Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Gbar_D08 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: 65987480 ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33 Warning! 223646 characters in sequence are not A, C, G, or T File 43 of 211 Found at i:12716540 original size:22 final size:22 Alignment explanation
Indices: 12715828--12716540 Score: 896 Period size: 22 Copynumber: 33.0 Consensus size: 22 12715818 TCAAATTATA * 12715828 TTTAAGTTAAGGG-TTAAGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * * 12715849 TTAAAGTTAAGGG-TTAAGGTT 1 TTTAAGTTAAGGGTTTAGGGTT 12715870 TTTAAGTTAAGGG-TTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12715891 TTTAAGTTAAGGGTTTAAGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * * 12715913 TTTAGGTTAAGGGTTTATGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12715935 TTAAAGTTAAGGGTTTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12715957 TTTAAGTTAAGGG-TTAAGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12715978 TTTAAGTTAAGGGTTTAAGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716000 TTTAAGTTAAGGGTTTATGG-T 1 TTTAAGTTAAGGGTTTAGGGTT * * 12716021 TTAAAGTTAATGG-TTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716042 TTTAAGTTAAGGGTTTAGGATT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716064 TTTATGTTAAGGGTTTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT 12716086 TTTAAGTTAAGGG-TTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716107 TTTAAGTTAAGGGTTTAAGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * * * 12716129 TTTAGGTTAAGGGTTTATGATT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716151 TTAAAGTTAAGGG-TTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * * 12716172 TTTAAGTTAAGGGTTTAAGATT 1 TTTAAGTTAAGGGTTTAGGGTT * * 12716194 TTTAGGTTAAAGGTTTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * * 12716216 TTAAAGTTAATGG-TTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716237 TTTAAGTTAAGAGTTTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * * * 12716259 TTTAGGTTAAAGGTTTATGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * * 12716281 TTAAAGTCAAGGG-TTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716302 TTTAAGTTAATGGTTTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * * 12716324 TTTAGGTTAAGGGTTTATGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716346 TTTAAGTTAAGAGTTTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * ** * 12716368 TTAAAGTTAAATG-TTAAGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716389 TTTAAGTTAAGGG-CTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716410 TTTAAGTTAAGAGTTTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * * 12716432 TTAAAGTTAA-TGTTTAGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716453 TTTAAGTTAAGGGTTTAAGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716475 TTTAAGTTAAGGGTTTAAGGTT 1 TTTAAGTTAAGGGTTTAGGGTT * * 12716497 TTTAATTTAAGGG-TTAGAGTT 1 TTTAAGTTAAGGGTTTAGGGTT * 12716518 TTTAAGTTAAGGGTTTTGGGTT 1 TTTAAGTTAAGGGTTTAGGGTT 12716540 T 1 T 12716541 GTCAATTAAA Statistics Matches: 599, Mismatches: 82, Indels: 21 0.85 0.12 0.03 Matches are distributed among these distances: 20 5 0.01 21 242 0.40 22 352 0.59 ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45 Consensus pattern (22 bp): TTTAAGTTAAGGGTTTAGGGTT Found at i:12717782 original size:7 final size:7 Alignment explanation
Indices: 12717772--12717814 Score: 68 Period size: 7 Copynumber: 6.1 Consensus size: 7 12717762 TTATATACAT 12717772 AATACTA 1 AATACTA 12717779 AATACTA 1 AATACTA 12717786 AATACTA 1 AATACTA * 12717793 AATACTC 1 AATACTA * 12717800 AATACTC 1 AATACTA 12717807 AATACTA 1 AATACTA 12717814 A 1 A 12717815 TCGATTAGCG Statistics Matches: 34, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 7 34 1.00 ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28 Consensus pattern (7 bp): AATACTA Found at i:12717790 original size:21 final size:20 Alignment explanation
Indices: 12717766--12717815 Score: 64 Period size: 21 Copynumber: 2.4 Consensus size: 20 12717756 TATTAGTTAT 12717766 ATACATAATACTAAATACTAA 1 ATAC-TAATACTAAATACTAA * * 12717787 ATACTAAATACTCAATACTCA 1 ATACT-AATACTAAATACTAA 12717808 ATACTAAT 1 ATACTAAT 12717816 CGATTAGCGA Statistics Matches: 26, Mismatches: 2, Indels: 3 0.84 0.06 0.10 Matches are distributed among these distances: 20 4 0.15 21 22 0.85 ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30 Consensus pattern (20 bp): ATACTAATACTAAATACTAA Found at i:12718017 original size:20 final size:21 Alignment explanation
Indices: 12717975--12718018 Score: 56 Period size: 20 Copynumber: 2.1 Consensus size: 21 12717965 ATACTTTTAT * 12717975 TTTTAAAAATCTACATAATAA 1 TTTTAAAAATCTACATAAAAA 12717996 TTTT-AAAATCTA-ATATAAAA 1 TTTTAAAAATCTACATA-AAAA 12718016 TTT 1 TTT 12718019 ACCTCGTTAT Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 19 3 0.14 20 14 0.67 21 4 0.19 ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43 Consensus pattern (21 bp): TTTTAAAAATCTACATAAAAA Found at i:12718999 original size:40 final size:40 Alignment explanation
Indices: 12718955--12719043 Score: 101 Period size: 40 Copynumber: 2.2 Consensus size: 40 12718945 AATTATTTAA * * 12718955 AAATTGGGATTTAAGA-GAAATTTA-AGAGGAAATTGAGAGC 1 AAATTGAGATTAAAGATG-AATTTAGA-AGGAAATTGAGAGC * * * 12718995 AAATTGAGATTAAATATGAATTTGGAAGGAATTTGAGAGC 1 AAATTGAGATTAAAGATGAATTTAGAAGGAAATTGAGAGC 12719035 AAATTGAGA 1 AAATTGAGA 12719044 GGAAATTTAG Statistics Matches: 42, Mismatches: 5, Indels: 4 0.82 0.10 0.08 Matches are distributed among these distances: 40 40 0.95 41 2 0.05 ACGTcount: A:0.45, C:0.02, G:0.26, T:0.27 Consensus pattern (40 bp): AAATTGAGATTAAAGATGAATTTAGAAGGAAATTGAGAGC Found at i:12719046 original size:22 final size:23 Alignment explanation
Indices: 12719024--12719079 Score: 96 Period size: 22 Copynumber: 2.5 Consensus size: 23 12719014 ATTTGGAAGG * 12719024 AATTTGAGAGCAAATTGAGAGGA 1 AATTTGAGAGAAAATTGAGAGGA 12719047 AATTT-AGAGAAAATTGAGAGGA 1 AATTTGAGAGAAAATTGAGAGGA 12719069 AATTTGAGAGA 1 AATTTGAGAGA 12719080 GGATTAGTTT Statistics Matches: 31, Mismatches: 1, Indels: 2 0.91 0.03 0.06 Matches are distributed among these distances: 22 21 0.68 23 10 0.32 ACGTcount: A:0.46, C:0.02, G:0.29, T:0.23 Consensus pattern (23 bp): AATTTGAGAGAAAATTGAGAGGA Found at i:12719075 original size:12 final size:12 Alignment explanation
Indices: 12719024--12719078 Score: 71 Period size: 11 Copynumber: 4.8 Consensus size: 12 12719014 ATTTGGAAGG * 12719024 AATTTGAGAGCA 1 AATTTGAGAGGA 12719036 AA-TTGAGAGGA 1 AATTTGAGAGGA 12719047 AATTT-AGA-GA 1 AATTTGAGAGGA * 12719057 AAATTGAGAGGA 1 AATTTGAGAGGA 12719069 AATTTGAGAG 1 AATTTGAGAG 12719079 AGGATTAGTT Statistics Matches: 37, Mismatches: 3, Indels: 6 0.80 0.07 0.13 Matches are distributed among these distances: 10 6 0.16 11 16 0.43 12 15 0.41 ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24 Consensus pattern (12 bp): AATTTGAGAGGA Found at i:12727669 original size:14 final size:15 Alignment explanation
Indices: 12727644--12727672 Score: 51 Period size: 14 Copynumber: 2.0 Consensus size: 15 12727634 CCATTCAATT 12727644 AATCAGTTCATAACA 1 AATCAGTTCATAACA 12727659 AATCA-TTCATAACA 1 AATCAGTTCATAACA 12727673 TATTTAATTC Statistics Matches: 14, Mismatches: 0, Indels: 1 0.93 0.00 0.07 Matches are distributed among these distances: 14 9 0.64 15 5 0.36 ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28 Consensus pattern (15 bp): AATCAGTTCATAACA Found at i:12727918 original size:40 final size:40 Alignment explanation
Indices: 12727863--12727994 Score: 146 Period size: 40 Copynumber: 3.4 Consensus size: 40 12727853 CCAGTTTGGT * * 12727863 ACCCAGTACCTCATCGGATAATTCGAAGTAATAAGTTGAC 1 ACCCAGTGCCTCATCGGATAATCCGAAGTAATAAGTTGAC * * * 12727903 ACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA-TTGAC 1 ACCCAGTGCCTCATCGGATAATCCGAAGTAATAAGTTGAC * * 12727940 ACCCAATGCCTCATCGAATTAATCCGAAGTAAT-AGATTGAC 1 ACCCAGTGCCTCATCGGA-TAATCCGAAGTAATAAG-TTGAC * 12727981 ACCCAGTGTCTCAT 1 ACCCAGTGCCTCAT 12727995 GGACTCGTAG Statistics Matches: 75, Mismatches: 12, Indels: 9 0.78 0.12 0.09 Matches are distributed among these distances: 37 19 0.25 38 12 0.16 39 3 0.04 40 24 0.32 41 17 0.23 ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24 Consensus pattern (40 bp): ACCCAGTGCCTCATCGGATAATCCGAAGTAATAAGTTGAC Found at i:12727953 original size:37 final size:40 Alignment explanation
Indices: 12727871--12727994 Score: 121 Period size: 37 Copynumber: 3.1 Consensus size: 40 12727861 GTACCCAGTA ** * 12727871 CCTCATCGGATAATTCGAAGTAATAAGTTGACACCCAGTG 1 CCTCATCGGATAAACCGAAGTAATAAGTTGACACCCAATG * * 12727911 TCTCATCGGCTAAACCGAAGT-A-AA-TTGACACCCAATG 1 CCTCATCGGATAAACCGAAGTAATAAGTTGACACCCAATG * * * 12727948 CCTCATCGAATTAATCCGAAGTAAT-AGATTGACACCCAGTG 1 CCTCATCGGA-TAAACCGAAGTAATAAG-TTGACACCCAATG * 12727989 TCTCAT 1 CCTCAT 12727995 GGACTCGTAG Statistics Matches: 68, Mismatches: 11, Indels: 9 0.77 0.12 0.10 Matches are distributed among these distances: 37 19 0.28 38 12 0.18 39 3 0.04 40 17 0.25 41 17 0.25 ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25 Consensus pattern (40 bp): CCTCATCGGATAAACCGAAGTAATAAGTTGACACCCAATG Found at i:12734748 original size:5 final size:5 Alignment explanation
Indices: 12734740--12734787 Score: 96 Period size: 5 Copynumber: 9.6 Consensus size: 5 12734730 TACTACAAAA 12734740 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA 1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA 12734788 TACTTAAATA Statistics Matches: 43, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 5 43 1.00 ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40 Consensus pattern (5 bp): ATAAT Found at i:12735414 original size:17 final size:17 Alignment explanation
Indices: 12735385--12735417 Score: 50 Period size: 17 Copynumber: 1.9 Consensus size: 17 12735375 ATTTGATGTA 12735385 TTATATTTTTTTAAAAT 1 TTATATTTTTTTAAAAT 12735402 TTAT-TTTTATTTAAAA 1 TTATATTTT-TTTAAAA 12735418 ATAATATAAA Statistics Matches: 15, Mismatches: 0, Indels: 2 0.88 0.00 0.12 Matches are distributed among these distances: 16 4 0.27 17 11 0.73 ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64 Consensus pattern (17 bp): TTATATTTTTTTAAAAT Found at i:12738465 original size:27 final size:27 Alignment explanation
Indices: 12738423--12738546 Score: 117 Period size: 27 Copynumber: 4.6 Consensus size: 27 12738413 AACACATTAG * * 12738423 GAAAGAATAACCTTTGTGGAAAACTAT 1 GAAAGAATAGCTTTTGTGGAAAACTAT 12738450 GAAAGAATAGCTTTTGT-GACAAACTAT 1 GAAAGAATAGCTTTTGTGGA-AAACTAT * ** * 12738477 GAAATAATAG-TCTTTGTGGCGAATTAT 1 GAAAGAATAGCT-TTTGTGGAAAACTAT ** * * 12738504 GAAAGAATAGCCATTGTGGCAAATTAT 1 GAAAGAATAGCTTTTGTGGAAAACTAT * 12738531 GAAGGAATAGCTTTTG 1 GAAAGAATAGCTTTTG 12738547 GTGGTGTACT Statistics Matches: 80, Mismatches: 13, Indels: 8 0.79 0.13 0.08 Matches are distributed among these distances: 26 3 0.04 27 76 0.95 28 1 0.01 ACGTcount: A:0.39, C:0.10, G:0.22, T:0.30 Consensus pattern (27 bp): GAAAGAATAGCTTTTGTGGAAAACTAT Found at i:12747675 original size:105 final size:101 Alignment explanation
Indices: 12747497--12747691 Score: 264 Period size: 105 Copynumber: 1.9 Consensus size: 101 12747487 AATTGACGGA * * * 12747497 TAAGACCATGGTTGGACCATGACAGTGTTTAAATGTAAGACCATATCTAGGCTATGAAATTTTAA 1 TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTAGGCTATGAAATTCTAA 12747562 TGAAAAGACCATAACTGGGTTATGGTAACTTGAACG 66 TGAAAAGACCATAACTGGGTTATGGTAACTTGAACG ** * * * 12747598 TAAGACCATGGTTGGACCATGGTAGTATATATACATGTGTAAGACCATAGCTGGGCTATGACATT 1 TAAGACCATGGTTGGACCATGACAGTAT-T-TA-A-ATGTAAGACCATAGCTAGGCTATGAAATT * * 12747663 CTGATGATAAGACCATAACTGGGTTATGG 62 CTAATGAAAAGACCATAACTGGGTTATGG 12747692 CACTACAAAT Statistics Matches: 80, Mismatches: 10, Indels: 4 0.85 0.11 0.04 Matches are distributed among these distances: 101 25 0.31 102 1 0.01 103 2 0.03 104 1 0.01 105 51 0.64 ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29 Consensus pattern (101 bp): TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTAGGCTATGAAATTCTAA TGAAAAGACCATAACTGGGTTATGGTAACTTGAACG Found at i:12747706 original size:105 final size:101 Alignment explanation
Indices: 12747497--12747713 Score: 256 Period size: 105 Copynumber: 2.1 Consensus size: 101 12747487 AATTGACGGA * * * 12747497 TAAGACCATGGTTGGACCATGACAGTGTTTAAATGTAAGACCATATCTAGGCTATGAAATTTTAA 1 TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTAGGCTATGAAATTCTAA ** 12747562 TGAAAAGACCATAACTGGGTTATGGTAACTTGAACG 66 TGAAAAGACCATAACTGGGTTATGGTAACTCAAACG ** * * * 12747598 TAAGACCATGGTTGGACCATGGTAGTATATATACATGTGTAAGACCATAGCTGGGCTATGACATT 1 TAAGACCATGGTTGGACCATGACAGTAT-T-TA-A-ATGTAAGACCATAGCTAGGCTATGAAATT * * * * 12747663 CTGATGATAAGACCATAACTGGGTTATGG-CACTACAAATG 62 CTAATGAAAAGACCATAACTGGGTTATGGTAACT-CAAACG 12747703 TAAGACCATGG 1 TAAGACCATGG 12747714 CAGGGCCATG Statistics Matches: 97, Mismatches: 14, Indels: 6 0.83 0.12 0.05 Matches are distributed among these distances: 101 25 0.26 102 1 0.01 103 2 0.02 104 4 0.04 105 65 0.67 ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28 Consensus pattern (101 bp): TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTAGGCTATGAAATTCTAA TGAAAAGACCATAACTGGGTTATGGTAACTCAAACG Found at i:12747707 original size:33 final size:32 Alignment explanation
Indices: 12747635--12747711 Score: 82 Period size: 33 Copynumber: 2.3 Consensus size: 32 12747625 TATATACATG * * ** 12747635 TGTAAGACCATAGCTGGGCTATGACATTCTGA 1 TGTAAGACCATAACTGGGCTATGACATACAAA * * 12747667 TGATAAGACCATAACTGGGTTATGGCACTACAAA 1 TG-TAAGACCATAACTGGGCTATGACA-TACAAA 12747701 TGTAAGACCAT 1 TGTAAGACCAT 12747712 GGCAGGGCCA Statistics Matches: 37, Mismatches: 6, Indels: 3 0.80 0.13 0.07 Matches are distributed among these distances: 32 2 0.05 33 30 0.81 34 5 0.14 ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26 Consensus pattern (32 bp): TGTAAGACCATAACTGGGCTATGACATACAAA Found at i:12747723 original size:105 final size:105 Alignment explanation
Indices: 12747530--12747726 Score: 261 Period size: 105 Copynumber: 1.9 Consensus size: 105 12747520 AGTGTTTAAA * * ** 12747530 TGTAAGACCATATCTAGGCTATGAAATTTTAATGAAAAGACCATAACTGGGTTATGGTAACTTGA 1 TGTAAGACCATAGCTAGGCTATGAAATTCTAATGAAAAGACCATAACTGGGTTATGGTAACTCAA ** 12747595 ACGTAAGACCATGGTTGGACCATGGTAGTATATATACATG 66 ACGTAAGACCATGGCAGGACCATGGTAGTATATATACATG * * * * * 12747635 TGTAAGACCATAGCTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGG-CACTACA 1 TGTAAGACCATAGCTAGGCTATGAAATTCTAATGAAAAGACCATAACTGGGTTATGGTAACT-CA * * 12747699 AATGTAAGACCATGGCAGGGCCATGGTA 65 AACGTAAGACCATGGCAGGACCATGGTA 12747727 ATGCATGTGT Statistics Matches: 78, Mismatches: 13, Indels: 2 0.84 0.14 0.02 Matches are distributed among these distances: 104 3 0.04 105 75 0.96 ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27 Consensus pattern (105 bp): TGTAAGACCATAGCTAGGCTATGAAATTCTAATGAAAAGACCATAACTGGGTTATGGTAACTCAA ACGTAAGACCATGGCAGGACCATGGTAGTATATATACATG Found at i:12749930 original size:48 final size:48 Alignment explanation
Indices: 12749859--12749961 Score: 188 Period size: 48 Copynumber: 2.1 Consensus size: 48 12749849 GAGTCCAAAA * 12749859 GTTAATTAGCAACACAGAAGTTAACCAACCGCTGTCTGTTATTAATTT 1 GTTAATTAGCAACACAGAAGTTAACCAACCACTGTCTGTTATTAATTT * 12749907 GTTAATTAGCAACATAGAAGTTAACCAACCACTGTCTGTTATTAATTT 1 GTTAATTAGCAACACAGAAGTTAACCAACCACTGTCTGTTATTAATTT 12749955 GTTAATT 1 GTTAATT 12749962 TCATAAGTTT Statistics Matches: 53, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 48 53 1.00 ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36 Consensus pattern (48 bp): GTTAATTAGCAACACAGAAGTTAACCAACCACTGTCTGTTATTAATTT Found at i:12754271 original size:14 final size:14 Alignment explanation
Indices: 12754217--12754251 Score: 70 Period size: 14 Copynumber: 2.5 Consensus size: 14 12754207 ATTTTAAATA 12754217 TTTTTAAAATACTT 1 TTTTTAAAATACTT 12754231 TTTTTAAAATACTT 1 TTTTTAAAATACTT 12754245 TTTTTAA 1 TTTTTAA 12754252 TTTTAAAATA Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 21 1.00 ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60 Consensus pattern (14 bp): TTTTTAAAATACTT Found at i:12754287 original size:65 final size:61 Alignment explanation
Indices: 12754199--12754328 Score: 215 Period size: 62 Copynumber: 2.1 Consensus size: 61 12754189 TTTTACATAC 12754199 TTTTTTAAATTTTAAATATTTTTAAAATACTTTTTTTAAAATACTTTTTTTAATTTTAAAATAT 1 TTTTTTAAATTTTAAATATTTTTAAAATAC-TTTTTTAAAAT--TTTTTTTAATTTTAAAATAT * 12754263 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAAATTTTTTTTAATTTTAAAATAT 1 TTTTTTAAATTTT-AAATATTTTTAAAATACTTTTTTAAAATTTTTTTTAATTTTAAAATAT 12754325 TTTT 1 TTTT 12754329 AAAATACTTT Statistics Matches: 64, Mismatches: 1, Indels: 4 0.93 0.01 0.06 Matches are distributed among these distances: 62 24 0.38 64 23 0.36 65 17 0.27 ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62 Consensus pattern (61 bp): TTTTTTAAATTTTAAATATTTTTAAAATACTTTTTTAAAATTTTTTTTAATTTTAAAATAT Found at i:12754318 original size:31 final size:30 Alignment explanation
Indices: 12754218--12754364 Score: 70 Period size: 32 Copynumber: 4.7 Consensus size: 30 12754208 TTTTAAATAT 12754218 TTTTAAAATACTTTTTTTAAAATACTTTTTTTAA 1 TTTTAAAATA--TTTTTTAAAAT--TTTTTTTAA ** *** 12754252 TTTTAAAATATTTTTTTTAA-TTTTAAAATA 1 TTTTAAAATATTTTTTAAAATTTTTTTTA-A * ** * * 12754282 TTTTTAAA-ATACTTTTTTAAAATTTTTTTTAA 1 TTTTAAAATATTTTTTA--AAATTTT-TTTTAA 12754314 TTTTAAAATA-TTTTTAAAATACTTTTTTTAA 1 TTTTAAAATATTTTTTAAAAT--TTTTTTTAA 12754345 TTTTTAAAA-A-TTTTTAAAAT 1 -TTTTAAAATATTTTTTAAAAT 12754365 AAAAATGGGC Statistics Matches: 87, Mismatches: 17, Indels: 21 0.70 0.14 0.17 Matches are distributed among these distances: 29 11 0.13 30 11 0.13 31 19 0.22 32 33 0.38 33 3 0.03 34 10 0.11 ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59 Consensus pattern (30 bp): TTTTAAAATATTTTTTAAAATTTTTTTTAA Found at i:12754318 original size:42 final size:42 Alignment explanation
Indices: 12754252--12754349 Score: 162 Period size: 42 Copynumber: 2.3 Consensus size: 42 12754242 CTTTTTTTAA * 12754252 TTTTAAAATATTTTTTTTAATTTTAAAATATTTTTAAAATACT 1 TTTTTAAA-ATTTTTTTTAATTTTAAAATATTTTTAAAATACT 12754295 TTTTTAAAATTTTTTTTAATTTTAAAATATTTTTAAAATACT 1 TTTTTAAAATTTTTTTTAATTTTAAAATATTTTTAAAATACT * 12754337 TTTTT-TAATTTTT 1 TTTTTAAAATTTTT 12754350 AAAAATTTTT Statistics Matches: 53, Mismatches: 2, Indels: 2 0.93 0.04 0.04 Matches are distributed among these distances: 41 7 0.13 42 39 0.74 43 7 0.13 ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62 Consensus pattern (42 bp): TTTTTAAAATTTTTTTTAATTTTAAAATATTTTTAAAATACT Found at i:12754360 original size:42 final size:42 Alignment explanation
Indices: 12754270--12754365 Score: 140 Period size: 42 Copynumber: 2.3 Consensus size: 42 12754260 TATTTTTTTT *** 12754270 AATTTTAAAATATTTTTAAAATACTTTTTTAAAATTTTTTTT 1 AATTTTAAAATATTTTTAAAATACTTTTTTAAAATTTTTAAA * 12754312 AATTTTAAAATATTTTTAAAATACTTTTTT-TAATTTTTAAA 1 AATTTTAAAATATTTTTAAAATACTTTTTTAAAATTTTTAAA 12754353 AATTTTTAAAATA 1 AA-TTTTAAAATA 12754366 AAAATGGGCC Statistics Matches: 49, Mismatches: 4, Indels: 2 0.89 0.07 0.04 Matches are distributed among these distances: 41 9 0.18 42 40 0.82 ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56 Consensus pattern (42 bp): AATTTTAAAATATTTTTAAAATACTTTTTTAAAATTTTTAAA Found at i:12754365 original size:31 final size:31 Alignment explanation
Indices: 12754231--12754365 Score: 136 Period size: 31 Copynumber: 4.4 Consensus size: 31 12754221 TAAAATACTT 12754231 TTTTTAAAATACTTTTTTTAATTTTAAAATA 1 TTTTTAAAATACTTTTTTTAATTTTAAAATA ** *** * 12754262 TTTTTTTTAAT--TTTAAAATATTTTTAAAATA 1 -TTTTTAAAATACTTT-TTTTAATTTTAAAATA 12754293 CTTTTTTAAAAT--TTTTTTTAATTTTAAAATA 1 --TTTTTAAAATACTTTTTTTAATTTTAAAATA 12754324 TTTTTAAAATACTTTTTTTAATTTTTAAAA-A 1 TTTTTAAAATACTTTTTTTAA-TTTTAAAATA 12754355 TTTTTAAAATA 1 TTTTTAAAATA 12754366 AAAATGGGCC Statistics Matches: 86, Mismatches: 12, Indels: 11 0.79 0.11 0.10 Matches are distributed among these distances: 29 10 0.12 30 3 0.03 31 45 0.52 32 28 0.33 ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59 Consensus pattern (31 bp): TTTTTAAAATACTTTTTTTAATTTTAAAATA Found at i:12756680 original size:18 final size:19 Alignment explanation
Indices: 12756657--12756711 Score: 60 Period size: 18 Copynumber: 3.0 Consensus size: 19 12756647 CTTTATACTT 12756657 TTTTTAATTTTTTTTATA- 1 TTTTTAATTTTTTTTATAC * * 12756675 TTTTTAATATTTTATA-AC 1 TTTTTAATTTTTTTTATAC * * 12756693 TTTTAAATTATTTTTATAC 1 TTTTTAATTTTTTTTATAC 12756712 ATGGTATATA Statistics Matches: 29, Mismatches: 6, Indels: 3 0.76 0.16 0.08 Matches are distributed among these distances: 17 1 0.03 18 26 0.90 19 2 0.07 ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67 Consensus pattern (19 bp): TTTTTAATTTTTTTTATAC Found at i:12762880 original size:18 final size:18 Alignment explanation
Indices: 12762857--12762913 Score: 78 Period size: 18 Copynumber: 3.2 Consensus size: 18 12762847 CCCAACTACT * 12762857 GTATACGTGAACAGTACC 1 GTATACGTGAATAGTACC * * 12762875 GTATACGTAAATAGTGCC 1 GTATACGTGAATAGTACC * 12762893 ATATACGTGAATAGTACC 1 GTATACGTGAATAGTACC 12762911 GTA 1 GTA 12762914 AACAGTCGTA Statistics Matches: 32, Mismatches: 7, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 18 32 1.00 ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26 Consensus pattern (18 bp): GTATACGTGAATAGTACC Found at i:12768840 original size:18 final size:17 Alignment explanation
Indices: 12768817--12768866 Score: 82 Period size: 17 Copynumber: 2.9 Consensus size: 17 12768807 CGTTTATGGT 12768817 ACTATTCACGTATACGGC 1 ACTATTCACGTATAC-GC * 12768835 ACTATTCACGTATACGT 1 ACTATTCACGTATACGC 12768852 ACTATTCACGTATAC 1 ACTATTCACGTATAC 12768867 AGTAGTTGGA Statistics Matches: 31, Mismatches: 1, Indels: 1 0.94 0.03 0.03 Matches are distributed among these distances: 17 16 0.52 18 15 0.48 ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32 Consensus pattern (17 bp): ACTATTCACGTATACGC Found at i:12768857 original size:17 final size:18 Alignment explanation
Indices: 12768814--12768866 Score: 90 Period size: 18 Copynumber: 3.0 Consensus size: 18 12768804 GACCGTTTAT 12768814 GGTACTATTCACGTATAC 1 GGTACTATTCACGTATAC * 12768832 GGCACTATTCACGTATAC 1 GGTACTATTCACGTATAC 12768850 -GTACTATTCACGTATAC 1 GGTACTATTCACGTATAC 12768867 AGTAGTTGGA Statistics Matches: 33, Mismatches: 2, Indels: 1 0.92 0.06 0.03 Matches are distributed among these distances: 17 16 0.48 18 17 0.52 ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32 Consensus pattern (18 bp): GGTACTATTCACGTATAC Found at i:12774303 original size:50 final size:50 Alignment explanation
Indices: 12774242--12774343 Score: 177 Period size: 50 Copynumber: 2.0 Consensus size: 50 12774232 TCTATAATAC * 12774242 TTCTTTTTCAATAATTTGATATCATGGCATGCATTTCATAACAAATATAT 1 TTCTTCTTCAATAATTTGATATCATGGCATGCATTTCATAACAAATATAT * * 12774292 TTCTTCTTCAATATTTTGGTATCATGGCATGCATTTCATAACAAATATAT 1 TTCTTCTTCAATAATTTGATATCATGGCATGCATTTCATAACAAATATAT 12774342 TT 1 TT 12774344 GGCATTTGCT Statistics Matches: 49, Mismatches: 3, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 50 49 1.00 ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45 Consensus pattern (50 bp): TTCTTCTTCAATAATTTGATATCATGGCATGCATTTCATAACAAATATAT Found at i:12781872 original size:62 final size:62 Alignment explanation
Indices: 12781793--12781948 Score: 249 Period size: 62 Copynumber: 2.5 Consensus size: 62 12781783 TTAAAGTGTC 12781793 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAAAATTCTATTATTTTAATAAGAT 1 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAAAATTCTATTATTTTAATAAGAT * * * * 12781855 TTAATATTTAATTTAATTTAATGTTAATCTTGTAGATAAATATTTTATTATTTTAATAAGAT 1 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAAAATTCTATTATTTTAATAAGAT * * * 12781917 TTAATATTAAATTTATTTTAGTATTTATCTTG 1 TTAATATTAAATTTAATTTAATGTTTATCTTG 12781949 ATAAATACTA Statistics Matches: 85, Mismatches: 9, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 62 85 1.00 ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53 Consensus pattern (62 bp): TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAAAATTCTATTATTTTAATAAGAT Found at i:12783181 original size:14 final size:14 Alignment explanation
Indices: 12783162--12783192 Score: 62 Period size: 14 Copynumber: 2.2 Consensus size: 14 12783152 AGTAATATAT 12783162 TTTCTGGAAAATGA 1 TTTCTGGAAAATGA 12783176 TTTCTGGAAAATGA 1 TTTCTGGAAAATGA 12783190 TTT 1 TTT 12783193 ACTTTTCTGA Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 17 1.00 ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42 Consensus pattern (14 bp): TTTCTGGAAAATGA Found at i:12783201 original size:20 final size:20 Alignment explanation
Indices: 12783176--12783221 Score: 85 Period size: 19 Copynumber: 2.4 Consensus size: 20 12783166 TGGAAAATGA 12783176 TTTCTGGAAAATGATTTACT 1 TTTCTGGAAAATGATTTACT 12783196 TTTCT-GAAAATGATTTACT 1 TTTCTGGAAAATGATTTACT 12783215 TTTCTGG 1 TTTCTGG 12783222 TGTTTGGATG Statistics Matches: 25, Mismatches: 0, Indels: 2 0.93 0.00 0.07 Matches are distributed among these distances: 19 19 0.76 20 6 0.24 ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48 Consensus pattern (20 bp): TTTCTGGAAAATGATTTACT Found at i:12785301 original size:56 final size:57 Alignment explanation
Indices: 12785239--12785348 Score: 213 Period size: 57 Copynumber: 1.9 Consensus size: 57 12785229 AAGAAGCTAG 12785239 AGATAAATTATACATGCATAATACAG-AAAAAAAGATATATATATATATATATATAT 1 AGATAAATTATACATGCATAATACAGAAAAAAAAGATATATATATATATATATATAT 12785295 AGATAAATTATACATGCATAATACAGAAAAAAAAGATATATATATATATATATA 1 AGATAAATTATACATGCATAATACAGAAAAAAAAGATATATATATATATATATA 12785349 GAGAGAGCTC Statistics Matches: 53, Mismatches: 0, Indels: 1 0.98 0.00 0.02 Matches are distributed among these distances: 56 26 0.49 57 27 0.51 ACGTcount: A:0.56, C:0.05, G:0.07, T:0.31 Consensus pattern (57 bp): AGATAAATTATACATGCATAATACAGAAAAAAAAGATATATATATATATATATATAT Found at i:12787239 original size:66 final size:66 Alignment explanation
Indices: 12787162--12787305 Score: 288 Period size: 66 Copynumber: 2.2 Consensus size: 66 12787152 AAACGTTGTT 12787162 GGCTTCTTTTCCTGAAAATGTCTTATGGAAAAAAAAGGTTAAGGCATTTTCATAAATTAAATTAA 1 GGCTTCTTTTCCTGAAAATGTCTTATGGAAAAAAAAGGTTAAGGCATTTTCATAAATTAAATTAA 12787227 A 66 A 12787228 GGCTTCTTTTCCTGAAAATGTCTTATGGAAAAAAAAGGTTAAGGCATTTTCATAAATTAAATTAA 1 GGCTTCTTTTCCTGAAAATGTCTTATGGAAAAAAAAGGTTAAGGCATTTTCATAAATTAAATTAA 12787293 A 66 A 12787294 GGCTTCTTTTCC 1 GGCTTCTTTTCC 12787306 CGTGTTTTGT Statistics Matches: 78, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 66 78 1.00 ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36 Consensus pattern (66 bp): GGCTTCTTTTCCTGAAAATGTCTTATGGAAAAAAAAGGTTAAGGCATTTTCATAAATTAAATTAA A Found at i:12790004 original size:60 final size:60 Alignment explanation
Indices: 12789938--12790138 Score: 143 Period size: 60 Copynumber: 3.1 Consensus size: 60 12789928 ACATAACAAT * 12789938 TTATTGAAATAATAGAACTTTATTTATATTGAAGTTTAGCATACTTAACAAAATTTCAAA 1 TTATTGAAATAATAGAACTTTATTTATAATGAAGTTTAGCATACTTAACAAAATTTCAAA * * * * * ** * 12789998 TTATTGAACAAAATATGTCCTAATCAGCTTTATTAAAAAT-ACATTTATATCATTGTTCAGCTAA 1 TTATTGAA-ATAATA-G-----A--A-CTTTATTTATAATGA-AGTT-TAGCATACTT-AAC-AA * ** * 12790062 CATAACAAT 52 AATTTCAAA * 12790071 TTATTGAAATAATAGAACTTTATTTATACTGAAGTTTAGCATACTTAACAAAATTTCAAA 1 TTATTGAAATAATAGAACTTTATTTATAATGAAGTTTAGCATACTTAACAAAATTTCAAA 12790131 TTATTGAA 1 TTATTGAA 12790139 CAAAATATGT Statistics Matches: 100, Mismatches: 26, Indels: 30 0.64 0.17 0.19 Matches are distributed among these distances: 60 23 0.23 61 7 0.07 62 8 0.08 63 13 0.13 64 2 0.02 66 1 0.01 67 1 0.01 69 2 0.02 70 13 0.13 71 8 0.08 72 7 0.07 73 15 0.15 ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39 Consensus pattern (60 bp): TTATTGAAATAATAGAACTTTATTTATAATGAAGTTTAGCATACTTAACAAAATTTCAAA Found at i:12790129 original size:133 final size:133 Alignment explanation
Indices: 12789891--12790156 Score: 496 Period size: 133 Copynumber: 2.0 Consensus size: 133 12789881 CGATTTGTAT 12789891 GCTTTATTAAAAATACATTTATATAATTATTCAACTAACATAACAATTTATTGAAATAATAGAAC 1 GCTTTATTAAAAATACATTTATATAATTATTCAACTAACATAACAATTTATTGAAATAATAGAAC * 12789956 TTTATTTATATTGAAGTTTAGCATACTTAACAAAATTTCAAATTATTGAACAAAATATGTCCTAA 66 TTTATTTATACTGAAGTTTAGCATACTTAACAAAATTTCAAATTATTGAACAAAATATGTCCTAA 12790021 TCA 131 TCA * * * 12790024 GCTTTATTAAAAATACATTTATATCATTGTTCAGCTAACATAACAATTTATTGAAATAATAGAAC 1 GCTTTATTAAAAATACATTTATATAATTATTCAACTAACATAACAATTTATTGAAATAATAGAAC 12790089 TTTATTTATACTGAAGTTTAGCATACTTAACAAAATTTCAAATTATTGAACAAAATATGTCCTAA 66 TTTATTTATACTGAAGTTTAGCATACTTAACAAAATTTCAAATTATTGAACAAAATATGTCCTAA 12790154 TCA 131 TCA 12790157 TAATTAAAAG Statistics Matches: 129, Mismatches: 4, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 133 129 1.00 ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38 Consensus pattern (133 bp): GCTTTATTAAAAATACATTTATATAATTATTCAACTAACATAACAATTTATTGAAATAATAGAAC TTTATTTATACTGAAGTTTAGCATACTTAACAAAATTTCAAATTATTGAACAAAATATGTCCTAA TCA Found at i:12797093 original size:20 final size:20 Alignment explanation
Indices: 12797068--12797109 Score: 84 Period size: 20 Copynumber: 2.1 Consensus size: 20 12797058 ATATTGATGA 12797068 TACTTGAGATGCGAGTGAAG 1 TACTTGAGATGCGAGTGAAG 12797088 TACTTGAGATGCGAGTGAAG 1 TACTTGAGATGCGAGTGAAG 12797108 TA 1 TA 12797110 AGAGCGTCTA Statistics Matches: 22, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 20 22 1.00 ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26 Consensus pattern (20 bp): TACTTGAGATGCGAGTGAAG Found at i:12797346 original size:17 final size:17 Alignment explanation
Indices: 12797324--12797368 Score: 72 Period size: 17 Copynumber: 2.6 Consensus size: 17 12797314 CAATGTGGGA * 12797324 TTCCGTAATGAGGGCAC 1 TTCCGTAATAAGGGCAC 12797341 TTCCGTAATAAGGGCAC 1 TTCCGTAATAAGGGCAC * 12797358 CTCCGTAATAA 1 TTCCGTAATAA 12797369 TTATTTGTAC Statistics Matches: 26, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 17 26 1.00 ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24 Consensus pattern (17 bp): TTCCGTAATAAGGGCAC Found at i:12801863 original size:26 final size:26 Alignment explanation
Indices: 12801834--12801885 Score: 95 Period size: 26 Copynumber: 2.0 Consensus size: 26 12801824 ACCATTTATG 12801834 AGTGATGGATTTTTATGATAAATTAA 1 AGTGATGGATTTTTATGATAAATTAA * 12801860 AGTGATGGATTTTTATGATGAATTAA 1 AGTGATGGATTTTTATGATAAATTAA 12801886 CATGAATTTG Statistics Matches: 25, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 26 25 1.00 ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42 Consensus pattern (26 bp): AGTGATGGATTTTTATGATAAATTAA Found at i:12802528 original size:105 final size:104 Alignment explanation
Indices: 12802347--12802609 Score: 301 Period size: 105 Copynumber: 2.6 Consensus size: 104 12802337 GAATTGAGGA * * * * 12802347 TAAGACCATGGTTGGACCATGGCAATGT-TTA-A-ATGTAAGACCATAGCTGAGCTATGGCATTT 1 TAAGACCATGGTTGGACCATGGCAATGTAATACATGTGTAAGACCATAGCTGGGCTATGGCATTC * * ** 12802409 TAATGAAAATACCATAACTGGGTTATGGCACCT-TGAACG 66 TAATGAAAAGACCATAACTAGGTTATGGCA-CTACAAACG * 12802448 TAAGATCATGGTTGGACCATGGCAATGTAGATACATGTGTAAGACCATAGCTGGGCTATGGCATT 1 TAAGACCATGGTTGGACCATGGCAATGTA-ATACATGTGTAAGACCATAGCTGGGCTATGGCATT * * * 12802513 CTGATGATAAGACCATAACTAGGTTATGGCACTACAAATG 65 CTAATGAAAAGACCATAACTAGGTTATGGCACTACAAACG * * * * 12802553 TAAGACCATGGTAGGGCCATGG--A---AATACATGTGTAAGACCATAGTTGGACTATGGCA 1 TAAGACCATGGTTGGACCATGGCAATGTAATACATGTGTAAGACCATAGCTGGGCTATGGCA 12802610 CAAAAAGAAC Statistics Matches: 140, Mismatches: 17, Indels: 12 0.83 0.10 0.07 Matches are distributed among these distances: 99 31 0.22 100 1 0.01 101 27 0.19 103 3 0.02 104 3 0.02 105 75 0.54 ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26 Consensus pattern (104 bp): TAAGACCATGGTTGGACCATGGCAATGTAATACATGTGTAAGACCATAGCTGGGCTATGGCATTC TAATGAAAAGACCATAACTAGGTTATGGCACTACAAACG Found at i:12802557 original size:33 final size:32 Alignment explanation
Indices: 12802485--12802561 Score: 82 Period size: 33 Copynumber: 2.3 Consensus size: 32 12802475 TAGATACATG * * * ** 12802485 TGTAAGACCATAGCTGGGCTATGGCATTCTGA 1 TGTAAGACCATAACTAGGCTATGGCATACAAA * 12802517 TGATAAGACCATAACTAGGTTATGGCACTACAAA 1 TG-TAAGACCATAACTAGGCTATGGCA-TACAAA 12802551 TGTAAGACCAT 1 TGTAAGACCAT 12802562 GGTAGGGCCA Statistics Matches: 37, Mismatches: 6, Indels: 3 0.80 0.13 0.07 Matches are distributed among these distances: 32 2 0.05 33 30 0.81 34 5 0.14 ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26 Consensus pattern (32 bp): TGTAAGACCATAACTAGGCTATGGCATACAAA Found at i:12804657 original size:43 final size:43 Alignment explanation
Indices: 12804593--12804677 Score: 143 Period size: 43 Copynumber: 2.0 Consensus size: 43 12804583 GACCTACGGC * * * 12804593 TAGTGTGGGTAGTGTGGAAAATGTTCCTAAGCCCAAATGTAAA 1 TAGTGTAGGTAGTGTGCAAAATGTTCCTAAGCCCAAAGGTAAA 12804636 TAGTGTAGGTAGTGTGCAAAATGTTCCTAAGCCCAAAGGTAA 1 TAGTGTAGGTAGTGTGCAAAATGTTCCTAAGCCCAAAGGTAA 12804678 GGCAGGAGCT Statistics Matches: 39, Mismatches: 3, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 43 39 1.00 ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27 Consensus pattern (43 bp): TAGTGTAGGTAGTGTGCAAAATGTTCCTAAGCCCAAAGGTAAA Found at i:12817977 original size:105 final size:100 Alignment explanation
Indices: 12817796--12818058 Score: 298 Period size: 105 Copynumber: 2.6 Consensus size: 100 12817786 AATTGATGGA * * * * 12817796 TAAGACCATGGTTGGACCATGGCAATGTTTAA-ATGTAAGACCATAGCTAGGCTATGACATTTTA 1 TAAGACCATGGTTGGACCATGGCAATG--TAATGTGTAAGACCATAGCTGGGCTATGGCATTCTA * ** 12817860 ATGAAAATACCATAACTGGGTTATGGCACCT-TGAACG 64 ATGAAAAGACCATAACTGGGTTATGGCA-CTACAAACG 12817897 TAAGACCATGGTTGGACCATGGCAGTATAGATAGATGTGTAAGACCATAGCTGGGCTATGGCATT 1 TAAGACCATGGTTGGACCATGGCA--AT-G-TA-ATGTGTAAGACCATAGCTGGGCTATGGCATT * * * 12817962 CTGATGATAAGACCATAACTGGGTTATGGCACTACAAATG 61 CTAATGAAAAGACCATAACTGGGTTATGGCACTACAAACG ** * * * 12818002 TAAGACCATGGCAGGGCCATGGCAATGT-ATGTGTAAGACCATAGTTGGACTATGGCA 1 TAAGACCATGGTTGGACCATGGCAATGTAATGTGTAAGACCATAGCTGGGCTATGGCA 12818059 CAAAAAGAAC Statistics Matches: 140, Mismatches: 16, Indels: 14 0.82 0.09 0.08 Matches are distributed among these distances: 99 27 0.19 101 25 0.18 102 1 0.01 103 6 0.04 104 4 0.03 105 77 0.55 ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26 Consensus pattern (100 bp): TAAGACCATGGTTGGACCATGGCAATGTAATGTGTAAGACCATAGCTGGGCTATGGCATTCTAAT GAAAAGACCATAACTGGGTTATGGCACTACAAACG Found at i:12817978 original size:33 final size:32 Alignment explanation
Indices: 12817934--12818058 Score: 108 Period size: 33 Copynumber: 3.8 Consensus size: 32 12817924 TAGATAGATG 12817934 TGTAAGACCATAGCTGGGCTATGGCATTCTGA 1 TGTAAGACCATAGCTGGGCTATGGCATTCTGA * * * ** 12817966 TGATAAGACCATAACTGGGTTATGGCACTACAAA 1 TG-TAAGACCATAGCTGGGCTATGGCA-TTCTGA * * * * 12818000 TGTAAGACCATGGCAGGGCCATGGCAATGTATG- 1 TGTAAGACCATAGCTGGGCTATGGC-AT-TCTGA * * 12818033 TGTAAGACCATAGTTGGACTATGGCA 1 TGTAAGACCATAGCTGGGCTATGGCA 12818059 CAAAAAGAAC Statistics Matches: 70, Mismatches: 19, Indels: 8 0.72 0.20 0.08 Matches are distributed among these distances: 32 3 0.04 33 61 0.87 34 6 0.09 ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25 Consensus pattern (32 bp): TGTAAGACCATAGCTGGGCTATGGCATTCTGA Found at i:12818056 original size:66 final size:66 Alignment explanation
Indices: 12817934--12818059 Score: 148 Period size: 66 Copynumber: 1.9 Consensus size: 66 12817924 TAGATAGATG * * * ** 12817934 TGTAAGACCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCACTACAA 1 TGTAAGACCATAGCAGGGCCATGGCATTATGATGATAAGACCATAACTGGACTATGGCACTACAA 12817999 A 66 A * ** 12818000 TGTAAGACCATGGCAGGGCCATGGCAATGTATG-TG-TAAGACCATAGTTGGACTATGGCAC 1 TGTAAGACCATAGCAGGGCCATGGC-AT-TATGATGATAAGACCATAACTGGACTATGGCAC 12818060 AAAAAGAACG Statistics Matches: 50, Mismatches: 8, Indels: 4 0.81 0.13 0.06 Matches are distributed among these distances: 66 43 0.86 67 4 0.08 68 3 0.06 ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25 Consensus pattern (66 bp): TGTAAGACCATAGCAGGGCCATGGCATTATGATGATAAGACCATAACTGGACTATGGCACTACAA A Found at i:12826919 original size:72 final size:71 Alignment explanation
Indices: 12826815--12827076 Score: 206 Period size: 72 Copynumber: 3.6 Consensus size: 71 12826805 TATTCAGCAA * * * * * * 12826815 AAAATTACGCTAGTTATGCAATAAAAACTTATGCGAACTCTACAGTAGAAAATTATGCGAGCTAT 1 AAAATTATGCTAGCTATGCAGTAAAAACTTATGCGAACTGTACAGCAGAAAATTATGTGAGCTAT 12826880 GCAACGG 66 GCAAC-G * * ** * ** * 12826887 AAAATTATGCTAGCTGTGCAGTGAAAAA-TTATGCTAGTTGTACAGCAGAAAATCATGTGAATTG 1 AAAATTATGCTAGCTATGCAGT-AAAAACTTATGCGAACTGTACAGCAGAAAATTATGTGAGCTA 12826951 TGCAACG 65 TGCAACG * * * * * * * 12826958 AAAATTTTTGCTATCTATGCAGCAAAAAGATTTATGCGAACTGTGCAGCAAAAAATTATGTTAGC 1 AAAA-TTATGCTAGCTATGCAG-TAAAA-ACTTATGCGAACTGTACAGCAGAAAATTATGTGAGC 12827023 -AGTGCAACAG 63 TA-TGCAAC-G * * * * 12827033 AAAATTATGCTAGCTGTGCCGCATAAAA-TTATGTGAACTGTACA 1 AAAATTATGCTAGCTATGCAGTA-AAAACTTATGCGAACTGTACA 12827077 ACATATATTA Statistics Matches: 147, Mismatches: 35, Indels: 16 0.74 0.18 0.08 Matches are distributed among these distances: 71 5 0.03 72 82 0.56 73 8 0.05 74 47 0.32 75 5 0.03 ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27 Consensus pattern (71 bp): AAAATTATGCTAGCTATGCAGTAAAAACTTATGCGAACTGTACAGCAGAAAATTATGTGAGCTAT GCAACG Found at i:12826921 original size:24 final size:24 Alignment explanation
Indices: 12826863--12826923 Score: 77 Period size: 24 Copynumber: 2.5 Consensus size: 24 12826853 TCTACAGTAG * * 12826863 AAAATTATGCGAGCTATGCAACGG 1 AAAATTATGCTAGCTATGCAACGA * ** 12826887 AAAATTATGCTAGCTGTGCAGTGA 1 AAAATTATGCTAGCTATGCAACGA 12826911 AAAATTATGCTAG 1 AAAATTATGCTAG 12826924 TTGTACAGCA Statistics Matches: 32, Mismatches: 5, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 24 32 1.00 ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26 Consensus pattern (24 bp): AAAATTATGCTAGCTATGCAACGA Found at i:12826938 original size:24 final size:23 Alignment explanation
Indices: 12826855--12826939 Score: 64 Period size: 24 Copynumber: 3.5 Consensus size: 23 12826845 ATGCGAACTC * * 12826855 TACAGTAGAAAATTATGCGAGCTA 1 TACAG-AGAAAATTATGCTAGCTG * 12826879 TGCA-ACGGAAAATTATGCTAGCTG 1 TACAGA--GAAAATTATGCTAGCTG * * * 12826903 TGCAGTGAAAAATTATGCTAGTTG 1 TACAGAG-AAAATTATGCTAGCTG 12826927 TACAGCAGAAAAT 1 TACAG-AGAAAAT 12826940 CATGTGAATT Statistics Matches: 49, Mismatches: 7, Indels: 10 0.74 0.11 0.15 Matches are distributed among these distances: 22 1 0.02 23 1 0.02 24 46 0.94 25 1 0.02 ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26 Consensus pattern (23 bp): TACAGAGAAAATTATGCTAGCTG Found at i:12826938 original size:48 final size:48 Alignment explanation
Indices: 12826863--12827065 Score: 133 Period size: 48 Copynumber: 4.2 Consensus size: 48 12826853 TCTACAGTAG * * * * * * * 12826863 AAAATTATGCGAGCTATGCAACGGAAAATTATGCTAGCTGTGCAGTGA 1 AAAATTATGCTAGTTGTGCAGCAGAAAATTATGCTAACTGTGCAGCGA * * * * 12826911 AAAATTATGCTAGTTGTACAGCAGAAAATCATG-TGAATTGTGCAACGA 1 AAAATTATGCTAGTTGTGCAGCAGAAAATTATGCT-AACTGTGCAGCGA * * * * * * 12826959 AAATTTTTGCTA-TCTATGCAGCAAAAAGATTTATGCGAACTGTGCAGCAA 1 AAAATTATGCTAGT-TGTGCAGCAGAAA-A-TTATGCTAACTGTGCAGCGA * ** * * * 12827009 AAAATTATGTTAGCAGTGCAACAGAAAATTATGCTAGCTGTGCCGC-A 1 AAAATTATGCTAGTTGTGCAGCAGAAAATTATGCTAACTGTGCAGCGA 12827056 TAAAATTATG 1 -AAAATTATG 12827066 TGAACTGTAC Statistics Matches: 116, Mismatches: 32, Indels: 14 0.72 0.20 0.09 Matches are distributed among these distances: 47 3 0.03 48 79 0.68 49 2 0.02 50 32 0.28 ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28 Consensus pattern (48 bp): AAAATTATGCTAGTTGTGCAGCAGAAAATTATGCTAACTGTGCAGCGA Found at i:12827073 original size:24 final size:24 Alignment explanation
Indices: 12826975--12827118 Score: 87 Period size: 24 Copynumber: 6.0 Consensus size: 24 12826965 TTGCTATCTA * 12826975 TGCAGCAAAAAGATTTATGCGAACTG 1 TGCAGCAAAAA-A-TTATGTGAACTG * * * 12827001 TGCAGCAAAAAATTATGTTAGCAG 1 TGCAGCAAAAAATTATGTGAACTG * * * 12827025 TGCAACAGAAAATTATGCT-AGCTG 1 TGCAGCAAAAAATTATG-TGAACTG * * 12827049 TGCCGCATAAAATTATGTGAACTG 1 TGCAGCAAAAAATTATGTGAACTG * * * * * 12827073 TACAAC-ATATATTATGCT-AGCTG 1 TGCAGCAAAAAATTATG-TGAACTG * * 12827096 TGCAGCAAAATATTATGCGAACT 1 TGCAGCAAAAAATTATGTGAACT 12827119 ATACAATAGA Statistics Matches: 90, Mismatches: 23, Indels: 12 0.72 0.18 0.10 Matches are distributed among these distances: 23 16 0.18 24 61 0.68 25 2 0.02 26 11 0.12 ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27 Consensus pattern (24 bp): TGCAGCAAAAAATTATGTGAACTG Found at i:12827111 original size:47 final size:47 Alignment explanation
Indices: 12826989--12827136 Score: 145 Period size: 48 Copynumber: 3.1 Consensus size: 47 12826979 GCAAAAAGAT * * * * * * 12826989 TTATGCGAACTGTGCAGCAAAAAATTATGTTAGCAGTGCAACAGAAAA 1 TTATGCTAGCTGTGCAGC-AAAAATTATGTGAACTGTACAACAGAAAA * * * 12827037 TTATGCTAGCTGTGCCGCATAAAATTATGTGAACTGTACAACA-TATA 1 TTATGCTAGCTGTGCAGCA-AAAATTATGTGAACTGTACAACAGAAAA * * * * 12827084 TTATGCTAGCTGTGCAGCAAAATATTATGCGAACTATACAATAGAAAT 1 TTATGCTAGCTGTGCAGCAAAA-ATTATGTGAACTGTACAACAGAAAA 12827132 TTATG 1 TTATG 12827137 TAAACTGGTG Statistics Matches: 81, Mismatches: 16, Indels: 6 0.79 0.16 0.06 Matches are distributed among these distances: 46 3 0.04 47 38 0.47 48 40 0.49 ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29 Consensus pattern (47 bp): TTATGCTAGCTGTGCAGCAAAAATTATGTGAACTGTACAACAGAAAA Found at i:12828522 original size:43 final size:43 Alignment explanation
Indices: 12828431--12828579 Score: 142 Period size: 43 Copynumber: 3.5 Consensus size: 43 12828421 TTACTGAGAG * 12828431 GTGATAACATGTAAGACCATGTCTAGGACATTGGCAT--TGTATT 1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATCAT-TA-T * 12828474 GTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATTAT 1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATCATTAT * ** * * * * * * 12828517 ATGATTTCGTTTAAGACCCTCTCTGGGACAGTGGTATCGA-TAT 1 GTGATAACATGTAAGACCATGTCTGGGACATTGGCATC-ATTAT * 12828560 GTGATAACATTTAAGACCAT 1 GTGATAACATGTAAGACCAT 12828580 ATCTAGGATA Statistics Matches: 88, Mismatches: 15, Indels: 6 0.81 0.14 0.06 Matches are distributed among these distances: 43 84 0.95 44 3 0.03 45 1 0.01 ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33 Consensus pattern (43 bp): GTGATAACATGTAAGACCATGTCTGGGACATTGGCATCATTAT Found at i:12829309 original size:26 final size:23 Alignment explanation
Indices: 12829223--12829314 Score: 78 Period size: 26 Copynumber: 3.7 Consensus size: 23 12829213 GTCACCACAA * 12829223 CTCGTATGAGCTTACCGATATATCAG 1 CTCG-ATGAGCTTACCG-T-TTTCAG * * 12829249 CTCTTATGAGCTTATCGTTTT-AG 1 CTC-GATGAGCTTACCGTTTTCAG 12829272 CTCGATAGAGCTTACCGTTCTTCAG 1 CTCGAT-GAGCTTACCGTT-TTCAG 12829297 CTCAGAATGAGCTTACCG 1 CTC-G-ATGAGCTTACCG 12829315 ATCATGGCTC Statistics Matches: 55, Mismatches: 5, Indels: 12 0.76 0.07 0.17 Matches are distributed among these distances: 22 2 0.04 23 16 0.29 24 4 0.07 25 6 0.11 26 25 0.45 27 2 0.04 ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34 Consensus pattern (23 bp): CTCGATGAGCTTACCGTTTTCAG Found at i:12830607 original size:59 final size:59 Alignment explanation
Indices: 12830526--12830740 Score: 270 Period size: 59 Copynumber: 3.6 Consensus size: 59 12830516 GGTCATGATT * * * * * * 12830526 GTAAATCGACAAACCATAAGATTTTGAAAATCTTATAAGTGGTGTAAATAGTTGCGATC 1 GTAAATCGACGAACCGTAAGATTTTGAAAATCTTGTAATTGGAGTAAATAGTTGCGATA ** * * * 12830585 GTAAATCGGTGAACCGTGAGATTTTGAAAATCTTGTAATTAGAGTAAATAGTTGCGATT 1 GTAAATCGACGAACCGTAAGATTTTGAAAATCTTGTAATTGGAGTAAATAGTTGCGATA * * * 12830644 GTCAATCGACGAACCGTAAGATTTTGAAAATCTTGTAATTGGAGCAAATGGTTGC-AGTA 1 GTAAATCGACGAACCGTAAGATTTTGAAAATCTTGTAATTGGAGTAAATAGTTGCGA-TA * * 12830703 GTAAATTGACAAACCGTAAGATTTTGAAAATCTTGTAA 1 GTAAATCGACGAACCGTAAGATTTTGAAAATCTTGTAA 12830741 ATGGGAGGTC Statistics Matches: 134, Mismatches: 21, Indels: 2 0.85 0.13 0.01 Matches are distributed among these distances: 58 1 0.01 59 133 0.99 ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31 Consensus pattern (59 bp): GTAAATCGACGAACCGTAAGATTTTGAAAATCTTGTAATTGGAGTAAATAGTTGCGATA Found at i:12830785 original size:54 final size:54 Alignment explanation
Indices: 12830703--12830829 Score: 157 Period size: 54 Copynumber: 2.4 Consensus size: 54 12830693 GGTTGCAGTA * ** * 12830703 GTAAATTGACAAACCGTAAGATTTTGAAAATCTTGTAAATGGGAGGTCGCGATC 1 GTAAATTGACAAACAGTAAGATTTTGAAAATCTCATAAATAGGAGGTCGCGATC * * * 12830757 GTAAATT-AGCAAACAGTGAGATTTTGAAAATCTCATAAGTAGGAGGTTGCGATC 1 GTAAATTGA-CAAACAGTAAGATTTTGAAAATCTCATAAATAGGAGGTCGCGATC * * 12830811 GTAAATCGACAAACCGTAA 1 GTAAATTGACAAACAGTAA 12830830 TATGCTTGTA Statistics Matches: 61, Mismatches: 10, Indels: 4 0.81 0.13 0.05 Matches are distributed among these distances: 53 1 0.02 54 59 0.97 55 1 0.02 ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26 Consensus pattern (54 bp): GTAAATTGACAAACAGTAAGATTTTGAAAATCTCATAAATAGGAGGTCGCGATC Found at i:12834057 original size:60 final size:60 Alignment explanation
Indices: 12833964--12834092 Score: 258 Period size: 60 Copynumber: 2.1 Consensus size: 60 12833954 TCACTCAGAG 12833964 AAGATCGAAGAAAGCACTCGAAGAACGCCATCGAAATCAACTCAGAAGAGGATCTCCCTC 1 AAGATCGAAGAAAGCACTCGAAGAACGCCATCGAAATCAACTCAGAAGAGGATCTCCCTC 12834024 AAGATCGAAGAAAGCACTCGAAGAACGCCATCGAAATCAACTCAGAAGAGGATCTCCCTC 1 AAGATCGAAGAAAGCACTCGAAGAACGCCATCGAAATCAACTCAGAAGAGGATCTCCCTC 12834084 AAGATCGAA 1 AAGATCGAA 12834093 TATCTCCATT Statistics Matches: 69, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 60 69 1.00 ACGTcount: A:0.41, C:0.26, G:0.20, T:0.13 Consensus pattern (60 bp): AAGATCGAAGAAAGCACTCGAAGAACGCCATCGAAATCAACTCAGAAGAGGATCTCCCTC Found at i:12836557 original size:30 final size:30 Alignment explanation
Indices: 12836518--12836578 Score: 79 Period size: 30 Copynumber: 2.0 Consensus size: 30 12836508 TGGCCTAAAA * 12836518 TGACACATACAACTTGG-CGACATGGCCATG 1 TGACACATACAACCTGGAC-ACATGGCCATG * * 12836548 TGACCCATACAACCTGGACACATGGGCATG 1 TGACACATACAACCTGGACACATGGCCATG 12836578 T 1 T 12836579 CTTAGGCCGT Statistics Matches: 27, Mismatches: 3, Indels: 2 0.84 0.09 0.06 Matches are distributed among these distances: 30 26 0.96 31 1 0.04 ACGTcount: A:0.30, C:0.28, G:0.23, T:0.20 Consensus pattern (30 bp): TGACACATACAACCTGGACACATGGCCATG Found at i:12836875 original size:5 final size:5 Alignment explanation
Indices: 12836865--12836914 Score: 50 Period size: 5 Copynumber: 10.0 Consensus size: 5 12836855 AAGCTACCCC * * 12836865 TTTTA TTTTA TTTTA -TTTA TTATGA TTTTA TATTA -TTTA TTTTTA TTTTA 1 TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA -TTTTA TTTTA 12836915 CTAATTTTTT Statistics Matches: 37, Mismatches: 4, Indels: 8 0.76 0.08 0.16 Matches are distributed among these distances: 4 7 0.19 5 22 0.59 6 8 0.22 ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74 Consensus pattern (5 bp): TTTTA Found at i:12836912 original size:20 final size:20 Alignment explanation
Indices: 12836865--12836940 Score: 80 Period size: 20 Copynumber: 3.6 Consensus size: 20 12836855 AAGCTACCCC * 12836865 TTTTATTTTATTTTATTTAT 1 TTTTATTTTATATTATTTAT * * 12836885 TATGATTTTATATTATTTAT 1 TTTTATTTTATATTATTTAT * 12836905 TTTTATTTTACTAATTTTTTAT 1 TTTTATTTTA-T-ATTATTTAT 12836927 TTATTATTCTTATA 1 TT-TTATT-TTATA 12836941 CATTGATTTT Statistics Matches: 46, Mismatches: 6, Indels: 6 0.79 0.10 0.10 Matches are distributed among these distances: 20 25 0.54 21 1 0.02 22 11 0.24 23 6 0.13 24 3 0.07 ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71 Consensus pattern (20 bp): TTTTATTTTATATTATTTAT Found at i:12837993 original size:13 final size:13 Alignment explanation
Indices: 12837975--12838010 Score: 54 Period size: 13 Copynumber: 2.8 Consensus size: 13 12837965 CTTATTGTTC * 12837975 AAAAAAATCTAAG 1 AAAAAAATATAAG * 12837988 AAAAAAATATAAT 1 AAAAAAATATAAG 12838001 AAAAAAATAT 1 AAAAAAATAT 12838011 TGATCATTAT Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 13 21 1.00 ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19 Consensus pattern (13 bp): AAAAAAATATAAG Found at i:12843533 original size:32 final size:33 Alignment explanation
Indices: 12843466--12843537 Score: 85 Period size: 33 Copynumber: 2.2 Consensus size: 33 12843456 TGAAAAAGTT * 12843466 AATATTTTCTGGTATTTAGATGAATTTATGTAA 1 AATATTTTCTGGTATTTAGATAAATTTATGTAA * * * 12843499 AATATTTTCTGTTATTTTG-TAAATTT-TTTAAA 1 AATATTTTCTGGTATTTAGATAAATTTATGT-AA 12843531 AATATTT 1 AATATTT 12843538 CATAAATATT Statistics Matches: 34, Mismatches: 4, Indels: 3 0.83 0.10 0.07 Matches are distributed among these distances: 31 2 0.06 32 15 0.44 33 17 0.50 ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54 Consensus pattern (33 bp): AATATTTTCTGGTATTTAGATAAATTTATGTAA Found at i:12844013 original size:26 final size:26 Alignment explanation
Indices: 12843932--12844014 Score: 66 Period size: 24 Copynumber: 3.3 Consensus size: 26 12843922 AATAAATATT * * 12843932 TATTACTTTCAATAATACGTGAATAA 1 TATTATTTTTAATAATACGTGAATAA * * ** 12843958 TATT-TATTTAA-AATA--TTAATTT 1 TATTATTTTTAATAATACGTGAATAA * 12843980 TGAATATTTTTAATAATACGTGAATAA 1 T-ATTATTTTTAATAATACGTGAATAA 12844007 TATTATTT 1 TATTATTT 12844015 AAAATTATTA Statistics Matches: 40, Mismatches: 12, Indels: 10 0.65 0.19 0.16 Matches are distributed among these distances: 22 5 0.12 23 2 0.05 24 10 0.25 25 8 0.20 26 10 0.25 27 5 0.12 ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48 Consensus pattern (26 bp): TATTATTTTTAATAATACGTGAATAA Found at i:12844038 original size:16 final size:16 Alignment explanation
Indices: 12844007--12844043 Score: 58 Period size: 16 Copynumber: 2.3 Consensus size: 16 12843997 ACGTGAATAA 12844007 TATTATTTAAAATTAT 1 TATTATTTAAAATTAT 12844023 TATT-TTTAAAATTTAT 1 TATTATTTAAAA-TTAT 12844039 TATTA 1 TATTA 12844044 AAATAAAATT Statistics Matches: 19, Mismatches: 0, Indels: 3 0.86 0.00 0.14 Matches are distributed among these distances: 15 7 0.37 16 12 0.63 ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59 Consensus pattern (16 bp): TATTATTTAAAATTAT Found at i:12844103 original size:22 final size:20 Alignment explanation
Indices: 12844051--12844111 Score: 59 Period size: 20 Copynumber: 3.0 Consensus size: 20 12844041 TTAAAATAAA * * * 12844051 ATTAAAATATTAAATAATTT 1 ATTAAAATAATAATTTATTT 12844071 ATTAAAATAATCAATTATATTT 1 ATTAAAATAAT-AATT-TATTT * * 12844093 ATTATATTAATAATTTATT 1 ATTAAAATAATAATTTATT 12844112 ATATGACTAA Statistics Matches: 34, Mismatches: 5, Indels: 4 0.79 0.12 0.09 Matches are distributed among these distances: 20 14 0.41 21 7 0.21 22 13 0.38 ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49 Consensus pattern (20 bp): ATTAAAATAATAATTTATTT Found at i:12846969 original size:18 final size:19 Alignment explanation
Indices: 12846946--12846981 Score: 56 Period size: 19 Copynumber: 1.9 Consensus size: 19 12846936 AAACTTTAGC * 12846946 TTTTTC-TTTATTTACAAG 1 TTTTTCATTAATTTACAAG 12846964 TTTTTCATTAATTTACAA 1 TTTTTCATTAATTTACAA 12846982 TGAAAAGAAA Statistics Matches: 16, Mismatches: 1, Indels: 1 0.89 0.06 0.06 Matches are distributed among these distances: 18 6 0.38 19 10 0.62 ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58 Consensus pattern (19 bp): TTTTTCATTAATTTACAAG Found at i:12848439 original size:21 final size:21 Alignment explanation
Indices: 12848384--12848439 Score: 55 Period size: 20 Copynumber: 2.8 Consensus size: 21 12848374 ATGTTGTTGC * * 12848384 TTTTTAA-ATTTTTAATTATT 1 TTTTTAACATGTTTAGTTATT 12848404 TTTTTAACATG-TTAGTTATT 1 TTTTTAACATGTTTAGTTATT * 12848424 TTTGTT-AGATGTTTAG 1 TTT-TTAACATGTTTAG 12848440 ATAATTACAG Statistics Matches: 30, Mismatches: 3, Indels: 5 0.79 0.08 0.13 Matches are distributed among these distances: 20 22 0.73 21 8 0.27 ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62 Consensus pattern (21 bp): TTTTTAACATGTTTAGTTATT Found at i:12848816 original size:142 final size:142 Alignment explanation
Indices: 12848480--12848817 Score: 370 Period size: 142 Copynumber: 2.4 Consensus size: 142 12848470 TTTCTTTTAC * * * 12848480 TATTTTTTATTTTATGTTGCTT-AAGCTTTTTTAATTTTTAATTAATTCTTTTTAACATATTAAT 1 TATTTTTTATTTTATGTTGTTTCAAGCTTTTTTTATTTTTAATTAATAC-TTTTAACATATTAAT * * * * 12848544 TACTTTGTTAGATGGTTAGATAGTTGCAATTACATCCTTAAATCTTGAGGTTGATTTCTCTTTTA 65 TACTTTGATAGATGGTTAGATAATTGCAATTACATCCTTAAATCTTGAGGTTCATTTATCTTTTA * * 12848609 CTCATATTTGTAT 130 CTAATATTTGAAT * * 12848622 TTTTTTTTATTTTATGTT-TCTTCAAGC-TTTTTTATTTTTAATTAATATTTTTAACATATT-AT 1 TATTTTTTATTTTATGTTGT-TTCAAGCTTTTTTTATTTTTAATTAATACTTTTAACATATTAAT * * * * * 12848684 CTCATTTTGATAGATTGTTAGATAATTGCGATTACATCCTTGAGT-TTGAGGCTTCA-TTAT-TT 65 -T-ACTTTGATAGATGGTTAGATAATTGCAATTACATCCTTAAATCTTGAGG-TTCATTTATCTT 12848746 TTA-TAAGTATATT-AAT 127 TTACTAA-TAT-TTGAAT * * * 12848762 GTATTTTTTATTTCATGTTGTTTCAAACTTTTTTTATTTTTAATTAATGCTTTTAA 1 -TATTTTTTATTTTATGTTGTTTCAAGCTTTTTTTATTTTTAATTAATACTTTTAA 12848818 TTAATAAATA Statistics Matches: 165, Mismatches: 21, Indels: 20 0.80 0.10 0.10 Matches are distributed among these distances: 139 2 0.01 140 12 0.07 141 46 0.28 142 101 0.61 143 4 0.02 ACGTcount: A:0.25, C:0.09, G:0.10, T:0.56 Consensus pattern (142 bp): TATTTTTTATTTTATGTTGTTTCAAGCTTTTTTTATTTTTAATTAATACTTTTAACATATTAATT ACTTTGATAGATGGTTAGATAATTGCAATTACATCCTTAAATCTTGAGGTTCATTTATCTTTTAC TAATATTTGAAT Found at i:12849270 original size:146 final size:145 Alignment explanation
Indices: 12848992--12849253 Score: 331 Period size: 146 Copynumber: 1.8 Consensus size: 145 12848982 CTCAAAGATG * * * * 12848992 TAATTACAATTATTTAACCATCTAACAAAAAGAGCTAATATGTTAAAAATATTAATTAAAAATAA 1 TAATTACAAATATCTAACCATCTAACAAAAAGAGCTAATATATTAAAAAAATTAATTAAAAATAA * * * 12849057 AAAAATAGTTGGAAGCAACATGAAATAAAAAATATATATAAATGTGAGTAGGAGAGGAATCAAAC 66 AAAAATAGTTGAAAGCAACATGAAAT-AAAAATATATACAAATATGAGTAGGAGAGGAATCAAAC 12849122 TCAGAACTGAATGATA 130 TCAGAACTGAATGATA ** * * 12849138 TAATTACAAATATCTAACCATCTAACAAAACTA-CTCATATATTAAAAAAATTAATTAAAAAT-T 1 TAATTACAAATATCTAACCATCTAACAAAAAGAGCTAATATATTAAAAAAATTAATTAAAAATAA * * * 12849201 TAAAA-AGCTT-AAAGTAACATGAAAT-AAAA-A-ATACAAATATGAGTAGGAAAGGA 66 AAAAATAG-TTGAAAGCAACATGAAATAAAAATATATACAAATATGAGTAGGAGAGGA 12849254 GTTGAACTCA Statistics Matches: 101, Mismatches: 14, Indels: 9 0.81 0.11 0.07 Matches are distributed among these distances: 139 20 0.20 140 1 0.01 141 4 0.04 143 15 0.15 144 6 0.06 145 26 0.26 146 29 0.29 ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26 Consensus pattern (145 bp): TAATTACAAATATCTAACCATCTAACAAAAAGAGCTAATATATTAAAAAAATTAATTAAAAATAA AAAAATAGTTGAAAGCAACATGAAATAAAAATATATACAAATATGAGTAGGAGAGGAATCAAACT CAGAACTGAATGATA Found at i:12851324 original size:3 final size:3 Alignment explanation
Indices: 12851316--12851361 Score: 92 Period size: 3 Copynumber: 15.3 Consensus size: 3 12851306 TCATTTAACC 12851316 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T 1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T 12851362 AAACAACAAC Statistics Matches: 43, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 43 1.00 ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67 Consensus pattern (3 bp): TTA Found at i:12852295 original size:27 final size:27 Alignment explanation
Indices: 12852245--12852296 Score: 86 Period size: 27 Copynumber: 1.9 Consensus size: 27 12852235 CTCTAACAGA * 12852245 TACATTACGGACTGTCCTGCGAACAAC 1 TACATTACGGACTGTCCCGCGAACAAC * 12852272 TACATTACGGACTGTCCCGTGAACA 1 TACATTACGGACTGTCCCGCGAACA 12852297 GATAAACTGC Statistics Matches: 23, Mismatches: 2, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 27 23 1.00 ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23 Consensus pattern (27 bp): TACATTACGGACTGTCCCGCGAACAAC Found at i:12855077 original size:3 final size:3 Alignment explanation
Indices: 12855059--12855189 Score: 69 Period size: 3 Copynumber: 44.3 Consensus size: 3 12855049 ATTTTTTAAT * * * * * 12855059 TTA TTA ATA CTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TAA GTA TTA 1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA * * * 12855107 TTA TCGTA TTA GT- TTA -TA TT- TTT TTA -CA TTA TT- TTA TT- TTA 1 TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA * * * 12855148 TTA TGTA TTG TTA TT- TTAA TTA TTT TTA TCA TTTA TTA TTA T 1 TTA T-TA TTA TTA TTA TT-A TTA TTA TTA TTA -TTA TTA TTA T 12855190 CTGATTACAT Statistics Matches: 96, Mismatches: 20, Indels: 24 0.69 0.14 0.17 Matches are distributed among these distances: 2 12 0.12 3 74 0.77 4 7 0.07 5 3 0.03 ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63 Consensus pattern (3 bp): TTA Found at i:12856048 original size:46 final size:46 Alignment explanation
Indices: 12855979--12856230 Score: 447 Period size: 46 Copynumber: 5.5 Consensus size: 46 12855969 TACGTATGAT * * 12855979 CACTTATCA-TTTGTC-CTTGATCAGATAAGTGTAGGTAAGGCTAC 1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC * 12856023 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA 1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC 12856069 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC 1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC 12856115 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC 1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC * 12856161 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA 1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC 12856207 CACTTATCACTTTGTCAC-TGATCA 1 CACTTATCACTTTGTCACTTGATCA 12856231 AAAGTACTCA Statistics Matches: 201, Mismatches: 5, Indels: 3 0.96 0.02 0.01 Matches are distributed among these distances: 44 9 0.04 45 12 0.06 46 180 0.90 ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33 Consensus pattern (46 bp): CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC Found at i:12858968 original size:10 final size:10 Alignment explanation
Indices: 12858953--12858977 Score: 50 Period size: 10 Copynumber: 2.5 Consensus size: 10 12858943 CATTAATTAC 12858953 TTTTTTTATT 1 TTTTTTTATT 12858963 TTTTTTTATT 1 TTTTTTTATT 12858973 TTTTT 1 TTTTT 12858978 AAAATGTATA Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 10 15 1.00 ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92 Consensus pattern (10 bp): TTTTTTTATT Found at i:12859642 original size:19 final size:19 Alignment explanation
Indices: 12859620--12859661 Score: 84 Period size: 19 Copynumber: 2.2 Consensus size: 19 12859610 TAAAAAGATA 12859620 AACTTAATTTCGAAGATTG 1 AACTTAATTTCGAAGATTG 12859639 AACTTAATTTCGAAGATTG 1 AACTTAATTTCGAAGATTG 12859658 AACT 1 AACT 12859662 GTTGCACCCT Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 19 23 1.00 ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36 Consensus pattern (19 bp): AACTTAATTTCGAAGATTG Found at i:12862753 original size:35 final size:35 Alignment explanation
Indices: 12862713--12862845 Score: 203 Period size: 35 Copynumber: 3.8 Consensus size: 35 12862703 TAATTCAAGA * 12862713 TGAACAAGAAAGATTCCCTGCAACAAAATAATGTG 1 TGAACAAGAAAGATTCCCTGCAACAAAATAATGCG * * 12862748 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCG 1 TGAACAAGAAAGATTCCCTGCAACAAAATAATGCG * * 12862783 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCG 1 TGAACAAGAAAGATTCCCTGCAACAAAATAATGCG * * 12862818 TGAACAAGAAATATTCCCTGCAAGAAAA 1 TGAACAAGAAAGATTCCCTGCAACAAAA 12862846 GACAAGTGAA Statistics Matches: 91, Mismatches: 7, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 35 91 1.00 ACGTcount: A:0.44, C:0.19, G:0.20, T:0.18 Consensus pattern (35 bp): TGAACAAGAAAGATTCCCTGCAACAAAATAATGCG Found at i:12863110 original size:21 final size:22 Alignment explanation
Indices: 12863086--12863142 Score: 89 Period size: 23 Copynumber: 2.6 Consensus size: 22 12863076 AAATTTAATT 12863086 TTAAGTTTCCAAA-TTTTCAAA 1 TTAAGTTTCCAAATTTTTCAAA * 12863107 TTAAGTTTTCAAATTTTTTCAAA 1 TTAAGTTTCCAAA-TTTTTCAAA 12863130 TTAAGTTTCCAAA 1 TTAAGTTTCCAAA 12863143 CTTAAGCTTT Statistics Matches: 32, Mismatches: 2, Indels: 2 0.89 0.06 0.06 Matches are distributed among these distances: 21 12 0.38 23 20 0.62 ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46 Consensus pattern (22 bp): TTAAGTTTCCAAATTTTTCAAA Found at i:12863117 original size:13 final size:13 Alignment explanation
Indices: 12863099--12863159 Score: 74 Period size: 13 Copynumber: 4.8 Consensus size: 13 12863089 AGTTTCCAAA 12863099 TTTTCAAATTAAG 1 TTTTCAAATTAAG 12863112 TTTTCAAATT--- 1 TTTTCAAATTAAG 12863122 TTTTCAAATTAAG 1 TTTTCAAATTAAG * 12863135 TTTCCAAACTTAAG 1 TTTTCAAA-TTAAG * 12863149 CTTTCAAATTA 1 TTTTCAAATTA 12863160 CAAATATATT Statistics Matches: 41, Mismatches: 3, Indels: 8 0.79 0.06 0.15 Matches are distributed among these distances: 10 10 0.24 13 20 0.49 14 11 0.27 ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46 Consensus pattern (13 bp): TTTTCAAATTAAG Found at i:12865044 original size:24 final size:26 Alignment explanation
Indices: 12865002--12865053 Score: 65 Period size: 24 Copynumber: 2.1 Consensus size: 26 12864992 TAACCTTTTA * 12865002 TACTAATATTGTAACTT-AA-TTAAT 1 TACTAATATTGTAAATTAAACTTAAT 12865026 TACTAATTATT-TAAATTAAACTTAAT 1 TACTAA-TATTGTAAATTAAACTTAAT 12865052 TA 1 TA 12865054 ACTTAACCTT Statistics Matches: 24, Mismatches: 1, Indels: 4 0.83 0.03 0.14 Matches are distributed among these distances: 24 11 0.46 25 6 0.25 26 7 0.29 ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46 Consensus pattern (26 bp): TACTAATATTGTAAATTAAACTTAAT Found at i:12878098 original size:16 final size:16 Alignment explanation
Indices: 12878077--12878111 Score: 70 Period size: 16 Copynumber: 2.2 Consensus size: 16 12878067 AATGGCGGAT 12878077 TGTTTAGTTGAAGAAA 1 TGTTTAGTTGAAGAAA 12878093 TGTTTAGTTGAAGAAA 1 TGTTTAGTTGAAGAAA 12878109 TGT 1 TGT 12878112 CATGTTGTGC Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 19 1.00 ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40 Consensus pattern (16 bp): TGTTTAGTTGAAGAAA Found at i:12880031 original size:29 final size:29 Alignment explanation
Indices: 12879980--12880306 Score: 284 Period size: 29 Copynumber: 11.2 Consensus size: 29 12879970 TATCAACGAT * * * 12879980 CATCGATCAATGAAAAGGGATAGTTTCGAC 1 CATCGAT-TATGAAAAGGGATGGTGTCGAC * * * * 12880010 TATTGATTATGAAAAGGGATAGTTTCGAC 1 CATCGATTATGAAAAGGGATGGTGTCGAC * * * * 12880039 TATCAAATATGAAAAGGGATGGTGACGAC 1 CATCGATTATGAAAAGGGATGGTGTCGAC * * * 12880068 TATCAAATATGAAAAGGGATGGTGAT-GAC 1 CATCGATTATGAAAAGGGATGGTG-TCGAC * * * 12880097 CATCG-TATATGAAAAGGGATAGTTTTGAC 1 CATCGAT-TATGAAAAGGGATGGTGTCGAC * * 12880126 TC-TCGATTATGAAAAGGGATAGTTTCGAC 1 -CATCGATTATGAAAAGGGATGGTGTCGAC * * * * * 12880155 TATTGACTATGGAAAGGGATGGTGACGAC 1 CATCGATTATGAAAAGGGATGGTGTCGAC * 12880184 CATC-ATCTATGAAAAGGGATGGTGACGAC 1 CATCGAT-TATGAAAAGGGATGGTGTCGAC * * 12880213 CATTGATTGATGAAAAGGGATGGTGACGAC 1 CATCGATT-ATGAAAAGGGATGGTGTCGAC * * 12880243 CACCGATTTATGAAAAGGGATGGTGACGAC 1 CATCGA-TTATGAAAAGGGATGGTGTCGAC * * 12880273 CATCGAATATGAAAAGGGATGGTTTCGAC 1 CATCGATTATGAAAAGGGATGGTGTCGAC 12880302 CATCG 1 CATCG 12880307 TTAGCACACT Statistics Matches: 253, Mismatches: 34, Indels: 21 0.82 0.11 0.07 Matches are distributed among these distances: 28 2 0.01 29 189 0.75 30 60 0.24 31 2 0.01 ACGTcount: A:0.35, C:0.13, G:0.28, T:0.25 Consensus pattern (29 bp): CATCGATTATGAAAAGGGATGGTGTCGAC Found at i:12880137 original size:87 final size:87 Alignment explanation
Indices: 12880017--12880301 Score: 320 Period size: 87 Copynumber: 3.3 Consensus size: 87 12880007 GACTATTGAT * * * 12880017 TATGAAAAGGGATAGTTTCGACTATCAAATATGAAAAGGGATGGTGACGACTATCAAATATGAAA 1 TATGAAAAGGGATAGTTTCGACTCTCGATTATGAAAAGGGATGGTGACGACTATCAAATATGAAA * 12880082 AGGGATGGTGATGACCATCGTA 66 AGGGATGGTGACGACCATCGTA * * ** ** * * 12880104 TATGAAAAGGGATAGTTTTGACTCTCGATTATGAAAAGGGATAGTTTCGACTATTGACTATGGAA 1 TATGAAAAGGGATAGTTTCGACTCTCGATTATGAAAAGGGATGGTGACGACTATCAAATATGAAA * * 12880169 AGGGATGGTGACGACCATCATC 66 AGGGATGGTGACGACCATCGTA * ** * * * ** 12880191 TATGAAAAGGGATGGTGACGAC-CATTGATTGATGAAAAGGGATGGTGACGACCACCGATTTATG 1 TATGAAAAGGGATAGTTTCGACTC-TCGATT-ATGAAAAGGGATGGTGACGACTATC-AAATATG * 12880255 AAAAGGGATGGTGACGACCATCGAA 63 AAAAGGGATGGTGACGACCATCGTA * 12880280 TATGAAAAGGGATGGTTTCGAC 1 TATGAAAAGGGATAGTTTCGAC 12880302 CATCGTTAGC Statistics Matches: 161, Mismatches: 34, Indels: 4 0.81 0.17 0.02 Matches are distributed among these distances: 86 1 0.01 87 96 0.60 88 19 0.12 89 45 0.28 ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25 Consensus pattern (87 bp): TATGAAAAGGGATAGTTTCGACTCTCGATTATGAAAAGGGATGGTGACGACTATCAAATATGAAA AGGGATGGTGACGACCATCGTA Found at i:12883701 original size:21 final size:21 Alignment explanation
Indices: 12883650--12883693 Score: 88 Period size: 21 Copynumber: 2.1 Consensus size: 21 12883640 ATTTTGTCAA 12883650 ATACATCAAATATTCAGCCAC 1 ATACATCAAATATTCAGCCAC 12883671 ATACATCAAATATTCAGCCAC 1 ATACATCAAATATTCAGCCAC 12883692 AT 1 AT 12883694 TTCACAAAAT Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 21 23 1.00 ACGTcount: A:0.43, C:0.27, G:0.05, T:0.25 Consensus pattern (21 bp): ATACATCAAATATTCAGCCAC Found at i:12886876 original size:32 final size:32 Alignment explanation
Indices: 12886835--12886899 Score: 130 Period size: 32 Copynumber: 2.0 Consensus size: 32 12886825 AAAGCTAAAG 12886835 ATGACTTAAGAGGAGGTGAAATATGGATCCTT 1 ATGACTTAAGAGGAGGTGAAATATGGATCCTT 12886867 ATGACTTAAGAGGAGGTGAAATATGGATCCTT 1 ATGACTTAAGAGGAGGTGAAATATGGATCCTT 12886899 A 1 A 12886900 CCCACTAGAA Statistics Matches: 33, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 32 33 1.00 ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28 Consensus pattern (32 bp): ATGACTTAAGAGGAGGTGAAATATGGATCCTT Found at i:12893893 original size:45 final size:45 Alignment explanation
Indices: 12893793--12893921 Score: 152 Period size: 45 Copynumber: 2.9 Consensus size: 45 12893783 TCCAACAGTT ** * 12893793 TGCATGTATGAGTTTGTCATATCTATGAATCTTATTCTATGAATC 1 TGCATGTATGAGTACGTCATATCTATGAATCTTCTTCTATGAATC ** * * * * 12893838 CACATATATGAGTCCGCCATATCTATAAATCTTCTTCTATGAATC 1 TGCATGTATGAGTACGTCATATCTATGAATCTTCTTCTATGAATC * 12893883 TGCATGTATGATTTAC-TCATATCTATGAATCTTCTTCTA 1 TGCATGTATGA-GTACGTCATATCTATGAATCTTCTTCTA 12893922 CAAGTTTGCC Statistics Matches: 68, Mismatches: 15, Indels: 2 0.80 0.18 0.02 Matches are distributed among these distances: 45 66 0.97 46 2 0.03 ACGTcount: A:0.28, C:0.19, G:0.12, T:0.42 Consensus pattern (45 bp): TGCATGTATGAGTACGTCATATCTATGAATCTTCTTCTATGAATC Found at i:12896187 original size:17 final size:17 Alignment explanation
Indices: 12896151--12896198 Score: 53 Period size: 17 Copynumber: 2.9 Consensus size: 17 12896141 CATTTTCCCC * * 12896151 AATGCACTAA-AATGAA 1 AATGCAATAACAATAAA * 12896167 AATGTAATAACAATAAA 1 AATGCAATAACAATAAA * 12896184 AATGCAATGACAATA 1 AATGCAATAACAATA 12896199 TGTACTTATC Statistics Matches: 26, Mismatches: 5, Indels: 1 0.81 0.16 0.03 Matches are distributed among these distances: 16 8 0.31 17 18 0.69 ACGTcount: A:0.58, C:0.10, G:0.10, T:0.21 Consensus pattern (17 bp): AATGCAATAACAATAAA Found at i:12896329 original size:15 final size:15 Alignment explanation
Indices: 12896309--12896338 Score: 51 Period size: 15 Copynumber: 2.0 Consensus size: 15 12896299 CTGCACGATG * 12896309 TTTCTTCCTCCTCCT 1 TTTCTTCCTCATCCT 12896324 TTTCTTCCTCATCCT 1 TTTCTTCCTCATCCT 12896339 CTTATTGTTA Statistics Matches: 14, Mismatches: 1, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 15 14 1.00 ACGTcount: A:0.03, C:0.43, G:0.00, T:0.53 Consensus pattern (15 bp): TTTCTTCCTCATCCT Found at i:12896655 original size:21 final size:21 Alignment explanation
Indices: 12896630--12896673 Score: 52 Period size: 21 Copynumber: 2.1 Consensus size: 21 12896620 TCTCTTCTTT * ** 12896630 TTCTTTTTCATCTTCAACAAC 1 TTCTTCTTCATCAACAACAAC * 12896651 TTCTTCTTCTTCAACAACAAC 1 TTCTTCTTCATCAACAACAAC 12896672 TT 1 TT 12896674 TCTCTTCTAC Statistics Matches: 19, Mismatches: 4, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 21 19 1.00 ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45 Consensus pattern (21 bp): TTCTTCTTCATCAACAACAAC Found at i:12896679 original size:18 final size:19 Alignment explanation
Indices: 12896635--12896680 Score: 51 Period size: 18 Copynumber: 2.5 Consensus size: 19 12896625 TCTTTTTCTT ** 12896635 TTTCATCTTCAACAACTTC 1 TTTCATCTTCAACAACAAC * 12896654 -TTCTTCTTCAACAACAAC 1 TTTCATCTTCAACAACAAC 12896672 TTTC-TCTTC 1 TTTCATCTTC 12896681 TACAGCAGCA Statistics Matches: 23, Mismatches: 3, Indels: 3 0.79 0.10 0.10 Matches are distributed among these distances: 18 20 0.87 19 3 0.13 ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43 Consensus pattern (19 bp): TTTCATCTTCAACAACAAC Found at i:12896679 original size:21 final size:20 Alignment explanation
Indices: 12896644--12896706 Score: 67 Period size: 21 Copynumber: 3.1 Consensus size: 20 12896634 TTTTCATCTT 12896644 CAACAACTTCTTCTTCTTCAA 1 CAACAACTTC-TCTTCTTCAA * * 12896665 CAACAACTTTCTCTTCTACAG 1 CAACAAC-TTCTCTTCTTCAA * 12896686 CAGCAACTTC-CTTC-TCAA 1 CAACAACTTCTCTTCTTCAA 12896704 CAA 1 CAA 12896707 AAGTGTCCTC Statistics Matches: 35, Mismatches: 6, Indels: 5 0.76 0.13 0.11 Matches are distributed among these distances: 18 4 0.11 19 4 0.11 20 3 0.09 21 21 0.60 22 3 0.09 ACGTcount: A:0.30, C:0.35, G:0.03, T:0.32 Consensus pattern (20 bp): CAACAACTTCTCTTCTTCAA Found at i:12906903 original size:23 final size:23 Alignment explanation
Indices: 12906877--12906925 Score: 89 Period size: 23 Copynumber: 2.1 Consensus size: 23 12906867 GTTAAATTAA * 12906877 AAGCTTGGATCAAAATCAAATCC 1 AAGCTTAGATCAAAATCAAATCC 12906900 AAGCTTAGATCAAAATCAAATCC 1 AAGCTTAGATCAAAATCAAATCC 12906923 AAG 1 AAG 12906926 TTAAACAAGA Statistics Matches: 25, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 23 25 1.00 ACGTcount: A:0.47, C:0.20, G:0.12, T:0.20 Consensus pattern (23 bp): AAGCTTAGATCAAAATCAAATCC Found at i:12913651 original size:43 final size:43 Alignment explanation
Indices: 12913603--12913719 Score: 225 Period size: 43 Copynumber: 2.7 Consensus size: 43 12913593 GATGTAATTT 12913603 CGTGTAAGACCATGCCTGGGACATTGGCATCGAAGTGAGAGAA 1 CGTGTAAGACCATGCCTGGGACATTGGCATCGAAGTGAGAGAA 12913646 CGTGTAAGACCATGCCTGGGACATTGGCATCGAAGTGAGAGAA 1 CGTGTAAGACCATGCCTGGGACATTGGCATCGAAGTGAGAGAA * 12913689 CGTGTAAGACCATGTCTGGGACATTGGCATC 1 CGTGTAAGACCATGCCTGGGACATTGGCATC 12913720 ATATATGAGT Statistics Matches: 73, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 43 73 1.00 ACGTcount: A:0.28, C:0.20, G:0.32, T:0.21 Consensus pattern (43 bp): CGTGTAAGACCATGCCTGGGACATTGGCATCGAAGTGAGAGAA Found at i:12919969 original size:25 final size:25 Alignment explanation
Indices: 12919939--12920047 Score: 137 Period size: 25 Copynumber: 4.4 Consensus size: 25 12919929 GCTCGAAATA ** * 12919939 GAGCTTACTAATATTCAGCTTATAT 1 GAGCTTACCGATATTCAGCTCATAT * 12919964 GAGCTTACCGATATTTAGCTCATAT 1 GAGCTTACCGATATTCAGCTCATAT ** 12919989 GAGCTTACCGATATTCAGCTCGCAT 1 GAGCTTACCGATATTCAGCTCATAT * * 12920014 GAGCTTACCGTTACTCAGCTCATAT 1 GAGCTTACCGATATTCAGCTCATAT * 12920039 TAGCTTACC 1 GAGCTTACC 12920048 AATTATAGCT Statistics Matches: 72, Mismatches: 12, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 25 72 1.00 ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34 Consensus pattern (25 bp): GAGCTTACCGATATTCAGCTCATAT Found at i:12920005 original size:50 final size:50 Alignment explanation
Indices: 12919920--12920050 Score: 145 Period size: 50 Copynumber: 2.6 Consensus size: 50 12919910 TTAAGGTTAT * * * * * 12919920 CGATTCTCAGCTCGAAATAGAGCTTACTAATATTCAGCTTATATGAGCTTAC 1 CGATACTCAGCTC-ATAT-GAGCTTACCAATATTCAGCTCACATGAGCTTAC * * * * 12919972 CGATATTTAGCTCATATGAGCTTACCGATATTCAGCTCGCATGAGCTTAC 1 CGATACTCAGCTCATATGAGCTTACCAATATTCAGCTCACATGAGCTTAC * * 12920022 CGTTACTCAGCTCATATTAGCTTACCAAT 1 CGATACTCAGCTCATATGAGCTTACCAAT 12920051 TATAGCTCGT Statistics Matches: 65, Mismatches: 14, Indels: 2 0.80 0.17 0.02 Matches are distributed among these distances: 50 52 0.80 51 3 0.05 52 10 0.15 ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33 Consensus pattern (50 bp): CGATACTCAGCTCATATGAGCTTACCAATATTCAGCTCACATGAGCTTAC Found at i:12922626 original size:28 final size:28 Alignment explanation
Indices: 12922602--12922783 Score: 100 Period size: 28 Copynumber: 6.6 Consensus size: 28 12922592 CAGAGATAGG * 12922602 CATAAATGCTTCCTTTTACAGAGATCAC 1 CATAAAGGCTTCCTTTTACAGAGATCAC * * * 12922630 CATGAAGGCTTCCTTTAACAGAGATCAT 1 CATAAAGGCTTCCTTTTACAGAGATCAC * ** 12922658 CACAAAGGCTTCCTTTATA-A-AGATTGC 1 CATAAAGGCTTCCTTT-TACAGAGATCAC * * * * ** 12922685 CACAAAGGCTTCATTTAACAAAGATCGT 1 CATAAAGGCTTCCTTTTACAGAGATCAC *** * * * * 12922713 TGCAAAGGTTTTCTTTAACAGAGATTAC 1 CATAAAGGCTTCCTTTTACAGAGATCAC * * * ** 12922741 CACAAAGGCTTCC-CTTATAGAGATTTC 1 CATAAAGGCTTCCTTTTACAGAGATCAC * 12922768 CATAAAGGGTTCCTTT 1 CATAAAGGCTTCCTTT 12922784 ACAAATATTT Statistics Matches: 116, Mismatches: 34, Indels: 8 0.73 0.22 0.05 Matches are distributed among these distances: 26 1 0.01 27 41 0.35 28 73 0.63 29 1 0.01 ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31 Consensus pattern (28 bp): CATAAAGGCTTCCTTTTACAGAGATCAC Found at i:12922689 original size:27 final size:27 Alignment explanation
Indices: 12922658--12922832 Score: 109 Period size: 27 Copynumber: 6.3 Consensus size: 27 12922648 CAGAGATCAT 12922658 CACAAAGGCTTCCTTTATAAAGATTGC 1 CACAAAGGCTTCCTTTATAAAGATTGC * * * * 12922685 CACAAAGGCTTCATTTAACAAAGATCGT 1 CACAAAGGCTTCCTTT-ATAAAGATTGC ** * * * 12922713 TGCAAAGGTTTTCTTTA-ACAGAGATTAC 1 CACAAAGGCTTCCTTTATA-A-AGATTGC * * * 12922741 CACAAAGGCTTCCCTTATAGAGATTTC 1 CACAAAGGCTTCCTTTATAAAGATTGC * * * * * 12922768 CATAAAGGGTTCCTTTACAAATATTTC 1 CACAAAGGCTTCCTTTATAAAGATTGC * * * 12922795 CACAAAGGAATTTCTTTCTATAAGATTGC 1 CACAAAGG-CTTCCTTTATA-AAGATTGC * 12922824 CACGAAGGC 1 CACAAAGGC 12922833 ATCCATTTTC Statistics Matches: 108, Mismatches: 34, Indels: 11 0.71 0.22 0.07 Matches are distributed among these distances: 26 1 0.01 27 51 0.47 28 42 0.39 29 14 0.13 ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30 Consensus pattern (27 bp): CACAAAGGCTTCCTTTATAAAGATTGC Found at i:12922710 original size:55 final size:56 Alignment explanation
Indices: 12922609--12922752 Score: 157 Period size: 55 Copynumber: 2.6 Consensus size: 56 12922599 AGGCATAAAT * * ** * * 12922609 GCTTCCTTTTACAGAGATCACCATGAAGGCTTCCTTTAACAGAGATCATCACAAAG 1 GCTTCCTTTAACAGAGATTACCACAAAGGCTTCATTTAACAAAGATCATCACAAAG * * ** 12922665 GCTTCCTTTATA-A-AGATTGCCACAAAGGCTTCATTTAACAAAGATCGTTGCAAAG 1 GCTTCCTTTA-ACAGAGATTACCACAAAGGCTTCATTTAACAAAGATCATCACAAAG * * 12922720 GTTTTCTTTAACAGAGATTACCACAAAGGCTTC 1 GCTTCCTTTAACAGAGATTACCACAAAGGCTTC 12922753 CCTTATAGAG Statistics Matches: 72, Mismatches: 13, Indels: 6 0.79 0.14 0.07 Matches are distributed among these distances: 54 1 0.01 55 42 0.58 56 28 0.39 57 1 0.01 ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29 Consensus pattern (56 bp): GCTTCCTTTAACAGAGATTACCACAAAGGCTTCATTTAACAAAGATCATCACAAAG Found at i:12922809 original size:83 final size:82 Alignment explanation
Indices: 12922642--12922811 Score: 191 Period size: 83 Copynumber: 2.0 Consensus size: 82 12922632 TGAAGGCTTC * * 12922642 CTTTAACAGAGATCATCACAAAGGCTTCCTTTATAAAGATTGCCACAAAGGCTTCATTTAACAAA 1 CTTTAACAGAGATCACCACAAAGGCTTCCCTTATAAAGATTGCCACAAAGGCTTCATTTAACAAA * * 12922707 GATCGTTGCAAAGGTTTT 66 GATC-TTACAAAGGATTT * * * * * * 12922725 CTTTAACAGAGATTACCACAAAGGCTTCCCTTATAGAGATTTCCATAAAGGGTTCCTTT-ACAAA 1 CTTTAACAGAGATCACCACAAAGGCTTCCCTTATAAAGATTGCCACAAAGGCTTCATTTAACAAA * 12922789 TAT-TTCCACAAAGGAATTT 66 GATCTT--ACAAAGG-ATTT 12922808 CTTT 1 CTTT 12922812 CTATAAGATT Statistics Matches: 73, Mismatches: 11, Indels: 6 0.81 0.12 0.07 Matches are distributed among these distances: 80 2 0.03 82 13 0.18 83 58 0.79 ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32 Consensus pattern (82 bp): CTTTAACAGAGATCACCACAAAGGCTTCCCTTATAAAGATTGCCACAAAGGCTTCATTTAACAAA GATCTTACAAAGGATTT Found at i:12923133 original size:52 final size:53 Alignment explanation
Indices: 12923070--12923215 Score: 186 Period size: 53 Copynumber: 2.8 Consensus size: 53 12923060 TTCCTTAAAT * * 12923070 TTTCTCATATGATGCCATAACCCACCAATTATGATCTTACA-AATATGGTTTTC 1 TTTCT-ATATGATGCCATAACCCACCAATTATGGTCTTACACAATATGGTCTTC * * * * 12923123 TTTCTATATGATGTCATAACCCACCAGTTACGGTCTTACACAGTATGGTCTTC 1 TTTCTATATGATGCCATAACCCACCAATTATGGTCTTACACAATATGGTCTTC * ** * 12923176 TTTCCATAAAATCCCATAACCCACCAATTATGGTCTTACA 1 TTTCTATATGATGCCATAACCCACCAATTATGGTCTTACA 12923216 TGATATAGTC Statistics Matches: 79, Mismatches: 13, Indels: 2 0.84 0.14 0.02 Matches are distributed among these distances: 52 31 0.39 53 48 0.61 ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35 Consensus pattern (53 bp): TTTCTATATGATGCCATAACCCACCAATTATGGTCTTACACAATATGGTCTTC Found at i:12927313 original size:28 final size:28 Alignment explanation
Indices: 12927252--12927313 Score: 81 Period size: 28 Copynumber: 2.2 Consensus size: 28 12927242 CCTATTTAGT * 12927252 AACAGT-ACAGTGTGGGCCTTAGCCCAA 1 AACAGTAACAATGTGGGCCTTAGCCCAA * * 12927279 AATAGTAACAATGTGGGCCTTATCCCAA 1 AACAGTAACAATGTGGGCCTTAGCCCAA * 12927307 TACAGTA 1 AACAGTA 12927314 TTTGTACAGT Statistics Matches: 29, Mismatches: 5, Indels: 1 0.83 0.14 0.03 Matches are distributed among these distances: 27 5 0.17 28 24 0.83 ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23 Consensus pattern (28 bp): AACAGTAACAATGTGGGCCTTAGCCCAA Found at i:12927697 original size:27 final size:26 Alignment explanation
Indices: 12927666--12927817 Score: 99 Period size: 27 Copynumber: 5.6 Consensus size: 26 12927656 CATCTCCTAG 12927666 GGGTATTATAGTCATTTTACCCTATTGA 1 GGGTATT-TAGTCATTTTACCCTA-TGA * * 12927694 -GGTATTTCGATCATTTTATCCTATGA 1 GGGTATTTAG-TCATTTTACCCTATGA * * * 12927720 GGGTAATTCAGTCATTTTACCCTGTGG 1 GGGT-ATTTAGTCATTTTACCCTATGA ** * * * 12927747 GGGTAATTCGGTCATTTTATCCTGTGG 1 GGGT-ATTTAGTCATTTTACCCTATGA ** * * 12927774 GGGTAATTCGGTTATTTTACCCTATGG 1 GGGT-ATTTAGTCATTTTACCCTATGA * 12927801 GGGTAATTCAGTCATTT 1 GGGT-ATTTAGTCATTT 12927818 ATTGACCTCT Statistics Matches: 107, Mismatches: 14, Indels: 7 0.84 0.11 0.05 Matches are distributed among these distances: 26 5 0.05 27 98 0.92 28 4 0.04 ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41 Consensus pattern (26 bp): GGGTATTTAGTCATTTTACCCTATGA Found at i:12927724 original size:54 final size:53 Alignment explanation
Indices: 12927666--12927817 Score: 162 Period size: 54 Copynumber: 2.8 Consensus size: 53 12927656 CATCTCCTAG * * * 12927666 GGGTATTATAGTCATTTTACCCTATTGAGGTATTTCGATCATTTTATCCTATGA 1 GGGTATT-CAGTCATTTTACCCTATGGAGGTAATTCGATCATTTTATCCTATGA * * * * * 12927720 GGGTAATTCAGTCATTTTACCCTGTGGGGGTAATTCGGTCATTTTATCCTGTGG 1 GGGT-ATTCAGTCATTTTACCCTATGGAGGTAATTCGATCATTTTATCCTATGA * * * 12927774 GGGTAATTCGGTTATTTTACCCTATGGGGGTAATTC-AGTCATTT 1 GGGT-ATTCAGTCATTTTACCCTATGGAGGTAATTCGA-TCATTT 12927818 ATTGACCTCT Statistics Matches: 84, Mismatches: 12, Indels: 4 0.84 0.12 0.04 Matches are distributed among these distances: 54 81 0.96 55 3 0.04 ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41 Consensus pattern (53 bp): GGGTATTCAGTCATTTTACCCTATGGAGGTAATTCGATCATTTTATCCTATGA Found at i:12928087 original size:20 final size:20 Alignment explanation
Indices: 12928062--12928104 Score: 77 Period size: 20 Copynumber: 2.1 Consensus size: 20 12928052 GCGTATTTCA 12928062 GCCCAACGTGGCCCATTACG 1 GCCCAACGTGGCCCATTACG * 12928082 GCCCAACGTGGCCTATTACG 1 GCCCAACGTGGCCCATTACG 12928102 GCC 1 GCC 12928105 TAAGCCCATA Statistics Matches: 22, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 20 22 1.00 ACGTcount: A:0.19, C:0.40, G:0.26, T:0.16 Consensus pattern (20 bp): GCCCAACGTGGCCCATTACG Found at i:12930415 original size:11 final size:11 Alignment explanation
Indices: 12930399--12930424 Score: 52 Period size: 11 Copynumber: 2.4 Consensus size: 11 12930389 CGTTCTAAAG 12930399 CAACTTCACAT 1 CAACTTCACAT 12930410 CAACTTCACAT 1 CAACTTCACAT 12930421 CAAC 1 CAAC 12930425 ATCCCGTTGG Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 11 15 1.00 ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23 Consensus pattern (11 bp): CAACTTCACAT Found at i:12930927 original size:39 final size:40 Alignment explanation
Indices: 12930812--12930941 Score: 136 Period size: 40 Copynumber: 3.2 Consensus size: 40 12930802 CGCTTGGACA * * * 12930812 AAAAACGCAGGTAAAAATCGAGCATTAGCGGCGCTTTATG 1 AAAAACGCCGGTAAAAATCGAGCATTAGCGGCGTTTTTTG * ** ** * * 12930852 GAAATTGCCACTAAAGATCGAGCATTAGTGGCGTTTTTTG 1 AAAAACGCCGGTAAAAATCGAGCATTAGCGGCGTTTTTTG * * 12930892 AAAAACGCCGGTAAAAAT-GGGCATTAGCGGCGTTTTTAG 1 AAAAACGCCGGTAAAAATCGAGCATTAGCGGCGTTTTTTG 12930931 AAAAAACGCCG 1 -AAAAACGCCG 12930942 CAAAAAACCA Statistics Matches: 70, Mismatches: 19, Indels: 2 0.77 0.21 0.02 Matches are distributed among these distances: 39 18 0.26 40 52 0.74 ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23 Consensus pattern (40 bp): AAAAACGCCGGTAAAAATCGAGCATTAGCGGCGTTTTTTG Found at i:12930948 original size:40 final size:39 Alignment explanation
Indices: 12930873--12930948 Score: 107 Period size: 39 Copynumber: 1.9 Consensus size: 39 12930863 TAAAGATCGA * * ** 12930873 GCATTAGTGGCGTTTTTTGAAAAACGCCGGTAAAAATGG 1 GCATTAGCGGCGTTTTTAGAAAAACGCCGCAAAAAATGG 12930912 GCATTAGCGGCGTTTTTAGAAAAAACGCCGCAAAAAA 1 GCATTAGCGGCGTTTTTAG-AAAAACGCCGCAAAAAA 12930949 CCAAAGCCCA Statistics Matches: 32, Mismatches: 4, Indels: 1 0.86 0.11 0.03 Matches are distributed among these distances: 39 17 0.53 40 15 0.47 ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24 Consensus pattern (39 bp): GCATTAGCGGCGTTTTTAGAAAAACGCCGCAAAAAATGG Found at i:12931071 original size:42 final size:40 Alignment explanation
Indices: 12930982--12931100 Score: 175 Period size: 40 Copynumber: 2.9 Consensus size: 40 12930972 GTTACCTTTC * * * * 12930982 GGGGCTTTAGCGGCGTTTTTGAAAAAACGCTGCTAATGTT 1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCT 12931022 GAGGGCTTTAGCGGCGTTTTTTTGGAAAAGCGCCGCTAATGCT 1 G-GGGCTTTAGCGGCG--TTTTTGGAAAAGCGCCGCTAATGCT 12931065 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA 1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA 12931101 AAATATTTTA Statistics Matches: 72, Mismatches: 4, Indels: 6 0.88 0.05 0.07 Matches are distributed among these distances: 40 22 0.31 41 14 0.19 42 14 0.19 43 22 0.31 ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29 Consensus pattern (40 bp): GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCT Found at i:12931439 original size:15 final size:15 Alignment explanation
Indices: 12931419--12931449 Score: 53 Period size: 15 Copynumber: 2.1 Consensus size: 15 12931409 ACTATTTTAA 12931419 GGTTTAGGGAGTATG 1 GGTTTAGGGAGTATG * 12931434 GGTTTAGGGGGTATG 1 GGTTTAGGGAGTATG 12931449 G 1 G 12931450 ATTAGGGTTT Statistics Matches: 15, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 15 15 1.00 ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32 Consensus pattern (15 bp): GGTTTAGGGAGTATG Found at i:12931521 original size:37 final size:36 Alignment explanation
Indices: 12931461--12931549 Score: 92 Period size: 37 Copynumber: 2.4 Consensus size: 36 12931451 TTAGGGTTTT * * * 12931461 AGGGTTTAAGGGTTGAGATTTAAGGTTTAA-AGGTTAG 1 AGGGTTTAGGGGTT-AGAATTAAGGGTTAATA-GTTAG 12931498 AGGGTTTAGGGGTTAGACATTAAGGGTTAATAGTTAG 1 AGGGTTTAGGGGTTAGA-ATTAAGGGTTAATAGTTAG * * 12931535 -GGATTTAGGGTTTAG 1 AGGGTTTAGGGGTTAG 12931550 GGATTCAGGG Statistics Matches: 45, Mismatches: 5, Indels: 5 0.82 0.09 0.09 Matches are distributed among these distances: 36 16 0.36 37 28 0.62 38 1 0.02 ACGTcount: A:0.28, C:0.01, G:0.36, T:0.35 Consensus pattern (36 bp): AGGGTTTAGGGGTTAGAATTAAGGGTTAATAGTTAG Found at i:12931742 original size:15 final size:15 Alignment explanation
Indices: 12931722--12931752 Score: 53 Period size: 15 Copynumber: 2.1 Consensus size: 15 12931712 CATATTTTAA 12931722 GGTTTAGGGAGTATG 1 GGTTTAGGGAGTATG * 12931737 GGTTTAGGGATTATG 1 GGTTTAGGGAGTATG 12931752 G 1 G 12931753 ATTAGGGATT Statistics Matches: 15, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 15 15 1.00 ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35 Consensus pattern (15 bp): GGTTTAGGGAGTATG Found at i:12931759 original size:14 final size:15 Alignment explanation
Indices: 12931725--12931764 Score: 55 Period size: 14 Copynumber: 2.7 Consensus size: 15 12931715 ATTTTAAGGT * * 12931725 TTAGGGAGTATGGGT 1 TTAGGGATTATGGGA 12931740 TTAGGGATTAT-GGA 1 TTAGGGATTATGGGA 12931754 TTAGGGATTAT 1 TTAGGGATTAT 12931765 TGTTTAAGGG Statistics Matches: 23, Mismatches: 2, Indels: 1 0.88 0.08 0.04 Matches are distributed among these distances: 14 13 0.57 15 10 0.43 ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38 Consensus pattern (15 bp): TTAGGGATTATGGGA Found at i:12932006 original size:276 final size:273 Alignment explanation
Indices: 12931546--12932075 Score: 812 Period size: 276 Copynumber: 1.9 Consensus size: 273 12931536 GATTTAGGGT * 12931546 TTAGGGATTCAGGGGTCGAGTTAGGATTTTGGGCGTTTAGATTAATTTTTTTAATTTATATTTTA 1 TTAGGGATTCAGGGGTCGAGTTAGGATTTTGAGCGTTTAGATTAATTTTTTTAATTTATATTTTA * * * 12931611 AATATGTTCTTATATAATTGAAAAGAGATGATAATAAATTTATTTAGGGTTTTAGTTTAGGGTAT 66 AATATGTTCTTATATAATTGAAAAGAGATAATAATAAATTCATTTAGGGTTTTAATTTAGGGTAT * * * * 12931676 ATGATTTATTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGGTT 131 ATAATTAATTTAAGATTTAAGGCCGATTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATT * * * * 12931741 TAGGGATTATGGATTAGGGATTATTGTTTAAGGGTTGGGATTTAAGGTTTAAGGGTTAGACGTAT 196 TAGGAATTATGGATTAGGGATTATGGATTAAGGGTTGAGATTTAAGGTTTAAGGGTTAGACGTAT 12931806 TAGGGATTAAAAG 261 TAGGGATTAAAAG * * * 12931819 TTAGGGATTTAGGGGTCGGGTTAGGGTTTT-AG-GTTTAGATTAATTATTTTTTTAATTTATATT 1 TTAGGGATTCAGGGGTCGAGTTAGGATTTTGAGCGTTTAGATT-A--ATTTTTTTAATTTATATT * * 12931882 TTAAATATGTTCTTATATAATTGTAAAAGAGATAATAGTAAATTCGTTTAGGGTTTTTAATTTAG 63 TTAAATATGTTCTTATATAATTG-AAAAGAGATAATAATAAATTCATTTAGGG-TTTTAATTTAG * 12931947 GGTATATAATTAATTTAAGATTTAAGGCTGATTTAGGAGTTCATATTTTAAGGTTTAGGGAGTAT 126 GGTATATAATTAATTTAAGATTTAAGGCCGATTTAGGAGTTCATATTTTAAGGTTTAGGGAGTAT * * * 12932012 GGATTTATGAATTATGGATTAGGGATTATGGATTAAGGGTTTAGATTTAAGGTTTAGGGGTTAG 191 GGATTTAGGAATTATGGATTAGGGATTATGGATTAAGGGTTGAGATTTAAGGTTTAAGGGTTAG 12932076 GGGTTTAGGG Statistics Matches: 231, Mismatches: 21, Indels: 7 0.89 0.08 0.03 Matches are distributed among these distances: 271 9 0.04 272 2 0.01 273 27 0.12 274 41 0.18 275 25 0.11 276 127 0.55 ACGTcount: A:0.29, C:0.02, G:0.25, T:0.43 Consensus pattern (273 bp): TTAGGGATTCAGGGGTCGAGTTAGGATTTTGAGCGTTTAGATTAATTTTTTTAATTTATATTTTA AATATGTTCTTATATAATTGAAAAGAGATAATAATAAATTCATTTAGGGTTTTAATTTAGGGTAT ATAATTAATTTAAGATTTAAGGCCGATTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATGGATT TAGGAATTATGGATTAGGGATTATGGATTAAGGGTTGAGATTTAAGGTTTAAGGGTTAGACGTAT TAGGGATTAAAAG Found at i:12932041 original size:14 final size:14 Alignment explanation
Indices: 12932001--12932046 Score: 56 Period size: 14 Copynumber: 3.2 Consensus size: 14 12931991 ATTTTAAGGT * 12932001 TTAGGGAGTATGGA 1 TTAGGGATTATGGA * * 12932015 TTTATGAATTATGGA 1 -TTAGGGATTATGGA 12932030 TTAGGGATTATGGA 1 TTAGGGATTATGGA 12932044 TTA 1 TTA 12932047 AGGGTTTAGA Statistics Matches: 26, Mismatches: 5, Indels: 1 0.81 0.16 0.03 Matches are distributed among these distances: 14 15 0.58 15 11 0.42 ACGTcount: A:0.30, C:0.00, G:0.30, T:0.39 Consensus pattern (14 bp): TTAGGGATTATGGA Found at i:12932082 original size:15 final size:15 Alignment explanation
Indices: 12932062--12932090 Score: 58 Period size: 15 Copynumber: 1.9 Consensus size: 15 12932052 TTAGATTTAA 12932062 GGTTTAGGGGTTAGG 1 GGTTTAGGGGTTAGG 12932077 GGTTTAGGGGTTAG 1 GGTTTAGGGGTTAG 12932091 ACATTAAGGG Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 14 1.00 ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34 Consensus pattern (15 bp): GGTTTAGGGGTTAGG Found at i:12932772 original size:104 final size:103 Alignment explanation
Indices: 12932664--12932871 Score: 294 Period size: 103 Copynumber: 2.0 Consensus size: 103 12932654 AAATCAATTT * * 12932664 ATAAA-AAACAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATA 1 ATAAATAAACAAAATAAAAAA-ATTT-GCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA * 12932728 ATTTTTTGTGGCG-TTTTTATGAAAAACGCCGCAAAAGATA 64 ATTTTTTGCGGCGATTTTTAT-AAAAACGCCGCAAAAGATA * * * * 12932768 ATAAATCAATATATTAAAAAAATTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAAT 1 ATAAATAAACAAAATAAAAAAATTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAAT * * 12932833 TTTTTGCGGCGATTTTTATTAAAACGCCTCAAAAGATA 66 TTTTTGCGGCGATTTTTATAAAAACGCCGCAAAAGATA 12932871 A 1 A 12932872 GCAATAGTGG Statistics Matches: 93, Mismatches: 9, Indels: 5 0.87 0.08 0.05 Matches are distributed among these distances: 103 67 0.72 104 15 0.16 105 11 0.12 ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31 Consensus pattern (103 bp): ATAAATAAACAAAATAAAAAAATTTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAAT TTTTTGCGGCGATTTTTATAAAAACGCCGCAAAAGATA Found at i:12933052 original size:105 final size:105 Alignment explanation
Indices: 12932934--12933784 Score: 839 Period size: 106 Copynumber: 7.9 Consensus size: 105 12932924 AAAAGCAAAA ** ** * 12932934 TAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTGGAAATGAAATAATTTTTTGTGGCGT 1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT-TTCAAAATGAAATAATTTTTTGCGGCGT * * 12932999 TTTTATGTAAAA-CGCCGCAAAAGATAATTAATCAATTTAT 65 TTTTATATAAAAGCGCCGCAAAAGATAATAAATCAATTTAT 12933039 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTTTTCAAAATGAAATAATTTTTTTGCGGCG 1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCA-TTTTTTCAAAATGAAATAA-TTTTTTGCGGCG * ** * 12933104 TTTTT-TATAAAAGCGCCGCAAAA-ATAAATCAATTTATAAAATAAAAAA 64 TTTTTATATAAAAGCGCCGCAAAAGAT-AAT-AA---AT-CAAT--TTAT * * * 12933152 TAAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGCGTT 1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGCGTT * ** * 12933217 TGTCATA-AAAAATGTCGCAAAAGATAATAAATCAATTTAT 66 T-TTATATAAAAGCGCCGCAAAAGATAATAAATCAATTTAT * * 12933257 T-AAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCAGCG 1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT-TTCAAAATGAAATAA-TTTTTTGCGGCG 12933321 TTTTT-TATAAAAGCGCCGCAAAAGATAATAAATCAATTTAT 64 TTTTTATATAAAAGCGCCGCAAAAGATAATAAATCAATTTAT * * 12933362 TAAAAAAAATTTAGCTTAGCAAAACGGCGTCATTTTATTCAAAACGAAATAATTTTTT-CTGGCG 1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT-TTCAAAATGAAATAATTTTTTGC-GGCG * * *** * 12933426 TTTTTTTATAAAAGCGCCGCAAAA-ATAAATCAATTTATAAAAAAACAA 64 TTTTTATATAAAAGCGCCGCAAAAGAT-AAT-AA---AT--CAATTTAT * * * 12933474 TAAAAAAAATTTTAGCACAGTAAAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGCGT 1 TAAAAAAAA-TTTAGCATAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGCGT * 12933539 TTTTCATA-AAAA-CGCCACAAAAGATAATAAATCAATTTATT 65 TTTT-ATATAAAAGCGCCGCAAAAGATAATAAATCAATTTA-T * * 12933580 TTAAAAAAA-TTAGCATAGCAAAACGGCGTCATTTTATTCAAAACGAAATAATTTTTTTGCGGCG 1 TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT-TTCAAAATGAAATAA-TTTTTTGCGGCG * * * *** * 12933644 CTTTTT-TATAAAAGTGCTGCAAAA-ATAAATCAATTTATAAAAAAACA 64 -TTTTTATATAAAAGCGCCGCAAAAGAT-AAT-AA---ATCAATTTA-T * * * * * 12933691 AAAGAAAAAATTTTTAGCACAGCAAAACGACGTCATTTTTTCAAAATGAAATAATTTTTTACGGT 1 TAA-AAAAAA--TTTAGCATAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGC * 12933756 GTTTTTAT-TAAAAACGCCGCAAAAGATAA 63 GTTTTTATATAAAAGCGCCGCAAAAGATAA 12933785 GCAATAGCGG Statistics Matches: 623, Mismatches: 75, Indels: 89 0.79 0.10 0.11 Matches are distributed among these distances: 104 59 0.09 105 132 0.21 106 142 0.23 107 23 0.04 108 4 0.01 110 6 0.01 111 38 0.06 112 106 0.17 113 75 0.12 114 14 0.02 115 24 0.04 ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32 Consensus pattern (105 bp): TAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGCGTT TTTATATAAAAGCGCCGCAAAAGATAATAAATCAATTTAT Found at i:12933307 original size:217 final size:217 Alignment explanation
Indices: 12932880--12933565 Score: 738 Period size: 217 Copynumber: 3.1 Consensus size: 217 12932870 AAGCAATAGT * * * 12932880 GGCGTTTATTATAAAAACGCCGCAAAAATAAATCAATTTATAAAAAAAGCAAAATAAAAAATTTT 1 GGCGTTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTAT-AAAAAA--AAAATAAAAAAATTT * * * * ** 12932945 TAGCATAGCAAAACGGCGTCATTTTGTTGGAAATGAAATAATTTTTTGTGGCGTTTTTATGTAAA 63 TAGCACAGCAAAACGGCGTCATTTTGTTGCAAATGAAATAATTTTTTGCGGCGTTTTCATAAAAA * 12933010 ACGCCGCAAAAGATAATTAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT 128 ACGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT * * 12933075 TTTCAAAATGAAATAATTTTTTTGC 193 GTTCAAAACGAAATAATTTTTTTGC 12933100 GGCGTTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAATAAAAAATAAAAAAATTTTA 1 GGCGTTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAA-AAAAAATAAAAAAATTTTA 12933165 GCACAGCAAAACGGCGTCATTTT-TT-CAAACTGAAATAATTTTTTGCGGCGTTTGTCATAAAAA 65 GCACAGCAAAACGGCGTCATTTTGTTGCAAA-TGAAATAATTTTTTGCGGCGTTT-TCATAAAAA * * 12933228 ATGTCGCAAAAGATAATAAATCAATTTATT-AAAAAAATTTAGCATAGCAAAACGGCGTCATTTT 128 ACGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTT 12933292 GTTCAAAACGAAATAATTTTTTTGC 193 GTTCAAAACGAAATAATTTTTTTGC * * *** * * 12933317 AGCGTTTTTTATAAAAGCGCCGCAAAAGAT-AAT-AA---AT--CAATTTATTAAAAAAAATTTA 1 GGCGTTTTTTATAAAAGCGCCGCAAAA-ATAAATCAATTTATAAAAAAAAAATAAAAAAATTTTA ** * * ** 12933375 GCTTAGCAAAACGGCGTCATTTTATT-CAAAACGAAATAATTTTTT-CTGGCGTTTTTTTATAAA 65 GCACAGCAAAACGGCGTCATTTTGTTGC-AAATGAAATAATTTTTTGC-GGCGTTTTCATA-AAA * * *** * * * 12933438 AGCGCCGCAAAA-ATAAATCAATTTATAAAAAAACAATAAAAAAAATTTTAGCACAGTAAAACGG 127 AACGCCGCAAAAGAT-AAT-AA---AT--CAATTTATTAAAAAAAA-TTTAGCATAGCAAAACGG 12933502 CGTCATTTT-TTC-AAACTGAAATAA-TTTTTTGC 184 CGTCATTTTGTTCAAAAC-GAAATAATTTTTTTGC * * * 12933534 GGCGTTTTTCATAAAAACGCCACAAAAGATAA 1 GGCGTTTTTTATAAAAGCGCCGCAAAA-ATAA 12933566 TAAATCAATT Statistics Matches: 407, Mismatches: 40, Indels: 40 0.84 0.08 0.08 Matches are distributed among these distances: 210 41 0.10 211 39 0.10 212 5 0.01 213 2 0.00 215 2 0.00 216 5 0.01 217 152 0.37 218 91 0.22 219 29 0.07 220 41 0.10 ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32 Consensus pattern (217 bp): GGCGTTTTTTATAAAAGCGCCGCAAAAATAAATCAATTTATAAAAAAAAAATAAAAAAATTTTAG CACAGCAAAACGGCGTCATTTTGTTGCAAATGAAATAATTTTTTGCGGCGTTTTCATAAAAAACG CCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTT CAAAACGAAATAATTTTTTTGC Found at i:12933522 original size:323 final size:321 Alignment explanation
Indices: 12932934--12933688 Score: 1163 Period size: 323 Copynumber: 2.3 Consensus size: 321 12932924 AAAAGCAAAA * ** * 12932934 TAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTGGAAATGAAATAATTTTTTGTG-GCG 1 TAAAAAA-ATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTT-TGCGCG * * 12932998 TTTTTATGTAAAA-CGCCGCAAAAGATAATTAATCAATTTATTAAAAAAAATTTAGCATAGCAAA 64 TTTTT-TATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAA * * 12933062 ACGGCGTCATTTTTTTCAAAATGAAATAATTTTTTTGCGGCGTTTTTTATAAAAGCGCCGCAAAA 128 ACGGCGTCATTTTATTCAAAACGAAATAATTTTTTT-CGGCGTTTTTTATAAAAGCGCCGCAAAA 12933127 ATAAATCAATTTATAAAATAAAAAATAAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCA 192 ATAAATCAATTTATAAAATAAAAAATAAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCA * * * 12933192 AACTGAAATAATTTTTTGCGGCGTTTGTCATAAAAAATGTCGCAAAAGATAATAAATCAATTTA- 257 AACTGAAATAATTTTTTGCGGCGTTTGTCAT-AAAAACGCCACAAAAGATAATAAATCAATTTAT 12933256 T 321 T 12933257 TAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCAGCGT 1 TAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGC-GCGT * 12933322 TTTTTATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCTTAGCAAAAC 65 TTTTTATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAAC 12933387 GGCGTCATTTTATTCAAAACGAAATAA-TTTTTTCTGGCGTTTTTTTATAAAAGCGCCGCAAAAA 130 GGCGTCATTTTATTCAAAACGAAATAATTTTTTTC-GGCG-TTTTTTATAAAAGCGCCGCAAAAA * * 12933451 TAAATCAATTTATAAAA-AAACAATAAAAAAAATTTTAGCACAGTAAAACGGCGTCATTTTTTCA 193 TAAATCAATTTATAAAATAAAAAAT-AAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCA * 12933515 AACTGAAATAATTTTTTGCGGCGTTTTTCATAAAAACGCCACAAAAGATAATAAATCAATTTATT 257 AACTGAAATAATTTTTTGCGGCGTTTGTCATAAAAACGCCACAAAAGATAATAAATCAATTTA-T 12933580 T 321 T * 12933581 TAAAAAAA-TTAGCATAGCAAAACGGCGTCATTTTATTCAAAACGAAATAATTTTTTTGCGGCGC 1 TAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGC-GCG- * * 12933645 TTTTTTATAAAAGTGCTGC--AA-A-AATAAATCAATTTA-TAAAAAAA 64 TTTTTTATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAA 12933689 CAAAAGAAAA Statistics Matches: 404, Mismatches: 19, Indels: 22 0.91 0.04 0.05 Matches are distributed among these distances: 319 8 0.02 320 14 0.03 321 4 0.01 322 99 0.25 323 253 0.63 324 26 0.06 ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33 Consensus pattern (321 bp): TAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCGCGTT TTTTATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACG GCGTCATTTTATTCAAAACGAAATAATTTTTTTCGGCGTTTTTTATAAAAGCGCCGCAAAAATAA ATCAATTTATAAAATAAAAAATAAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCAAACT GAAATAATTTTTTGCGGCGTTTGTCATAAAAACGCCACAAAAGATAATAAATCAATTTATT Found at i:12933781 original size:219 final size:216 Alignment explanation
Indices: 12933258--12933784 Score: 794 Period size: 219 Copynumber: 2.4 Consensus size: 216 12933248 TCAATTTATT * * 12933258 AAAAAAA-TTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAACGAAATAATTTTTTTGCAGCGT 1 AAAAAAATTTTAGCACAGCAAAACGGCGTCATTTT-TTCAAAATGAAATAA-TTTTTTGC-G-GT * * 12933322 -TTTTTATAAAAGCGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCTTAGCAAAA 62 GTTTTTATAAAAACGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAA * 12933386 CGGCGTCATTTTATTCAAAACGAAATAATTTTTTCTGGCGTTTTTTTATAAAAGCGCCGCAAAAA 127 CGGCGTCATTTTATTCAAAACGAAATAATTTTTTCTGGCGCTTTTTTATAAAAGCGCCGCAAAAA 12933451 TAAATCAATTTATAAAAAAACAATA 192 TAAATCAATTTATAAAAAAACAATA * * * 12933476 AAAAAAATTTTAGCACAGTAAAACGGCGTCATTTTTTCAAACTGAAATAATTTTTTGCGGCGTTT 1 AAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGTGTTT * * 12933541 TTCATAAAAACGCCACAAAAGATAATAAATCAATTTATTTTAAAAAAA-TTAGCATAGCAAAACG 66 TT-ATAAAAACGCCGCAAAAGATAATAAATCAATTTA-TTAAAAAAAATTTAGCATAGCAAAACG * * 12933605 GCGTCATTTTATTCAAAACGAAATAATTTTTT-TGCGGCGCTTTTTTATAAAAGTGCTGCAAAAA 129 GCGTCATTTTATTCAAAACGAAATAATTTTTTCT--GGCGCTTTTTTATAAAAGCGCCGCAAAAA 12933669 TAAATCAATTTATAAAAAAACAA-A 192 TAAATCAATTTATAAAAAAACAATA * * 12933693 AGAAAAAATTTTTAGCACAGCAAAACGACGTCATTTTTTCAAAATGAAATAATTTTTTACGGTGT 1 A-AAAAAA-TTTTAGCACAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGTGT 12933758 TTTTATTAAAAACGCCGCAAAAGATAA 64 TTTTA-TAAAAACGCCGCAAAAGATAA 12933785 GCAATAGCGG Statistics Matches: 282, Mismatches: 18, Indels: 17 0.89 0.06 0.05 Matches are distributed among these distances: 215 1 0.00 216 7 0.02 217 89 0.32 218 85 0.30 219 100 0.35 ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32 Consensus pattern (216 bp): AAAAAAATTTTAGCACAGCAAAACGGCGTCATTTTTTCAAAATGAAATAATTTTTTGCGGTGTTT TTATAAAAACGCCGCAAAAGATAATAAATCAATTTATTAAAAAAAATTTAGCATAGCAAAACGGC GTCATTTTATTCAAAACGAAATAATTTTTTCTGGCGCTTTTTTATAAAAGCGCCGCAAAAATAAA TCAATTTATAAAAAAACAATA Found at i:12934021 original size:21 final size:21 Alignment explanation
Indices: 12933996--12934035 Score: 64 Period size: 21 Copynumber: 1.9 Consensus size: 21 12933986 CCTGCAATCT 12933996 TTTCCCCCC-TAAAATCCCTAA 1 TTTCCCCCCTTAAAA-CCCTAA 12934017 TTTCCCCCCTTAAAACCCT 1 TTTCCCCCCTTAAAACCCT 12934036 CAAGTTTACA Statistics Matches: 18, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 21 13 0.72 22 5 0.28 ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30 Consensus pattern (21 bp): TTTCCCCCCTTAAAACCCTAA Found at i:12937324 original size:43 final size:43 Alignment explanation
Indices: 12937261--12937588 Score: 399 Period size: 43 Copynumber: 7.6 Consensus size: 43 12937251 AAATATTTTT * * * * * 12937261 TAAAGGTCATGTTTTTTAGCGGCGTTTTTGGGAAAAGCGTCGC 1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC * * * * * * 12937304 AAAAGGTCTTGTTCTATAGCGGTGTTTGTGGAAAAAGTGTCGT 1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC * ** 12937347 TAAAAGGTGTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCTAC 1 T-AAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC * 12937391 TAAAGGTCTTGTTCTTTAGCGGCGTTTGT-AAAAAAGCGCCGC 1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC * * * * * 12937433 TAAAGATTTTATTCTTTAGTGGCGTTTGT-GAAAGAAGCGCCGT 1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAA-AAGCGCCGC * * * 12937476 TAAATGTCTTGTTCTTTAGCGGCGTTTGTGAAAAAAACGCCGC 1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC 12937519 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC 1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC * * 12937562 TAAAGGTCTTATTCTTTAGCGGTGTTT 1 TAAAGGTCTTGTTCTTTAGCGGCGTTT 12937589 TTAGAAATAA Statistics Matches: 241, Mismatches: 41, Indels: 6 0.84 0.14 0.02 Matches are distributed among these distances: 42 38 0.16 43 165 0.68 44 38 0.16 ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34 Consensus pattern (43 bp): TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC Done.