTTATTTTAGGGTTAGTTTTTCATTTTG	0	234	1
CCGAAAGGTTTAGGGTTAGCGGACAACGTTG	2	160	1
TTTGTTTGAACAGTTTCAGCTAGCATCAATA	2	195	1
TCTTTACTTTTATATTTAGTTTTCCCATAAA	3	29	1
   TAGAGAATAGAGTTAGTTATTT      	4	7	1
TCGCTAAAAACATTGTTAGTGGTTCAAAACA	8	39	0
TAGCCATCTGCACTTTTAGTTGGACTGGTTA	8	123	1
TTGGGTTTGGCAGTGTTAGCG          	8	264	1
          *** *******
MAP Score: 4.86343

Motif 6
CGTTTTAATCAGTTTGACTTCAAAACCACT	2	232	0
CTACACGGGGAATTTGACTTTGTTCATTGA	2	80	0
ACTAAAATGCTGTTTGACTCCGAGTGGAAA	8	69	1
GAAGCACGCTTATTTGACTTTTTGGGCAGT	2	109	1
CTGCACTTTTAGTTGGACTGGTTACATCAA	8	130	1
CAAACATTACTATTTGAATTGCGTCCATGC	0	40	0
          **********
MAP Score: 3.37178

Motif 7
ACAAACATTACTATTTGAATTGCGTCCATGCTTTAATGTG	0	31	0
CATGGTTCTACTGGCGGACTTGCTTCGCTTTCAGGTCAAG	0	114	1
AAAACCAAAGACCGCGGAATTGTCAAAATTCTCCAAATTA	0	171	1
      TTGACTGGTGTACTTGAAACAATTCCCCAACTGC	2	4	1
GTGCTTCTACACGGGGAATTTGACTTTGTTCATTGACAGG	2	76	0
CGTGTAGAAGCACGCTTATTTGACTTTTTGGGCAGTGGCT	2	103	1
GACAACGTTGCTAGTTTGTTTGAACAGTTTCAGCTAGCAT	2	181	1
TAGCCATCTGCACTTTTAGTTGGACTGGTTACATCAAATC	8	123	1
TATTCTTAAACGTTTGGGTTTGGCAGTGTTAGCG      	8	251	1
          *  * *** ***      **
MAP Score: 2.79494

Motif 8
CCAAATCTTGACCTGAAAGCGAAGCAAGTC	0	130	0
AAAACCAAAGACCGCGGAATTGTCAAAATT	0	171	1
  TTCATTGAGCCGCAAAGGCAGCAA    	1	8	1
TGACTGGTGTACTTGAAACAATTCCCCAAC	2	11	1
CAATTCCCCAACTGCAAAAGGAAATAAAAG	2	29	1
TTGTTCATTGACAGGGAAAATGTCATTAGC	2	61	0
CGGGTTCAATACCGGGAAAAAGCCACTGCC	2	133	0
CCGGTATTGAACCCGAAAGGTTTAGGGTTA	2	148	1
AATCAGTTTGACTTCAAAACCACTTAAGTT	2	226	0
      TTGCACTTCAAAGCTGTAACGTAC	2	286	0
GCAGATGGCTACAGGGAAACGCGATTTATA	8	104	0
TATTCTGGTTACCTGAAAGATTTGATGTAA	8	151	0
ATGCTGAGGGACCTGAGAACCAGGTTCCTT	8	186	1
TTAAGAATATACTTGAACACTTTCGAATAC	8	230	0
   CGCTAACACTGCCAAACCCAAACGTTT	8	258	0
          **********
MAP Score: 2.37997

Motif 9
TGGTTCTACTGGCGGACTTGCTTCGCTTTC	0	116	1
AACCAAAGACCGCGGAATTGTCAAAATTCT	0	173	1
CATCGTAATTTGGAGAATTTTGACAATTCC	0	186	0
CTTTTGCAGTTGGGGAATTGTTTCAAGTAC	2	19	0
TGCTTCTACACGGGGAATTTGACTTTGTTC	2	85	0
GTGGCTTTTTCCCGGTATTGAACCCGAAAG	2	137	1
ACAATATTCGCGCTGTCTTT          	6	18	1
          **********
MAP Score: 1.40863

Motif 10
GGACGCAATTCAAATAGTAATGTTTGTAATGGCAATC	0	44	1
CAAAATTCTCCAAATTACGATGTTTATTTTAGTAGTG	0	194	1
ATAAAAGCTGCTAATGACATTTTCCCTGTCAATGAAC	2	52	1
TTCAAACAAACTAGCAACGTTGTCCGCTAACCCTAAA	2	168	0
CTGATTAAAACGCATGACATTGTCATTAAGAGTAAGG	2	250	1
TTGTGTTACAATATTCGCGCTGTCTTT          	6	11	1
ATGTTTTGAACCACTAACAATGTTTTTAGCGACTAAA	8	38	1
CACTCGGAGTCAAACAGCATTTTAGTCGCTAAAAACA	8	58	0
TTCCCTGTAGCCATCTGCACTTTTAGTTGGACTGGTT	8	116	1
          * * * *** ***   *
MAP Score: 1.20964