Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Gbar_A03 Parameters: 2 7 7 80 10 50 1000 Pmatch=0.80,Pindel=0.10 tuple sizes 0,4,5,7 tuple distances 0, 29, 159, 1000 Length: 105315579 ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32 Warning! 1369460 characters in sequence are not A, C, G, or T File 12 of 325 Found at i:3610374 original size:16 final size:18 Alignment explanation
Indices: 3610340--3610380 Score: 50 Period size: 19 Copynumber: 2.3 Consensus size: 18 3610330 TGTTTTATAT 3610340 ATATATATTATTATGTTAA 1 ATATATATTA-TATGTTAA 3610359 ATATATATTA-AT-TTAA 1 ATATATATTATATGTTAA * 3610375 AAATAT 1 ATATAT 3610381 CAACTAATTT Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 16 9 0.43 17 2 0.10 19 10 0.48 ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49 Consensus pattern (18 bp): ATATATATTATATGTTAA Found at i:3610555 original size:15 final size:15 Alignment explanation
Indices: 3610537--3610600 Score: 51 Period size: 15 Copynumber: 4.3 Consensus size: 15 3610527 GTAAATTTGA 3610537 ATATATAAAATAATT 1 ATATATAAAATAATT * * 3610552 ATATTTGAAATAATT 1 ATATATAAAATAATT * * 3610567 AT-T-TGAAATATTT 1 ATATATAAAATAATT * 3610580 CACATATAAAAATAATT 1 -ATATAT-AAAATAATT 3610597 ATAT 1 ATAT 3610601 TTGAGATATT Statistics Matches: 38, Mismatches: 7, Indels: 7 0.73 0.13 0.13 Matches are distributed among these distances: 13 9 0.24 14 2 0.05 15 16 0.42 16 4 0.11 17 7 0.18 ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42 Consensus pattern (15 bp): ATATATAAAATAATT Found at i:3610593 original size:30 final size:32 Alignment explanation
Indices: 3610559--3610621 Score: 85 Period size: 32 Copynumber: 2.0 Consensus size: 32 3610549 ATTATATTTG 3610559 AAATAA-T-TATTTGAAATATTTCACATATAA 1 AAATAATTATATTTGAAATATTTCACATATAA * * * 3610589 AAATAATTATATTTGAGATATTTTATATATAA 1 AAATAATTATATTTGAAATATTTCACATATAA 3610621 A 1 A 3610622 TTTAAAATAG Statistics Matches: 28, Mismatches: 3, Indels: 2 0.85 0.09 0.06 Matches are distributed among these distances: 30 6 0.21 31 1 0.04 32 21 0.75 ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43 Consensus pattern (32 bp): AAATAATTATATTTGAAATATTTCACATATAA Found at i:3623169 original size:16 final size:17 Alignment explanation
Indices: 3623141--3623173 Score: 59 Period size: 16 Copynumber: 2.0 Consensus size: 17 3623131 AAATAGATTT 3623141 TTAATTAAAAATTTTAA 1 TTAATTAAAAATTTTAA 3623158 TTAATT-AAAATTTTAA 1 TTAATTAAAAATTTTAA 3623174 ACCTAAACCT Statistics Matches: 16, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 16 10 0.62 17 6 0.38 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (17 bp): TTAATTAAAAATTTTAA Found at i:3625228 original size:28 final size:28 Alignment explanation
Indices: 3625197--3625253 Score: 105 Period size: 28 Copynumber: 2.0 Consensus size: 28 3625187 AAAATTATTG 3625197 ATGAAAATAGAAATGGTTAGCATTAATA 1 ATGAAAATAGAAATGGTTAGCATTAATA * 3625225 ATGAAAATAGAGATGGTTAGCATTAATA 1 ATGAAAATAGAAATGGTTAGCATTAATA 3625253 A 1 A 3625254 GTTAGAATTA Statistics Matches: 28, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 28 28 1.00 ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28 Consensus pattern (28 bp): ATGAAAATAGAAATGGTTAGCATTAATA Found at i:3626076 original size:30 final size:30 Alignment explanation
Indices: 3626010--3626076 Score: 73 Period size: 30 Copynumber: 2.2 Consensus size: 30 3626000 AACTTAAATG * ** 3626010 AAAACTTTTTTGTAGTTCAGTAACCAAATT 1 AAAACTTTTTTGTAGTTAAGTAACCAAACA ** 3626040 GTAACTTTTTT-TAGTTAAGTAACCAAAACA 1 AAAACTTTTTTGTAGTTAAGTAACC-AAACA 3626070 AAAACTT 1 AAAACTT 3626077 ATCAATAATT Statistics Matches: 29, Mismatches: 7, Indels: 2 0.76 0.18 0.05 Matches are distributed among these distances: 29 12 0.41 30 17 0.59 ACGTcount: A:0.40, C:0.13, G:0.09, T:0.37 Consensus pattern (30 bp): AAAACTTTTTTGTAGTTAAGTAACCAAACA Found at i:3627148 original size:48 final size:48 Alignment explanation
Indices: 3627093--3627190 Score: 196 Period size: 48 Copynumber: 2.0 Consensus size: 48 3627083 AGGTTGGTAG 3627093 AATCCTAGTTGAAGTGGTAGAATACAAATAATATTATTTTAATAGAAA 1 AATCCTAGTTGAAGTGGTAGAATACAAATAATATTATTTTAATAGAAA 3627141 AATCCTAGTTGAAGTGGTAGAATACAAATAATATTATTTTAATAGAAA 1 AATCCTAGTTGAAGTGGTAGAATACAAATAATATTATTTTAATAGAAA 3627189 AA 1 AA 3627191 ATCTCTAACT Statistics Matches: 50, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 48 50 1.00 ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33 Consensus pattern (48 bp): AATCCTAGTTGAAGTGGTAGAATACAAATAATATTATTTTAATAGAAA Found at i:3629190 original size:23 final size:23 Alignment explanation
Indices: 3629164--3629284 Score: 88 Period size: 23 Copynumber: 5.2 Consensus size: 23 3629154 ATTTTAGGTG 3629164 TTTGTCTTCCACAATTTTAAGGA 1 TTTGTCTTCCACAATTTTAAGGA * * * 3629187 TTTGT-TTAGCTAAAATTTTAGGTGA 1 TTTGTCTT--CCACAATTTTAAG-GA * 3629212 -TTGTCTTCCATAATTTTAAGGA 1 TTTGTCTTCCACAATTTTAAGGA ** * 3629234 TTTGTTCGGCTA-AATTTT-AGGCA 1 TTTG-TCTTCCACAATTTTAAGG-A * * 3629257 TTTTTCTTCCACAATTTTAAGGG 1 TTTGTCTTCCACAATTTTAAGGA 3629280 TTTGT 1 TTTGT 3629285 TTCTCTTTTA Statistics Matches: 74, Mismatches: 15, Indels: 18 0.69 0.14 0.17 Matches are distributed among these distances: 22 11 0.15 23 38 0.51 24 21 0.28 25 4 0.05 ACGTcount: A:0.24, C:0.12, G:0.17, T:0.47 Consensus pattern (23 bp): TTTGTCTTCCACAATTTTAAGGA Found at i:3629217 original size:47 final size:46 Alignment explanation
Indices: 3629149--3629286 Score: 188 Period size: 47 Copynumber: 3.0 Consensus size: 46 3629139 TGCAGGTTAG * 3629149 GCTAAATTTTAGGTGTTTGTCTTCCACAATTTTAAGGATTTGTTTA 1 GCTAAATTTTAGGTGATTGTCTTCCACAATTTTAAGGATTTGTTTA * ** 3629195 GCTAAAATTTTAGGTGATTGTCTTCCATAATTTTAAGGATTTGTTCG 1 GCT-AAATTTTAGGTGATTGTCTTCCACAATTTTAAGGATTTGTTTA * * * 3629242 GCTAAATTTTAGG-CATTTTTCTTCCACAATTTTAAGGGTTTGTTT 1 GCTAAATTTTAGGTGA-TTGTCTTCCACAATTTTAAGGATTTGTTT 3629287 CTCTTTTATC Statistics Matches: 81, Mismatches: 9, Indels: 4 0.86 0.10 0.04 Matches are distributed among these distances: 45 1 0.01 46 38 0.47 47 42 0.52 ACGTcount: A:0.24, C:0.12, G:0.17, T:0.47 Consensus pattern (46 bp): GCTAAATTTTAGGTGATTGTCTTCCACAATTTTAAGGATTTGTTTA Found at i:3630666 original size:9 final size:9 Alignment explanation
Indices: 3630652--3630686 Score: 52 Period size: 9 Copynumber: 3.9 Consensus size: 9 3630642 TTATTTATCC 3630652 AATTAATTA 1 AATTAATTA * 3630661 AATTAATTG 1 AATTAATTA * 3630670 AATTAACTA 1 AATTAATTA 3630679 AATTAATT 1 AATTAATT 3630687 TCTTAATTAA Statistics Matches: 22, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 9 22 1.00 ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43 Consensus pattern (9 bp): AATTAATTA Found at i:3630673 original size:18 final size:18 Alignment explanation
Indices: 3630652--3630686 Score: 61 Period size: 18 Copynumber: 1.9 Consensus size: 18 3630642 TTATTTATCC * 3630652 AATTAATTAAATTAATTG 1 AATTAACTAAATTAATTG 3630670 AATTAACTAAATTAATT 1 AATTAACTAAATTAATT 3630687 TCTTAATTAA 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:0.51, C:0.03, G:0.03, T:0.43 Consensus pattern (18 bp): AATTAACTAAATTAATTG Found at i:3631666 original size:17 final size:17 Alignment explanation
Indices: 3631644--3631679 Score: 72 Period size: 17 Copynumber: 2.1 Consensus size: 17 3631634 GACTTAAAAG 3631644 TAACAATGTTAACTTTT 1 TAACAATGTTAACTTTT 3631661 TAACAATGTTAACTTTT 1 TAACAATGTTAACTTTT 3631678 TA 1 TA 3631680 GTGTTTAATT Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 19 1.00 ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47 Consensus pattern (17 bp): TAACAATGTTAACTTTT Found at i:3634210 original size:34 final size:35 Alignment explanation
Indices: 3634166--3634232 Score: 100 Period size: 34 Copynumber: 1.9 Consensus size: 35 3634156 CAGTAAAATA * 3634166 TTTTCCGTAAAATGATCT-CTGGAAAATGTTTTAC 1 TTTTCCGTAAAATGATCTACTGGAAAATATTTTAC * * 3634200 TTTTCTGTAAAATGATTTACTGGAAAATATTTT 1 TTTTCCGTAAAATGATCTACTGGAAAATATTTT 3634233 CTGGTGTTTG Statistics Matches: 29, Mismatches: 3, Indels: 1 0.88 0.09 0.03 Matches are distributed among these distances: 34 16 0.55 35 13 0.45 ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45 Consensus pattern (35 bp): TTTTCCGTAAAATGATCTACTGGAAAATATTTTAC Found at i:3634211 original size:20 final size:20 Alignment explanation
Indices: 3634183--3634220 Score: 58 Period size: 20 Copynumber: 1.9 Consensus size: 20 3634173 TAAAATGATC * 3634183 TCTGGAAAATGTTTTACTTT 1 TCTGGAAAATGATTTACTTT * 3634203 TCTGTAAAATGATTTACT 1 TCTGGAAAATGATTTACT 3634221 GGAAAATATT Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 20 16 1.00 ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47 Consensus pattern (20 bp): TCTGGAAAATGATTTACTTT Found at i:3644058 original size:40 final size:40 Alignment explanation
Indices: 3644013--3644088 Score: 100 Period size: 40 Copynumber: 1.9 Consensus size: 40 3644003 TTACACCATG * * 3644013 TGGGGATAGAATCGACCCA-CCTAACCTTACACACCAAGTA 1 TGGGGATAGAATCAACCCATCC-AACCCTACACACCAAGTA ** 3644053 TGGGGATTTAATCAACCCATCCAACCCTACACACCA 1 TGGGGATAGAATCAACCCATCCAACCCTACACACCA 3644089 TAAGGTACCG Statistics Matches: 31, Mismatches: 4, Indels: 2 0.84 0.11 0.05 Matches are distributed among these distances: 40 29 0.94 41 2 0.06 ACGTcount: A:0.34, C:0.33, G:0.14, T:0.18 Consensus pattern (40 bp): TGGGGATAGAATCAACCCATCCAACCCTACACACCAAGTA Found at i:3645616 original size:4 final size:4 Alignment explanation
Indices: 3645607--3645833 Score: 177 Period size: 4 Copynumber: 57.0 Consensus size: 4 3645597 AAATTATTCT * * * * * 3645607 TCTC TCTC TCTC TCTC TCTC TCTC TCTC CCAC TCTC TCCC TCCC TTTC 1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC * * * * * * * * * * * 3645655 TTTC TCTC CCTC CCTC CCCC TCCC TCTC CCTC CCTT TCTC CCCC TCTC 1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC * * * * * * 3645703 TCTC TCCC TCTC CCTC CCTC TCCC ACTC TCCC TCTC TCTC TCTC TCTC 1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC * * * * 3645751 TCTC TCTC TCTC TCTC CCTC TCTC TCTC TCTC CCTC TCCC CCTC TC-C 1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC * * * * 3645798 CCCC TCTC TCTC TCTC TCTC TCTC CCCC TCTC TCTC 1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC 3645834 CCTCACACAC Statistics Matches: 177, Mismatches: 45, Indels: 2 0.79 0.20 0.01 Matches are distributed among these distances: 3 2 0.01 4 175 0.99 ACGTcount: A:0.01, C:0.60, G:0.00, T:0.39 Consensus pattern (4 bp): TCTC Found at i:3645618 original size:6 final size:6 Alignment explanation
Indices: 3645607--3645833 Score: 177 Period size: 6 Copynumber: 38.0 Consensus size: 6 3645597 AAATTATTCT * * * * * 3645607 TCTCTC TCTCTC TCTCTC TCTCTC TCTCCC ACTCTC TCCCTC CCTTTC 1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC * * * * * * * * * * * 3645655 TTTCTC TCCCTC CCTCCC CCTCCC TCTCCC TCCCTT TCTCCC CCTCTC 1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC * * * * * * 3645703 TCTCTC CCTCTC CCTCCC TCTCCC ACTCTC CCTCTC TCTCTC TCTCTC 1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC * * * * 3645751 TCTCTC TCTCTC TCTCCC TCTCTC TCTCTC TCCCTC TCCCCC TCTC-C 1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC * * * * 3645798 CCCCTC TCTCTC TCTCTC TCTCTC CCCCTC TCTCTC 1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC 3645834 CCTCACACAC Statistics Matches: 174, Mismatches: 46, Indels: 2 0.78 0.21 0.01 Matches are distributed among these distances: 5 3 0.02 6 171 0.98 ACGTcount: A:0.01, C:0.60, G:0.00, T:0.39 Consensus pattern (6 bp): TCTCTC Found at i:3645622 original size:10 final size:10 Alignment explanation
Indices: 3645607--3645833 Score: 177 Period size: 10 Copynumber: 22.8 Consensus size: 10 3645597 AAATTATTCT 3645607 TCTCTCTCTC 1 TCTCTCTCTC 3645617 TCTCTCTCTC 1 TCTCTCTCTC * 3645627 TCTCTCTCCC 1 TCTCTCTCTC * * 3645637 ACTCTCTCCC 1 TCTCTCTCTC * * * 3645647 TCCCTTTCTT 1 TCTCTCTCTC * 3645657 TCTCTCCCTC 1 TCTCTCTCTC * * * 3645667 CCTCCCCCTC 1 TCTCTCTCTC * * 3645677 CCTCTCCCTC 1 TCTCTCTCTC * * * 3645687 CCTTTCTCCC 1 TCTCTCTCTC * 3645697 CCTCTCTCTC 1 TCTCTCTCTC * * 3645707 TCCCTCTCCC 1 TCTCTCTCTC * * 3645717 TCCCTCTCCC 1 TCTCTCTCTC * * 3645727 ACTCTCCCTC 1 TCTCTCTCTC 3645737 TCTCTCTCTC 1 TCTCTCTCTC 3645747 TCTCTCTCTC 1 TCTCTCTCTC 3645757 TCTCTCTCTC 1 TCTCTCTCTC * 3645767 CCTCTCTCTC 1 TCTCTCTCTC * 3645777 TCTCTCCCTC 1 TCTCTCTCTC * * 3645787 TCCCCCTCTC 1 TCTCTCTCTC * * 3645797 -CCCCCTCTC 1 TCTCTCTCTC 3645806 TCTCTCTCTC 1 TCTCTCTCTC * * 3645816 TCTCTCCCCC 1 TCTCTCTCTC 3645826 TCTCTCTC 1 TCTCTCTC 3645834 CCTCACACAC Statistics Matches: 177, Mismatches: 39, Indels: 2 0.81 0.18 0.01 Matches are distributed among these distances: 9 9 0.05 10 168 0.95 ACGTcount: A:0.01, C:0.60, G:0.00, T:0.39 Consensus pattern (10 bp): TCTCTCTCTC Found at i:3645678 original size:32 final size:36 Alignment explanation
Indices: 3645624--3645823 Score: 144 Period size: 34 Copynumber: 5.6 Consensus size: 36 3645614 CTCTCTCTCT * * ** * 3645624 CTCTCTCTCTCCCACTCTCTCCCTCCCTTTCTTTCT 1 CTCTCTCTCTCCCTCTCCCTCCCTCCCTTTCTCCCC * * * 3645660 CTCCCTCCCTCCCCCTCCCTCTCCCTCCCTTTCTCCCC 1 CTCTCTCTCTCCCTCT-CC-CTCCCTCCCTTTCTCCCC ** * 3645698 CTCTCTCTCTCCCTCTCCCTCCCTCTCC-CACTCTCC 1 CTCTCTCTCTCCCTCTCCCTCCCTC-CCTTTCTCCCC * * * * * 3645734 CTCTCTCTCT--CTCTCTCTCTCTCTCTCTCTCTCC 1 CTCTCTCTCTCCCTCTCCCTCCCTCCCTTTCTCCCC * 3645768 CTCTCTCTCT--CTCTCCCTCTCC-CCCTCTC-CCCC 1 CTCTCTCTCTCCCTCTCCCTC-CCTCCCTTTCTCCCC * * 3645801 CTCTCTCTCTCTCTCTCTCTCCC 1 CTCTCTCTCTCCCTCTCCCTCCC 3645824 CCTCTCTCTC Statistics Matches: 135, Mismatches: 22, Indels: 16 0.78 0.13 0.09 Matches are distributed among these distances: 33 14 0.10 34 44 0.33 35 9 0.07 36 35 0.26 37 5 0.04 38 28 0.21 ACGTcount: A:0.01, C:0.61, G:0.00, T:0.38 Consensus pattern (36 bp): CTCTCTCTCTCCCTCTCCCTCCCTCCCTTTCTCCCC Found at i:3647510 original size:27 final size:25 Alignment explanation
Indices: 3647472--3647525 Score: 81 Period size: 25 Copynumber: 2.1 Consensus size: 25 3647462 ACTATTTTAA 3647472 AATTTTTGTAAAAATAAATAATATTAT 1 AATTTTTGT-AAAATAAAT-ATATTAT * 3647499 AATTTTTTTAAAATAAATATATTAT 1 AATTTTTGTAAAATAAATATATTAT 3647524 AA 1 AA 3647526 AATTATATGT Statistics Matches: 26, Mismatches: 1, Indels: 2 0.90 0.03 0.07 Matches are distributed among these distances: 25 9 0.35 26 9 0.35 27 8 0.31 ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46 Consensus pattern (25 bp): AATTTTTGTAAAATAAATATATTAT Found at i:3647511 original size:26 final size:26 Alignment explanation
Indices: 3647472--3647525 Score: 83 Period size: 26 Copynumber: 2.1 Consensus size: 26 3647462 ACTATTTTAA 3647472 AATTTTTGTAAAAATAAATAATATTAT 1 AATTTTTGTAAAAATAAAT-ATATTAT * 3647499 AATTTTT-TTAAAATAAATATATTAT 1 AATTTTTGTAAAAATAAATATATTAT 3647524 AA 1 AA 3647526 AATTATATGT Statistics Matches: 26, Mismatches: 1, Indels: 2 0.90 0.03 0.07 Matches are distributed among these distances: 25 9 0.35 26 10 0.38 27 7 0.27 ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46 Consensus pattern (26 bp): AATTTTTGTAAAAATAAATATATTAT Found at i:3647529 original size:27 final size:29 Alignment explanation
Indices: 3647464--3647529 Score: 86 Period size: 27 Copynumber: 2.4 Consensus size: 29 3647454 AATTAAAAAC * 3647464 TATTTTAAAATTTTTGTAAAAATAAATAA 1 TATTATAAAATTTTTGTAAAAATAAATAA * 3647493 TATTAT--AATTTTT-TTAAAATAAAT-A 1 TATTATAAAATTTTTGTAAAAATAAATAA 3647518 TATTATAAAATT 1 TATTATAAAATT 3647530 ATATGTGTAA Statistics Matches: 33, Mismatches: 2, Indels: 6 0.80 0.05 0.15 Matches are distributed among these distances: 25 7 0.21 26 10 0.30 27 11 0.33 29 5 0.15 ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48 Consensus pattern (29 bp): TATTATAAAATTTTTGTAAAAATAAATAA Found at i:3648142 original size:53 final size:54 Alignment explanation
Indices: 3648039--3648154 Score: 132 Period size: 54 Copynumber: 2.1 Consensus size: 54 3648029 GCAGAAAAGA * 3648039 AAAAAATAAATCATGGAAGAAAATTATAAATTTTAATATAACTTTTTGAA-TTTT 1 AAAAAATTAATCATGGAAGAAAATTATAAATTTTAATAT-ACTTTTTGAATTTTT * * 3648093 AAAAAATTAATC-TCGGAAGAAATTTAT-AATTTGTAATAT-TTTTTATGAATTTTT 1 AAAAAATTAATCAT-GGAAGAAAATTATAAATTT-TAATATACTTTT-TGAATTTTT * 3648147 AAATAATT 1 AAAAAATT 3648155 GTAATAATTT Statistics Matches: 54, Mismatches: 4, Indels: 8 0.82 0.06 0.12 Matches are distributed among these distances: 52 4 0.07 53 10 0.19 54 40 0.74 ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42 Consensus pattern (54 bp): AAAAAATTAATCATGGAAGAAAATTATAAATTTTAATATACTTTTTGAATTTTT Found at i:3653153 original size:52 final size:54 Alignment explanation
Indices: 3653096--3653199 Score: 149 Period size: 56 Copynumber: 1.9 Consensus size: 54 3653086 AACTCCTAAG ** 3653096 GAACCCTAGGTGTGA-C-AGTATTCTTTCTTCTTGGTTGTTTGATACATGTAAA 1 GAACCCTAGGTGTGACCTAGTATTCTTTCTTCTTGGTTCATTGATACATGTAAA * 3653148 GAACCCTAGGTGTGACCCTTGGTATTCTTTCTTCTTGGTTCATTGATACATG 1 GAACCCTAGGTGTGA-CC-TAGTATTCTTTCTTCTTGGTTCATTGATACATG 3653200 GAAGAAACCT Statistics Matches: 45, Mismatches: 3, Indels: 4 0.87 0.06 0.08 Matches are distributed among these distances: 52 15 0.33 54 1 0.02 56 29 0.64 ACGTcount: A:0.20, C:0.18, G:0.21, T:0.40 Consensus pattern (54 bp): GAACCCTAGGTGTGACCTAGTATTCTTTCTTCTTGGTTCATTGATACATGTAAA Found at i:3653931 original size:3 final size:3 Alignment explanation
Indices: 3653923--3653951 Score: 58 Period size: 3 Copynumber: 9.7 Consensus size: 3 3653913 AGACAAGGTG 3653923 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT 1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT 3653952 GAAAACAACA Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 26 1.00 ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34 Consensus pattern (3 bp): ATA Found at i:3662303 original size:20 final size:20 Alignment explanation
Indices: 3662278--3662320 Score: 86 Period size: 20 Copynumber: 2.1 Consensus size: 20 3662268 TGAGCTAGGA 3662278 TATCCAGTTAATCAATTTTG 1 TATCCAGTTAATCAATTTTG 3662298 TATCCAGTTAATCAATTTTG 1 TATCCAGTTAATCAATTTTG 3662318 TAT 1 TAT 3662321 TAACCTCAAA Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 20 23 1.00 ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47 Consensus pattern (20 bp): TATCCAGTTAATCAATTTTG Found at i:3670780 original size:4 final size:4 Alignment explanation
Indices: 3670771--3670795 Score: 50 Period size: 4 Copynumber: 6.2 Consensus size: 4 3670761 CAAAAATAAA 3670771 ATTT ATTT ATTT ATTT ATTT ATTT A 1 ATTT ATTT ATTT ATTT ATTT ATTT A 3670796 ATAGAAAACC Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 4 21 1.00 ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72 Consensus pattern (4 bp): ATTT Found at i:3670955 original size:24 final size:23 Alignment explanation
Indices: 3670919--3670969 Score: 61 Period size: 24 Copynumber: 2.2 Consensus size: 23 3670909 TTTTTAATAT 3670919 TATTAGATAATCATATCATTTTTC- 1 TATTAGATAATCAT-T-ATTTTTCA 3670943 TATTA-ATATATCATTATTTTTCA 1 TATTAGATA-ATCATTATTTTTCA 3670966 TATT 1 TATT 3670970 TATGAAATTA Statistics Matches: 25, Mismatches: 0, Indels: 5 0.83 0.00 0.17 Matches are distributed among these distances: 22 7 0.28 23 8 0.32 24 10 0.40 ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55 Consensus pattern (23 bp): TATTAGATAATCATTATTTTTCA Found at i:3671036 original size:18 final size:18 Alignment explanation
Indices: 3671015--3671050 Score: 72 Period size: 18 Copynumber: 2.0 Consensus size: 18 3671005 GTACCAAAAA 3671015 ATATTAATAATTTAAGTT 1 ATATTAATAATTTAAGTT 3671033 ATATTAATAATTTAAGTT 1 ATATTAATAATTTAAGTT 3671051 TAATATAAAT Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 18 18 1.00 ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50 Consensus pattern (18 bp): ATATTAATAATTTAAGTT Found at i:3695773 original size:23 final size:22 Alignment explanation
Indices: 3695747--3695813 Score: 64 Period size: 23 Copynumber: 2.9 Consensus size: 22 3695737 AAACCTGAAT 3695747 ATAAAATAAATAACCAAAA-TCCA 1 ATAAAATAAA-AA-CAAAATTCCA * * 3695770 ATAAAACAAAAACAAAATTGCA 1 ATAAAATAAAAACAAAATTCCA 3695792 ATAGAAATAAGAAAGCAAAATT 1 ATA-AAATAA-AAA-CAAAATT 3695814 AAATTTGAAT Statistics Matches: 37, Mismatches: 3, Indels: 6 0.80 0.07 0.13 Matches are distributed among these distances: 21 5 0.14 22 8 0.22 23 14 0.38 24 3 0.08 25 7 0.19 ACGTcount: A:0.66, C:0.12, G:0.06, T:0.16 Consensus pattern (22 bp): ATAAAATAAAAACAAAATTCCA Found at i:3697301 original size:19 final size:20 Alignment explanation
Indices: 3697263--3697302 Score: 55 Period size: 19 Copynumber: 2.0 Consensus size: 20 3697253 TTCAGGGACC * 3697263 ATTTTGAAACAAAATAAAAA 1 ATTTAGAAACAAAATAAAAA * 3697283 ATTTAGAAA-AAATTAAAAA 1 ATTTAGAAACAAAATAAAAA 3697302 A 1 A 3697303 AATTGAAAAC Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 19 10 0.56 20 8 0.44 ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25 Consensus pattern (20 bp): ATTTAGAAACAAAATAAAAA Found at i:3699434 original size:16 final size:16 Alignment explanation
Indices: 3699413--3699445 Score: 66 Period size: 16 Copynumber: 2.1 Consensus size: 16 3699403 ATTCTAATTC 3699413 AACGAGAAAAGTCGCA 1 AACGAGAAAAGTCGCA 3699429 AACGAGAAAAGTCGCA 1 AACGAGAAAAGTCGCA 3699445 A 1 A 3699446 CCTAGTAAGT Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 17 1.00 ACGTcount: A:0.52, C:0.18, G:0.24, T:0.06 Consensus pattern (16 bp): AACGAGAAAAGTCGCA Found at i:3700312 original size:22 final size:21 Alignment explanation
Indices: 3700282--3700347 Score: 64 Period size: 19 Copynumber: 3.2 Consensus size: 21 3700272 TACAAATTAA 3700282 ATCTCCAAGATTACAAGATCAT 1 ATCTCCAAGATTAC-AGATCAT * * * 3700304 ATCTTCAAGATTGCATATCAT 1 ATCTCCAAGATTACAGATCAT * * 3700325 ATCT--AGGATTACATATCAT 1 ATCTCCAAGATTACAGATCAT 3700344 ATCT 1 ATCT 3700348 AAGATTGTAT Statistics Matches: 39, Mismatches: 5, Indels: 3 0.83 0.11 0.06 Matches are distributed among these distances: 19 17 0.44 21 10 0.26 22 12 0.31 ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35 Consensus pattern (21 bp): ATCTCCAAGATTACAGATCAT Found at i:3700339 original size:19 final size:19 Alignment explanation
Indices: 3700299--3700450 Score: 215 Period size: 19 Copynumber: 8.2 Consensus size: 19 3700289 AGATTACAAG 3700299 ATCATATCTTCAAGATTGCAT 1 ATCATATC-T-AAGATTGCAT * * 3700320 ATCATATCTAGGATTACAT 1 ATCATATCTAAGATTGCAT 3700339 ATCATATCTAAGATTG--T 1 ATCATATCTAAGATTGCAT 3700356 ATCATATCTAAGATTGCA- 1 ATCATATCTAAGATTGCAT * 3700374 ATCATATCTAATATTGCAT 1 ATCATATCTAAGATTGCAT * 3700393 ATCATATCTAATATTG--T 1 ATCATATCTAAGATTGCAT 3700410 ATCATATCTAAGATTGCAT 1 ATCATATCTAAGATTGCAT 3700429 ATCATATCTAAGATTGCAT 1 ATCATATCTAAGATTGCAT 3700448 ATC 1 ATC 3700451 CTTAAAGATT Statistics Matches: 120, Mismatches: 6, Indels: 12 0.87 0.04 0.09 Matches are distributed among these distances: 17 33 0.28 18 17 0.14 19 61 0.51 20 1 0.01 21 8 0.07 ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39 Consensus pattern (19 bp): ATCATATCTAAGATTGCAT Found at i:3700363 original size:36 final size:37 Alignment explanation
Indices: 3700288--3700450 Score: 181 Period size: 36 Copynumber: 4.4 Consensus size: 37 3700278 TTAAATCTCC * 3700288 AAGATTACAAGATCATATCTTCAAGATTGCATATCATATCT 1 AAGATTAC-ATATCATATC-T-AAGATTG-ATATCATATCT * 3700329 AGGATTACATATCATATCTAAGATTG-TATCATATCT 1 AAGATTACATATCATATCTAAGATTGATATCATATCT * * 3700365 AAGATTGCA-ATCATATCTAATATTGCATATCATATCT 1 AAGATTACATATCATATCTAAGATTG-ATATCATATCT * * 3700402 AATATT--GTATCATATCTAAGATTGCATATCATATCT 1 AAGATTACATATCATATCTAAGATTG-ATATCATATCT * 3700438 AAGATTGCATATC 1 AAGATTACATATC 3700451 CTTAAAGATT Statistics Matches: 107, Mismatches: 10, Indels: 13 0.82 0.08 0.10 Matches are distributed among these distances: 35 15 0.14 36 49 0.46 37 15 0.14 38 11 0.10 39 1 0.01 40 9 0.08 41 7 0.07 ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37 Consensus pattern (37 bp): AAGATTACATATCATATCTAAGATTGATATCATATCT Found at i:3700382 original size:54 final size:55 Alignment explanation
Indices: 3700299--3700450 Score: 243 Period size: 54 Copynumber: 2.7 Consensus size: 55 3700289 AGATTACAAG * * 3700299 ATCATATCTTCAAGATTGCATATCATATCTAGGATTACATATCATATCTAAGATTGT 1 ATCATATC-T-AAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGT * * 3700356 ATCATATCTAAGATTGCA-ATCATATCTAATATTGCATATCATATCTAATATTGT 1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGT 3700410 ATCATATCTAAGATTGCATATCATATCTAAGATTGCATATC 1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCATATC 3700451 CTTAAAGATT Statistics Matches: 89, Mismatches: 5, Indels: 4 0.91 0.05 0.04 Matches are distributed among these distances: 54 50 0.56 55 30 0.34 56 1 0.01 57 8 0.09 ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39 Consensus pattern (55 bp): ATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGT Found at i:3700396 original size:73 final size:74 Alignment explanation
Indices: 3700299--3700446 Score: 212 Period size: 73 Copynumber: 2.0 Consensus size: 74 3700289 AGATTACAAG * 3700299 ATCATATCTTCAAGATTGCATATCATATCTAGGATTACATATCATATCTAAGATTG-TATCATAT 1 ATCATATCTTCAAGATTGCATATCATATCTAAGATT--ATATCATATCTAAGATTGATATCATAT 3700363 CTAAGATTGCA 64 CTAAGATTGCA * * * 3700374 ATCATATC-T-AATATTGCATATCATATCTAATATTGTATCATATCTAAGATTGCATATCATATC 1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTATATCATATCTAAGATTG-ATATCATATC 3700437 TAAGATTGCA 65 TAAGATTGCA 3700447 TATCCTTAAA Statistics Matches: 67, Mismatches: 4, Indels: 6 0.87 0.05 0.08 Matches are distributed among these distances: 71 17 0.25 73 41 0.61 74 1 0.01 75 8 0.12 ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39 Consensus pattern (74 bp): ATCATATCTTCAAGATTGCATATCATATCTAAGATTATATCATATCTAAGATTGATATCATATCT AAGATTGCA Found at i:3701649 original size:79 final size:79 Alignment explanation
Indices: 3701518--3701674 Score: 233 Period size: 79 Copynumber: 2.0 Consensus size: 79 3701508 ATCAGACGTG * * * * * 3701518 CCCATATACAGATAAAACATATCAGAACATTCTAGTTGCACATATAATTAATAGATCAAAACATG 1 CCCATATACAAATAAAACAGATCAAAACATACTAATTGCACATATAATTAATAGATCAAAACATG * 3701583 TTATTGGCATATTA 66 CTATTGGCATATTA * * 3701597 CCCATATGCAAATAAAACAGATCAAAACATACTAATTGCACATATAGTTAATAGATCAAAACATG 1 CCCATATACAAATAAAACAGATCAAAACATACTAATTGCACATATAATTAATAGATCAAAACATG * 3701662 CTATTGGTATATT 66 CTATTGGCATATT 3701675 CGACCATTAC Statistics Matches: 69, Mismatches: 9, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 79 69 1.00 ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29 Consensus pattern (79 bp): CCCATATACAAATAAAACAGATCAAAACATACTAATTGCACATATAATTAATAGATCAAAACATG CTATTGGCATATTA Found at i:3704973 original size:16 final size:16 Alignment explanation
Indices: 3704941--3704973 Score: 50 Period size: 16 Copynumber: 2.1 Consensus size: 16 3704931 TAGGGTGTGA 3704941 AATTATTTAATTGAAT 1 AATTATTTAATTGAAT 3704957 AATTAATTTAATT-AAT 1 AATT-ATTTAATTGAAT 3704973 A 1 A 3704974 TTCAAAATAA Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 16 8 0.50 17 8 0.50 ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48 Consensus pattern (16 bp): AATTATTTAATTGAAT Found at i:3713161 original size:22 final size:23 Alignment explanation
Indices: 3713135--3713180 Score: 85 Period size: 23 Copynumber: 2.0 Consensus size: 23 3713125 CCTGATCAGA 3713135 ATACGACACAT-AAGTGCCTGAC 1 ATACGACACATAAAGTGCCTGAC 3713157 ATACGACACATAAAGTGCCTGAC 1 ATACGACACATAAAGTGCCTGAC 3713180 A 1 A 3713181 AGTAAAGCTG Statistics Matches: 23, Mismatches: 0, Indels: 1 0.96 0.00 0.04 Matches are distributed among these distances: 22 11 0.48 23 12 0.52 ACGTcount: A:0.39, C:0.26, G:0.17, T:0.17 Consensus pattern (23 bp): ATACGACACATAAAGTGCCTGAC Found at i:3713417 original size:28 final size:29 Alignment explanation
Indices: 3713368--3713442 Score: 107 Period size: 28 Copynumber: 2.6 Consensus size: 29 3713358 AAATGTCTAA * * 3713368 CCAAAACACACCAGTATCATATAATCC-T 1 CCAAAACACACCAGAATAATATAATCCAT * * 3713396 CCCAAACACACTAGAATAATATAATCCAT 1 CCAAAACACACCAGAATAATATAATCCAT 3713425 CCAAAACACACCAGAATA 1 CCAAAACACACCAGAATA 3713443 GCACAAAGTG Statistics Matches: 40, Mismatches: 6, Indels: 1 0.85 0.13 0.02 Matches are distributed among these distances: 28 23 0.57 29 17 0.43 ACGTcount: A:0.48, C:0.31, G:0.04, T:0.17 Consensus pattern (29 bp): CCAAAACACACCAGAATAATATAATCCAT Found at i:3719370 original size:31 final size:31 Alignment explanation
Indices: 3719334--3719408 Score: 141 Period size: 31 Copynumber: 2.4 Consensus size: 31 3719324 TCTTGATTCA 3719334 TTGAATTCCTTCACTTTTCTTCTTTTGAACT 1 TTGAATTCCTTCACTTTTCTTCTTTTGAACT 3719365 TTGAATTCCTTCACTTTTCTTCTTTTGAACT 1 TTGAATTCCTTCACTTTTCTTCTTTTGAACT * 3719396 TTGAATTGCTTCA 1 TTGAATTCCTTCA 3719409 TTAAAAGTGG Statistics Matches: 43, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 31 43 1.00 ACGTcount: A:0.17, C:0.21, G:0.08, T:0.53 Consensus pattern (31 bp): TTGAATTCCTTCACTTTTCTTCTTTTGAACT Found at i:3724511 original size:75 final size:73 Alignment explanation
Indices: 3724423--3724594 Score: 199 Period size: 75 Copynumber: 2.4 Consensus size: 73 3724413 GGTTTTCCTC ** * * * ** * 3724423 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCTATACCTACATTTCTTAAC 1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAA 3724487 TCAGTATGG 65 TCAGTATGG * * 3724496 ATTTGATAATACCATACCTATATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA 1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA 3724561 ATCAGTATGG 64 ATCAGTATGG 3724571 A-TG--ATACCATACCTACATTTCACA 1 ATTGAAATACCATACCTACATTTCACA 3724595 CTTTTCCATG Statistics Matches: 85, Mismatches: 11, Indels: 9 0.81 0.10 0.09 Matches are distributed among these distances: 70 20 0.24 73 3 0.04 74 7 0.08 75 55 0.65 ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33 Consensus pattern (73 bp): ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAAAT CAGTATGG Found at i:3724530 original size:40 final size:38 Alignment explanation
Indices: 3724428--3724594 Score: 163 Period size: 35 Copynumber: 4.6 Consensus size: 38 3724418 TCCTCATTGA ** * 3724428 AATACCATACCTACATTTTTCAACTCGGTATGG--GA- 1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT * * ** 3724463 AATGCTATACCTACATTTCTTAACTCAGTATGGATTTGAT 1 AATACCATACCTACATTTCACAACTCAGTATGGA--TGAT * * 3724503 AATACCATACCTATATTTCACAGCTCAGTAT-G--GAT 1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT * 3724538 AATACCATACCTACATTTCACAAATCAGTATGGATG-- 1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT 3724574 -ATACCATACCTACATTTCACA 1 AATACCATACCTACATTTCACA 3724595 CTTTTCCATG Statistics Matches: 110, Mismatches: 14, Indels: 16 0.79 0.10 0.11 Matches are distributed among these distances: 35 80 0.73 36 1 0.01 38 1 0.01 39 3 0.03 40 25 0.23 ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32 Consensus pattern (38 bp): AATACCATACCTACATTTCACAACTCAGTATGGATGAT Found at i:3727610 original size:46 final size:46 Alignment explanation
Indices: 3727596--3727823 Score: 384 Period size: 46 Copynumber: 5.0 Consensus size: 46 3727586 TCTGCCTTGT * * *** * * 3727596 TGCCATGATATCTTTCAACCATGATCTTGTTCATTTCATATCACGT 1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC 3727642 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC 1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC 3727688 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC 1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC * 3727734 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGC 1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC 3727780 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG 1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG 3727824 AGAGCACACT Statistics Matches: 173, Mismatches: 9, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 46 173 1.00 ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37 Consensus pattern (46 bp): TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC Found at i:3746400 original size:465 final size:467 Alignment explanation
Indices: 3745528--3746456 Score: 1727 Period size: 465 Copynumber: 2.0 Consensus size: 467 3745518 TAGTTTCTTG 3745528 AGGGTTAAGTTGAGGGTTAATAATAAAATTTTATTTGCAAAAGTCCATTTTATATATGTTGTAAC 1 AGGGTTAAGTTGAGGGTTAATAATAAAATTTTATTTGCAAAAGTCCATTTTATATATGTTGTAAC * 3745593 ATATTTACAACTTTTCTGATTATTATCTTTGAATTAATAAAGAGGTCTGGAGACTTTCTATAACT 66 ATATTTACAACTTTTCTGATTATTATCTTTGAATTAATAAAGAGGCCTGGAGACTTTCTATAACT * * 3745658 CTTAATTTTTCTAGAGTTTCAAATTCTTTTCTTATTCGTTTTACAGCCTTAATTATTTCAATTAT 131 CTTAAGTTTTCTAGAGTTTCAAATTCTTTTCTTATTCGTTTTACAGCCATAATTATTTCAATTAT 3745723 GGTTGTTTTCTTCCCTAAACCATATCAATTTTGGCATTAGAACTTAATTAGATCCTACGGTTGCT 196 GGTTGTTTTCTTCCCTAAACCATATCAATTTTGGCATTAGAACTTAATTAGATCCTACGGTTGCT * 3745788 ATTAAGCCATGGTTGGACATAGTGGATATTAAGGAAGCGGAAGTCAAGGTCAAGAGACAATATTG 261 ATTAAGCCATGGTTGGACATAGTAGATATTAAGGAAGCGGAAGTCAAGGTCAAGAGACAATATTG * 3745853 ACTGCAATACAAAGTGATATTAAAGAATTGTCGCATGCAATTTATGCTACATTGCGACAAGAGCC 326 ACTGCAATACAAAGTGATATTAAAGAATTGTCGCATGCAATTTATGCTACATTGCGACAAGAACC * 3745918 AGTGGGAGTCCAGATGGA-ATTCTGGAAGGTGCCCACAATTGTGTATGCCTTAGAATTAAATAGG 391 AGTGGGAGTCCAGATGGAGATTCTGGAAGGTGCCCACAATTGTGTAAGCCTTAGAATTAAATAGG 3745982 GTGGAATTATAT 456 GTGGAATTATAT 3745994 AGGGTTAAGTTGAGGGTTAATAATAAAATTTTATTTGCAAAAGTCCATTTTATATATGTTGTAAC 1 AGGGTTAAGTTGAGGGTTAATAATAAAATTTTATTTGCAAAAGTCCATTTTATATATGTTGTAAC * 3746059 ATATTTACAACTTTTCTGATTATTATCTTTGAATTAATAAAGAGGCCTGGAGAGTTTCTATAACT 66 ATATTTACAACTTTTCTGATTATTATCTTTGAATTAATAAAGAGGCCTGGAGACTTTCTATAACT * 3746124 C-TAAGTTTTCTAGAGTTTCAAATTCTTTTCTTATTCGTTTTACAGCCATAATTCTTTCAATTAT 131 CTTAAGTTTTCTAGAGTTTCAAATTCTTTTCTTATTCGTTTTACAGCCATAATTATTTCAATTAT * 3746188 GGTTGTTTTCTTCTCTAAACCATATCAATTTTGGCATTAGAACTTAATTAGATCCTACGGTTGCT 196 GGTTGTTTTCTTCCCTAAACCATATCAATTTTGGCATTAGAACTTAATTAGATCCTACGGTTGCT * 3746253 ATTAAGCCATGGTTGGACATGGTAGATATTAAGGAAGCGGAAGTCAAGGTCAAGAGACAATATTG 261 ATTAAGCCATGGTTGGACATAGTAGATATTAAGGAAGCGGAAGTCAAGGTCAAGAGACAATATTG ** 3746318 ACTGCAATATGAAGTGATATTAAAGAATTGTCGCATGCAATTTATGCTACATTGCGACAAGAACC 326 ACTGCAATACAAAGTGATATTAAAGAATTGTCGCATGCAATTTATGCTACATTGCGACAAGAACC * 3746383 AGTGGGAGTCCAGATGGAGATTCTGGAAGGTGCCCACAATTGTGTAAGCCTTTGAATTAAATAGG 391 AGTGGGAGTCCAGATGGAGATTCTGGAAGGTGCCCACAATTGTGTAAGCCTTAGAATTAAATAGG 3746448 GTGGAATTA 456 GTGGAATTA 3746457 AGATCAAAGT Statistics Matches: 449, Mismatches: 13, Indels: 2 0.97 0.03 0.00 Matches are distributed among these distances: 465 267 0.59 466 182 0.41 ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36 Consensus pattern (467 bp): AGGGTTAAGTTGAGGGTTAATAATAAAATTTTATTTGCAAAAGTCCATTTTATATATGTTGTAAC ATATTTACAACTTTTCTGATTATTATCTTTGAATTAATAAAGAGGCCTGGAGACTTTCTATAACT CTTAAGTTTTCTAGAGTTTCAAATTCTTTTCTTATTCGTTTTACAGCCATAATTATTTCAATTAT GGTTGTTTTCTTCCCTAAACCATATCAATTTTGGCATTAGAACTTAATTAGATCCTACGGTTGCT ATTAAGCCATGGTTGGACATAGTAGATATTAAGGAAGCGGAAGTCAAGGTCAAGAGACAATATTG ACTGCAATACAAAGTGATATTAAAGAATTGTCGCATGCAATTTATGCTACATTGCGACAAGAACC AGTGGGAGTCCAGATGGAGATTCTGGAAGGTGCCCACAATTGTGTAAGCCTTAGAATTAAATAGG GTGGAATTATAT Found at i:3753230 original size:33 final size:31 Alignment explanation
Indices: 3753205--3753263 Score: 84 Period size: 31 Copynumber: 1.9 Consensus size: 31 3753195 ATATCATCAT * * 3753205 ATACAAA-AATGAGAGTACAAACCATATTGA 1 ATACAAATAATGAAAGTACAAACCATATTCA * 3753235 ATTCAAATAATGAAAGTACAAACCATATT 1 ATACAAATAATGAAAGTACAAACCATATT 3753264 AGCCACTCAT Statistics Matches: 26, Mismatches: 2, Indels: 1 0.90 0.07 0.03 Matches are distributed among these distances: 30 6 0.23 31 20 0.77 ACGTcount: A:0.53, C:0.14, G:0.10, T:0.24 Consensus pattern (31 bp): ATACAAATAATGAAAGTACAAACCATATTCA Found at i:3756395 original size:43 final size:43 Alignment explanation
Indices: 3756334--3756426 Score: 152 Period size: 43 Copynumber: 2.2 Consensus size: 43 3756324 GCAGATTTTT * 3756334 CACAGCTCATGTAAGCAGCA-CTGTGTAGCCTAACATCTTAACC 1 CACAGCTCATATAAGCAGCATC-GTGTAGCCTAACATCTTAACC * 3756377 CACAGCTCATATGAGCAGCATCGTGTAGCCTAACATCTTAACC 1 CACAGCTCATATAAGCAGCATCGTGTAGCCTAACATCTTAACC 3756420 CACAGCT 1 CACAGCT 3756427 TATGTGAGTA Statistics Matches: 47, Mismatches: 2, Indels: 2 0.92 0.04 0.04 Matches are distributed among these distances: 43 46 0.98 44 1 0.02 ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23 Consensus pattern (43 bp): CACAGCTCATATAAGCAGCATCGTGTAGCCTAACATCTTAACC Found at i:3758327 original size:13 final size:13 Alignment explanation
Indices: 3758309--3758333 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 3758299 TGGTGCCCAA 3758309 AAGCAATGTTGGC 1 AAGCAATGTTGGC 3758322 AAGCAATGTTGG 1 AAGCAATGTTGG 3758334 AGGATTCTCT Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24 Consensus pattern (13 bp): AAGCAATGTTGGC Found at i:3762968 original size:22 final size:22 Alignment explanation
Indices: 3762943--3762987 Score: 72 Period size: 22 Copynumber: 2.0 Consensus size: 22 3762933 TTTAATAAAA 3762943 AAAATATCTACAAAATATTCCT 1 AAAATATCTACAAAATATTCCT * * 3762965 AAAATATTTACAGAATATTCCT 1 AAAATATCTACAAAATATTCCT 3762987 A 1 A 3762988 CACTCCCCCT Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 22 21 1.00 ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33 Consensus pattern (22 bp): AAAATATCTACAAAATATTCCT Found at i:3766396 original size:22 final size:22 Alignment explanation
Indices: 3766370--3766414 Score: 72 Period size: 22 Copynumber: 2.0 Consensus size: 22 3766360 TTTTAATAAA 3766370 AAAATATCTACAAAATATTCCT 1 AAAATATCTACAAAATATTCCT * * 3766392 AAAATATTTACAGAATATTCCT 1 AAAATATCTACAAAATATTCCT 3766414 A 1 A 3766415 CATGCTCCAT Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 22 21 1.00 ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33 Consensus pattern (22 bp): AAAATATCTACAAAATATTCCT Found at i:3766665 original size:94 final size:94 Alignment explanation
Indices: 3766495--3766681 Score: 329 Period size: 94 Copynumber: 2.0 Consensus size: 94 3766485 TTAGCTACCT * 3766495 TTTTTTTGCTTCTTACAGTTAGTTAGTACAAGGAGATTGTAATCCTGAGAGGACGGCTGCTTTTG 1 TTTTCTTGCTTCTTACAGTTAGTTAGTACAAGGAGATTGTAATCCTGAGAGGACGGCTGCTTTTG * 3766560 GCATTATCTAAACTATTATGCGAAATAAG 66 GCATTACCTAAACTATTATGCGAAATAAG * * 3766589 TTTTCTTGCTTCTTACAGTTAGTTAGTACAAGGAGATTGTAATCCTGCGAGGATGGCTGCTTTTG 1 TTTTCTTGCTTCTTACAGTTAGTTAGTACAAGGAGATTGTAATCCTGAGAGGACGGCTGCTTTTG * 3766654 GCATTACCTAAATTATTATGCGAAATAA 66 GCATTACCTAAACTATTATGCGAAATAA 3766682 AATTTTGTAA Statistics Matches: 88, Mismatches: 5, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 94 88 1.00 ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37 Consensus pattern (94 bp): TTTTCTTGCTTCTTACAGTTAGTTAGTACAAGGAGATTGTAATCCTGAGAGGACGGCTGCTTTTG GCATTACCTAAACTATTATGCGAAATAAG Found at i:3768848 original size:59 final size:59 Alignment explanation
Indices: 3768776--3768893 Score: 236 Period size: 59 Copynumber: 2.0 Consensus size: 59 3768766 GAAAGGAGTA 3768776 AGAATGGAAAATTTGCTAATCAAATGGTTAAGATTCATAATTACTTTCTTACTTTATAG 1 AGAATGGAAAATTTGCTAATCAAATGGTTAAGATTCATAATTACTTTCTTACTTTATAG 3768835 AGAATGGAAAATTTGCTAATCAAATGGTTAAGATTCATAATTACTTTCTTACTTTATAG 1 AGAATGGAAAATTTGCTAATCAAATGGTTAAGATTCATAATTACTTTCTTACTTTATAG 3768894 TTTAACCATT Statistics Matches: 59, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 59 59 1.00 ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39 Consensus pattern (59 bp): AGAATGGAAAATTTGCTAATCAAATGGTTAAGATTCATAATTACTTTCTTACTTTATAG Found at i:3781566 original size:28 final size:28 Alignment explanation
Indices: 3781511--3781567 Score: 80 Period size: 28 Copynumber: 2.0 Consensus size: 28 3781501 TTTTATTTTA * 3781511 ATATATTGTAATAAAAAATATTTTAATT 1 ATATATTGTAATAAAAAATATTTGAATT * 3781539 ATATATTTTAATAAAAAA-ATATTGAATT 1 ATATATTGTAATAAAAAATAT-TTGAATT 3781567 A 1 A 3781568 AATTACCATA Statistics Matches: 26, Mismatches: 2, Indels: 2 0.87 0.07 0.07 Matches are distributed among these distances: 27 2 0.08 28 24 0.92 ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44 Consensus pattern (28 bp): ATATATTGTAATAAAAAATATTTGAATT Found at i:3782953 original size:18 final size:19 Alignment explanation
Indices: 3782932--3782988 Score: 73 Period size: 18 Copynumber: 3.0 Consensus size: 19 3782922 AAATTCAAAA 3782932 AAATATAAAAATATA-TTT 1 AAATATAAAAATATATTTT * 3782950 AAATATGAAAAT-TATTTT 1 AAATATAAAAATATATTTT 3782968 AAATATATAAAATATAATTTT 1 AAATATA-AAAATAT-ATTTT 3782989 TAAAAATATT Statistics Matches: 33, Mismatches: 2, Indels: 5 0.82 0.05 0.12 Matches are distributed among these distances: 17 2 0.06 18 20 0.61 19 5 0.15 20 1 0.03 21 5 0.15 ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42 Consensus pattern (19 bp): AAATATAAAAATATATTTT Found at i:3794260 original size:5 final size:5 Alignment explanation
Indices: 3794250--3794278 Score: 58 Period size: 5 Copynumber: 5.8 Consensus size: 5 3794240 ATTTTTCCTC 3794250 CCCAT CCCAT CCCAT CCCAT CCCAT CCCA 1 CCCAT CCCAT CCCAT CCCAT CCCAT CCCA 3794279 AACAAAACCA Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 5 24 1.00 ACGTcount: A:0.21, C:0.62, G:0.00, T:0.17 Consensus pattern (5 bp): CCCAT Found at i:3801820 original size:170 final size:171 Alignment explanation
Indices: 3801515--3801858 Score: 663 Period size: 170 Copynumber: 2.0 Consensus size: 171 3801505 TCATGAGCTA 3801515 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT 1 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT 3801580 AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA 66 AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA 3801645 GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG 131 GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG 3801686 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT 1 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT * 3801751 -AAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCACCGCTTTGA 66 AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA * 3801815 GTAGAAAGGCAAAGAGAAGAGTAGGCATGGAGAAAAATGGG 131 GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG 3801856 CTG 1 CTG 3801859 TGATCACTTT Statistics Matches: 171, Mismatches: 2, Indels: 1 0.98 0.01 0.01 Matches are distributed among these distances: 170 106 0.62 171 65 0.38 ACGTcount: A:0.39, C:0.10, G:0.25, T:0.25 Consensus pattern (171 bp): CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG Found at i:3809874 original size:21 final size:21 Alignment explanation
Indices: 3809848--3809888 Score: 64 Period size: 21 Copynumber: 2.0 Consensus size: 21 3809838 ATCTGCTCAA * * 3809848 ACTCCACCTGTTTTGGAGTAC 1 ACTCCACCTGCTGTGGAGTAC 3809869 ACTCCACCTGCTGTGGAGTA 1 ACTCCACCTGCTGTGGAGTA 3809889 TTGCTCGTCT Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 21 18 1.00 ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29 Consensus pattern (21 bp): ACTCCACCTGCTGTGGAGTAC Found at i:3815935 original size:13 final size:13 Alignment explanation
Indices: 3815917--3815943 Score: 54 Period size: 13 Copynumber: 2.1 Consensus size: 13 3815907 TGAAAGGGGA 3815917 TTTGATTTTGATT 1 TTTGATTTTGATT 3815930 TTTGATTTTGATT 1 TTTGATTTTGATT 3815943 T 1 T 3815944 GAGCAGCTTG Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 14 1.00 ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70 Consensus pattern (13 bp): TTTGATTTTGATT Found at i:3822900 original size:18 final size:17 Alignment explanation
Indices: 3822879--3822912 Score: 50 Period size: 18 Copynumber: 1.9 Consensus size: 17 3822869 TATAAATATT 3822879 AATAATTATATTGAACAA 1 AATAATTATATT-AACAA * 3822897 AATAATTTTATTAACA 1 AATAATTATATTAACA 3822913 TATGTGAATG Statistics Matches: 15, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 17 4 0.27 18 11 0.73 ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38 Consensus pattern (17 bp): AATAATTATATTAACAA Found at i:3832941 original size:35 final size:36 Alignment explanation
Indices: 3832897--3833063 Score: 171 Period size: 35 Copynumber: 4.6 Consensus size: 36 3832887 TCCTCATTGA ** * 3832897 AATACCATACCTACATTTTTCAACTCGGTATGGGA- 1 AATACCATACCTACATTTCACAACTCAGTATGGGAT * ** 3832932 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT 1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT * * 3832972 AATACCATACCTACATTTCACAGCTCGGTAT-GGAT 1 AATACCATACCTACATTTCACAACTCAGTATGGGAT * 3833007 AATACCATACATACATTTCACAACTCAGTAT-GGAT 1 AATACCATACCTACATTTCACAACTCAGTATGGGAT * 3833042 GACT-CCATACCTACATTTCACA 1 -AATACCATACCTACATTTCACA 3833064 CTTTTCCATG Statistics Matches: 112, Mismatches: 14, Indels: 12 0.81 0.10 0.09 Matches are distributed among these distances: 35 81 0.72 36 2 0.02 39 3 0.03 40 26 0.23 ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31 Consensus pattern (36 bp): AATACCATACCTACATTTCACAACTCAGTATGGGAT Found at i:3832980 original size:75 final size:74 Alignment explanation
Indices: 3832893--3833063 Score: 217 Period size: 75 Copynumber: 2.4 Consensus size: 74 3832883 GTTTTCCTCA ** * * ** 3832893 TTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT 1 TTGAAATACCATACCTACATTTCACAACTCGGTAT-GGATAATACCATACATACATTTCACAACT 3832957 CAGTATGGAT 65 CAGTATGGAT * 3832967 TTGATAATACCATACCTACATTTCACAGCTCGGTATGGATAATACCATACATACATTTCACAACT 1 TTGA-AATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACATACATTTCACAACT 3833032 CAGTATGGA- 65 CAGTATGGAT * 3833041 -TG-ACT-CCATACCTACATTTCACA 1 TTGAAATACCATACCTACATTTCACA 3833064 CTTTTCCATG Statistics Matches: 87, Mismatches: 8, Indels: 8 0.84 0.08 0.08 Matches are distributed among these distances: 70 18 0.21 71 2 0.02 73 2 0.02 74 7 0.08 75 58 0.67 ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32 Consensus pattern (74 bp): TTGAAATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACATACATTTCACAACTC AGTATGGAT Found at i:3840295 original size:6 final size:6 Alignment explanation
Indices: 3840287--3840396 Score: 60 Period size: 6 Copynumber: 17.8 Consensus size: 6 3840277 AGACTGAGCC * * * ** ** 3840287 TGAAGC TGAAGA TGAAGA TGAA-A GTGAAGA TGAGGT TGGGGA TGGGGA 1 TGAAGA TGAAGA TGAAGA TGAAGA -TGAAGA TGAAGA TGAAGA TGAAGA * * * * * 3840335 TGAAGA TGAGGATGA TGAAGA AGAAGA CGAAGA AGAAGA AGAAGA CGAAGA 1 TGAAGA TGA--A-GA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA * 3840386 CGAAGA TGAAG 1 TGAAGA TGAAG 3840397 CCGACGCCGA Statistics Matches: 87, Mismatches: 12, Indels: 10 0.80 0.11 0.09 Matches are distributed among these distances: 5 1 0.01 6 78 0.90 7 2 0.02 8 1 0.01 9 5 0.06 ACGTcount: A:0.45, C:0.04, G:0.39, T:0.13 Consensus pattern (6 bp): TGAAGA Found at i:3840366 original size:9 final size:9 Alignment explanation
Indices: 3840354--3840385 Score: 55 Period size: 9 Copynumber: 3.6 Consensus size: 9 3840344 GGATGATGAA 3840354 GAAGAAGAC 1 GAAGAAGAC * 3840363 GAAGAAGAA 1 GAAGAAGAC 3840372 GAAGAAGAC 1 GAAGAAGAC 3840381 GAAGA 1 GAAGA 3840386 CGAAGATGAA Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 9 21 1.00 ACGTcount: A:0.59, C:0.06, G:0.34, T:0.00 Consensus pattern (9 bp): GAAGAAGAC Found at i:3840372 original size:18 final size:18 Alignment explanation
Indices: 3840351--3840396 Score: 74 Period size: 18 Copynumber: 2.6 Consensus size: 18 3840341 TGAGGATGAT 3840351 GAAGAAGAAGACGAAGAA 1 GAAGAAGAAGACGAAGAA * 3840369 GAAGAAGAAGACGAAGAC 1 GAAGAAGAAGACGAAGAA * 3840387 GAAGATGAAG 1 GAAGAAGAAG 3840397 CCGACGCCGA Statistics Matches: 26, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 18 26 1.00 ACGTcount: A:0.57, C:0.07, G:0.35, T:0.02 Consensus pattern (18 bp): GAAGAAGAAGACGAAGAA Found at i:3842648 original size:31 final size:31 Alignment explanation
Indices: 3842613--3842692 Score: 117 Period size: 31 Copynumber: 2.6 Consensus size: 31 3842603 TATTTTTCAT * * 3842613 TTGCTTCAATTTCTATGCTTATTCC-CCGTTA 1 TTGCTTCAATTTCCATGCTTATACCTCC-TTA * 3842644 TTGCTTCAATTTCCATGATTATACCTCCTTA 1 TTGCTTCAATTTCCATGCTTATACCTCCTTA 3842675 TTGCTTCAATTTCCATGC 1 TTGCTTCAATTTCCATGC 3842693 CTTACAATAA Statistics Matches: 44, Mismatches: 4, Indels: 2 0.88 0.08 0.04 Matches are distributed among these distances: 31 42 0.95 32 2 0.05 ACGTcount: A:0.19, C:0.26, G:0.09, T:0.46 Consensus pattern (31 bp): TTGCTTCAATTTCCATGCTTATACCTCCTTA Found at i:3844203 original size:3 final size:3 Alignment explanation
Indices: 3844197--3844222 Score: 52 Period size: 3 Copynumber: 8.7 Consensus size: 3 3844187 CGTCATATTA 3844197 TTG TTG TTG TTG TTG TTG TTG TTG TT 1 TTG TTG TTG TTG TTG TTG TTG TTG TT 3844223 ATGAAGTTAT 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:0.00, C:0.00, G:0.31, T:0.69 Consensus pattern (3 bp): TTG Found at i:3849653 original size:21 final size:19 Alignment explanation
Indices: 3849629--3849690 Score: 70 Period size: 21 Copynumber: 3.0 Consensus size: 19 3849619 TTAAATATAT 3849629 ATTTTGAAATTACTTTTTTAA 1 ATTTT-AAATTA-TTTTTTAA 3849650 ATTTTAAATATTATTTTTTAA 1 ATTTT-AA-ATTATTTTTTAA * 3849671 ATATTAAATATATTTTTTAA 1 ATTTTAAAT-TATTTTTTAA 3849691 TAATATAAAA Statistics Matches: 37, Mismatches: 2, Indels: 5 0.84 0.05 0.11 Matches are distributed among these distances: 19 2 0.05 20 12 0.32 21 19 0.51 22 4 0.11 ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58 Consensus pattern (19 bp): ATTTTAAATTATTTTTTAA Found at i:3849701 original size:22 final size:20 Alignment explanation
Indices: 3849642--3849703 Score: 70 Period size: 21 Copynumber: 3.0 Consensus size: 20 3849632 TTGAAATTAC * * 3849642 TTTTTTAAATTTTAAATATTA 1 TTTTTTAAATATAAAATA-TA * 3849663 TTTTTTAAATATTAAATATA 1 TTTTTTAAATATAAAATATA 3849683 TTTTTTAATAATATAAAATAT 1 TTTTTT-A-AATATAAAATAT 3849704 TTAAATATTT Statistics Matches: 37, Mismatches: 2, Indels: 3 0.88 0.05 0.07 Matches are distributed among these distances: 20 8 0.22 21 18 0.49 22 11 0.30 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (20 bp): TTTTTTAAATATAAAATATA Found at i:3849705 original size:20 final size:20 Alignment explanation
Indices: 3849642--3849690 Score: 80 Period size: 21 Copynumber: 2.4 Consensus size: 20 3849632 TTGAAATTAC * 3849642 TTTTTTAAATTTTAAATATTA 1 TTTTTTAAATATTAAATA-TA 3849663 TTTTTTAAATATTAAATATA 1 TTTTTTAAATATTAAATATA 3849683 TTTTTTAA 1 TTTTTTAA 3849691 TAATATAAAA Statistics Matches: 27, Mismatches: 1, Indels: 1 0.93 0.03 0.03 Matches are distributed among these distances: 20 10 0.37 21 17 0.63 ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61 Consensus pattern (20 bp): TTTTTTAAATATTAAATATA Found at i:3849864 original size:46 final size:46 Alignment explanation
Indices: 3849797--3849887 Score: 182 Period size: 46 Copynumber: 2.0 Consensus size: 46 3849787 AAAAAAATAA 3849797 TGATTTAAAAGATTTAGGGACCTATTATGCAATTTTTCCATTTTTT 1 TGATTTAAAAGATTTAGGGACCTATTATGCAATTTTTCCATTTTTT 3849843 TGATTTAAAAGATTTAGGGACCTATTATGCAATTTTTCCATTTTT 1 TGATTTAAAAGATTTAGGGACCTATTATGCAATTTTTCCATTTTT 3849888 GAATGGTTGC Statistics Matches: 45, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 46 45 1.00 ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47 Consensus pattern (46 bp): TGATTTAAAAGATTTAGGGACCTATTATGCAATTTTTCCATTTTTT Found at i:3851166 original size:17 final size:18 Alignment explanation
Indices: 3851146--3851179 Score: 52 Period size: 17 Copynumber: 1.9 Consensus size: 18 3851136 AAAAGATTTA 3851146 TTTATTGAAAAA-ATATG 1 TTTATTGAAAAATATATG * 3851163 TTTATTTAAAAATATAT 1 TTTATTGAAAAATATAT 3851180 ATATTAAAAA Statistics Matches: 15, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 17 11 0.73 18 4 0.27 ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47 Consensus pattern (18 bp): TTTATTGAAAAATATATG Found at i:3851227 original size:20 final size:21 Alignment explanation
Indices: 3851169--3851228 Score: 79 Period size: 20 Copynumber: 2.9 Consensus size: 21 3851159 TATGTTTATT 3851169 TAAAAATATATATATTAAAAAG 1 TAAAAATATAT-TATTAAAAAG * * 3851191 TAAAAATTTA-AATTAAAAAG 1 TAAAAATATATTATTAAAAAG 3851211 TAAAAATATATTA-TAAAA 1 TAAAAATATATTATTAAAA 3851229 TCACATCATG Statistics Matches: 33, Mismatches: 4, Indels: 4 0.80 0.10 0.10 Matches are distributed among these distances: 20 23 0.70 21 1 0.03 22 9 0.27 ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32 Consensus pattern (21 bp): TAAAAATATATTATTAAAAAG Found at i:3851697 original size:20 final size:20 Alignment explanation
Indices: 3851674--3851738 Score: 62 Period size: 20 Copynumber: 3.2 Consensus size: 20 3851664 ATAATTTTTT 3851674 AATTTTAGTACACATTTATA 1 AATTTTAGTACACATTTATA * * * 3851694 AATTTATA-TATTA-ATTTTTT 1 AATTT-TAGTA-CACATTTATA * 3851714 AATTTTAGTACACATTCATA 1 AATTTTAGTACACATTTATA 3851734 AATTT 1 AATTT 3851739 ATGTACTTAA Statistics Matches: 34, Mismatches: 7, Indels: 8 0.69 0.14 0.16 Matches are distributed among these distances: 19 3 0.09 20 28 0.82 21 3 0.09 ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51 Consensus pattern (20 bp): AATTTTAGTACACATTTATA Found at i:3851709 original size:40 final size:41 Alignment explanation
Indices: 3851665--3851749 Score: 145 Period size: 40 Copynumber: 2.1 Consensus size: 41 3851655 GTGTTGGTTA * 3851665 TAATTTTTTAATTTTAGTACACATTTATAAATTTATATA-T 1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT * 3851705 TAATTTTTTAATTTTAGTACACATTCATAAATTTATGTACT 1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT 3851746 TAAT 1 TAAT 3851750 ATATATTTTT Statistics Matches: 42, Mismatches: 2, Indels: 1 0.93 0.04 0.02 Matches are distributed among these distances: 40 37 0.88 41 5 0.12 ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53 Consensus pattern (41 bp): TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT Found at i:3851760 original size:40 final size:40 Alignment explanation
Indices: 3851673--3851760 Score: 115 Period size: 40 Copynumber: 2.2 Consensus size: 40 3851663 TATAATTTTT * * * 3851673 TAATTTTAGTACACATTTATAAATTTATATATTAATTTTT 1 TAATTTTAGTACACATTCATAAATTTATATATTAATTATA * 3851713 TAATTTTAGTACACATTCATAAATTTATGTACTTAA-TATA 1 TAATTTTAGTACACATTCATAAATTTATATA-TTAATTATA * 3851753 TATTTTTA 1 TAATTTTA 3851761 ATAGATAAAG Statistics Matches: 42, Mismatches: 5, Indels: 2 0.86 0.10 0.04 Matches are distributed among these distances: 40 38 0.90 41 4 0.10 ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52 Consensus pattern (40 bp): TAATTTTAGTACACATTCATAAATTTATATATTAATTATA Found at i:3856925 original size:184 final size:184 Alignment explanation
Indices: 3856610--3856966 Score: 475 Period size: 184 Copynumber: 1.9 Consensus size: 184 3856600 ATAGTCAACA * * *** * 3856610 CCCAGCCCGGTAAAATATTGTCTGCTTTAGGCGCCCATGGCCCTCATGGTTTTGTTTTTGGGAGG 1 CCCAGCCCGGTAAAATATTGTCTGCTTTAGGCACCCATAGCCCTCATAACTTTGTTCTTGGGAGG * ** * 3856675 GCTTATACACCCCTAAAAGGTCTCTTTCCACTTAAGTGTTGCTACCCCTTTATATAGGCTAGGTC 66 GCTCATACACCCCTAAAAGACCTCTTTCCACTTAAGTGTTGCTACCCCTTTATATACGCTAGGTC *** * * * 3856740 TCTCTTGTGTTTTTCCAATGTGGGATTTGCCTAGGGTGTTACATTGATAAATTT 131 TCTCCCATGCTTTGCCAATATGGGATTTGCCTAGGGTGTTACATTGATAAATTT * * * * * * 3856794 CCCATCCCGGTAAAATATTGTTTGCTTTGGGTACTCATAGCCGTCATAACTTTGTTCTTGGGAGG 1 CCCAGCCCGGTAAAATATTGTCTGCTTTAGGCACCCATAGCCCTCATAACTTTGTTCTTGGGAGG * 3856859 GCTCATACA-CCTTCAAAAGACCTCTTTCCACTTAAGTGTTGCTACCCCTTTATATAACGC-AGG 66 GCTCATACACCCCT-AAAAGACCTCTTTCCACTTAAGTGTTGCTACCCCTTTATAT-ACGCTAGG 3856922 TCTCTCCCATGCTTTGCCAATATGGGATTTGCCTAGGGTGTTACA 129 TCTCTCCCATGCTTTGCCAATATGGGATTTGCCTAGGGTGTTACA 3856967 AAGTACATAA Statistics Matches: 148, Mismatches: 23, Indels: 4 0.85 0.13 0.02 Matches are distributed among these distances: 183 3 0.02 184 142 0.96 185 3 0.02 ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35 Consensus pattern (184 bp): CCCAGCCCGGTAAAATATTGTCTGCTTTAGGCACCCATAGCCCTCATAACTTTGTTCTTGGGAGG GCTCATACACCCCTAAAAGACCTCTTTCCACTTAAGTGTTGCTACCCCTTTATATACGCTAGGTC TCTCCCATGCTTTGCCAATATGGGATTTGCCTAGGGTGTTACATTGATAAATTT Found at i:3860117 original size:22 final size:26 Alignment explanation
Indices: 3860092--3860143 Score: 60 Period size: 22 Copynumber: 2.2 Consensus size: 26 3860082 CAAGAATGTC 3860092 TTATAT-TACGATT-A-TTGTTTT-T 1 TTATATCTACGATTGACTTGTTTTAT * 3860114 TTAT-TCTATGATTGACTTGTTTTAT 1 TTATATCTACGATTGACTTGTTTTAT 3860139 TTATA 1 TTATA 3860144 CATTGATAAA Statistics Matches: 24, Mismatches: 1, Indels: 6 0.77 0.03 0.19 Matches are distributed among these distances: 21 1 0.04 22 10 0.42 23 1 0.04 24 7 0.29 25 5 0.21 ACGTcount: A:0.23, C:0.06, G:0.10, T:0.62 Consensus pattern (26 bp): TTATATCTACGATTGACTTGTTTTAT Found at i:3860900 original size:44 final size:44 Alignment explanation
Indices: 3860851--3860971 Score: 147 Period size: 44 Copynumber: 2.8 Consensus size: 44 3860841 ATTAGGTAGT * * * 3860851 ACAAAATTAGTTGAAAAC-TCTAGAAGAGATAATTATTTGATAGC 1 ACAAAATTAGTTGAAAACTTC-AAAAGAGATAATCATTCGATAGC * * 3860895 ACAAAATTAGTTGAAAGCTTCAAAAGAGATAATCATTCGTTAGC 1 ACAAAATTAGTTGAAAACTTCAAAAGAGATAATCATTCGATAGC * * 3860939 ACAAAATTAGTTG-AAATTTCTAAAAGAGGTAAT 1 ACAAAATTAGTTGAAAACTTC-AAAAGAGATAAT 3860972 ATATCAATAC Statistics Matches: 67, Mismatches: 8, Indels: 4 0.85 0.10 0.05 Matches are distributed among these distances: 43 5 0.07 44 60 0.90 45 2 0.03 ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29 Consensus pattern (44 bp): ACAAAATTAGTTGAAAACTTCAAAAGAGATAATCATTCGATAGC Found at i:3863447 original size:19 final size:19 Alignment explanation
Indices: 3863423--3863459 Score: 65 Period size: 19 Copynumber: 1.9 Consensus size: 19 3863413 TTAATGTGCG * 3863423 AATATATGTATATGTGTGT 1 AATATATATATATGTGTGT 3863442 AATATATATATATGTGTG 1 AATATATATATATGTGTG 3863460 GATCGAACAA Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 19 17 1.00 ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46 Consensus pattern (19 bp): AATATATATATATGTGTGT Found at i:3863735 original size:41 final size:41 Alignment explanation
Indices: 3863673--3863848 Score: 280 Period size: 41 Copynumber: 4.3 Consensus size: 41 3863663 GTTTGGAATT * * 3863673 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC 1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC * * 3863714 GGTGATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC 1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC * * 3863755 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC 1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC * 3863796 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC 1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC * 3863837 GGTGATCCGAAT 1 GGTGATCTGAAT 3863849 ATGATGAATT Statistics Matches: 123, Mismatches: 12, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 41 123 1.00 ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23 Consensus pattern (41 bp): GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC Found at i:3863810 original size:82 final size:82 Alignment explanation
Indices: 3863673--3863842 Score: 331 Period size: 82 Copynumber: 2.1 Consensus size: 82 3863663 GTTTGGAATT 3863673 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC 1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC 3863738 CTAGCAGGCTAAGTGCC 66 CTAGCAGGCTAAGTGCC * 3863755 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC 1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC 3863820 CTAGCAGGCTAAGTGCC 66 CTAGCAGGCTAAGTGCC 3863837 GGTGAT 1 GGTGAT 3863843 CCGAATATGA Statistics Matches: 87, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 82 87 1.00 ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24 Consensus pattern (82 bp): GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC CTAGCAGGCTAAGTGCC Found at i:3865543 original size:30 final size:30 Alignment explanation
Indices: 3865486--3865543 Score: 80 Period size: 30 Copynumber: 1.9 Consensus size: 30 3865476 AATTGTTTTT * * * 3865486 TGATAATATTGCTTGTGGTGAATGAAATTA 1 TGATAATATTGCTTGTGATAAAAGAAATTA * 3865516 TGATAATGTTGCTTGTGATAAAAGAAAT 1 TGATAATATTGCTTGTGATAAAAGAAAT 3865544 GAGAAACAAA Statistics Matches: 24, Mismatches: 4, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 30 24 1.00 ACGTcount: A:0.36, C:0.03, G:0.22, T:0.38 Consensus pattern (30 bp): TGATAATATTGCTTGTGATAAAAGAAATTA Found at i:3872478 original size:5 final size:5 Alignment explanation
Indices: 3872462--3872491 Score: 53 Period size: 5 Copynumber: 6.2 Consensus size: 5 3872452 TATTTGTATT 3872462 CTTCC C-TCC CTTCC CTTCC CTTCC CTTCC C 1 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC C 3872492 GTGAACATAA Statistics Matches: 24, Mismatches: 0, Indels: 2 0.92 0.00 0.08 Matches are distributed among these distances: 4 4 0.17 5 20 0.83 ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37 Consensus pattern (5 bp): CTTCC Found at i:3876486 original size:110 final size:110 Alignment explanation
Indices: 3876293--3876517 Score: 441 Period size: 110 Copynumber: 2.0 Consensus size: 110 3876283 TTGAATGAAA 3876293 ATAAAAACTTAGGATTGACGCCCTAAAAGGACATTTAAACAAGTGAGACCGAGAGGTAATCTTGT 1 ATAAAAACTTAGGATTGACGCCCTAAAAGGACATTTAAACAAGTGAGACCGAGAGGTAATCTTGT 3876358 TGAGTATCAATTCATTAGTCCTGGGTTAGTCGGTGAGATCAAGAG 66 TGAGTATCAATTCATTAGTCCTGGGTTAGTCGGTGAGATCAAGAG * 3876403 ATAAAAACTTAGGATTGACGCCTTAAAAGGACATTTAAACAAGTGAGACCGAGAGGTAATCTTGT 1 ATAAAAACTTAGGATTGACGCCCTAAAAGGACATTTAAACAAGTGAGACCGAGAGGTAATCTTGT 3876468 TGAGTATCAATTCATTAGTCCTGGGTTAGTCGGTGAGATCAAGAG 66 TGAGTATCAATTCATTAGTCCTGGGTTAGTCGGTGAGATCAAGAG 3876513 ATAAA 1 ATAAA 3876518 CCGAATCAAT Statistics Matches: 114, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 110 114 1.00 ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27 Consensus pattern (110 bp): ATAAAAACTTAGGATTGACGCCCTAAAAGGACATTTAAACAAGTGAGACCGAGAGGTAATCTTGT TGAGTATCAATTCATTAGTCCTGGGTTAGTCGGTGAGATCAAGAG Found at i:3887237 original size:13 final size:13 Alignment explanation
Indices: 3887198--3887250 Score: 63 Period size: 13 Copynumber: 4.1 Consensus size: 13 3887188 AGTTTGGCAA * 3887198 TGCTTTTGAGAAG 1 TGCTTTTGAAAAG * 3887211 TGC-TATGAAAAAG 1 TGCTTTTG-AAAAG * 3887224 TGCTTTTGAGAAG 1 TGCTTTTGAAAAG 3887237 TGCTTTTGAAAAG 1 TGCTTTTGAAAAG 3887250 T 1 T 3887251 TTGGTTTAAA Statistics Matches: 33, Mismatches: 5, Indels: 4 0.79 0.12 0.10 Matches are distributed among these distances: 12 3 0.09 13 27 0.82 14 3 0.09 ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36 Consensus pattern (13 bp): TGCTTTTGAAAAG Found at i:3888344 original size:31 final size:30 Alignment explanation
Indices: 3888309--3888380 Score: 90 Period size: 31 Copynumber: 2.3 Consensus size: 30 3888299 AAATTTTTAA * * 3888309 TTTAGTCATTAATGTTTTAGATTATTTCTAT 1 TTTAGTCATT-ACGCTTTAGATTATTTCTAT * * 3888340 TTTAGTAACTTACGCTTTAGATTGTTTCTAT 1 TTTAGTCA-TTACGCTTTAGATTATTTCTAT 3888371 TTTAGTCATT 1 TTTAGTCATT 3888381 CTTCATTAAA Statistics Matches: 35, Mismatches: 5, Indels: 3 0.81 0.12 0.07 Matches are distributed among these distances: 30 2 0.06 31 31 0.89 32 2 0.06 ACGTcount: A:0.24, C:0.10, G:0.11, T:0.56 Consensus pattern (30 bp): TTTAGTCATTACGCTTTAGATTATTTCTAT Found at i:3892619 original size:23 final size:23 Alignment explanation
Indices: 3892593--3892636 Score: 88 Period size: 23 Copynumber: 1.9 Consensus size: 23 3892583 TGGAAACTTA 3892593 ATTTGGTATAATAGTTTCATCTC 1 ATTTGGTATAATAGTTTCATCTC 3892616 ATTTGGTATAATAGTTTCATC 1 ATTTGGTATAATAGTTTCATC 3892637 AGGATTTTGT Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 23 21 1.00 ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48 Consensus pattern (23 bp): ATTTGGTATAATAGTTTCATCTC Found at i:3900121 original size:27 final size:24 Alignment explanation
Indices: 3900062--3900125 Score: 110 Period size: 24 Copynumber: 2.7 Consensus size: 24 3900052 CTGTTGCTGA 3900062 TGCAGCTGCTGCTGTTCCTCATAT 1 TGCAGCTGCTGCTGTTCCTCATAT 3900086 TGCAGCTGCTGCTGTTCCTCATAT 1 TGCAGCTGCTGCTGTTCCTCATAT * * 3900110 TTCAGCTCCTGCTGTT 1 TGCAGCTGCTGCTGTT 3900126 GTTGATCACC Statistics Matches: 38, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 24 38 1.00 ACGTcount: A:0.11, C:0.30, G:0.20, T:0.39 Consensus pattern (24 bp): TGCAGCTGCTGCTGTTCCTCATAT Found at i:3902736 original size:20 final size:22 Alignment explanation
Indices: 3902706--3902752 Score: 71 Period size: 21 Copynumber: 2.2 Consensus size: 22 3902696 CAAAAGTTAC 3902706 AAAATAATTCAAA-ATAATTTT 1 AAAATAATTCAAACATAATTTT * 3902727 AAAA-AATTCAAACCTAATTTT 1 AAAATAATTCAAACATAATTTT 3902748 AAAAT 1 AAAAT 3902753 TTAAAATATT Statistics Matches: 23, Mismatches: 1, Indels: 3 0.85 0.04 0.11 Matches are distributed among these distances: 20 8 0.35 21 15 0.65 ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34 Consensus pattern (22 bp): AAAATAATTCAAACATAATTTT Found at i:3902780 original size:17 final size:17 Alignment explanation
Indices: 3902742--3902783 Score: 50 Period size: 17 Copynumber: 2.5 Consensus size: 17 3902732 ATTCAAACCT * 3902742 AATTT-TAAAATTTAAA 1 AATTTATAAAATTCAAA * 3902758 ATATTTATAAAATTCCAA 1 A-ATTTATAAAATTCAAA 3902776 AATTTATA 1 AATTTATA 3902784 TTTTTTTAAA Statistics Matches: 22, Mismatches: 2, Indels: 3 0.81 0.07 0.11 Matches are distributed among these distances: 16 1 0.05 17 11 0.50 18 10 0.45 ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43 Consensus pattern (17 bp): AATTTATAAAATTCAAA Found at i:3902812 original size:18 final size:18 Alignment explanation
Indices: 3902742--3902822 Score: 58 Period size: 18 Copynumber: 4.5 Consensus size: 18 3902732 ATTCAAACCT * 3902742 AATTTTAAAATTT-AAAA 1 AATTATAAAATTTCAAAA * * 3902759 TATTTATAAAA-TTCCAAA 1 -AATTATAAAATTTCAAAA * *** * 3902777 ATTTATATTTTTTTAAAA 1 AATTATAAAATTTCAAAA 3902795 AATTATAAAATTTCAAAA 1 AATTATAAAATTTCAAAA 3902813 AATATATAAA 1 AAT-TATAAA 3902823 GAAAGTTAAA Statistics Matches: 47, Mismatches: 13, Indels: 5 0.72 0.20 0.08 Matches are distributed among these distances: 17 9 0.19 18 32 0.68 19 6 0.13 ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42 Consensus pattern (18 bp): AATTATAAAATTTCAAAA Found at i:3902819 original size:35 final size:36 Alignment explanation
Indices: 3902752--3902819 Score: 93 Period size: 35 Copynumber: 1.9 Consensus size: 36 3902742 AATTTTAAAA * ** 3902752 TTTAAAATATTTATAAAATTCCAAAATTTATATTTT 1 TTTAAAATAATTATAAAATTCCAAAAAATATATTTT * 3902788 TTTAAAA-AATTATAAAATTTCAAAAAATATAT 1 TTTAAAATAATTATAAAATTCCAAAAAATATAT 3902820 AAAGAAAGTT Statistics Matches: 28, Mismatches: 4, Indels: 1 0.85 0.12 0.03 Matches are distributed among these distances: 35 21 0.75 36 7 0.25 ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44 Consensus pattern (36 bp): TTTAAAATAATTATAAAATTCCAAAAAATATATTTT Found at i:3906022 original size:19 final size:18 Alignment explanation
Indices: 3905994--3906033 Score: 53 Period size: 19 Copynumber: 2.2 Consensus size: 18 3905984 ACGAAATTTT 3905994 AATTAGTATTATGAGATAA 1 AATTAGTATTATGAGA-AA * * 3906013 AATTATTATTATTAGAAA 1 AATTAGTATTATGAGAAA 3906031 AAT 1 AAT 3906034 AATACTGCAT Statistics Matches: 19, Mismatches: 2, Indels: 1 0.86 0.09 0.05 Matches are distributed among these distances: 18 5 0.26 19 14 0.74 ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40 Consensus pattern (18 bp): AATTAGTATTATGAGAAA Found at i:3908494 original size:60 final size:59 Alignment explanation
Indices: 3908418--3908554 Score: 161 Period size: 60 Copynumber: 2.3 Consensus size: 59 3908408 AATTGTGTTA * * * 3908418 ATATGGCCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG 1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG * * * 3908478 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAAGGGCTATGGCCTAGATTAATATTG 1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG 3908538 ATATGGGCTAAGGCCCA 1 ATATGGGCT-AGGCCCA 3908555 GTTAACACTG Statistics Matches: 67, Mismatches: 6, Indels: 7 0.84 0.08 0.09 Matches are distributed among these distances: 59 1 0.01 60 51 0.76 61 15 0.22 ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26 Consensus pattern (59 bp): ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG Found at i:3910761 original size:19 final size:19 Alignment explanation
Indices: 3910737--3910844 Score: 116 Period size: 19 Copynumber: 5.6 Consensus size: 19 3910727 CGTGTTTGCT 3910737 TTCCGTTTAGCCTTCGGGC 1 TTCCGTTTAGCCTTCGGGC 3910756 TTCCGTTTAGCACTT-GTGTGC 1 TTCCGTTTAGC-CTTCG-G-GC * 3910777 TTCAG-TTAGCCTTCGGGC 1 TTCCGTTTAGCCTTCGGGC 3910795 TTCCGTTTAGCACTT-GTGTGC 1 TTCCGTTTAGC-CTTCG-G-GC * 3910816 TTCAG-TTAGCCTTCGGGC 1 TTCCGTTTAGCCTTCGGGC 3910834 TTCCGTTTAGC 1 TTCCGTTTAGC 3910845 ACTTATGTGC Statistics Matches: 75, Mismatches: 4, Indels: 20 0.76 0.04 0.20 Matches are distributed among these distances: 18 12 0.16 19 31 0.41 20 20 0.27 21 12 0.16 ACGTcount: A:0.09, C:0.27, G:0.25, T:0.39 Consensus pattern (19 bp): TTCCGTTTAGCCTTCGGGC Found at i:3910789 original size:39 final size:39 Alignment explanation
Indices: 3910743--3910875 Score: 230 Period size: 39 Copynumber: 3.4 Consensus size: 39 3910733 TGCTTTCCGT 3910743 TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG 1 TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG 3910782 TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG 1 TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG * 3910821 TTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTTCAG 1 TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG * * * 3910860 CTAGACTTCAGGCTTC 1 TTAGCCTTCGGGCTTC 3910876 AGATCACGAT Statistics Matches: 90, Mismatches: 4, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 39 90 1.00 ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38 Consensus pattern (39 bp): TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG Found at i:3911587 original size:21 final size:21 Alignment explanation
Indices: 3911561--3911609 Score: 66 Period size: 21 Copynumber: 2.4 Consensus size: 21 3911551 GAGTTTTTTT * 3911561 AAAATAATA-ATAAAAATAAA 1 AAAATAATACAAAAAAATAAA 3911581 ATAAATAA-ACAAAAAAATAAA 1 A-AAATAATACAAAAAAATAAA 3911602 AAAATAAT 1 AAAATAAT 3911610 TATATTACAA Statistics Matches: 25, Mismatches: 1, Indels: 5 0.81 0.03 0.16 Matches are distributed among these distances: 20 8 0.32 21 17 0.68 ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18 Consensus pattern (21 bp): AAAATAATACAAAAAAATAAA Found at i:3911594 original size:18 final size:17 Alignment explanation
Indices: 3911560--3911608 Score: 54 Period size: 15 Copynumber: 3.2 Consensus size: 17 3911550 TGAGTTTTTT 3911560 TAAAATAATAATAAAAA 1 TAAAATAATAATAAAAA * 3911577 TAAAAT-A-AATAAACA 1 TAAAATAATAATAAAAA 3911592 -AAAA-AATAA-AAAAA 1 TAAAATAATAATAAAAA 3911606 TAA 1 TAA 3911609 TTATATTACA Statistics Matches: 27, Mismatches: 2, Indels: 8 0.73 0.05 0.22 Matches are distributed among these distances: 14 9 0.33 15 11 0.41 16 1 0.04 17 6 0.22 ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18 Consensus pattern (17 bp): TAAAATAATAATAAAAA Found at i:3919576 original size:50 final size:50 Alignment explanation
Indices: 3919491--3919656 Score: 219 Period size: 50 Copynumber: 3.3 Consensus size: 50 3919481 GCTAAATGAC * * 3919491 CTTGTATATTCGGCCATA-AAGGTATGCACAAATGTGATATTATATTTGAAT 1 CTTGTATATTCGGCCATATAA-GTAAGCACATATGTGATATTATATTTG-AT * * 3919542 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATATTAAATTTGAT 1 CTTGTATATTCGGCCATATAAGTAAGCACATATGTGATATTATATTTGAT * * * * 3919591 CTTGCATATTCGACCATATAGGTAAGCACATATGTGATATTGTATTTGAT 1 CTTGTATATTCGGCCATATAAGTAAGCACATATGTGATATTATATTTGAT * 3919641 CTTGTATATTTGGCCA 1 CTTGTATATTCGGCCA 3919657 AATGAGTGGT Statistics Matches: 100, Mismatches: 13, Indels: 5 0.85 0.11 0.04 Matches are distributed among these distances: 49 2 0.02 50 96 0.96 51 2 0.02 ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39 Consensus pattern (50 bp): CTTGTATATTCGGCCATATAAGTAAGCACATATGTGATATTATATTTGAT Found at i:3919810 original size:26 final size:26 Alignment explanation
Indices: 3919780--3919831 Score: 104 Period size: 26 Copynumber: 2.0 Consensus size: 26 3919770 TTATTGAAAT 3919780 GTTTATTTGCTTATGACTTACTAAGC 1 GTTTATTTGCTTATGACTTACTAAGC 3919806 GTTTATTTGCTTATGACTTACTAAGC 1 GTTTATTTGCTTATGACTTACTAAGC 3919832 TAAGTTAGCT Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 26 26 1.00 ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46 Consensus pattern (26 bp): GTTTATTTGCTTATGACTTACTAAGC Found at i:3920249 original size:21 final size:21 Alignment explanation
Indices: 3920225--3920267 Score: 77 Period size: 21 Copynumber: 2.0 Consensus size: 21 3920215 AATGGTAGTG * 3920225 TAAATATGTTTGTATGTTTGC 1 TAAATATGTTTGTATCTTTGC 3920246 TAAATATGTTTGTATCTTTGC 1 TAAATATGTTTGTATCTTTGC 3920267 T 1 T 3920268 TGTAGATTGA Statistics Matches: 21, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 21 21 1.00 ACGTcount: A:0.23, C:0.07, G:0.16, T:0.53 Consensus pattern (21 bp): TAAATATGTTTGTATCTTTGC Found at i:3924339 original size:16 final size:16 Alignment explanation
Indices: 3924315--3924345 Score: 53 Period size: 16 Copynumber: 1.9 Consensus size: 16 3924305 TAAAAAAATA 3924315 AATACATCAATCTATC 1 AATACATCAATCTATC * 3924331 AATATATCAATCTAT 1 AATACATCAATCTAT 3924346 ACAAGTCTCT 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:0.45, C:0.19, G:0.00, T:0.35 Consensus pattern (16 bp): AATACATCAATCTATC Found at i:3928957 original size:18 final size:18 Alignment explanation
Indices: 3928931--3928973 Score: 77 Period size: 18 Copynumber: 2.4 Consensus size: 18 3928921 AAAAGTTATT * 3928931 TTTACATATATTAATAAA 1 TTTATATATATTAATAAA 3928949 TTTATATATATTAATAAA 1 TTTATATATATTAATAAA 3928967 TTTATAT 1 TTTATAT 3928974 TTTAATTTTT Statistics Matches: 24, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 18 24 1.00 ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51 Consensus pattern (18 bp): TTTATATATATTAATAAA Found at i:3928978 original size:16 final size:16 Alignment explanation
Indices: 3928936--3928979 Score: 61 Period size: 18 Copynumber: 2.6 Consensus size: 16 3928926 TTATTTTTAC * 3928936 ATATATTAATAAATTT 1 ATATTTTAATAAATTT 3928952 ATATATATTAATAAATTT 1 ATAT-T-TTAATAAATTT 3928970 ATATTTTAAT 1 ATATTTTAAT 3928980 TTTTTTTACA Statistics Matches: 25, Mismatches: 1, Indels: 4 0.83 0.03 0.13 Matches are distributed among these distances: 16 9 0.36 17 1 0.04 18 15 0.60 ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52 Consensus pattern (16 bp): ATATTTTAATAAATTT Found at i:3950404 original size:32 final size:33 Alignment explanation
Indices: 3950367--3950428 Score: 90 Period size: 32 Copynumber: 1.9 Consensus size: 33 3950357 TTTTTATTAC * * * 3950367 CCAAAATATTGATTAATT-AATTAATTTAATGT 1 CCAAAAAATTAATTAATTAAATTAAATTAATGT 3950399 CCAAAAAATTAATTAATTAAATTAAATTAA 1 CCAAAAAATTAATTAATTAAATTAAATTAA 3950429 CTAAATTATT Statistics Matches: 26, Mismatches: 3, Indels: 1 0.87 0.10 0.03 Matches are distributed among these distances: 32 16 0.62 33 10 0.38 ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39 Consensus pattern (33 bp): CCAAAAAATTAATTAATTAAATTAAATTAATGT Found at i:3950428 original size:14 final size:14 Alignment explanation
Indices: 3950404--3950436 Score: 50 Period size: 14 Copynumber: 2.4 Consensus size: 14 3950394 AATGTCCAAA * 3950404 AAATT-AATTAATT 1 AAATTAAATTAACT 3950417 AAATTAAATTAACT 1 AAATTAAATTAACT 3950431 AAATTA 1 AAATTA 3950437 TTTTCTCAAT Statistics Matches: 18, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 13 5 0.28 14 13 0.72 ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39 Consensus pattern (14 bp): AAATTAAATTAACT Found at i:3951508 original size:20 final size:20 Alignment explanation
Indices: 3951483--3951529 Score: 62 Period size: 19 Copynumber: 2.4 Consensus size: 20 3951473 TACAAAAGCA 3951483 AAAATAAAAAATA-AAAAAT 1 AAAATAAAAAATAGAAAAAT 3951502 AAGAAT-AAAAATAGTAAAAAT 1 AA-AATAAAAAATAG-AAAAAT 3951523 AAAATAA 1 AAAATAA 3951530 GGTCCAATGT Statistics Matches: 24, Mismatches: 0, Indels: 6 0.80 0.00 0.20 Matches are distributed among these distances: 19 9 0.38 20 6 0.25 21 9 0.38 ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17 Consensus pattern (20 bp): AAAATAAAAAATAGAAAAAT Found at i:3951525 original size:15 final size:13 Alignment explanation
Indices: 3951482--3951526 Score: 54 Period size: 13 Copynumber: 3.2 Consensus size: 13 3951472 ATACAAAAGC 3951482 AAAAATAAAAAATA 1 AAAAAT-AAAAATA * 3951496 AAAAATAAGAATA 1 AAAAATAAAAATA 3951509 AAAATAGTAAAAATA 1 AAAA-A-TAAAAATA 3951524 AAA 1 AAA 3951527 TAAGGTCCAA Statistics Matches: 27, Mismatches: 2, Indels: 3 0.84 0.06 0.09 Matches are distributed among these distances: 13 10 0.37 14 7 0.26 15 10 0.37 ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16 Consensus pattern (13 bp): AAAAATAAAAATA Found at i:3955841 original size:12 final size:12 Alignment explanation
Indices: 3955824--3955850 Score: 54 Period size: 12 Copynumber: 2.2 Consensus size: 12 3955814 ACAATAATTA 3955824 TTGGGTATTGTT 1 TTGGGTATTGTT 3955836 TTGGGTATTGTT 1 TTGGGTATTGTT 3955848 TTG 1 TTG 3955851 CATAAATCTA Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 15 1.00 ACGTcount: A:0.07, C:0.00, G:0.33, T:0.59 Consensus pattern (12 bp): TTGGGTATTGTT Found at i:3956093 original size:32 final size:32 Alignment explanation
Indices: 3956052--3956116 Score: 112 Period size: 32 Copynumber: 2.0 Consensus size: 32 3956042 CAAGATGACG 3956052 AGATAGATGTAAAAGCCAAGGGCAAATATAAA 1 AGATAGATGTAAAAGCCAAGGGCAAATATAAA * * 3956084 AGATAGATGTAAAGGCTAAGGGCAAATATAAA 1 AGATAGATGTAAAAGCCAAGGGCAAATATAAA 3956116 A 1 A 3956117 CAAATTGCAA Statistics Matches: 31, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 32 31 1.00 ACGTcount: A:0.52, C:0.08, G:0.23, T:0.17 Consensus pattern (32 bp): AGATAGATGTAAAAGCCAAGGGCAAATATAAA Found at i:3960243 original size:17 final size:17 Alignment explanation
Indices: 3960223--3960255 Score: 66 Period size: 17 Copynumber: 1.9 Consensus size: 17 3960213 ATTAAGAATG 3960223 TTATTAAATTATATTTT 1 TTATTAAATTATATTTT 3960240 TTATTAAATTATATTT 1 TTATTAAATTATATTT 3960256 AATAATAATT Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 16 1.00 ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64 Consensus pattern (17 bp): TTATTAAATTATATTTT Found at i:3960523 original size:46 final size:44 Alignment explanation
Indices: 3960430--3960523 Score: 136 Period size: 44 Copynumber: 2.1 Consensus size: 44 3960420 ATTACAACAT * 3960430 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTCTATTC 1 CATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTC * 3960474 CATTCCATTCAACCAAACAGT-TGAATTACTTATTACAGCTCTATTC 1 CATTCCATTCAACCAAACA-TAAGAA-TAC-TATTACAGCTCTATTC 3960520 CATT 1 CATT 3960524 ACAGCTCTAT Statistics Matches: 45, Mismatches: 2, Indels: 4 0.88 0.04 0.08 Matches are distributed among these distances: 44 22 0.49 45 4 0.09 46 19 0.42 ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34 Consensus pattern (44 bp): CATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTC Found at i:3960526 original size:16 final size:16 Alignment explanation
Indices: 3960505--3960560 Score: 94 Period size: 16 Copynumber: 3.5 Consensus size: 16 3960495 TGAATTACTT 3960505 ATTACAGCTCTATTCC 1 ATTACAGCTCTATTCC * 3960521 ATTACAGCTCTATTCA 1 ATTACAGCTCTATTCC * 3960537 ATTACAGCCCTATTCC 1 ATTACAGCTCTATTCC 3960553 ATTACAGC 1 ATTACAGC 3960561 CAACCAAACG Statistics Matches: 37, Mismatches: 3, Indels: 0 0.93 0.08 0.00 Matches are distributed among these distances: 16 37 1.00 ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34 Consensus pattern (16 bp): ATTACAGCTCTATTCC Found at i:3961119 original size:14 final size:16 Alignment explanation
Indices: 3961090--3961121 Score: 50 Period size: 14 Copynumber: 2.1 Consensus size: 16 3961080 CTTTAAATTG 3961090 TTCTATTATGTAAAAT 1 TTCTATTATGTAAAAT 3961106 TTCTATT-T-TAAAAT 1 TTCTATTATGTAAAAT 3961120 TT 1 TT 3961122 TCTTTATACA Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 14 8 0.50 15 1 0.06 16 7 0.44 ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56 Consensus pattern (16 bp): TTCTATTATGTAAAAT Found at i:3961163 original size:34 final size:30 Alignment explanation
Indices: 3961104--3961204 Score: 96 Period size: 31 Copynumber: 3.2 Consensus size: 30 3961094 ATTATGTAAA * * 3961104 ATTTCTATTTTAAAATTT-TCTTTATACATGT 1 ATTTTTATTTTAAAATTTAT-ATTATACAT-T * 3961135 ATTTTTGTTTTCAAAATTTATACATTATACATT 1 ATTTTTATTTT-AAAATTTAT--ATTATACATT * * 3961168 ATATATTATTTTAAAATTTATATTATGCATT 1 AT-TTTTATTTTAAAATTTATATTATACATT 3961199 ATTTTT 1 ATTTTT 3961205 TTTATATATA Statistics Matches: 59, Mismatches: 7, Indels: 9 0.79 0.09 0.12 Matches are distributed among these distances: 30 3 0.05 31 20 0.34 32 7 0.12 33 13 0.22 34 16 0.27 ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57 Consensus pattern (30 bp): ATTTTTATTTTAAAATTTATATTATACATT Found at i:3961187 original size:33 final size:33 Alignment explanation
Indices: 3961109--3961189 Score: 96 Period size: 34 Copynumber: 2.5 Consensus size: 33 3961099 GTAAAATTTC * * 3961109 TATTTTAAAATTT-T-CTTTATACATGTATTTT 1 TATTTTAAAATTTATACATTATACATGTATTAT * 3961140 TGTTTTCAAAATTTATACATTATACAT-TATATAT 1 TATTTT-AAAATTTATACATTATACATGTAT-TAT 3961174 TATTTTAAAATTTATA 1 TATTTTAAAATTTATA 3961190 TTATGCATTA Statistics Matches: 42, Mismatches: 4, Indels: 6 0.81 0.08 0.12 Matches are distributed among these distances: 31 5 0.12 32 7 0.17 33 14 0.33 34 16 0.38 ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56 Consensus pattern (33 bp): TATTTTAAAATTTATACATTATACATGTATTAT Found at i:3965282 original size:46 final size:46 Alignment explanation
Indices: 3965222--3965495 Score: 415 Period size: 46 Copynumber: 6.0 Consensus size: 46 3965212 TTTGACATGA * * * * * 3965222 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT 1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT *** * 3965268 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT 1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT * 3965314 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC 1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT 3965360 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT 1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT * * 3965406 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC 1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT * 3965452 TGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATATCAG 1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG 3965496 AGAGCACACT Statistics Matches: 211, Mismatches: 16, Indels: 2 0.92 0.07 0.01 Matches are distributed among these distances: 45 4 0.02 46 207 0.98 ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38 Consensus pattern (46 bp): TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT Found at i:3969643 original size:24 final size:25 Alignment explanation
Indices: 3969580--3969643 Score: 64 Period size: 24 Copynumber: 2.6 Consensus size: 25 3969570 ATGAAATGTT * * 3969580 ATAAAATTATGTATTTGACGTTTTC 1 ATAAAATTAAGTATTTGACGTTTAC 3969605 ATAAAAATTAA--ATTTGAC-TTTA- 1 AT-AAAATTAAGTATTTGACGTTTAC 3969627 ACTAAAATTAAGTATTT 1 A-TAAAATTAAGTATTT 3969644 AAATTTCTAT Statistics Matches: 33, Mismatches: 2, Indels: 9 0.75 0.05 0.20 Matches are distributed among these distances: 22 9 0.27 23 4 0.12 24 11 0.33 25 2 0.06 26 7 0.21 ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44 Consensus pattern (25 bp): ATAAAATTAAGTATTTGACGTTTAC Found at i:3970404 original size:18 final size:20 Alignment explanation
Indices: 3970370--3970408 Score: 64 Period size: 18 Copynumber: 2.0 Consensus size: 20 3970360 AATATAACAA 3970370 TAATTAAAATATTTTATAAT 1 TAATTAAAATATTTTATAAT 3970390 TAATT-AAAT-TTTTATAAT 1 TAATTAAAATATTTTATAAT 3970408 T 1 T 3970409 TTTAGTTAAA Statistics Matches: 19, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 18 10 0.53 19 4 0.21 20 5 0.26 ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54 Consensus pattern (20 bp): TAATTAAAATATTTTATAAT Done.