Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: scaffold3115.1 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: 160793 ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32 Warning! 516 characters in sequence are not A, C, G, or T Found at i:6197 original size:27 final size:27 Alignment explanation
Indices: 6167--6344 Score: 205 Period size: 27 Copynumber: 6.6 Consensus size: 27 6157 ATATTGAGTC * * * * 6167 CGCACACTCAGTGCTATATAATCAACT 1 CGCACACTTAGTGCTACATAGTCAAAT * * 6194 CGCACACTTAGTGCTACGTAATCAAAT 1 CGCACACTTAGTGCTACATAGTCAAAT 6221 CGCACACTTAGTGCTACATAGTCAAACT 1 CGCACACTTAGTGCTACATAGTCAAA-T ** * * 6249 CGCACACTTAGTGCCGCATGGTCAATT 1 CGCACACTTAGTGCTACATAGTCAAAT * ** 6276 CGCACACTTAGTGC-ATCATATTCATTT 1 CGCACACTTAGTGCTA-CATAGTCAAAT * 6303 CGCACACTTAGTGCAACATAGTCAAAT 1 CGCACACTTAGTGCTACATAGTCAAAT 6330 CGCACACTTAGTGCT 1 CGCACACTTAGTGCT 6345 GTACAATTTA Statistics Matches: 130, Mismatches: 18, Indels: 6 0.84 0.12 0.04 Matches are distributed among these distances: 27 106 0.82 28 24 0.18 ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27 Consensus pattern (27 bp): CGCACACTTAGTGCTACATAGTCAAAT Found at i:6306 original size:82 final size:81 Alignment explanation
Indices: 6188--6343 Score: 233 Period size: 82 Copynumber: 1.9 Consensus size: 81 6178 TGCTATATAA * * 6188 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA 1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA 6253 CACTTAGTGCCGCATGG 65 CACTTAGTGCCGCATGG * * ** 6270 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA 1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA 6334 CACTTAGTGC 65 CACTTAGTGC 6344 TGTACAATTT Statistics Matches: 67, Mismatches: 6, Indels: 3 0.88 0.08 0.04 Matches are distributed among these distances: 81 16 0.24 82 51 0.76 ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27 Consensus pattern (81 bp): TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC ACTTAGTGCCGCATGG Found at i:8708 original size:16 final size:16 Alignment explanation
Indices: 8684--8726 Score: 77 Period size: 16 Copynumber: 2.7 Consensus size: 16 8674 TGATCGTTGC 8684 TCCGTACTTTAGCTAG 1 TCCGTACTTTAGCTAG * 8700 TCTGTACTTTAGCTAG 1 TCCGTACTTTAGCTAG 8716 TCCGTACTTTA 1 TCCGTACTTTA 8727 AATTTTGAAA Statistics Matches: 25, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 16 25 1.00 ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42 Consensus pattern (16 bp): TCCGTACTTTAGCTAG Found at i:12725 original size:49 final size:48 Alignment explanation
Indices: 12653--12828 Score: 183 Period size: 51 Copynumber: 3.5 Consensus size: 48 12643 CTGATATGCA * 12653 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG 1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAAT-TGGTACACG * * * * * 12702 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-ATTGAGTACGCA 1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA--CAATTG-GTACACG * * * 12753 TAGTAGCCTGCACTAAGTACTACACATGCGACTTAACAGTATGGTACACG 1 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAAT-TGGTACACG * * 12803 TAGTAGCTTGCACTTAGTACTGCACA 1 TAGTAGCCTGCACTTAGTACTACACA 12829 CGTGTACTCA Statistics Matches: 104, Mismatches: 16, Indels: 13 0.78 0.12 0.10 Matches are distributed among these distances: 49 30 0.29 50 34 0.33 51 39 0.38 52 1 0.01 ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24 Consensus pattern (48 bp): TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATTGGTACACG Found at i:12830 original size:101 final size:100 Alignment explanation
Indices: 12650--12832 Score: 294 Period size: 101 Copynumber: 1.8 Consensus size: 100 12640 TATCTGATAT * * 12650 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTGCAC 1 GCATAGTAGCCTGCACTAAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTGCAC 12715 TTAGTACTACACACGTGATCGAAGTCATTGAGTAC 66 TTAGTACTACACACGTGATCGAAGTCATTGAGTAC * * * * 12750 GCATAGTAGCCTGCACTAAGTACTACACATGCGACTTAACAGTATGGTACACGTAGTAGCTTGCA 1 GCATAGTAGCCTGCACTAAGTACTACACATGCGAC-CAACAATACGGTACACGTAGTAGCCTGCA * 12815 CTTAGTACTGCACACGTG 65 CTTAGTACTACACACGTG 12833 TACTCACAAT Statistics Matches: 75, Mismatches: 7, Indels: 1 0.90 0.08 0.01 Matches are distributed among these distances: 100 34 0.45 101 41 0.55 ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24 Consensus pattern (100 bp): GCATAGTAGCCTGCACTAAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTGCAC TTAGTACTACACACGTGATCGAAGTCATTGAGTAC Found at i:18752 original size:13 final size:14 Alignment explanation
Indices: 18710--18754 Score: 51 Period size: 13 Copynumber: 3.3 Consensus size: 14 18700 TAAAAATGAT 18710 TAAAGTATATTATAA 1 TAAAGTA-ATTATAA 18725 TAATA-TAA-TATAA 1 TAA-AGTAATTATAA 18738 TAAAGTAATTA-AA 1 TAAAGTAATTATAA 18751 TAAA 1 TAAA 18755 TAAAATAAAA Statistics Matches: 27, Mismatches: 0, Indels: 8 0.77 0.00 0.23 Matches are distributed among these distances: 12 1 0.04 13 17 0.63 14 3 0.11 15 5 0.19 16 1 0.04 ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36 Consensus pattern (14 bp): TAAAGTAATTATAA Found at i:20567 original size:20 final size:20 Alignment explanation
Indices: 20542--20582 Score: 73 Period size: 20 Copynumber: 2.0 Consensus size: 20 20532 TGCCCATGAC 20542 CATGTCCCAAGCCACACGGG 1 CATGTCCCAAGCCACACGGG * 20562 CATGTCCCAGGCCACACGGG 1 CATGTCCCAAGCCACACGGG 20582 C 1 C 20583 GTGTGCCTCT Statistics Matches: 20, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 20 20 1.00 ACGTcount: A:0.22, C:0.41, G:0.27, T:0.10 Consensus pattern (20 bp): CATGTCCCAAGCCACACGGG Found at i:22550 original size:26 final size:26 Alignment explanation
Indices: 22514--22621 Score: 198 Period size: 26 Copynumber: 4.2 Consensus size: 26 22504 TGATACAAAT * 22514 TGATAGTGGGTTAGGTAAATGTTCCA 1 TGATAATGGGTTAGGTAAATGTTCCA * 22540 TGATAATGGGTTAGGTAAATGTTTCA 1 TGATAATGGGTTAGGTAAATGTTCCA 22566 TGATAATGGGTTAGGTAAATGTTCCA 1 TGATAATGGGTTAGGTAAATGTTCCA 22592 TGATAATGGGTTAGGTAAATGTTCCA 1 TGATAATGGGTTAGGTAAATGTTCCA 22618 TGAT 1 TGAT 22622 GGGAATTTCA Statistics Matches: 79, Mismatches: 3, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 26 79 1.00 ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36 Consensus pattern (26 bp): TGATAATGGGTTAGGTAAATGTTCCA Found at i:25680 original size:40 final size:40 Alignment explanation
Indices: 25636--25713 Score: 138 Period size: 40 Copynumber: 1.9 Consensus size: 40 25626 TATTCAATTA * 25636 ACATGTAATTGAAATTTGACTTACCTTGTACAGATTTCGG 1 ACATGTAATTGAAATTTGACTTACCTCGTACAGATTTCGG * 25676 ACATGTAATTGAAATTTGACTTACCTCGTATAGATTTC 1 ACATGTAATTGAAATTTGACTTACCTCGTACAGATTTC 25714 AGACGAACCG Statistics Matches: 36, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 40 36 1.00 ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38 Consensus pattern (40 bp): ACATGTAATTGAAATTTGACTTACCTCGTACAGATTTCGG Found at i:28569 original size:24 final size:24 Alignment explanation
Indices: 28538--28608 Score: 85 Period size: 24 Copynumber: 3.0 Consensus size: 24 28528 TACCGATATA 28538 TCAGCTCGTAAGAGCTTACTGTTC 1 TCAGCTCGTAAGAGCTTACTGTTC * * 28562 TCAGCTCGTTAGAGCTTACAGTT- 1 TCAGCTCGTAAGAGCTTACTGTTC 28585 TCCAGCTC-TATAGAGCTT-CTGTTC 1 T-CAGCTCGTA-AGAGCTTACTGTTC 28609 ATCAACTCAA Statistics Matches: 40, Mismatches: 4, Indels: 6 0.80 0.08 0.12 Matches are distributed among these distances: 23 6 0.15 24 34 0.85 ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35 Consensus pattern (24 bp): TCAGCTCGTAAGAGCTTACTGTTC Found at i:31222 original size:20 final size:20 Alignment explanation
Indices: 31197--31236 Score: 80 Period size: 20 Copynumber: 2.0 Consensus size: 20 31187 ATTACAGTGA 31197 ATGTAAAATAATGAGCGGAG 1 ATGTAAAATAATGAGCGGAG 31217 ATGTAAAATAATGAGCGGAG 1 ATGTAAAATAATGAGCGGAG 31237 CTTGTTTTAG Statistics Matches: 20, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 20 20 1.00 ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20 Consensus pattern (20 bp): ATGTAAAATAATGAGCGGAG Found at i:32597 original size:42 final size:41 Alignment explanation
Indices: 32551--32690 Score: 149 Period size: 42 Copynumber: 3.2 Consensus size: 41 32541 ATAGTTCAAC 32551 TATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAGA 1 TATGGTCTTACACAT-TTCACATAATGATGCCATAGCCCAGA * * 32593 TATGGTCTTACACATATTCATAT-ATCGATGCCATAGCCCAGC 1 TATGGTCTTACACAT-TTCACATAAT-GATGCCATAGCCCAGA * * 32635 TATGGTCTTACACGA-ATCACATATCTCACTGATGCCATATCCCAGA 1 TATGGTCTTACAC-ATTTCACATA----A-TGATGCCATAGCCCAGA 32681 TATGGTCTTA 1 TATGGTCTTA 32691 TACAGTAGCA Statistics Matches: 83, Mismatches: 7, Indels: 12 0.81 0.07 0.12 Matches are distributed among these distances: 41 7 0.08 42 49 0.59 43 1 0.01 46 25 0.30 47 1 0.01 ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31 Consensus pattern (41 bp): TATGGTCTTACACATTTCACATAATGATGCCATAGCCCAGA Found at i:32740 original size:47 final size:45 Alignment explanation
Indices: 32577--32737 Score: 172 Period size: 47 Copynumber: 3.6 Consensus size: 45 32567 TTCACATAAT * 32577 GATGCCATAGCCCAGATATGGTCTTACACAT--AT-TCAT-ATATC 1 GATGCCATAGCCCAGATATGGTCTTACACATACATAT-ATCACATC * * 32619 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC-T- 1 GATGCCATAGCCCAGATATGGTCTTACAC--AT-ACATATATCACATC * * 32665 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACATC 1 GATGCCATAGCCCAGATATGGTCTTACACA-TA-CATATATCACATC * 32712 GATGCCATATCCCAGATATGGTCTTA 1 GATGCCATAGCCCAGATATGGTCTTA 32738 TACGGAAATC Statistics Matches: 101, Mismatches: 7, Indels: 17 0.81 0.06 0.14 Matches are distributed among these distances: 42 28 0.28 44 4 0.04 45 10 0.10 46 27 0.27 47 30 0.30 48 2 0.02 ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29 Consensus pattern (45 bp): GATGCCATAGCCCAGATATGGTCTTACACATACATATATCACATC Found at i:32801 original size:31 final size:31 Alignment explanation
Indices: 32766--32852 Score: 156 Period size: 31 Copynumber: 2.8 Consensus size: 31 32756 CTTGTCACTT * 32766 GTAGCCGAAGCTACCACTATTCACTGATCAG 1 GTAGCCGAAGCTACCACTTTTCACTGATCAG 32797 GTAGCCGAAGCTACCACTTTTCACTGATCAG 1 GTAGCCGAAGCTACCACTTTTCACTGATCAG * 32828 GTAGCTGAAGCTACCACTTTTCACT 1 GTAGCCGAAGCTACCACTTTTCACT 32853 TGTCATTTGT Statistics Matches: 54, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 31 54 1.00 ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26 Consensus pattern (31 bp): GTAGCCGAAGCTACCACTTTTCACTGATCAG Found at i:32934 original size:50 final size:51 Alignment explanation
Indices: 32828--32956 Score: 190 Period size: 50 Copynumber: 2.5 Consensus size: 51 32818 CACTGATCAG * * * 32828 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT 1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT * 32879 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT 1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT * 32929 GTAGCCGAAGATATCACTTATCACTTGT 1 GTAGCCGAAGCTATCACTTATCACTTGT 32957 TGCCATGGTC Statistics Matches: 71, Mismatches: 5, Indels: 4 0.89 0.06 0.05 Matches are distributed among these distances: 50 44 0.62 51 27 0.38 ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36 Consensus pattern (51 bp): GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT Found at i:36003 original size:52 final size:51 Alignment explanation
Indices: 35947--36051 Score: 174 Period size: 52 Copynumber: 2.0 Consensus size: 51 35937 CTCGTATTTA 35947 GACAGATTTGTTGTTGTATTCATTGATGAGATTCTGATCTATTCGCGAGATT 1 GACAGATTTGTTGTTGTATTCATTGATGAGATTCTGATCTATTCGCGAG-TT * * * 35999 GACAGATTTTTTGTTGTATTCATTGATGATATTCTGATCTATTTGCGAGTT 1 GACAGATTTGTTGTTGTATTCATTGATGAGATTCTGATCTATTCGCGAGTT 36050 GA 1 GA 36052 ATCTAAACAT Statistics Matches: 50, Mismatches: 3, Indels: 1 0.93 0.06 0.02 Matches are distributed among these distances: 51 4 0.08 52 46 0.92 ACGTcount: A:0.23, C:0.10, G:0.22, T:0.45 Consensus pattern (51 bp): GACAGATTTGTTGTTGTATTCATTGATGAGATTCTGATCTATTCGCGAGTT Found at i:37838 original size:13 final size:14 Alignment explanation
Indices: 37796--37840 Score: 51 Period size: 13 Copynumber: 3.3 Consensus size: 14 37786 TAAAAATGAT 37796 TAAAGTATATTATAA 1 TAAAGTA-ATTATAA 37811 TAATA-TAA-TATAA 1 TAA-AGTAATTATAA 37824 TAAAGTAATTA-AA 1 TAAAGTAATTATAA 37837 TAAA 1 TAAA 37841 ACAAATAAAA Statistics Matches: 27, Mismatches: 0, Indels: 8 0.77 0.00 0.23 Matches are distributed among these distances: 12 1 0.04 13 17 0.63 14 3 0.11 15 5 0.19 16 1 0.04 ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36 Consensus pattern (14 bp): TAAAGTAATTATAA Found at i:39660 original size:20 final size:20 Alignment explanation
Indices: 39632--39670 Score: 60 Period size: 20 Copynumber: 1.9 Consensus size: 20 39622 GCCTGGCCCC 39632 ACGGCCATGTCCCAAGCCAT 1 ACGGCCATGTCCCAAGCCAT * * 39652 ACGGGCATGTCCCAGGCCA 1 ACGGCCATGTCCCAAGCCA 39671 CACGAGCGTG Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 20 17 1.00 ACGTcount: A:0.23, C:0.38, G:0.26, T:0.13 Consensus pattern (20 bp): ACGGCCATGTCCCAAGCCAT Found at i:44528 original size:24 final size:24 Alignment explanation
Indices: 44476--44540 Score: 78 Period size: 24 Copynumber: 2.7 Consensus size: 24 44466 TACCGATATA * * 44476 TCAGCTCGTAAGAGCTTACTGTTC 1 TCAGCTCGTTAGAGCTTACAGTTC 44500 TCAGCTCGTTAGAGCTTACAGTT- 1 TCAGCTCGTTAGAGCTTACAGTTC ** 44523 TCCAGCTCCATAGAGCTT 1 T-CAGCTCGTTAGAGCTT 44541 CTGTTCATCA Statistics Matches: 36, Mismatches: 4, Indels: 2 0.86 0.10 0.05 Matches are distributed among these distances: 23 1 0.03 24 35 0.97 ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32 Consensus pattern (24 bp): TCAGCTCGTTAGAGCTTACAGTTC Found at i:47915 original size:46 final size:44 Alignment explanation
Indices: 47859--48035 Score: 167 Period size: 46 Copynumber: 3.9 Consensus size: 44 47849 ATATTTGGGC 47859 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA 1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA * *** * * 47903 ATGTTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC 1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA * * 47952 ATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA 1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A * * * * 47997 ACCCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG 1 A-TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG 48036 GCGGGTTACA Statistics Matches: 106, Mismatches: 18, Indels: 16 0.76 0.13 0.11 Matches are distributed among these distances: 43 1 0.01 44 3 0.03 45 2 0.02 46 65 0.61 47 30 0.28 48 1 0.01 49 3 0.03 50 1 0.01 ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30 Consensus pattern (44 bp): ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA Found at i:48015 original size:93 final size:93 Alignment explanation
Indices: 47856--48028 Score: 274 Period size: 93 Copynumber: 1.9 Consensus size: 93 47846 GGGATATTTG **** 47856 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG 1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACCCCGAACTCGTTGAG 47921 TTGAGTCCGAGTTCGAGAGATGTAACTA 66 TTGAGTCCGAGTTCGAGAGATGTAACTA * * * 47949 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACCCCGAGCTCGTTGAG 1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACCCCGAACTCGTTGAG * 48014 TTGAGTCTGAGTTCG 66 TTGAGTCCGAGTTCG 48029 CTTATGGGCG Statistics Matches: 72, Mismatches: 8, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 93 72 1.00 ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29 Consensus pattern (93 bp): GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACCCCGAACTCGTTGAG TTGAGTCCGAGTTCGAGAGATGTAACTA Found at i:49943 original size:20 final size:20 Alignment explanation
Indices: 49918--49958 Score: 82 Period size: 20 Copynumber: 2.0 Consensus size: 20 49908 CATTACAGTG 49918 GATGTAAAATAATGAGCGGA 1 GATGTAAAATAATGAGCGGA 49938 GATGTAAAATAATGAGCGGA 1 GATGTAAAATAATGAGCGGA 49958 G 1 G 49959 CTTGTTTTAG Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 20 21 1.00 ACGTcount: A:0.44, C:0.05, G:0.32, T:0.20 Consensus pattern (20 bp): GATGTAAAATAATGAGCGGA Found at i:51558 original size:31 final size:31 Alignment explanation
Indices: 51523--51585 Score: 126 Period size: 31 Copynumber: 2.0 Consensus size: 31 51513 TTGACTTGAG 51523 TAAGATTTCTGTTATTGTTGATTGGAAATCT 1 TAAGATTTCTGTTATTGTTGATTGGAAATCT 51554 TAAGATTTCTGTTATTGTTGATTGGAAATCT 1 TAAGATTTCTGTTATTGTTGATTGGAAATCT 51585 T 1 T 51586 CAAAAATCTA Statistics Matches: 32, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 31 32 1.00 ACGTcount: A:0.25, C:0.06, G:0.19, T:0.49 Consensus pattern (31 bp): TAAGATTTCTGTTATTGTTGATTGGAAATCT Found at i:53530 original size:50 final size:50 Alignment explanation
Indices: 53455--53555 Score: 202 Period size: 50 Copynumber: 2.0 Consensus size: 50 53445 TCAATTTGAT 53455 CCCTTTTTCTTGTAATTTTGATGTCTATGGAATCCTAGGAAAGAATACTA 1 CCCTTTTTCTTGTAATTTTGATGTCTATGGAATCCTAGGAAAGAATACTA 53505 CCCTTTTTCTTGTAATTTTGATGTCTATGGAATCCTAGGAAAGAATACTA 1 CCCTTTTTCTTGTAATTTTGATGTCTATGGAATCCTAGGAAAGAATACTA 53555 C 1 C 53556 TTGAGTTATG Statistics Matches: 51, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 50 51 1.00 ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40 Consensus pattern (50 bp): CCCTTTTTCTTGTAATTTTGATGTCTATGGAATCCTAGGAAAGAATACTA Found at i:68859 original size:40 final size:40 Alignment explanation
Indices: 68775--68959 Score: 200 Period size: 40 Copynumber: 4.7 Consensus size: 40 68765 TCGAATGATG * * 68775 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT * 68814 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT 1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT * * * 68855 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT * * 68894 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACT-AT 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT * * * 68933 AACCGGGCTATGTCCCGAAGGAATTTG 1 -TCCGGGCTAAGTCCCGAAGGCATTTG 68960 AACGAGTAGC Statistics Matches: 123, Mismatches: 16, Indels: 12 0.81 0.11 0.08 Matches are distributed among these distances: 39 35 0.28 40 78 0.63 41 10 0.08 ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25 Consensus pattern (40 bp): TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT Found at i:68911 original size:79 final size:80 Alignment explanation
Indices: 68775--68953 Score: 222 Period size: 79 Copynumber: 2.2 Consensus size: 80 68765 TCGAATGATG * * * 68775 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT 1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT * 68840 GTGCGAGTTACTA-A 66 GTACGAGTTACTATA * ** 68854 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCA 1 -TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCA 68916 TTTGTACGAGTTACTATA 63 TTTGTACGAGTTACTATA * * 68934 ACCGGGCTATGTCCCGAAGG 1 TCCGGGCTAAGTCCCGAAGG 68954 AATTTGAACG Statistics Matches: 86, Mismatches: 9, Indels: 8 0.83 0.09 0.08 Matches are distributed among these distances: 78 1 0.01 79 59 0.69 80 26 0.30 ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25 Consensus pattern (80 bp): TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT GTACGAGTTACTATA Found at i:68981 original size:79 final size:78 Alignment explanation
Indices: 68809--68982 Score: 192 Period size: 79 Copynumber: 2.2 Consensus size: 78 68799 GTGCTAAGTG * * * 68809 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG 1 ACTATATCCGG-TTAAGATCCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCGAAGG * ** 68874 CATTGGTGCGAGTC 65 AATTGGAACGAGTC * * 68888 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTACGAGTTACT-ATAACCGGGCTATGTCCCGA 1 ACTATATCC-GGTTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAT-ACCGGGCTAAG-CCCGA * 68951 AGGAATTTGAACGAGT- 62 AGGAATTGGAACGAGTC 68967 AGCTATATCCGGTTAA 1 A-CTATATCCGGTTAA 68983 ATTTCGAAGG Statistics Matches: 80, Mismatches: 10, Indels: 10 0.80 0.10 0.10 Matches are distributed among these distances: 78 3 0.04 79 51 0.64 80 26 0.32 ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25 Consensus pattern (78 bp): ACTATATCCGGTTAAGATCCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCGAAGGA ATTGGAACGAGTC Found at i:76623 original size:40 final size:40 Alignment explanation
Indices: 76533--76717 Score: 191 Period size: 40 Copynumber: 4.7 Consensus size: 40 76523 TTGAATGATG * * 76533 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT * * 76572 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT 1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT * * * 76613 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT * * 76652 TCCGGGTTAAGTCCCGAATGCATTTGTGCGAGTTACT-AT 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT * * * 76691 AACCGGACTATGTCCCGAAGGCATTTG 1 -TCCGGGCTAAGTCCCGAAGGCATTTG 76718 AACGAGTAGC Statistics Matches: 120, Mismatches: 19, Indels: 12 0.79 0.13 0.08 Matches are distributed among these distances: 39 35 0.29 40 75 0.62 41 10 0.08 ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26 Consensus pattern (40 bp): TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT Found at i:76675 original size:79 final size:81 Alignment explanation
Indices: 76533--76715 Score: 214 Period size: 79 Copynumber: 2.3 Consensus size: 81 76523 TTGAATGATG * * * * 76533 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCTGGACTAAGATCCGAAGGCATT 1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATT 76597 TGTGCGAGTTACTA-A 66 TGTGCGAGTTACTATA * ** * 76612 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAATGCA 1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCA 76674 TTTGTGCGAGTTACTATA 64 TTTGTGCGAGTTACTATA * * * 76692 ACCGGACTATGTCCCGAAGGCATT 1 TCCGGGCTAAGTCCCGAAGGCATT 76716 TGAACGAGTA Statistics Matches: 88, Mismatches: 11, Indels: 8 0.82 0.10 0.07 Matches are distributed among these distances: 78 1 0.01 79 57 0.65 80 30 0.34 ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26 Consensus pattern (81 bp): TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATT TGTGCGAGTTACTATA Found at i:76739 original size:79 final size:78 Alignment explanation
Indices: 76567--76750 Score: 187 Period size: 79 Copynumber: 2.3 Consensus size: 78 76557 GTGCTAAGTG * * * 76567 ACTATATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG 1 ACTATATCTGG-TTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGACTAAGCCCGAAGG ** 76632 CATTGGTGCGAGTC 65 CATTGGAACGAGTC * * * * 76646 ACTAAATCCGGGTTAAG-TCCCGAATGCATTTGTGCGAGTTACT-ATAACCGGACTATGTCCCGA 1 ACTATAT-CTGGTTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGACTAAG-CCCGA * 76709 AGGCATTTGAACGAGT- 62 AGGCATTGGAACGAGTC 76725 AGCTATATCTGGTTAA-ATTCCGAAGG 1 A-CTATATCTGGTTAAGA-TCCGAAGG 76751 TACGTGATTC Statistics Matches: 85, Mismatches: 13, Indels: 14 0.76 0.12 0.12 Matches are distributed among these distances: 78 3 0.04 79 55 0.65 80 27 0.32 ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27 Consensus pattern (78 bp): ACTATATCTGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGACTAAGCCCGAAGGC ATTGGAACGAGTC Found at i:90869 original size:359 final size:359 Alignment explanation
Indices: 90210--90921 Score: 1415 Period size: 359 Copynumber: 2.0 Consensus size: 359 90200 TTCCTCCAGC 90210 ACCTGTGTCAATCATCTGTCTTGTTGAGGGATTCACACCATTGTAAAACATTTGAACTTGCAACC 1 ACCTGTGTCAATCATCTGTCTTGTTGAGGGATTCACACCATTGTAAAACATTTGAACTTGCAACC 90275 ATAGAGGTAACCCATGGTGAGAACACCTTCGCAATAGACCCTTGTATCTCTCCCATGCATCATAA 66 ATAGAGGTAACCCATGGTGAGAACACCTTCGCAATAGACCCTTGTATCTCTCCCATGCATCATAA 90340 AGTGTTTCTAAGTCCATCCGCACAAAAGAAGAGATATCATTACGTAACTTAGCCGTTTTAGCCGG 131 AGTGTTTCTAAGTCCATCCGCACAAAAGAAGAGATATCATTACGTAACTTAGCCGTTTTAGCCGG 90405 TGAAAAATATTTTAGTAGAAATTTTTCGGTCATTTGTTCCCAAATAGTGATGGACCCTCATGGTA 196 TGAAAAATATTTTAGTAGAAATTTTTCGGTCATTTGTTCCCAAATAGTGATGGACCCTCATGGTA 90470 ACGAGTTCAACCACTGTTTAGCTTTGTTTCTTAGTGAAAAAGGGAATAACCGAAGGTGAATGGCA 261 ACGAGTTCAACCACTGTTTAGCTTTGTTTCTTAGTGAAAAAGGGAATAACCGAAGGTGAATGGCA 90535 TCATCAGAAATGCCATTACTTTTGAAAGGGAATA 326 TCATCAGAAATGCCATTACTTTTGAAAGGGAATA 90569 ACCTGTGTCAATCATCTGTCTTGTTGAGGGATTCACACCATTGTAAAACATTTGAACTTGCAACC 1 ACCTGTGTCAATCATCTGTCTTGTTGAGGGATTCACACCATTGTAAAACATTTGAACTTGCAACC 90634 ATAGAGGTAACCCATGGTGAGAACACCTTCGCAATAGACCCTTGTATCTCTCCCATGCATCATAA 66 ATAGAGGTAACCCATGGTGAGAACACCTTCGCAATAGACCCTTGTATCTCTCCCATGCATCATAA * 90699 AGTGTTTCTAAGTCCATCTGCACAAAAGAAGAGATATCATTACGTAACTTAGCCGTTTTAGCCGG 131 AGTGTTTCTAAGTCCATCCGCACAAAAGAAGAGATATCATTACGTAACTTAGCCGTTTTAGCCGG 90764 TGAAAAATATTTTAGTAGAAATTTTTCGGTCATTTGTTCCCAAATAGTGATGGACCCTCATGGTA 196 TGAAAAATATTTTAGTAGAAATTTTTCGGTCATTTGTTCCCAAATAGTGATGGACCCTCATGGTA 90829 ACGAGTTCAACCACTGTTTAGCTTTGTTTCTTAGTGAAAAAGGGAATAACCGAAGGTGAATGGCA 261 ACGAGTTCAACCACTGTTTAGCTTTGTTTCTTAGTGAAAAAGGGAATAACCGAAGGTGAATGGCA 90894 TCATCAGAAATGCCATTACTTTTGAAAG 326 TCATCAGAAATGCCATTACTTTTGAAAG 90922 TGTCGCAAAA Statistics Matches: 352, Mismatches: 1, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 359 352 1.00 ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30 Consensus pattern (359 bp): ACCTGTGTCAATCATCTGTCTTGTTGAGGGATTCACACCATTGTAAAACATTTGAACTTGCAACC ATAGAGGTAACCCATGGTGAGAACACCTTCGCAATAGACCCTTGTATCTCTCCCATGCATCATAA AGTGTTTCTAAGTCCATCCGCACAAAAGAAGAGATATCATTACGTAACTTAGCCGTTTTAGCCGG TGAAAAATATTTTAGTAGAAATTTTTCGGTCATTTGTTCCCAAATAGTGATGGACCCTCATGGTA ACGAGTTCAACCACTGTTTAGCTTTGTTTCTTAGTGAAAAAGGGAATAACCGAAGGTGAATGGCA TCATCAGAAATGCCATTACTTTTGAAAGGGAATA Found at i:93762 original size:6 final size:6 Alignment explanation
Indices: 93739--93832 Score: 61 Period size: 6 Copynumber: 15.3 Consensus size: 6 93729 AAGAAACATT * * * 93739 ATCAGA A-CTAGA AT-AGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAAA 1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA * * 93787 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAAA ATCAGA AT 1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATC-AGA ATCAGA AT 93833 GTGAATGCAA Statistics Matches: 68, Mismatches: 10, Indels: 20 0.69 0.10 0.20 Matches are distributed among these distances: 5 9 0.13 6 47 0.69 7 10 0.15 8 2 0.03 ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19 Consensus pattern (6 bp): ATCAGA Found at i:93794 original size:37 final size:38 Alignment explanation
Indices: 93753--93832 Score: 126 Period size: 37 Copynumber: 2.1 Consensus size: 38 93743 GAACTAGAAT * * 93753 AGAATCAGAATCAGAATTAGGTGACAGAATC-AAAATC 1 AGAATCAGAATCAGAATCAGGTAACAGAATCAAAAATC * 93790 AGAATCAGAATCAGTATCAGGTAACAGAATCAAAAATC 1 AGAATCAGAATCAGAATCAGGTAACAGAATCAAAAATC 93828 AGAAT 1 AGAAT 93833 GTGAATGCAA Statistics Matches: 39, Mismatches: 3, Indels: 1 0.91 0.07 0.02 Matches are distributed among these distances: 37 28 0.72 38 11 0.28 ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19 Consensus pattern (38 bp): AGAATCAGAATCAGAATCAGGTAACAGAATCAAAAATC Found at i:94011 original size:27 final size:26 Alignment explanation
Indices: 93969--94070 Score: 123 Period size: 27 Copynumber: 3.8 Consensus size: 26 93959 GCTCAGTTAT * * * 93969 CAGATATTGTGACAGAGTCACCGGATA 1 CAGATATTGTGGCAGAGCCACCAGA-A 93996 CAGATATTGTGGCAGAGCCACCAGAA 1 CAGATATTGTGGCAGAGCCACCAGAA * 94022 CAGATATTTGTGGCATAGCCACCAGAAA 1 CAGATA-TTGTGGCAGAGCCACCAG-AA * * 94050 CAGATAATGTGGCAAAGCCAC 1 CAGATATTGTGGCAGAGCCAC 94071 TTAACAGAAT Statistics Matches: 67, Mismatches: 6, Indels: 4 0.87 0.08 0.05 Matches are distributed among these distances: 26 7 0.10 27 52 0.78 28 8 0.12 ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19 Consensus pattern (26 bp): CAGATATTGTGGCAGAGCCACCAGAA Found at i:94263 original size:22 final size:22 Alignment explanation
Indices: 94229--94292 Score: 58 Period size: 22 Copynumber: 2.9 Consensus size: 22 94219 GCAAATACGT * * 94229 TTGGCAGACAGCCATAATCAAG 1 TTGGCACAAAGCCATAATCAAG * * * 94251 TTGGCACAGAGCCAT-ATGTAGG 1 TTGGCACAAAGCCATAAT-CAAG * 94273 TTGACACAAAGCCATAATCA 1 TTGGCACAAAGCCATAATCA 94293 GAAGGCTTTA Statistics Matches: 33, Mismatches: 7, Indels: 4 0.75 0.16 0.09 Matches are distributed among these distances: 21 2 0.06 22 29 0.88 23 2 0.06 ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20 Consensus pattern (22 bp): TTGGCACAAAGCCATAATCAAG Found at i:94794 original size:27 final size:27 Alignment explanation
Indices: 94720--95506 Score: 899 Period size: 27 Copynumber: 29.3 Consensus size: 27 94710 GGGGCAAAAT * ** * 94720 GGTAATTTTACCCTACA-ACGTATCTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 94746 GGTAATTC-GCCCTACAGGGGTATTTT 1 GGTAATTCTACCCTACAGGGGTATTTC * * * * 94772 AGTAATTTTACCATACAGGGGTATTTT 1 GGTAATTCTACCCTACAGGGGTATTTC * * 94799 GGTAATTCTCCCCTACAGGGGTATTGC 1 GGTAATTCTACCCTACAGGGGTATTTC * 94826 GATAATTCTACCCTACA-GGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * 94852 GGTAATTCTACCCTACAGGGGTATTTT 1 GGTAATTCTACCCTACAGGGGTATTTC * * * 94879 GGTAATTCTACCCTATAGAGG-AATTC 1 GGTAATTCTACCCTACAGGGGTATTTC 94905 TGGTAATTCTACCCTACAGGGGTATTTC 1 -GGTAATTCTACCCTACAGGGGTATTTC * * 94933 AGTAATTTTACCCTACAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * 94960 GGTAATTCTACCCTACAGGGGTATTCC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 94987 GGTAATTTTACCCTACAGGGGTATTTT 1 GGTAATTCTACCCTACAGGGGTATTTC * * * 95014 GATAATTCCACCCTATAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * * 95041 GGTATTTCTACCCTACAGGAGTATTTA 1 GGTAATTCTACCCTACAGGGGTATTTC * 95068 GGTAATTCTACCCTATAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 95095 AGTAATTCTACCCTACAGAGGTA-TTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * * * 95121 TGGTAATTCTACCATATAGGGTTAGTTC 1 -GGTAATTCTACCCTACAGGGGTATTTC * * * 95149 GGTAATTCTTCCCTATAGGGGCA-TTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * * 95175 TGGTAATTCTACCCTACAAGGGCATTCC 1 -GGTAATTCTACCCTACAGGGGTATTTC * 95203 GGTAATTCTACCCTACCGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 95230 GATAATTCTACCCTACAAGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 95257 GGTATTTCTACCCTACAGGAGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * 95284 GGTAATTCTACCCTATAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 95311 GGTAATTCTACCCTATAGAGGTA-TTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 95337 TGGTAATTCTACCCTATAGGGTTATTTC 1 -GGTAATTCTACCCTACAGGGGTATTTC * * ** 95365 GGTAATTCTTCCCTATAGGGACA-TTC 1 GGTAATTCTACCCTACAGGGGTATTTC * 95391 TGGTAATTCTACCCTACAGGGGTATTCC 1 -GGTAATTCTACCCTACAGGGGTATTTC * 95419 GGTAATTCTACCTTATC-GGGGTATTTC 1 GGTAATTCTACCCTA-CAGGGGTATTTC * * * 95446 GATTATTCTACCCTACAAGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 95473 GGTATTTCTACCCTACAAGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC 95500 GGTAATT 1 GGTAATT 95507 TTGTAAATCG Statistics Matches: 644, Mismatches: 102, Indels: 29 0.83 0.13 0.04 Matches are distributed among these distances: 25 7 0.01 26 58 0.09 27 564 0.88 28 15 0.02 ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35 Consensus pattern (27 bp): GGTAATTCTACCCTACAGGGGTATTTC Found at i:95520 original size:27 final size:27 Alignment explanation
Indices: 95490--95580 Score: 94 Period size: 27 Copynumber: 3.4 Consensus size: 27 95480 CTACCCTACA 95490 AGGGTATTTCGGTAATTTTGTAAATCG 1 AGGGTATTTCGGTAATTTTGTAAATCG *** * * 95517 AGGGTAAAACGGTAATTCTGTAAATCA 1 AGGGTATTTCGGTAATTTTGTAAATCG ** * 95544 AGGGTACTTT-GGTAATTTTACAAGTCG 1 AGGGTA-TTTCGGTAATTTTGTAAATCG 95571 AGGGTATTTC 1 AGGGTATTTC 95581 AAGAATTTTA Statistics Matches: 49, Mismatches: 13, Indels: 4 0.74 0.20 0.06 Matches are distributed among these distances: 26 3 0.06 27 46 0.94 ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35 Consensus pattern (27 bp): AGGGTATTTCGGTAATTTTGTAAATCG Found at i:95587 original size:27 final size:27 Alignment explanation
Indices: 95557--95633 Score: 102 Period size: 27 Copynumber: 2.9 Consensus size: 27 95547 GTACTTTGGT 95557 AATTTTACAAGTCGAGGGTATTTCAAG 1 AATTTTACAAGTCGAGGGTATTTCAAG * * 95584 AATTTTACAGGTCGAGGGTATTTCAAT 1 AATTTTACAAGTCGAGGGTATTTCAAG * * 95611 AATTTCACAAATC-AGGGGTATTT 1 AATTTTACAAGTCGA-GGGTATTT 95634 TGGTAATTTC Statistics Matches: 44, Mismatches: 5, Indels: 2 0.86 0.10 0.04 Matches are distributed among these distances: 26 1 0.02 27 43 0.98 ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35 Consensus pattern (27 bp): AATTTTACAAGTCGAGGGTATTTCAAG Found at i:95640 original size:27 final size:27 Alignment explanation
Indices: 95610--95723 Score: 176 Period size: 27 Copynumber: 4.2 Consensus size: 27 95600 GGTATTTCAA 95610 TAATTTCACAAATCAGGGGTATTTTGG 1 TAATTTCACAAATCAGGGGTATTTTGG 95637 TAATTTCACAAATCAGGGGTATTTTGG 1 TAATTTCACAAATCAGGGGTATTTTGG * * 95664 TAATTTTACAAA-CTAGGGGTATTTTGA 1 TAATTTCACAAATC-AGGGGTATTTTGG * * 95691 TAATTTTACAAACCAGGGGTATTTTGG 1 TAATTTCACAAATCAGGGGTATTTTGG 95718 TAATTT 1 TAATTT 95724 GGTAAACTAA Statistics Matches: 82, Mismatches: 3, Indels: 4 0.92 0.03 0.04 Matches are distributed among these distances: 26 1 0.01 27 80 0.98 28 1 0.01 ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39 Consensus pattern (27 bp): TAATTTCACAAATCAGGGGTATTTTGG Found at i:95669 original size:81 final size:81 Alignment explanation
Indices: 95538--95723 Score: 207 Period size: 81 Copynumber: 2.3 Consensus size: 81 95528 GTAATTCTGT * * * * ** 95538 AAATCAAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAAGAATTTTACAGGTCGA-GGG 1 AAATCAGGGGTATTTTGGTAATTTCACAAATCGAGGGTATTTCAAGAATTTTACA-AACGAGGGG 95602 TATTTCAATAATTTCAC 65 TATTTCAATAATTTCAC ** * 95619 AAATCAGGGGTATTTTGGTAATTTCACAAATC-AGGGGTATTT-TGGTAATTTTACAAACTAGGG 1 AAATCAGGGGTATTTTGGTAATTTCACAAATCGA-GGGTATTTCAAG-AATTTTACAAACGAGGG ** * 95682 GTATTTTGATAATTTTAC 64 GTATTTCAATAATTTCAC * 95700 AAACCAGGGGTATTTTGGTAATTT 1 AAATCAGGGGTATTTTGGTAATTT 95724 GGTAAACTAA Statistics Matches: 89, Mismatches: 13, Indels: 6 0.82 0.12 0.06 Matches are distributed among these distances: 80 4 0.04 81 85 0.96 ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37 Consensus pattern (81 bp): AAATCAGGGGTATTTTGGTAATTTCACAAATCGAGGGTATTTCAAGAATTTTACAAACGAGGGGT ATTTCAATAATTTCAC Found at i:97660 original size:6 final size:6 Alignment explanation
Indices: 97649--97711 Score: 74 Period size: 6 Copynumber: 10.3 Consensus size: 6 97639 TATCAAAACT * * 97649 AGAATC AGAATC AGAATC AGAATT AG-CTGAC AGAATC AGAATC AGAATC 1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC * 97698 AGAATC AGTATC AG 1 AGAATC AGAATC AG 97712 GTAACAGAAT Statistics Matches: 49, Mismatches: 5, Indels: 6 0.82 0.08 0.10 Matches are distributed among these distances: 5 1 0.02 6 45 0.92 7 2 0.04 8 1 0.02 ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19 Consensus pattern (6 bp): AGAATC Found at i:97691 original size:37 final size:37 Alignment explanation
Indices: 97649--97723 Score: 114 Period size: 37 Copynumber: 2.0 Consensus size: 37 97639 TATCAAAACT * * 97649 AGAATCAGAATCAGAATCAGAATTAGCTGACAGAATC 1 AGAATCAGAATCAGAATCAGAATCAGCTAACAGAATC * * 97686 AGAATCAGAATCAGAATCAGTATCAGGTAACAGAATC 1 AGAATCAGAATCAGAATCAGAATCAGCTAACAGAATC 97723 A 1 A 97724 AAAATTAGAA Statistics Matches: 34, Mismatches: 4, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 37 34 1.00 ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19 Consensus pattern (37 bp): AGAATCAGAATCAGAATCAGAATCAGCTAACAGAATC Found at i:97937 original size:27 final size:26 Alignment explanation
Indices: 97871--97972 Score: 96 Period size: 27 Copynumber: 3.8 Consensus size: 26 97861 GCTCAGTTAT * * * 97871 CAGATATTATGACAGAGTCACCAGATA 1 CAGATATTGTGGCAGAGCCACCAGA-A * 97898 CAGATATTATGGCAGAGCCACCAGAA 1 CAGATATTGTGGCAGAGCCACCAGAA * * * 97924 TAGATATTTGTGGCATAGCCAACAGAAA 1 CAGATA-TTGTGGCAGAGCCACCAG-AA * * 97952 CAGATAATGTGGCAAAGCCAC 1 CAGATATTGTGGCAGAGCCAC 97973 TTAACAGAAT Statistics Matches: 63, Mismatches: 10, Indels: 4 0.82 0.13 0.05 Matches are distributed among these distances: 26 6 0.10 27 50 0.79 28 7 0.11 ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20 Consensus pattern (26 bp): CAGATATTGTGGCAGAGCCACCAGAA Found at i:98679 original size:27 final size:27 Alignment explanation
Indices: 98622--98978 Score: 459 Period size: 27 Copynumber: 13.3 Consensus size: 27 98612 GGGGCAAAAT * * * * 98622 GGTAATTTTACCCCACA-AGGTATCTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 98648 GGTAATTCCACCCTACAGGGGTATTTT 1 GGTAATTCTACCCTACAGGGGTATTTC * * 98675 AGTAATTCTACCCTACATGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC 98702 GGTAATTCTACCCTACAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * 98729 GGTAATTCTACCCTACAGGGGTATTCC 1 GGTAATTCTACCCTACAGGGGTATTTC * 98756 GGTAATTCTACCCTATAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * 98783 AGTAATTCTACCCTACAGGGGTA-TTC 1 GGTAATTCTACCCTACAGGGGTATTTC * 98809 TGGTAATTCTACCCTACAGGGGTAATTC 1 -GGTAATTCTACCCTACAGGGGTATTTC * 98837 GGTAATTCTACCCTACAGGGGCA-TTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 98863 TGGTAATTCTATCCTACAGGGGTATTTT 1 -GGTAATTCTACCCTACAGGGGTATTTC * * 98891 GGTAATTCTACCCTACAGGGGAATTTT 1 GGTAATTCTACCCTACAGGGGTATTTC * * ** 98918 GATAATTCTACCGTGTAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * * 98945 GGTATTTCTACCCTACAAGGGTATTTT 1 GGTAATTCTACCCTACAGGGGTATTTC 98972 GGTAATT 1 GGTAATT 98979 TTGTAAATCG Statistics Matches: 288, Mismatches: 38, Indels: 9 0.86 0.11 0.03 Matches are distributed among these distances: 26 20 0.07 27 263 0.91 28 5 0.02 ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34 Consensus pattern (27 bp): GGTAATTCTACCCTACAGGGGTATTTC Found at i:98992 original size:27 final size:26 Alignment explanation
Indices: 98962--99195 Score: 139 Period size: 27 Copynumber: 8.7 Consensus size: 26 98952 CTACCCTACA * 98962 AGGGTATTTTGGTAATTTTGTAAATC 1 AGGGTATTTTGGTAATTTTATAAATC **** * * 98988 GAGGGTAAAACGGTAATTCTGTAAATC 1 -AGGGTATTTTGGTAATTTTATAAATC * * * * 99015 AAGGGTACTTTGGTAAATTTACAAGTC 1 -AGGGTATTTTGGTAATTTTATAAATC *** ** 99042 GAGGGTATTTCAATAATTTTATATGTC 1 -AGGGTATTTTGGTAATTTTATAAATC ** ** * 99069 AAGGGTATTTCAGTAATTACACAAATC 1 -AGGGTATTTTGGTAATTTTATAAATC * 99096 AGGGGTATTTTGGTAATTTCATAAATC 1 A-GGGTATTTTGGTAATTTTATAAATC * 99123 AGGGGTATTTTGGTAATTTTACAAA-C 1 A-GGGTATTTTGGTAATTTTATAAATC * * 99149 TAGGGGTATTTTGATAATTTTACAAA-C 1 -A-GGGTATTTTGGTAATTTTATAAATC 99176 TAGGGGTATTTTGGTAATTT 1 -A-GGGTATTTTGGTAATTT 99196 GGTAAGCTAA Statistics Matches: 167, Mismatches: 38, Indels: 4 0.80 0.18 0.02 Matches are distributed among these distances: 26 2 0.01 27 165 0.99 ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38 Consensus pattern (26 bp): AGGGTATTTTGGTAATTTTATAAATC Found at i:99584 original size:34 final size:34 Alignment explanation
Indices: 99541--99608 Score: 118 Period size: 34 Copynumber: 2.0 Consensus size: 34 99531 CATAAAGCAA * * 99541 AAGGGATCAGCCAAGAAAGGTATCTTTGCTCTCC 1 AAGGGATCAGCCAAGAAAGGTACCTTTACTCTCC 99575 AAGGGATCAGCCAAGAAAGGTACCTTTACTCTCC 1 AAGGGATCAGCCAAGAAAGGTACCTTTACTCTCC 99609 TTATGGTTCT Statistics Matches: 32, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 34 32 1.00 ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22 Consensus pattern (34 bp): AAGGGATCAGCCAAGAAAGGTACCTTTACTCTCC Found at i:101201 original size:6 final size:6 Alignment explanation
Indices: 101180--101268 Score: 58 Period size: 6 Copynumber: 14.3 Consensus size: 6 101170 AAGAAACATT * * * 101180 ATCAGA A-CTAGA ATCAGG ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA 1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA * * 101229 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAAA ATCAGA AT 1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATC-AGA ATCAGA AT 101269 GTGAATGCAA Statistics Matches: 64, Mismatches: 10, Indels: 18 0.70 0.11 0.20 Matches are distributed among these distances: 5 4 0.06 6 47 0.73 7 11 0.17 8 2 0.03 ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19 Consensus pattern (6 bp): ATCAGA Found at i:101227 original size:31 final size:31 Alignment explanation
Indices: 101189--101268 Score: 106 Period size: 31 Copynumber: 2.5 Consensus size: 31 101179 TATCAGAACT * * * 101189 AGAATCAGGATCAGAATCAGAATTAGGTGAC 1 AGAATCAGAATCAGAATCAGAATCAGGTAAC * 101220 AGAATCAGAATCAGAATCAGTATCAGGTAAC 1 AGAATCAGAATCAGAATCAGAATCAGGTAAC * 101251 AGAATCAAAAATCAGAAT 1 AGAATC-AGAATCAGAAT 101269 GTGAATGCAA Statistics Matches: 43, Mismatches: 5, Indels: 1 0.88 0.10 0.02 Matches are distributed among these distances: 31 33 0.77 32 10 0.23 ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19 Consensus pattern (31 bp): AGAATCAGAATCAGAATCAGAATCAGGTAAC Found at i:101447 original size:27 final size:26 Alignment explanation
Indices: 101417--101506 Score: 108 Period size: 27 Copynumber: 3.3 Consensus size: 26 101407 GATAGTCTGA * 101417 CAGAGTCACCAGATACAGATATTGTGG 1 CAGAGCCACCAGA-ACAGATATTGTGG * 101444 CAGAGCCACCAGAATAGATATTTGTGG 1 CAGAGCCACCAGAACAGATA-TTGTGG * * 101471 CATAGCCACCAGAAACAGATAATGTGG 1 CAGAGCCACCAG-AACAGATATTGTGG * 101498 CAAAGCCAC 1 CAGAGCCAC 101507 TTAACAGAAT Statistics Matches: 55, Mismatches: 6, Indels: 4 0.85 0.09 0.06 Matches are distributed among these distances: 26 6 0.11 27 42 0.76 28 7 0.13 ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18 Consensus pattern (26 bp): CAGAGCCACCAGAACAGATATTGTGG Found at i:102689 original size:27 final size:27 Alignment explanation
Indices: 102134--102707 Score: 792 Period size: 27 Copynumber: 21.3 Consensus size: 27 102124 GGGGCAAAAT * * 102134 GGTAATTCTACCCTATAGGGGTATTTT 1 GGTAATTCTACCCTACAGGGGTATTTC * * 102161 AGTAATTCTACCCTATAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC 102188 GGTAATTCTACCCTACAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC ** 102215 GACAATTCTACCCTACAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 102242 GATAATTCTACCCTACAAGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 102269 GGTAATTCTACCATATAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 102296 GATAACTCTACCCTACAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 102323 GATAATTCTACCCTACAAGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * 102350 GGTAATTCTACCCTACAGGGGTATTGC 1 GGTAATTCTACCCTACAGGGGTATTTC * * * 102377 GATAATTCTACCCTATAGGAGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 102404 GGTAATTCTACCATATAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 102431 GATAATTCTACCCTACAGGGGTATTTT 1 GGTAATTCTACCCTACAGGGGTATTTC * * 102458 GGTAATTCTACCCTACTGGGGTATTGC 1 GGTAATTCTACCCTACAGGGGTATTTC ** * 102485 AATACTTCTACCCTACAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 102512 GGTAATTCTACCCTATAGGGGTATTCC 1 GGTAATTCTACCCTACAGGGGTATTTC * 102539 GGTAATTCTACCCTACAGGGGTATTCC 1 GGTAATTCTACCCTACAGGGGTATTTC * * 102566 GGTAATTCTACCCTACA-AGGTAATTCC 1 GGTAATTCTACCCTACAGGGGT-ATTTC * 102593 GGTAATTCTACCCTACAGGGGTATTCC 1 GGTAATTCTACCCTACAGGGGTATTTC * 102620 GGTAATTCTACCCTACAGGGGTATTCC 1 GGTAATTCTACCCTACAGGGGTATTTC * 102647 GATAATTCTACCCTACAGGGGTATTTC 1 GGTAATTCTACCCTACAGGGGTATTTC * 102674 GGTATTTCTACCCTAC-GAGGGTATTTC 1 GGTAATTCTACCCTACAG-GGGTATTTC 102701 GGTAATT 1 GGTAATT 102708 TTGTAAATCG Statistics Matches: 490, Mismatches: 54, Indels: 6 0.89 0.10 0.01 Matches are distributed among these distances: 26 4 0.01 27 483 0.99 28 3 0.01 ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34 Consensus pattern (27 bp): GGTAATTCTACCCTACAGGGGTATTTC Found at i:102719 original size:27 final size:27 Alignment explanation
Indices: 102689--102870 Score: 129 Period size: 27 Copynumber: 6.7 Consensus size: 27 102679 TTCTACCCTA 102689 CGAGGGTATTTCGGTAATTTTGTAAAT 1 CGAGGGTATTTCGGTAATTTTGTAAAT *** * 102716 CGAGGGTAAAACGGTAATTCTGTAAAT 1 CGAGGGTATTTCGGTAATTTTGTAAAT * * ** * 102743 CAAGGGTACTTCGGTAATTTTACAAGT 1 CGAGGGTATTTCGGTAATTTTGTAAAT ** * ** 102770 CGAGGGTATTTCAATAATTTTATAGGT 1 CGAGGGTATTTCGGTAATTTTGTAAAT * * 102797 CGAGGGTATTTCAGTAATTTCAG-AAAT 1 CGAGGGTATTTCGGTAATTT-TGTAAAT * * 102824 C-AGGGGTATTTTGGTAATTTCAG-AAAT 1 CGA-GGGTATTTCGGTAATTT-TGTAAAT * 102851 C-AGGGGTATTTTGGTAATTT 1 CGA-GGGTATTTCGGTAATTT 102871 CACAAATCAG Statistics Matches: 128, Mismatches: 25, Indels: 4 0.82 0.16 0.03 Matches are distributed among these distances: 26 1 0.01 27 127 0.99 ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36 Consensus pattern (27 bp): CGAGGGTATTTCGGTAATTTTGTAAAT Found at i:102831 original size:54 final size:54 Alignment explanation
Indices: 102739--102888 Score: 133 Period size: 54 Copynumber: 2.8 Consensus size: 54 102729 GTAATTCTGT * * * * * * * 102739 AAATCAAGGGTACTTCGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTAT 1 AAATCAGGGGTATTTCAGTAATTTCACAAATCAG-GGGTATTTCAATAATTTCAG ** * *** 102793 AGGTC-GAGGGTATTTCAGTAATTTCAGAAATCAGGGGTATTTTGGTAATTTCAG 1 AAATCAG-GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTCAATAATTTCAG ** 102847 AAATCAGGGGTATTTTGGTAATTTCACAAATCAGGGGTATTT 1 AAATCAGGGGTATTTCAGTAATTTCACAAATCAGGGGTATTT 102889 TGATAGTTTT Statistics Matches: 75, Mismatches: 18, Indels: 6 0.76 0.18 0.06 Matches are distributed among these distances: 54 73 0.97 55 2 0.03 ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36 Consensus pattern (54 bp): AAATCAGGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTCAATAATTTCAG Found at i:102871 original size:27 final size:27 Alignment explanation
Indices: 102800--102924 Score: 171 Period size: 27 Copynumber: 4.6 Consensus size: 27 102790 TATAGGTCGA ** * 102800 GGGTATTTCAGTAATTTCAGAAATCAG 1 GGGTATTTTGGTAATTTCACAAATCAG * 102827 GGGTATTTTGGTAATTTCAGAAATCAG 1 GGGTATTTTGGTAATTTCACAAATCAG 102854 GGGTATTTTGGTAATTTCACAAATCAG 1 GGGTATTTTGGTAATTTCACAAATCAG * * * 102881 GGGTATTTTGATAGTTTTACAAA-CTAG 1 GGGTATTTTGGTAATTTCACAAATC-AG 102908 GGGTATTTTGGTAATTT 1 GGGTATTTTGGTAATTT 102925 GGTAAACTAA Statistics Matches: 89, Mismatches: 8, Indels: 2 0.90 0.08 0.02 Matches are distributed among these distances: 26 1 0.01 27 88 0.99 ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39 Consensus pattern (27 bp): GGGTATTTTGGTAATTTCACAAATCAG Found at i:104100 original size:14 final size:15 Alignment explanation
Indices: 104064--104102 Score: 53 Period size: 14 Copynumber: 2.7 Consensus size: 15 104054 TAAATGTGAA 104064 TTATATATGCTAAAT 1 TTATATATGCTAAAT * * 104079 TGAAATATG-TAAAT 1 TTATATATGCTAAAT 104093 TTATATATGC 1 TTATATATGC 104103 AATAGCCAAA Statistics Matches: 19, Mismatches: 4, Indels: 2 0.76 0.16 0.08 Matches are distributed among these distances: 14 12 0.63 15 7 0.37 ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44 Consensus pattern (15 bp): TTATATATGCTAAAT Found at i:124082 original size:29 final size:29 Alignment explanation
Indices: 124037--124137 Score: 141 Period size: 29 Copynumber: 3.5 Consensus size: 29 124027 CATGAAATTG 124037 GCACTAAGTGTGCGGGTTCAAATTGTATA 1 GCACTAAGTGTGCGGGTTCAAATTGTATA * * 124066 GCACTAAGTGTGTGGGTTCAAGTTGTATA 1 GCACTAAGTGTGCGGGTTCAAATTGTATA * * * 124095 GCACTAAGTGTGCGAGTTC-GATTATATA 1 GCACTAAGTGTGCGGGTTCAAATTGTATA * 124123 ACACTAAGTGTGCGG 1 GCACTAAGTGTGCGG 124138 ACTTACTATA Statistics Matches: 63, Mismatches: 9, Indels: 1 0.86 0.12 0.01 Matches are distributed among these distances: 28 19 0.30 29 44 0.70 ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31 Consensus pattern (29 bp): GCACTAAGTGTGCGGGTTCAAATTGTATA Found at i:124194 original size:71 final size:71 Alignment explanation
Indices: 124078--124219 Score: 284 Period size: 71 Copynumber: 2.0 Consensus size: 71 124068 ACTAAGTGTG 124078 TGGGTTCAAGTTGTATAGCACTAAGTGTGCGAGTTCGATTATATAACACTAAGTGTGCGGACTTA 1 TGGGTTCAAGTTGTATAGCACTAAGTGTGCGAGTTCGATTATATAACACTAAGTGTGCGGACTTA 124143 CTATAT 66 CTATAT 124149 TGGGTTCAAGTTGTATAGCACTAAGTGTGCGAGTTCGATTATATAACACTAAGTGTGCGGACTTA 1 TGGGTTCAAGTTGTATAGCACTAAGTGTGCGAGTTCGATTATATAACACTAAGTGTGCGGACTTA 124214 CTATAT 66 CTATAT 124220 GTTTTTGAAT Statistics Matches: 71, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 71 71 1.00 ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34 Consensus pattern (71 bp): TGGGTTCAAGTTGTATAGCACTAAGTGTGCGAGTTCGATTATATAACACTAAGTGTGCGGACTTA CTATAT Found at i:125959 original size:44 final size:44 Alignment explanation
Indices: 125896--125984 Score: 178 Period size: 44 Copynumber: 2.0 Consensus size: 44 125886 GCCTGTTGAA 125896 CCTCAGTCATCTGCAAATAATCAAAATGAGGGGGCTAAACAAGC 1 CCTCAGTCATCTGCAAATAATCAAAATGAGGGGGCTAAACAAGC 125940 CCTCAGTCATCTGCAAATAATCAAAATGAGGGGGCTAAACAAGC 1 CCTCAGTCATCTGCAAATAATCAAAATGAGGGGGCTAAACAAGC 125984 C 1 C 125985 TTCTTTACCA Statistics Matches: 45, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 44 45 1.00 ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18 Consensus pattern (44 bp): CCTCAGTCATCTGCAAATAATCAAAATGAGGGGGCTAAACAAGC Found at i:127048 original size:59 final size:59 Alignment explanation
Indices: 126956--127079 Score: 230 Period size: 59 Copynumber: 2.1 Consensus size: 59 126946 CGGAGCTGGA * 126956 TGAGAAGAATAAGATTCAAGGTGCAAGACCTAGTGGAATGACAGCTAGAGGTAGACCAC 1 TGAGAAGAATAAGATGCAAGGTGCAAGACCTAGTGGAATGACAGCTAGAGGTAGACCAC 127015 TGAGAAGAATAAGATGCAAGGTGCAAGACCTAGTGGAATGACAGCTAGAGGTAGACCAC 1 TGAGAAGAATAAGATGCAAGGTGCAAGACCTAGTGGAATGACAGCTAGAGGTAGACCAC * 127074 CGAGAA 1 TGAGAA 127080 TTTCAGGAGG Statistics Matches: 63, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 59 63 1.00 ACGTcount: A:0.40, C:0.15, G:0.30, T:0.15 Consensus pattern (59 bp): TGAGAAGAATAAGATGCAAGGTGCAAGACCTAGTGGAATGACAGCTAGAGGTAGACCAC Found at i:127053 original size:29 final size:29 Alignment explanation
Indices: 126962--127053 Score: 66 Period size: 29 Copynumber: 3.1 Consensus size: 29 126952 TGGATGAGAA * 126962 GAATAAGATTCAAGGTGCAAGACCTAGTG 1 GAATAAGATGCAAGGTGCAAGACCTAGTG * * ** 126991 GAATGACA-GCTAGAGGT---AGACCACTGAGAA 1 GAATAAGATGC-A-AGGTGCAAGA-C-CT-AGTG 127021 GAATAAGATGCAAGGTGCAAGACCTAGTG 1 GAATAAGATGCAAGGTGCAAGACCTAGTG 127050 GAAT 1 GAAT 127054 GACAGCTAGA Statistics Matches: 45, Mismatches: 9, Indels: 18 0.62 0.12 0.25 Matches are distributed among these distances: 27 3 0.07 28 2 0.04 29 19 0.42 30 15 0.33 31 3 0.07 32 3 0.07 ACGTcount: A:0.39, C:0.14, G:0.29, T:0.17 Consensus pattern (29 bp): GAATAAGATGCAAGGTGCAAGACCTAGTG Found at i:132059 original size:29 final size:29 Alignment explanation
Indices: 132017--132086 Score: 131 Period size: 29 Copynumber: 2.4 Consensus size: 29 132007 CATGAAATTG 132017 GCACTAAGTGTGCGGGTTCAAATTGTATA 1 GCACTAAGTGTGCGGGTTCAAATTGTATA * 132046 GCACTAAGTGTGCGGGTTCAAGTTGTATA 1 GCACTAAGTGTGCGGGTTCAAATTGTATA 132075 GCACTAAGTGTG 1 GCACTAAGTGTG 132087 NNNNNNNNNN Statistics Matches: 40, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 29 40 1.00 ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30 Consensus pattern (29 bp): GCACTAAGTGTGCGGGTTCAAATTGTATA Found at i:138221 original size:46 final size:46 Alignment explanation
Indices: 138154--138256 Score: 188 Period size: 46 Copynumber: 2.2 Consensus size: 46 138144 TTTCGATAGT 138154 CAGTGTAAGACCATGTATGGGACATGGCATTGACTTGATGAAGAGC 1 CAGTGTAAGACCATGTATGGGACATGGCATTGACTTGATGAAGAGC * * 138200 CAGTGTAAGACCCTGTCTGGGACATGGCATTGACTTGATGAAGAGC 1 CAGTGTAAGACCATGTATGGGACATGGCATTGACTTGATGAAGAGC 138246 CAGTGTAAGAC 1 CAGTGTAAGAC 138257 ACTATCAAGT Statistics Matches: 55, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 46 55 1.00 ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23 Consensus pattern (46 bp): CAGTGTAAGACCATGTATGGGACATGGCATTGACTTGATGAAGAGC Found at i:140699 original size:30 final size:31 Alignment explanation
Indices: 140651--140713 Score: 110 Period size: 30 Copynumber: 2.1 Consensus size: 31 140641 TCAACTAAGT 140651 TTGGGTAAGTACTTTCTTGCTCTTGATTTGG 1 TTGGGTAAGTACTTTCTTGCTCTTGATTTGG * 140682 TTGGGTAAGTA-TTTCTTGTTCTTGATTTGG 1 TTGGGTAAGTACTTTCTTGCTCTTGATTTGG 140712 TT 1 TT 140714 CTTGGTCCTT Statistics Matches: 31, Mismatches: 1, Indels: 1 0.94 0.03 0.03 Matches are distributed among these distances: 30 20 0.65 31 11 0.35 ACGTcount: A:0.13, C:0.10, G:0.25, T:0.52 Consensus pattern (31 bp): TTGGGTAAGTACTTTCTTGCTCTTGATTTGG Found at i:141597 original size:27 final size:27 Alignment explanation
Indices: 141567--141745 Score: 110 Period size: 27 Copynumber: 6.3 Consensus size: 27 141557 CCCTAAAATA * * 141567 GGTAAAATAACCTTAATGC-CCTTGTAG 1 GGTAAAATGACCGTAATGCTCC-TGTAG * 141594 GGTAAAATGACCGTAATACTCCTGTAG 1 GGTAAAATGACCGTAATGCTCCTGTAG * * 141621 GGTAAAATGACCGTAATGATCGTAATGCCCCTATGG 1 GGTAAAATGACCGTAATG--C----T---CCTGTAG * * * * * 141657 GGTACAATGACCATAATACCCCTATAG 1 GGTAAAATGACCGTAATGCTCCTGTAG 141684 GGTAAAATGACCGTAATGC-CCTTGTAG 1 GGTAAAATGACCGTAATGCTCC-TGTAG * * * ** 141711 GGTAAACTGACCGTAATACCCCTGTTT 1 GGTAAAATGACCGTAATGCTCCTGTAG 141738 GGTAAAAT 1 GGTAAAAT 141746 AACGATTATG Statistics Matches: 120, Mismatches: 20, Indels: 24 0.73 0.12 0.15 Matches are distributed among these distances: 26 2 0.02 27 91 0.76 28 4 0.03 29 1 0.01 33 1 0.01 34 1 0.01 36 20 0.17 ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26 Consensus pattern (27 bp): GGTAAAATGACCGTAATGCTCCTGTAG Found at i:141646 original size:36 final size:36 Alignment explanation
Indices: 141599--141673 Score: 87 Period size: 36 Copynumber: 2.1 Consensus size: 36 141589 TGTAGGGTAA * * * 141599 AATGACCGTAATACTCCTGTAGGGTAAAATGACCGT 1 AATGACCGTAATACCCCTATAGGGTAAAATGACCAT * * * * 141635 AATGATCGTAATGCCCCTATGGGGTACAATGACCAT 1 AATGACCGTAATACCCCTATAGGGTAAAATGACCAT 141671 AAT 1 AAT 141674 ACCCCTATAG Statistics Matches: 32, Mismatches: 7, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 36 32 1.00 ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25 Consensus pattern (36 bp): AATGACCGTAATACCCCTATAGGGTAAAATGACCAT Found at i:141757 original size:54 final size:54 Alignment explanation
Indices: 141635--141760 Score: 130 Period size: 54 Copynumber: 2.3 Consensus size: 54 141625 AAATGACCGT * * * * 141635 AATGATCGTAATGCCCCTATGGGGTACAATGACCATAATACCCCTATAGGGTAA 1 AATGAACGTAATGCCCTTGTAGGGTACAATGACCATAATACCCCTATAGGGTAA * * * ** 141689 AATGACCGTAATGCCCTTGTAGGGTA-AACTGACCGTAATACCCCTGTTTGGTAA 1 AATGAACGTAATGCCCTTGTAGGGTACAA-TGACCATAATACCCCTATAGGGTAA * 141743 AAT-AACGATTATGCCCTT 1 AATGAACG-TAATGCCCTT 141761 ATATTCCGAA Statistics Matches: 60, Mismatches: 10, Indels: 4 0.81 0.14 0.05 Matches are distributed among these distances: 53 5 0.08 54 55 0.92 ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27 Consensus pattern (54 bp): AATGAACGTAATGCCCTTGTAGGGTACAATGACCATAATACCCCTATAGGGTAA Found at i:142102 original size:27 final size:27 Alignment explanation
Indices: 142072--142123 Score: 77 Period size: 27 Copynumber: 1.9 Consensus size: 27 142062 ATTACACTGT * * 142072 ACTAATACTGTATTGGGCTTAGGCCAC 1 ACTAATACTGTATAGGGCTAAGGCCAC * 142099 ACTATTACTGTATAGGGCTAAGGCC 1 ACTAATACTGTATAGGGCTAAGGCC 142124 CAGACTGTAC Statistics Matches: 22, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 27 22 1.00 ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29 Consensus pattern (27 bp): ACTAATACTGTATAGGGCTAAGGCCAC Found at i:142156 original size:33 final size:34 Alignment explanation
Indices: 142104--142171 Score: 93 Period size: 33 Copynumber: 2.0 Consensus size: 34 142094 GCCACACTAT * * 142104 TACTGTATAGGGCTAAGGCCCAGACTG-TACTGA 1 TACTGAATAAGGCTAAGGCCCAGACTGTTACTGA * * 142137 TACTGAATAAGGCTCAGGCCCAGATTGTTACTGA 1 TACTGAATAAGGCTAAGGCCCAGACTGTTACTGA 142171 T 1 T 142172 CTAGGCTTAG Statistics Matches: 30, Mismatches: 4, Indels: 1 0.86 0.11 0.03 Matches are distributed among these distances: 33 23 0.77 34 7 0.23 ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26 Consensus pattern (34 bp): TACTGAATAAGGCTAAGGCCCAGACTGTTACTGA Found at i:145472 original size:20 final size:20 Alignment explanation
Indices: 145434--145472 Score: 51 Period size: 20 Copynumber: 1.9 Consensus size: 20 145424 TTAGGCCATT * 145434 ATGGGCCACGTTGGACCAAA 1 ATGGGCCACGTGGGACCAAA * * 145454 ATGGGCCATGTGGGCCCAA 1 ATGGGCCACGTGGGACCAA 145473 TGGGCTCGTG Statistics Matches: 16, Mismatches: 3, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 20 16 1.00 ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15 Consensus pattern (20 bp): ATGGGCCACGTGGGACCAAA Found at i:145756 original size:27 final size:27 Alignment explanation
Indices: 145718--145914 Score: 254 Period size: 27 Copynumber: 7.3 Consensus size: 27 145708 CCCAAAATAA * * 145718 GTAAAATGACTGTAATATCCCTATAGG 1 GTAAAATGACTGTAATACCCCTGTAGG 145745 GTAAAATGACTGTAATACCCCTGTAGG 1 GTAAAATGACTGTAATACCCCTGTAGG * * 145772 GTAAAATGACT-TAATATCCCTATAGG 1 GTAAAATGACTGTAATACCCCTGTAGG * * 145798 GTAAAATGATTGTAATGCCCCTGTAGG 1 GTAAAATGACTGTAATACCCCTGTAGG * 145825 GTAGAATGAAC-GTAATACCCCTGTAGG 1 GTAAAATG-ACTGTAATACCCCTGTAGG ** * 145852 GTAAAATGACCATAATGCCCCTGTAGG 1 GTAAAATGACTGTAATACCCCTGTAGG * * * 145879 GTACAATGGCTGTAATACCCCTGTAAG 1 GTAAAATGACTGTAATACCCCTGTAGG 145906 GTAAAATGA 1 GTAAAATGA 145915 TGATTATGCC Statistics Matches: 145, Mismatches: 22, Indels: 6 0.84 0.13 0.03 Matches are distributed among these distances: 26 25 0.17 27 119 0.82 28 1 0.01 ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26 Consensus pattern (27 bp): GTAAAATGACTGTAATACCCCTGTAGG Found at i:145851 original size:80 final size:82 Alignment explanation
Indices: 145718--145914 Score: 265 Period size: 80 Copynumber: 2.4 Consensus size: 82 145708 CCCAAAATAA * * 145718 GTAAAATGACTGTAATATCCCTATAGGGTAAAATG-ACTGTAATACCCCTGTAGGGTAAAATGA- 1 GTAAAATGACTGTAATACCCCTGTAGGGTAAAATGAACTGTAATACCCCTGTAGGGTAAAATGAC * * 145781 CTTAATATCCCTATAGG 66 CATAATACCCCTATAGG * * * 145798 GTAAAATGATTGTAATGCCCCTGTAGGGTAGAATGAAC-GTAATACCCCTGTAGGGTAAAATGAC 1 GTAAAATGACTGTAATACCCCTGTAGGGTAAAATGAACTGTAATACCCCTGTAGGGTAAAATGAC * * 145862 CATAATGCCCCTGTAGG 66 CATAATACCCCTATAGG * * * 145879 GTACAATGGCTGTAATACCCCTGTAAGGTAAAATGA 1 GTAAAATGACTGTAATACCCCTGTAGGGTAAAATGA 145915 TGATTATGCC Statistics Matches: 100, Mismatches: 15, Indels: 3 0.85 0.13 0.03 Matches are distributed among these distances: 80 55 0.55 81 45 0.45 ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26 Consensus pattern (82 bp): GTAAAATGACTGTAATACCCCTGTAGGGTAAAATGAACTGTAATACCCCTGTAGGGTAAAATGAC CATAATACCCCTATAGG Found at i:156598 original size:46 final size:47 Alignment explanation
Indices: 156531--156753 Score: 251 Period size: 47 Copynumber: 4.8 Consensus size: 47 156521 TGTAACCCGC * ** 156531 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG-GTATTTGCAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAACATTTGCAT * * * * 156577 CCATAAGTGAACTCGGACTCAACTCATCGAGCTCGGATGCCTAGTTACAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA--AC-ATTTGCAT * * * 156627 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGG-ACATTCGCAT 1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAACATTTGCAT * 156670 CCATAAGTGAACTCGGACTCAACTCATCGAGCTCGGAACATTTGCAT 1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAACATTTGCAT * * 156717 ACATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA 1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA 156754 TGCCCAAATA Statistics Matches: 147, Mismatches: 20, Indels: 19 0.79 0.11 0.10 Matches are distributed among these distances: 42 1 0.01 43 7 0.05 44 1 0.01 46 60 0.41 47 69 0.47 50 8 0.05 51 1 0.01 ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23 Consensus pattern (47 bp): CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAACATTTGCAT Found at i:156729 original size:93 final size:92 Alignment explanation
Indices: 156532--156753 Score: 302 Period size: 93 Copynumber: 2.4 Consensus size: 92 156522 GTAACCCGCC * * ** * 156532 CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGTATTTGCATCCATAAGTGAACTCGGACTC 1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTC * * 156597 AACTCATCGAGCTCGGATGCCTAGTTA 66 AACTCATCGAGCTCGGATACCTAGATA *** 156624 CATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACT 1 CATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACT * * 156689 CAACTCATCGAGCTCGGA-ACATTTGCATA 65 CAACTCATCGAGCTCGGATAC-CTAG-ATA 156718 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA 1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA 156754 TGCCCAAATA Statistics Matches: 112, Mismatches: 15, Indels: 5 0.85 0.11 0.04 Matches are distributed among these distances: 92 5 0.04 93 101 0.90 94 6 0.05 ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23 Consensus pattern (92 bp): CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTC AACTCATCGAGCTCGGATACCTAGATA Found at i:159174 original size:15 final size:15 Alignment explanation
Indices: 159148--159203 Score: 87 Period size: 15 Copynumber: 3.7 Consensus size: 15 159138 CAAGGAAACC 159148 GAATAAAGAAATCCA 1 GAATAAAGAAATCCA * 159163 -AGATAGAGAAATCCA 1 GA-ATAAAGAAATCCA 159178 GAATAAAGAAATCCA 1 GAATAAAGAAATCCA 159193 GAATAAAGAAA 1 GAATAAAGAAA 159204 CCCAAGATAC Statistics Matches: 37, Mismatches: 2, Indels: 4 0.86 0.05 0.09 Matches are distributed among these distances: 14 1 0.03 15 35 0.95 16 1 0.03 ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12 Consensus pattern (15 bp): GAATAAAGAAATCCA Done.