Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.04

Sequence: scaffold678

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: 1173314
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31

Warning! 74412 characters in sequence are not A, C, G, or T


File 4 of 4

Found at i:606013 original size:53 final size:53

Alignment explanation

Indices: 605933--606036 Score: 172 Period size: 53 Copynumber: 2.0 Consensus size: 53 605923 ATTTCAATAG * * 605933 TAGTTGCAACATACCCATACACGATGAGATATGAAATGCTTAGAGCAGATGCC 1 TAGTTGCAACATACCCACACACGATGAGATATGAAATGCATAGAGCAGATGCC * * 605986 TAGTTGCAACATACCCACACATGATGAGATATGAAATGCATATAGCAGATG 1 TAGTTGCAACATACCCACACACGATGAGATATGAAATGCATAGAGCAGATG 606037 TCTTGACTCC Statistics Matches: 47, Mismatches: 4, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 53 47 1.00 ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23 Consensus pattern (53 bp): TAGTTGCAACATACCCACACACGATGAGATATGAAATGCATAGAGCAGATGCC Found at i:610715 original size:3 final size:3 Alignment explanation

Indices: 610709--610734 Score: 52 Period size: 3 Copynumber: 8.7 Consensus size: 3 610699 CCGTCACGAT 610709 ATA ATA ATA ATA ATA ATA ATA ATA AT 1 ATA ATA ATA ATA ATA ATA ATA ATA AT 610735 TTTTATAGCG Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 23 1.00 ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35 Consensus pattern (3 bp): ATA Found at i:611297 original size:2 final size:2 Alignment explanation

Indices: 611292--611342 Score: 102 Period size: 2 Copynumber: 25.5 Consensus size: 2 611282 AACTTATCTC 611292 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 611334 AG AG AG AG A 1 AG AG AG AG A 611343 TATTGTGAAT Statistics Matches: 49, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 49 1.00 ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00 Consensus pattern (2 bp): AG Found at i:614114 original size:2 final size:2 Alignment explanation

Indices: 614107--614153 Score: 94 Period size: 2 Copynumber: 23.5 Consensus size: 2 614097 TGTAAAATGA 614107 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC 1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC 614149 TC TC T 1 TC TC T 614154 TTCTTAACCA Statistics Matches: 45, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 45 1.00 ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51 Consensus pattern (2 bp): TC Found at i:614713 original size:28 final size:28 Alignment explanation

Indices: 614672--615196 Score: 488 Period size: 28 Copynumber: 18.8 Consensus size: 28 614662 AATAAAACAC * * 614672 GGATAGCATTGTAACATAGCACAGTCAT 1 GGATATCATTGTAACATAACACAGTCAT * ** 614700 TGATATC-TCTGTAACATAACACAGAAAT 1 GGATATCAT-TGTAACATAACACAGTCAT * 614728 GGATATCATTGTAATC-TAACACAGTCAC 1 GGATATCATTGTAA-CATAACACAGTCAT * * * * * 614756 GAATATCAATGTAACATAGCTCAGTCAC 1 GGATATCATTGTAACATAACACAGTCAT * 614784 GGATATCATTGTAACATAACACAGTCAC 1 GGATATCATTGTAACATAACACAGTCAT * * * * 614812 GGATATCAATGTAACATAGCTCAGTCAC 1 GGATATCATTGTAACATAACACAGTCAT 614840 GGATATCATTGTAACATAACACAGTCAT 1 GGATATCATTGTAACATAACACAGTCAT * * * 614868 AGACATCATTGTAACATAACTCAGTCAT 1 GGATATCATTGTAACATAACACAGTCAT * 614896 GGATATCATTGTAACA-ATACTCAGTCAT 1 GGATATCATTGTAACATA-ACACAGTCAT * * ** * 614924 GGATATAACTGTAACATAATTCAGACAT 1 GGATATCATTGTAACATAACACAGTCAT * * * 614952 GGATATCATTGTAACATAGCTCAATC-T 1 GGATATCATTGTAACATAACACAGTCAT ** * * * 614979 CTAATATAACTGTAACATAACACAGTCAC 1 -GGATATCATTGTAACATAACACAGTCAT * ** * 615008 GAATATCATTGTAACATAACTTAGTCAC 1 GGATATCATTGTAACATAACACAGTCAT ** * * 615036 CAATATCATTGTAACATAAAACAGTCAC 1 GGATATCATTGTAACATAACACAGTCAT ** * * * 615064 CAATATCATTGTTACATAACTCAGTCAC 1 GGATATCATTGTAACATAACACAGTCAT * * 615092 GGATATTATTGTAACATAACTCAGTCA- 1 GGATATCATTGTAACATAACACAGTCAT * * 615119 CGATTATCATTATAACATAACACAGTCAT 1 GGA-TATCATTGTAACATAACACAGTCAT 615148 GGATATC-TCTGTAACATAACACAGTCAT 1 GGATATCAT-TGTAACATAACACAGTCAT 615176 GGATATC-TCTGTAACATAACA 1 GGATATCAT-TGTAACATAACA 615197 AACAAATCAT Statistics Matches: 417, Mismatches: 69, Indels: 22 0.82 0.14 0.04 Matches are distributed among these distances: 27 7 0.02 28 405 0.97 29 5 0.01 ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29 Consensus pattern (28 bp): GGATATCATTGTAACATAACACAGTCAT Found at i:615280 original size:28 final size:28 Alignment explanation

Indices: 615240--615369 Score: 130 Period size: 28 Copynumber: 4.8 Consensus size: 28 615230 ATCACACAAT * * * 615240 GGATATCATTGTAACCTTATACAGTCAC 1 GGATATCATTGTAACATAACACAGTCAC 615268 GGATATCATTGTAACATAACACAGTCAC 1 GGATATCATTGTAACATAACACAGTCAC 615296 GGATATCAATTG-AACAT-A-ACA--CA- 1 GGATATC-ATTGTAACATAACACAGTCAC * * * 615319 GGATATCATTGTAAAATAACACATTCAT 1 GGATATCATTGTAACATAACACAGTCAC * 615347 GGATAGT-ATTGTTACATAACACA 1 GGATA-TCATTGTAACATAACACA 615370 TTCATGTAAA Statistics Matches: 88, Mismatches: 6, Indels: 16 0.80 0.05 0.15 Matches are distributed among these distances: 22 4 0.05 23 11 0.12 24 3 0.03 25 3 0.03 26 3 0.03 27 3 0.03 28 56 0.64 29 5 0.06 ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28 Consensus pattern (28 bp): GGATATCATTGTAACATAACACAGTCAC Found at i:615322 original size:23 final size:23 Alignment explanation

Indices: 615268--615341 Score: 69 Period size: 23 Copynumber: 3.0 Consensus size: 23 615258 ATACAGTCAC * 615268 GGATATCATTGTAACATAACACAGTCA 1 GGATATCATTGTAAAAT-A-ACA--CA * 615295 CGGATATCAATTG-AACATAACACA 1 -GGATATC-ATTGTAAAATAACACA 615319 GGATATCATTGTAAAATAACACA 1 GGATATCATTGTAAAATAACACA 615342 TTCATGGATA Statistics Matches: 43, Mismatches: 1, Indels: 9 0.81 0.02 0.17 Matches are distributed among these distances: 22 4 0.09 23 17 0.40 24 2 0.05 26 3 0.07 27 1 0.02 28 12 0.28 29 4 0.09 ACGTcount: A:0.45, C:0.18, G:0.14, T:0.24 Consensus pattern (23 bp): GGATATCATTGTAAAATAACACA Found at i:615364 original size:51 final size:50 Alignment explanation

Indices: 615268--615369 Score: 134 Period size: 51 Copynumber: 2.0 Consensus size: 50 615258 ATACAGTCAC * 615268 GGATATCATTGTAACATAACACAGTCACGGATATCAATTGAACATAACACA 1 GGATATCATTGTAAAATAACACAGTCACGGATAT-AATTGAACATAACACA * * * 615319 GGATATCATTGTAAAATAACACATTCATGGATAGT-ATTGTTACATAACACA 1 GGATATCATTGTAAAATAACACAGTCACGGATA-TAATTG-AACATAACACA 615370 TTCATGTAAA Statistics Matches: 45, Mismatches: 4, Indels: 4 0.85 0.08 0.08 Matches are distributed among these distances: 50 4 0.09 51 40 0.89 52 1 0.02 ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27 Consensus pattern (50 bp): GGATATCATTGTAAAATAACACAGTCACGGATATAATTGAACATAACACA Found at i:622053 original size:2 final size:2 Alignment explanation

Indices: 622046--622107 Score: 115 Period size: 2 Copynumber: 31.0 Consensus size: 2 622036 AACGTAGATT * 622046 TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC 1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC 622088 TC TC TC TC TC TC TC TC TC TC 1 TC TC TC TC TC TC TC TC TC TC 622108 GTTTATAAAA Statistics Matches: 58, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 2 58 1.00 ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52 Consensus pattern (2 bp): TC Found at i:622661 original size:2 final size:2 Alignment explanation

Indices: 622654--622732 Score: 158 Period size: 2 Copynumber: 39.5 Consensus size: 2 622644 GGAAAAACAA 622654 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC 1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC 622696 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A 1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A 622733 AACTTAAACC Statistics Matches: 77, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 77 1.00 ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00 Consensus pattern (2 bp): AC Found at i:639864 original size:14 final size:14 Alignment explanation

Indices: 639847--639876 Score: 60 Period size: 14 Copynumber: 2.1 Consensus size: 14 639837 TATTAGTAAT 639847 ATAGTAATGTAGCA 1 ATAGTAATGTAGCA 639861 ATAGTAATGTAGCA 1 ATAGTAATGTAGCA 639875 AT 1 AT 639877 TTACCATCAT Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 16 1.00 ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30 Consensus pattern (14 bp): ATAGTAATGTAGCA Found at i:642636 original size:2 final size:2 Alignment explanation

Indices: 642629--642663 Score: 61 Period size: 2 Copynumber: 17.5 Consensus size: 2 642619 ATCTTACCTA * 642629 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AT AG AG A 1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A 642664 AAAAAAATAA Statistics Matches: 31, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 2 31 1.00 ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03 Consensus pattern (2 bp): AG Found at i:644034 original size:14 final size:14 Alignment explanation

Indices: 644017--644046 Score: 60 Period size: 14 Copynumber: 2.1 Consensus size: 14 644007 TATTAGTAAT 644017 ATAGTAATGTAGCA 1 ATAGTAATGTAGCA 644031 ATAGTAATGTAGCA 1 ATAGTAATGTAGCA 644045 AT 1 AT 644047 TTACCATCAT Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 16 1.00 ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30 Consensus pattern (14 bp): ATAGTAATGTAGCA Found at i:646806 original size:2 final size:2 Alignment explanation

Indices: 646799--646844 Score: 92 Period size: 2 Copynumber: 23.0 Consensus size: 2 646789 ATCTTACCTA 646799 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 646841 AG AG 1 AG AG 646845 TTTACCCACT Statistics Matches: 44, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 44 1.00 ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00 Consensus pattern (2 bp): AG Found at i:647718 original size:138 final size:138 Alignment explanation

Indices: 647470--647749 Score: 542 Period size: 138 Copynumber: 2.0 Consensus size: 138 647460 TGTATCATTT * 647470 AAAATTGATCATCTTGAATATGTTCTGAAACAATCCATTGACGTCCTATTGCCAATTATTACAAC 1 AAAATTGATCATCTTGAATATGTTCTGAAACAATCCATTGACGTCATATTGCCAATTATTACAAC 647535 AATTATCAACAAGTCCCTTTCAGAATCATCAGTGCCATCCTCTTTCAAAGAAGCTGTAGTCCGCC 66 AATTATCAACAAGTCCCTTTCAGAATCATCAGTGCCATCCTCTTTCAAAGAAGCTGTAGTCCGCC 647600 CGTTGCTA 131 CGTTGCTA 647608 AAAATTGATCATCTTGAATATGTTCTGAAACAATCCATTGACGTCATATTGCCAATTATTACAAC 1 AAAATTGATCATCTTGAATATGTTCTGAAACAATCCATTGACGTCATATTGCCAATTATTACAAC * 647673 AATTATCAACAAGTCCCTTTTAGAATCATCAGTGCCATCCTCTTTCAAAGAAGCTGTAGTCCGCC 66 AATTATCAACAAGTCCCTTTCAGAATCATCAGTGCCATCCTCTTTCAAAGAAGCTGTAGTCCGCC 647738 CGTTGCTA 131 CGTTGCTA 647746 AAAA 1 AAAA 647750 AGCAAGGACT Statistics Matches: 140, Mismatches: 2, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 138 140 1.00 ACGTcount: A:0.33, C:0.24, G:0.13, T:0.31 Consensus pattern (138 bp): AAAATTGATCATCTTGAATATGTTCTGAAACAATCCATTGACGTCATATTGCCAATTATTACAAC AATTATCAACAAGTCCCTTTCAGAATCATCAGTGCCATCCTCTTTCAAAGAAGCTGTAGTCCGCC CGTTGCTA Found at i:649323 original size:3 final size:3 Alignment explanation

Indices: 649315--649349 Score: 70 Period size: 3 Copynumber: 11.7 Consensus size: 3 649305 TATAAATGTT 649315 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT 1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT 649350 GTTTATTCAT Statistics Matches: 32, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 32 1.00 ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34 Consensus pattern (3 bp): ATA Found at i:656506 original size:16 final size:16 Alignment explanation

Indices: 656485--656515 Score: 62 Period size: 16 Copynumber: 1.9 Consensus size: 16 656475 TAGATGTGAA 656485 AATTTTCTTACCTGGT 1 AATTTTCTTACCTGGT 656501 AATTTTCTTACCTGG 1 AATTTTCTTACCTGG 656516 AAATATTCGC Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 15 1.00 ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48 Consensus pattern (16 bp): AATTTTCTTACCTGGT Found at i:656692 original size:2 final size:2 Alignment explanation

Indices: 656685--656718 Score: 68 Period size: 2 Copynumber: 17.0 Consensus size: 2 656675 CCGGCAGCTA 656685 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 656719 TTTAACCCCT 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:0.50, C:0.00, G:0.50, T:0.00 Consensus pattern (2 bp): AG Found at i:658769 original size:18 final size:18 Alignment explanation

Indices: 658746--658793 Score: 62 Period size: 18 Copynumber: 2.7 Consensus size: 18 658736 GGGACGAATT * 658746 ACAGTTCA-CACACATATC 1 ACAGTTCACCA-ACAGATC 658764 ACAGTTCACCAACAGATC 1 ACAGTTCACCAACAGATC * 658782 ACAGTTCTCCAA 1 ACAGTTCACCAA 658794 AAGTTAAAGC Statistics Matches: 27, Mismatches: 2, Indels: 2 0.87 0.06 0.06 Matches are distributed among these distances: 18 25 0.93 19 2 0.07 ACGTcount: A:0.38, C:0.33, G:0.08, T:0.21 Consensus pattern (18 bp): ACAGTTCACCAACAGATC Found at i:666460 original size:28 final size:28 Alignment explanation

Indices: 666420--666918 Score: 800 Period size: 28 Copynumber: 17.8 Consensus size: 28 666410 CAATTCGCTT 666420 TGTCTACCGGGATGTTACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * 666448 TGTCTACCAGGATGTTACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * * 666476 TGTCTATCGGGATGTCACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA 666504 TGTCTACCGGGATGTTACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA 666532 TGTCTACCGGGATGTTACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * 666560 TGTCTACCGGGATGTTACTGGCAATAAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * * * 666588 TGTCTACCGGGCTGTTACAGGCAATGCA 1 TGTCTACCGGGATGTTACTGGCAATGAA * * * 666616 TGTCTACCGGGCTGTTACAGGCAATGAC 1 TGTCTACCGGGATGTTACTGGCAATGAA * * 666644 TGTCTACCGGGATATCACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * 666672 TGTTTACCGGGATGTTACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA 666700 TGTCTACCGGGATGTTACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * 666728 TGTCTACCGGGATGTCACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * 666756 TGTCTACCGGGATGTTACTGCCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * 666784 TGTCTACCGGGATGTCACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * * 666812 TGTCTATCGGGATGTTACAGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * 666840 TGTCTACCGGGATGTCACTGGCAATGAA 1 TGTCTACCGGGATGTTACTGGCAATGAA * * * 666868 TGTCTATCGGGATGTTACAGGCAATGCA 1 TGTCTACCGGGATGTTACTGGCAATGAA 666896 TGTCTACCGGGATGTTACTGGCA 1 TGTCTACCGGGATGTTACTGGCA 666919 CTACGTGTAC Statistics Matches: 432, Mismatches: 39, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 28 432 1.00 ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28 Consensus pattern (28 bp): TGTCTACCGGGATGTTACTGGCAATGAA Found at i:667978 original size:35 final size:35 Alignment explanation

Indices: 667896--667978 Score: 94 Period size: 35 Copynumber: 2.3 Consensus size: 35 667886 TCCGTGATCT * * * ** 667896 ATGATCATCCTAGACCAAAACAAACAAGTTAGATCC 1 ATGATCATCTTATA-CAAAACAAACAAGGTAGATAA * 667932 ATGATCTTCTTATACAAAACAAACAAGGTAGATAA 1 ATGATCATCTTATACAAAACAAACAAGGTAGATAA * 667967 ATGGTCATCTTA 1 ATGATCATCTTA 667979 AATTATTACA Statistics Matches: 39, Mismatches: 8, Indels: 1 0.81 0.17 0.02 Matches are distributed among these distances: 35 28 0.72 36 11 0.28 ACGTcount: A:0.43, C:0.19, G:0.12, T:0.25 Consensus pattern (35 bp): ATGATCATCTTATACAAAACAAACAAGGTAGATAA Found at i:668002 original size:38 final size:37 Alignment explanation

Indices: 667950--668182 Score: 171 Period size: 38 Copynumber: 6.2 Consensus size: 37 667940 CTTATACAAA ** 667950 ACAAACAAGG-TAGATAAATGGTCATCTTAAATTATT 1 ACAAACAAGGTTAGATCTATGGTCATCTTAAATTATT 667986 ACAAACAAGGTATAGATCTATGGTCATC-T-AATCCTATT 1 ACAAACAAGGT-TAGATCTATGGTCATCTTAAAT--TATT * * * * * 668024 A-TAACATGG-TAGATTTATTGTCATCTTAAAATATT 1 ACAAACAAGGTTAGATCTATGGTCATCTTAAATTATT * * 668059 ----ACAATG-TAGATCTATGGTCATCTTAATTTATT 1 ACAAACAAGGTTAGATCTATGGTCATCTTAAATTATT * * 668091 ACAAACAATGTATAGATCTATGGTCATCTTAATTTATT 1 ACAAACAAGGT-TAGATCTATGGTCATCTTAAATTATT * * 668129 ACAAACAATGTACATATTGTAGATCTATGGTCATCTTAAAGTATT 1 ACAAACAA-G------GT-TAGATCTATGGTCATCTTAAATTATT 668174 ACAAACAAG 1 ACAAACAAG 668183 TTTGATTCAT Statistics Matches: 160, Mismatches: 18, Indels: 30 0.77 0.09 0.14 Matches are distributed among these distances: 32 26 0.16 35 18 0.11 36 20 0.12 37 9 0.06 38 53 0.33 44 1 0.01 45 33 0.21 ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36 Consensus pattern (37 bp): ACAAACAAGGTTAGATCTATGGTCATCTTAAATTATT Found at i:683922 original size:44 final size:45 Alignment explanation

Indices: 683845--683931 Score: 131 Period size: 44 Copynumber: 2.0 Consensus size: 45 683835 ATATTAAAGT * * 683845 AGTAAACGAGAAATACTGAAAAGGAGGGGTTTT-AAAAGTAAAAC 1 AGTAAACGAGAAATACTGAAAAGAAGGAGTTTTAAAAAGTAAAAC * * 683889 AGTAAACGAGAAATACTGAAAAGAATGATTTTTAAAAAGTAAA 1 AGTAAACGAGAAATACTGAAAAGAAGGAGTTTTAAAAAGTAAA 683932 GTACTGAAAA Statistics Matches: 38, Mismatches: 4, Indels: 1 0.88 0.09 0.02 Matches are distributed among these distances: 44 29 0.76 45 9 0.24 ACGTcount: A:0.53, C:0.06, G:0.21, T:0.21 Consensus pattern (45 bp): AGTAAACGAGAAATACTGAAAAGAAGGAGTTTTAAAAAGTAAAAC Found at i:686156 original size:35 final size:35 Alignment explanation

Indices: 686110--686319 Score: 402 Period size: 35 Copynumber: 6.0 Consensus size: 35 686100 GGACTTTGAT * 686110 GGACGCTCCTTGATGAACCACTGCAATAATTTATA 1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA 686145 GGACGTTCCTTGATGAACCACTGCAATAATTTATA 1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA 686180 GGACGTTCCTTGATGAACCACTGCAATAATTTATA 1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA 686215 GGACGTTCCTTGATGAACCACTGCAATAATTTATA 1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA * 686250 GGACGTTCCTTGATGAACCATTGCAATAATTTATA 1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA 686285 GGACGTTCCTTGATGAACCACTGCAATAATTTATA 1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA 686320 CATGGGCTTT Statistics Matches: 172, Mismatches: 3, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 35 172 1.00 ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31 Consensus pattern (35 bp): GGACGTTCCTTGATGAACCACTGCAATAATTTATA Found at i:694797 original size:15 final size:15 Alignment explanation

Indices: 694777--694818 Score: 66 Period size: 15 Copynumber: 2.8 Consensus size: 15 694767 TACCGCTCCA * 694777 AATTAAGTACTCATT 1 AATTAAGTACTCACT * 694792 AATTAAGTACTCGCT 1 AATTAAGTACTCACT 694807 AATTAAGTACTC 1 AATTAAGTACTC 694819 CCTGTCAAAC Statistics Matches: 25, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 15 25 1.00 ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36 Consensus pattern (15 bp): AATTAAGTACTCACT Found at i:694989 original size:2 final size:2 Alignment explanation

Indices: 694982--695016 Score: 70 Period size: 2 Copynumber: 17.5 Consensus size: 2 694972 TTGCTAAATA 694982 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A 1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A 695017 TTTTCTGATA Statistics Matches: 33, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 33 1.00 ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00 Consensus pattern (2 bp): AG Found at i:696881 original size:77 final size:77 Alignment explanation

Indices: 696692--698772 Score: 3653 Period size: 77 Copynumber: 26.9 Consensus size: 77 696682 ATAAAATTTT * * * * * 696692 TGTTACACGTTACAGGTTTGGTGGGGGCTCCTACCGTC-CATCTGGTCCTATGTCTGATTTACGA 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCAC-CCTGATCCTATGTCTGATTAACGA 696756 GACGTTATAACTA 65 GACGTTATAACTA 696769 TTTGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACG 1 --TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACG 696834 AGACGTTATAACTA 64 AGACGTTATAACTA * 696848 TGTTACACGTTACAGGTTTGGTGGGGGCCCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG * * 696913 ACTTTATAACTT 66 ACGTTATAACTA * 696925 TGTTACACGTTACAGGTCTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 696990 ACGTTATAACTA 66 ACGTTATAACTA * * 697002 TGTTACACGTTACAGGTTTGGTGGGGACCCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 697067 ACGTTATAACTA 66 ACGTTATAACTA * * * 697079 TGTTATACGTTACAGGTTTGATGGGGGCTCTTACTGTCACCCTGATCCTTTGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG * * 697144 ATGTTATAACTTTT 66 ACGTTATAAC--TA 697158 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 697223 ACGTTATAACTA 66 ACGTTATAACTA 697235 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG * 697300 ACGTTATAACTTTT 66 ACGTTATAAC--TA * 697314 TGTTATACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG * 697379 ACGTTATAACTTTT 66 ACGTTATAAC--TA * * 697393 TGTTACACGTTACAGGTTTGGTGGGGGCCCTTACTGTTACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 697458 ACGTTATAACTA 66 ACGTTATAACTA * * * 697470 TGTTACACGTTACATGTCTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAA 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 697535 ACGTTATAACTA 66 ACGTTATAACTA * * 697547 TGTTACACGTTACAGGTTTGGTGGGAGCCCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 697612 ACGTTATAACTA 66 ACGTTATAACTA * 697624 TGTTACACGTTACAGGTTTGGTGGGGGCCCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 697689 ACGTTATAACTA 66 ACGTTATAACTA 697701 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 697766 ACGTTATAACTA 66 ACGTTATAACTA * 697778 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAA 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 697843 ACGTTATAACTA 66 ACGTTATAACTA * 697855 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAA 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 697920 ACGTTATAACTA 66 ACGTTATAACTA 697932 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 697997 ACGTTATAACTA 66 ACGTTATAACTA 698009 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 698074 ACGTTATAACTA 66 ACGTTATAACTA * 698086 TGTTACACGTTACAGGTTTGGTGGGGGCCCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 698151 ACGTTATAACTA 66 ACGTTATAACTA * 698163 TGTTACACGTTACAGGTTTGG-GGAGGGCCCTTACTGTCACCCTGATCCTATGTCTGATTAACGA 1 TGTTACACGTTACAGGTTTGGTGG-GGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGA 698227 GACGTTATAACTA 65 GACGTTATAACTA * 698240 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTAATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG * 698305 ACGTTATAAGTA 66 ACGTTATAACTA * 698317 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTAATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 698382 ACGTTATAACTA 66 ACGTTATAACTA * * 698394 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACCGTTACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG * 698459 ACGTTTTAACTA 66 ACGTTATAACTA 698471 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 698536 ACGTTATAACTA 66 ACGTTATAACTA * 698548 TGTTACACGTTACAGGTTTGGTGGGGGTTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG * 698613 ACGTTTTAACTA 66 ACGTTATAACTA * * 698625 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACCGTCACCCTGATCCTTTGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG * 698690 ACTTTATAACTA 66 ACGTTATAACTA * * * 698702 TGTTACACGTTACAGGTTTGGTGGGGGCCCTTTCTGTCACCCTGATCCTTTGTCTGATTAACGAG 1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG 698767 ACGTTA 66 ACGTTA 698773 CACGCCTTCA Statistics Matches: 1925, Mismatches: 70, Indels: 16 0.96 0.03 0.01 Matches are distributed among these distances: 76 2 0.00 77 1627 0.85 78 2 0.00 79 293 0.15 80 1 0.00 ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34 Consensus pattern (77 bp): TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG ACGTTATAACTA Found at i:703397 original size:2 final size:2 Alignment explanation

Indices: 703390--703446 Score: 114 Period size: 2 Copynumber: 28.5 Consensus size: 2 703380 ACCCAGGTAA 703390 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 703432 AG AG AG AG AG AG AG A 1 AG AG AG AG AG AG AG A 703447 NATTGTTAAA Statistics Matches: 55, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 55 1.00 ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00 Consensus pattern (2 bp): AG Found at i:703928 original size:16 final size:16 Alignment explanation

Indices: 703907--703942 Score: 72 Period size: 16 Copynumber: 2.2 Consensus size: 16 703897 CGTGGAGGAC 703907 AAGAAAGACCCAGGTA 1 AAGAAAGACCCAGGTA 703923 AAGAAAGACCCAGGTA 1 AAGAAAGACCCAGGTA 703939 AAGA 1 AAGA 703943 GAGAGAGAGA Statistics Matches: 20, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 20 1.00 ACGTcount: A:0.53, C:0.17, G:0.25, T:0.06 Consensus pattern (16 bp): AAGAAAGACCCAGGTA Found at i:703947 original size:2 final size:2 Alignment explanation

Indices: 703940--703998 Score: 118 Period size: 2 Copynumber: 29.5 Consensus size: 2 703930 ACCCAGGTAA 703940 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 703982 AG AG AG AG AG AG AG AG A 1 AG AG AG AG AG AG AG AG A 703999 TATTTTGTAC Statistics Matches: 57, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 57 1.00 ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00 Consensus pattern (2 bp): AG Found at i:705401 original size:15 final size:15 Alignment explanation

Indices: 705381--705432 Score: 86 Period size: 15 Copynumber: 3.5 Consensus size: 15 705371 GAACATCCGG 705381 CGGAAGTAGAGGAAA 1 CGGAAGTAGAGGAAA 705396 CGGAAGTAGAGGAAA 1 CGGAAGTAGAGGAAA * 705411 CGAAAGTAGAGGAAA 1 CGGAAGTAGAGGAAA * 705426 TGGAAGT 1 CGGAAGT 705433 GGAAAACGAA Statistics Matches: 34, Mismatches: 3, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 15 34 1.00 ACGTcount: A:0.46, C:0.06, G:0.38, T:0.10 Consensus pattern (15 bp): CGGAAGTAGAGGAAA Found at i:708084 original size:21 final size:21 Alignment explanation

Indices: 708060--708338 Score: 355 Period size: 21 Copynumber: 13.3 Consensus size: 21 708050 AATAGGATGG * 708060 TACTTTAACATTACATGCTGA 1 TACTTCAACATTACATGCTGA * 708081 TACTTCAACATTACATGATGGA 1 TACTTCAACATTACATGCT-GA * * * 708103 -ACTTCATCATTACATGATGG 1 TACTTCAACATTACATGCTGA 708123 TACTTCAACATTACATGCTGA 1 TACTTCAACATTACATGCTGA 708144 TACTTCAACATTACATGCTGA 1 TACTTCAACATTACATGCTGA * 708165 TACTTCAGCATTACATGCTGA 1 TACTTCAACATTACATGCTGA * * 708186 TACTTCAACATTACGTGATGA 1 TACTTCAACATTACATGCTGA * * 708207 TACTTCAACATTACGTGATGA 1 TACTTCAACATTACATGCTGA * * 708228 TACTTCAACATTACGTGATG- 1 TACTTCAACATTACATGCTGA * * * 708248 TACTTCAGCATTACATGATGG 1 TACTTCAACATTACATGCTGA * * 708269 TACTTTAACATTTCATGCTGA 1 TACTTCAACATTACATGCTGA * * 708290 CACCTCAACATTACATGCTGA 1 TACTTCAACATTACATGCTGA 708311 TACTTCAACATTACATGCTGA 1 TACTTCAACATTACATGCTGA * 708332 TATTTCA 1 TACTTCA 708339 TAAAATGATG Statistics Matches: 230, Mismatches: 25, Indels: 6 0.88 0.10 0.02 Matches are distributed among these distances: 20 19 0.08 21 209 0.91 22 2 0.01 ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34 Consensus pattern (21 bp): TACTTCAACATTACATGCTGA Found at i:708834 original size:12 final size:12 Alignment explanation

Indices: 708819--708849 Score: 53 Period size: 12 Copynumber: 2.6 Consensus size: 12 708809 TCGTAACTCG 708819 AAACGTAGACGT 1 AAACGTAGACGT 708831 AAACGTAGACGT 1 AAACGTAGACGT * 708843 AGACGTA 1 AAACGTA 708850 ACTTGGGTGC Statistics Matches: 18, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 12 18 1.00 ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16 Consensus pattern (12 bp): AAACGTAGACGT Found at i:712167 original size:21 final size:21 Alignment explanation

Indices: 712142--712231 Score: 117 Period size: 21 Copynumber: 4.3 Consensus size: 21 712132 ATATAAAGAA * * * 712142 GAAGTATCAGCAAATAATGTT 1 GAAGTACCATCAAGTAATGTT * * 712163 TAAGTACCATCATGTAATGTT 1 GAAGTACCATCAAGTAATGTT * 712184 GAAGTACCATCATGTAATGTT 1 GAAGTACCATCAAGTAATGTT 712205 GAAGTACCATCAAGTAATGTT 1 GAAGTACCATCAAGTAATGTT * 712226 AAAGTA 1 GAAGTA 712232 TGAGCATTTT Statistics Matches: 61, Mismatches: 8, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 21 61 1.00 ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31 Consensus pattern (21 bp): GAAGTACCATCAAGTAATGTT Found at i:712188 original size:42 final size:42 Alignment explanation

Indices: 712123--712237 Score: 122 Period size: 42 Copynumber: 2.7 Consensus size: 42 712113 TATTGAAGAC * * ** * 712123 AGTACCATCATATAAAGAAGAAGTATCAGCAAATAATGTTTA 1 AGTACCATCATGTAATGTTGAAGTATCAGCAAATAATGTTGA * * ** 712165 AGTACCATCATGTAATGTTGAAGTACCATCATGTAATGTTGA 1 AGTACCATCATGTAATGTTGAAGTATCAGCAAATAATGTTGA * * * 712207 AGTACCATCAAGTAATGTTAAAGTATGAGCA 1 AGTACCATCATGTAATGTTGAAGTATCAGCA 712238 TTTTCAGTTT Statistics Matches: 59, Mismatches: 14, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 42 59 1.00 ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29 Consensus pattern (42 bp): AGTACCATCATGTAATGTTGAAGTATCAGCAAATAATGTTGA Found at i:712224 original size:26 final size:21 Alignment explanation

Indices: 712156--712231 Score: 125 Period size: 21 Copynumber: 3.6 Consensus size: 21 712146 TATCAGCAAA * 712156 TAATGTTTAAGTACCATCATG 1 TAATGTTGAAGTACCATCATG 712177 TAATGTTGAAGTACCATCATG 1 TAATGTTGAAGTACCATCATG * 712198 TAATGTTGAAGTACCATCAAG 1 TAATGTTGAAGTACCATCATG * 712219 TAATGTTAAAGTA 1 TAATGTTGAAGTA 712232 TGAGCATTTT Statistics Matches: 52, Mismatches: 3, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 21 52 1.00 ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34 Consensus pattern (21 bp): TAATGTTGAAGTACCATCATG Found at i:714128 original size:12 final size:12 Alignment explanation

Indices: 714104--714164 Score: 70 Period size: 12 Copynumber: 4.8 Consensus size: 12 714094 ATCACATTTT 714104 GTCTGTC-GTCC 1 GTCTGTCTGTCC 714115 GTCTGTCTGTCC 1 GTCTGTCTGTCC 714127 GTCTGTCCGTCTGTCC 1 GTC--T--GTCTGTCC * 714143 GTCCGTCTGTCC 1 GTCTGTCTGTCC 714155 GTCTGTCTGT 1 GTCTGTCTGT 714165 AAACTTTTCA Statistics Matches: 43, Mismatches: 2, Indels: 9 0.80 0.04 0.17 Matches are distributed among these distances: 11 7 0.16 12 24 0.56 14 1 0.02 16 11 0.26 ACGTcount: A:0.00, C:0.34, G:0.26, T:0.39 Consensus pattern (12 bp): GTCTGTCTGTCC Found at i:714136 original size:20 final size:20 Alignment explanation

Indices: 714111--714164 Score: 99 Period size: 20 Copynumber: 2.7 Consensus size: 20 714101 TTTGTCTGTC 714111 GTCCGTCTGTCTGTCCGTCT 1 GTCCGTCTGTCTGTCCGTCT * 714131 GTCCGTCTGTCCGTCCGTCT 1 GTCCGTCTGTCTGTCCGTCT 714151 GTCCGTCTGTCTGT 1 GTCCGTCTGTCTGT 714165 AAACTTTTCA Statistics Matches: 32, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 20 32 1.00 ACGTcount: A:0.00, C:0.35, G:0.26, T:0.39 Consensus pattern (20 bp): GTCCGTCTGTCTGTCCGTCT Found at i:714162 original size:4 final size:4 Alignment explanation

Indices: 714103--714164 Score: 63 Period size: 4 Copynumber: 15.8 Consensus size: 4 714093 GATCACATTT * * * * * 714103 TGTC TGTC -GTC CGTC TGTC TGTC CGTC TGTC CGTC TGTC CGTC CGTC 1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC * 714150 TGTC CGTC TGTC TGT 1 TGTC TGTC TGTC TGT 714165 AAACTTTTCA Statistics Matches: 48, Mismatches: 9, Indels: 2 0.81 0.15 0.03 Matches are distributed among these distances: 3 3 0.06 4 45 0.94 ACGTcount: A:0.00, C:0.34, G:0.26, T:0.40 Consensus pattern (4 bp): TGTC Found at i:714608 original size:166 final size:164 Alignment explanation

Indices: 714334--715343 Score: 1388 Period size: 166 Copynumber: 6.2 Consensus size: 164 714324 AGAAATTTTC * * * * 714334 AAAAATCTTCTTCTCATG-AAC-CATAAGACCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCA 1 AAAAATCTTCTTCTCA-GAAACTAATCAG-CCAGGAAAGCTGACACTTGTGTGAAAGCATCATCA * * * 714397 GGTAGTGTAAATACTAAA-TTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACATTGAGG 64 GGTAGTGTAGATTC-AAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGG-GCCACAATG-GG * 714461 GGTCGAATTTTAACATATGAATATATAGAGTATATCTTT 126 GGTCGAATTTTAACATATGAATATATAGAGTAAATCTTT * * * 714500 AAAAATCTTCTTCTCAGAAACTAATCGGCCATGAAAGCTGACACTTGTATGAAAGCATCATCAGG 1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG * * * 714565 TAGTGTAGATTGAAAATTGTGAAAATCATGATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTC 66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGG-TGGGCCACAATGGGGGTC * * * 714630 GAAGTTTT-ACAAAGGAATATATAGAGTAAATCTTG 130 GAA-TTTTAACATATGAATATATAGAGTAAATCTTT * * 714665 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATTATCAGG 1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG 714730 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGGGGT 66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGG-GCCACAAT-GGGGGT * 714795 CGAATTTTAACATATGAATATATAGAGTATATCTTT 129 CGAATTTTAACATATGAATATATAGAGTAAATCTTT * * 714831 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTAGTGTGAAAGCATCATCAGG 1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG 714896 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTC 66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGG-TGGGCCACAATGGGGGTC * * * 714961 GAATTATAATATATGAATATATAGAGTAAATCTTG 130 GAATTTTAACATATGAATATATAGAGTAAATCTTT * * * 714996 AAAAATCTTCTTCTCAGAAAATAATCGGCCAGGAAAGCTGACACTTGTGTGAAAGCATCCTCAGG 1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG * * 715061 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCAGGGGGTAGGGTGGGGCCAAAATGGGGGGT 66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGT-GGGCCACAAT-GGGGGT * * 715126 CGAAATTTT-ACATAGGAATATATAGAATAAATCTTT 129 CG-AATTTTAACATATGAATATATAGAGTAAATCTTT * * * * 715162 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAACTGAAACTTGTGTGGAAGCATCCTCAGG 1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG * * * ** 715227 TAGTGTAGACTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGT-GG------T----GTTA 66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGGCCACAATGGGGGTCG * 715281 AAGTTTT-ACATAGGAATATATAGAGTAAATCTTT 131 AA-TTTTAACATATGAATATATAGAGTAAATCTTT * 715315 AAGAATCTTCTTCTCAGAAACTAATCAGC 1 AAAAATCTTCTTCTCAGAAACTAATCAGC 715344 AAGATGATTC Statistics Matches: 771, Mismatches: 60, Indels: 39 0.89 0.07 0.04 Matches are distributed among these distances: 152 2 0.00 153 60 0.08 158 1 0.00 164 6 0.01 165 303 0.39 166 385 0.50 167 14 0.02 ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27 Consensus pattern (164 bp): AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGGCCACAATGGGGGTCG AATTTTAACATATGAATATATAGAGTAAATCTTT Found at i:714936 original size:331 final size:331 Alignment explanation

Indices: 714334--715343 Score: 1507 Period size: 331 Copynumber: 3.1 Consensus size: 331 714324 AGAAATTTTC * * 714334 AAAAATCTTCTTCTCATG-AAC-CATAAGACCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCA 1 AAAAATCTTCTTCTCA-GAAACTAATCAG-CCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCA * * * * 714397 GGTAGTGTAAATACTAAA-TTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACATTGAGG 64 GGTAGTGTAGATTC-AAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGG 714461 GGTCGAATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATC 128 GGTCGAATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATC * * * * * * 714526 GGCCATGAAAGCTGACACTTGTATGAAAGCATCATCAGGTAGTGTAGATTGAAAATTGTGAAAAT 193 AGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCATCAGGTAGTGTAGATTCAAAGTTGTGAAAAT 714591 CATGATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAAGTTTTACAAAGGAATATATAGAG 258 CATGATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAAGTTTTACAAAGGAATATATAGAG 714656 TAAATCTTG 323 TAAATCTTG ** 714665 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATTATCAGG 1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCAGG 714730 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGGGGT 66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGGGGT 714795 CGAATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC 131 CGAATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC * 714860 CAGGAAAGCTGAAACTAGTGTGAAAGCATCATCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT 196 CAGGAAAGCTGAAACTTGTGTGAAAGCATCATCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT * * * 714925 GACCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAA-TTATA-ATATATGAATATATAGAGT 261 GATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAAGTTTTACA-A-AGGAATATATAGAGT 714988 AAATCTTG 324 AAATCTTG * * * 714996 AAAAATCTTCTTCTCAGAAAATAATCGGCCAGGAAAGCTGACACTTGTGTGAAAGCATCCTCAGG 1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCAGG * * * 715061 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCAGGGGGTAGGGTGGGGCCAAAATGGGGGGT 66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGGGGT * * * 715126 CGAAATTTT-ACATAGGAATATATAGAATAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG 131 CG-AATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG * * * * 715190 CCAGGAAAACTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGTGAAAATCA 195 CCAGGAAAGCTGAAACTTGTGTGAAAGCATCATCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA * ** * 715255 TGATCCCTGGGGGTAGGG-T-GG------T----GTTAAAGTTTTACATAGGAATATATAGAGTA 260 TGATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAAGTTTTACAAAGGAATATATAGAGTA * 715308 AATCTTT 325 AATCTTG * 715315 AAGAATCTTCTTCTCAGAAACTAATCAGC 1 AAAAATCTTCTTCTCAGAAACTAATCAGC 715344 AAGATGATTC Statistics Matches: 626, Mismatches: 45, Indels: 28 0.90 0.06 0.04 Matches are distributed among these distances: 319 51 0.08 320 4 0.01 321 1 0.00 323 1 0.00 329 3 0.00 330 10 0.02 331 546 0.87 332 10 0.02 ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27 Consensus pattern (331 bp): AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCAGG TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGGGGT CGAATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC CAGGAAAGCTGAAACTTGTGTGAAAGCATCATCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT GATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAAGTTTTACAAAGGAATATATAGAGTAA ATCTTG Found at i:723939 original size:16 final size:16 Alignment explanation

Indices: 723918--723948 Score: 62 Period size: 16 Copynumber: 1.9 Consensus size: 16 723908 ATGGATTTAC 723918 TTCGTTATATCCGTAA 1 TTCGTTATATCCGTAA 723934 TTCGTTATATCCGTA 1 TTCGTTATATCCGTA 723949 GAAAGAATCC Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 15 1.00 ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45 Consensus pattern (16 bp): TTCGTTATATCCGTAA Found at i:725876 original size:16 final size:16 Alignment explanation

Indices: 725855--725900 Score: 65 Period size: 16 Copynumber: 2.9 Consensus size: 16 725845 TTGTCGATAT 725855 GAGAGAGACAGAGACA 1 GAGAGAGACAGAGACA * 725871 GAGAGAGACAGAGACC 1 GAGAGAGACAGAGACA * * 725887 GAGAAAGAAAGAGA 1 GAGAGAGACAGAGA 725901 GAGTTTTGTA Statistics Matches: 27, Mismatches: 3, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 16 27 1.00 ACGTcount: A:0.52, C:0.11, G:0.37, T:0.00 Consensus pattern (16 bp): GAGAGAGACAGAGACA Found at i:726088 original size:2 final size:2 Alignment explanation

Indices: 726081--726113 Score: 66 Period size: 2 Copynumber: 16.5 Consensus size: 2 726071 GATTTACATA 726081 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C 1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C 726114 NNNNNNNNNN Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 31 1.00 ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48 Consensus pattern (2 bp): CT Found at i:727449 original size:32 final size:32 Alignment explanation

Indices: 727396--727460 Score: 114 Period size: 32 Copynumber: 2.0 Consensus size: 32 727386 TTTTACACAA 727396 AAGGGGTGAATAAACCCGGGGTTTAAACTATT 1 AAGGGGTGAATAAACCCGGGGTTTAAACTATT 727428 ANAGGGGTGAAT-AACCCGGGGTTTAAACTATT 1 A-AGGGGTGAATAAACCCGGGGTTTAAACTATT 727460 A 1 A 727461 CTGGTGTTGA Statistics Matches: 32, Mismatches: 0, Indels: 2 0.94 0.00 0.06 Matches are distributed among these distances: 32 22 0.69 33 10 0.31 ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25 Consensus pattern (32 bp): AAGGGGTGAATAAACCCGGGGTTTAAACTATT Found at i:727584 original size:7 final size:7 Alignment explanation

Indices: 727569--727640 Score: 72 Period size: 7 Copynumber: 10.3 Consensus size: 7 727559 GTCTACTTAG * 727569 ATCTTGA 1 ATCTCGA 727576 ATCTCGA 1 ATCTCGA * 727583 ATTTCGA 1 ATCTCGA * 727590 ATCTTGA 1 ATCTCGA * 727597 ATCTCGT 1 ATCTCGA * 727604 ATTTCGA 1 ATCTCGA * 727611 ATCTCGT 1 ATCTCGA * * 727618 ATTTTGA 1 ATCTCGA 727625 ATCTCGA 1 ATCTCGA 727632 ATCTCGA 1 ATCTCGA 727639 AT 1 AT 727641 GATCCTTCTC Statistics Matches: 50, Mismatches: 15, Indels: 0 0.77 0.23 0.00 Matches are distributed among these distances: 7 50 1.00 ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40 Consensus pattern (7 bp): ATCTCGA Found at i:727595 original size:21 final size:21 Alignment explanation

Indices: 727569--727614 Score: 83 Period size: 21 Copynumber: 2.2 Consensus size: 21 727559 GTCTACTTAG 727569 ATCTTGAATCTCGAATTTCGA 1 ATCTTGAATCTCGAATTTCGA * 727590 ATCTTGAATCTCGTATTTCGA 1 ATCTTGAATCTCGAATTTCGA 727611 ATCT 1 ATCT 727615 CGTATTTTGA Statistics Matches: 24, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 21 24 1.00 ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41 Consensus pattern (21 bp): ATCTTGAATCTCGAATTTCGA Found at i:729228 original size:4 final size:4 Alignment explanation

Indices: 729221--729265 Score: 58 Period size: 4 Copynumber: 11.8 Consensus size: 4 729211 GAGGCGAGAG * * 729221 AGAC AGAC AGAC AGAC AGA- A-AC AGAA AGAC AGAC AGAC AAAC AGA 1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA 729266 GAGAGAGAGA Statistics Matches: 35, Mismatches: 4, Indels: 4 0.81 0.09 0.09 Matches are distributed among these distances: 2 1 0.03 3 2 0.06 4 32 0.91 ACGTcount: A:0.58, C:0.20, G:0.22, T:0.00 Consensus pattern (4 bp): AGAC Found at i:729250 original size:18 final size:18 Alignment explanation

Indices: 729223--729257 Score: 61 Period size: 18 Copynumber: 1.9 Consensus size: 18 729213 GGCGAGAGAG * 729223 ACAGACAGACAGACAGAA 1 ACAGAAAGACAGACAGAA 729241 ACAGAAAGACAGACAGA 1 ACAGAAAGACAGACAGA 729258 CAAACAGAGA Statistics Matches: 16, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 18 16 1.00 ACGTcount: A:0.57, C:0.20, G:0.23, T:0.00 Consensus pattern (18 bp): ACAGAAAGACAGACAGAA Found at i:729270 original size:2 final size:2 Alignment explanation

Indices: 729263--729319 Score: 51 Period size: 2 Copynumber: 28.5 Consensus size: 2 729253 ACAGACAAAC * * * * * * * 729263 AG AG AG AG AG AG AC CG AT AG AC AG AG AG AC AA AC 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 729305 AG AG AG AG AG AG AG A 1 AG AG AG AG AG AG AG A 729320 ATCATTGCAA Statistics Matches: 43, Mismatches: 12, Indels: 0 0.78 0.22 0.00 Matches are distributed among these distances: 2 43 1.00 ACGTcount: A:0.51, C:0.09, G:0.39, T:0.02 Consensus pattern (2 bp): AG Found at i:729276 original size:26 final size:26 Alignment explanation

Indices: 729216--729285 Score: 86 Period size: 26 Copynumber: 2.7 Consensus size: 26 729206 GGAGAGAGGC * 729216 GAGAGAGACAGACAGACAGACAGAAA 1 GAGAGAGACAGACAGACAAACAGAAA * * * 729242 CAGAAAGACAGACAGACAAACAGAGA 1 GAGAGAGACAGACAGACAAACAGAAA * * 729268 GAGAGAGACCGATAGACA 1 GAGAGAGACAGACAGACA 729286 GAGAGACAAA Statistics Matches: 36, Mismatches: 8, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 26 36 1.00 ACGTcount: A:0.53, C:0.17, G:0.29, T:0.01 Consensus pattern (26 bp): GAGAGAGACAGACAGACAAACAGAAA Found at i:729300 original size:34 final size:34 Alignment explanation

Indices: 729217--729309 Score: 123 Period size: 34 Copynumber: 2.7 Consensus size: 34 729207 GAGAGAGGCG * * * * 729217 AGAGAGACAGACAGACAGACAGAAACAGAAAGAC 1 AGAGAGACAAACAGAGAGAGAGAGACAGAAAGAC * * * 729251 AGACAGACAAACAGAGAGAGAGAGACCGATAGAC 1 AGAGAGACAAACAGAGAGAGAGAGACAGAAAGAC 729285 AGAGAGACAAACAGAGAGAGAGAGA 1 AGAGAGACAAACAGAGAGAGAGAGA 729310 GAGAGAGAGA Statistics Matches: 51, Mismatches: 8, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 34 51 1.00 ACGTcount: A:0.54, C:0.15, G:0.30, T:0.01 Consensus pattern (34 bp): AGAGAGACAAACAGAGAGAGAGAGACAGAAAGAC Found at i:737723 original size:17 final size:17 Alignment explanation

Indices: 737701--737744 Score: 56 Period size: 15 Copynumber: 2.7 Consensus size: 17 737691 CAGTTCGTTA 737701 TATATCCGTAAACTCGT 1 TATATCCGTAAACTCGT * 737718 TATATCCG--AATTCGT 1 TATATCCGTAAACTCGT * 737733 TATAACCGTAAA 1 TATATCCGTAAA 737745 ATTTTACAAA Statistics Matches: 23, Mismatches: 2, Indels: 4 0.79 0.07 0.14 Matches are distributed among these distances: 15 13 0.57 17 10 0.43 ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34 Consensus pattern (17 bp): TATATCCGTAAACTCGT Found at i:739938 original size:11 final size:11 Alignment explanation

Indices: 739915--739958 Score: 56 Period size: 10 Copynumber: 4.2 Consensus size: 11 739905 CACTGACTGA 739915 AACAGAA-TTT 1 AACAGAAGTTT 739925 AACAGAAGTTT 1 AACAGAAGTTT 739936 AACAG-AGTTT 1 AACAGAAGTTT ** 739946 ATTAGAAGTTT 1 AACAGAAGTTT 739957 AA 1 AA 739959 ATAAAACTTC Statistics Matches: 29, Mismatches: 3, Indels: 3 0.83 0.09 0.09 Matches are distributed among these distances: 10 15 0.52 11 14 0.48 ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32 Consensus pattern (11 bp): AACAGAAGTTT Found at i:739941 original size:21 final size:21 Alignment explanation

Indices: 739915--739958 Score: 61 Period size: 21 Copynumber: 2.1 Consensus size: 21 739905 CACTGACTGA 739915 AACAGAATTTAACAGAAGTTT 1 AACAGAATTTAACAGAAGTTT * ** 739936 AACAGAGTTTATTAGAAGTTT 1 AACAGAATTTAACAGAAGTTT 739957 AA 1 AA 739959 ATAAAACTTC Statistics Matches: 20, Mismatches: 3, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 21 20 1.00 ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32 Consensus pattern (21 bp): AACAGAATTTAACAGAAGTTT Found at i:747625 original size:2 final size:2 Alignment explanation

Indices: 747618--747651 Score: 59 Period size: 2 Copynumber: 17.0 Consensus size: 2 747608 TGAGTACTAA * 747618 AT AT AT AT AT AT AT AT AT AN AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 747652 GTGTGTGTGT Statistics Matches: 30, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 2 30 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.47 Consensus pattern (2 bp): AT Found at i:747656 original size:2 final size:2 Alignment explanation

Indices: 747651--747677 Score: 54 Period size: 2 Copynumber: 13.5 Consensus size: 2 747641 TATATATATA 747651 TG TG TG TG TG TG TG TG TG TG TG TG TG T 1 TG TG TG TG TG TG TG TG TG TG TG TG TG T 747678 ATTATGTACG Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 25 1.00 ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52 Consensus pattern (2 bp): TG Found at i:749295 original size:18 final size:19 Alignment explanation

Indices: 749272--749313 Score: 68 Period size: 20 Copynumber: 2.2 Consensus size: 19 749262 TTTGAGTTTT 749272 CTCAA-ATTTGAGAAAAAA 1 CTCAATATTTGAGAAAAAA 749290 CTCAAATATTTGAGAAAAAA 1 CTC-AATATTTGAGAAAAAA 749310 CTCA 1 CTCA 749314 GACTTAAGTC Statistics Matches: 22, Mismatches: 0, Indels: 3 0.88 0.00 0.12 Matches are distributed among these distances: 18 3 0.14 19 3 0.14 20 16 0.73 ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24 Consensus pattern (19 bp): CTCAATATTTGAGAAAAAA Found at i:761148 original size:2 final size:2 Alignment explanation

Indices: 761141--761198 Score: 116 Period size: 2 Copynumber: 29.0 Consensus size: 2 761131 CACATACCTC 761141 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 761183 AG AG AG AG AG AG AG AG 1 AG AG AG AG AG AG AG AG 761199 TTCATTGCAA Statistics Matches: 56, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 56 1.00 ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00 Consensus pattern (2 bp): AG Found at i:764711 original size:20 final size:19 Alignment explanation

Indices: 764688--764727 Score: 53 Period size: 20 Copynumber: 2.1 Consensus size: 19 764678 TATTTGGCAA * * 764688 TAATTTTTTTTTTCATTTTT 1 TAATTTCTTATTT-ATTTTT 764708 TAATTTCTTATTTATTTTT 1 TAATTTCTTATTTATTTTT 764727 T 1 T 764728 TCTCTTTTTA Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 19 7 0.39 20 11 0.61 ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78 Consensus pattern (19 bp): TAATTTCTTATTTATTTTT Found at i:770188 original size:2 final size:2 Alignment explanation

Indices: 770181--770208 Score: 56 Period size: 2 Copynumber: 14.0 Consensus size: 2 770171 TTTGGAGACG 770181 CT CT CT CT CT CT CT CT CT CT CT CT CT CT 1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT 770209 GTTGTTACTT Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 26 1.00 ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50 Consensus pattern (2 bp): CT Found at i:773032 original size:8 final size:8 Alignment explanation

Indices: 773017--773045 Score: 51 Period size: 8 Copynumber: 3.8 Consensus size: 8 773007 AAAAAGATAA 773017 AAGA-TAT 1 AAGATTAT 773024 AAGATTAT 1 AAGATTAT 773032 AAGATTAT 1 AAGATTAT 773040 AAGATT 1 AAGATT 773046 GAAGGAGAAA Statistics Matches: 21, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 7 4 0.19 8 17 0.81 ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34 Consensus pattern (8 bp): AAGATTAT Found at i:776763 original size:33 final size:33 Alignment explanation

Indices: 776725--776819 Score: 93 Period size: 33 Copynumber: 2.9 Consensus size: 33 776715 ACATAAATAA * * * 776725 TGACGTCACAATGCATTATATGCGTAGATAATG 1 TGACGTCACAATGCATTAAATGCGTAAATAACG * * 776758 TGACGT-ACTCATTCATTAAATGCGTAAATAACG 1 TGACGTCAC-AATGCATTAAATGCGTAAATAACG ** * * 776791 TGATATCACAATGCATTAGATGGGTAAAT 1 TGACGTCACAATGCATTAAATGCGTAAAT 776820 GGTATATCTT Statistics Matches: 49, Mismatches: 11, Indels: 4 0.77 0.17 0.06 Matches are distributed among these distances: 32 2 0.04 33 45 0.92 34 2 0.04 ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31 Consensus pattern (33 bp): TGACGTCACAATGCATTAAATGCGTAAATAACG Found at i:777676 original size:14 final size:14 Alignment explanation

Indices: 777659--777688 Score: 60 Period size: 14 Copynumber: 2.1 Consensus size: 14 777649 CATGTATGCT 777659 TTAATATGTTAACA 1 TTAATATGTTAACA 777673 TTAATATGTTAACA 1 TTAATATGTTAACA 777687 TT 1 TT 777689 TTCGAAATAT Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 16 1.00 ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47 Consensus pattern (14 bp): TTAATATGTTAACA Found at i:782934 original size:19 final size:18 Alignment explanation

Indices: 782898--782934 Score: 56 Period size: 18 Copynumber: 2.0 Consensus size: 18 782888 ACGCCTGCCG * 782898 ACGCCTGCCGGGGAAAAC 1 ACGCCTGCCGGAGAAAAC 782916 ACGCCTGCCGAGAGAAAAC 1 ACGCCTGCCG-GAGAAAAC 782935 CGCACGCCTG Statistics Matches: 17, Mismatches: 1, Indels: 1 0.89 0.05 0.05 Matches are distributed among these distances: 18 10 0.59 19 7 0.41 ACGTcount: A:0.32, C:0.32, G:0.30, T:0.05 Consensus pattern (18 bp): ACGCCTGCCGGAGAAAAC Found at i:783408 original size:184 final size:183 Alignment explanation

Indices: 783078--783513 Score: 563 Period size: 184 Copynumber: 2.4 Consensus size: 183 783068 GTTCAATGTT * * * 783078 GGTAAAGATAGATAACTCTTACGTAGAATTCATACGCCTGCCGAGGAAATCTAGACGCCTGCCGT 1 GGTAAA-ATAGATAACTCTTACGTAGAAATCATACGCCTGCCGAGAAAATCTATACGCCTGCCGT * * * * * * 783143 TAATTTGATGGATTATTTTACTTTTTTCTTTGATATTTTATTTCTTTTAACTAAATAGATGATAA 65 TTAGTTGATGGATTATTTTAATTATTTCTTTGATATTTTATTTC-TTTAACTAAATAAACGATAA * * * * * 783208 TAGAAATCAGAAGTTGATTTTATATTAATTAATTAACACAAAATAAGTAAAAATC 129 CAGAAATAAAAAGTTGACTTTAAATTAATTAATTAACACAAAATAAGTAAAAATC ** * * * * 783263 GGGTAAGCT-GATAGCTCTTACGAAGAAATCATACGCCTGCCAAGAAAATGTATACGCCTGCCGT 1 -GGTAAAATAGATAACTCTTACGTAGAAATCATACGCCTGCCGAGAAAATCTATACGCCTGCCGT ** * 783327 TTAGTTGATGGATTATTTTAATTATTTCTTTGATATTTTAGTTTAC-TTGGCTTAATAAACGATA 65 TTAGTTGATGGATTATTTTAATTATTTCTTTGATATTTTA-TTT-CTTTAACTAAATAAACGATA ** * 783391 ACAGAAATAAAAAGTTGACTTTAAATTCGTTAATTAACACAAAATTAGTAAAAATC 128 ACAGAAATAAAAAGTTGACTTTAAATTAATTAATTAACACAAAATAAGTAAAAATC 783447 GGTAAAATAGATAACTCTTACGTAG-AATGCATACGCCTGCCGAGAAAATCTATACGCCTGCCGT 1 GGTAAAATAGATAACTCTTACGTAGAAAT-CATACGCCTGCCGAGAAAATCTATACGCCTGCCGT 783511 TTA 65 TTA 783514 TCAGATATAT Statistics Matches: 214, Mismatches: 32, Indels: 10 0.84 0.12 0.04 Matches are distributed among these distances: 183 9 0.04 184 195 0.91 185 4 0.02 186 6 0.03 ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34 Consensus pattern (183 bp): GGTAAAATAGATAACTCTTACGTAGAAATCATACGCCTGCCGAGAAAATCTATACGCCTGCCGTT TAGTTGATGGATTATTTTAATTATTTCTTTGATATTTTATTTCTTTAACTAAATAAACGATAACA GAAATAAAAAGTTGACTTTAAATTAATTAATTAACACAAAATAAGTAAAAATC Found at i:787563 original size:43 final size:43 Alignment explanation

Indices: 787473--787565 Score: 116 Period size: 43 Copynumber: 2.2 Consensus size: 43 787463 TTGCTCTTCT * * * ** 787473 GAGTCGATTCAAGTAACCAAATAGCGAAGCATATTGTTTTATT 1 GAGTCGATTCAAGTAACCAAATAGCAAAGCATATTATTCTAGA * 787516 GAGTCGATTCCAGTAACC-AATCAGCAAAGCATATTATTCTAGA 1 GAGTCGATTCAAGTAACCAAAT-AGCAAAGCATATTATTCTAGA 787559 GAGTCGA 1 GAGTCGA 787566 GAAAGCAATT Statistics Matches: 43, Mismatches: 6, Indels: 2 0.84 0.12 0.04 Matches are distributed among these distances: 42 3 0.07 43 40 0.93 ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28 Consensus pattern (43 bp): GAGTCGATTCAAGTAACCAAATAGCAAAGCATATTATTCTAGA Found at i:805758 original size:2 final size:2 Alignment explanation

Indices: 805751--805782 Score: 64 Period size: 2 Copynumber: 16.0 Consensus size: 2 805741 AGACTGGCAA 805751 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC 1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC 805783 ACACACACAC Statistics Matches: 30, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 30 1.00 ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50 Consensus pattern (2 bp): TC Found at i:805787 original size:2 final size:2 Alignment explanation

Indices: 805782--805823 Score: 84 Period size: 2 Copynumber: 21.0 Consensus size: 2 805772 CTCTCTCTCT 805782 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA 1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA 805824 TACTTTTAAT Statistics Matches: 40, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 40 1.00 ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00 Consensus pattern (2 bp): CA Found at i:808518 original size:9 final size:9 Alignment explanation

Indices: 808506--808539 Score: 50 Period size: 9 Copynumber: 3.7 Consensus size: 9 808496 TAATATTTTA 808506 AATACATTC 1 AATACATTC 808515 AATACATTC 1 AATACATTC * 808524 AATACAATAC 1 AATAC-ATTC 808534 AATACA 1 AATACA 808540 GATCACTGGA Statistics Matches: 23, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 9 15 0.65 10 8 0.35 ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26 Consensus pattern (9 bp): AATACATTC Found at i:811314 original size:166 final size:166 Alignment explanation

Indices: 811040--811571 Score: 782 Period size: 168 Copynumber: 3.2 Consensus size: 166 811030 AGAAATTTTC * * * 811040 AAAATCTTCTTCTCAAGAAAC--ATTAAGCCAGGAAAACTGAAACTTTTGTGGACGCATTCTTAG 1 AAAATCTTCTTCTC-AGAAACTAATCAA-CCAGGAAAACTAAAACTTGTGTGGACGCATTCTTAG 811103 GTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGAGGG 64 GTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGG-GGG * * 811168 -TCAAAGTTTTACATAGGAATATATAAAGTAAATCTTTA 128 ATCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTA * * * ** 811206 AAAATCTTCTTCTCAGAAACTAATCAACCAGGAAAGCTAAAACTTGTGTGGAAGCATCCCCAGGT 1 AAAATCTTCTTCTCAGAAACTAATCAACCAGGAAAACTAAAACTTGTGTGGACGCATTCTTAGGT * * 811271 AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCAACAATGGGGGATT 66 AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGATC 811336 GAAGTTTTACATAGGAATATATAGAGTAAATCTTTAA 131 GAAGTTTTACATAGGAATATATAGAGTAAATCTTT-A * * * * 811373 AAAACCTTCTTCTCCAAAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGG 1 AAAATCTTCTTCT-CAGAAACTAATCAACCAGGAAAACTAAAACTTGTGTGGACGCATTCTTAGG * * * * * 811438 TAGTGTAGATTCAAAGTTGTGAAAATCATAACCACTAGGGGCAGGGTGGGTCCACAATGGGGGAT 65 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGAT * 811503 CGAAGTTTTACATAGGAATATATAGGTGTAAATCTTTA 130 CGAAGTTTTACATAGGAATATATA-GAGTAAATCTTTA * 811541 AAAATCTTCTTCTCAGAAACTAATCAGCCAG 1 AAAATCTTCTTCTCAGAAACTAATCAACCAG 811572 ATGATTTTTT Statistics Matches: 329, Mismatches: 31, Indels: 11 0.89 0.08 0.03 Matches are distributed among these distances: 165 9 0.03 166 137 0.42 167 34 0.10 168 138 0.42 169 11 0.03 ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26 Consensus pattern (166 bp): AAAATCTTCTTCTCAGAAACTAATCAACCAGGAAAACTAAAACTTGTGTGGACGCATTCTTAGGT AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGATC GAAGTTTTACATAGGAATATATAGAGTAAATCTTTA Found at i:811487 original size:168 final size:166 Alignment explanation

Indices: 811040--811572 Score: 791 Period size: 166 Copynumber: 3.2 Consensus size: 166 811030 AGAAATTTTC * * * * * 811040 AAAATCTTCTTCTCAAGAAAC-ATTAAGCCAGGAAAACTGAAACTTTTGTGGACGCATTCTTAGG 1 AAAATCTTCTTCTC-AGAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGG 811104 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGAGGG- 65 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGG-GGGA * * 811168 TCAAAGTTTTACATAGGAATATATAAAGTAAATCTTTA 129 TCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTA * * * * * ** 811206 AAAATCTTCTTCTCAGAAACTAATCAACCAGGAAAGCTAAAACTTGTGTGGAAGCATCCCCAGGT 1 AAAATCTTCTTCTCAGAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGGT * * 811271 AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCAACAATGGGGGATT 66 AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGATC 811336 GAAGTTTTACATAGGAATATATAGAGTAAATCTTTAA 131 GAAGTTTTACATAGGAATATATAGAGTAAATCTTT-A * * 811373 AAAACCTTCTTCTCCAAAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGG 1 AAAATCTTCTTCT-CAGAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGG * * * * * 811438 TAGTGTAGATTCAAAGTTGTGAAAATCATAACCACTAGGGGCAGGGTGGGTCCACAATGGGGGAT 65 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGAT * 811503 CGAAGTTTTACATAGGAATATATAGGTGTAAATCTTTA 130 CGAAGTTTTACATAGGAATATATA-GAGTAAATCTTTA 811541 AAAATCTTCTTCTCAGAAACTAATCAGCCAGA 1 AAAATCTTCTTCTCAGAAACTAATCAGCCAGA 811573 TGATTTTTTA Statistics Matches: 329, Mismatches: 33, Indels: 9 0.89 0.09 0.02 Matches are distributed among these distances: 165 9 0.03 166 140 0.43 167 31 0.09 168 138 0.42 169 11 0.03 ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26 Consensus pattern (166 bp): AAAATCTTCTTCTCAGAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGGT AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGATC GAAGTTTTACATAGGAATATATAGAGTAAATCTTTA Found at i:814773 original size:16 final size:16 Alignment explanation

Indices: 814752--814792 Score: 82 Period size: 16 Copynumber: 2.6 Consensus size: 16 814742 ATGATGATGA 814752 TGCGATGGCGCAACAC 1 TGCGATGGCGCAACAC 814768 TGCGATGGCGCAACAC 1 TGCGATGGCGCAACAC 814784 TGCGATGGC 1 TGCGATGGC 814793 ACGATGAAGC Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 25 1.00 ACGTcount: A:0.22, C:0.29, G:0.34, T:0.15 Consensus pattern (16 bp): TGCGATGGCGCAACAC Found at i:814828 original size:16 final size:16 Alignment explanation

Indices: 814784--814829 Score: 56 Period size: 16 Copynumber: 2.9 Consensus size: 16 814774 GGCGCAACAC * 814784 TGCGATGGCACGATGA 1 TGCGATGGCATGATGA * * 814800 AGCGATAGCATGATGA 1 TGCGATGGCATGATGA * 814816 TGCGATGGTATGAT 1 TGCGATGGCATGAT 814830 AGCGATAATG Statistics Matches: 24, Mismatches: 6, Indels: 0 0.80 0.20 0.00 Matches are distributed among these distances: 16 24 1.00 ACGTcount: A:0.28, C:0.13, G:0.35, T:0.24 Consensus pattern (16 bp): TGCGATGGCATGATGA Found at i:814991 original size:16 final size:16 Alignment explanation

Indices: 814966--814996 Score: 53 Period size: 16 Copynumber: 1.9 Consensus size: 16 814956 ACATCATTGT * 814966 CATCGTACCATCGCTC 1 CATCGCACCATCGCTC 814982 CATCGCACCATCGCT 1 CATCGCACCATCGCT 814997 TATATCGTCG Statistics Matches: 14, Mismatches: 1, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 16 14 1.00 ACGTcount: A:0.19, C:0.45, G:0.13, T:0.23 Consensus pattern (16 bp): CATCGCACCATCGCTC Found at i:823788 original size:14 final size:14 Alignment explanation

Indices: 823769--823800 Score: 64 Period size: 14 Copynumber: 2.3 Consensus size: 14 823759 TTTTGGTTGG 823769 AAAATTGAATAGAC 1 AAAATTGAATAGAC 823783 AAAATTGAATAGAC 1 AAAATTGAATAGAC 823797 AAAA 1 AAAA 823801 CTAATACTAT Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 18 1.00 ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19 Consensus pattern (14 bp): AAAATTGAATAGAC Found at i:826031 original size:54 final size:54 Alignment explanation

Indices: 825927--826033 Score: 137 Period size: 54 Copynumber: 2.0 Consensus size: 54 825917 TTGTACTTGT * * * * 825927 ATTATGAGTTAGGGCCCACTGGGTTGTCTTTTAAGTCAAGGCTCAATGGGTTGG 1 ATTATGAGTCAGGGCCCACAGGGTTGTATTTGAAGTCAAGGCTCAATGGGTTGG * 825981 ATTATGAGTCAGGGCCCACAGGGTTGTATTATGAA-TCAGGGCT-AACTGGGTTG 1 ATTATGAGTCAGGGCCCACAGGGTTGTATT-TGAAGTCAAGGCTCAA-TGGGTTG 826034 TTCGGTATAC Statistics Matches: 46, Mismatches: 5, Indels: 4 0.84 0.09 0.07 Matches are distributed among these distances: 53 2 0.04 54 41 0.89 55 3 0.07 ACGTcount: A:0.22, C:0.15, G:0.32, T:0.31 Consensus pattern (54 bp): ATTATGAGTCAGGGCCCACAGGGTTGTATTTGAAGTCAAGGCTCAATGGGTTGG Found at i:826034 original size:27 final size:27 Alignment explanation

Indices: 825923--826034 Score: 93 Period size: 27 Copynumber: 4.1 Consensus size: 27 825913 TGGATTGTAC * * * 825923 TTGTATTATGAGTTAGGGCCCACTGGG 1 TTGTATTATGAATCAGGGCCAACTGGG * * * 825950 TTGTCTT-TTAAGTCAAGGCTCAA-TGGG 1 TTGTATTATGAA-TCAGGGC-CAACTGGG * * * * 825977 TTGGATTATGAGTCAGGGCCCACAGGG 1 TTGTATTATGAATCAGGGCCAACTGGG * 826004 TTGTATTATGAATCAGGGCTAACTGGG 1 TTGTATTATGAATCAGGGCCAACTGGG 826031 TTGT 1 TTGT 826035 TCGGTATACA Statistics Matches: 63, Mismatches: 18, Indels: 8 0.71 0.20 0.09 Matches are distributed among these distances: 26 4 0.06 27 55 0.87 28 4 0.06 ACGTcount: A:0.21, C:0.14, G:0.31, T:0.33 Consensus pattern (27 bp): TTGTATTATGAATCAGGGCCAACTGGG Found at i:827175 original size:28 final size:27 Alignment explanation

Indices: 826985--827338 Score: 234 Period size: 28 Copynumber: 12.8 Consensus size: 27 826975 GGCTGTCATT * * 826985 AAAGTAATGTAACTGTTGGAATGTAATC 1 AAAGT-ATGTAATTGTTGGACTGTAATC * * * * * 827013 AAGGTAGTGTAATTGATAGAATATAATC 1 AAAGTA-TGTAATTGTTGGACTGTAATC * * * * * * 827041 -AAGTGTGAAATTGTAGTATTGTAATG 1 AAAGTATGTAATTGTTGGACTGTAATC * 827067 AAAGT-TGTGAAGTTGTTTGACTG-AATC 1 AAAGTATGT-AA-TTGTTGGACTGTAATC * * * * 827094 AAAAT-TGTGAAATTGTT-AATTGGAATC 1 AAAGTATGT--AATTGTTGGACTGTAATC * * * 827121 TAAATTATGTAACTGTTGGA-TCATAATC 1 -AAAGTATGTAATTGTTGGACT-GTAATC 827149 AAAGGTATGTAATTGTTGGACTGTAATC 1 AAA-GTATGTAATTGTTGGACTGTAATC * * * 827177 ATAGTATTGTAATTGTTGAAATGTAATC 1 AAAGTA-TGTAATTGTTGGACTGTAATC * * * 827205 AAACTTACGTTATTGTTGGACTGTAATC 1 AAA-GTATGTAATTGTTGGACTGTAATC * * 827233 AAAATAGTGTAATTTTTGGACTGTAATC 1 AAAGTA-TGTAATTGTTGGACTGTAATC 827261 AAAGTAATGTAATTGTTGGACTGTAATC 1 AAAGT-ATGTAATTGTTGGACTGTAATC * * 827289 AAAATAATGTAATTTTTGGACTGTAATC 1 AAAGT-ATGTAATTGTTGGACTGTAATC * * * 827317 TAAGAATGAAATTGTTGGACTG 1 AAAGTATGTAATTGTTGGACTG 827339 CAATTAAAAG Statistics Matches: 255, Mismatches: 55, Indels: 33 0.74 0.16 0.10 Matches are distributed among these distances: 26 18 0.07 27 59 0.23 28 171 0.67 29 7 0.03 ACGTcount: A:0.36, C:0.06, G:0.21, T:0.37 Consensus pattern (27 bp): AAAGTATGTAATTGTTGGACTGTAATC Found at i:828234 original size:24 final size:24 Alignment explanation

Indices: 828202--828255 Score: 108 Period size: 24 Copynumber: 2.2 Consensus size: 24 828192 AAATCATTTC 828202 AAAATGGCTATGTCGACACACTAT 1 AAAATGGCTATGTCGACACACTAT 828226 AAAATGGCTATGTCGACACACTAT 1 AAAATGGCTATGTCGACACACTAT 828250 AAAATG 1 AAAATG 828256 TGTCAACAAG Statistics Matches: 30, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 24 30 1.00 ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24 Consensus pattern (24 bp): AAAATGGCTATGTCGACACACTAT Found at i:831877 original size:33 final size:33 Alignment explanation

Indices: 831838--831904 Score: 134 Period size: 33 Copynumber: 2.0 Consensus size: 33 831828 TGTGTAGTGG 831838 GGACAGGTTTATATAAGTCCCCTGTCAATAAGT 1 GGACAGGTTTATATAAGTCCCCTGTCAATAAGT 831871 GGACAGGTTTATATAAGTCCCCTGTCAATAAGT 1 GGACAGGTTTATATAAGTCCCCTGTCAATAAGT 831904 G 1 G 831905 TAGCCTGATC Statistics Matches: 34, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 33 34 1.00 ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30 Consensus pattern (33 bp): GGACAGGTTTATATAAGTCCCCTGTCAATAAGT Found at i:839435 original size:28 final size:28 Alignment explanation

Indices: 839395--839509 Score: 221 Period size: 28 Copynumber: 4.1 Consensus size: 28 839385 GTGATAAAGT * 839395 TGGCAGCAGAACAGGGAGGGTTGGTGTG 1 TGGCAGCAGAACAGGGAGGGTGGGTGTG 839423 TGGCAGCAGAACAGGGAGGGTGGGTGTG 1 TGGCAGCAGAACAGGGAGGGTGGGTGTG 839451 TGGCAGCAGAACAGGGAGGGTGGGTGTG 1 TGGCAGCAGAACAGGGAGGGTGGGTGTG 839479 TGGCAGCAGAACAGGGAGGGTGGGTGTG 1 TGGCAGCAGAACAGGGAGGGTGGGTGTG 839507 TGG 1 TGG 839510 NNNNNNNNNN Statistics Matches: 86, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 28 86 1.00 ACGTcount: A:0.21, C:0.10, G:0.53, T:0.16 Consensus pattern (28 bp): TGGCAGCAGAACAGGGAGGGTGGGTGTG Found at i:840758 original size:15 final size:15 Alignment explanation

Indices: 840738--840767 Score: 60 Period size: 15 Copynumber: 2.0 Consensus size: 15 840728 NNNNNGGGAG 840738 GGTGATTGTGTGGCA 1 GGTGATTGTGTGGCA 840753 GGTGATTGTGTGGCA 1 GGTGATTGTGTGGCA 840768 ACAGAACAGG Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 15 1.00 ACGTcount: A:0.13, C:0.07, G:0.47, T:0.33 Consensus pattern (15 bp): GGTGATTGTGTGGCA Found at i:840827 original size:28 final size:28 Alignment explanation

Indices: 840753--841100 Score: 398 Period size: 28 Copynumber: 12.4 Consensus size: 28 840743 TTGTGTGGCA * * 840753 GGTGATTGTGTGGCAACAGAACAGGGAG 1 GGTGGTTGTGTGGCAGCAGAACAGGGAG * * 840781 GTTGGGTTGTGTGGCAACAGAACAGGGAG 1 GGT-GGTTGTGTGGCAGCAGAACAGGGAG * * 840810 GGTGATTGTGTGGCAACAGAACAGGGAG 1 GGTGGTTGTGTGGCAGCAGAACAGGGAG * * 840838 GGTGGTTGTGTGGCAGGAGATCAGGGAGG 1 GGTGGTTGTGTGGCAGCAGAACAGGGA-G * * 840867 GGGGGTTGTGTGGCAACAGAACAGGGAG 1 GGTGGTTGTGTGGCAGCAGAACAGGGAG 840895 GGTAGG-TGTGTGGCAGCA-AGACAGGGAG 1 GGT-GGTTGTGTGGCAGCAGA-ACAGGGAG * * 840923 GGTGGGTGTGTGGCAACAGAACAGGGAG 1 GGTGGTTGTGTGGCAGCAGAACAGGGAG * * 840951 GGTGGATGTGTGGCAGGAGAACA-GGAG 1 GGTGGTTGTGTGGCAGCAGAACAGGGAG * * * * 840978 GGTGGGTGTGTGGCGGCAGGACAGGGAA 1 GGTGGTTGTGTGGCAGCAGAACAGGGAG * * * 841006 GGTGATTGTGTTGCAGCAGGACAGGGAG 1 GGTGGTTGTGTGGCAGCAGAACAGGGAG * 841034 GGTGGGTTCTGTGGCAGCAGAACAGGGAG 1 GGT-GGTTGTGTGGCAGCAGAACAGGGAG * * 841063 GGTGGGTGTGTGGCGGCAGAACA-GGAG 1 GGTGGTTGTGTGGCAGCAGAACAGGGAG * 841090 GTTGGTTGTGT 1 GGTGGTTGTGT 841101 TTAAGTCTAC Statistics Matches: 275, Mismatches: 37, Indels: 17 0.84 0.11 0.05 Matches are distributed among these distances: 27 39 0.14 28 159 0.58 29 77 0.28 ACGTcount: A:0.22, C:0.10, G:0.49, T:0.18 Consensus pattern (28 bp): GGTGGTTGTGTGGCAGCAGAACAGGGAG Found at i:840876 original size:57 final size:56 Alignment explanation

Indices: 840758--841100 Score: 403 Period size: 57 Copynumber: 6.1 Consensus size: 56 840748 TGGCAGGTGA * * * 840758 TTGTGTGGCAACAGAACAGGGAGGTTGGGTTGTGTGGCAACAGAACAGGGAGGGT-GA 1 TTGTGTGGCAACAGAACAGGGAGGGT-GGTTGTGTGGCAGCAG-ACAGGGAGGGTGGG * * 840815 TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGGAGATCAGGGAGGGGGGG 1 TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGCAGA-CAGGGAGGGTGGG 840872 TTGTGTGGCAACAGAACAGGGAGGGTAGG-TGTGTGGCAGCAAGACAGGGAGGGTGGG 1 TTGTGTGGCAACAGAACAGGGAGGGT-GGTTGTGTGGCAGC-AGACAGGGAGGGTGGG * * 840929 -TGTGTGGCAACAGAACAGGGAGGGTGGATGTGTGGCAGGAGAACA-GGAGGGTGGG 1 TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGCAG-ACAGGGAGGGTGGG ** * * * * 840984 -TGTGTGGCGGCAGGACAGGGAAGGTGATTGTGTTGCAGCAGGACAGGGAGGGTGGG 1 TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGCA-GACAGGGAGGGTGGG * * * * * 841040 TTCTGTGGCAGCAGAACAGGGAGGGTGGGTGTGTGGCGGCAGAACA-GGA-GGTTGG 1 TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGCAG-ACAGGGAGGGTGGG 841095 TTGTGT 1 TTGTGT 841101 TTAAGTCTAC Statistics Matches: 250, Mismatches: 26, Indels: 22 0.84 0.09 0.07 Matches are distributed among these distances: 55 60 0.24 56 76 0.30 57 109 0.44 58 5 0.02 ACGTcount: A:0.22, C:0.10, G:0.49, T:0.18 Consensus pattern (56 bp): TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGCAGACAGGGAGGGTGGG Found at i:840905 original size:85 final size:85 Alignment explanation

Indices: 840753--841100 Score: 416 Period size: 85 Copynumber: 4.1 Consensus size: 85 840743 TTGTGTGGCA * ** ** 840753 GGTGATTGTGTGGCAACAGAACAGGGAGGTTGGGTTGTGTGGCAACAGAACAGGGAGGGTGATTG 1 GGTGGTTGTGTGGCAACAGAACAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTGGGTG * 840818 TGTGGCAACAGAACAGGGAG 66 TGTGGCAGCAGAACAGGGAG ** * * 840838 GGTGGTTGTGTGGCAGGAGATCAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTAGGTG 1 GGTGGTTGTGTGGCAACAGAACAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTGGGTG 840903 TGTGGCAGCA-AGACAGGGAG 66 TGTGGCAGCAGA-ACAGGGAG * * * ** 840923 GGTGGGTGTGTGGCAACAGAACAGGGA-GGGTGGATGTGTGGCAGGAGAACA-GGAGGGTGGGTG 1 GGTGGTTGTGTGGCAACAGAACAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTGGGTG * * * 840986 TGTGGCGGCAGGACAGGGAA 66 TGTGGCAGCAGAACAGGGAG * * * * * * * 841006 GGTGATTGTGTTGCAGCAGGACAGGGAGGGTGGGTTCTGTGGCAGCAGAACAGGGAGGGTGGGTG 1 GGTGGTTGTGTGGCAACAGAACAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTGGGTG * 841071 TGTGGCGGCAGAACA-GGAG 66 TGTGGCAGCAGAACAGGGAG * 841090 GTTGGTTGTGT 1 GGTGGTTGTGT 841101 TTAAGTCTAC Statistics Matches: 223, Mismatches: 36, Indels: 9 0.83 0.13 0.03 Matches are distributed among these distances: 83 49 0.22 84 52 0.23 85 122 0.55 ACGTcount: A:0.22, C:0.10, G:0.49, T:0.18 Consensus pattern (85 bp): GGTGGTTGTGTGGCAACAGAACAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTGGGTG TGTGGCAGCAGAACAGGGAG Found at i:842152 original size:27 final size:26 Alignment explanation

Indices: 842115--842212 Score: 85 Period size: 27 Copynumber: 3.8 Consensus size: 26 842105 CATATAGTCA 842115 CACAATACACAGAAATAAGTCTCAAGT 1 CACAATACACAG-AATAAGTCTCAAGT * * 842142 CACAATGCAC--AA-AAGTCTCAAAT 1 CACAATACACAGAATAAGTCTCAAGT * * * * * 842165 AACAAGACACAGAATAACTTATCAAGC 1 CACAATACACAGAATAA-GTCTCAAGT 842192 CACAATACACAGAAATAAGTC 1 CACAATACACAG-AATAAGTC 842213 AAAACAATTT Statistics Matches: 53, Mismatches: 13, Indels: 10 0.70 0.17 0.13 Matches are distributed among these distances: 23 17 0.32 24 2 0.04 25 2 0.04 26 2 0.04 27 25 0.47 28 5 0.09 ACGTcount: A:0.50, C:0.23, G:0.10, T:0.16 Consensus pattern (26 bp): CACAATACACAGAATAAGTCTCAAGT Found at i:842422 original size:117 final size:115 Alignment explanation

Indices: 842173--842445 Score: 379 Period size: 117 Copynumber: 2.3 Consensus size: 115 842163 ATAACAAGAC * * 842173 ACAGAATAACTTATCAAGCCACAATACACAGAAATAAGTCAAAACAATTTACAAGTCACAAGACT 1 ACAGAATAACTTATCAAGTCACAATACACAGAAACAAGTCAAAACAATTTACAAGTCACAAGACT * 842238 CGGAAATCTAAAAAGTCAAAATACACAGAAACAAGCCTCAAGTCACAGCTT 66 AGGAAATCT-AAAAGTCAAAATACACAGAAACAAGCCTCAAGTCACAGCTT * * 842289 ACAGAATAACTTATCAAGTCACAATACACAAAAACAAGTCAAAACAATTTACAAGTCACAATAC- 1 ACAGAATAACTTATCAAGTCACAATACACAGAAACAAGTCAAAACAATTTACAAGTCACAAGACT * * * * * * 842353 AGAAAGTAAGTCT-AGAGTCACAATACACAGAACCAAGCCTCAAGTCACTGTTT 66 AG---G-AAATCTAAAAGTCAAAATACACAGAAACAAGCCTCAAGTCACAGCTT * 842406 ATAGAATAACTTATCAAGTCACAATACACAGAAACAAGTC 1 ACAGAATAACTTATCAAGTCACAATACACAGAAACAAGTC 842446 TTAAGTCACA Statistics Matches: 140, Mismatches: 13, Indels: 7 0.88 0.08 0.04 Matches are distributed among these distances: 115 1 0.01 116 60 0.43 117 73 0.52 118 1 0.01 119 5 0.04 ACGTcount: A:0.48, C:0.22, G:0.11, T:0.19 Consensus pattern (115 bp): ACAGAATAACTTATCAAGTCACAATACACAGAAACAAGTCAAAACAATTTACAAGTCACAAGACT AGGAAATCTAAAAGTCAAAATACACAGAAACAAGCCTCAAGTCACAGCTT Found at i:842506 original size:81 final size:82 Alignment explanation

Indices: 842340--842546 Score: 203 Period size: 81 Copynumber: 2.6 Consensus size: 82 842330 AAACAATTTA * * ** 842340 CAAGTCACAAT--ACAGAAAGTAAGTCTAGAGTCACAATACACAGAACCAAGCCTCAAGTCACTG 1 CAAGTCACAATACACAGAAAGCAAGTCTAGAGTCACAATACACAGAAACAAGCCTCAAGTCACAA ** * * * 842403 TTTATAGAATAACTTAT 66 TACACAGAACAACCTAT 842420 CAAGTCACAATACACAGAAA-CAAGTCTTA-AGTCACAATACACAGAAACAAGCCTCAAGTCACA 1 CAAGTCACAATACACAGAAAGCAAGTC-TAGAGTCACAATACACAGAAACAAGCCTCAAGTCACA 842483 ATACACAGAAACAAGCCT-T 65 ATACACAG-AACAA-CCTAT * * * * * * 842502 -AAGTCTCAATACACA-AAAGTAAGTCTAAAGTTACCATACAAAGAA 1 CAAGTCACAATACACAGAAAGCAAGTCTAGAGTCACAATACACAGAA 842547 TAACTTATCT Statistics Matches: 106, Mismatches: 14, Indels: 13 0.80 0.11 0.10 Matches are distributed among these distances: 80 16 0.15 81 74 0.70 82 14 0.13 83 2 0.02 ACGTcount: A:0.46, C:0.23, G:0.12, T:0.19 Consensus pattern (82 bp): CAAGTCACAATACACAGAAAGCAAGTCTAGAGTCACAATACACAGAAACAAGCCTCAAGTCACAA TACACAGAACAACCTAT Found at i:842587 original size:27 final size:27 Alignment explanation

Indices: 842340--842592 Score: 169 Period size: 27 Copynumber: 9.4 Consensus size: 27 842330 AAACAATTTA * 842340 CAAGTCACAAT--ACAGAAAGTAAGTCT 1 CAAGTCACAATACACAGAAA-CAAGTCT * * 842366 -AGAGTCACAATACACAGAACCAAGCCT 1 CA-AGTCACAATACACAGAAACAAGTCT ** ** * ** * 842393 CAAGTCACTGTTTATAGAATA-ACTTAT 1 CAAGTCACAATACACAGAA-ACAAGTCT 842420 CAAGTCACAATACACAGAAACAAGTCT 1 CAAGTCACAATACACAGAAACAAGTCT * * 842447 TAAGTCACAATACACAGAAACAAGCCT 1 CAAGTCACAATACACAGAAACAAGTCT * 842474 CAAGTCACAATACACAGAAACAAGCCT 1 CAAGTCACAATACACAGAAACAAGTCT * * * 842501 TAAGTCTCAATACACA-AAAGTAAGTCT 1 CAAGTCACAATACACAGAAA-CAAGTCT * * * * ** * 842528 AAAGTTACCATACAAAGAATA-ACTTAT 1 CAAGTCACAATACACAGAA-ACAAGTCT * 842555 CTAGTCACAATACACAGTAAA-AAGTCT 1 CAAGTCACAATACACAG-AAACAAGTCT * 842582 CAAGTCTCAAT 1 CAAGTCACAAT 842593 GCATTGAAAT Statistics Matches: 171, Mismatches: 46, Indels: 19 0.72 0.19 0.08 Matches are distributed among these distances: 25 1 0.01 26 13 0.08 27 145 0.85 28 11 0.06 29 1 0.01 ACGTcount: A:0.45, C:0.23, G:0.11, T:0.21 Consensus pattern (27 bp): CAAGTCACAATACACAGAAACAAGTCT Found at i:842803 original size:33 final size:33 Alignment explanation

Indices: 842699--842887 Score: 248 Period size: 33 Copynumber: 5.8 Consensus size: 33 842689 CACATTATTC * 842699 TAGA-CAAGTCACAATACAC--AAA-ATTCAAGT 1 TAGATCAAGTCACAATACACAGAAACATT-AGGT * 842729 CTAGATTAAGTCACAATACACAGAAACA--A-GT 1 -TAGATCAAGTCACAATACACAGAAACATTAGGT 842760 CTAGATCAAGTCACAATACACAGAAACATTAGGT 1 -TAGATCAAGTCACAATACACAGAAACATTAGGT * 842794 TAGATCAAGTCACCATACACAGAAACATTAGGT 1 TAGATCAAGTCACAATACACAGAAACATTAGGT * 842827 TAGATCAAGTCACAATACACAGAAACGTTAGGT 1 TAGATCAAGTCACAATACACAGAAACATTAGGT * * 842860 TAGATCAAGTCACCATACACAGATACAT 1 TAGATCAAGTCACAATACACAGAAACAT 842888 ACACACAGTA Statistics Matches: 143, Mismatches: 8, Indels: 12 0.88 0.05 0.07 Matches are distributed among these distances: 31 33 0.23 32 15 0.10 33 89 0.62 34 5 0.03 35 1 0.01 ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21 Consensus pattern (33 bp): TAGATCAAGTCACAATACACAGAAACATTAGGT Found at i:843737 original size:16 final size:16 Alignment explanation

Indices: 843716--843746 Score: 62 Period size: 16 Copynumber: 1.9 Consensus size: 16 843706 GTACCTGAGT 843716 GTGATGTTTTACCTGA 1 GTGATGTTTTACCTGA 843732 GTGATGTTTTACCTG 1 GTGATGTTTTACCTG 843747 TGTGGATGAC Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 15 1.00 ACGTcount: A:0.16, C:0.13, G:0.26, T:0.45 Consensus pattern (16 bp): GTGATGTTTTACCTGA Found at i:843935 original size:2 final size:2 Alignment explanation

Indices: 843928--843961 Score: 59 Period size: 2 Copynumber: 17.0 Consensus size: 2 843918 GATGTATTTT * 843928 TG TG TG TG TG TG TG TG TG TG TT TG TG TG TG TG TG 1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG 843962 GTATTGGAAG Statistics Matches: 30, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 2 30 1.00 ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53 Consensus pattern (2 bp): TG Found at i:851658 original size:44 final size:38 Alignment explanation

Indices: 851616--851692 Score: 138 Period size: 38 Copynumber: 2.1 Consensus size: 38 851606 CTTAAGATAT * 851616 AAGA-ATAAGTGTACAAGTTCAGACTTAGTGATGGTTA 1 AAGATATAAGAGTACAAGTTCAGACTTAGTGATGGTTA 851653 AAGATATAAGAGTACAAGTTCAGACTTAGTGATGGTTA 1 AAGATATAAGAGTACAAGTTCAGACTTAGTGATGGTTA 851691 AA 1 AA 851693 AAAAATGACA Statistics Matches: 38, Mismatches: 1, Indels: 1 0.95 0.03 0.03 Matches are distributed among these distances: 37 4 0.11 38 34 0.89 ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29 Consensus pattern (38 bp): AAGATATAAGAGTACAAGTTCAGACTTAGTGATGGTTA Found at i:852729 original size:54 final size:53 Alignment explanation

Indices: 852568--853025 Score: 475 Period size: 53 Copynumber: 8.6 Consensus size: 53 852558 GGTAAGATAT * * * 852568 AAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACA 1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACA 852622 AAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACA 1 AAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACA * * * ** * * 852675 ATATTTAGTCAGAATTATGTGTATACAAAATGTAGACAGAGGTACATGTCTAC- 1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACA * * * * * 852728 -AA--TACGTCAGAAGTATGTGCATTCAATATGTAGTTAGAATTACGTGTATACA 1 AAATGTA-GTCAGAATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACA 852780 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACA 1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACA * * * 852834 AAATGTAGTCAGAATTAGTGTATACAATATTTAGTCAGAATTATGTGTATACA 1 AAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACA * ** * * * * * * 852887 AAATGTAGACAGAGGTACATGTCTAC--AA--TACGTCAGAAGTATGTGCATTCA 1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTA-GTCAGAATTACGTGTATACA * * 852938 ATATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACA 1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACA * * * * 852991 ATATTTAGTTAGAATTACGTGTATACAAAGTGTAG 1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTAG 853026 AAAGAAGTAT Statistics Matches: 341, Mismatches: 51, Indels: 25 0.82 0.12 0.06 Matches are distributed among these distances: 50 4 0.01 51 72 0.21 52 2 0.01 53 139 0.41 54 120 0.35 55 4 0.01 ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32 Consensus pattern (53 bp): AAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACA Found at i:852784 original size:78 final size:78 Alignment explanation

Indices: 852572--853034 Score: 366 Period size: 80 Copynumber: 5.9 Consensus size: 78 852562 AGATATAAAT * * * 852572 GTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAAT 1 GTAGTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAAG * 852637 TAGTGTATACAAAA 66 TAATGTATAC-AAA * * * * 852651 TGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGACAGAG 1 -GTAGTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAA * 852716 GTACATGTCTAC-AA 65 GTA-ATGTATACAAA * * * * * 852730 -TACGTCAGAAGTATGTGCATTCAATATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAA 1 GTA-GTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAA * * 852794 TTACGTGTATACAAAA 65 GTA-ATGTATAC-AAA * * * * * * 852810 TGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAATATTTAGTCAGAA 1 -GTAGTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAA * * 852874 TTATGTGTATACAAAA 65 GTA-ATGTATAC-AAA * * * * * * * * * 852890 TGTAGACAGAGGTACATGTC-TACAATA---CGTCAGAAGTATGTGCATTCAATATGTAGTTAGA 1 -GTAGTCAGAAGTACGTG-CATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGA * * 852951 ATTACGTGTATACAAAA 64 AGTA-ATGTATAC-AAA * * * * * ** 852968 TGTAGTCAGAATTA-GTGTATACAATATTTAGTTAGAATTACGTGTATACAAAGTGTAGAAAGAA 1 -GTAGTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAA 853032 GTA 65 GTA 853035 TGTGTATCTC Statistics Matches: 316, Mismatches: 55, Indels: 24 0.80 0.14 0.06 Matches are distributed among these distances: 77 20 0.06 78 106 0.34 79 2 0.01 80 149 0.47 81 37 0.12 82 2 0.01 ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32 Consensus pattern (78 bp): GTAGTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAAG TAATGTATACAAA Found at i:852789 original size:105 final size:105 Alignment explanation

Indices: 852568--853034 Score: 424 Period size: 107 Copynumber: 4.4 Consensus size: 105 852558 GGTAAGATAT * * * * ** 852568 AAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCA 1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTATAC-AAA-GTAGTCA * * * 852633 GAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACA 64 GAAGTAGTGCATACAATATGTAGTCAGAATTACGTGTATACA * * * * * 852675 ATATTTAGTCAGAATTATGTGTATACAAAATGTAGACAGAGGTACATGTCTAC-AA-TACGTCAG 1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTATACAAAGTA-GTCAG * * 852738 AAGTATGTGCATTCAATATGTAGTTAGAATTACGTGTATACA 65 AAGTA-GTGCATACAATATGTAGTCAGAATTACGTGTATACA * * * 852780 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCA 1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTATAC-AAA-GTAGTCA * * * * 852845 GAATTAGTGTATACAATATTTAGTCAGAATTATGTGTATACA 64 GAAGTAGTGCATACAATATGTAGTCAGAATTACGTGTATACA * ** * * * * ** * * * 852887 AAATGTAGACAGAGGTACATGTCTACAATACGT---CAGAAGTATGTGCATTCAATATGTAGTTA 1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTATACAA-A-GTAGTCA * * * 852949 GAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACA 64 GAAGTA-GTGCATACAATATGTAGTCAGAATTACGTGTATACA * * * * * 852991 ATATTTAGTTAGAATTACGTGTATACAAAGTGTAGAAAGAAGTA 1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTA 853035 TGTGTATCTC Statistics Matches: 293, Mismatches: 56, Indels: 22 0.79 0.15 0.06 Matches are distributed among these distances: 103 4 0.01 104 67 0.23 105 103 0.35 107 108 0.37 108 9 0.03 109 2 0.01 ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32 Consensus pattern (105 bp): AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTATACAAAGTAGTCAGA AGTAGTGCATACAATATGTAGTCAGAATTACGTGTATACA Found at i:852882 original size:185 final size:185 Alignment explanation

Indices: 852570--853025 Score: 817 Period size: 185 Copynumber: 2.5 Consensus size: 185 852560 TAAGATATAA * * * 852570 ATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGA 1 ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGA 852635 ATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTAT 65 ATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTAT 852699 ACAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAAT 130 ACAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAAT 852755 ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGA 1 ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGA 852820 ATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAATATTTAGTCAGAATTATGTGTAT 65 ATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTAT 852884 ACAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAAT 130 ACAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAAT * * * 852940 ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTAGTGTATACAATATTTAGTTAGAA 1 ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAA * 853005 TTACGTGTATACAAAGTGTAG 66 TTACGTGTATACAAAATGTAG 853026 AAAGAAGTAT Statistics Matches: 262, Mismatches: 8, Indels: 3 0.96 0.03 0.01 Matches are distributed among these distances: 184 40 0.15 185 196 0.75 186 26 0.10 ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32 Consensus pattern (185 bp): ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAA TTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATA CAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAAT Found at i:852887 original size:158 final size:159 Alignment explanation

Indices: 852593--853034 Score: 554 Period size: 158 Copynumber: 2.8 Consensus size: 159 852583 TACGTGTATA * 852593 CAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAAAATGTAGT 1 CAATATATAGTCAGAATTATGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGT * * 852657 CAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGACAGAGGTACAT 66 CAGAATTACGTGTATACAATATTTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACAT * * * * 852722 GTCTACAATACGTCAGA-AGTATGTGCAT-T 131 GTATACAAAACGT-AGACAG-AGGTACATGT * * * 852751 CAATATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGT 1 CAATATATAGTCAGAATTATGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGT * * * * * * ** 852816 CAGAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAATATTTAGTCAGAATTATGT 66 CAGAATTACGTGTATACAATATTTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACAT * 852880 GTATACAAAATGTAGACAGAGGTACATGT 131 GTATACAAAACGTAGACAGAGGTACATGT * * * * * * * 852909 CTACA-ATACGTCAGAAGTATGTGCATTCAATATGTAGTTAGAATTACGTGTATACAAAATGTAG 1 CAATATATA-GTCAGAATTATGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAG * * * 852973 TCAGAATTA-GTGTATACAATATTTAGTTAGAATTACGTGTATACAAAGTGTAGAAAGAAGTA 65 TCAGAATTACGTGTATACAATATTTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTA 853035 TGTGTATCTC Statistics Matches: 243, Mismatches: 36, Indels: 10 0.84 0.12 0.03 Matches are distributed among these distances: 157 34 0.14 158 158 0.65 159 51 0.21 ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32 Consensus pattern (159 bp): CAATATATAGTCAGAATTATGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGT CAGAATTACGTGTATACAATATTTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACAT GTATACAAAACGTAGACAGAGGTACATGT Found at i:852973 original size:212 final size:211 Alignment explanation

Indices: 852568--853025 Score: 571 Period size: 212 Copynumber: 2.2 Consensus size: 211 852558 GGTAAGATAT * * * 852568 AAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCA 1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCA * * * * ** 852633 GAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTA 66 GAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTA * * * * * * 852698 TACAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAATATGTAGTT 131 TACAAAACGTAGACAGAGGTACATGTCAACAATACGTCAGAAGTACGTGCATACAAAATGTAGTC 852763 AGAATTACGTGTATACA 196 AGAATTA-GTGTATACA 852780 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCA 1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCA * * * * * 852845 GAATTAGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGACAGAGGTACATGTC 66 GAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTA * * * * * * * * 852910 TACAATACGTCAGA-AGTATGTGCAT-TCAATATGTA-GTTAGAATTACGTGTATACAAAATGTA 131 TACAAAACGT-AGACAG-AGGTACATGTCAACA-ATACGTCAGAAGTACGTGCATACAAAATGTA 852972 GTCAGAATTAGTGTATACA 193 GTCAGAATTAGTGTATACA * * * * 852991 ATATTTAGTTAGAATTACGTGTATACAAAGTGTAG 1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAG 853026 AAAGAAGTAT Statistics Matches: 211, Mismatches: 32, Indels: 7 0.84 0.13 0.03 Matches are distributed among these distances: 211 40 0.19 212 160 0.76 213 11 0.05 ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32 Consensus pattern (211 bp): AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCA GAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTA TACAAAACGTAGACAGAGGTACATGTCAACAATACGTCAGAAGTACGTGCATACAAAATGTAGTC AGAATTAGTGTATACA Found at i:853041 original size:27 final size:27 Alignment explanation

Indices: 852568--853025 Score: 506 Period size: 27 Copynumber: 17.3 Consensus size: 27 852558 GGTAAGATAT 852568 AAATGTAGTCAGAATTACGTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA * * * 852595 ATATTTAGTCAGAATTATGTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA 852622 AAATGTAGTCAGAATTA-GTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA 852648 AAATGTAGTCAGAATTACGTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA * * * 852675 ATATTTAGTCAGAATTATGTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA * ** * * 852702 AAATGTAGACAGAGGTACATGTCTAC- 1 AAATGTAGTCAGAATTACGTGTATACA * * * * 852728 -AA--TACGTCAGAAGTATGTGCATTCA 1 AAATGTA-GTCAGAATTACGTGTATACA * * 852753 ATATGTAGTTAGAATTACGTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA 852780 AAATGTAGTCAGAATTACGTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA 852807 AAATGTAGTCAGAATTACGTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA 852834 AAATGTAGTCAGAATTA-GTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA * * * 852860 ATATTTAGTCAGAATTATGTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA * ** * * 852887 AAATGTAGACAGAGGTACATGTCTAC- 1 AAATGTAGTCAGAATTACGTGTATACA * * * * 852913 -AA--TACGTCAGAAGTATGTGCATTCA 1 AAATGTA-GTCAGAATTACGTGTATACA * * 852938 ATATGTAGTTAGAATTACGTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA 852965 AAATGTAGTCAGAATTA-GTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA * * * 852991 ATATTTAGTTAGAATTACGTGTATACA 1 AAATGTAGTCAGAATTACGTGTATACA * 853018 AAGTGTAG 1 AAATGTAG 853026 AAAGAAGTAT Statistics Matches: 356, Mismatches: 62, Indels: 26 0.80 0.14 0.06 Matches are distributed among these distances: 23 4 0.01 24 24 0.07 25 4 0.01 26 75 0.21 27 245 0.69 28 4 0.01 ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32 Consensus pattern (27 bp): AAATGTAGTCAGAATTACGTGTATACA Found at i:855857 original size:22 final size:22 Alignment explanation

Indices: 855816--855857 Score: 66 Period size: 22 Copynumber: 1.9 Consensus size: 22 855806 TCCATCCTGT * * 855816 GTTAGGTGAACTGATTCTCCTC 1 GTTAGGTGAACTAATACTCCTC 855838 GTTAGGTGAACTAATACTCC 1 GTTAGGTGAACTAATACTCC 855858 CCAATTAAAA Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 22 18 1.00 ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33 Consensus pattern (22 bp): GTTAGGTGAACTAATACTCCTC Found at i:860789 original size:10 final size:10 Alignment explanation

Indices: 860774--860813 Score: 71 Period size: 10 Copynumber: 3.9 Consensus size: 10 860764 AATCCCCTGA 860774 AACTTAGCTT 1 AACTTAGCTT 860784 AACTTAGCTT 1 AACTTAGCTT 860794 AAACTTAGCTT 1 -AACTTAGCTT 860805 AACTTAGCT 1 AACTTAGCT 860814 GTGTAACAGT Statistics Matches: 29, Mismatches: 0, Indels: 2 0.94 0.00 0.06 Matches are distributed among these distances: 10 19 0.66 11 10 0.34 ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38 Consensus pattern (10 bp): AACTTAGCTT Found at i:860799 original size:21 final size:21 Alignment explanation

Indices: 860773--860813 Score: 82 Period size: 21 Copynumber: 2.0 Consensus size: 21 860763 CAATCCCCTG 860773 AAACTTAGCTTAACTTAGCTT 1 AAACTTAGCTTAACTTAGCTT 860794 AAACTTAGCTTAACTTAGCT 1 AAACTTAGCTTAACTTAGCT 860814 GTGTAACAGT Statistics Matches: 20, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 21 20 1.00 ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37 Consensus pattern (21 bp): AAACTTAGCTTAACTTAGCTT Found at i:865397 original size:2 final size:2 Alignment explanation

Indices: 865390--865425 Score: 56 Period size: 2 Copynumber: 18.5 Consensus size: 2 865380 TATTTCAAGC * 865390 AG AG AG AG AG AA AG AG AG AG AG AG AG AG -G AG AG AG A 1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A 865426 TTATTGAAGC Statistics Matches: 31, Mismatches: 2, Indels: 2 0.89 0.06 0.06 Matches are distributed among these distances: 1 1 0.03 2 30 0.97 ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00 Consensus pattern (2 bp): AG Found at i:867655 original size:37 final size:37 Alignment explanation

Indices: 867605--867677 Score: 119 Period size: 37 Copynumber: 2.0 Consensus size: 37 867595 TTGACGGCGA ** * 867605 AGTTTACAGGGAGACGCCACTAGATCCGCGCGCGGAT 1 AGTTTACAGGGAGACGCCAAGAGATCCGCACGCGGAT 867642 AGTTTACAGGGAGACGCCAAGAGATCCGCACGCGGA 1 AGTTTACAGGGAGACGCCAAGAGATCCGCACGCGGA 867678 CCGTCAGATG Statistics Matches: 33, Mismatches: 3, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 37 33 1.00 ACGTcount: A:0.27, C:0.26, G:0.33, T:0.14 Consensus pattern (37 bp): AGTTTACAGGGAGACGCCAAGAGATCCGCACGCGGAT Found at i:873593 original size:14 final size:16 Alignment explanation

Indices: 873563--873594 Score: 50 Period size: 14 Copynumber: 2.1 Consensus size: 16 873553 CCGGAAATCA 873563 AAATGCTTTGCCCATT 1 AAATGCTTTGCCCATT 873579 AAAT-CTTTG-CCATT 1 AAATGCTTTGCCCATT 873593 AA 1 AA 873595 CTGAATCATA Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 14 7 0.44 15 5 0.31 16 4 0.25 ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38 Consensus pattern (16 bp): AAATGCTTTGCCCATT Found at i:873877 original size:61 final size:61 Alignment explanation

Indices: 873812--873935 Score: 187 Period size: 61 Copynumber: 2.0 Consensus size: 61 873802 ACCAACAGAA * * 873812 ACTGAATTCATAATTATATATCAGTAATGTTATAAATTCC-TAAGCACTACATCATTGTCCC 1 ACTGAATTAATAATTACATATCAGTAATGTTATAAATTCCAT-AGCACTACATCATTGTCCC * ** 873873 ACTGAATTAATAATTACATATCAGTAGTGTTATAAATTCCATAGCACTATTTCATTGTCCC 1 ACTGAATTAATAATTACATATCAGTAATGTTATAAATTCCATAGCACTACATCATTGTCCC 873934 AC 1 AC 873936 ATTAAGCATG Statistics Matches: 57, Mismatches: 5, Indels: 2 0.89 0.08 0.03 Matches are distributed among these distances: 61 56 0.98 62 1 0.02 ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36 Consensus pattern (61 bp): ACTGAATTAATAATTACATATCAGTAATGTTATAAATTCCATAGCACTACATCATTGTCCC Found at i:874425 original size:21 final size:21 Alignment explanation

Indices: 874401--874442 Score: 75 Period size: 21 Copynumber: 2.0 Consensus size: 21 874391 ACCAACCAGT 874401 GTGGAGAAGTACTAATACTTG 1 GTGGAGAAGTACTAATACTTG * 874422 GTGGAGTAGTACTAATACTTG 1 GTGGAGAAGTACTAATACTTG 874443 TTTGATGGTA Statistics Matches: 20, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 21 20 1.00 ACGTcount: A:0.31, C:0.10, G:0.29, T:0.31 Consensus pattern (21 bp): GTGGAGAAGTACTAATACTTG Found at i:874500 original size:66 final size:66 Alignment explanation

Indices: 874423--874811 Score: 646 Period size: 66 Copynumber: 6.0 Consensus size: 66 874413 TAATACTTGG * * * 874423 TGGAGTAGTACTAATACTTGTTTGATGGTACTCATATACTGACCAGTAAGAGTATACCAACCAGT 1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 874488 C 66 C * 874489 TGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 874554 C 66 C 874555 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 874620 C 66 C * * 874621 TGGAGTAGTACTAATACTTGGTCGATGGTA--CATACACTGACCAGT-AG-G-A-ACCAACCAGT 1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 874680 C 66 C * * * 874681 TGGAGAAGTACTATTACTTGGTTTATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 874746 C 66 C * 874747 TGGAGAAGTACTAATACTTGGTTGGTGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 874812 GGGTACTGGT Statistics Matches: 301, Mismatches: 16, Indels: 12 0.91 0.05 0.04 Matches are distributed among these distances: 60 36 0.12 61 1 0.00 62 16 0.05 63 4 0.01 64 16 0.05 65 1 0.00 66 227 0.75 ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27 Consensus pattern (66 bp): TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT C Found at i:874509 original size:87 final size:86 Alignment explanation

Indices: 874358--874525 Score: 282 Period size: 87 Copynumber: 1.9 Consensus size: 86 874348 AGGACTTAAC * 874358 TGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGTGTGGAGAAGTACTAATACTTGG 1 TGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGTCTGGAGAAGTACTAATACTTGG 874423 TGGAGTAGTACTAATACTTGTT 66 TGGA-TAGTACTAATACTTGTT * * 874445 TGATGGTACTCATATACTGACCAGTAAGAGTATACCAACCAGTCTGGAGAAGTACTAATACTTGG 1 TGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGTCTGGAGAAGTACTAATACTTGG * * 874510 TTGATAGTACTCATAC 66 TGGATAGTACTAATAC 874526 ACTGACCAGT Statistics Matches: 76, Mismatches: 5, Indels: 1 0.93 0.06 0.01 Matches are distributed among these distances: 86 11 0.14 87 65 0.86 ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29 Consensus pattern (86 bp): TGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGTCTGGAGAAGTACTAATACTTGG TGGATAGTACTAATACTTGTT Found at i:874724 original size:126 final size:130 Alignment explanation

Indices: 874423--874811 Score: 617 Period size: 126 Copynumber: 3.0 Consensus size: 130 874413 TAATACTTGG * * 874423 TGGAGTAGTACTAATACTT-GTTTGATGGTACTCATATACTGACCAGTAAGAGTATACCAACCAG 1 TGGAGAAGTACTAATACTTGGTTT-ATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAG * 874487 TCTGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCA 65 TCTGGAGAAGTACTAATACTTGGTTGATGGTAC-CATACACTGACCAGT-AGAGTATACCAACCA 874552 GTC 128 GTC * 874555 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 1 TGGAGAAGTACTAATACTTGGTTTATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT * * 874620 CTGGAGTAGTACTAATACTTGGTCGATGGTA-CATACACTGACCAGTAG-G-A-ACCAACCAGTC 66 CTGGAGAAGTACTAATACTTGGTTGATGGTACCATACACTGACCAGTAGAGTATACCAACCAGTC * * 874681 TGGAGAAGTACTATTACTTGGTTTATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 1 TGGAGAAGTACTAATACTTGGTTTATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT * 874746 CTGGAGAAGTACTAATACTTGGTTGGTGGTACTCATACACTGACCAGTAAGAGTATACCAACCAG 66 CTGGAGAAGTACTAATACTTGGTTGATGGTAC-CATACACTGACCAGT-AGAGTATACCAACCAG 874811 T 129 T 874812 GGGTACTGGT Statistics Matches: 238, Mismatches: 12, Indels: 14 0.90 0.05 0.05 Matches are distributed among these distances: 126 101 0.42 127 1 0.00 128 16 0.07 129 4 0.02 130 16 0.07 131 1 0.00 132 96 0.40 133 3 0.01 ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27 Consensus pattern (130 bp): TGGAGAAGTACTAATACTTGGTTTATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT CTGGAGAAGTACTAATACTTGGTTGATGGTACCATACACTGACCAGTAGAGTATACCAACCAGTC Found at i:874756 original size:192 final size:197 Alignment explanation

Indices: 874423--874811 Score: 680 Period size: 192 Copynumber: 2.0 Consensus size: 197 874413 TAATACTTGG * * * 874423 TGGAGTAGTACTAATACTTGTTTGATGGTACTCATATACTGACCAGTAAGAGTATACCAACCAGT 1 TGGAGTAGTACTAATACTTGGTCGATGGTAC-CATACACTGACCAGTAAGAGTATACCAACCAGT 874488 CTGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAG 65 CTGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAG 874553 TCTGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCA 130 TCTGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCA 874618 GTC 195 GTC 874621 TGGAGTAGTACTAATACTTGGTCGATGGTA-CATACACTGACCAGT-AG-G-A-ACCAACCAGTC 1 TGGAGTAGTACTAATACTTGGTCGATGGTACCATACACTGACCAGTAAGAGTATACCAACCAGTC * * 874681 TGGAGAAGTACTATTACTTGGTTTATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT 66 TGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT * 874746 CTGGAGAAGTACTAATACTTGGTTGGTGGTACTCATACACTGACCAGTAAGAGTATACCAACCAG 131 CTGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAG 874811 T 196 T 874812 GGGTACTGGT Statistics Matches: 185, Mismatches: 6, Indels: 6 0.94 0.03 0.03 Matches are distributed among these distances: 192 139 0.75 193 1 0.01 194 1 0.01 195 2 0.01 196 14 0.08 198 28 0.15 ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27 Consensus pattern (197 bp): TGGAGTAGTACTAATACTTGGTCGATGGTACCATACACTGACCAGTAAGAGTATACCAACCAGTC TGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT CTGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAG TC Found at i:877414 original size:53 final size:53 Alignment explanation

Indices: 877334--877811 Score: 875 Period size: 53 Copynumber: 9.0 Consensus size: 53 877324 ATGTGCTCCT 877334 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA 1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA 877387 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA 1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA * * 877440 ACAGGGTTAAAGTATCGTAGCATGATGATGTTCCAGTCCTACAAACAATCACA 1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA 877493 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA 1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA * * 877546 ACAGGGTTAAAGTATCATAGCATGATGATGTTCCAGTCCTACAAACATTCACA 1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA 877599 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA 1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA * * * 877652 ACAGGGTTAAAGTATCGTAGCATGATGATGTTCCAATCCTACAAACAATCACA 1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA 877705 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA 1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA * * 877758 ACAGGGTTAAAGTATCGTAGCATGATGATGTTCCAGTCCTACAAATATTCACA 1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA 877811 A 1 A 877812 TTTGTAGCTC Statistics Matches: 409, Mismatches: 16, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 53 409 1.00 ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26 Consensus pattern (53 bp): ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA Found at i:880692 original size:1 final size:1 Alignment explanation

Indices: 880686--880711 Score: 52 Period size: 1 Copynumber: 26.0 Consensus size: 1 880676 TTGACCCATG 880686 CCCCCCCCCCCCCCCCCCCCCCCCCC 1 CCCCCCCCCCCCCCCCCCCCCCCCCC 880712 AATGATTAAT Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 25 1.00 ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00 Consensus pattern (1 bp): C Found at i:883006 original size:161 final size:161 Alignment explanation

Indices: 882705--883011 Score: 393 Period size: 161 Copynumber: 1.9 Consensus size: 161 882695 GATAAACATA ** 882705 TTGAAATGAAATTTGATATTCAGGTTTATCATGATAATATCAAGGTCAAGTTCGATATTGGGTAC 1 TTGAAATGAAATTTGATATAAAGGTTTATCATGATAATATCAAGGTCAAGTTCGATATTGGGTAC * * * * * 882770 AATCGAGCAATTTTTGACAGAGTTATGGCTCTTGGACTGAGAAAAATTCAAGTTATGTACAGTTT 66 AATAGAGCAATTTTCGACAGAGTTATGCCGCTTGGACTGAGAAAAATTCAAGATATGTACAGTTT * 882835 CCGCTCATTTTCTTTGCAGAGAGGGCAAATT 131 ACGCTCATTTTCTTTGCAGAGAGGGCAAATT * * * * * * 882866 TTGATATGAAATTTGGTATAAAGGTTTTTC-TAGATAATATCTAGGTCAAGTTTGATTTTGGGTA 1 TTGAAATGAAATTTGATATAAAGGTTTATCAT-GATAATATCAAGGTCAAGTTCGATATTGGGTA ** * * * 882930 TGATAGAGCAATTTTCGACAGAGTTATGCCGCTTGGACTTAGAAAAATTCCAA-ATATTTGCAGT 65 CAATAGAGCAATTTTCGACAGAGTTATGCCGCTTGGACTGAGAAAAATT-CAAGATATGTACAGT * * 882994 TTATGTTCATTTTCTTTG 129 TTACGCTCATTTTCTTTG 883012 TGGATGTTTC Statistics Matches: 123, Mismatches: 21, Indels: 4 0.83 0.14 0.03 Matches are distributed among these distances: 160 1 0.01 161 119 0.97 162 3 0.02 ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38 Consensus pattern (161 bp): TTGAAATGAAATTTGATATAAAGGTTTATCATGATAATATCAAGGTCAAGTTCGATATTGGGTAC AATAGAGCAATTTTCGACAGAGTTATGCCGCTTGGACTGAGAAAAATTCAAGATATGTACAGTTT ACGCTCATTTTCTTTGCAGAGAGGGCAAATT Found at i:883771 original size:28 final size:28 Alignment explanation

Indices: 883720--884232 Score: 812 Period size: 28 Copynumber: 18.1 Consensus size: 28 883710 AAATGTACAC * 883720 ACTGGTATATTAT-CATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT 883747 ACTGGTATATTGTACATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT 883775 ACTGGTATATTGTACATCTTACTGTACAT 1 ACTGGTATATTGTACATCTTACTGT-CAT * 883804 ACTGGCATATTGTACATCTTACTGTACAT 1 ACTGGTATATTGTACATCTTACTGT-CAT * 883833 ACTGGCATATTGTACATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT * 883861 ACTAGTATATTGTACATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT 883889 ACTGGTATATTGTACATCTTACTGTACAT 1 ACTGGTATATTGTACATCTTACTGT-CAT 883918 ACTGGTATATTGTACATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT * 883946 ACTAGTATATTGTACATCTTACTGTACAT 1 ACTGGTATATTGTACATCTTACTGT-CAT * 883975 ACTGGTATAATGTACATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT * 884003 ACTGCTATATTGTACATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT * 884031 ACTGCTATATTGTACATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT * * 884059 ATTAGTATATTGTACATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT * * 884087 ACTGCTATATTGTACATCTTTCTGTACAT 1 ACTGGTATATTGTACATCTTACTGT-CAT * 884116 ACTGGTATATTGTACATCTTTCTGTACAT 1 ACTGGTATATTGTACATCTTACTGT-CAT * 884145 ACTGGTATAATGTACATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT * * 884173 ACTGCTATATTGTACATCTTTCTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT * 884201 ACTAGTATATTGTACATCTTACTGTCAT 1 ACTGGTATATTGTACATCTTACTGTCAT 884229 ACTG 1 ACTG 884233 TCAATGAGAT Statistics Matches: 454, Mismatches: 27, Indels: 9 0.93 0.06 0.02 Matches are distributed among these distances: 27 12 0.03 28 278 0.61 29 164 0.36 ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42 Consensus pattern (28 bp): ACTGGTATATTGTACATCTTACTGTCAT Found at i:883819 original size:17 final size:17 Alignment explanation

Indices: 883797--883849 Score: 62 Period size: 17 Copynumber: 3.4 Consensus size: 17 883787 TACATCTTAC 883797 TGTACATACTGGCATAT 1 TGTACATACTGGCATAT * 883814 TGTACAT-CT----TAC 1 TGTACATACTGGCATAT 883826 TGTACATACTGGCATAT 1 TGTACATACTGGCATAT 883843 TGTACAT 1 TGTACAT 883850 CTTACTGTCA Statistics Matches: 29, Mismatches: 2, Indels: 10 0.71 0.05 0.24 Matches are distributed among these distances: 12 9 0.31 13 2 0.07 16 2 0.07 17 16 0.55 ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38 Consensus pattern (17 bp): TGTACATACTGGCATAT Found at i:883912 original size:114 final size:113 Alignment explanation

Indices: 883724--884232 Score: 803 Period size: 114 Copynumber: 4.5 Consensus size: 113 883714 GTACACACTG * * 883724 GTATATTAT-CATCTTACTGTCATACTGGTATATTGTACATCTTACTGTCATACTGGTATATTGT 1 GTATATTGTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTCATACTGGTATATTGT * 883788 ACATCTTACTGTACATACTGGCATATTGTACATCTTACTGTACATACTG 66 ACATCTTACTGTACATACTGGCATATTGTACATCTTACTGT-CATACTA * 883837 GCATATTGTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTCATACTGGTATATTGT 1 GTATATTGTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTCATACTGGTATATTGT * 883902 ACATCTTACTGTACATACTGGTATATTGTACATCTTACTGTCATACTA 66 ACATCTTACTGTACATACTGGCATATTGTACATCTTACTGTCATACTA * * * 883950 GTATATTGTACATCTTACTGTACATACTGGTATAATGTACATCTTACTGTCATACTGCTATATTG 1 GTATATTGTACATCTTACTGT-CATACTAGTATATTGTACATCTTACTGTCATACTGGTATATTG * 884015 TACATCTTACTGT-CATACT-GCTATATTGTACATCTTACTGTCATATTA 65 TACATCTTACTGTACATACTGGC-ATATTGTACATCTTACTGTCATACTA * 884063 GTATATTGTACATCTTACTGTCATACT-GCTATATTGTACATCTTTCTGTACATACTGGTATATT 1 GTATATTGTACATCTTACTGTCATACTAG-TATATTGTACATCTTACTGT-CATACTGGTATATT * * * 884127 GTACATCTTTCTGTACATACTGGTATAATGTACATCTTACTGTCATACT- 64 GTACATCTTACTGTACATACTGGCATATTGTACATCTTACTGTCATACTA * 884176 GCTATATTGTACATCTTTCTGTCATACTAGTATATTGTACATCTTACTGTCATACTG 1 G-TATATTGTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTCATACTG 884233 TCAATGAGAT Statistics Matches: 367, Mismatches: 20, Indels: 18 0.91 0.05 0.04 Matches are distributed among these distances: 111 1 0.00 112 25 0.07 113 119 0.32 114 220 0.60 115 2 0.01 ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42 Consensus pattern (113 bp): GTATATTGTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTCATACTGGTATATTGT ACATCTTACTGTACATACTGGCATATTGTACATCTTACTGTCATACTA Found at i:883989 original size:142 final size:139 Alignment explanation

Indices: 883724--884233 Score: 815 Period size: 142 Copynumber: 3.6 Consensus size: 139 883714 GTACACACTG * * * 883724 GTATATTAT-CATCTTACTGTCATACTGGTATATTGTACATCTTACTGTCATACTGGTATATTGT 1 GTATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGTCATACTAGTATATTGT * * 883788 ACATCTTACTGTACATACTGGCATATTGTACATCTTACTGTACATACTGGCATATTGTACATCTT 66 ACATCTTACTGT-CATACT-GTATATTGTACATCTTACTGTACATACTGGTATATTGTACATCTT 883853 ACTGTCATACT 129 ACTGTCATACT * * 883864 AGTATATTGTACATCTTACTGTCATACTGGTATATTGTACATCTTACTGTACATACTGGTATATT 1 -GTATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGT-CATACTAGTATATT * 883929 GTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTACATACTGGTATAATGTACATCT 64 GTACATCTTACTGTCATACT-GTATATTGTACATCTTACTGTACATACTGGTATATTGTACATCT 883994 TACTGTCATACT 128 TACTGTCATACT * 884006 GCTATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGTCATATTAGTATATTG 1 G-TATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGTCATACTAGTATATTG * 884071 TACATCTTACTGTCATACTGCTATATTGTACATCTTTCTGTACATACTGGTATATTGTACATCTT 65 TACATCTTACTGTCATACTG-TATATTGTACATCTTACTGTACATACTGGTATATTGTACATCTT * 884136 TCTGTACATACT 129 ACTGT-CATACT * * 884148 GGTATAATGTACATCTTACTGTCATACTGCTATATTGTACATCTTTCTGTCATACTAGTATATTG 1 -GTATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGTCATACTAGTATATTG 884213 TACATCTTACTGTCATACTGT 65 TACATCTTACTGTCATACTGT 884234 CAATGAGATT Statistics Matches: 349, Mismatches: 14, Indels: 12 0.93 0.04 0.03 Matches are distributed among these distances: 140 1 0.00 141 88 0.25 142 231 0.66 143 29 0.08 ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43 Consensus pattern (139 bp): GTATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGTCATACTAGTATATTGT ACATCTTACTGTCATACTGTATATTGTACATCTTACTGTACATACTGGTATATTGTACATCTTAC TGTCATACT Done.