AlignACE 3.0 10/20/99
AlignACE2 -i HI/HI_fusions006_100.orf 
Parameter values:
 expect =      	10
 gcback =      	0.38
 minpass =     	200
 seed =        	944236370
 numcols =     	10
 undersample = 	1
 oversample = 	1

Input sequences:
#0	HI0161	215	glutathione reductase (gor)
#1	HI1231	113	dihydrolipoamide dehydrogenase (lpdA)
#2	HI1232	62	dihydrolipoamide acetyltransferase (aceF)
#3	HI1233	299	pyruvate dehydrogenase, E1 component (aceE)
#4	HI1661	102	2-oxoglutarate dehydrogenase E2 component, dihydrolipoamide succinyltransferase(sucB)
#5	HI1662	157	2-oxoglutarate dehydrogenase E1 component (sucA)

Motif 1
AAAAATATTGACCGCACTTTTACGGTCTTT	1	73	0
ATGTTTTTTGACCGCAGTTTTCATCAA   	2	7	0
GTGTTTTATGACCGCACTTTAAAAGGAACA	2	38	1
CAAAAAAATTACCGCACTTTCAAATAATTA	3	105	1
AGTAAAAATAACCGCACTTTGTTTAAGAGA	5	21	1
ACAATAAAAAACCGCACTTCATCTCTTAAA	5	42	0
          **********
MAP Score: 24.1374

Motif 2
CTTTTTGAAAAAAATCTGAAAAAACTTTAAAACA	3	19	1
TCATCTGTTCAAAAGAGTAAAAAATATTCATAAA	0	110	1
TTTACCTCGTAAAAACGTTAAAAATATTGACCGC	1	88	0
ATTTTAGTTTAAAAAAGGTTCAAACT        	0	199	1
TTAGCGAACAAAAAAACACAAAAAAATTACCGCA	3	87	1
ACCGCACTTTAAAAGGAACAAAAA          	2	48	1
TTTATCTCAAAAAATCTTCTAAAATTTACAAGAT	3	184	1
AGTAAAAAAGAAGAAAAGGAAAAATAAA      	4	84	1
GGCTTCACATAAAATCATTTCAAACTAATCATCT	0	82	1
     ATTTTAATACAAGTAAAAATAACCGCACT	5	5	1
CTTTAGATTTCAAACAATAAAAAACCGCACTTCA	5	51	0
   TTGATGAAAACTGCGGTCAAAAAACATTGTG	2	7	1
CAAGATAATTAAGATATAGTAAAAAAGAAGAAAA	4	67	1
TGCTTTTCACAAACATTTAACAAATCTTGTAAAT	3	207	0
TTACAGAGGAAAGCAAAGATAAAAACCTTTATTA	4	23	0
TGTTCGCTAAAATAACCAGTAAAATATTGCATTC	3	63	0
TGTCTAAACTAATATTCACTCAAAACAGATTAAG	3	267	1
AACTAGATCACAAATTTGTAACAATTTCCGATAA	5	91	1
AATCCTATGTATAATGCGTAAAAA          	5	143	1
AAAATTAGGCAGAATACAAAAAAATTTTAGTTTA	0	176	1
          ****   * *****
MAP Score: 21.1681

Motif 3
AGTTTGAAATGATTTTATGTGAAGCCTAGT	0	78	0
TGATGTAATTGGTTTTATGAATATTTTTTA	0	127	0
ATTCTGCCTAATTTTTATAAAGAATGCTAT	0	161	0
TTAAACTAAAATTTTTTTGTATTCTGCCTA	0	181	0
TATTTTTAACGTTTTTACGAGGTAAAA   	1	96	1
TAAAACACAATGTTTTTTGACCGCAGTTTT	2	16	0
AAAAACATTGTGTTTTATGACCGCACTTTA	2	29	1
GTTTTTTCAGATTTTTTTCAAAAAGGACTC	3	14	0
TTTGTTTTAAAGTTTTTTCAGATTTTTTTC	3	25	0
ATTTTTTTGTGTTTTTTTGTTCGCTAAAAT	3	84	0
AAGTGCGGTAATTTTTTTGTGTTTTTTTGT	3	94	0
TGGCAAAGCTGATTTGATATGATGATTTGA	3	139	1
TTGATATGATGATTTGATGAAAATTCACTA	3	152	1
AATTTTAGAAGATTTTTTGAGATAAAGATA	3	180	0
AAATTTACAAGATTTGTTAAATGTTTGTGA	3	205	1
TTTAATAAAGGTTTTTATCTTTGCTTTCCT	4	21	1
GATGAAGTGCGGTTTTTTATTGTTTGAAAT	5	49	1
          **********
MAP Score: 14.6882

Motif 4
      AGTTTGAACCTTTTTTAAACTAAAATTTTTTTG	0	192	0
CAATGTTTTTTGACCGCAGTTTTCATCAA          	2	0	0
CACAAAAAAATTACCGCACTTTCAAATAATTATTTATGG	3	103	1
GAAAAAAATCTGAAAAAACTTTAAAACAAAGCCCGATGG	3	25	1
ATGATTAGTTTGAAATGATTTTATGTGAAGCCTAGTATG	0	75	0
       TGCTGAGTCCTTTTTGAAAAAAATCTGAAAAA	3	3	1
TTGTGTTTTATGACCGCACTTTAAAAGGAACAAAAA   	2	36	1
ATAAAACCAATTACATCAATTTATAGCATTCTTTATAAA	0	139	1
TTACAAGATTTGTTAAATGTTTGTGAAAAGCAAATATTG	3	209	1
TTATTTTTCCTTTTCTTCTTTTTTACTATATCTTAATTA	4	72	0
TGACCGCACTTTTACGGTCTTTATAGGATGGGTTTCTGC	1	56	0
GTATTCGTGTTTAGCCTTGTCTAAACTAATATTCACTCA	3	250	1
 AGGTTTTCCTTAATCTGTTTTGAGTGAATATTAGTTTA	3	271	0
TTTTTTGTATTCTGCCTAATTTTTATAAAGAATGCTATA	0	160	0
CTTGTAAATTTTAGAAGATTTTTTGAGATAAAGATAGTG	3	177	0
TATGAATATTTTTTACTCTTTTGAACAGATGATTAGTTT	0	103	0
GATCACAAATTTGTAACAATTTCCGATAAGAGGCTTATT	5	96	1
GGTCAATATTTTTAACGTTTTTACGAGGTAAAA      	1	90	1
          *** *    ***  *  **
MAP Score: 13.9596

Motif 5
AAATTTTAGTTTAAAAAAGGTTCAAACT      	0	197	1
GAAAAAAATCTGAAAAAACTTTAAAACAAAGCCC	3	25	1
GTTCAAAAGAGTAAAAAATATTCATAAAACCAAT	0	116	1
TATCTTTATCTCAAAAAATCTTCTAAAATTTACA	3	180	1
AAAACTGCGGTCAAAAAACATTGTGTTTTATGAC	2	16	1
TAATATTCACTCAAAACAGATTAAGGAAAACCT 	3	276	1
TTGTTTGAAATCTAAAGAGTTTGAACTAGATCAC	5	68	1
TCGTAAAAACGTTAAAAATATTGACCGCACTTTT	1	82	0
TTAAGATATAGTAAAAAAGAAGAAAAGGAAAAAT	4	75	1
TACCGCACTTTCAAATAATTATTTATGGCAAAGC	3	114	1
GGAAAGCAAAGATAAAAACCTTTATTAAATTAAC	4	16	0
TTTACTCTTTTGAACAGATGATTAGTTTGAAATG	0	97	0
AAACCCATCCTATAAAGACCGTAAAAGTGCGGTC	1	60	1
GGATTGCAACGGAAATAAGCCTCTTATCGGAAAT	5	114	0
TCACAAACATTTAACAAATCTTGTAAATTTTAGA	3	201	0
GATTTTTTGAGATAAAGATAGTGAATTTTCATCA	3	166	0
TAGCCTTGTCTAAACTAATATTCACTCAAAACAG	3	261	1
CAGATTTTTTTCAAAAAGGACTCAGCA       	3	3	0
ATGATTAGTTTGAAATGATTTTATGTGAAGCCTA	0	80	0
TTTTGTTCGCTAAAATAACCAGTAAAATATTGCA	3	66	0
TGAATTTTCATCAAATCATCATATCAAATCAGCT	3	145	0
          * *******  * *
MAP Score: 11.0661

Motif 6
GAAGATTGTTCAATCTTCCTCACTGTAGATA	0	15	0
GAAGATTGAACAATCTTCCTCTTTTTCTATC	0	28	1
CACGCTATTTCATTCTACATACTAGGCTTCA	0	58	1
CAATTTATAGCATTCTTTATAAAAATTAGGC	0	155	1
CGCACTTTTACGGTCTTTATAGGATGGGTTT	1	60	0
TTTTTGACCGCAGTTTTCATCAA        	2	2	0
TAAAGATAGTGAATTTTCATCAAATCATCAT	3	157	0
TGAAAATTCACTATCTTTATCTCAAAAAATC	3	169	1
AATAAAAAACCGCACTTCATCTCTTAAACAA	5	39	0
          ** ********
MAP Score: 6.97673

Motif 7
TGGTTTTATGAATATTTTTTACTCTTTTGAACAGATGA	0	110	0
AAGTGCGGTCAATATTTTTAACGTTTTTACGAGGTAAA	1	84	1
TTTGTTTTAAAGTTTTTTCAGATTTTTTTCAAAAAGGA	3	17	0
GATGGAATGCAATATTTTACTGGTTATTTTAGCGAACA	3	59	1
AAAGTGCGGTAATTTTTTTGTGTTTTTTTGTTCGCTAA	3	87	0
CAAATCTTGTAAATTTTAGAAGATTTTTTGAGATAAAG	3	183	0
AAATTTACAAGATTTGTTAAATGTTTGTGAAAAGCAAA	3	205	1
 AGTGCGGTTAATTTAATAAAGGTTTTTATCTTTGCTT	4	9	1
AATACAAGTAAAAATAACCGCACTTTGTTTAAGAGATG	5	15	1
CTCTTATCGGAAATTGTTACAAATTTGTGATCTAGTTC	5	90	0
          *** * *      *****
MAP Score: 4.75653