Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.04

Sequence: scaffold1301

Parameters: 2 7 7 80 10 50 500

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500

Length: 1559340
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.30

Warning! 165545 characters in sequence are not A, C, G, or T


File 5 of 4

Found at i:1405690 original size:33 final size:32

Alignment explanation

Indices: 1405599--1405677 Score: 140 Period size: 32 Copynumber: 2.4 Consensus size: 32 1405589 CCTAGCCATC 1405599 TTTCCCCCCGGAAAAATGGCTATATAGCAGTT 1 TTTCCCCCCGGAAAAATGGCTATATAGCAGTT * 1405631 CTTCCCCCCGGAAAAATGGCTATATAGCAGTT 1 TTTCCCCCCGGAAAAATGGCTATATAGCAGTT 1405663 TTTCCCCCACGGAAA 1 TTTCCCCC-CGGAAA 1405678 GCTGACTATA Statistics Matches: 44, Mismatches: 2, Indels: 1 0.94 0.04 0.02 Matches are distributed among these distances: 32 38 0.86 33 6 0.14 ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25 Consensus pattern (32 bp): TTTCCCCCCGGAAAAATGGCTATATAGCAGTT Found at i:1408135 original size:17 final size:17 Alignment explanation

Indices: 1408102--1408135 Score: 50 Period size: 17 Copynumber: 2.0 Consensus size: 17 1408092 AGGTTTTCCG * 1408102 GGGGGAAAATCTACTAT 1 GGGGGAAAAACTACTAT * 1408119 GGGGGAAAAACTGCTAT 1 GGGGGAAAAACTACTAT 1408136 ACAACACCGG Statistics Matches: 15, Mismatches: 2, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 17 15 1.00 ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21 Consensus pattern (17 bp): GGGGGAAAAACTACTAT Found at i:1410378 original size:55 final size:55 Alignment explanation

Indices: 1410269--1410379 Score: 145 Period size: 55 Copynumber: 2.0 Consensus size: 55 1410259 CGGAATGTAA * * * * 1410269 AAAAAGGGGGAAAATCCACTATATAGTAGGTTTTCCGTGGGGGTAATCTGGCTAT 1 AAAAAGGGGGAAAACCCACTATATAGTAGGCTTTCCCTGGGGGTAAACTGGCTAT * 1410324 AAAAAGGGGGAAAGCCCACTATATAGTCA-GCTTTCCCTGGGGGTAAAACT-GCTAT 1 AAAAAGGGGGAAAACCCACTATATAGT-AGGCTTTCCCTGGGGGT-AAACTGGCTAT 1410379 A 1 A 1410380 TAGCCATTTT Statistics Matches: 49, Mismatches: 5, Indels: 4 0.84 0.09 0.07 Matches are distributed among these distances: 55 44 0.90 56 5 0.10 ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24 Consensus pattern (55 bp): AAAAAGGGGGAAAACCCACTATATAGTAGGCTTTCCCTGGGGGTAAACTGGCTAT Found at i:1410379 original size:33 final size:32 Alignment explanation

Indices: 1410342--1410432 Score: 103 Period size: 32 Copynumber: 2.8 Consensus size: 32 1410332 GGAAAGCCCA * * 1410342 CTATATAGTCAGCTTTCCCTGGGGGTAA-AACTG 1 CTATATAGCCA-CTTTCCC-GGGGGGAAGAACTG * * 1410375 CTATATAGCCATTTTTCCGGGGGGAAGAACTG 1 CTATATAGCCACTTTCCCGGGGGGAAGAACTG * * 1410407 CTATATAGCCATTTTTCCGGGGGGAA 1 CTATATAGCCACTTTCCCGGGGGGAA 1410433 AGATGGCTAG Statistics Matches: 53, Mismatches: 4, Indels: 3 0.88 0.07 0.05 Matches are distributed among these distances: 31 7 0.13 32 36 0.68 33 10 0.19 ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30 Consensus pattern (32 bp): CTATATAGCCACTTTCCCGGGGGGAAGAACTG Found at i:1410406 original size:32 final size:32 Alignment explanation

Indices: 1410370--1410432 Score: 126 Period size: 32 Copynumber: 2.0 Consensus size: 32 1410360 CTGGGGGTAA 1410370 AACTGCTATATAGCCATTTTTCCGGGGGGAAG 1 AACTGCTATATAGCCATTTTTCCGGGGGGAAG 1410402 AACTGCTATATAGCCATTTTTCCGGGGGGAA 1 AACTGCTATATAGCCATTTTTCCGGGGGGAA 1410433 AGATGGCTAG Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 32 31 1.00 ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29 Consensus pattern (32 bp): AACTGCTATATAGCCATTTTTCCGGGGGGAAG Found at i:1414280 original size:2 final size:2 Alignment explanation

Indices: 1414273--1414324 Score: 104 Period size: 2 Copynumber: 26.0 Consensus size: 2 1414263 GGCCAATTTC 1414273 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG 1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG 1414315 AG AG AG AG AG 1 AG AG AG AG AG 1414325 GGTGTGTGTG Statistics Matches: 50, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 50 1.00 ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00 Consensus pattern (2 bp): AG Found at i:1414331 original size:2 final size:2 Alignment explanation

Indices: 1414326--1414359 Score: 68 Period size: 2 Copynumber: 17.0 Consensus size: 2 1414316 GAGAGAGAGG 1414326 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT 1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT 1414360 ACCACACCAT Statistics Matches: 32, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 32 1.00 ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50 Consensus pattern (2 bp): GT Found at i:1415902 original size:27 final size:27 Alignment explanation

Indices: 1415870--1415925 Score: 112 Period size: 27 Copynumber: 2.1 Consensus size: 27 1415860 ACAATGAAAG 1415870 GTTAACGTTTTTAACAACTTTAAAGAA 1 GTTAACGTTTTTAACAACTTTAAAGAA 1415897 GTTAACGTTTTTAACAACTTTAAAGAA 1 GTTAACGTTTTTAACAACTTTAAAGAA 1415924 GT 1 GT 1415926 ATCATATTAA Statistics Matches: 29, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 27 29 1.00 ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38 Consensus pattern (27 bp): GTTAACGTTTTTAACAACTTTAAAGAA Found at i:1418384 original size:234 final size:233 Alignment explanation

Indices: 1417975--1418442 Score: 927 Period size: 234 Copynumber: 2.0 Consensus size: 233 1417965 GCCAAAAATG 1417975 AGGCCTGTTTAATCCTTCCCCATTTATTTAATTATACAAGAACACATTACATATTTTGATTTTAT 1 AGGCCTGTTTAATCCTTCCCCATTTATTTAATTATACAAGAACACATTACATATTTTGATTTTAT 1418040 ACAGTACTATTTTGATTCCTAAGTGTTCTTACGACAACGGATCAATTTGAGCTCTAAATACCATA 66 ACAGTACTATTTTGATTCCTAAGTGTTCTTACGACAACGGATCAATTTGAGCTCTAAATACCATA 1418105 CTCATATTCATATTACAATCATTCGGTTTTGATATAAATGTAATCAATATTTGGAAAAAATTCAT 131 CTCATATTCATATTACAATCATTCGGTTTTGATATAAATGTAATCAATATTTGGAAAAAATTCAT 1418170 ACAACAGTGCCTGCTGGCTTTATACTAAACAATACGTC 196 ACAACAGTGCCTGCTGGCTTTATACTAAACAATACGTC 1418208 NAGGCCTGTTTAATCCTTCCCCATTTATTTAATTATACAAGAACACATTACATATTTTGATTTTA 1 -AGGCCTGTTTAATCCTTCCCCATTTATTTAATTATACAAGAACACATTACATATTTTGATTTTA 1418273 TACAGTACTATTTTGATTCCTAAGTGTTCTTACGACAACGGATCAATTTGAGCTCTAAATACCAT 65 TACAGTACTATTTTGATTCCTAAGTGTTCTTACGACAACGGATCAATTTGAGCTCTAAATACCAT 1418338 ACTCATATTCATATTACAATCATTCGGTTTTGATATAAATGTAATCAATATTTGGAAAAAATTCA 130 ACTCATATTCATATTACAATCATTCGGTTTTGATATAAATGTAATCAATATTTGGAAAAAATTCA 1418403 TACAACAGTGCCTGCTGGCTTTATACTAAACAATACGTC 195 TACAACAGTGCCTGCTGGCTTTATACTAAACAATACGTC 1418442 A 1 A 1418443 TACGACTTAT Statistics Matches: 234, Mismatches: 0, Indels: 1 1.00 0.00 0.00 Matches are distributed among these distances: 233 1 0.00 234 233 1.00 ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37 Consensus pattern (233 bp): AGGCCTGTTTAATCCTTCCCCATTTATTTAATTATACAAGAACACATTACATATTTTGATTTTAT ACAGTACTATTTTGATTCCTAAGTGTTCTTACGACAACGGATCAATTTGAGCTCTAAATACCATA CTCATATTCATATTACAATCATTCGGTTTTGATATAAATGTAATCAATATTTGGAAAAAATTCAT ACAACAGTGCCTGCTGGCTTTATACTAAACAATACGTC Found at i:1429202 original size:15 final size:14 Alignment explanation

Indices: 1429179--1429208 Score: 51 Period size: 15 Copynumber: 2.1 Consensus size: 14 1429169 ACTGAAATGC 1429179 AAAAAAAAAAAAAT 1 AAAAAAAAAAAAAT 1429193 AAAAATAAAAAAAAT 1 AAAAA-AAAAAAAAT 1429208 A 1 A 1429209 TACTTACGTA Statistics Matches: 15, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 14 5 0.33 15 10 0.67 ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10 Consensus pattern (14 bp): AAAAAAAAAAAAAT Found at i:1443553 original size:24 final size:21 Alignment explanation

Indices: 1443496--1443544 Score: 89 Period size: 21 Copynumber: 2.3 Consensus size: 21 1443486 GTCACACTGG 1443496 CACCACCCACCCACCTCACGT 1 CACCACCCACCCACCTCACGT * 1443517 CACCACCCACCCACCTCATGT 1 CACCACCCACCCACCTCACGT 1443538 CACCACC 1 CACCACC 1443545 ACAGTCCCAA Statistics Matches: 27, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 21 27 1.00 ACGTcount: A:0.24, C:0.61, G:0.04, T:0.10 Consensus pattern (21 bp): CACCACCCACCCACCTCACGT Found at i:1447471 original size:28 final size:28 Alignment explanation

Indices: 1447431--1447486 Score: 112 Period size: 28 Copynumber: 2.0 Consensus size: 28 1447421 GTTATATGGA 1447431 TATTCCTAGTTAGCTATATTTTAATGAG 1 TATTCCTAGTTAGCTATATTTTAATGAG 1447459 TATTCCTAGTTAGCTATATTTTAATGAG 1 TATTCCTAGTTAGCTATATTTTAATGAG 1447487 ATAAAATTCA Statistics Matches: 28, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 28 28 1.00 ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46 Consensus pattern (28 bp): TATTCCTAGTTAGCTATATTTTAATGAG Found at i:1455890 original size:13 final size:13 Alignment explanation

Indices: 1455872--1455898 Score: 54 Period size: 13 Copynumber: 2.1 Consensus size: 13 1455862 TGAAACACAA 1455872 AAGAACGCATTTT 1 AAGAACGCATTTT 1455885 AAGAACGCATTTT 1 AAGAACGCATTTT 1455898 A 1 A 1455899 TGGTTTAAAA Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 14 1.00 ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30 Consensus pattern (13 bp): AAGAACGCATTTT Found at i:1465636 original size:2 final size:2 Alignment explanation

Indices: 1465629--1465717 Score: 178 Period size: 2 Copynumber: 44.5 Consensus size: 2 1465619 AGCTCAATAT 1465629 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA 1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA 1465671 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA 1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA 1465713 GA GA G 1 GA GA G 1465718 GGAGGGAGTA Statistics Matches: 87, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 87 1.00 ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00 Consensus pattern (2 bp): GA Found at i:1466139 original size:17 final size:17 Alignment explanation

Indices: 1466119--1466155 Score: 65 Period size: 17 Copynumber: 2.2 Consensus size: 17 1466109 GTTTTAACAT 1466119 TAATTTCAATGTAACCA 1 TAATTTCAATGTAACCA * 1466136 TAATTTTAATGTAACCA 1 TAATTTCAATGTAACCA 1466153 TAA 1 TAA 1466156 ATAAATTATT Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 17 19 1.00 ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38 Consensus pattern (17 bp): TAATTTCAATGTAACCA Found at i:1469574 original size:54 final size:54 Alignment explanation

Indices: 1469492--1469609 Score: 164 Period size: 54 Copynumber: 2.2 Consensus size: 54 1469482 CTCCTTTAGC * * * 1469492 GTTAGCGCGACGGCGTGTTGTACAAAGTTGTGTCAGCGCAACGGCGTGTTGTAT 1 GTTAGCGCGACAGCGTGTCGTACAAAGTTGCGTCAGCGCAACGGCGTGTTGTAT * * * * * 1469546 GTTAGCGCGACAGCGTGTCGTGCAAAGTTGCGTTATCGCGACGGCGTGTTGTGT 1 GTTAGCGCGACAGCGTGTCGTACAAAGTTGCGTCAGCGCAACGGCGTGTTGTAT 1469600 GTTAGCGCGA 1 GTTAGCGCGA 1469610 TGGCGTATTG Statistics Matches: 56, Mismatches: 8, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 54 56 1.00 ACGTcount: A:0.17, C:0.19, G:0.36, T:0.27 Consensus pattern (54 bp): GTTAGCGCGACAGCGTGTCGTACAAAGTTGCGTCAGCGCAACGGCGTGTTGTAT Found at i:1469603 original size:23 final size:23 Alignment explanation

Indices: 1469577--1469644 Score: 75 Period size: 23 Copynumber: 3.0 Consensus size: 23 1469567 GCAAAGTTGC * 1469577 GTTATCGCGACGGCGTGTTGTGT 1 GTTAGCGCGACGGCGTGTTGTGT * * 1469600 GTTAGCGCGATGGCGTATTGTGT 1 GTTAGCGCGACGGCGTGTTGTGT * * 1469623 -TCTAGCACGACGGCGCGTTGTG 1 GT-TAGCGCGACGGCGTGTTGTG 1469645 AAAATGTGCG Statistics Matches: 37, Mismatches: 7, Indels: 2 0.80 0.15 0.04 Matches are distributed among these distances: 22 1 0.03 23 36 0.97 ACGTcount: A:0.12, C:0.19, G:0.38, T:0.31 Consensus pattern (23 bp): GTTAGCGCGACGGCGTGTTGTGT Found at i:1472528 original size:21 final size:21 Alignment explanation

Indices: 1472504--1472555 Score: 70 Period size: 21 Copynumber: 2.5 Consensus size: 21 1472494 CACACTCGTT 1472504 TGCAAAACCAACAGA-CACCGA 1 TGCAAAACCAACA-ACCACCGA * * 1472525 TGCAGAACAAACAACCACCGA 1 TGCAAAACCAACAACCACCGA 1472546 TGCAAAACCA 1 TGCAAAACCA 1472556 TCATCGGATA Statistics Matches: 26, Mismatches: 4, Indels: 2 0.81 0.12 0.06 Matches are distributed among these distances: 20 1 0.04 21 25 0.96 ACGTcount: A:0.48, C:0.33, G:0.13, T:0.06 Consensus pattern (21 bp): TGCAAAACCAACAACCACCGA Found at i:1472594 original size:15 final size:15 Alignment explanation

Indices: 1472571--1472600 Score: 51 Period size: 15 Copynumber: 2.0 Consensus size: 15 1472561 GGATACCTGT * 1472571 AAAATGAAACGAAAC 1 AAAAAGAAACGAAAC 1472586 AAAAAGAAACGAAAC 1 AAAAAGAAACGAAAC 1472601 GGAATCTACC Statistics Matches: 14, Mismatches: 1, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 15 14 1.00 ACGTcount: A:0.70, C:0.13, G:0.13, T:0.03 Consensus pattern (15 bp): AAAAAGAAACGAAAC Found at i:1482731 original size:20 final size:21 Alignment explanation

Indices: 1482708--1482747 Score: 57 Period size: 20 Copynumber: 2.0 Consensus size: 21 1482698 CAGCAAAAAC 1482708 GGCACAA-TAACAA-AAATGAT 1 GGCACAACT-ACAAGAAATGAT 1482728 GGCACAACTACAAGAAATGA 1 GGCACAACTACAAGAAATGA 1482748 AATTTCTCAA Statistics Matches: 18, Mismatches: 0, Indels: 3 0.86 0.00 0.14 Matches are distributed among these distances: 20 11 0.61 21 7 0.39 ACGTcount: A:0.53, C:0.17, G:0.17, T:0.12 Consensus pattern (21 bp): GGCACAACTACAAGAAATGAT Found at i:1515382 original size:30 final size:30 Alignment explanation

Indices: 1515346--1515428 Score: 123 Period size: 30 Copynumber: 2.8 Consensus size: 30 1515336 TAATTGAATC * 1515346 ACATAATATTATATCATATGATAATGAAAT 1 ACATAATATTTTATCATATGATAATGAAAT * 1515376 GA-ATAATATTTTATCATACGATAATGAAAT 1 -ACATAATATTTTATCATATGATAATGAAAT * 1515406 ACATAATATTTTATTATATGATA 1 ACATAATATTTTATCATATGATA 1515429 CCATATTGTA Statistics Matches: 47, Mismatches: 4, Indels: 3 0.87 0.07 0.06 Matches are distributed among these distances: 29 1 0.02 30 45 0.96 31 1 0.02 ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40 Consensus pattern (30 bp): ACATAATATTTTATCATATGATAATGAAAT Found at i:1515630 original size:15 final size:15 Alignment explanation

Indices: 1515561--1515630 Score: 70 Period size: 15 Copynumber: 4.7 Consensus size: 15 1515551 TTCATGTGAA * * 1515561 ATGATATCGTATAAT 1 ATGATATTGTATCAT * 1515576 ATGATATTGTATTAT 1 ATGATATTGTATCAT * * 1515591 AT-ATTATTGCATCAC 1 ATGA-TATTGTATCAT * 1515606 ATGAAATTGTATCAT 1 ATGATATTGTATCAT 1515621 ATGATATTGT 1 ATGATATTGT 1515631 GAAATATAAT Statistics Matches: 44, Mismatches: 9, Indels: 4 0.77 0.16 0.07 Matches are distributed among these distances: 14 1 0.02 15 42 0.95 16 1 0.02 ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44 Consensus pattern (15 bp): ATGATATTGTATCAT Found at i:1524581 original size:2 final size:2 Alignment explanation

Indices: 1524574--1524604 Score: 62 Period size: 2 Copynumber: 15.5 Consensus size: 2 1524564 TGATATGAAT 1524574 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G 1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G 1524605 GGGGTGTCTC Statistics Matches: 29, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 29 1.00 ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00 Consensus pattern (2 bp): GA Found at i:1524907 original size:12 final size:12 Alignment explanation

Indices: 1524883--1524915 Score: 59 Period size: 12 Copynumber: 2.8 Consensus size: 12 1524873 ATCACATTTT 1524883 GTCTGTC-GTCC 1 GTCTGTCTGTCC 1524894 GTCTGTCTGTCC 1 GTCTGTCTGTCC 1524906 GTCTGTCTGT 1 GTCTGTCTGT 1524916 AAACTTTTCA Statistics Matches: 21, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 11 7 0.33 12 14 0.67 ACGTcount: A:0.00, C:0.30, G:0.27, T:0.42 Consensus pattern (12 bp): GTCTGTCTGTCC Found at i:1525365 original size:166 final size:166 Alignment explanation

Indices: 1525114--1526457 Score: 1969 Period size: 166 Copynumber: 8.0 Consensus size: 166 1525104 AACCATAAGA * * * 1525114 CCAGGAGAGCTGAAACTTGTGTGAAAGCATCCTCAGGTAGTGTAGATTCAAACTTGTGAAAATCA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * * * * 1525179 TGACCCCCGGGGGAAGGGTGGGGCCACAATGGGGGGTCGAAGGTTTACATATGAATATACAGAGT 66 TGACCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGT 1525244 AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG 131 AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG * 1525280 CCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * * * * 1525345 TGACCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGTCAAAGTTTAACAAAGGAATATATAGAAT 66 TGACCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGT 1525410 AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG 131 AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG * * 1525446 CCAGGAAAGCTGAAACTTGTATGGAAGTAT-CTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * * * * 1525510 TGACCCCTGGGGGTAGGGAAGGATGGGGCCACAAT-GAGAGTTGAAGTTTTACATAGGAATATAT 66 TGACCCCCGGGGGTA--G--GG-TGGGGCCACAATGGGGGGTCGAAGTTTTACATAGGAATATAT ** * 1525574 AGAGTAAAAATTAAAAAATCTTCTTCTCAGAAACTAATCAG 126 AGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG * * 1525615 ACAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTTAAAGTTGTGAAAATCA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * * * 1525680 T-AACCCCGGGGGTAGGGTGAGGCCACATTGGGGGGTCGAAGTTTTACATAGGAATTTATATATA 66 TGACCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGG-A---ATATATA * 1525744 GAGTAAATCTTTAAAAATCTTCTTTTCAGAAACTAATCAG 127 GAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG * * * 1525784 CCAGGAAAGTTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAGATTCA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * * * 1525849 TGACCCCCAGGGGTAGGCTGGGTCCACAATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGT 66 TGACCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGT * 1525914 AAATCTTTAAAAATCTTCTTTTCAGAAACTAATCAG 131 AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG * * * * 1525950 CCAGGAAAGTTTAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAGATTCA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * * * 1526015 TGACCCCCAGGGGTAGGCTGGGTCCACAATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGT 66 TGACCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGT * 1526080 AAATCTTTAAAAATCTTCTTTTCAGAAACTAATCAG 131 AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG * * * 1526116 CCAGGAAAGTTTAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATTA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA *** * * 1526181 TGATTGCTGGGGGTAGGGTGGGG-CACAATGGAGGGTCGAAGTTTTACATAGGAATATATAGAGT 66 TGACCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGT * * * 1526245 AAATATTAAAAAATCATCTTCTCAGAAACTAATCAG 131 AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG * * 1526281 CCAGGAAAGCCGAAACTTGTGTGGAAGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * * * * 1526346 TGATCCCTGGGGGTAGGGTGAGGCCACATTGGGGGGGGGGGT-GTTAAAGTTTTACATAGGAATA 66 TGACCCCCGGGGGTAGGGTGGGGCCACAAT-----GGGGGGTCG---AAGTTTTACATAGGAATA 1526410 TATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG 123 TATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG 1526454 CCAG 1 CCAG 1526458 ATTATTCTTT Statistics Matches: 1076, Mismatches: 81, Indels: 35 0.90 0.07 0.03 Matches are distributed among these distances: 164 10 0.01 165 221 0.21 166 477 0.44 167 2 0.00 169 205 0.19 170 92 0.09 171 6 0.01 173 63 0.06 ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27 Consensus pattern (166 bp): CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA TGACCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGT AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG Found at i:1525893 original size:335 final size:332 Alignment explanation

Indices: 1525114--1526457 Score: 1971 Period size: 335 Copynumber: 4.0 Consensus size: 332 1525104 AACCATAAGA * * * 1525114 CCAGGAGAGCTGAAACTTGTGTGAAAGCATCCTCAGGTAGTGTAGATTCAAACTTGTGAAAATCA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * * * * * 1525179 TGACCCCCGGGGGAAGGGTGGGGCCACAATGGGGGGTCGAAGGTTTACATATGAATATACAGAGT 66 TGACCCCCGGGGGTAGGGTGGGGCCACAATGGAGGGTCGAAGTTTTACATAGGAATATATAGAGT * * * 1525244 AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCA 131 AAATATTAAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCA * 1525309 TCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGGGCCACAA 196 TCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGAGGCCACAA * * * * 1525374 TGGGGGGTCAAAGTTTAACAAAGGAATATATAGAATAAATCTTTAAAAATCTTCTTCTCAGAAAC 261 TGGGGGGTCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAAC 1525439 TAATCAG 326 TAATCAG * * 1525446 CCAGGAAAGCTGAAACTTGTATGGAAGTAT-CTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * * * 1525510 TGACCCCTGGGGGTAGGGAAGGATGGGGCCACAAT-GAGAGTTGAAGTTTTACATAGGAATATAT 66 TGACCCCCGGGGGTA--G--GG-TGGGGCCACAATGGAGGGTCGAAGTTTTACATAGGAATATAT * * 1525574 AGAGTAAAAATTAAAAAATCTTCTTCTCAGAAACTAATCAGACAGGAAAGCTGAAACTTGTGTGG 126 AGAGTAAATATTAAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGG * * 1525639 AAGCATCCTCAGGTAGTGTAGATTTAAAGTTGTGAAAATCAT-AACCCCGGGGGTAGGGTGAGGC 191 AAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGAGGC * 1525703 CACATTGGGGGGTCGAAGTTTTACATAGGAATTTATATATAGAGTAAATCTTTAAAAATCTTCTT 256 CACAATGGGGGGTCGAAGTTTTACATAGG-A---ATATATAGAGTAAATCTTTAAAAATCTTCTT * 1525768 TTCAGAAACTAATCAG 317 CTCAGAAACTAATCAG * * * 1525784 CCAGGAAAGTTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAGATTCA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * * * * 1525849 TGACCCCCAGGGGTAGGCTGGGTCCACAATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGT 66 TGACCCCCGGGGGTAGGGTGGGGCCACAATGGAGGGTCGAAGTTTTACATAGGAATATATAGAGT * * * * * 1525914 AAATCTTTAAAAATCTTCTTTTCAGAAACTAATCAGCCAGGAAAGTTTAAACTTGTGTGGAAGCA 131 AAATATTAAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCA * * * * 1525979 TCCTCAGGTAGTGTAGATTCAAAGTTGTGAGATTCATGACCCCCAGGGGTAGGCTG-GGTCCACA 196 TCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGAGG-CCACA * 1526043 ATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTTTCAGAAA 260 ATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAA 1526108 CTAATCAG 325 CTAATCAG * * * 1526116 CCAGGAAAGTTTAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATTA 1 CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA *** * 1526181 TGATTGCTGGGGGTAGGGTGGGG-CACAATGGAGGGTCGAAGTTTTACATAGGAATATATAGAGT 66 TGACCCCCGGGGGTAGGGTGGGGCCACAATGGAGGGTCGAAGTTTTACATAGGAATATATAGAGT * * * 1526245 AAATATTAAAAAATCATCTTCTCAGAAACTAATCAGCCAGGAAAGCCGAAACTTGTGTGGAAGTA 131 AAATATTAAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCA * * * 1526310 TCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTGAGGCCACAT 196 TCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGAGGCCACAA 1526375 TGGGGGGGGGGGT-GTTAAAGTTTTACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTC 261 T-----GGGGGGTCG---AAGTTTTACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTC 1526439 TCAGAAACTAATCAG 318 TCAGAAACTAATCAG 1526454 CCAG 1 CCAG 1526458 ATTATTCTTT Statistics Matches: 909, Mismatches: 81, Indels: 38 0.88 0.08 0.04 Matches are distributed among these distances: 331 199 0.22 332 152 0.17 333 1 0.00 334 56 0.06 335 255 0.28 336 63 0.07 337 1 0.00 338 137 0.15 339 45 0.05 ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27 Consensus pattern (332 bp): CCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA TGACCCCCGGGGGTAGGGTGGGGCCACAATGGAGGGTCGAAGTTTTACATAGGAATATATAGAGT AAATATTAAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCA TCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGAGGCCACAA TGGGGGGTCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAAC TAATCAG Found at i:1527992 original size:131 final size:131 Alignment explanation

Indices: 1527758--1528016 Score: 518 Period size: 131 Copynumber: 2.0 Consensus size: 131 1527748 TTCAATATTT 1527758 TAGGATAAAGAAAGATAACTCTTGTTGATCGAAGCATTTTTTTGTTACAAACCTATTTTACAAAA 1 TAGGATAAAGAAAGATAACTCTTGTTGATCGAAGCATTTTTTTGTTACAAACCTATTTTACAAAA 1527823 TGCTATTCTGAACTCAAAACCATCACTTCACTATGTTTATTAATATGAATTATCAATGTATATGT 66 TGCTATTCTGAACTCAAAACCATCACTTCACTATGTTTATTAATATGAATTATCAATGTATATGT 1527888 G 131 G 1527889 TAGGATAAAGAAAGATAACTCTTGTTGATCGAAGCATTTTTTTGTTACAAACCTATTTTACAAAA 1 TAGGATAAAGAAAGATAACTCTTGTTGATCGAAGCATTTTTTTGTTACAAACCTATTTTACAAAA 1527954 TGCTATTCTGAACTCAAAACCATCACTTCACTATGTTTATTAATATGAATTATCAATGTATAT 66 TGCTATTCTGAACTCAAAACCATCACTTCACTATGTTTATTAATATGAATTATCAATGTATAT 1528017 NNNNNNNNNN Statistics Matches: 128, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 131 128 1.00 ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37 Consensus pattern (131 bp): TAGGATAAAGAAAGATAACTCTTGTTGATCGAAGCATTTTTTTGTTACAAACCTATTTTACAAAA TGCTATTCTGAACTCAAAACCATCACTTCACTATGTTTATTAATATGAATTATCAATGTATATGT G Found at i:1532878 original size:16 final size:16 Alignment explanation

Indices: 1532852--1532884 Score: 50 Period size: 16 Copynumber: 2.1 Consensus size: 16 1532842 TGATCACAAT 1532852 TTGTCCGTTGTCTGTCG 1 TTGTCCGTTGTC-GTCG 1532869 TTGT-CGTTGTCGTCG 1 TTGTCCGTTGTCGTCG 1532884 T 1 T 1532885 CGTTAACTTT Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 15 5 0.31 16 7 0.44 17 4 0.25 ACGTcount: A:0.00, C:0.21, G:0.30, T:0.48 Consensus pattern (16 bp): TTGTCCGTTGTCGTCG Found at i:1533390 original size:166 final size:166 Alignment explanation

Indices: 1533043--1534400 Score: 1685 Period size: 166 Copynumber: 8.2 Consensus size: 166 1533033 GGTATTTTTC * * * ** * 1533043 AAAAATCTTCTTCTCAAAAACTATTTGGCCTGAAAAGCTAAAACTTG-TGTGGAGGCATCCTCAG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTGAAATGGAAGCATCCTCAG * * * 1533107 GTAGTGTAGAATT-AAGTTTGTTCAAATCATGG-CCCCGGGGGAAGGGAGGGGCCACAA-GAAGG 65 GTAGTGTAG-ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATG-GGG 1533169 GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT 128 GGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT * * * * 1533208 AAAAATCTTCTTCTCAAAAACTATTGGGCAAGGAAAGCTCAAATTGAAATGGAAGCATCCACAGG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTGAAATGGAAGCATCCTCAGG * * * 1533273 TAGTGTAGATTCAAATTTGTTCAAATCATGGTCCCTGGTGGTAGGGTGGGGCCACAATGGGGGGA 66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA * * 1533338 TGAAGTTTTACATAGGAATATAGAGAGAAAATCTTT 131 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT * * * 1533374 AAAAATCTTATTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATT-ATAATGGAATCATCTTCAG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTGA-AATGGAAGCATCCTCAG * ** * * * * * 1533438 GTAGTGTAGATTCAAGCTCATTCTAATCATGGTCCGCAGGGGTAGGGTGGGGCAAAAAATGGGGG 65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGC-CACAAT---GG * 1533503 GGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTAT 126 GGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT * * * * 1533544 AAAAATCTTCTTCTCAAAAACAATTAGGCCAGAAAAGCTCAAATTAAAATGGGAGCATCCACAGG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTGAAATGGAAGCATCCTCAGG * * * * * 1533609 AAGTGTAGATTCAAATTTGTTCAAATCATGGTCCCCGGGGGTAGGGTTGGGTCACAATTGGGGGA 66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA * * 1533674 TCAAGTTTTATAGAGGAATATATAGAGAAAATCTTT 131 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT * * * * * 1533710 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAACCTGAAATTTG-AGTGGAGGCATCCTCAG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTGAAATGGAAGCATCCTCAG * * * 1533774 GTAGTGTAGATTCAAGTTTGTTTAAATCATGGTCCCCGGGGGTAGGGTGGGGTCACAATAGGGGG 65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGG * * * * 1533839 ATGAATTTTTACATAGGAATATATAGAGGAAATCTTA 130 ATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT * * * 1533876 AAAAATCTTCTTCTCAAAAACTTTTAGGCCAG-AAAGCTCAAATT-ATAATGGAATCATCTTCAG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTGA-AATGGAAGCATCCTCAG * ** ** * * * 1533939 GTAGTGTAGATTCAAGCTCATTCAAATCATGGTTTCCAGGGGTAGGGTGGGGCAAAAATGGGGGG 65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGG * * * 1534004 ATCAAGTTTAACATAGGAATATATAAAGAAAATCTAT 130 ATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT * * * * 1534041 AAAAATCTTCTTCTCAAAAACAATTAGGCCAGAAAAGATCAAATTAAAATGGGAGCATCCTCAGG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTGAAATGGAAGCATCCTCAGG * * * * 1534106 TAGTGTAGATTCAAGTTTGTTCAAATCATAGTCTCTGGGGGTAGGGCGGGGCCACAATGGGGGGA 66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA 1534171 TCAAGTTTTACATAGGAATATAT-------A---TT 131 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT * * * * * 1534197 AAAAATCTCCATCTCAAATACTATTAGGCCAG-AAAGCTTAAATTTG-AATAGAAGCATCCTCAG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAA-TTGAAATGGAAGCATCCTCAG * * * 1534260 GTAGTGTAGATTCAAGTTTGTTCAAATCATGATCCCTGGGGGTAGGGTGGGGCCACAATTGGGGG 65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGG 1534325 ATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT 130 ATCAAGTTTTACATAGGAATATATAGAGAAAATCTTT * * * * * 1534362 AAAAATCTTCTTTTTAAAGACCATTTGGCCAGAAAAGCT 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCT 1534401 TTAACTTGTG Statistics Matches: 1022, Mismatches: 144, Indels: 53 0.84 0.12 0.04 Matches are distributed among these distances: 155 107 0.10 156 31 0.03 159 1 0.00 162 1 0.00 164 8 0.01 165 241 0.24 166 481 0.47 167 8 0.01 169 4 0.00 170 139 0.14 171 1 0.00 ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27 Consensus pattern (166 bp): AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTGAAATGGAAGCATCCTCAGG TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATGGGGGGA TCAAGTTTTACATAGGAATATATAGAGAAAATCTTT Found at i:1534046 original size:331 final size:331 Alignment explanation

Indices: 1533043--1534440 Score: 1700 Period size: 331 Copynumber: 4.2 Consensus size: 331 1533033 GGTATTTTTC * * * * * 1533043 AAAAATCTTCTTCTCAAAAACTATTTGGCCTGAAAAGCTAAAACTTGTGTGGAGGCATCCTCAGG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTTGAGTGGAGGCATCCTCAGG * * * * 1533108 TAGTGTAGAATT-AAGTTTGTTCAAATCATGG-CCCCGGGGGAAGGGAGGGGCCACAAGAAGGGG 66 TAGTGTAG-ATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGG * * 1533171 ATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAAAAATCTTCTTCTCAAAAACTATTGGG 130 ATCAAGTTTTACATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATTAGG * 1533236 CAAGGAAAGCTCAAATTGA-AATGGAAGCATCCACAGGTAGTGTAGATTCAAATTTGTTCAAATC 195 CCA-GAAAGCTCAAATT-ATAATGGAAGCATCCACAGGTAGTGTAGATTCAAATTTGTTCAAATC * * * 1533300 ATGG-TCCCTGGTGGTAGGGTGGGGCCACAATGGGGGGATGAAGTTTTACATAGGAATATAGAGA 258 ATGGTTCCC-GGGGGTAGGGTGGGGCCACAATGGGGGGATCAAGTTTTACATAGGAATATATAGA 1533364 GAAAATCTTT 322 GAAAATCTTT * * ** * 1533374 AAAAATCTTATTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTAT-AATGGAATCATCTTCAG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATT-TGAGTGGAGGCATCCTCAG * ** * * * * * * 1533438 GTAGTGTAGATTCAAGCTCATTCTAATCATGGTCCGCAGGGGTAGGGTGGGGCAAAAAATGGGGG 65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGC-CACAAT---AG * 1533503 GGGGATCAAGTTTTACATAGGAATATATAGAGAAAATC-TATAAAAATCTTCTTCTCAAAAACAA 126 GGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTA-AAAAATCTTCTTCTCAAAAACTA * * * 1533567 TTAGGCCAGAAAAGCTCAAATTAAAATGGGAGCATCCACAGGAAGTGTAGATTCAAATTTGTTCA 190 TTAGGCCAG-AAAGCTCAAATTATAATGGAAGCATCCACAGGTAGTGTAGATTCAAATTTGTTCA * * * * * * 1533632 AATCATGGTCCCCGGGGGTAGGGTTGGGTCACAATTGGGGGATCAAGTTTTATAGAGGAATATAT 254 AATCATGGTTCCCGGGGGTAGGGTGGGGCCACAATGGGGGGATCAAGTTTTACATAGGAATATAT 1533697 AGAGAAAATCTTT 319 AGAGAAAATCTTT * * * 1533710 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGGAAACCTGAAATTTGAGTGGAGGCATCCTCAGG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTTGAGTGGAGGCATCCTCAGG * * 1533775 TAGTGTAGATTCAAGTTTGTTTAAATCATGGTCCCCGGGGGTAGGGTGGGGTCACAATAGGGGGA 66 TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGA * * * * 1533840 TGAATTTTTACATAGGAATATATAGAGGAAATCTTAAAAAATCTTCTTCTCAAAAACTTTTAGGC 131 TCAAGTTTTACATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATTAGGC * ** ** ** 1533905 CAGAAAGCTCAAATTATAATGGAATCATCTTCAGGTAGTGTAGATTCAAGCTCATTCAAATCATG 196 CAGAAAGCTCAAATTATAATGGAAGCATCCACAGGTAGTGTAGATTCAAATTTGTTCAAATCATG * * * * * * 1533970 GTTTCCAGGGGTAGGGTGGGGCAAAAATGGGGGGATCAAGTTTAACATAGGAATATATAAAGAAA 261 GTTCCCGGGGGTAGGGTGGGGCCACAATGGGGGGATCAAGTTTTACATAGGAATATATAGAGAAA * 1534035 ATCTAT 326 ATCTTT * * ** * 1534041 AAAAATCTTCTTCTCAAAAACAATTAGGCCAGAAAAGATCAAATTAAAATGG-GAGCATCCTCAG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTTGAGTGGAG-GCATCCTCAG * * * * * 1534105 GTAGTGTAGATTCAAGTTTGTTCAAATCATAGTCTCTGGGGGTAGGGCGGGGCCACAATGGGGGG 65 GTAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGG * * * 1534170 ATCAAGTTTTACATAGGAATATAT-------A--TT-AAAAATCTCCATCTCAAATACTATTAGG 130 ATCAAGTTTTACATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATTAGG * * * * 1534225 CCAGAAAGCTTAAATT-TGAATAGAAGCATCCTCAGGTAGTGTAGATTCAAGTTTGTTCAAATCA 195 CCAGAAAGCTCAAATTAT-AATGGAAGCATCCACAGGTAGTGTAGATTCAAATTTGTTCAAATCA * * 1534289 T-GATCCCTGGGGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAG 259 TGGTTCCC-GGGGGTAGGGTGGGGCCACAATGGGGGGATCAAGTTTTACATAGGAATATATAGAG 1534353 AAAATCTTT 323 AAAATCTTT * * * * * ** * * * * 1534362 AAAAATCTTCTTTTTAAAGACCATTTGGCCAGAAAAGCTTTAACTTGTGTAGAGGCATCCTCGGG 1 AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTTGAGTGGAGGCATCCTCAGG * 1534427 TAGTGTAAATTCAA 66 TAGTGTAGATTCAA 1534441 AATCACAGTC Statistics Matches: 912, Mismatches: 138, Indels: 44 0.83 0.13 0.04 Matches are distributed among these distances: 320 5 0.01 321 199 0.22 322 3 0.00 324 1 0.00 330 4 0.00 331 320 0.35 332 83 0.09 333 5 0.01 335 8 0.01 336 281 0.31 337 3 0.00 ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27 Consensus pattern (331 bp): AAAAATCTTCTTCTCAAAAACTATTAGGCCAGAAAAGCTCAAATTTGAGTGGAGGCATCCTCAGG TAGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCCGGGGGTAGGGTGGGGCCACAATAGGGGGA TCAAGTTTTACATAGGAATATATAGAGAAAATCTTAAAAAATCTTCTTCTCAAAAACTATTAGGC CAGAAAGCTCAAATTATAATGGAAGCATCCACAGGTAGTGTAGATTCAAATTTGTTCAAATCATG GTTCCCGGGGGTAGGGTGGGGCCACAATGGGGGGATCAAGTTTTACATAGGAATATATAGAGAAA ATCTTT Found at i:1534273 original size:155 final size:156 Alignment explanation

Indices: 1534040--1534349 Score: 480 Period size: 155 Copynumber: 2.0 Consensus size: 156 1534030 AGAAAATCTA * * * * 1534040 TAAAAATCTTCTTCTCAAAAACAATTAGGCCAGAAAAGATCAAATTAAAATGGGAGCATCCTCAG 1 TAAAAATCTCCATCTCAAAAACAATTAGGCCAGAAAAGATCAAATTAAAATAGAAGCATCCTCAG * 1534105 GTAGTGTAGATTCAAGTTTGTTCAAATCAT-AGTCTCTGGGGGTAGGGCGGGGCCACAATGGGGG 66 GTAGTGTAGATTCAAGTTTGTTCAAATCATGA-TCCCTGGGGGTAGGGCGGGGCCACAATGGGGG 1534169 GATCAAGTTTTACATAGGAATATATAT 130 GATCAAGTTTTACATAGGAATATATAT * * * * ** 1534196 TAAAAATCTCCATCTCAAATACTATTAGGCCAG-AAAGCTTAAATTTGAATAGAAGCATCCTCAG 1 TAAAAATCTCCATCTCAAAAACAATTAGGCCAGAAAAGATCAAATTAAAATAGAAGCATCCTCAG * * 1534260 GTAGTGTAGATTCAAGTTTGTTCAAATCATGATCCCTGGGGGTAGGGTGGGGCCACAATTGGGGG 66 GTAGTGTAGATTCAAGTTTGTTCAAATCATGATCCCTGGGGGTAGGGCGGGGCCACAATGGGGGG 1534325 ATCAAGTTTTACATAGGAATATATA 131 ATCAAGTTTTACATAGGAATATATA 1534350 GAGAAAATCT Statistics Matches: 140, Mismatches: 13, Indels: 3 0.90 0.08 0.02 Matches are distributed among these distances: 155 110 0.79 156 30 0.21 ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28 Consensus pattern (156 bp): TAAAAATCTCCATCTCAAAAACAATTAGGCCAGAAAAGATCAAATTAAAATAGAAGCATCCTCAG GTAGTGTAGATTCAAGTTTGTTCAAATCATGATCCCTGGGGGTAGGGCGGGGCCACAATGGGGGG ATCAAGTTTTACATAGGAATATATAT Found at i:1541506 original size:167 final size:167 Alignment explanation

Indices: 1540831--1541837 Score: 1553 Period size: 165 Copynumber: 6.0 Consensus size: 167 1540821 GAATCATCTT * 1540831 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTTTATATATTCCTATGTAAAACTTTA 1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTT- * * 1540896 ACATCCCCCCCA-TGTGGCCTCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTAC 65 -CA-CCCCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGAATTTCACAACTTTGAATCTAC * * 1540960 ACTACCTGAGGATACTTCCACACAAGTTTCAGCTCTCCTG 128 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG * 1541000 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTTG 1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTTC * 1541065 A-CCCCCAATTGT-GCCCCACCCTACCCCCAGGGATCATGAATTTCACAACTTTGAATCTACACT 66 ACCCCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGAATTTCACAACTTTGAATCTACACT * 1541128 ACCTGAGGATGCTACCACACAAGTTTCAGCTTTCCTG 131 ACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG * * * * 1541165 GCTGTTTAGTTTTTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTTCTATGTAAAATTTTA 1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTT- * * * * 1541230 ACACCCCCCCCCCAATGTGGCCTCAACCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCT 65 -CA---CCCCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGAATTTCACAACTTTGAATCT * 1541295 ACACTACCTGATGATGCTTCCACACAAGTTTCAGCTTTCCTG 126 ACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG 1541337 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAA-TTTC 1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTTC * * * * 1541401 GACCCCCCCATTGTGGCCCCACCATAACCCCGGGGATCATGATTTTCACAACTTTGAATCTACAC 66 -ACCCCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGAATTTCACAACTTTGAATCTACAC * 1541466 TACCTGAGGATGATTCCACACAAGTTTCAGCTTTCCTG 130 TACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG * * 1541504 GCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATGCCTATGTAAAAC-TTC 1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTTC * * * 1541568 AACCCCCCATTGTGGCCCCACCCTA-CCCCGGGGGTCATGAATTTCACAACTTTGAATCTACACT 66 ACCCCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGAATTTCACAACTTTGAATCTACACT ** 1541632 ACCTGAGGATGCTTCCACATTAGTTTCAGCTTTCCTG 131 ACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG * 1541669 GCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAAC-TTC 1 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTTC * * * * 1541733 GA-CCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGAATTTCACAACGTTAAATCTACAC 66 -ACCCCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGAATTTCACAACTTTGAATCTACAC * 1541797 TACCTGAGGATGCCTCCACACAAGTTTCAGCTTTCCTG 130 TACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG 1541835 GCT 1 GCT 1541838 TTCTGGTTCT Statistics Matches: 780, Mismatches: 46, Indels: 27 0.91 0.05 0.03 Matches are distributed among these distances: 165 306 0.39 166 101 0.13 167 156 0.20 169 64 0.08 170 1 0.00 171 12 0.02 172 140 0.18 ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32 Consensus pattern (167 bp): GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTTC ACCCCCCCATTGTGGCCCCACCCTACCCCCAGGGATCATGAATTTCACAACTTTGAATCTACACT ACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTG Found at i:1541575 original size:337 final size:334 Alignment explanation

Indices: 1540831--1541871 Score: 1614 Period size: 337 Copynumber: 3.1 Consensus size: 334 1540821 GAATCATCTT * * 1540831 GCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTTTATATATTCCTATGTAAAACTTTA 1 GCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAAC-TTA * 1540896 ACATCCCCCCC-ATGTGGCCTCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTAC 65 A-ACCCCCCCCAATGTGGCCTCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTAC * * 1540960 ACTACCTGAGGATACTTCCACACAAGTTTCAGCTCTCCTGGCTGATTAGTTTCTGAGAAGAAGAT 129 ACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGAT * 1541025 TTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTT-GACCCCCAATTGT-GCCCCACCCTA 194 TTTTAAAGATTTACTCTATATATTCCTATGTAAAA-TTTCGACCCCCCATTGTGGCCCCACCCTA * * 1541088 CCCCCAGGGATCATGAATTTCACAACTTTGAATCTACACTACCTGAGGATGCTACCACACAAGTT 258 CCCCCGGGGATCATGAATTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTT 1541153 TCAGCTTTCCTG 323 TCAGCTTTCCTG * * * 1541165 GCTGTTTAGTTTTTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTTCTATGTAAAATTTTA 1 GCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAA-CTTA * 1541230 ACACCCCCCCCCCAATGTGGCCTCAACCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCT 65 A-A--CCCCCCCCAATGTGGCCTCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCT * 1541295 ACACTACCTGATGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAG 127 ACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAG * 1541360 ATTTTTAAAGATTTACTCTATATATTCCTATGTAAAATTTCGACCCCCCCATTGTGGCCCCACCA 192 ATTTTTAAAGATTTACTCTATATATTCCTATGTAAAATTTCGA-CCCCCCATTGTGGCCCCACCC * * * 1541425 TAACCCCGGGGATCATGATTTTCACAACTTTGAATCTACACTACCTGAGGATGATTCCACACAAG 256 TACCCCCGGGGATCATGAATTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAG 1541490 TTTCAGCTTTCCTG 321 TTTCAGCTTTCCTG * * 1541504 GCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATGCCTATGTAAAACTTCA 1 GCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTAA * * * * * 1541569 A--CCCCCCATTGTGGCCCCACCCTA-CCCCGGGGGTCATGAATTTCACAACTTTGAATCTACAC 66 ACCCCCCCCAATGTGGCCTCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTACAC ** * 1541631 TACCTGAGGATGCTTCCACATTAGTTTCAGCTTTCCTGGCTGTTTAGTTTCTGAGAAGAAGATTT 131 TACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATTT * 1541696 TTAAAGATTTACTCTATATATTCCTATGTAAAACTTCGACCCCCCATTGTGGCCCCACCCTACCC 196 TTAAAGATTTACTCTATATATTCCTATGTAAAATTTCGACCCCCCATTGTGGCCCCACCCTACCC * * * * 1541761 CCGGGGGTCATGAATTTCACAACGTTAAATCTACACTACCTGAGGATGCCTCCACACAAGTTTCA 261 CCGGGGATCATGAATTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCA 1541826 GCTTTCCTG 326 GCTTTCCTG * * 1541835 GCT-TTCT-GGTTCTTGAGAAGAATATTTTTGAAA-ATTT 1 GCTGTT-TAGTTTC-TGAGAAGAAGATTTTT-AAAGATTT 1541872 CTCGAAATTT Statistics Matches: 654, Mismatches: 43, Indels: 23 0.91 0.06 0.03 Matches are distributed among these distances: 330 6 0.01 331 115 0.18 332 137 0.21 333 20 0.03 334 62 0.09 336 10 0.02 337 152 0.23 338 13 0.02 339 139 0.21 ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33 Consensus pattern (334 bp): GCTGTTTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTAAAACTTAA ACCCCCCCCAATGTGGCCTCACCCTACCCCCAGGGATCATGATTTTCACAACTTTGAATCTACAC TACCTGAGGATGCTTCCACACAAGTTTCAGCTTTCCTGGCTGATTAGTTTCTGAGAAGAAGATTT TTAAAGATTTACTCTATATATTCCTATGTAAAATTTCGACCCCCCATTGTGGCCCCACCCTACCC CCGGGGATCATGAATTTCACAACTTTGAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCA GCTTTCCTG Found at i:1542050 original size:12 final size:12 Alignment explanation

Indices: 1542033--1542065 Score: 59 Period size: 12 Copynumber: 2.8 Consensus size: 12 1542023 TGAAAAGTTT 1542033 ACGGACAGACGG 1 ACGGACAGACGG 1542045 ACGGACAGACGG 1 ACGGACAGACGG 1542057 AC-GACAGAC 1 ACGGACAGAC 1542066 AAAATGTGAT Statistics Matches: 21, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 11 7 0.33 12 14 0.67 ACGTcount: A:0.36, C:0.27, G:0.36, T:0.00 Consensus pattern (12 bp): ACGGACAGACGG Found at i:1542215 original size:12 final size:12 Alignment explanation

Indices: 1542198--1542227 Score: 51 Period size: 12 Copynumber: 2.5 Consensus size: 12 1542188 AGGGGGAAAG 1542198 TTGACCAAAATC 1 TTGACCAAAATC 1542210 TTGACCAAAATC 1 TTGACCAAAATC * 1542222 GTGACC 1 TTGACC 1542228 GTGCCCCATT Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 12 17 1.00 ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23 Consensus pattern (12 bp): TTGACCAAAATC Found at i:1547715 original size:34 final size:34 Alignment explanation

Indices: 1547677--1547745 Score: 138 Period size: 34 Copynumber: 2.0 Consensus size: 34 1547667 AAAGAGAATT 1547677 ATCTCGTTATATAGATATTTTTAACAAACAAAAA 1 ATCTCGTTATATAGATATTTTTAACAAACAAAAA 1547711 ATCTCGTTATATAGATATTTTTAACAAACAAAAA 1 ATCTCGTTATATAGATATTTTTAACAAACAAAAA 1547745 A 1 A 1547746 CAAGATATAT Statistics Matches: 35, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 34 35 1.00 ACGTcount: A:0.48, C:0.12, G:0.06, T:0.35 Consensus pattern (34 bp): ATCTCGTTATATAGATATTTTTAACAAACAAAAA Found at i:1548579 original size:40 final size:40 Alignment explanation

Indices: 1548524--1548729 Score: 331 Period size: 40 Copynumber: 5.2 Consensus size: 40 1548514 ATTCCACACT * * * 1548524 ACATGTTCACTGATATTTAACAGAGAGTACAGGTCCAATA 1 ACATGTTCATTGATATTTTACAGAGAGTATAGGTCCAATA * 1548564 ACATGTTTATTGATATTTTACAGAGAGTATAGGTCCAATA 1 ACATGTTCATTGATATTTTACAGAGAGTATAGGTCCAATA * * 1548604 ACATGTTCATTGATATTTTACAGAGAGTACAGGCCCAATA 1 ACATGTTCATTGATATTTTACAGAGAGTATAGGTCCAATA * * 1548644 CCATGTTAATTGATATTTTACAGAGAGTATAGGTCCAATA 1 ACATGTTCATTGATATTTTACAGAGAGTATAGGTCCAATA * 1548684 ACATGTTCATTGATATTTTACAAAGAGTATAGGTCCAATA 1 ACATGTTCATTGATATTTTACAGAGAGTATAGGTCCAATA 1548724 ACATGT 1 ACATGT 1548730 NACCACGTCC Statistics Matches: 152, Mismatches: 14, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 40 152 1.00 ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33 Consensus pattern (40 bp): ACATGTTCATTGATATTTTACAGAGAGTATAGGTCCAATA Done.