Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Gbar_D11 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: 68311261 ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33 Warning! 408745 characters in sequence are not A, C, G, or T File 36 of 226 Found at i:12582999 original size:28 final size:28 Alignment explanation
Indices: 12582959--12583012 Score: 99 Period size: 28 Copynumber: 1.9 Consensus size: 28 12582949 GTGTTTTATC * 12582959 CTTCTTTGCCAAACTCTCAGTTCATATA 1 CTTCTCTGCCAAACTCTCAGTTCATATA 12582987 CTTCTCTGCCAAACTCTCAGTTCATA 1 CTTCTCTGCCAAACTCTCAGTTCATA 12583013 CTCATAAACC Statistics Matches: 25, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 28 25 1.00 ACGTcount: A:0.24, C:0.31, G:0.07, T:0.37 Consensus pattern (28 bp): CTTCTCTGCCAAACTCTCAGTTCATATA Found at i:12584115 original size:22 final size:23 Alignment explanation
Indices: 12584090--12584132 Score: 61 Period size: 22 Copynumber: 1.9 Consensus size: 23 12584080 TCAAAATAGA * * 12584090 ATGATATTTTTAA-ATTTTTTTC 1 ATGATAATATTAATATTTTTTTC 12584112 ATGATAATATTAATATTTTTT 1 ATGATAATATTAATATTTTTT 12584133 AGATGTAATT Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 22 11 0.61 23 7 0.39 ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60 Consensus pattern (23 bp): ATGATAATATTAATATTTTTTTC Found at i:12584141 original size:22 final size:22 Alignment explanation
Indices: 12584090--12584141 Score: 52 Period size: 22 Copynumber: 2.4 Consensus size: 22 12584080 TCAAAATAGA * * * 12584090 ATGATATTTTTAAATTTTTTTC 1 ATGATAATATTAAATTTTTTAC * 12584112 ATGATAATATTAATATTTTTTAG 1 ATGATAATATTAA-ATTTTTTAC 12584135 ATG-TAAT 1 ATGATAAT 12584142 TATGTTAAAG Statistics Matches: 25, Mismatches: 4, Indels: 2 0.81 0.13 0.06 Matches are distributed among these distances: 22 15 0.60 23 10 0.40 ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56 Consensus pattern (22 bp): ATGATAATATTAAATTTTTTAC Found at i:12588232 original size:50 final size:50 Alignment explanation
Indices: 12588108--12588356 Score: 275 Period size: 50 Copynumber: 4.8 Consensus size: 50 12588098 GATAATAACA * * ** * * 12588108 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG 1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG * * 12588159 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG 1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG * * * 12588209 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG 1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG * * 12588259 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG 1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG * * * 12588314 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT 1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT 12588357 TTACCCAAAT Statistics Matches: 169, Mismatches: 22, Indels: 9 0.85 0.11 0.05 Matches are distributed among these distances: 49 1 0.01 50 92 0.54 51 33 0.20 53 2 0.01 54 1 0.01 55 2 0.01 56 38 0.22 ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26 Consensus pattern (50 bp): TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG Found at i:12588286 original size:100 final size:104 Alignment explanation
Indices: 12588107--12588356 Score: 348 Period size: 100 Copynumber: 2.4 Consensus size: 104 12588097 TGATAATAAC ** 12588107 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG 1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG * * 12588172 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG 65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG * * 12588209 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG 1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG 12588272 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG 65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG * * * 12588314 ATACCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT 1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT 12588357 TTACCCAAAT Statistics Matches: 132, Mismatches: 9, Indels: 10 0.87 0.06 0.07 Matches are distributed among these distances: 99 1 0.01 100 50 0.38 101 36 0.27 103 3 0.02 104 1 0.01 105 2 0.02 106 39 0.30 ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26 Consensus pattern (104 bp): ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG Found at i:12588472 original size:13 final size:13 Alignment explanation
Indices: 12588451--12588482 Score: 55 Period size: 13 Copynumber: 2.5 Consensus size: 13 12588441 GCTTGGATCA * 12588451 TCATCAAATAAAT 1 TCATAAAATAAAT 12588464 TCATAAAATAAAT 1 TCATAAAATAAAT 12588477 TCATAA 1 TCATAA 12588483 TTGCTGGAAA Statistics Matches: 18, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 13 18 1.00 ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31 Consensus pattern (13 bp): TCATAAAATAAAT Found at i:12588729 original size:30 final size:30 Alignment explanation
Indices: 12588694--12588751 Score: 89 Period size: 30 Copynumber: 1.9 Consensus size: 30 12588684 CCTCGACTCT * 12588694 AACTTTTTCAAAATTACAATTTTGCCCCTA 1 AACTTTTACAAAATTACAATTTTGCCCCTA * * 12588724 AACTTTTACATAATTACATTTTTGCCCC 1 AACTTTTACAAAATTACAATTTTGCCCC 12588752 AAGGCTCGGA Statistics Matches: 25, Mismatches: 3, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 30 25 1.00 ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41 Consensus pattern (30 bp): AACTTTTACAAAATTACAATTTTGCCCCTA Found at i:12593627 original size:18 final size:18 Alignment explanation
Indices: 12593588--12593630 Score: 52 Period size: 18 Copynumber: 2.4 Consensus size: 18 12593578 GAATAGATTT * 12593588 TTAATTAAATAAATTTAT 1 TTAATTAAATAAATTTAA * 12593606 TTAATTAAA-AATTTTAAA 1 TTAATTAAATAAATTT-AA 12593624 TTAATTA 1 TTAATTA 12593631 CACCTTGAAC Statistics Matches: 22, Mismatches: 2, Indels: 2 0.85 0.08 0.08 Matches are distributed among these distances: 17 5 0.23 18 17 0.77 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (18 bp): TTAATTAAATAAATTTAA Found at i:12599544 original size:28 final size:28 Alignment explanation
Indices: 12599512--12599568 Score: 96 Period size: 28 Copynumber: 2.0 Consensus size: 28 12599502 AGATGGAATG 12599512 TATATTACCTTTACTTCAAAATTCTCTA 1 TATATTACCTTTACTTCAAAATTCTCTA * * 12599540 TATATTACTTTTATTTCAAAATTCTCTA 1 TATATTACCTTTACTTCAAAATTCTCTA 12599568 T 1 T 12599569 CTTCTCTACA Statistics Matches: 27, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 28 27 1.00 ACGTcount: A:0.32, C:0.18, G:0.00, T:0.51 Consensus pattern (28 bp): TATATTACCTTTACTTCAAAATTCTCTA Found at i:12608839 original size:20 final size:19 Alignment explanation
Indices: 12608796--12608839 Score: 52 Period size: 20 Copynumber: 2.3 Consensus size: 19 12608786 ATTTTTTTAC ** 12608796 ATTTTTTAAAAACTTACCT 1 ATTTTTTAAAAACTTAAAT * 12608815 TTTTTTTACAAAACTTAAAT 1 ATTTTTTA-AAAACTTAAAT 12608835 ATTTT 1 ATTTT 12608840 AACAATTTTT Statistics Matches: 20, Mismatches: 4, Indels: 1 0.80 0.16 0.04 Matches are distributed among these distances: 19 7 0.35 20 13 0.65 ACGTcount: A:0.36, C:0.11, G:0.00, T:0.52 Consensus pattern (19 bp): ATTTTTTAAAAACTTAAAT Found at i:12608851 original size:10 final size:10 Alignment explanation
Indices: 12608836--12608868 Score: 50 Period size: 10 Copynumber: 3.3 Consensus size: 10 12608826 AACTTAAATA 12608836 TTTTAACAA-T 1 TTTTAA-AACT 12608846 TTTTAAAACT 1 TTTTAAAACT 12608856 TTTTAAAACT 1 TTTTAAAACT 12608866 TTT 1 TTT 12608869 ATATTCTTTA Statistics Matches: 22, Mismatches: 0, Indels: 2 0.92 0.00 0.08 Matches are distributed among these distances: 9 2 0.09 10 20 0.91 ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55 Consensus pattern (10 bp): TTTTAAAACT Found at i:12608978 original size:10 final size:10 Alignment explanation
Indices: 12608963--12608987 Score: 50 Period size: 10 Copynumber: 2.5 Consensus size: 10 12608953 TCAACAGATG 12608963 GTCAAAGTGA 1 GTCAAAGTGA 12608973 GTCAAAGTGA 1 GTCAAAGTGA 12608983 GTCAA 1 GTCAA 12608988 CAACAATCAC 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:0.40, C:0.12, G:0.28, T:0.20 Consensus pattern (10 bp): GTCAAAGTGA Found at i:12613278 original size:24 final size:24 Alignment explanation
Indices: 12613232--12613278 Score: 58 Period size: 24 Copynumber: 2.0 Consensus size: 24 12613222 AAAGTCAAAT * * 12613232 ATATTATGCTAATAAATGCTAAAA 1 ATATTATACTAATAAATACTAAAA * * 12613256 ATATTATACTCATAAATATTAAA 1 ATATTATACTAATAAATACTAAA 12613279 TCTTCTAGAA Statistics Matches: 19, Mismatches: 4, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 24 19 1.00 ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36 Consensus pattern (24 bp): ATATTATACTAATAAATACTAAAA Found at i:12618255 original size:25 final size:25 Alignment explanation
Indices: 12618227--12618295 Score: 66 Period size: 25 Copynumber: 2.8 Consensus size: 25 12618217 TCCTCCAAGT * 12618227 TGAATAACGGGAAGCTCATGTGAGC 1 TGAATAACGGGAAGCTCATGCGAGC * * * * 12618252 TGAATAATGAGAAGTTTATGCGAGC 1 TGAATAACGGGAAGCTCATGCGAGC * * * 12618277 TGAGTATCGGGATGCTCAT 1 TGAATAACGGGAAGCTCAT 12618296 AAGAGCTTAA Statistics Matches: 32, Mismatches: 12, Indels: 0 0.73 0.27 0.00 Matches are distributed among these distances: 25 32 1.00 ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26 Consensus pattern (25 bp): TGAATAACGGGAAGCTCATGCGAGC Found at i:12627007 original size:20 final size:22 Alignment explanation
Indices: 12626984--12627024 Score: 59 Period size: 20 Copynumber: 2.0 Consensus size: 22 12626974 ATAATTTTCA * 12626984 AAAATAGTTTT-T-AGTTTTTT 1 AAAATAATTTTATGAGTTTTTT 12627004 AAAATAATTTTATGAGTTTTT 1 AAAATAATTTTATGAGTTTTT 12627025 AGAATTTTTT Statistics Matches: 18, Mismatches: 1, Indels: 2 0.86 0.05 0.10 Matches are distributed among these distances: 20 10 0.56 21 1 0.06 22 7 0.39 ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56 Consensus pattern (22 bp): AAAATAATTTTATGAGTTTTTT Found at i:12634121 original size:48 final size:48 Alignment explanation
Indices: 12634039--12634132 Score: 122 Period size: 48 Copynumber: 2.0 Consensus size: 48 12634029 TTTCTTGGCT * 12634039 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG 1 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG * 12634087 TAAAAACGCTTAAGTCAG-CTCAAC-TCGCGA-CAATAAAGGATTCAAC 1 TAAAAACGCCTAAGTCAGCCT-AACTTC-C-ACCAATAAAGGATTCAAC 12634133 AGAATTCCCT Statistics Matches: 41, Mismatches: 2, Indels: 6 0.84 0.04 0.12 Matches are distributed among these distances: 47 4 0.10 48 36 0.88 49 1 0.02 ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20 Consensus pattern (48 bp): TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG Found at i:12636631 original size:48 final size:48 Alignment explanation
Indices: 12636549--12636642 Score: 122 Period size: 48 Copynumber: 2.0 Consensus size: 48 12636539 TTTCTTGGCT * 12636549 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG 1 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG * 12636597 TAAAAACGCTTAAGTCAG-CTCAAC-TCGCGA-CAATAAAGGATTCAAC 1 TAAAAACGCCTAAGTCAGCCT-AACTTC-C-ACCAATAAAGGATTCAAC 12636643 AGAATTCCCT Statistics Matches: 41, Mismatches: 2, Indels: 6 0.84 0.04 0.12 Matches are distributed among these distances: 47 4 0.10 48 36 0.88 49 1 0.02 ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20 Consensus pattern (48 bp): TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAAAGGATTCAACCG Found at i:12637443 original size:2 final size:2 Alignment explanation
Indices: 12637436--12637465 Score: 60 Period size: 2 Copynumber: 15.0 Consensus size: 2 12637426 AAATACTACA 12637436 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 12637466 GATTACATAG Statistics Matches: 28, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 28 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:12639715 original size:89 final size:88 Alignment explanation
Indices: 12639612--12639804 Score: 194 Period size: 90 Copynumber: 2.2 Consensus size: 88 12639602 TTAAGGGTGT * * * 12639612 AAAAA-ACCTTCAAA-CTTAAAAAAAGAGAGCAATTAAGCCCCTCCT-TTTTTTTACACTCAATT 1 AAAAAGACCCTCAAATCTTAAAAAAA-A-AGCAATTAAACCCCTACTCTTTTTTT-CACTCAATT * 12639674 GAGCACCGGAACTTTAAAAATGCATA 63 GAGCACCGGAACTTTAAAAATACATA * * * * 12639700 AAAAAGACCCTCAAACTTCTTCAAAAAAATGCAATTAAACTCTTACTCTTTTTTTCACTCAATTG 1 AAAAAGACCCTCAAA--TCTTAAAAAAAAAGCAATTAAACCCCTACTCTTTTTTTCACTCAATTG * * ** * * 12639765 GGTACTTGAACTTTCAAAATACATT 64 AGCACCGGAACTTTAAAAATACATA 12639790 AAAAAGACCCTCAAA 1 AAAAAGACCCTCAAA 12639805 ATTTTTCAAA Statistics Matches: 86, Mismatches: 14, Indels: 8 0.80 0.13 0.07 Matches are distributed among these distances: 88 5 0.06 89 8 0.09 90 56 0.65 91 8 0.09 92 9 0.10 ACGTcount: A:0.41, C:0.22, G:0.08, T:0.28 Consensus pattern (88 bp): AAAAAGACCCTCAAATCTTAAAAAAAAAGCAATTAAACCCCTACTCTTTTTTTCACTCAATTGAG CACCGGAACTTTAAAAATACATA Found at i:12639752 original size:90 final size:88 Alignment explanation
Indices: 12639658--12639825 Score: 228 Period size: 90 Copynumber: 1.9 Consensus size: 88 12639648 GCCCCTCCTT * * 12639658 TTTTTTACACTCAATTGAGCACCGGAACTTTAAAAATGCATAAAAAAGACCCTCAAACTTCTTCA 1 TTTTTTACACTCAATTGAGCACCGGAACTTTAAAAATACATAAAAAAGACCCTCAAAATTCTTC- 12639723 AAAAAATGCAATTAAACTCTTACTC 65 AAAAAA-GCAATTAAACTCTTACTC * * * ** * * * 12639748 TTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATACATTAAAAAGACCCTCAAAATTTTTCA 1 TTTTTTACACTCAATTGAGCACCGGAACTTTAAAAATACATAAAAAAGACCCTCAAAATTCTTCA 12639813 AAAAAGCAATTAA 66 AAAAAGCAATTAA 12639826 GCCCATGCTC Statistics Matches: 68, Mismatches: 10, Indels: 2 0.85 0.12 0.03 Matches are distributed among these distances: 88 8 0.12 89 6 0.09 90 54 0.79 ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32 Consensus pattern (88 bp): TTTTTTACACTCAATTGAGCACCGGAACTTTAAAAATACATAAAAAAGACCCTCAAAATTCTTCA AAAAAGCAATTAAACTCTTACTC Found at i:12639962 original size:44 final size:44 Alignment explanation
Indices: 12639836--12639969 Score: 126 Period size: 44 Copynumber: 3.0 Consensus size: 44 12639826 GCCCATGCTC * * * 12639836 TTATTAAAAATTAGAATTTTTTTATAAAAAATAAAAAAAAATAAATT 1 TTATT-AAAATTAGAA-TTTTTTAT-AAAAATCATAAAAAATAAAAT ** * * * * * 12639883 TTAGAAAAATTATTAAATTTTAATAGAAA-CATAAAAATTAAAAT 1 TTATTAAAATTA-GAATTTTTTATAAAAATCATAAAAAATAAAAT * 12639927 TTATTAAAATTAGAATTTTTTATAAAAATCGTAAAAAATAAAA 1 TTATTAAAATTAGAATTTTTTATAAAAATCATAAAAAATAAAA 12639970 AAATTATAAA Statistics Matches: 67, Mismatches: 18, Indels: 7 0.73 0.20 0.08 Matches are distributed among these distances: 43 12 0.18 44 33 0.49 45 4 0.06 46 13 0.19 47 5 0.07 ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37 Consensus pattern (44 bp): TTATTAAAATTAGAATTTTTTATAAAAATCATAAAAAATAAAAT Found at i:12639973 original size:37 final size:38 Alignment explanation
Indices: 12639932--12640003 Score: 92 Period size: 37 Copynumber: 1.9 Consensus size: 38 12639922 AAAATTTATT ** 12639932 AAAATTAGAATTTTTTATAAAAATC-GTAAAAAATAAA 1 AAAATTAGAAAATTTTATAAAAATCAGTAAAAAATAAA * * * 12639969 AAAATTATAAAATTTTATAAATATCATTAAAAAAT 1 AAAATTAGAAAATTTTATAAAAATCAGTAAAAAAT 12640004 TAACGACCCC Statistics Matches: 29, Mismatches: 5, Indels: 1 0.83 0.14 0.03 Matches are distributed among these distances: 37 21 0.72 38 8 0.28 ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35 Consensus pattern (38 bp): AAAATTAGAAAATTTTATAAAAATCAGTAAAAAATAAA Found at i:12640198 original size:21 final size:21 Alignment explanation
Indices: 12640174--12640213 Score: 53 Period size: 21 Copynumber: 1.9 Consensus size: 21 12640164 TTATATTTCT * * * 12640174 TTACATTTTTTTATAATTTAC 1 TTACAATTTTATAAAATTTAC 12640195 TTACAATTTTATAAAATTT 1 TTACAATTTTATAAAATTT 12640214 TATATTTCTA Statistics Matches: 16, Mismatches: 3, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 21 16 1.00 ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57 Consensus pattern (21 bp): TTACAATTTTATAAAATTTAC Found at i:12640241 original size:10 final size:10 Alignment explanation
Indices: 12640228--12640314 Score: 59 Period size: 10 Copynumber: 8.3 Consensus size: 10 12640218 TTTCTATATA 12640228 TTTTATAATT 1 TTTTATAATT * * 12640238 TTTTACGATTT 1 TTTTA-TAATT ** 12640249 TTTTATAAAA 1 TTTTATAATT * 12640259 TTTTACAATTTT 1 TTTTATAA--TT * 12640271 TTTTATATTT 1 TTTTATAATT 12640281 TTTTATAA-T 1 TTTTATAATT * 12640290 TTTTAGATATAT 1 TTTTATA-AT-T 12640302 TTTTATAATT 1 TTTTATAATT 12640312 TTT 1 TTT 12640315 AATATTTAAA Statistics Matches: 57, Mismatches: 14, Indels: 12 0.69 0.17 0.14 Matches are distributed among these distances: 9 7 0.12 10 27 0.47 11 10 0.18 12 13 0.23 ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67 Consensus pattern (10 bp): TTTTATAATT Found at i:12640284 original size:22 final size:22 Alignment explanation
Indices: 12640228--12640293 Score: 80 Period size: 22 Copynumber: 3.0 Consensus size: 22 12640218 TTTCTATATA * 12640228 TTTTATAATTTTTTACGA-TTT 1 TTTTATAATTTTTTACAATTTT ** 12640249 TTTTATAAAATTTTACAATTTT 1 TTTTATAATTTTTTACAATTTT * * 12640271 TTTTATATTTTTTTATAATTTT 1 TTTTATAATTTTTTACAATTTT 12640293 T 1 T 12640294 AGATATATTT Statistics Matches: 37, Mismatches: 7, Indels: 1 0.82 0.16 0.02 Matches are distributed among these distances: 21 15 0.41 22 22 0.59 ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68 Consensus pattern (22 bp): TTTTATAATTTTTTACAATTTT Found at i:12640299 original size:21 final size:20 Alignment explanation
Indices: 12640269--12640321 Score: 79 Period size: 21 Copynumber: 2.6 Consensus size: 20 12640259 TTTTACAATT * 12640269 TTTTTTATATTTTTTTATAA 1 TTTTTAATATTTTTTTATAA * 12640289 TTTTTAGATATATTTTTATAA 1 TTTTTA-ATATTTTTTTATAA 12640310 TTTTTAATATTT 1 TTTTTAATATTT 12640322 AAATGTTTTT Statistics Matches: 29, Mismatches: 3, Indels: 2 0.85 0.09 0.06 Matches are distributed among these distances: 20 10 0.34 21 19 0.66 ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70 Consensus pattern (20 bp): TTTTTAATATTTTTTTATAA Found at i:12640305 original size:32 final size:32 Alignment explanation
Indices: 12640235--12640314 Score: 83 Period size: 31 Copynumber: 2.5 Consensus size: 32 12640225 ATATTTTATA * 12640235 ATTTTTTACGATTTTTTTATAAAATTTTACAAT 1 ATTTTTTA-TATTTTTTTATAAAATTTTACAAT * * * 12640268 TTTTTTTATATTTTTTTAT-AATTTTTA-GAT 1 ATTTTTTATATTTTTTTATAAAATTTTACAAT * 12640298 ATATTTTTATAATTTTT 1 AT-TTTTTATATTTTTT 12640315 AATATTTAAA Statistics Matches: 40, Mismatches: 6, Indels: 4 0.80 0.12 0.08 Matches are distributed among these distances: 30 3 0.08 31 20 0.50 32 10 0.25 33 7 0.17 ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66 Consensus pattern (32 bp): ATTTTTTATATTTTTTTATAAAATTTTACAAT Found at i:12640609 original size:92 final size:92 Alignment explanation
Indices: 12640422--12640631 Score: 243 Period size: 92 Copynumber: 2.3 Consensus size: 92 12640412 GGCTTAATTA * * * * 12640422 TTTTTTTGAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTG 1 TTTTTTTGAAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAATTCAAGTACCAAAATGAGTG * ** ** * 12640487 TAAAAAAAAAGTAGGGGTTTAATTGCTT 66 CAAAAAAAAAG-AAAGACTTAATTACTT * * * 12640515 TTTTTTTG-AAAAGGTTTGTGGGCCTTTTTGATGCATTTTGAAAATTCAAGTACCAAAATGAGTG 1 TTTTTTTGAAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAATTCAAGTACCAAAATGAGTG 12640579 CAAAAAAAAA-AAAGACTTAATTAC-- 66 CAAAAAAAAAGAAAGACTTAATTACTT * 12640603 TTTTTTTGAAAAAA-TTTGA-GGACTTTTTG 1 TTTTTTTGAAAAAAGTTTGAGGGCCTTTTTG 12640632 CACTCTTAAT Statistics Matches: 100, Mismatches: 16, Indels: 8 0.81 0.13 0.06 Matches are distributed among these distances: 87 9 0.09 88 12 0.12 89 4 0.04 90 9 0.09 92 58 0.58 93 8 0.08 ACGTcount: A:0.35, C:0.08, G:0.19, T:0.39 Consensus pattern (92 bp): TTTTTTTGAAAAAAGTTTGAGGGCCTTTTTGATACATTTTGAAAATTCAAGTACCAAAATGAGTG CAAAAAAAAAGAAAGACTTAATTACTT Found at i:12642258 original size:24 final size:24 Alignment explanation
Indices: 12642230--12642281 Score: 77 Period size: 24 Copynumber: 2.2 Consensus size: 24 12642220 TTTTTAAAAG * * 12642230 ATTTAGTATTTATGAGTATAATAT 1 ATTTAGCATTTATGAGCATAATAT * 12642254 ATTTAGCATTTATTAGCATAATAT 1 ATTTAGCATTTATGAGCATAATAT 12642278 ATTT 1 ATTT 12642282 GAATTTGATT Statistics Matches: 25, Mismatches: 3, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 24 25 1.00 ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50 Consensus pattern (24 bp): ATTTAGCATTTATGAGCATAATAT Found at i:12642292 original size:24 final size:24 Alignment explanation
Indices: 12642230--12642293 Score: 76 Period size: 24 Copynumber: 2.7 Consensus size: 24 12642220 TTTTTAAAAG * * * 12642230 ATTTAGTATTTATGAGTATAATAT 1 ATTTAGAATTTATTAGCATAATAT * 12642254 ATTTAGCATTTATTAGCATAATAT 1 ATTTAGAATTTATTAGCATAATAT 12642278 ATTT-GAATTTGATTAG 1 ATTTAGAATTT-ATTAG 12642294 AATTAGATTT Statistics Matches: 35, Mismatches: 4, Indels: 2 0.85 0.10 0.05 Matches are distributed among these distances: 23 5 0.14 24 30 0.86 ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48 Consensus pattern (24 bp): ATTTAGAATTTATTAGCATAATAT Found at i:12646677 original size:24 final size:24 Alignment explanation
Indices: 12646650--12646701 Score: 77 Period size: 24 Copynumber: 2.2 Consensus size: 24 12646640 TTTATAGAAG * * 12646650 ATTTAGTATTTATGAGTATAATAT 1 ATTTAATATTTATGAGCATAATAT * 12646674 ATTTAATATTTATTAGCATAATAT 1 ATTTAATATTTATGAGCATAATAT 12646698 ATTT 1 ATTT 12646702 GACTTTGATT Statistics Matches: 25, Mismatches: 3, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 24 25 1.00 ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52 Consensus pattern (24 bp): ATTTAATATTTATGAGCATAATAT Found at i:12648060 original size:19 final size:19 Alignment explanation
Indices: 12648036--12648075 Score: 64 Period size: 19 Copynumber: 2.1 Consensus size: 19 12648026 CCTCAATTTA 12648036 TATATATGT-TTTTAACTTT 1 TATATAT-TATTTTAACTTT 12648055 TATATATTATTTTAACTTT 1 TATATATTATTTTAACTTT 12648074 TA 1 TA 12648076 AAATTTATAT Statistics Matches: 20, Mismatches: 0, Indels: 2 0.91 0.00 0.09 Matches are distributed among these distances: 18 1 0.05 19 19 0.95 ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62 Consensus pattern (19 bp): TATATATTATTTTAACTTT Found at i:12648089 original size:32 final size:31 Alignment explanation
Indices: 12648053--12648118 Score: 89 Period size: 32 Copynumber: 2.1 Consensus size: 31 12648043 GTTTTTAACT * 12648053 TTTATATATTATTTTAACTTT-TAAAATTTATA 1 TTTATATATT-TTATAACTTTATAAAATTT-TA * 12648085 TTTATATATTTTATAATTTTATAAAATTTTA 1 TTTATATATTTTATAACTTTATAAAATTTTA 12648116 TTT 1 TTT 12648119 TTAAATAAAA Statistics Matches: 31, Mismatches: 2, Indels: 3 0.86 0.06 0.08 Matches are distributed among these distances: 31 13 0.42 32 18 0.58 ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62 Consensus pattern (31 bp): TTTATATATTTTATAACTTTATAAAATTTTA Found at i:12658796 original size:34 final size:34 Alignment explanation
Indices: 12658756--12658820 Score: 112 Period size: 34 Copynumber: 1.9 Consensus size: 34 12658746 TATAAATATA * 12658756 AATATAAAATGTTTTAAATATTTTAATATAATTT 1 AATATAAAATATTTTAAATATTTTAATATAATTT * 12658790 AATATAAAATATTTTATATATTTTAATATAA 1 AATATAAAATATTTTAAATATTTTAATATAA 12658821 AAAATATTTT Statistics Matches: 29, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 34 29 1.00 ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49 Consensus pattern (34 bp): AATATAAAATATTTTAAATATTTTAATATAATTT Found at i:12658844 original size:7 final size:8 Alignment explanation
Indices: 12658767--12658851 Score: 57 Period size: 8 Copynumber: 10.2 Consensus size: 8 12658757 ATATAAAATG 12658767 TTTTAAATA 1 TTTT-AATA 12658776 TTTTAATA 1 TTTTAATA 12658784 TAATTTAATA 1 T--TTTAATA ** 12658794 -TAAAATA 1 TTTTAATA 12658801 TTTTATATA 1 TTTTA-ATA 12658810 TTTTAATA 1 TTTTAATA *** 12658818 TAAAAAATA 1 T-TTTAATA 12658827 TTTTAATA 1 TTTTAATA 12658835 TTTT-ATA 1 TTTTAATA * 12658842 TTTAAATA 1 TTTTAATA 12658850 TT 1 TT 12658852 ATTCTTTAAT Statistics Matches: 59, Mismatches: 11, Indels: 13 0.71 0.13 0.16 Matches are distributed among these distances: 7 11 0.19 8 24 0.41 9 17 0.29 10 7 0.12 ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54 Consensus pattern (8 bp): TTTTAATA Found at i:12658854 original size:26 final size:23 Alignment explanation
Indices: 12658771--12658839 Score: 93 Period size: 25 Copynumber: 2.8 Consensus size: 23 12658761 AAAATGTTTT 12658771 AAATATTTTAATATAATTTAATATA 1 AAATATTTTAATAT--TTTAATATA 12658796 AAATATTTTATATATTTTAATATAAA 1 AAATATTTTA-ATATTTTAATAT--A 12658822 AAATATTTTAATATTTTA 1 AAATATTTTAATATTTTA 12658840 TATTTAAATA Statistics Matches: 41, Mismatches: 0, Indels: 6 0.87 0.00 0.13 Matches are distributed among these distances: 24 8 0.20 25 18 0.44 26 15 0.37 ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51 Consensus pattern (23 bp): AAATATTTTAATATTTTAATATA Found at i:12670441 original size:122 final size:122 Alignment explanation
Indices: 12670193--12670443 Score: 362 Period size: 122 Copynumber: 2.0 Consensus size: 122 12670183 ACAATTTTTC * ** 12670193 GTAG-AGAGTGAGGATAAAACTTTAATACATGAATAATACCTTCAATTGTTGACCATTTAAGTTG 1 GTAGTAGAGTAAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGACCATTTAAGTTG * * * 12670257 GCTATTCAAAAAACAACACTTTGAAGATTTCTTACAGAGTTAATTCTATTGTTAATA 66 GATATTCAAAAAACAACACTTTGAAGACTTCTTACAGAGTTAATCCTATTGTTAATA 12670314 GTAGTAGAGTAAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGA-CAGTTTAAGTT 1 GTAGTAGAGTAAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGACCA-TTTAAGTT * * * * 12670378 GGATATTCAAAGAACGACACTTTGAAGACTTCTTATAGAGGAGTTGATCCTATTGTTAATA 65 GGATATTCAAAAAACAACACTTTGAAGACTTC-T-TACA-GAGTTAATCCTATTGTTAATA 12670439 GTAGT 1 GTAGT 12670444 CATCAAAGTT Statistics Matches: 115, Mismatches: 10, Indels: 6 0.88 0.08 0.05 Matches are distributed among these distances: 121 6 0.05 122 81 0.70 123 1 0.01 124 3 0.03 125 24 0.21 ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33 Consensus pattern (122 bp): GTAGTAGAGTAAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGACCATTTAAGTTG GATATTCAAAAAACAACACTTTGAAGACTTCTTACAGAGTTAATCCTATTGTTAATA Found at i:12670551 original size:18 final size:17 Alignment explanation
Indices: 12670528--12670561 Score: 50 Period size: 18 Copynumber: 1.9 Consensus size: 17 12670518 GACTTGGATT 12670528 GAAAAAATAATTTAAATG 1 GAAAAAATAA-TTAAATG * 12670546 GAAAAATTAATTAAAT 1 GAAAAAATAATTAAAT 12670562 TTATTTTAAA Statistics Matches: 15, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 17 6 0.40 18 9 0.60 ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29 Consensus pattern (17 bp): GAAAAAATAATTAAATG Found at i:12678159 original size:9 final size:8 Alignment explanation
Indices: 12678139--12678223 Score: 55 Period size: 9 Copynumber: 9.5 Consensus size: 8 12678129 GTAGTGATTC 12678139 AATTCGGTT 1 AATTCGG-T 12678148 AATTCAGGT 1 AATTC-GGT * 12678157 AATTCGATT 1 AATTCG-GT 12678166 AATTCGGGT 1 AATTC-GGT 12678175 AA-TCTGGTT 1 AATTC-GG-T * 12678184 AATTCAGTT 1 AATTC-GGT 12678193 AATTCGGGT 1 AATTC-GGT 12678202 AATTCGGTT 1 AATTCGG-T 12678211 AATTCGGTT 1 AATTCGG-T 12678220 AATT 1 AATT 12678224 TTTAACCAAA Statistics Matches: 63, Mismatches: 7, Indels: 12 0.77 0.09 0.15 Matches are distributed among these distances: 8 7 0.11 9 50 0.79 10 6 0.10 ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41 Consensus pattern (8 bp): AATTCGGT Found at i:12678162 original size:18 final size:18 Alignment explanation
Indices: 12678139--12678223 Score: 102 Period size: 18 Copynumber: 4.7 Consensus size: 18 12678129 GTAGTGATTC 12678139 AATTCGGTTAATTCAGGT 1 AATTCGGTTAATTCAGGT * * 12678157 AATTCGATTAATTCGGGT 1 AATTCGGTTAATTCAGGT * 12678175 AA-TCTGGTTAATTCAGTT 1 AATTC-GGTTAATTCAGGT * 12678193 AATTCGGGTAATTC-GGTT 1 AATTCGGTTAATTCAGG-T 12678211 AATTCGGTTAATT 1 AATTCGGTTAATT 12678224 TTTAACCAAA Statistics Matches: 56, Mismatches: 8, Indels: 6 0.80 0.11 0.09 Matches are distributed among these distances: 17 3 0.05 18 51 0.91 19 2 0.04 ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41 Consensus pattern (18 bp): AATTCGGTTAATTCAGGT Found at i:12678171 original size:27 final size:27 Alignment explanation
Indices: 12678134--12678223 Score: 103 Period size: 27 Copynumber: 3.3 Consensus size: 27 12678124 ATTATGTAGT * * * 12678134 GATTCAATTCGGTTAATTCAGGTAATTC 1 GATT-AATTCGGGTAATTCGGTTAATTC 12678162 GATTAATTCGGGTAA-TCTGGTTAATTC 1 GATTAATTCGGGTAATTC-GGTTAATTC 12678189 -AGTTAATTCGGGTAATTCGGTTAATTC 1 GA-TTAATTCGGGTAATTCGGTTAATTC * 12678216 GGTTAATT 1 GATTAATT 12678224 TTTAACCAAA Statistics Matches: 54, Mismatches: 4, Indels: 9 0.81 0.06 0.13 Matches are distributed among these distances: 26 3 0.06 27 45 0.83 28 6 0.11 ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41 Consensus pattern (27 bp): GATTAATTCGGGTAATTCGGTTAATTC Found at i:12678716 original size:30 final size:30 Alignment explanation
Indices: 12678674--12678737 Score: 103 Period size: 30 Copynumber: 2.2 Consensus size: 30 12678664 AACTTATTTT 12678674 ATTT-TTAATTTTGTTATTATTTTAAAGAC 1 ATTTGTTAATTTTGTTATTATTTTAAAGAC * * 12678703 ATTTGTTAGTTTTGTTATTATTTTAGAGAC 1 ATTTGTTAATTTTGTTATTATTTTAAAGAC 12678733 ATTTG 1 ATTTG 12678738 CTTGTTAAGT Statistics Matches: 32, Mismatches: 2, Indels: 1 0.91 0.06 0.03 Matches are distributed among these distances: 29 4 0.12 30 28 0.88 ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58 Consensus pattern (30 bp): ATTTGTTAATTTTGTTATTATTTTAAAGAC Found at i:12678840 original size:18 final size:18 Alignment explanation
Indices: 12678819--12678858 Score: 55 Period size: 18 Copynumber: 2.2 Consensus size: 18 12678809 GGAATATTTA * 12678819 TTTTGATGT-TTTTAGTAT 1 TTTTGATGTATTATA-TAT 12678837 TTTTGATGTATTATATAT 1 TTTTGATGTATTATATAT 12678855 TTTT 1 TTTT 12678859 TAAAATTACA Statistics Matches: 20, Mismatches: 1, Indels: 2 0.87 0.04 0.09 Matches are distributed among these distances: 18 16 0.80 19 4 0.20 ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68 Consensus pattern (18 bp): TTTTGATGTATTATATAT Found at i:12683669 original size:6 final size:6 Alignment explanation
Indices: 12683631--12683662 Score: 64 Period size: 6 Copynumber: 5.3 Consensus size: 6 12683621 ATTGATAATC 12683631 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT AT 1 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT AT 12683663 ACCTATATAG Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 26 1.00 ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50 Consensus pattern (6 bp): ATCTAT Found at i:12685648 original size:48 final size:48 Alignment explanation
Indices: 12685583--12685787 Score: 234 Period size: 48 Copynumber: 4.2 Consensus size: 48 12685573 TGGGGAGAAT * * * 12685583 TTACTAAAAGTAATAATAATGGCCTTGCTCCCAAATGCATGGAGAGGC 1 TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCATGGGGAGGC * * 12685631 TTACGAAAAGTAGTAATAATGGCCCTAG-TCCCAGATGCATTGAGGGAGGC 1 TTACGAAAAGTAGTAATAATGG-CCTTGCTCCCAAATGCA-TG-GGGAGGC * * ** * 12685681 TTACAAAAAGTAGTAATAATGGCTTTGCTCTTAAACGCATGGGGGAGGC 1 TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCAT-GGGGAGGC * * 12685730 TTACGAAAAGTAGTAATAATGGCCCTGCT-CCAAATGCATGGGGGAAGC 1 TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCAT-GGGGAGGC * 12685778 TTACAAAAAG 1 TTACGAAAAG 12685788 CAAAAAAAAT Statistics Matches: 132, Mismatches: 20, Indels: 10 0.81 0.12 0.06 Matches are distributed among these distances: 48 54 0.41 49 43 0.33 50 35 0.27 ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23 Consensus pattern (48 bp): TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCATGGGGAGGC Found at i:12685698 original size:98 final size:97 Alignment explanation
Indices: 12685583--12685787 Score: 279 Period size: 98 Copynumber: 2.1 Consensus size: 97 12685573 TGGGGAGAAT * * 12685583 TTACTAAAAGTAATAATAATGGCCTTGCTCCCAAATGCAT-GGAGAGGCTTACGAAAAGTAGTAA 1 TTACAAAAAGTAATAATAATGGCCTTGCTCCCAAACGCATGGGAGAGGCTTACGAAAAGTAGTAA * * 12685647 TAATGGCCCTAG-TCCCAGATGCATTGAGGGAGGC 66 TAATGGCCCT-GCT-CCAAATGCA-TGAGGGAAGC * * ** * 12685681 TTACAAAAAGTAGTAATAATGGCTTTGCTCTTAAACGCATGGGGGAGGCTTACGAAAAGTAGTAA 1 TTACAAAAAGTAATAATAATGGCCTTGCTCCCAAACGCATGGGAGAGGCTTACGAAAAGTAGTAA * 12685746 TAATGGCCCTGCTCCAAATGCATGGGGGAAGC 66 TAATGGCCCTGCTCCAAATGCATGAGGGAAGC 12685778 TTACAAAAAG 1 TTACAAAAAG 12685788 CAAAAAAAAT Statistics Matches: 95, Mismatches: 10, Indels: 5 0.86 0.09 0.05 Matches are distributed among these distances: 97 18 0.19 98 43 0.45 99 34 0.36 ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23 Consensus pattern (97 bp): TTACAAAAAGTAATAATAATGGCCTTGCTCCCAAACGCATGGGAGAGGCTTACGAAAAGTAGTAA TAATGGCCCTGCTCCAAATGCATGAGGGAAGC Found at i:12689305 original size:13 final size:13 Alignment explanation
Indices: 12689287--12689313 Score: 54 Period size: 13 Copynumber: 2.1 Consensus size: 13 12689277 AGTTCTTCAT 12689287 TGCTTTTGAAAAG 1 TGCTTTTGAAAAG 12689300 TGCTTTTGAAAAG 1 TGCTTTTGAAAAG 12689313 T 1 T 12689314 TTAGTTTAAA Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 14 1.00 ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41 Consensus pattern (13 bp): TGCTTTTGAAAAG Found at i:12692619 original size:3 final size:3 Alignment explanation
Indices: 12692613--12692644 Score: 64 Period size: 3 Copynumber: 10.7 Consensus size: 3 12692603 AAAACACAAA 12692613 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA 1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA 12692645 ACCCTAACAT Statistics Matches: 29, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 29 1.00 ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00 Consensus pattern (3 bp): AAG Found at i:12711919 original size:140 final size:140 Alignment explanation
Indices: 12711665--12711948 Score: 550 Period size: 140 Copynumber: 2.0 Consensus size: 140 12711655 ACCCGTATTC * 12711665 AACACCAGAATAGGGTACGAGGCATTACCAGAACAAATAAACTGTAAACGTATTGAACCGAGTTA 1 AACACCAGAATAGGGTACGAGGCATTACCAGAACAAATAAACTGTAAACGTATTGAACCAAGTTA 12711730 TAAAATTTCATTAAAAAAATTAAAACTTTCAAATTATTAACATGCTTTTATAATTCTTCACAATA 66 TAAAATTTCATTAAAAAAATTAAAACTTTCAAATTATTAACATGCTTTTATAATTCTTCACAATA 12711795 TATATAATGT 131 TATATAATGT 12711805 AACACCAGAATAGGGTACGAGGCATTACCAGAACAAATAAACTGTAAACGTATTGAACCAAGTTA 1 AACACCAGAATAGGGTACGAGGCATTACCAGAACAAATAAACTGTAAACGTATTGAACCAAGTTA * 12711870 TAAAATTTCATTAAAAAAATTAAAACTTTCAAATTATTAACATGTTTTTATAATTCTTCACAATA 66 TAAAATTTCATTAAAAAAATTAAAACTTTCAAATTATTAACATGCTTTTATAATTCTTCACAATA 12711935 TATATAATGT 131 TATATAATGT 12711945 AACA 1 AACA 12711949 TTTCCTGTCA Statistics Matches: 142, Mismatches: 2, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 140 142 1.00 ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31 Consensus pattern (140 bp): AACACCAGAATAGGGTACGAGGCATTACCAGAACAAATAAACTGTAAACGTATTGAACCAAGTTA TAAAATTTCATTAAAAAAATTAAAACTTTCAAATTATTAACATGCTTTTATAATTCTTCACAATA TATATAATGT Found at i:12712191 original size:46 final size:46 Alignment explanation
Indices: 12712138--12712319 Score: 258 Period size: 46 Copynumber: 4.0 Consensus size: 46 12712128 TTGCTATAAT * * 12712138 TCAGTATGGTTTTCTTCAC-GAAAATATCATACCTACTTTTCATAAC 1 TCAGTATGGTTTTCTTCACTG-AAATACCATACCTACTTTTCACAAC * * 12712184 TCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCACAAT 1 TCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCACAAC * * * * * 12712230 TCAATATGGTTTTCTTTATTGAAATATCATATCTACTTTTCACAAC 1 TCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCACAAC * 12712276 TCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCACA 1 TCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCACA 12712320 CTTTGCCATG Statistics Matches: 118, Mismatches: 17, Indels: 2 0.86 0.12 0.01 Matches are distributed among these distances: 46 117 0.99 47 1 0.01 ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40 Consensus pattern (46 bp): TCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCACAAC Found at i:12712292 original size:92 final size:92 Alignment explanation
Indices: 12712135--12712319 Score: 291 Period size: 92 Copynumber: 2.0 Consensus size: 92 12712125 ACATTGCTAT * * 12712135 AATTCAGTATGGTTTTCTTCACGAAAATATCATACCTACTTTTCATAACTCAGTATGGTTTTCTT 1 AATTCAATATGGTTTTCTTCACGAAAATATCATACCTACTTTTCACAACTCAGTATGGTTTTCTT * 12712200 CACTGAAACACCATACCTACTTTTCAC 66 CACTGAAACACCATACCTACGTTTCAC * * * 12712227 AATTCAATATGGTTTTCTTTATTG-AAATATCATATCTACTTTTCACAACTCAGTATGGTTTTCT 1 AATTCAATATGGTTTTCTTCA-CGAAAATATCATACCTACTTTTCACAACTCAGTATGGTTTTCT * 12712291 TCACTGAAATACCATACCTACGTTTCAC 65 TCACTGAAACACCATACCTACGTTTCAC 12712319 A 1 A 12712320 CTTTGCCATG Statistics Matches: 85, Mismatches: 7, Indels: 2 0.90 0.07 0.02 Matches are distributed among these distances: 92 84 0.99 93 1 0.01 ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39 Consensus pattern (92 bp): AATTCAATATGGTTTTCTTCACGAAAATATCATACCTACTTTTCACAACTCAGTATGGTTTTCTT CACTGAAACACCATACCTACGTTTCAC Found at i:12720171 original size:39 final size:39 Alignment explanation
Indices: 12720113--12720193 Score: 119 Period size: 39 Copynumber: 2.1 Consensus size: 39 12720103 ATCCACGGAT * * 12720113 TAAGTGTATAAGGTTGAAAGTA-TCGGTTCAAGGACCCAG 1 TAAGTGTATAAGGTGGAAAGTACT-GCTTCAAGGACCCAG * 12720152 TAAGTGTATAAGGTGGAAAGTACTGCTTCAAGGACCTAG 1 TAAGTGTATAAGGTGGAAAGTACTGCTTCAAGGACCCAG 12720191 TAA 1 TAA 12720194 ATCAATCTTC Statistics Matches: 38, Mismatches: 3, Indels: 2 0.88 0.07 0.05 Matches are distributed among these distances: 39 37 0.97 40 1 0.03 ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26 Consensus pattern (39 bp): TAAGTGTATAAGGTGGAAAGTACTGCTTCAAGGACCCAG Found at i:12734425 original size:18 final size:17 Alignment explanation
Indices: 12734391--12734425 Score: 52 Period size: 17 Copynumber: 2.0 Consensus size: 17 12734381 CTATATAATC * 12734391 AAATACCATACATATAT 1 AAATACCATAAATATAT 12734408 AAATACCATGAAATATAT 1 AAATACCAT-AAATATAT 12734426 TTTCATAATA Statistics Matches: 16, Mismatches: 1, Indels: 1 0.89 0.06 0.06 Matches are distributed among these distances: 17 9 0.56 18 7 0.44 ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29 Consensus pattern (17 bp): AAATACCATAAATATAT Found at i:12735087 original size:42 final size:43 Alignment explanation
Indices: 12734975--12735091 Score: 119 Period size: 43 Copynumber: 2.7 Consensus size: 43 12734965 AAAAGCTCGT * * * * * 12734975 ACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAACA 1 ACAACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAACA * * * * * 12735018 ACAATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATA-T 1 ACAACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAACA * * 12735060 ACGACGCCAATGTCCCAGATATGGTCTTACAC 1 ACAACGCCAATGTCCCAGACATGGTCTTACAC 12735092 AAAAATCTCA Statistics Matches: 61, Mismatches: 13, Indels: 1 0.81 0.17 0.01 Matches are distributed among these distances: 42 27 0.44 43 34 0.56 ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23 Consensus pattern (43 bp): ACAACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAACA Found at i:12739492 original size:21 final size:23 Alignment explanation
Indices: 12739469--12739512 Score: 63 Period size: 23 Copynumber: 2.0 Consensus size: 23 12739459 TTTTTAATTT ** 12739469 AAAT-TTAATTATGAAATATATA 1 AAATGTTAATTAAAAAATATATA 12739491 AAATGTTAATTAAAAAATATAT 1 AAATGTTAATTAAAAAATATAT 12739513 TGAATATTTT Statistics Matches: 19, Mismatches: 2, Indels: 1 0.86 0.09 0.05 Matches are distributed among these distances: 22 4 0.21 23 15 0.79 ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39 Consensus pattern (23 bp): AAATGTTAATTAAAAAATATATA Found at i:12740325 original size:22 final size:22 Alignment explanation
Indices: 12740291--12740332 Score: 57 Period size: 22 Copynumber: 1.9 Consensus size: 22 12740281 TGTACAAGTA * * 12740291 ATATTACTTGAATAGTTATGAG 1 ATATTACTAGAATAATTATGAG * 12740313 ATATTAGTAGAATAATTATG 1 ATATTACTAGAATAATTATG 12740333 TCTCTTTTGA Statistics Matches: 17, Mismatches: 3, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 22 17 1.00 ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40 Consensus pattern (22 bp): ATATTACTAGAATAATTATGAG Found at i:12743953 original size:30 final size:31 Alignment explanation
Indices: 12743908--12743967 Score: 86 Period size: 30 Copynumber: 2.0 Consensus size: 31 12743898 GGAGGTGGGA 12743908 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG 1 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG * * * 12743939 TGGG-AGGGAGTAAAATTTTTGGGGGAAAA 1 TGGGAAGGGAATAAAAGTTTTAGGGGAAAA 12743968 TAAAAGGTTT Statistics Matches: 26, Mismatches: 3, Indels: 1 0.87 0.10 0.03 Matches are distributed among these distances: 30 22 0.85 31 4 0.15 ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22 Consensus pattern (31 bp): TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG Found at i:12744195 original size:9 final size:9 Alignment explanation
Indices: 12744181--12744217 Score: 65 Period size: 9 Copynumber: 4.1 Consensus size: 9 12744171 TGTAGTTTGA 12744181 TATTCGAAT 1 TATTCGAAT 12744190 TATTCGAAT 1 TATTCGAAT * 12744199 TATTCGAGT 1 TATTCGAAT 12744208 TATTCGAAT 1 TATTCGAAT 12744217 T 1 T 12744218 CGAAAACTCA Statistics Matches: 26, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 9 26 1.00 ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46 Consensus pattern (9 bp): TATTCGAAT Found at i:12745095 original size:21 final size:21 Alignment explanation
Indices: 12745065--12745122 Score: 71 Period size: 21 Copynumber: 2.8 Consensus size: 21 12745055 GTGCTAAACA 12745065 GAAACCCATAAGGGTTGAATG 1 GAAACCCATAAGGGTTGAATG * * * * * 12745086 GAAGCTCATAAGAGCTGATTG 1 GAAACCCATAAGGGTTGAATG 12745107 GAAACCCATAAGGGTT 1 GAAACCCATAAGGGTT 12745123 AAACAGAACT Statistics Matches: 28, Mismatches: 9, Indels: 0 0.76 0.24 0.00 Matches are distributed among these distances: 21 28 1.00 ACGTcount: A:0.36, C:0.16, G:0.28, T:0.21 Consensus pattern (21 bp): GAAACCCATAAGGGTTGAATG Found at i:12745287 original size:25 final size:25 Alignment explanation
Indices: 12745229--12745319 Score: 103 Period size: 25 Copynumber: 3.7 Consensus size: 25 12745219 TATATTTATC * * * 12745229 GTCAATTCATCCTTTGCA-TATACT 1 GTCAATTCATCATTTGCATTTTACA * 12745253 GTCAATTCATCATTTTCATTTTACA 1 GTCAATTCATCATTTGCATTTTACA * * 12745278 GTCAATTCATCCTTTGCATTTTACC 1 GTCAATTCATCATTTGCATTTTACA * * 12745303 GTTAATTCATAATTTGC 1 GTCAATTCATCATTTGC 12745320 CAAAAAATAA Statistics Matches: 56, Mismatches: 10, Indels: 1 0.84 0.15 0.01 Matches are distributed among these distances: 24 16 0.29 25 40 0.71 ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45 Consensus pattern (25 bp): GTCAATTCATCATTTGCATTTTACA Found at i:12758817 original size:30 final size:31 Alignment explanation
Indices: 12758776--12758860 Score: 109 Period size: 30 Copynumber: 2.7 Consensus size: 31 12758766 CTCAATATTT 12758776 AATTAATTTTTAAATTTTAAAAA-ATTATAG 1 AATTAATTTTTAAATTTTAAAAATATTATAG * ** * 12758806 AATTTATTTTTAAAAATTAAAAATATTATAT 1 AATTAATTTTTAAATTTTAAAAATATTATAG * 12758837 ATAATAATTTTTAAATTTTAAAAA 1 A-ATTAATTTTTAAATTTTAAAAA 12758861 CTAATTAAAT Statistics Matches: 45, Mismatches: 8, Indels: 2 0.82 0.15 0.04 Matches are distributed among these distances: 30 20 0.44 31 7 0.16 32 18 0.40 ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47 Consensus pattern (31 bp): AATTAATTTTTAAATTTTAAAAATATTATAG Found at i:12758834 original size:22 final size:22 Alignment explanation
Indices: 12758789--12758834 Score: 58 Period size: 22 Copynumber: 2.1 Consensus size: 22 12758779 TAATTTTTAA * 12758789 ATTTTAAAAAATTATAGAATTT 1 ATTTTAAAAAATTATAAAATTT * 12758811 ATTTTTAAAAATTA-AAAATATT 1 ATTTTAAAAAATTATAAAAT-TT 12758833 AT 1 AT 12758835 ATATAATAAT Statistics Matches: 21, Mismatches: 2, Indels: 2 0.84 0.08 0.08 Matches are distributed among these distances: 21 4 0.19 22 17 0.81 ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46 Consensus pattern (22 bp): ATTTTAAAAAATTATAAAATTT Found at i:12777261 original size:25 final size:25 Alignment explanation
Indices: 12777224--12777305 Score: 101 Period size: 25 Copynumber: 3.3 Consensus size: 25 12777214 CTTCCTCAAT ** 12777224 ATGGCTCTTATGAGCTTCCCGTTAC 1 ATGGCTCACATGAGCTTCCCGTTAC * * 12777249 ATGGCTCACATGAGATTCCCATTAC 1 ATGGCTCACATGAGCTTCCCGTTAC * * * 12777274 ATGACTCACATAAGCTTCCCGTTAT 1 ATGGCTCACATGAGCTTCCCGTTAC 12777299 ATGGCTC 1 ATGGCTC 12777306 GAGAGAGTGC Statistics Matches: 47, Mismatches: 10, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 25 47 1.00 ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32 Consensus pattern (25 bp): ATGGCTCACATGAGCTTCCCGTTAC Found at i:12785154 original size:27 final size:26 Alignment explanation
Indices: 12785112--12785322 Score: 230 Period size: 27 Copynumber: 7.8 Consensus size: 26 12785102 TACGATTCAT 12785112 GGTAAAATGACTGAAATACCCTCGAAG 1 GGTAAAATGAC-GAAATACCCTCGAAG 12785139 GGTAAAATGATCGAAATACCCTCGAAG 1 GGTAAAATGA-CGAAATACCCTCGAAG 12785166 GGTAAAATGACTGAAATACCCTCGAAG 1 GGTAAAATGAC-GAAATACCCTCGAAG * * 12785193 GATAAAATGACCGGAATA-CCTCCGAAG 1 GGTAAAATGA-CGAAATACCCT-CGAAG * * 12785220 GGTAAAATGATCGAAATACCCTTGAAA 1 GGTAAAATGA-CGAAATACCCTCGAAG * 12785247 GGTAAAATGACCGAAATACCC-CCAGAG 1 GGTAAAATGA-CGAAATACCCTCGA-AG * * * 12785274 GGTAAAAAGATCAAAATATCCC-CAAAG 1 GGTAAAATGA-CGAAATA-CCCTCGAAG 12785301 GGTAAAATGACTGAAATACCCT 1 GGTAAAATGAC-GAAATACCCT 12785323 TATAAAGTAA Statistics Matches: 158, Mismatches: 17, Indels: 18 0.82 0.09 0.09 Matches are distributed among these distances: 26 9 0.06 27 139 0.88 28 10 0.06 ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18 Consensus pattern (26 bp): GGTAAAATGACGAAATACCCTCGAAG Found at i:12785219 original size:81 final size:81 Alignment explanation
Indices: 12785114--12785322 Score: 255 Period size: 81 Copynumber: 2.6 Consensus size: 81 12785104 CGATTCATGG * * * 12785114 TAAAATGACTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTG 1 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAAGGTAAAATGACCG 12785179 AAATACCCTCGAAGGA 66 AAATACCCTCGAAGGA * * 12785195 TAAAATGACCGGAATA-CCTCCGAAGGGTAAAATGATCGAAATACCCTTGAAAGGTAAAATGACC 1 TAAAATGACCGAAATACCCT-CGAAGGGTAAAATGATCGAAATACCCTCGAAAGGTAAAATGACC * * 12785259 GAAATACCC-CCAGAGGG 65 GAAATACCCTCGA-AGGA * * * * 12785276 TAAAAAGATCAAAATATCCC-CAAAGGGTAAAATGA-CTGAAATACCCT 1 TAAAATGACCGAAATA-CCCTCGAAGGGTAAAATGATC-GAAATACCCT 12785323 TATAAAGTAA Statistics Matches: 111, Mismatches: 12, Indels: 10 0.83 0.09 0.08 Matches are distributed among these distances: 80 6 0.05 81 103 0.93 83 2 0.02 ACGTcount: A:0.43, C:0.20, G:0.20, T:0.18 Consensus pattern (81 bp): TAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAAGGTAAAATGACCG AAATACCCTCGAAGGA Found at i:12791519 original size:38 final size:39 Alignment explanation
Indices: 12791467--12791542 Score: 109 Period size: 38 Copynumber: 2.0 Consensus size: 39 12791457 TATGTTAAAT * * 12791467 ATAACCCAAGAATCTGCAAC-AAGGCTAGATCTCATTAA 1 ATAACCCAAAAATCTACAACAAAGGCTAGATCTCATTAA * * 12791505 ATAACCCAAAAATCTATAACAAATGCTAGATCTCATTA 1 ATAACCCAAAAATCTACAACAAAGGCTAGATCTCATTA 12791543 TAACCTGTAA Statistics Matches: 33, Mismatches: 4, Indels: 1 0.87 0.11 0.03 Matches are distributed among these distances: 38 17 0.52 39 16 0.48 ACGTcount: A:0.45, C:0.22, G:0.09, T:0.24 Consensus pattern (39 bp): ATAACCCAAAAATCTACAACAAAGGCTAGATCTCATTAA Found at i:12793256 original size:27 final size:28 Alignment explanation
Indices: 12793210--12793262 Score: 74 Period size: 27 Copynumber: 1.9 Consensus size: 28 12793200 AATAAAAAAA 12793210 TTTAAAAATTAAAAATTAAAA-ATATTT 1 TTTAAAAATTAAAAATTAAAATATATTT * 12793237 TTTAAAAA-TAAAATTATAAAATATAT 1 TTTAAAAATTAAAAAT-TAAAATATAT 12793263 AAGTGTAAAT Statistics Matches: 23, Mismatches: 1, Indels: 3 0.85 0.04 0.11 Matches are distributed among these distances: 26 6 0.26 27 13 0.57 28 4 0.17 ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40 Consensus pattern (28 bp): TTTAAAAATTAAAAATTAAAATATATTT Found at i:12793257 original size:26 final size:27 Alignment explanation
Indices: 12793210--12793260 Score: 79 Period size: 26 Copynumber: 1.9 Consensus size: 27 12793200 AATAAAAAAA 12793210 TTTAAAAATTAAAAATTAAAAATATTT 1 TTTAAAAATTAAAAATTAAAAATATTT 12793237 TTTAAAAA-T-AAAATTATAAAATAT 1 TTTAAAAATTAAAAATTA-AAAATAT 12793261 ATAAGTGTAA Statistics Matches: 23, Mismatches: 0, Indels: 3 0.88 0.00 0.12 Matches are distributed among these distances: 25 7 0.30 26 8 0.35 27 8 0.35 ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39 Consensus pattern (27 bp): TTTAAAAATTAAAAATTAAAAATATTT Found at i:12793310 original size:37 final size:35 Alignment explanation
Indices: 12793269--12793352 Score: 87 Period size: 37 Copynumber: 2.3 Consensus size: 35 12793259 ATATAAGTGT * 12793269 AAATTCTAAAAAAACATATAATATATGAAATTTAAAA 1 AAATT-TAAAAAAACAAATAATAT-TGAAATTTAAAA * *** * 12793306 AAATTATAAATATTTAAATAATATTTAAATTTAAAA 1 AAATT-TAAAAAAACAAATAATATTGAAATTTAAAA 12793342 AAATTTAAAAA 1 AAATTTAAAAA 12793353 CATATATTTT Statistics Matches: 39, Mismatches: 8, Indels: 2 0.80 0.16 0.04 Matches are distributed among these distances: 35 5 0.13 36 16 0.41 37 18 0.46 ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35 Consensus pattern (35 bp): AAATTTAAAAAAACAAATAATATTGAAATTTAAAA Found at i:12793324 original size:25 final size:27 Alignment explanation
Indices: 12793268--12793324 Score: 66 Period size: 25 Copynumber: 2.2 Consensus size: 27 12793258 TATATAAGTG 12793268 TAAATTCTAAAAAAACATATAATATAT 1 TAAATTCTAAAAAAACATATAATATAT * * 12793295 GAAATT-TAAAAAAA-TTATAA-ATATT 1 TAAATTCTAAAAAAACATATAATATA-T 12793320 TAAAT 1 TAAAT 12793325 AATATTTAAA Statistics Matches: 26, Mismatches: 3, Indels: 4 0.79 0.09 0.12 Matches are distributed among these distances: 24 3 0.12 25 10 0.38 26 8 0.31 27 5 0.19 ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35 Consensus pattern (27 bp): TAAATTCTAAAAAAACATATAATATAT Found at i:12793339 original size:17 final size:16 Alignment explanation
Indices: 12793296--12793350 Score: 65 Period size: 16 Copynumber: 3.2 Consensus size: 16 12793286 ATAATATATG 12793296 AAATTTAAAAAAATTAT 1 AAATTTAAAAAAATT-T * 12793313 AAATATTTAAATAATATTT 1 -AA-ATTTAAA-AAAATTT 12793332 AAATTTAAAAAAATTT 1 AAATTTAAAAAAATTT 12793348 AAA 1 AAA 12793351 AACATATATT Statistics Matches: 33, Mismatches: 2, Indels: 6 0.80 0.05 0.15 Matches are distributed among these distances: 16 9 0.27 17 7 0.21 18 4 0.12 19 8 0.24 20 5 0.15 ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38 Consensus pattern (16 bp): AAATTTAAAAAAATTT Found at i:12794263 original size:109 final size:109 Alignment explanation
Indices: 12794072--12794292 Score: 318 Period size: 109 Copynumber: 2.0 Consensus size: 109 12794062 ATCACATGCA * * ** 12794072 TATGCTTGTGAAAACTTAAAACACAAATTCTTGTTTAAAAATAACATACAATAAACAATGACTGG 1 TATGCGTGTGAAAACGTAAAACACAAATTCTTGTTTAAAAATAACATACAATAAACAATGACCCG 12794137 TATGGTTTGAAACTAATTATGCAACTAATGTAGATAATAAATGG 66 TATGGTTTGAAACTAATTATGCAACTAATGTAGATAATAAATGG * * * * * 12794181 TATGCGTGTGAAAACGTAAAACACGAATGT-TTGTTTAAAAGTAACATATAATAAGCAATGTCCC 1 TATGCGTGTGAAAACGTAAAACACAAAT-TCTTGTTTAAAAATAACATACAATAAACAATGACCC ** * 12794245 GTATGGTTTGAAACTAATTATGCAACTGGTGTAGATAATAAATTG 65 GTATGGTTTGAAACTAATTATGCAACTAATGTAGATAATAAATGG 12794290 TAT 1 TAT 12794293 ATATTAAAAA Statistics Matches: 99, Mismatches: 12, Indels: 2 0.88 0.11 0.02 Matches are distributed among these distances: 109 98 0.99 110 1 0.01 ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32 Consensus pattern (109 bp): TATGCGTGTGAAAACGTAAAACACAAATTCTTGTTTAAAAATAACATACAATAAACAATGACCCG TATGGTTTGAAACTAATTATGCAACTAATGTAGATAATAAATGG Found at i:12797802 original size:16 final size:16 Alignment explanation
Indices: 12797781--12797811 Score: 62 Period size: 16 Copynumber: 1.9 Consensus size: 16 12797771 CACTAGAATT 12797781 GAATAGAGTTGTAATG 1 GAATAGAGTTGTAATG 12797797 GAATAGAGTTGTAAT 1 GAATAGAGTTGTAAT 12797812 TAGTAAATCA Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 15 1.00 ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32 Consensus pattern (16 bp): GAATAGAGTTGTAATG Found at i:12798167 original size:18 final size:18 Alignment explanation
Indices: 12798144--12798183 Score: 71 Period size: 18 Copynumber: 2.2 Consensus size: 18 12798134 ATTAATATAT 12798144 ATTAATATTTTATATTAA 1 ATTAATATTTTATATTAA * 12798162 ATTAATATTTTATCTTAA 1 ATTAATATTTTATATTAA 12798180 ATTA 1 ATTA 12798184 TTTAAAATAT Statistics Matches: 21, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 18 21 1.00 ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55 Consensus pattern (18 bp): ATTAATATTTTATATTAA Found at i:12799623 original size:345 final size:343 Alignment explanation
Indices: 12798995--12799677 Score: 1082 Period size: 345 Copynumber: 2.0 Consensus size: 343 12798985 AGTCAGTGCA * * * 12798995 AAAGACATTTTTGTAAATATGATGCAGAGTGAATTTAAGATAAGTATGATGGGTGAATTGTCATA 1 AAAGACATTTTTGTAAATATGATGCAGAGCGAATTCAAGATAAATATGATGGGTGAATTGTCATA * * 12799060 CTTTCTTGGGTTTTAGATTAAGGAGATCGGATATGGTACTTTTCTCTTGTAGAAGTATGTGAATA 66 CTTTCTTGGGTTTTAGATTAAGGAGATCGGATATGGTACTTTTCTCTTGAAGAAGTATGTGAAGA * * * * 12799125 ACTTAATAAAGAAGTTTGGTACGGAGAGTTGTAAGCCTACCAGGACTCCTTTGTTTATAAATGAA 131 ACTTAATAAAGAAGTTTAGTACGGAGAATTGTAAGCCTACCAGGACTCCTTTATCTATAAATGAA * * 12799190 AAAATAAGTGCAGATGCAACGAAAGCCCCACTTTTGATACCACTTATAGAAGCATACTTGAAAGT 196 AAAATAAGCGCAGATGCAACGAAAGCCCCACTTTCGATACCACTTATAGAAGCATACTTGAAAGT 12799255 CTGTTATATCTCGTTACAAGCCTGTTGGGATCTAGTGCCCTTAGTATAGTTTTCCTTCATATGTA 261 CTGTTATATCTCGTTACAAGCCTGTTGGGATCTAGTGCCCTTAGTATAGTTTTCCTTCATATGTA * 12799320 TTTGTAA-TTTTTCTGCG 326 CTTGTAAGTTTTTCTGCG 12799337 AAAGACATTTTTGTAAATATGATGCAGAGCGAATTCAAGATAAATATGATGGGTGAATTGTCATA 1 AAAGACATTTTTGTAAATATGATGCAGAGCGAATTCAAGATAAATATGATGGGTGAATTGTCATA * 12799402 CTTTCTTGGGTTTTAGATTAAGGAGATGGGATATGGTACTTTTCTCTTGCAGAAGAAGTATGTGA 66 CTTTCTTGGGTTTTAGATTAAGGAGATCGGATATGGTACTTTTCTCTT---GAAGAAGTATGTGA * * ** * * 12799467 GGAACTTAATAAAGAAGTTTAGTATGGAGAATTGTAAGTTTACTAGGACT-CTCTTATCTATAAG 128 AGAACTTAATAAAGAAGTTTAGTACGGAGAATTGTAAGCCTACCAGGACTCCT-TTATCTATAAA * * * * * * 12799531 TGAGAAAATAAGCGTAGATGCAACGAGAGCCCCACTTTCGATATCACTTATAGAAGTATACTTGG 192 TGAAAAAATAAGCGCAGATGCAACGAAAGCCCCACTTTCGATACCACTTATAGAAGCATACTTGA * 12799596 AAGTTTGTTATATCTCGTTACAAGCCTGTTGGGATCTAGTGCCCTTAGTATAGTTTTCCTTCATA 257 AAGTCTGTTATATCTCGTTACAAGCCTGTTGGGATCTAGTGCCCTTAGTATAGTTTTCCTTCATA 12799661 TGTACTTGTAAGTTTTT 322 TGTACTTGTAAGTTTTT 12799678 TGAAAAGATT Statistics Matches: 310, Mismatches: 26, Indels: 6 0.91 0.08 0.02 Matches are distributed among these distances: 342 109 0.35 344 2 0.01 345 194 0.63 346 5 0.02 ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35 Consensus pattern (343 bp): AAAGACATTTTTGTAAATATGATGCAGAGCGAATTCAAGATAAATATGATGGGTGAATTGTCATA CTTTCTTGGGTTTTAGATTAAGGAGATCGGATATGGTACTTTTCTCTTGAAGAAGTATGTGAAGA ACTTAATAAAGAAGTTTAGTACGGAGAATTGTAAGCCTACCAGGACTCCTTTATCTATAAATGAA AAAATAAGCGCAGATGCAACGAAAGCCCCACTTTCGATACCACTTATAGAAGCATACTTGAAAGT CTGTTATATCTCGTTACAAGCCTGTTGGGATCTAGTGCCCTTAGTATAGTTTTCCTTCATATGTA CTTGTAAGTTTTTCTGCG Found at i:12801998 original size:29 final size:28 Alignment explanation
Indices: 12801961--12802015 Score: 76 Period size: 29 Copynumber: 1.9 Consensus size: 28 12801951 ATAATTTTAG * 12801961 ATTTATATATATTTGTTTTTATAAAATAAA 1 ATTTATATATATTT-TTTAT-TAAAATAAA 12801991 ATTT-TATATATTTTTTATTAAAATA 1 ATTTATATATATTTTTTATTAAAATA 12802016 CCACGCGACA Statistics Matches: 24, Mismatches: 1, Indels: 3 0.86 0.04 0.11 Matches are distributed among these distances: 27 7 0.29 28 4 0.17 29 9 0.38 30 4 0.17 ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56 Consensus pattern (28 bp): ATTTATATATATTTTTTATTAAAATAAA Found at i:12802006 original size:27 final size:30 Alignment explanation
Indices: 12801961--12802015 Score: 73 Period size: 27 Copynumber: 1.9 Consensus size: 30 12801951 ATAATTTTAG 12801961 ATTTATATATATTTGTTTTTA-TAAAATAAA 1 ATTTATATATA-TTGTTTTTATTAAAATAAA 12801991 ATTT-TATATA-T-TTTTTATTAAAATA 1 ATTTATATATATTGTTTTTATTAAAATA 12802016 CCACGCGACA Statistics Matches: 24, Mismatches: 0, Indels: 5 0.83 0.00 0.17 Matches are distributed among these distances: 26 6 0.25 27 8 0.33 29 6 0.25 30 4 0.17 ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56 Consensus pattern (30 bp): ATTTATATATATTGTTTTTATTAAAATAAA Found at i:12815688 original size:14 final size:13 Alignment explanation
Indices: 12815669--12815698 Score: 51 Period size: 14 Copynumber: 2.2 Consensus size: 13 12815659 GGGCTCACAA 12815669 AAAATAATAAAATC 1 AAAATAATAAAA-C 12815683 AAAATAATAAAAC 1 AAAATAATAAAAC 12815696 AAA 1 AAA 12815699 GTCTAAGTCC Statistics Matches: 16, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 13 4 0.25 14 12 0.75 ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17 Consensus pattern (13 bp): AAAATAATAAAAC Found at i:12815828 original size:21 final size:20 Alignment explanation
Indices: 12815803--12815859 Score: 98 Period size: 21 Copynumber: 2.9 Consensus size: 20 12815793 TAATCTTCAA 12815803 GTATATGCAATCTTAGATAT 1 GTATATGCAATCTTAGATAT 12815823 GATATATGCAATCTTAGATAT 1 G-TATATGCAATCTTAGATAT 12815844 G-ATATGCAATCTTAGA 1 GTATATGCAATCTTAGA 12815860 AGATATGATT Statistics Matches: 36, Mismatches: 0, Indels: 3 0.92 0.00 0.08 Matches are distributed among these distances: 19 15 0.42 20 1 0.03 21 20 0.56 ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37 Consensus pattern (20 bp): GTATATGCAATCTTAGATAT Found at i:12816626 original size:23 final size:22 Alignment explanation
Indices: 12816596--12816639 Score: 79 Period size: 23 Copynumber: 2.0 Consensus size: 22 12816586 ATAATTCACA 12816596 TACATATATATATTTCTTATATG 1 TACATATATATATTT-TTATATG 12816619 TACATATATATATTTTTATAT 1 TACATATATATATTTTTATAT 12816640 TTTATAATTT Statistics Matches: 21, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 22 6 0.29 23 15 0.71 ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55 Consensus pattern (22 bp): TACATATATATATTTTTATATG Found at i:12816825 original size:3 final size:3 Alignment explanation
Indices: 12816819--12816846 Score: 56 Period size: 3 Copynumber: 9.3 Consensus size: 3 12816809 ATCTTTTCAC 12816819 TAT TAT TAT TAT TAT TAT TAT TAT TAT T 1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T 12816847 CTTGTTCTTG Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 25 1.00 ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68 Consensus pattern (3 bp): TAT Found at i:12818475 original size:21 final size:21 Alignment explanation
Indices: 12818451--12818491 Score: 57 Period size: 20 Copynumber: 2.0 Consensus size: 21 12818441 GAAAAAAAAG 12818451 TGTACAAGCTTAAAA-AGGCTT 1 TGTA-AAGCTTAAAACAGGCTT * 12818472 TGTATAGCTTAAAACAGGCT 1 TGTAAAGCTTAAAACAGGCT 12818492 CCAAAGGCTT Statistics Matches: 18, Mismatches: 1, Indels: 2 0.86 0.05 0.10 Matches are distributed among these distances: 20 9 0.50 21 9 0.50 ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29 Consensus pattern (21 bp): TGTAAAGCTTAAAACAGGCTT Found at i:12820345 original size:22 final size:23 Alignment explanation
Indices: 12820304--12820346 Score: 61 Period size: 23 Copynumber: 1.9 Consensus size: 23 12820294 TTAGTTCTTG * 12820304 TTTTTTTTTTCTGTTCTTCCTTC 1 TTTTATTTTTCTGTTCTTCCTTC * 12820327 TTTTATTTTTCT-TTTTTCCT 1 TTTTATTTTTCTGTTCTTCCT 12820347 GCAATCAATT Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 22 7 0.39 23 11 0.61 ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77 Consensus pattern (23 bp): TTTTATTTTTCTGTTCTTCCTTC Found at i:12821017 original size:42 final size:42 Alignment explanation
Indices: 12820951--12821032 Score: 114 Period size: 42 Copynumber: 2.0 Consensus size: 42 12820941 GACTTAGGGC * 12820951 CACACGGGTAAGCACACAGACGTGTG-CCTAGGCCGTGTAAGT 1 CACACGGGTAAGCACACAGACGTGTGTCC-AAGCCGTGTAAGT * 12820993 CACACGGGTAAGGACAC-GATCGTGTGTCCAAGCCGTGTAA 1 CACACGGGTAAGCACACAGA-CGTGTGTCCAAGCCGTGTAA 12821033 CTCTCTATTT Statistics Matches: 36, Mismatches: 2, Indels: 4 0.86 0.05 0.10 Matches are distributed among these distances: 41 2 0.06 42 32 0.89 43 2 0.06 ACGTcount: A:0.27, C:0.26, G:0.30, T:0.17 Consensus pattern (42 bp): CACACGGGTAAGCACACAGACGTGTGTCCAAGCCGTGTAAGT Found at i:12830209 original size:25 final size:25 Alignment explanation
Indices: 12830163--12830291 Score: 70 Period size: 25 Copynumber: 5.2 Consensus size: 25 12830153 AAGCTCTTTC * * * * 12830163 GAGCCATATAACGGGAATCTCATGT 1 GAGCCATGTAACGAGAAGCTCATGA * * 12830188 GAGCCATGTAACAAGAAGCTCATAA 1 GAGCCATGTAACGAGAAGCTCATGA * 12830213 GAGCC--GTAATCGAGAAGCTCATGC 1 GAGCCATGTAA-CGAGAAGCTCATGA * * * ** 12830237 GATCCA-ATATCG-GAAAGCTCCGGA 1 GAGCCATGTAACGAG-AAGCTCATGA * * 12830261 GAGCCAT-TAATCGGGAAGCTCATGT 1 GAGCCATGTAA-CGAGAAGCTCATGA 12830286 GAGCCA 1 GAGCCA 12830292 ATTATCGGGA Statistics Matches: 78, Mismatches: 20, Indels: 12 0.71 0.18 0.11 Matches are distributed among these distances: 23 5 0.06 24 31 0.40 25 41 0.53 26 1 0.01 ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19 Consensus pattern (25 bp): GAGCCATGTAACGAGAAGCTCATGA Found at i:12830298 original size:25 final size:25 Alignment explanation
Indices: 12830202--12830339 Score: 95 Period size: 25 Copynumber: 5.6 Consensus size: 25 12830192 CATGTAACAA * * * * 12830202 GAAGCTCATAAGAGCC-GTAATCGA 1 GAAGCTCATGAGAGCCAATTATCGG * * 12830226 GAAGCTCATGCGATCCAA-TATCGG 1 GAAGCTCATGAGAGCCAATTATCGG * ** 12830250 AAAGCTCCGGAGAGCC-ATTAATCGG 1 GAAGCTCATGAGAGCCAATT-ATCGG * 12830275 GAAGCTCATGTGAGCCAATTATCGG 1 GAAGCTCATGAGAGCCAATTATCGG * * * * 12830300 GAAGCTCGTGAAAGCTAAATATCGG 1 GAAGCTCATGAGAGCCAATTATCGG * 12830325 GACA-CTCATAAGAGC 1 GA-AGCTCATGAGAGC 12830340 TGTGGTGTGT Statistics Matches: 86, Mismatches: 23, Indels: 9 0.73 0.19 0.08 Matches are distributed among these distances: 23 1 0.01 24 29 0.34 25 52 0.60 26 4 0.05 ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19 Consensus pattern (25 bp): GAAGCTCATGAGAGCCAATTATCGG Found at i:12839009 original size:5 final size:5 Alignment explanation
Indices: 12839001--12839033 Score: 50 Period size: 5 Copynumber: 6.6 Consensus size: 5 12838991 TATTATTGTA 12839001 AAAAG AAAAG AAAAG AAAAG AAAATG -AAAG AAA 1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAA 12839034 GAATAAAAAG Statistics Matches: 26, Mismatches: 0, Indels: 4 0.87 0.00 0.13 Matches are distributed among these distances: 4 1 0.04 5 24 0.92 6 1 0.04 ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03 Consensus pattern (5 bp): AAAAG Found at i:12843914 original size:15 final size:16 Alignment explanation
Indices: 12843882--12843914 Score: 50 Period size: 16 Copynumber: 2.1 Consensus size: 16 12843872 GAGTAGCGTT 12843882 AACGGTTAGATGAGCA 1 AACGGTTAGATGAGCA * 12843898 AACGGTTATAT-AGCA 1 AACGGTTAGATGAGCA 12843913 AA 1 AA 12843915 GCAGGGGTAT Statistics Matches: 16, Mismatches: 1, Indels: 1 0.89 0.06 0.06 Matches are distributed among these distances: 15 6 0.38 16 10 0.62 ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21 Consensus pattern (16 bp): AACGGTTAGATGAGCA Found at i:12844332 original size:3 final size:3 Alignment explanation
Indices: 12844324--12844350 Score: 54 Period size: 3 Copynumber: 9.0 Consensus size: 3 12844314 TTTCACAGAC 12844324 GAG GAG GAG GAG GAG GAG GAG GAG GAG 1 GAG GAG GAG GAG GAG GAG GAG GAG GAG 12844351 AAGAAGAAGC Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 24 1.00 ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00 Consensus pattern (3 bp): GAG Found at i:12857541 original size:42 final size:42 Alignment explanation
Indices: 12857399--12857650 Score: 251 Period size: 42 Copynumber: 5.9 Consensus size: 42 12857389 TTACAAAATT 12857399 AAACGCCGCTAAATG-TCATGTTCTTTAGCGGCGCTTAGG--AA 1 AAACGCCGCTAAA-GATCATGTTCTTTAGCGGCGCTT-GGTTAA * ** ** 12857440 ACAGACTCCGCTAAAGATCATGTTCTTTAGGTAGCGGCGCTTTCTTCGC 1 A-A-ACGCCGCTAAAGATCATGTTC-TT---TAGCGGCGCTTGGTT-AA 12857489 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTTAA 1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTTAA * * 12857531 AAACGCCGCTAAAGATCATGTTCTTTAGAGGCGCTTGGTAAA 1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTTAA * * ** * 12857573 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTATTCAC 1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTT-AA * * * 12857616 TAACGCCACTAAAGA-CATGATCTTTAGCGGCGCTT 1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT 12857651 TTATAAAAAA Statistics Matches: 179, Mismatches: 21, Indels: 21 0.81 0.10 0.10 Matches are distributed among these distances: 41 1 0.01 42 96 0.54 43 45 0.25 44 2 0.01 46 2 0.01 47 31 0.17 48 1 0.01 49 1 0.01 ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27 Consensus pattern (42 bp): AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTTAA Found at i:12857667 original size:42 final size:42 Alignment explanation
Indices: 12857489--12857669 Score: 193 Period size: 42 Copynumber: 4.3 Consensus size: 42 12857479 CTTTCTTCGC * * ** * 12857489 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTTAA 1 AAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTTATAAA * * * ** 12857531 AAACGCCGCTAAAGATCATGTTCTTTAGAGGCGCTTGGTAAA 1 AAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTTATAAA * * * * 12857573 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTATTCAC 1 AAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTTA-TAAA * 12857616 TAACGCCACTAAAGA-CATGATCTTTAGCGGCGCTTTTATAAA 1 AAACGCCACTAAAGATCATGATCTTTAGCGGCGC-TTTATAAA * 12857658 AAACACCACTAA 1 AAACGCCACTAA 12857670 TTTTGGGATT Statistics Matches: 122, Mismatches: 15, Indels: 4 0.87 0.11 0.03 Matches are distributed among these distances: 42 103 0.84 43 19 0.16 ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26 Consensus pattern (42 bp): AAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTTATAAA Found at i:12858060 original size:66 final size:66 Alignment explanation
Indices: 12857972--12858106 Score: 225 Period size: 66 Copynumber: 2.0 Consensus size: 66 12857962 TTCTGCTCTG * * * 12857972 CTCTGCTTCTCTCGATGTCGCATCTGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCTTTTGAA 1 CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCCTTTGAA 12858037 C 66 C * * 12858038 CTCTGCTTCCCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA 1 CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCCTTTGAA 12858103 C 66 C 12858104 CTC 1 CTC 12858107 AACTGTGGTC Statistics Matches: 64, Mismatches: 5, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 66 64 1.00 ACGTcount: A:0.14, C:0.27, G:0.18, T:0.41 Consensus pattern (66 bp): CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCCTTTGAA C Found at i:12859220 original size:41 final size:41 Alignment explanation
Indices: 12859117--12859225 Score: 155 Period size: 41 Copynumber: 2.7 Consensus size: 41 12859107 TTTAACATAT * * * 12859117 TCACCGGCACTTAACCTGCTAAGCTTATAGCCTGATTCAGA 1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA * * * 12859158 TCACCGGAACTTAGCCTGCTAGGTTTATAACCTGGTTCAGA 1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA * 12859199 TCACCGGCACTTAGCCTGCTAGACTTA 1 TCACCGGCACTTAGCCTGCTAGGCTTA 12859226 AAGTCCGAAA Statistics Matches: 59, Mismatches: 9, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 41 59 1.00 ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28 Consensus pattern (41 bp): TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA Found at i:12859902 original size:115 final size:114 Alignment explanation
Indices: 12859707--12860046 Score: 554 Period size: 115 Copynumber: 3.0 Consensus size: 114 12859697 TCATATATAC * * 12859707 ATATTCGAACTTCATTAATGCTTATATATAACATTCATACTTAACTAATTTCAATTTATATACTT 1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT 12859772 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT 66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT * * * 12859821 ATATTCGAACTTCATTTATTCATATATATAACATTCACACATTAACTAATTTCAATTTGTATACT 1 ATATTCGAACTTCATTTATGCATATATATAACATTCATAC-TTAACTAATTTCAATTTATATACT * 12859886 TTCAATTATAGCTCATCAAATATACAATAGATATGCATATATATTTACAT 65 TTCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT * * * 12859936 ATATTCAAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTCATATATTT 1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT * * * * 12860001 TTAATTATAGCTCATAAAATATAAAATAAATATACATATATATTTA 66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTA 12860047 TGCTGATTTG Statistics Matches: 208, Mismatches: 17, Indels: 2 0.92 0.07 0.01 Matches are distributed among these distances: 114 99 0.48 115 109 0.52 ACGTcount: A:0.41, C:0.14, G:0.03, T:0.41 Consensus pattern (114 bp): ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT Found at i:12861038 original size:13 final size:13 Alignment explanation
Indices: 12861020--12861044 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 12861010 CAATCAAATG 12861020 CACACAAAATAAA 1 CACACAAAATAAA 12861033 CACACAAAATAA 1 CACACAAAATAA 12861045 TATTAAAATA Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08 Consensus pattern (13 bp): CACACAAAATAAA Found at i:12865374 original size:16 final size:16 Alignment explanation
Indices: 12865349--12865381 Score: 57 Period size: 16 Copynumber: 2.1 Consensus size: 16 12865339 CAGCTCTGAA * 12865349 ATTATGTAAGTTATGT 1 ATTATATAAGTTATGT 12865365 ATTATATAAGTTATGT 1 ATTATATAAGTTATGT 12865381 A 1 A 12865382 AGTTACGTAT Statistics Matches: 16, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 16 16 1.00 ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48 Consensus pattern (16 bp): ATTATATAAGTTATGT Found at i:12865384 original size:25 final size:25 Alignment explanation
Indices: 12865350--12865428 Score: 104 Period size: 25 Copynumber: 3.2 Consensus size: 25 12865340 AGCTCTGAAA * 12865350 TTATGTAAGTTATGTATTATATAAG 1 TTATGTAAGTTATGTATTATGTAAG * 12865375 TTATGTAAGTTACGTATTATGTAAG 1 TTATGTAAGTTATGTATTATGTAAG * * * * 12865400 CTATGTAAGTTGTATTTTATGTAAG 1 TTATGTAAGTTATGTATTATGTAAG 12865425 TTAT 1 TTAT 12865429 TTATTATGTA Statistics Matches: 46, Mismatches: 8, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 25 46 1.00 ACGTcount: A:0.32, C:0.03, G:0.18, T:0.48 Consensus pattern (25 bp): TTATGTAAGTTATGTATTATGTAAG Found at i:12865394 original size:41 final size:41 Alignment explanation
Indices: 12865375--12865506 Score: 219 Period size: 41 Copynumber: 3.2 Consensus size: 41 12865365 ATTATATAAG ** 12865375 TTATGTAAGTTACGTATTATGTAAGCTATGTAAGTTGTATT 1 TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTATT 12865416 TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTATT 1 TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTATT * * * 12865457 TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTATGTA 1 TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTATT 12865498 TTATGTAAG 1 TTATGTAAG 12865507 CTATGTCATA Statistics Matches: 86, Mismatches: 5, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 41 86 1.00 ACGTcount: A:0.30, C:0.03, G:0.18, T:0.48 Consensus pattern (41 bp): TTATGTAAGTTATTTATTATGTAAGCTATGTAAGTTGTATT Found at i:12865445 original size:25 final size:25 Alignment explanation
Indices: 12865417--12865465 Score: 73 Period size: 25 Copynumber: 2.0 Consensus size: 25 12865407 AGTTGTATTT 12865417 TATGTAAGTTAT-TTATTATGTAAGC 1 TATGTAAGTTATATT-TTATGTAAGC * 12865442 TATGTAAGTTGTATTTTATGTAAG 1 TATGTAAGTTATATTTTATGTAAG 12865466 TTATTTATTA Statistics Matches: 22, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 25 20 0.91 26 2 0.09 ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49 Consensus pattern (25 bp): TATGTAAGTTATATTTTATGTAAGC Found at i:12865479 original size:25 final size:25 Alignment explanation
Indices: 12865430--12865504 Score: 50 Period size: 25 Copynumber: 3.1 Consensus size: 25 12865420 GTAAGTTATT * * * 12865430 TATTATGTAAGCTATGTAAGTTGTA 1 TATTATGTAAGTTATGTAAGTTATG * * 12865455 TTTTATGTAAGTTAT-TTA-TTATG 1 TATTATGTAAGTTATGTAAGTTATG * 12865478 TAAGCTATGTAAGTTATGT-A-TTATG 1 T-A-TTATGTAAGTTATGTAAGTTATG 12865503 TA 1 TA 12865505 AGCTATGTCA Statistics Matches: 40, Mismatches: 7, Indels: 7 0.74 0.13 0.13 Matches are distributed among these distances: 23 4 0.10 24 3 0.08 25 32 0.80 26 1 0.03 ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49 Consensus pattern (25 bp): TATTATGTAAGTTATGTAAGTTATG Found at i:12865505 original size:25 final size:25 Alignment explanation
Indices: 12865458--12865512 Score: 101 Period size: 25 Copynumber: 2.2 Consensus size: 25 12865448 AGTTGTATTT * 12865458 TATGTAAGTTATTTATTATGTAAGC 1 TATGTAAGTTATGTATTATGTAAGC 12865483 TATGTAAGTTATGTATTATGTAAGC 1 TATGTAAGTTATGTATTATGTAAGC 12865508 TATGT 1 TATGT 12865513 CATAGACTTT Statistics Matches: 29, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 25 29 1.00 ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47 Consensus pattern (25 bp): TATGTAAGTTATGTATTATGTAAGC Found at i:12865555 original size:18 final size:16 Alignment explanation
Indices: 12865401--12865566 Score: 66 Period size: 16 Copynumber: 10.6 Consensus size: 16 12865391 TTATGTAAGC 12865401 TATGTAAGTTGTATTT 1 TATGTAAGTTGTATTT 12865417 TATGTAAG-T-TA-TT 1 TATGTAAGTTGTATTT *** 12865430 TAT-T-A--TGTAAGC 1 TATGTAAGTTGTATTT 12865442 TATGTAAGTTGTATTT 1 TATGTAAGTTGTATTT * 12865458 TATGTAAGTTAT-TTAT 1 TATGTAAGTTGTATT-T ** 12865474 TATGTAAGCTATGTAAGT 1 TATGTAAG-T-TGTATTT * *** 12865492 TATGT-ATTATGTAAGC 1 TATGTAAGT-TGTATTT * 12865508 TATGTCATAGACT-T-TTT 1 TATGT-A-AG-TTGTATTT 12865525 TATGTAAGTTGTATTT 1 TATGTAAGTTGTATTT * * 12865541 TATGTAAGTTGTGTAT 1 TATGTAAGTTGTATTT * 12865557 TATGTGAGTT 1 TATGTAAGTT 12865567 ATTTAAGTTA Statistics Matches: 114, Mismatches: 20, Indels: 32 0.69 0.12 0.19 Matches are distributed among these distances: 10 1 0.01 11 3 0.03 12 4 0.04 13 6 0.05 14 4 0.04 15 6 0.05 16 72 0.63 17 7 0.06 18 9 0.08 19 2 0.02 ACGTcount: A:0.28, C:0.03, G:0.19, T:0.51 Consensus pattern (16 bp): TATGTAAGTTGTATTT Found at i:12865802 original size:30 final size:30 Alignment explanation
Indices: 12865761--12865822 Score: 79 Period size: 30 Copynumber: 2.1 Consensus size: 30 12865751 ACATAAATTA * 12865761 TGAAATCTGATCGTAAGATTTTGCAAGTTT 1 TGAAATCTGATCGTAAGATTATGCAAGTTT * * * * 12865791 TGAAATTTGATCTTAATATTATGTAAGTTT 1 TGAAATCTGATCGTAAGATTATGCAAGTTT 12865821 TG 1 TG 12865823 TATTAAGCAA Statistics Matches: 27, Mismatches: 5, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 30 27 1.00 ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45 Consensus pattern (30 bp): TGAAATCTGATCGTAAGATTATGCAAGTTT Found at i:12867707 original size:19 final size:19 Alignment explanation
Indices: 12867664--12867708 Score: 56 Period size: 19 Copynumber: 2.4 Consensus size: 19 12867654 CTGGACTACG 12867664 TTGGGGAACTGTTAGGGAT 1 TTGGGGAACTGTTAGGGAT * * 12867683 TAGGGGAA-TTTTAGGGATT 1 TTGGGGAACTGTTAGGGA-T 12867702 TTGGGGA 1 TTGGGGA 12867709 GATGAGAGTT Statistics Matches: 22, Mismatches: 3, Indels: 2 0.81 0.11 0.07 Matches are distributed among these distances: 18 8 0.36 19 14 0.64 ACGTcount: A:0.22, C:0.02, G:0.42, T:0.33 Consensus pattern (19 bp): TTGGGGAACTGTTAGGGAT Found at i:12868473 original size:26 final size:26 Alignment explanation
Indices: 12868434--12868484 Score: 84 Period size: 26 Copynumber: 2.0 Consensus size: 26 12868424 CGGCGTCGTT 12868434 TTCATGAATACAATTTAACACTAAAG 1 TTCATGAATACAATTTAACACTAAAG * * 12868460 TTCATGAATTCAATTTAACATTAAA 1 TTCATGAATACAATTTAACACTAAA 12868485 CCATCCTTAA Statistics Matches: 23, Mismatches: 2, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 26 23 1.00 ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35 Consensus pattern (26 bp): TTCATGAATACAATTTAACACTAAAG Found at i:12868804 original size:14 final size:14 Alignment explanation
Indices: 12868766--12868798 Score: 50 Period size: 14 Copynumber: 2.4 Consensus size: 14 12868756 TCAAACTTAA * 12868766 AAACCC-AAATCAC 1 AAACCCTAAACCAC 12868779 AAACCCTAAACCAC 1 AAACCCTAAACCAC 12868793 AAACCC 1 AAACCC 12868799 CTAACCCCGA Statistics Matches: 18, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 13 6 0.33 14 12 0.67 ACGTcount: A:0.52, C:0.42, G:0.00, T:0.06 Consensus pattern (14 bp): AAACCCTAAACCAC Found at i:12869105 original size:14 final size:14 Alignment explanation
Indices: 12869058--12869120 Score: 58 Period size: 15 Copynumber: 4.5 Consensus size: 14 12869048 ATTAATCTAG * 12869058 ACCCTAAACCCT-A 1 ACCCTAACCCCTAA * 12869071 ACCC-GACCCCTATA 1 ACCCTAACCCCTA-A * 12869085 ACACTAACCCCTAA 1 ACCCTAACCCCTAA 12869099 ACCCTAAACCCCTAA 1 ACCCT-AACCCCTAA * 12869114 CCCCTAA 1 ACCCTAA 12869121 GCATCTCACT Statistics Matches: 40, Mismatches: 6, Indels: 7 0.75 0.11 0.13 Matches are distributed among these distances: 12 5 0.12 13 4 0.10 14 11 0.28 15 20 0.50 ACGTcount: A:0.37, C:0.48, G:0.02, T:0.14 Consensus pattern (14 bp): ACCCTAACCCCTAA Found at i:12869495 original size:14 final size:14 Alignment explanation
Indices: 12869476--12869515 Score: 53 Period size: 14 Copynumber: 2.9 Consensus size: 14 12869466 TTGTTTGGCA 12869476 GTAAAATGTTTTCC 1 GTAAAATGTTTTCC * * 12869490 GTAAAATGATTTCT 1 GTAAAATGTTTTCC * 12869504 GGAAAATGTTTT 1 GTAAAATGTTTT 12869516 ACTTTTCTGT Statistics Matches: 22, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 14 22 1.00 ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42 Consensus pattern (14 bp): GTAAAATGTTTTCC Found at i:12869524 original size:20 final size:20 Alignment explanation
Indices: 12869499--12869538 Score: 62 Period size: 20 Copynumber: 2.0 Consensus size: 20 12869489 CGTAAAATGA * 12869499 TTTCTGGAAAATGTTTTACT 1 TTTCTGGAAAATGATTTACT * 12869519 TTTCTGTAAAATGATTTACT 1 TTTCTGGAAAATGATTTACT 12869539 GGAAAATATT Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 20 18 1.00 ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50 Consensus pattern (20 bp): TTTCTGGAAAATGATTTACT Found at i:12869528 original size:34 final size:35 Alignment explanation
Indices: 12869484--12869550 Score: 109 Period size: 34 Copynumber: 1.9 Consensus size: 35 12869474 CAGTAAAATG * 12869484 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC 1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC * 12869518 TTTTCTGTAAAATGATTTACTGGAAAATATTTT 1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT 12869551 CTGGTGTTTG Statistics Matches: 30, Mismatches: 2, Indels: 1 0.91 0.06 0.03 Matches are distributed among these distances: 34 17 0.57 35 13 0.43 ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46 Consensus pattern (35 bp): TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC Found at i:12869554 original size:14 final size:15 Alignment explanation
Indices: 12869478--12869554 Score: 52 Period size: 14 Copynumber: 5.0 Consensus size: 15 12869468 GTTTGGCAGT * * 12869478 AAAATG-TTTTCCGT 1 AAAATGATTTTCTGG 12869492 AAAATGA-TTTCTGG 1 AAAATGATTTTCTGG * 12869506 AAAATGTTTTACTTTTCTGT 1 AAAATG----A-TTTTCTGG * 12869526 AAAATGATTTACTGG 1 AAAATGATTTTCTGG 12869541 AAAAT-ATTTTCTGG 1 AAAATGATTTTCTGG 12869555 TGTTTGGTAA Statistics Matches: 50, Mismatches: 6, Indels: 14 0.71 0.09 0.20 Matches are distributed among these distances: 14 25 0.50 15 11 0.22 16 1 0.02 18 1 0.02 20 12 0.24 ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43 Consensus pattern (15 bp): AAAATGATTTTCTGG Found at i:12869609 original size:32 final size:31 Alignment explanation
Indices: 12869531--12869615 Score: 89 Period size: 32 Copynumber: 2.6 Consensus size: 31 12869521 TCTGTAAAAT * * 12869531 GATTTACTGGAAAATATTTTCTGGTGTTTGGTA 1 GATTT-CT-GAAAATATTTTCTGCTGTTTGGCA * * * 12869564 AATCTGTGTAAAATATTTTCTGCTGTTTGGCA 1 GATTTCTG-AAAATATTTTCTGCTGTTTGGCA 12869596 GATTTCCTGAAAATATTTTC 1 GATTT-CTGAAAATATTTTC 12869616 CGGAAAAGTT Statistics Matches: 42, Mismatches: 8, Indels: 5 0.76 0.15 0.09 Matches are distributed among these distances: 31 1 0.02 32 36 0.86 33 5 0.12 ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45 Consensus pattern (31 bp): GATTTCTGAAAATATTTTCTGCTGTTTGGCA Found at i:12869667 original size:14 final size:14 Alignment explanation
Indices: 12869648--12869675 Score: 56 Period size: 14 Copynumber: 2.0 Consensus size: 14 12869638 ATTTTACATA 12869648 TATTAATATATATT 1 TATTAATATATATT 12869662 TATTAATATATATT 1 TATTAATATATATT 12869676 AATAAATTAT Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 14 1.00 ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57 Consensus pattern (14 bp): TATTAATATATATT Found at i:12869676 original size:24 final size:25 Alignment explanation
Indices: 12869645--12869697 Score: 74 Period size: 24 Copynumber: 2.2 Consensus size: 25 12869635 TATATTTTAC * 12869645 ATATATTAATATA-TATTTATTA-AT 1 ATATATTAATAAATTATTT-TTACAT 12869669 ATATATTAATAAATTATTTTTACAT 1 ATATATTAATAAATTATTTTTACAT 12869694 ATAT 1 ATAT 12869698 TGCAATGATT Statistics Matches: 26, Mismatches: 1, Indels: 3 0.87 0.03 0.10 Matches are distributed among these distances: 24 15 0.58 25 11 0.42 ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53 Consensus pattern (25 bp): ATATATTAATAAATTATTTTTACAT Found at i:12869982 original size:71 final size:72 Alignment explanation
Indices: 12869866--12870008 Score: 261 Period size: 71 Copynumber: 2.0 Consensus size: 72 12869856 ATAATAATAT * 12869866 TATCCAAATACATAATTAATGGTACACCACATAATAACAACATTGT-CTAGTGCATAATATTACA 1 TATCCAAATACATAATTAATGGTACACCACATAATAACAACATTGTCCAAGTGCATAATATTACA 12869930 CCACATA 66 CCACATA * 12869937 TATCCAAATACATAATTAATGGTACACCACATAATAAGAACATTGTCCAAGTGCATAATATTACA 1 TATCCAAATACATAATTAATGGTACACCACATAATAACAACATTGTCCAAGTGCATAATATTACA 12870002 CCACATA 66 CCACATA 12870009 AAGGTATCAA Statistics Matches: 69, Mismatches: 2, Indels: 1 0.96 0.03 0.01 Matches are distributed among these distances: 71 45 0.65 72 24 0.35 ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27 Consensus pattern (72 bp): TATCCAAATACATAATTAATGGTACACCACATAATAACAACATTGTCCAAGTGCATAATATTACA CCACATA Found at i:12870996 original size:35 final size:36 Alignment explanation
Indices: 12870950--12871018 Score: 131 Period size: 35 Copynumber: 1.9 Consensus size: 36 12870940 ATTCAACCAT 12870950 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA 1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA 12870985 TTCAATATCCAACAAGCTTAAAACATAATCAATA 1 TTCAATATCCAACAAGCTTAAAACATAATCAATA 12871019 TCTAACAAAT Statistics Matches: 33, Mismatches: 0, Indels: 1 0.97 0.00 0.03 Matches are distributed among these distances: 35 29 0.88 36 4 0.12 ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26 Consensus pattern (36 bp): TTCAATATCCAACAAGCTTAAAACATAATCAATAAA Found at i:12871016 original size:27 final size:28 Alignment explanation
Indices: 12870986--12871055 Score: 81 Period size: 27 Copynumber: 2.5 Consensus size: 28 12870976 AATAATAAAT * 12870986 TCAATATCCAACAAGCTT-AAAACATA-A 1 TCAATATCCAACAA-ATTCAAAACATATA * * 12871013 TCAATATCTAACAAATTCAAGACATATA 1 TCAATATCCAACAAATTCAAAACATATA * 12871041 TCAAAATCCAACAAA 1 TCAATATCCAACAAA 12871056 CTAAAATTTC Statistics Matches: 36, Mismatches: 5, Indels: 3 0.82 0.11 0.07 Matches are distributed among these distances: 26 2 0.06 27 20 0.56 28 14 0.39 ACGTcount: A:0.53, C:0.21, G:0.03, T:0.23 Consensus pattern (28 bp): TCAATATCCAACAAATTCAAAACATATA Found at i:12872569 original size:15 final size:16 Alignment explanation
Indices: 12872549--12872581 Score: 59 Period size: 15 Copynumber: 2.1 Consensus size: 16 12872539 AGTGCCACTT 12872549 AAAATGAAAGCA-TGA 1 AAAATGAAAGCATTGA 12872564 AAAATGAAAGCATTGA 1 AAAATGAAAGCATTGA 12872580 AA 1 AA 12872582 GTACCACTTA Statistics Matches: 17, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 15 12 0.71 16 5 0.29 ACGTcount: A:0.61, C:0.06, G:0.18, T:0.15 Consensus pattern (16 bp): AAAATGAAAGCATTGA Found at i:12875195 original size:25 final size:25 Alignment explanation
Indices: 12875140--12875207 Score: 84 Period size: 25 Copynumber: 2.6 Consensus size: 25 12875130 AAGCTTTGAG 12875140 GAATGGAAAATGACTGCTGCTTAGAAGA 1 GAATGGAAAATG--T-CTGCTTAGAAGA 12875168 GAATGGAAAATGTCTGCTTAG-AGAA 1 GAATGGAAAATGTCTGCTTAGAAG-A * 12875193 GAATAGAAAATGTCT 1 GAATGGAAAATGTCT 12875208 TACCAATTTT Statistics Matches: 38, Mismatches: 1, Indels: 5 0.86 0.02 0.11 Matches are distributed among these distances: 24 2 0.05 25 23 0.61 26 1 0.03 28 12 0.32 ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24 Consensus pattern (25 bp): GAATGGAAAATGTCTGCTTAGAAGA Found at i:12876121 original size:113 final size:114 Alignment explanation
Indices: 12875635--12876121 Score: 664 Period size: 113 Copynumber: 4.3 Consensus size: 114 12875625 GCATTAACAG * * 12875635 CGCTTTTTCAGAAAACGCCACTAAAGGCCCAAAAACTCAGAAAAC-AGCGTCGTTGGCCTTAGGT 1 CGCTTTTT-AAAAAACGCCGCTAAAGGCCC-AAAACTCAGAAAACGAGCGTCGTTGGCCTTAGGT * **** * 12875699 TTTTTGCGGCGCTTTTTAGAAAACGCCGCTAAAG--GAAAGAGCATTAGCGG 64 TTTTTGCGACGCTTTTTAGAAAACGCCGCT-AAGTCCCCCGAGCATTAGCGA * * * 12875749 CGCTTTTGAAAAAACGCCGCTAAAGACCCAAAAACTTAGAAAACG-GCGTCGTTGGCCTTAGG-T 1 CGCTTTTTAAAAAACGCCGCTAAAGGCCC-AAAACTCAGAAAACGAGCGTCGTTGGCCTTAGGTT * * 12875812 TTTTGCGACGCTTTTTAGAAAACGCCTCTAAGTCCCCCGAGCATTAGCGG 65 TTTTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGA * * * * 12875862 CGCTTTTTAAAAACCACCGCTAAAGGCCCAAAACTCAGAAAA-TAGCGGCGTTGGCCTTAGGTTT 1 CGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAACTCAGAAAACGAGCGTCGTTGGCCTTAGGTTT ** * 12875926 TTTGCGACGCTTTTCGGAAAACGCCGCTAAGTCCCCCGAACATTAGCGA 66 TTTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGA * 12875975 CGCTTTTTAAAAAACGCCGTTAAAGGCCCAAAACTCAGAAAACGA-CGTCGTTGGCCTTAGGTTT 1 CGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAACTCAGAAAACGAGCGTCGTTGGCCTTAGGTTT **** 12876039 TTTGCGGTATTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGA 66 TTTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGA 12876088 CGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAAC 1 CGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAAC 12876122 GTTGGCCTTA Statistics Matches: 331, Mismatches: 36, Indels: 13 0.87 0.09 0.03 Matches are distributed among these distances: 111 3 0.01 112 56 0.17 113 264 0.80 114 8 0.02 ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24 Consensus pattern (114 bp): CGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAACTCAGAAAACGAGCGTCGTTGGCCTTAGGTTT TTTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGA Done.