Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Gbar_D05 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: 63323194 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32 Warning! 1953226 characters in sequence are not A, C, G, or T File 73 of 199 Found at i:26975560 original size:45 final size:45 Alignment explanation
Indices: 26975458--26975564 Score: 160 Period size: 45 Copynumber: 2.4 Consensus size: 45 26975448 TAATCAGTAA * * 26975458 CGGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT 1 CGGTAACAGTAATAGTAACAGTATTCAACACACAAAGTGCTGAAT * * ** 26975503 CTGTAACAGTAATGGTAACAGTATTCGCCACACAAAGTGCTGAAT 1 CGGTAACAGTAATAGTAACAGTATTCAACACACAAAGTGCTGAAT 26975548 CGGTAACAGTAATAGTA 1 CGGTAACAGTAATAGTA 26975565 GTTGGCACAT Statistics Matches: 54, Mismatches: 8, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 45 54 1.00 ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22 Consensus pattern (45 bp): CGGTAACAGTAATAGTAACAGTATTCAACACACAAAGTGCTGAAT Found at i:26979834 original size:6 final size:6 Alignment explanation
Indices: 26979818--26979850 Score: 52 Period size: 6 Copynumber: 5.8 Consensus size: 6 26979808 AGAAACTTTT 26979818 AATAA- AATAAG AATAAG AATAAG AATAA- AATAA 1 AATAAG AATAAG AATAAG AATAAG AATAAG AATAA 26979851 AAGATAAAAT Statistics Matches: 27, Mismatches: 0, Indels: 2 0.93 0.00 0.07 Matches are distributed among these distances: 5 10 0.37 6 17 0.63 ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18 Consensus pattern (6 bp): AATAAG Found at i:26979840 original size:12 final size:11 Alignment explanation
Indices: 26979818--26979860 Score: 59 Period size: 12 Copynumber: 3.7 Consensus size: 11 26979808 AGAAACTTTT 26979818 AATAAAATAAG 1 AATAAAATAAG 26979829 AATAAGAATAAG 1 AATAA-AATAAG * 26979841 AATAAAATAAA 1 AATAAAATAAG 26979852 AGATAAAAT 1 A-ATAAAAT 26979861 TTAAGGAAAC Statistics Matches: 29, Mismatches: 1, Indels: 3 0.88 0.03 0.09 Matches are distributed among these distances: 11 11 0.38 12 18 0.62 ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19 Consensus pattern (11 bp): AATAAAATAAG Found at i:26993672 original size:16 final size:16 Alignment explanation
Indices: 26993640--26993684 Score: 54 Period size: 16 Copynumber: 2.8 Consensus size: 16 26993630 GCAAACAACA * 26993640 AAAAAAATAGAAGAAG 1 AAAAAAATAAAAGAAG * 26993656 AAAAAAATAAAATAAG 1 AAAAAAATAAAAGAAG * 26993672 ATTAAAAATAAAA 1 A-AAAAAATAAAA 26993685 ATAAAAAATC Statistics Matches: 25, Mismatches: 3, Indels: 1 0.86 0.10 0.03 Matches are distributed among these distances: 16 15 0.60 17 10 0.40 ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13 Consensus pattern (16 bp): AAAAAAATAAAAGAAG Found at i:26998073 original size:24 final size:24 Alignment explanation
Indices: 26998046--26998092 Score: 69 Period size: 24 Copynumber: 2.0 Consensus size: 24 26998036 TGGAATTTTA * 26998046 TTTATCATTCACCAA-AAAGTATTG 1 TTTATCATCCACCAACAAA-TATTG 26998070 TTTATCATCCACCAACAAATATT 1 TTTATCATCCACCAACAAATATT 26998093 TAATATGCAT Statistics Matches: 21, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 24 18 0.86 25 3 0.14 ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36 Consensus pattern (24 bp): TTTATCATCCACCAACAAATATTG Found at i:27001030 original size:29 final size:29 Alignment explanation
Indices: 27000988--27001045 Score: 116 Period size: 29 Copynumber: 2.0 Consensus size: 29 27000978 ATTTTGAAGC 27000988 ACAATGGCTGTGTTAGTTTCTTCTTCTTT 1 ACAATGGCTGTGTTAGTTTCTTCTTCTTT 27001017 ACAATGGCTGTGTTAGTTTCTTCTTCTTT 1 ACAATGGCTGTGTTAGTTTCTTCTTCTTT 27001046 CTTTCCGTGT Statistics Matches: 29, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 29 29 1.00 ACGTcount: A:0.14, C:0.17, G:0.17, T:0.52 Consensus pattern (29 bp): ACAATGGCTGTGTTAGTTTCTTCTTCTTT Found at i:27008570 original size:19 final size:19 Alignment explanation
Indices: 27008528--27008570 Score: 52 Period size: 19 Copynumber: 2.3 Consensus size: 19 27008518 GAAAAGAGCG 27008528 AAAAAGAAGAAAAAGAAAA 1 AAAAAGAAGAAAAAGAAAA * * 27008547 CAAAAGTAAG-AAATGAAAA 1 AAAAAG-AAGAAAAAGAAAA 27008566 AAAAA 1 AAAAA 27008571 TGAGAACGAA Statistics Matches: 20, Mismatches: 3, Indels: 2 0.80 0.12 0.08 Matches are distributed among these distances: 19 17 0.85 20 3 0.15 ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05 Consensus pattern (19 bp): AAAAAGAAGAAAAAGAAAA Found at i:27013187 original size:12 final size:12 Alignment explanation
Indices: 27013170--27013194 Score: 50 Period size: 12 Copynumber: 2.1 Consensus size: 12 27013160 CAATCCATTT 27013170 AAAAAAAAAAAG 1 AAAAAAAAAAAG 27013182 AAAAAAAAAAAG 1 AAAAAAAAAAAG 27013194 A 1 A 27013195 TGACAATCAC Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 13 1.00 ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00 Consensus pattern (12 bp): AAAAAAAAAAAG Found at i:27026294 original size:9 final size:9 Alignment explanation
Indices: 27026278--27026356 Score: 122 Period size: 9 Copynumber: 8.8 Consensus size: 9 27026268 GGTATTTTTC 27026278 GGTAATTCG 1 GGTAATTCG * 27026287 GTTAATTCG 1 GGTAATTCG * 27026296 GTTAATTCG 1 GGTAATTCG * 27026305 GTTAATTCG 1 GGTAATTCG 27026314 GGTAATTCG 1 GGTAATTCG 27026323 GGTAATTCG 1 GGTAATTCG * 27026332 GGTAATTTG 1 GGTAATTCG 27026341 GGTAATTCG 1 GGTAATTCG 27026350 GGTAATT 1 GGTAATT 27026357 TTTAGCCAAA Statistics Matches: 66, Mismatches: 4, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 9 66 1.00 ACGTcount: A:0.23, C:0.09, G:0.29, T:0.39 Consensus pattern (9 bp): GGTAATTCG Found at i:27027089 original size:20 final size:22 Alignment explanation
Indices: 27027060--27027100 Score: 59 Period size: 20 Copynumber: 2.0 Consensus size: 22 27027050 TTCTCGTAAT 27027060 TTTATATTTT-A-AAAAATAAA 1 TTTATATTTTCATAAAAATAAA * 27027080 TTTATTTTTTCATAAAAATAA 1 TTTATATTTTCATAAAAATAA 27027101 TAAAAAATTC Statistics Matches: 18, Mismatches: 1, Indels: 2 0.86 0.05 0.10 Matches are distributed among these distances: 20 9 0.50 21 1 0.06 22 8 0.44 ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49 Consensus pattern (22 bp): TTTATATTTTCATAAAAATAAA Found at i:27029110 original size:24 final size:24 Alignment explanation
Indices: 27029076--27029127 Score: 68 Period size: 24 Copynumber: 2.2 Consensus size: 24 27029066 TTTCTAGAAG * ** 27029076 ATTTAGTATTTATGAGTATAATAT 1 ATTTAGCATTTATGAACATAATAT * 27029100 ATTTAGCATTTATTAACATAATAT 1 ATTTAGCATTTATGAACATAATAT 27029124 ATTT 1 ATTT 27029128 GACTTTGATT Statistics Matches: 24, Mismatches: 4, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 24 24 1.00 ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50 Consensus pattern (24 bp): ATTTAGCATTTATGAACATAATAT Found at i:27036786 original size:18 final size:18 Alignment explanation
Indices: 27036763--27036801 Score: 69 Period size: 18 Copynumber: 2.2 Consensus size: 18 27036753 AGAATGAGGG * 27036763 GAAAGGGAGGGAGACAAA 1 GAAAGGGAGGGAGAAAAA 27036781 GAAAGGGAGGGAGAAAAA 1 GAAAGGGAGGGAGAAAAA 27036799 GAA 1 GAA 27036802 GTGCTGCCCA Statistics Matches: 20, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 18 20 1.00 ACGTcount: A:0.54, C:0.03, G:0.44, T:0.00 Consensus pattern (18 bp): GAAAGGGAGGGAGAAAAA Found at i:27036831 original size:2 final size:2 Alignment explanation
Indices: 27036824--27036865 Score: 68 Period size: 2 Copynumber: 21.5 Consensus size: 2 27036814 ATTAGCATTA * 27036824 TC TC TC TC TC TC TC TC TC CC T- TC TC TC TC TC TC TC TC TC TC 1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC 27036865 T 1 T 27036866 GTGGACAAAT Statistics Matches: 37, Mismatches: 2, Indels: 2 0.90 0.05 0.05 Matches are distributed among these distances: 1 1 0.03 2 36 0.97 ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50 Consensus pattern (2 bp): TC Found at i:27037579 original size:15 final size:15 Alignment explanation
Indices: 27037559--27037589 Score: 62 Period size: 15 Copynumber: 2.1 Consensus size: 15 27037549 GGCCCAAGTC 27037559 TGACTTGACTGTTTT 1 TGACTTGACTGTTTT 27037574 TGACTTGACTGTTTT 1 TGACTTGACTGTTTT 27037589 T 1 T 27037590 AAGTTTATAA Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 16 1.00 ACGTcount: A:0.13, C:0.13, G:0.19, T:0.55 Consensus pattern (15 bp): TGACTTGACTGTTTT Found at i:27038275 original size:18 final size:18 Alignment explanation
Indices: 27038252--27038286 Score: 54 Period size: 18 Copynumber: 1.9 Consensus size: 18 27038242 TATATCTTTA 27038252 AATATT-TATTTTAATTTT 1 AATATTGTA-TTTAATTTT 27038270 AATATTGTATTTAATTT 1 AATATTGTATTTAATTT 27038287 GTAAAATTAA Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 18 14 0.88 19 2 0.12 ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63 Consensus pattern (18 bp): AATATTGTATTTAATTTT Found at i:27039010 original size:15 final size:15 Alignment explanation
Indices: 27038990--27039020 Score: 53 Period size: 15 Copynumber: 2.1 Consensus size: 15 27038980 CCTTTTTAAA 27038990 ATTTTAAAATTATAT 1 ATTTTAAAATTATAT * 27039005 ATTTTAAAATTTTAT 1 ATTTTAAAATTATAT 27039020 A 1 A 27039021 AAAAAATATT 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:0.45, C:0.00, G:0.00, T:0.55 Consensus pattern (15 bp): ATTTTAAAATTATAT Found at i:27039048 original size:23 final size:23 Alignment explanation
Indices: 27038983--27039040 Score: 73 Period size: 23 Copynumber: 2.5 Consensus size: 23 27038973 TATTTTACCT * * 27038983 TTTTAAAATTTTA-AAATTATATA 1 TTTTAAAATTTTATAAA-AAAATA 27039006 TTTTAAAATTTTATAAAAAAATA 1 TTTTAAAATTTTATAAAAAAATA * 27039029 TTTTAAATTTTT 1 TTTTAAAATTTT 27039041 TATTAAAATT Statistics Matches: 31, Mismatches: 3, Indels: 2 0.86 0.08 0.06 Matches are distributed among these distances: 23 28 0.90 24 3 0.10 ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53 Consensus pattern (23 bp): TTTTAAAATTTTATAAAAAAATA Found at i:27039438 original size:19 final size:18 Alignment explanation
Indices: 27039386--27039438 Score: 61 Period size: 19 Copynumber: 2.8 Consensus size: 18 27039376 TTATATATTT 27039386 TAAAAATTCAAAATAATATA 1 TAAAAATT-AAAA-AATATA * * 27039406 TAAAAATTGAAAAATGGTA 1 TAAAAATTAAAAAAT-ATA 27039425 TAAAAATTAAAAAA 1 TAAAAATTAAAAAA 27039439 ATTAAATTTC Statistics Matches: 29, Mismatches: 3, Indels: 3 0.83 0.09 0.09 Matches are distributed among these distances: 18 3 0.10 19 18 0.62 20 8 0.28 ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26 Consensus pattern (18 bp): TAAAAATTAAAAAATATA Found at i:27039439 original size:21 final size:19 Alignment explanation
Indices: 27039386--27039440 Score: 58 Period size: 20 Copynumber: 2.8 Consensus size: 19 27039376 TTATATATTT * 27039386 TAAAAATTCAAAATAATATA 1 TAAAAATT-AAAAAAATATA * * 27039406 TAAAAATT-GAAAAATGGTA 1 TAAAAATTAAAAAAAT-ATA 27039425 TAAAAATTAAAAAAAT 1 TAAAAATTAAAAAAAT 27039441 TAAATTTCAA Statistics Matches: 29, Mismatches: 4, Indels: 4 0.78 0.11 0.11 Matches are distributed among these distances: 18 5 0.17 19 10 0.34 20 14 0.48 ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27 Consensus pattern (19 bp): TAAAAATTAAAAAAATATA Found at i:27039512 original size:15 final size:15 Alignment explanation
Indices: 27039492--27039521 Score: 51 Period size: 15 Copynumber: 2.0 Consensus size: 15 27039482 TTTTAGAATT 27039492 TTAGAATTATATATA 1 TTAGAATTATATATA * 27039507 TTAGAATTTTATATA 1 TTAGAATTATATATA 27039522 AAAAATTAAA 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:0.43, C:0.00, G:0.07, T:0.50 Consensus pattern (15 bp): TTAGAATTATATATA Found at i:27039689 original size:21 final size:22 Alignment explanation
Indices: 27039661--27039710 Score: 68 Period size: 21 Copynumber: 2.3 Consensus size: 22 27039651 ATAATTTAAA * 27039661 TATTTTCTAGA-TTTTATGTATT 1 TATTTTCTA-ATTTTTATATATT 27039683 T-TTTTCTAATTTTTATATATT 1 TATTTTCTAATTTTTATATATT 27039704 TATTTTC 1 TATTTTC 27039711 ATCTTTATAT Statistics Matches: 25, Mismatches: 1, Indels: 4 0.83 0.03 0.13 Matches are distributed among these distances: 20 1 0.04 21 18 0.72 22 6 0.24 ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68 Consensus pattern (22 bp): TATTTTCTAATTTTTATATATT Found at i:27041498 original size:20 final size:20 Alignment explanation
Indices: 27041466--27041504 Score: 53 Period size: 20 Copynumber: 1.9 Consensus size: 20 27041456 ATTTAATGGT 27041466 TATATTTAAATATT-TAAAA 1 TATATTTAAATATTCTAAAA * 27041485 TATAGTTTATATATTCTAAA 1 TATA-TTTAAATATTCTAAA 27041505 TAAATTTTAT Statistics Matches: 17, Mismatches: 1, Indels: 2 0.85 0.05 0.10 Matches are distributed among these distances: 19 4 0.24 20 9 0.53 21 4 0.24 ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49 Consensus pattern (20 bp): TATATTTAAATATTCTAAAA Found at i:27055209 original size:13 final size:13 Alignment explanation
Indices: 27055193--27055232 Score: 62 Period size: 13 Copynumber: 3.1 Consensus size: 13 27055183 TTTAAACCAA 27055193 ACTTTTCAAAAGC 1 ACTTTTCAAAAGC * * 27055206 ACTTTTCCACAGC 1 ACTTTTCAAAAGC 27055219 ACTTTTCAAAAGC 1 ACTTTTCAAAAGC 27055232 A 1 A 27055233 TTGCCAAACT Statistics Matches: 23, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 13 23 1.00 ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30 Consensus pattern (13 bp): ACTTTTCAAAAGC Found at i:27058464 original size:43 final size:43 Alignment explanation
Indices: 27058390--27058476 Score: 140 Period size: 43 Copynumber: 2.0 Consensus size: 43 27058380 CACCTAGCAC * 27058390 TAGCAGCCCCTGTATTCGCCCCAGCTTCATCAATATTTTAATA 1 TAGCAGCCCCTATATTCGCCCCAGCTTCATCAATATTTTAATA * 27058433 TAGCAGCCCCTATATTC-CCCCTGCTTCCATCAATATTTTAATA 1 TAGCAGCCCCTATATTCGCCCCAGCTT-CATCAATATTTTAATA 27058476 T 1 T 27058477 GTTAGTGTTC Statistics Matches: 41, Mismatches: 2, Indels: 2 0.91 0.04 0.04 Matches are distributed among these distances: 42 8 0.20 43 33 0.80 ACGTcount: A:0.25, C:0.31, G:0.09, T:0.34 Consensus pattern (43 bp): TAGCAGCCCCTATATTCGCCCCAGCTTCATCAATATTTTAATA Found at i:27059763 original size:68 final size:68 Alignment explanation
Indices: 27059673--27059909 Score: 334 Period size: 68 Copynumber: 3.5 Consensus size: 68 27059663 ATTCGGTCAT * * * * 27059673 GCACTTAATCCAACCGATTTTGTCTTACAATTTTCACATTGGACAGCATGTATAACCTCAACAAG 1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG * 27059738 ATA 66 ACA * * * * 27059741 GCACTTAATTCAAACAAATTTGTCTTAAAAATTTCACGTTGGACAGCATGTATAACCTCAACGAG 1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG 27059806 ACA 66 ACA * ** 27059809 GCA-TTAATTCAACCAAATTTGTC-CAAACATTTTCGTATTGGACAGCATGTATAACCTCAACAA 1 GCACTTAATTCAACCAAATTTGTCTTAAA-ATTTTCACATTGGACAGCATGTATAACCTCAACAA 27059872 GACA 65 GACA * 27059876 ACACTTAATTCAACCAAATTTGTCTTAAAATTTT 1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTT 27059910 TGTAACGCCT Statistics Matches: 148, Mismatches: 18, Indels: 6 0.86 0.10 0.03 Matches are distributed among these distances: 66 3 0.02 67 55 0.37 68 87 0.59 69 3 0.02 ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31 Consensus pattern (68 bp): GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG ACA Found at i:27065924 original size:9 final size:9 Alignment explanation
Indices: 27065910--27065946 Score: 51 Period size: 9 Copynumber: 4.3 Consensus size: 9 27065900 TTTTTGTTCC 27065910 ATACAATTA 1 ATACAATTA 27065919 ATACAATT- 1 ATACAATTA 27065927 A-ACAATTA 1 ATACAATTA * 27065935 ATACAAGTA 1 ATACAATTA 27065944 ATA 1 ATA 27065947 ATTTGATAAA Statistics Matches: 25, Mismatches: 1, Indels: 4 0.83 0.03 0.13 Matches are distributed among these distances: 7 6 0.24 8 2 0.08 9 17 0.68 ACGTcount: A:0.57, C:0.11, G:0.03, T:0.30 Consensus pattern (9 bp): ATACAATTA Found at i:27065949 original size:16 final size:16 Alignment explanation
Indices: 27065912--27065949 Score: 58 Period size: 16 Copynumber: 2.4 Consensus size: 16 27065902 TTTGTTCCAT * 27065912 ACAATTAATACAATTA 1 ACAATTAATACAAGTA 27065928 ACAATTAATACAAGTA 1 ACAATTAATACAAGTA * 27065944 ATAATT 1 ACAATT 27065950 TGATAAATTT Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 16 20 1.00 ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32 Consensus pattern (16 bp): ACAATTAATACAAGTA Found at i:27066040 original size:16 final size:16 Alignment explanation
Indices: 27066019--27066052 Score: 59 Period size: 16 Copynumber: 2.1 Consensus size: 16 27066009 AATAATTTGA * 27066019 TAATTTTACTAACAAT 1 TAATTTTAATAACAAT 27066035 TAATTTTAATAACAAT 1 TAATTTTAATAACAAT 27066051 TA 1 TA 27066053 GTTTAAATTT Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 16 17 1.00 ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44 Consensus pattern (16 bp): TAATTTTAATAACAAT Found at i:27068468 original size:4 final size:4 Alignment explanation
Indices: 27068459--27068488 Score: 60 Period size: 4 Copynumber: 7.5 Consensus size: 4 27068449 AAAGAAGTAA 27068459 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT 1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT 27068489 CAGATTACGG Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 4 26 1.00 ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27 Consensus pattern (4 bp): ATAC Found at i:27075333 original size:25 final size:25 Alignment explanation
Indices: 27075285--27075333 Score: 62 Period size: 25 Copynumber: 2.0 Consensus size: 25 27075275 TATAATTGAA * * * 27075285 ATGAAATGGATTGATTTTGTATATT 1 ATGAAATAGATTGATTATGAATATT * 27075310 ATGAAATATATTGATTATGAATAT 1 ATGAAATAGATTGATTATGAATAT 27075334 ATGTGTATTG Statistics Matches: 20, Mismatches: 4, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 25 20 1.00 ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45 Consensus pattern (25 bp): ATGAAATAGATTGATTATGAATATT Found at i:27077105 original size:42 final size:42 Alignment explanation
Indices: 27077005--27077161 Score: 174 Period size: 43 Copynumber: 3.7 Consensus size: 42 27076995 TGTGATTTTG * * * 27077005 TGTAAGACCACGTCT-GAGACGTTGGCATCG-ATTTGAGATTTACG 1 TGTAAGACCATGTCTAG-GACATTGGCATCGTATTT--GA-TTACA * * 27077049 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTACA 1 TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTACA * * * 27077091 TGTAAGACCCTGTCTAGGACAGTGGTATCGTTATTTGATTACA 1 TGTAAGACCATGTCTAGGACATTGGCATCG-TATTTGATTACA * 27077134 TGTAAGACCATGTCTAGGACGTTGGCAT 1 TGTAAGACCATGTCTAGGACATTGGCAT 27077162 TGTACGAGCT Statistics Matches: 97, Mismatches: 13, Indels: 7 0.83 0.11 0.06 Matches are distributed among these distances: 42 30 0.31 43 37 0.38 44 26 0.27 45 4 0.04 ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31 Consensus pattern (42 bp): TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTACA Found at i:27077587 original size:11 final size:11 Alignment explanation
Indices: 27077571--27077623 Score: 53 Period size: 11 Copynumber: 5.3 Consensus size: 11 27077561 TGTTAAAAAA 27077571 TATTATTAAAT 1 TATTATTAAAT 27077582 TATTATT-AA- 1 TATTATTAAAT * 27077591 -ATTGTTAAAT 1 TATTATTAAAT 27077601 TATTA-T-AAT 1 TATTATTAAAT * 27077610 TATTATTATAT 1 TATTATTAAAT 27077621 TAT 1 TAT 27077624 AAAATAAATA Statistics Matches: 34, Mismatches: 3, Indels: 10 0.72 0.06 0.21 Matches are distributed among these distances: 8 5 0.15 9 10 0.29 10 4 0.12 11 15 0.44 ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57 Consensus pattern (11 bp): TATTATTAAAT Found at i:27077745 original size:25 final size:24 Alignment explanation
Indices: 27077715--27077775 Score: 68 Period size: 26 Copynumber: 2.5 Consensus size: 24 27077705 TTGTAATTAC 27077715 TTATTATATAAGAAAATATTATAT 1 TTATTATATAAGAAAATATTATAT ** * 27077739 TATATTATATTATTAAAGTATTATAT 1 T-TATTATA-TAAGAAAATATTATAT * 27077765 TTATTAAATAA 1 TTATTATATAA 27077776 TAAACAAAAC Statistics Matches: 30, Mismatches: 5, Indels: 4 0.77 0.13 0.10 Matches are distributed among these distances: 24 3 0.10 25 13 0.43 26 14 0.47 ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49 Consensus pattern (24 bp): TTATTATATAAGAAAATATTATAT Found at i:27077762 original size:16 final size:17 Alignment explanation
Indices: 27077741--27077772 Score: 57 Period size: 17 Copynumber: 1.9 Consensus size: 17 27077731 TATTATATTA 27077741 TATTATA-TTATTAAAG 1 TATTATATTTATTAAAG 27077757 TATTATATTTATTAAA 1 TATTATATTTATTAAA 27077773 TAATAAACAA Statistics Matches: 15, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 16 7 0.47 17 8 0.53 ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53 Consensus pattern (17 bp): TATTATATTTATTAAAG Found at i:27077837 original size:17 final size:17 Alignment explanation
Indices: 27077788--27077827 Score: 62 Period size: 17 Copynumber: 2.3 Consensus size: 17 27077778 AACAAAACAT * 27077788 AAACTAAAAGAATAAAAG 1 AAAC-AAAAGAAGAAAAG 27077806 AAACAAAAGAAGAAAAG 1 AAACAAAAGAAGAAAAG 27077823 AAACA 1 AAACA 27077828 GAATAGGAAA Statistics Matches: 21, Mismatches: 1, Indels: 1 0.91 0.04 0.04 Matches are distributed among these distances: 17 17 0.81 18 4 0.19 ACGTcount: A:0.75, C:0.07, G:0.12, T:0.05 Consensus pattern (17 bp): AAACAAAAGAAGAAAAG Found at i:27078258 original size:24 final size:23 Alignment explanation
Indices: 27078225--27078271 Score: 60 Period size: 22 Copynumber: 2.0 Consensus size: 23 27078215 ATTTGAATAG 27078225 AAATAGAGTGTGAATTGAGTTAGGA 1 AAATAGA--GTGAATTGAGTTAGGA * 27078250 AAATA-AGTGAATTTAGTTAGGA 1 AAATAGAGTGAATTGAGTTAGGA 27078272 TTAAATTGAG Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 22 15 0.71 24 1 0.05 25 5 0.24 ACGTcount: A:0.43, C:0.00, G:0.28, T:0.30 Consensus pattern (23 bp): AAATAGAGTGAATTGAGTTAGGA Found at i:27078661 original size:6 final size:6 Alignment explanation
Indices: 27078528--27078658 Score: 244 Period size: 6 Copynumber: 21.8 Consensus size: 6 27078518 TAAGTATGAA 27078528 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG 1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG 27078576 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG 1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG * * 27078624 TATTAG TATTAG TATTAG TATTAT TATTAT TATTA 1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTA 27078659 TTAAAATGAG Statistics Matches: 124, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 6 124 1.00 ACGTcount: A:0.34, C:0.00, G:0.15, T:0.52 Consensus pattern (6 bp): TATTAG Found at i:27078802 original size:17 final size:18 Alignment explanation
Indices: 27078770--27078803 Score: 52 Period size: 17 Copynumber: 1.9 Consensus size: 18 27078760 AATTGAATGG * 27078770 AAATGTATTGAGTTGTGA 1 AAATGTATTGAATTGTGA 27078788 AAATGTA-TGAATTGTG 1 AAATGTATTGAATTGTG 27078804 GATTAATTAT Statistics Matches: 15, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 17 8 0.53 18 7 0.47 ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38 Consensus pattern (18 bp): AAATGTATTGAATTGTGA Found at i:27081951 original size:37 final size:37 Alignment explanation
Indices: 27081907--27081981 Score: 150 Period size: 37 Copynumber: 2.0 Consensus size: 37 27081897 GTTTGAAAGT 27081907 TAGTTCAAATATGGTAAGTGTGATATGAATGAAAATC 1 TAGTTCAAATATGGTAAGTGTGATATGAATGAAAATC 27081944 TAGTTCAAATATGGTAAGTGTGATATGAATGAAAATC 1 TAGTTCAAATATGGTAAGTGTGATATGAATGAAAATC 27081981 T 1 T 27081982 TGAATGTTTG Statistics Matches: 38, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 37 38 1.00 ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33 Consensus pattern (37 bp): TAGTTCAAATATGGTAAGTGTGATATGAATGAAAATC Found at i:27083790 original size:51 final size:50 Alignment explanation
Indices: 27083714--27083934 Score: 219 Period size: 51 Copynumber: 4.4 Consensus size: 50 27083704 TATGAACACG * 27083714 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGGTCACA 1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGAT--TGGTCACA * * * * * 27083765 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGGCCTTGGTCACG 1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-ATTGGTCACA * * * * * ** 27083816 TGTGTAGTACTATGTGCAGGCTACTACGTGAATCGAAAAGCTTGATCATG 1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATTGGTCACA * ** * * 27083866 TGTGTAGTACTATGTGTAGGCTACTATATGTATCGGATGACAATGGTCACA 1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-AGATTGGTCACA * * 27083917 TGGGTGGTACTATGTGCA 1 TGTGTAGTACTATGTGCA 27083935 AACCACTGAA Statistics Matches: 138, Mismatches: 29, Indels: 6 0.80 0.17 0.03 Matches are distributed among these distances: 50 40 0.29 51 93 0.67 52 4 0.03 53 1 0.01 ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31 Consensus pattern (50 bp): TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATTGGTCACA Found at i:27083914 original size:101 final size:101 Alignment explanation
Indices: 27083710--27083934 Score: 281 Period size: 101 Copynumber: 2.2 Consensus size: 101 27083700 TACCTATGAA * * * * 27083710 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACATGTGTAGTAC 1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAATCGAAAGAT-ATGATCACATGTGTAGTAC * * ** 27083775 TATGTGCAGGCTACTATGTGTACCGGATGGCCTTGGT 65 TATGTGCAGGCTACTATATGTACCGGATGACAATGGT * ** 27083812 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAATCGAAAAGCT-TGATCATGTGTGTAGTAC 1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAATCG-AAAGATATGATCACATGTGTAGTAC * * 27083876 TATGTGTAGGCTACTATATGTATCGGATGACAATGGT 65 TATGTGCAGGCTACTATATGTACCGGATGACAATGGT * * * 27083913 CACATGGGTGGTACTATGTGCA 1 CACGTGTGTAGTACTATGTGCA 27083935 AACCACTGAA Statistics Matches: 106, Mismatches: 16, Indels: 3 0.85 0.13 0.02 Matches are distributed among these distances: 101 65 0.61 102 37 0.35 103 4 0.04 ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31 Consensus pattern (101 bp): CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAATCGAAAGATATGATCACATGTGTAGTACT ATGTGCAGGCTACTATATGTACCGGATGACAATGGT Found at i:27086934 original size:34 final size:34 Alignment explanation
Indices: 27086891--27086959 Score: 120 Period size: 34 Copynumber: 2.0 Consensus size: 34 27086881 TTTTCAACCT * 27086891 TAAACTTTCCGATCTTATCAATTAGAGGTCGTCA 1 TAAACTTTCCGATCTTATCAATTAAAGGTCGTCA * 27086925 TAAACTTTCCGATCTTATCAATTAAAGGTTGTCA 1 TAAACTTTCCGATCTTATCAATTAAAGGTCGTCA 27086959 T 1 T 27086960 GCATTTTCTA Statistics Matches: 33, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 34 33 1.00 ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38 Consensus pattern (34 bp): TAAACTTTCCGATCTTATCAATTAAAGGTCGTCA Found at i:27087290 original size:16 final size:16 Alignment explanation
Indices: 27087260--27087297 Score: 60 Period size: 16 Copynumber: 2.4 Consensus size: 16 27087250 ACACTATCAC * 27087260 AGGTT-AATGCGCGCT 1 AGGTTCAATACGCGCT 27087275 AGGTTCAATACGCGCT 1 AGGTTCAATACGCGCT 27087291 AGGTTCA 1 AGGTTCA 27087298 GTCCTAGAAT Statistics Matches: 21, Mismatches: 1, Indels: 1 0.91 0.04 0.04 Matches are distributed among these distances: 15 5 0.24 16 16 0.76 ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26 Consensus pattern (16 bp): AGGTTCAATACGCGCT Found at i:27096949 original size:23 final size:24 Alignment explanation
Indices: 27096919--27096965 Score: 69 Period size: 24 Copynumber: 2.0 Consensus size: 24 27096909 TTTTGAAAAA * 27096919 AAAAAAAACT-TCACCAGTAAAGT 1 AAAAAAAACTCTCACCAATAAAGT * 27096942 AAAAAAAACTCTTACCAATAAAGT 1 AAAAAAAACTCTCACCAATAAAGT 27096966 TGAAAAATTG Statistics Matches: 21, Mismatches: 2, Indels: 1 0.88 0.08 0.04 Matches are distributed among these distances: 23 10 0.48 24 11 0.52 ACGTcount: A:0.57, C:0.17, G:0.06, T:0.19 Consensus pattern (24 bp): AAAAAAAACTCTCACCAATAAAGT Found at i:27099174 original size:22 final size:23 Alignment explanation
Indices: 27099138--27099181 Score: 63 Period size: 22 Copynumber: 1.9 Consensus size: 23 27099128 ACGACTGTAA * 27099138 TAAAAAATATTATAATTTAATAAT 1 TAAAAAATA-TATAAATTAATAAT 27099162 TAAAAAATA-ATAAATTAATA 1 TAAAAAATATATAAATTAATA 27099182 TAGTATCAAC Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 22 10 0.53 24 9 0.47 ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36 Consensus pattern (23 bp): TAAAAAATATATAAATTAATAAT Found at i:27102864 original size:14 final size:14 Alignment explanation
Indices: 27102845--27102887 Score: 77 Period size: 14 Copynumber: 3.1 Consensus size: 14 27102835 TACCAATACA 27102845 TTATCCTGGCCCGG 1 TTATCCTGGCCCGG * 27102859 TTATCCTGGCCCAG 1 TTATCCTGGCCCGG 27102873 TTATCCTGGCCCGG 1 TTATCCTGGCCCGG 27102887 T 1 T 27102888 GCTTGATCGC Statistics Matches: 27, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 14 27 1.00 ACGTcount: A:0.09, C:0.35, G:0.26, T:0.30 Consensus pattern (14 bp): TTATCCTGGCCCGG Found at i:27103690 original size:22 final size:22 Alignment explanation
Indices: 27103662--27103703 Score: 59 Period size: 22 Copynumber: 1.9 Consensus size: 22 27103652 CGGCTTGGTA * 27103662 GATTTTTATAAT-TTTTATTTTT 1 GATTTTT-TAATAATTTATTTTT 27103684 GATTTTTTAATAATTTATTT 1 GATTTTTTAATAATTTATTT 27103704 GCTTTGAACT Statistics Matches: 18, Mismatches: 1, Indels: 2 0.86 0.05 0.10 Matches are distributed among these distances: 21 4 0.22 22 14 0.78 ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69 Consensus pattern (22 bp): GATTTTTTAATAATTTATTTTT Found at i:27106586 original size:22 final size:22 Alignment explanation
Indices: 27106561--27106608 Score: 87 Period size: 22 Copynumber: 2.2 Consensus size: 22 27106551 ACAAGAGCAA * 27106561 AAACCCAATGTAAGATAACACC 1 AAACCCAATGTAAGACAACACC 27106583 AAACCCAATGTAAGACAACACC 1 AAACCCAATGTAAGACAACACC 27106605 AAAC 1 AAAC 27106609 TTAATTACCT Statistics Matches: 25, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 22 25 1.00 ACGTcount: A:0.52, C:0.29, G:0.08, T:0.10 Consensus pattern (22 bp): AAACCCAATGTAAGACAACACC Found at i:27111373 original size:21 final size:22 Alignment explanation
Indices: 27111344--27111390 Score: 78 Period size: 21 Copynumber: 2.2 Consensus size: 22 27111334 CAGAAGGAGT * 27111344 GAGTAGTACTTCGCAGCAGGTG 1 GAGTAGTACTCCGCAGCAGGTG 27111366 GAGT-GTACTCCGCAGCAGGTG 1 GAGTAGTACTCCGCAGCAGGTG 27111387 GAGT 1 GAGT 27111391 TTGAGCAGAG Statistics Matches: 24, Mismatches: 1, Indels: 1 0.92 0.04 0.04 Matches are distributed among these distances: 21 20 0.83 22 4 0.17 ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21 Consensus pattern (22 bp): GAGTAGTACTCCGCAGCAGGTG Found at i:27115075 original size:14 final size:15 Alignment explanation
Indices: 27115056--27115084 Score: 51 Period size: 14 Copynumber: 2.0 Consensus size: 15 27115046 AATCATGGAA 27115056 TAGTATTT-TATGGT 1 TAGTATTTATATGGT 27115070 TAGTATTTATATGGT 1 TAGTATTTATATGGT 27115085 AATGTATATA Statistics Matches: 14, Mismatches: 0, Indels: 1 0.93 0.00 0.07 Matches are distributed among these distances: 14 8 0.57 15 6 0.43 ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55 Consensus pattern (15 bp): TAGTATTTATATGGT Found at i:27116952 original size:20 final size:22 Alignment explanation
Indices: 27116900--27116958 Score: 59 Period size: 23 Copynumber: 2.7 Consensus size: 22 27116890 ATATGTGTAC ** 27116900 GTATACATTTTTATATTTCGTAA 1 GTATACATACTTATATTTC-TAA * 27116923 GTATATATACTTATATTT-TAA 1 GTATACATACTTATATTTCTAA * 27116944 -TATACATACTCATAT 1 GTATACATACTTATAT 27116959 ATATATTTTA Statistics Matches: 31, Mismatches: 5, Indels: 3 0.79 0.13 0.08 Matches are distributed among these distances: 20 13 0.42 21 3 0.10 23 15 0.48 ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49 Consensus pattern (22 bp): GTATACATACTTATATTTCTAA Found at i:27118108 original size:16 final size:16 Alignment explanation
Indices: 27118087--27118118 Score: 64 Period size: 16 Copynumber: 2.0 Consensus size: 16 27118077 TGTCAACATA 27118087 TATGCTGTCAAATTTT 1 TATGCTGTCAAATTTT 27118103 TATGCTGTCAAATTTT 1 TATGCTGTCAAATTTT 27118119 GATGTATAAA Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 16 1.00 ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50 Consensus pattern (16 bp): TATGCTGTCAAATTTT Found at i:27118228 original size:92 final size:93 Alignment explanation
Indices: 27118103--27118305 Score: 374 Period size: 92 Copynumber: 2.2 Consensus size: 93 27118093 GTCAAATTTT 27118103 TATGCTGTCAAATTTTGATGTATAAATAGAGTCCAATTATATATGTATATGCTGTCAAATTTTGA 1 TATGCTGTCAAATTTTGATGTATAAATAGAGTCCAATTATATATGTATATGCTGTCAAATTTTGA 27118168 TGTATAAATGCAGTCCAATT-TTGTATA 66 TGTATAAATGCAGTCCAATTGTTGTATA 27118195 TATGCTGTCAAATTTTGATGTATAAAT-GCAGTCCAATTATATATGTATATGCTGTCAAATTTTG 1 TATGCTGTCAAATTTTGATGTATAAATAG-AGTCCAATTATATATGTATATGCTGTCAAATTTTG 27118259 ATGTATAAATGCAGTCCAATTGTTGTATA 65 ATGTATAAATGCAGTCCAATTGTTGTATA 27118288 TATGCTGTCCAAATTTTG 1 TATGCTGT-CAAATTTTG 27118306 GTGTGAAAAT Statistics Matches: 108, Mismatches: 0, Indels: 4 0.96 0.00 0.04 Matches are distributed among these distances: 91 1 0.01 92 83 0.77 93 15 0.14 94 9 0.08 ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41 Consensus pattern (93 bp): TATGCTGTCAAATTTTGATGTATAAATAGAGTCCAATTATATATGTATATGCTGTCAAATTTTGA TGTATAAATGCAGTCCAATTGTTGTATA Found at i:27118316 original size:47 final size:47 Alignment explanation
Indices: 27118103--27118305 Score: 315 Period size: 47 Copynumber: 4.4 Consensus size: 47 27118093 GTCAAATTTT * 27118103 TATGCTGTCAAATTTTGATGTATAAATAG-AGTCCAATTATATATGTA 1 TATGCTGTCAAATTTTGATGTATAAAT-GCAGTCCAATTATATATATA * 27118150 TATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATT-T-TGTATA 1 TATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATATA * 27118195 TATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTA 1 TATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATATA * * 27118242 TATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTGT-TGTATA 1 TATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATATA 27118288 TATGCTGTCCAAATTTTG 1 TATGCTGT-CAAATTTTG 27118306 GTGTGAAAAT Statistics Matches: 145, Mismatches: 7, Indels: 8 0.91 0.04 0.05 Matches are distributed among these distances: 45 42 0.29 46 15 0.10 47 88 0.61 ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41 Consensus pattern (47 bp): TATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATATA Found at i:27118358 original size:23 final size:23 Alignment explanation
Indices: 27118164--27118359 Score: 65 Period size: 23 Copynumber: 8.5 Consensus size: 23 27118154 CTGTCAAATT 27118164 TTGATGTATAAATGCA-GTCC-AA 1 TTGATGTATAAATG-ATGTCCAAA * * * 27118186 TT-TTGTATATATGCTGT-CAAA 1 TTGATGTATAAATGATGTCCAAA 27118207 TTTTGATGTATAAATGCA-GTCCAATTA 1 --TTGATGTATAAATG-ATGTCCAA--A * 27118234 TAT-ATGTAT--ATGCTGT-CAAA 1 T-TGATGTATAAATGATGTCCAAA 27118254 TTTTGATGTATAAATGCA-GTCC-AA 1 --TTGATGTATAAATG-ATGTCCAAA * * * 27118278 TTGTTGTATATATGCTGTCCAAA 1 TTGATGTATAAATGATGTCCAAA * * * ** 27118301 TTTTGGTGTGA-AAATGTTGTCTAGT 1 --TTGATGT-ATAAATGATGTCCAAA * * 27118326 TTGGTATATAAATGATGTCCAAA 1 TTGATGTATAAATGATGTCCAAA 27118349 TTGATGTATAA 1 TTGATGTATAA 27118360 TAGTTGTCCA Statistics Matches: 126, Mismatches: 24, Indels: 47 0.64 0.12 0.24 Matches are distributed among these distances: 20 2 0.02 21 14 0.11 22 29 0.23 23 34 0.27 24 18 0.14 25 26 0.21 26 2 0.02 27 1 0.01 ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41 Consensus pattern (23 bp): TTGATGTATAAATGATGTCCAAA Found at i:27127954 original size:30 final size:30 Alignment explanation
Indices: 27127903--27127959 Score: 71 Period size: 30 Copynumber: 1.9 Consensus size: 30 27127893 AAATAGATAA * * 27127903 ATATAAATAAATATTTATATATATAATGAC 1 ATATAAATAAACAATTATATATATAATGAC * 27127933 ATATAAATAGAACAATT-TATATTTAAT 1 ATATAAATA-AACAATTATATATATAAT 27127960 TTTCGAAATA Statistics Matches: 23, Mismatches: 3, Indels: 2 0.82 0.11 0.07 Matches are distributed among these distances: 30 18 0.78 31 5 0.22 ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40 Consensus pattern (30 bp): ATATAAATAAACAATTATATATATAATGAC Found at i:27129291 original size:17 final size:17 Alignment explanation
Indices: 27129269--27129304 Score: 72 Period size: 17 Copynumber: 2.1 Consensus size: 17 27129259 TATAAATAAA 27129269 TTTTATTTAAATTTATT 1 TTTTATTTAAATTTATT 27129286 TTTTATTTAAATTTATT 1 TTTTATTTAAATTTATT 27129303 TT 1 TT 27129305 GTAAATTCAA Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 17 19 1.00 ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72 Consensus pattern (17 bp): TTTTATTTAAATTTATT Found at i:27131061 original size:28 final size:28 Alignment explanation
Indices: 27131000--27131062 Score: 67 Period size: 26 Copynumber: 2.2 Consensus size: 28 27130990 ATAGTAAAGT 27131000 TTATTAAAATAAATATTCATAAAATTTAA 1 TTATT-AAATAAATATTCATAAAATTTAA * ** 27131029 -AATTAAA-AAATATTTTTAAAATTTTAA 1 TTATTAAATAAATATTCATAAAA-TTTAA 27131056 TTATTAA 1 TTATTAA 27131063 TATACCGTTG Statistics Matches: 28, Mismatches: 4, Indels: 5 0.76 0.11 0.14 Matches are distributed among these distances: 26 12 0.43 27 8 0.29 28 8 0.29 ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44 Consensus pattern (28 bp): TTATTAAATAAATATTCATAAAATTTAA Found at i:27142969 original size:13 final size:13 Alignment explanation
Indices: 27142951--27142976 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 27142941 TAAGTTAATT 27142951 TACTTATCACATA 1 TACTTATCACATA 27142964 TACTTATCACATA 1 TACTTATCACATA 27142977 CAAGACCAGA Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 13 1.00 ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38 Consensus pattern (13 bp): TACTTATCACATA Found at i:27146397 original size:17 final size:17 Alignment explanation
Indices: 27146365--27146398 Score: 52 Period size: 17 Copynumber: 2.0 Consensus size: 17 27146355 TTTTTTAGTT 27146365 TTTAAATAATATATAAA 1 TTTAAATAATATATAAA 27146382 TTTAGAATAATA-ATAAA 1 TTTA-AATAATATATAAA 27146399 AAGTAAACTA Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 17 9 0.56 18 7 0.44 ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38 Consensus pattern (17 bp): TTTAAATAATATATAAA Found at i:27146967 original size:6 final size:6 Alignment explanation
Indices: 27146958--27146982 Score: 50 Period size: 6 Copynumber: 4.2 Consensus size: 6 27146948 TTTAAAATTT 27146958 ATTATG ATTATG ATTATG ATTATG A 1 ATTATG ATTATG ATTATG ATTATG A 27146983 GAACTTTTAT Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 19 1.00 ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48 Consensus pattern (6 bp): ATTATG Found at i:27147831 original size:22 final size:23 Alignment explanation
Indices: 27147790--27147833 Score: 65 Period size: 22 Copynumber: 2.0 Consensus size: 23 27147780 TAACTTTTTG 27147790 TCAATAATCAAGTAACATAACTT 1 TCAATAATCAAGTAACATAACTT 27147813 TCAATAAT-AA-TAAACATAACT 1 TCAATAATCAAGT-AACATAACT 27147834 CATTAGAATG Statistics Matches: 20, Mismatches: 0, Indels: 3 0.87 0.00 0.13 Matches are distributed among these distances: 21 1 0.05 22 11 0.55 23 8 0.40 ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30 Consensus pattern (23 bp): TCAATAATCAAGTAACATAACTT Found at i:27148382 original size:3 final size:3 Alignment explanation
Indices: 27148374--27148399 Score: 52 Period size: 3 Copynumber: 8.7 Consensus size: 3 27148364 TACTTAGTGT 27148374 TTA TTA TTA TTA TTA TTA TTA TTA TT 1 TTA TTA TTA TTA TTA TTA TTA TTA TT 27148400 TTCTTTCTTT Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 23 1.00 ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69 Consensus pattern (3 bp): TTA Found at i:27149535 original size:9 final size:9 Alignment explanation
Indices: 27149468--27149534 Score: 89 Period size: 9 Copynumber: 7.4 Consensus size: 9 27149458 GTAGTGATTC * 27149468 AATTTGGTT 1 AATTCGGTT 27149477 AATTCGGTT 1 AATTCGGTT * 27149486 AATTCGGGT 1 AATTCGGTT * 27149495 AATTCGGGT 1 AATTCGGTT 27149504 AATTCGGTT 1 AATTCGGTT * 27149513 AATTCGATT 1 AATTCGGTT * 27149522 AATTTGGTT 1 AATTCGGTT 27149531 AATT 1 AATT 27149535 TTTAACCAAA Statistics Matches: 52, Mismatches: 6, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 9 52 1.00 ACGTcount: A:0.25, C:0.07, G:0.22, T:0.45 Consensus pattern (9 bp): AATTCGGTT Found at i:27156421 original size:6 final size:6 Alignment explanation
Indices: 27156406--27156458 Score: 79 Period size: 6 Copynumber: 8.7 Consensus size: 6 27156396 TTCTAGGTCC * * 27156406 TTTTCA TTTTTCT TTTTCA TTTTCT TTTTCA TTTTCA TTTTCA TTTTCA 1 TTTTCA -TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA 27156455 TTTT 1 TTTT 27156459 TGAGAAAACA Statistics Matches: 42, Mismatches: 4, Indels: 1 0.89 0.09 0.02 Matches are distributed among these distances: 6 37 0.88 7 5 0.12 ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74 Consensus pattern (6 bp): TTTTCA Found at i:27156506 original size:56 final size:57 Alignment explanation
Indices: 27156434--27156563 Score: 178 Period size: 56 Copynumber: 2.3 Consensus size: 57 27156424 ATTTTCTTTT * * 27156434 TCATTT-T-CATTTTCATTTTCATTTTTGAGAAAACACAT-TCATTTCCAAATGATTC 1 TCATTTCTCCATTTTCATTTTCATTTTGGAAAAAAC-CATATCATTTCCAAATGATTC * * 27156489 -CATTTCTCCATTTTCATTTTTATTTTGGAAAAAACCATAATCATTTCCAAATGTTTC 1 TCATTTCTCCATTTTCATTTTCATTTTGGAAAAAACCAT-ATCATTTCCAAATGATTC 27156546 TCATTTCTCCATTTTCAT 1 TCATTTCTCCATTTTCAT 27156564 CATTTCTATC Statistics Matches: 66, Mismatches: 4, Indels: 7 0.86 0.05 0.09 Matches are distributed among these distances: 54 5 0.08 55 4 0.06 56 24 0.36 57 16 0.24 58 17 0.26 ACGTcount: A:0.28, C:0.20, G:0.05, T:0.48 Consensus pattern (57 bp): TCATTTCTCCATTTTCATTTTCATTTTGGAAAAAACCATATCATTTCCAAATGATTC Found at i:27159846 original size:39 final size:39 Alignment explanation
Indices: 27159792--27159870 Score: 158 Period size: 39 Copynumber: 2.0 Consensus size: 39 27159782 AATTATGTTT 27159792 TGTGTTTGTTTGTTTAAGGTTATGTATGAGTAATTTATC 1 TGTGTTTGTTTGTTTAAGGTTATGTATGAGTAATTTATC 27159831 TGTGTTTGTTTGTTTAAGGTTATGTATGAGTAATTTATC 1 TGTGTTTGTTTGTTTAAGGTTATGTATGAGTAATTTATC 27159870 T 1 T 27159871 TTCAAAATAA Statistics Matches: 40, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 39 40 1.00 ACGTcount: A:0.20, C:0.03, G:0.23, T:0.54 Consensus pattern (39 bp): TGTGTTTGTTTGTTTAAGGTTATGTATGAGTAATTTATC Found at i:27165406 original size:9 final size:9 Alignment explanation
Indices: 27165370--27165456 Score: 66 Period size: 9 Copynumber: 8.9 Consensus size: 9 27165360 TTTAATTTTT 27165370 TTATAAAAA 1 TTATAAAAA * 27165379 TGTATTAAAAT 1 T-TA-TAAAAA 27165390 TCTATAAAAA 1 T-TATAAAAA 27165400 TTATAAAAAAA 1 TTAT--AAAAA * 27165411 TTAAAAAAA 1 TTATAAAAA * * 27165420 GTATTAAAA 1 TTATAAAAA * 27165429 TTGATATAAAC 1 TT-ATA-AAAA 27165440 TTATAAAAA 1 TTATAAAAA 27165449 TTATAAAA 1 TTATAAAA 27165457 TAAATCATAA Statistics Matches: 61, Mismatches: 11, Indels: 12 0.73 0.13 0.14 Matches are distributed among these distances: 9 27 0.44 10 13 0.21 11 21 0.34 ACGTcount: A:0.61, C:0.02, G:0.03, T:0.33 Consensus pattern (9 bp): TTATAAAAA Found at i:27165456 original size:40 final size:40 Alignment explanation
Indices: 27165370--27165456 Score: 99 Period size: 40 Copynumber: 2.2 Consensus size: 40 27165360 TTTAATTTTT * * 27165370 TTAT-AAAAATGTATTAAAATTCTATAAAAATTATAAAAA 1 TTATAAAAAAAGTATTAAAATTATATAAAAATTATAAAAA * * 27165409 -AATTAAAAAAAGTATTAAAATTGATAT-AAACTTATAAAAA 1 TTA-TAAAAAAAGTATTAAAATT-ATATAAAAATTATAAAAA 27165449 TTATAAAA 1 TTATAAAA 27165457 TAAATCATAA Statistics Matches: 39, Mismatches: 5, Indels: 7 0.76 0.10 0.14 Matches are distributed among these distances: 38 1 0.03 39 1 0.03 40 33 0.85 41 4 0.10 ACGTcount: A:0.61, C:0.02, G:0.03, T:0.33 Consensus pattern (40 bp): TTATAAAAAAAGTATTAAAATTATATAAAAATTATAAAAA Found at i:27165957 original size:19 final size:18 Alignment explanation
Indices: 27165935--27165979 Score: 54 Period size: 19 Copynumber: 2.4 Consensus size: 18 27165925 TATTTTTAAG * * 27165935 AATTTTAATACGTTTTTTT 1 AATTTTAATAAG-TTTATT 27165954 AATTTTAAATAAGTTTATT 1 AATTTT-AATAAGTTTATT 27165973 AATTTTA 1 AATTTTA 27165980 TATTTTCATA Statistics Matches: 23, Mismatches: 2, Indels: 3 0.82 0.07 0.11 Matches are distributed among these distances: 18 1 0.04 19 17 0.74 20 5 0.22 ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58 Consensus pattern (18 bp): AATTTTAATAAGTTTATT Found at i:27165985 original size:26 final size:27 Alignment explanation
Indices: 27165949--27166022 Score: 77 Period size: 27 Copynumber: 2.8 Consensus size: 27 27165939 TTAATACGTT 27165949 TTTTTA-ATTTTAAATAAGTTTATT-AA 1 TTTTTATATTTTAAATAA-TTTATTAAA * 27165975 -TTTTATATTTT-CATAATTTATTAAAA 1 TTTTTATATTTTAAATAATTTATT-AAA 27166001 TTTTTATATTTTATAAT-ATTTA 1 TTTTTATATTTTA-AATAATTTA 27166023 CAAGTTTTTT Statistics Matches: 40, Mismatches: 2, Indels: 10 0.77 0.04 0.19 Matches are distributed among these distances: 24 6 0.15 25 9 0.22 26 7 0.17 27 11 0.28 28 5 0.12 29 2 0.05 ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61 Consensus pattern (27 bp): TTTTTATATTTTAAATAATTTATTAAA Found at i:27166031 original size:27 final size:28 Alignment explanation
Indices: 27165975--27166041 Score: 68 Period size: 29 Copynumber: 2.4 Consensus size: 28 27165965 AGTTTATTAA * 27165975 TTTTATATTTTCATAATTTATTAAA-AT 1 TTTTATATTTTCATAATATATTAAATAT * 27166002 TTTTATATTTT-ATAATAT-TTACAAGTTTT 1 TTTTATATTTTCATAATATATTA-AA--TAT 27166031 TTTTATATTTT 1 TTTTATATTTT 27166042 TTATAATTTT Statistics Matches: 34, Mismatches: 2, Indels: 6 0.81 0.05 0.14 Matches are distributed among these distances: 25 3 0.09 26 8 0.24 27 11 0.32 29 12 0.35 ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64 Consensus pattern (28 bp): TTTTATATTTTCATAATATATTAAATAT Found at i:27166164 original size:10 final size:10 Alignment explanation
Indices: 27166037--27166164 Score: 62 Period size: 10 Copynumber: 13.7 Consensus size: 10 27166027 TTTTTTTTAT * 27166037 ATTTTTTATA 1 ATTTTTAATA 27166047 A-TTTTAATA 1 ATTTTTAATA * * 27166056 AGTTTATATTA 1 A-TTTTTAATA * 27166067 A-TTCTAATA 1 ATTTTTAATA 27166076 TATTTTT--TA 1 -ATTTTTAATA 27166085 ATTTTT--TA 1 ATTTTTAATA * 27166093 ATGTTTAAT- 1 ATTTTTAATA * 27166102 ATATTT-AT- 1 ATTTTTAATA * 27166110 -TTTTTAATT 1 ATTTTTAATA * * 27166119 CTTTTTTATA 1 ATTTTTAATA * 27166129 ATTTTTTATA 1 ATTTTTAATA 27166139 ATTTTTAAT- 1 ATTTTTAATA * 27166148 ATTTTTAATC 1 ATTTTTAATA 27166158 ATTTTTA 1 ATTTTTA 27166165 TGAGAAAAAA Statistics Matches: 95, Mismatches: 13, Indels: 20 0.74 0.10 0.16 Matches are distributed among these distances: 7 4 0.04 8 17 0.18 9 30 0.32 10 34 0.36 11 10 0.11 ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65 Consensus pattern (10 bp): ATTTTTAATA Found at i:27166164 original size:19 final size:20 Alignment explanation
Indices: 27166110--27166164 Score: 60 Period size: 19 Copynumber: 2.8 Consensus size: 20 27166100 ATATATTTAT * 27166110 TTTTTAATTC-TTTTTTATAA 1 TTTTTAA-TCATTTTTAATAA * * 27166130 TTTTTTATAATTTTTAAT-A 1 TTTTTAATCATTTTTAATAA 27166149 TTTTTAATCATTTTTA 1 TTTTTAATCATTTTTA 27166165 TGAGAAAAAA Statistics Matches: 29, Mismatches: 5, Indels: 3 0.78 0.14 0.08 Matches are distributed among these distances: 19 16 0.55 20 13 0.45 ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69 Consensus pattern (20 bp): TTTTTAATCATTTTTAATAA Found at i:27166434 original size:22 final size:22 Alignment explanation
Indices: 27166411--27166460 Score: 66 Period size: 22 Copynumber: 2.2 Consensus size: 22 27166401 TTAAAATTTA 27166411 AAATT-TAAAAAATAAAAAACT 1 AAATTCTAAAAAATAAAAAACT * 27166432 AAATTCTTAAAAATAAAAATACAT 1 AAATTCTAAAAAATAAAAA-AC-T 27166456 AAATT 1 AAATT 27166461 AAATTTCAAT Statistics Matches: 25, Mismatches: 1, Indels: 3 0.86 0.03 0.10 Matches are distributed among these distances: 21 5 0.20 22 12 0.48 23 2 0.08 24 6 0.24 ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28 Consensus pattern (22 bp): AAATTCTAAAAAATAAAAAACT Found at i:27181708 original size:11 final size:10 Alignment explanation
Indices: 27181691--27181752 Score: 81 Period size: 10 Copynumber: 6.1 Consensus size: 10 27181681 TCGTTTATAC 27181691 ATTTTAATTA 1 ATTTTAATTA * 27181701 GTTTTTAATTA 1 -ATTTTAATTA 27181712 ATTTTAATTA 1 ATTTTAATTA * 27181722 GTTTTTAATTA 1 -ATTTTAATTA 27181733 ATTTTAATTA 1 ATTTTAATTA 27181743 A-TTTAATTA 1 ATTTTAATTA 27181752 A 1 A 27181753 CCTAAGTTTA Statistics Matches: 46, Mismatches: 4, Indels: 4 0.85 0.07 0.07 Matches are distributed among these distances: 9 9 0.20 10 19 0.41 11 18 0.39 ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60 Consensus pattern (10 bp): ATTTTAATTA Found at i:27181717 original size:21 final size:21 Alignment explanation
Indices: 27181691--27181742 Score: 104 Period size: 21 Copynumber: 2.5 Consensus size: 21 27181681 TCGTTTATAC 27181691 ATTTTAATTAGTTTTTAATTA 1 ATTTTAATTAGTTTTTAATTA 27181712 ATTTTAATTAGTTTTTAATTA 1 ATTTTAATTAGTTTTTAATTA 27181733 ATTTTAATTA 1 ATTTTAATTA 27181743 ATTTAATTAA Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 21 31 1.00 ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62 Consensus pattern (21 bp): ATTTTAATTAGTTTTTAATTA Found at i:27183108 original size:17 final size:17 Alignment explanation
Indices: 27183081--27183126 Score: 56 Period size: 17 Copynumber: 2.7 Consensus size: 17 27183071 CCGATATAAT * * * 27183081 AAATATATTTATTTTTT 1 AAATATTTTTAATTTTA * 27183098 AAATTTTTTTAATTTTA 1 AAATATTTTTAATTTTA 27183115 AAATATTTTTAA 1 AAATATTTTTAA 27183127 AATACTTTTT Statistics Matches: 24, Mismatches: 5, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 17 24 1.00 ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61 Consensus pattern (17 bp): AAATATTTTTAATTTTA Found at i:27183137 original size:41 final size:38 Alignment explanation
Indices: 27183092--27183184 Score: 116 Period size: 40 Copynumber: 2.3 Consensus size: 38 27183082 AATATATTTA * 27183092 TTTTTTAAATTTTTTTAATTTTAAAATA-TTTTTAAAATAC 1 TTTTTTTAATTTTTTTAATTTTAAAATACTTTTT--AA-AC * 27183132 TTTTTTTATTATTTTTTAATTTTAAAATACTTTTTAAAC 1 TTTTTTTAAT-TTTTTTAATTTTAAAATACTTTTTAAAC 27183171 TTTTTTTTAATTTT 1 -TTTTTTTAATTTT 27183185 AAAATACTTT Statistics Matches: 47, Mismatches: 3, Indels: 7 0.82 0.05 0.12 Matches are distributed among these distances: 39 5 0.11 40 19 0.40 41 18 0.38 42 5 0.11 ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66 Consensus pattern (38 bp): TTTTTTTAATTTTTTTAATTTTAAAATACTTTTTAAAC Found at i:27183155 original size:30 final size:30 Alignment explanation
Indices: 27183121--27183205 Score: 127 Period size: 30 Copynumber: 2.8 Consensus size: 30 27183111 TTTAAAATAT 27183121 TTTTAAAATACTTTTTTTA-TTATTTTTTAA 1 TTTTAAAATACTTTTTTTACTT-TTTTTTAA ** 27183151 TTTTAAAATACTTTTTAAACTTTTTTTTAA 1 TTTTAAAATACTTTTTTTACTTTTTTTTAA * 27183181 TTTTAAAATACTTTTTTTAATTTTT 1 TTTTAAAATACTTTTTTTACTTTTT 27183206 AAAATAAATT Statistics Matches: 49, Mismatches: 5, Indels: 2 0.88 0.09 0.04 Matches are distributed among these distances: 30 47 0.96 31 2 0.04 ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65 Consensus pattern (30 bp): TTTTAAAATACTTTTTTTACTTTTTTTTAA Found at i:27183197 original size:20 final size:21 Alignment explanation
Indices: 27183172--27183211 Score: 73 Period size: 21 Copynumber: 2.0 Consensus size: 21 27183162 TTTTTAAACT 27183172 TTTTTTTAA-TTTTAAAATAC 1 TTTTTTTAATTTTTAAAATAC 27183192 TTTTTTTAATTTTTAAAATA 1 TTTTTTTAATTTTTAAAATA 27183212 AATTTTTAGT Statistics Matches: 19, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 20 9 0.47 21 10 0.53 ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62 Consensus pattern (21 bp): TTTTTTTAATTTTTAAAATAC Found at i:27183217 original size:20 final size:20 Alignment explanation
Indices: 27183174--27183219 Score: 58 Period size: 20 Copynumber: 2.3 Consensus size: 20 27183164 TTTAAACTTT ** 27183174 TTTTTAATTTTAAAATACTT 1 TTTTTAATTTTAAAATACAA 27183194 TTTTTAATTTTTAAAATA-AA 1 TTTTTAA-TTTTAAAATACAA 27183214 TTTTTA 1 TTTTTA 27183220 GTATTTATTA Statistics Matches: 23, Mismatches: 2, Indels: 2 0.85 0.07 0.07 Matches are distributed among these distances: 20 13 0.57 21 10 0.43 ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61 Consensus pattern (20 bp): TTTTTAATTTTAAAATACAA Found at i:27183217 original size:21 final size:20 Alignment explanation
Indices: 27183173--27183218 Score: 65 Period size: 21 Copynumber: 2.2 Consensus size: 20 27183163 TTTTAAACTT ** 27183173 TTTTTTAATTTTAAAATACT 1 TTTTTTAATTTTAAAATAAA 27183193 TTTTTTAATTTTTAAAATAAA 1 TTTTTTAA-TTTTAAAATAAA 27183214 TTTTT 1 TTTTT 27183219 AGTATTTATT Statistics Matches: 23, Mismatches: 2, Indels: 1 0.88 0.08 0.04 Matches are distributed among these distances: 20 8 0.35 21 15 0.65 ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63 Consensus pattern (20 bp): TTTTTTAATTTTAAAATAAA Found at i:27184191 original size:28 final size:28 Alignment explanation
Indices: 27184151--27184207 Score: 105 Period size: 28 Copynumber: 2.0 Consensus size: 28 27184141 ACTATGACAG * 27184151 TAAGGCGCCCACACTCTTTTTTACTTGT 1 TAAGGCGCCCACACTCCTTTTTACTTGT 27184179 TAAGGCGCCCACACTCCTTTTTACTTGT 1 TAAGGCGCCCACACTCCTTTTTACTTGT 27184207 T 1 T 27184208 CTTGTTCCGT Statistics Matches: 28, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 28 28 1.00 ACGTcount: A:0.18, C:0.30, G:0.14, T:0.39 Consensus pattern (28 bp): TAAGGCGCCCACACTCCTTTTTACTTGT Found at i:27189010 original size:21 final size:21 Alignment explanation
Indices: 27188970--27189025 Score: 76 Period size: 21 Copynumber: 2.6 Consensus size: 21 27188960 TTTTCTCTCA * * 27188970 TTTTCTCTCTTGCCAAACACTAT 1 TTTTCT-TCTT-CAAAACACCAT 27188993 TTTTCTTCTTCAAAACACCAT 1 TTTTCTTCTTCAAAACACCAT 27189014 TTTTCTTCTTCA 1 TTTTCTTCTTCA 27189026 GTACCTAACC Statistics Matches: 31, Mismatches: 2, Indels: 2 0.89 0.06 0.06 Matches are distributed among these distances: 21 21 0.68 22 4 0.13 23 6 0.19 ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48 Consensus pattern (21 bp): TTTTCTTCTTCAAAACACCAT Found at i:27190033 original size:66 final size:67 Alignment explanation
Indices: 27189927--27190053 Score: 188 Period size: 66 Copynumber: 1.9 Consensus size: 67 27189917 GAAATGAGCC * * 27189927 AACCATATGTTTTGAAGAAGAAAAATAGTGTTTGGCAAGAGAGAAAATGAGA-AAAAAAATGCCA 1 AACCATATGTTTTGAAGAAGAAAAATAGTGTTAGGAAAGAGAGAAAATGAGAGAAAAAAATGCCA 27189991 AT 66 AT * 27189993 AACCATGTGTTTTGAAGAA-AAAAAGT-GTTGTTAGGAAAGAGAGAAAATGAGAGAAAAAAAT 1 AACCATATGTTTTGAAGAAGAAAAA-TAG-TGTTAGGAAAGAGAGAAAATGAGAGAAAAAAAT 27190054 TTATTAAATA Statistics Matches: 55, Mismatches: 3, Indels: 5 0.87 0.05 0.08 Matches are distributed among these distances: 65 6 0.11 66 41 0.75 67 8 0.15 ACGTcount: A:0.50, C:0.06, G:0.23, T:0.21 Consensus pattern (67 bp): AACCATATGTTTTGAAGAAGAAAAATAGTGTTAGGAAAGAGAGAAAATGAGAGAAAAAAATGCCA AT Found at i:27197080 original size:5 final size:6 Alignment explanation
Indices: 27197065--27197089 Score: 50 Period size: 6 Copynumber: 4.2 Consensus size: 6 27197055 ATTATTTTAA 27197065 AAAAAT AAAAAT AAAAAT AAAAAT A 1 AAAAAT AAAAAT AAAAAT AAAAAT A 27197090 TATTATTTTT Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 19 1.00 ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16 Consensus pattern (6 bp): AAAAAT Found at i:27198869 original size:14 final size:14 Alignment explanation
Indices: 27198850--27198877 Score: 56 Period size: 14 Copynumber: 2.0 Consensus size: 14 27198840 AACTACAAAG 27198850 GCTAATTGTATTTA 1 GCTAATTGTATTTA 27198864 GCTAATTGTATTTA 1 GCTAATTGTATTTA 27198878 TTACCTCTCA 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:0.29, C:0.07, G:0.14, T:0.50 Consensus pattern (14 bp): GCTAATTGTATTTA Found at i:27205831 original size:22 final size:22 Alignment explanation
Indices: 27205803--27205855 Score: 88 Period size: 22 Copynumber: 2.4 Consensus size: 22 27205793 TAATACCAAA 27205803 CCCCATACCCCCACTACAACAG 1 CCCCATACCCCCACTACAACAG * 27205825 CCCCATACCTCCACTACAACAG 1 CCCCATACCCCCACTACAACAG * 27205847 TCCCATACC 1 CCCCATACC 27205856 GTCTGACACC Statistics Matches: 29, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 22 29 1.00 ACGTcount: A:0.30, C:0.53, G:0.04, T:0.13 Consensus pattern (22 bp): CCCCATACCCCCACTACAACAG Found at i:27206890 original size:20 final size:20 Alignment explanation
Indices: 27206865--27206902 Score: 67 Period size: 20 Copynumber: 1.9 Consensus size: 20 27206855 ATTTGTTATT * 27206865 TTAGTTATTTTATCATTAAA 1 TTAGTTATTTTAACATTAAA 27206885 TTAGTTATTTTAACATTA 1 TTAGTTATTTTAACATTA 27206903 TTATTACTAT Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 20 17 1.00 ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55 Consensus pattern (20 bp): TTAGTTATTTTAACATTAAA Found at i:27206961 original size:16 final size:16 Alignment explanation
Indices: 27206942--27206972 Score: 53 Period size: 16 Copynumber: 1.9 Consensus size: 16 27206932 TATTGTTATC * 27206942 TATTTATTTATATTTA 1 TATTTATTTAAATTTA 27206958 TATTTATTTAAATTT 1 TATTTATTTAAATTT 27206973 TCGGTACATA Statistics Matches: 14, Mismatches: 1, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 16 14 1.00 ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68 Consensus pattern (16 bp): TATTTATTTAAATTTA Found at i:27213487 original size:46 final size:46 Alignment explanation
Indices: 27213409--27214169 Score: 271 Period size: 46 Copynumber: 17.0 Consensus size: 46 27213399 ATAACTCTAT * * * 27213409 CTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC 1 CTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGGCAGATCTTAC * * * * 27213455 CTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC 1 CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC * * * * ** * * * 27213501 CTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG-ATAACTCTAT 1 CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCT-TAC * * * 27213543 CTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC 1 CTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGGCAGATCTTAC * * * * 27213589 CTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC 1 CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC * * * * ** * * * 27213635 CTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG-ATAACTCTAT 1 CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCT-TAC * * * 27213677 CTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC 1 CTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGGCAGATCTTAC * * * * * 27213723 CTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC 1 CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC * * * * ** * * * 27213769 CTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG-ATAACTCTAT 1 CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCT-TAC * * * 27213811 CTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC 1 CTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGGCAGATCTTAC * * * * 27213857 CTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC 1 CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC * * * * ** * * * 27213903 CTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG-ATAACTCTAT 1 CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCT-TAC * * * 27213945 CTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC 1 CTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGGCAGATCTTAC * * * * * * 27213991 CTTCTTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC 1 CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC * * * * ** * * * 27214037 CTCCCTGTGACTA--CAGTGGAGTACATTGAAG-CCG-ATAACTCTAT 1 CTCCCTGT-ATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCT-TAC ** * * * 27214081 CTCCCTGTATCGGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTGC 1 CTCCCTGTATTAGGCAG-CGAAGTAGATTGAAGATGGCAGATCTTAC * * * * ** 27214127 CTTCTTGTATTAGGTAG-GAAGTAGACTGAAGAAAGCAGATCTT 1 CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCTT 27214170 GTCTTCATGT Statistics Matches: 501, Mismatches: 164, Indels: 101 0.65 0.21 0.13 Matches are distributed among these distances: 41 12 0.02 42 40 0.08 43 60 0.12 44 18 0.04 45 123 0.25 46 226 0.45 47 22 0.04 ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28 Consensus pattern (46 bp): CTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGGCAGATCTTAC Found at i:27213541 original size:134 final size:134 Alignment explanation
Indices: 27213311--27214140 Score: 1570 Period size: 134 Copynumber: 6.2 Consensus size: 134 27213301 TTGAAGTTAT * * * 27213311 CAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCGAAGATGGTAGATTTTACCTCCCTGAC 1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC 27213376 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG 66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG 27213441 ATTG 131 ATTG 27213445 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC 1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC 27213510 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG 66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG 27213575 ATTG 131 ATTG 27213579 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC 1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC 27213644 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG 66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG 27213709 ATTG 131 ATTG * 27213713 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC 1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC 27213778 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG 66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG 27213843 ATTG 131 ATTG 27213847 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC 1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC 27213912 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG 66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG 27213977 ATTG 131 ATTG * * 27213981 CAGATCTTGCCTTCTTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTG 1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCC--TG * 27214046 ACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCGGGCAGTGGAATAGATTGA 64 ACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGA 27214111 AGATTG 129 AGATTG * 27214117 CAGATCTTGCCTTCTTGTATTAGG 1 CAGATCTTGCCTTCCTGTATTAGG 27214141 TAGGAAGTAG Statistics Matches: 685, Mismatches: 9, Indels: 2 0.98 0.01 0.00 Matches are distributed among these distances: 134 590 0.86 136 95 0.14 ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29 Consensus pattern (134 bp): CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG ATTG Found at i:27214181 original size:45 final size:43 Alignment explanation
Indices: 27214099--27214195 Score: 115 Period size: 45 Copynumber: 2.2 Consensus size: 43 27214089 ATCGGGCAGT * ** * 27214099 GGAA-TAGATTGAAGATTGCAGATCTTGCCTTCTTGTATTAGGTA 1 GGAAGTAGACTGAAGAAAGCAGATCTTGCCTTCATGTATT-GG-A * 27214143 GGAAGTAGACTGAAGAAAGCAGATCTTGTCTTCATGTATTGGA 1 GGAAGTAGACTGAAGAAAGCAGATCTTGCCTTCATGTATTGGA 27214186 GTGAAGTAGA 1 G-GAAGTAGA 27214196 TCAAAGATAA Statistics Matches: 46, Mismatches: 5, Indels: 4 0.84 0.09 0.07 Matches are distributed among these distances: 43 2 0.04 44 14 0.30 45 30 0.65 ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31 Consensus pattern (43 bp): GGAAGTAGACTGAAGAAAGCAGATCTTGCCTTCATGTATTGGA Found at i:27214374 original size:44 final size:45 Alignment explanation
Indices: 27214103--27214376 Score: 200 Period size: 44 Copynumber: 6.2 Consensus size: 45 27214093 GGCAGTGGAA * * * * 27214103 TAGATTGAAGATTGCAGATCTTGCCTTCTTGTATTAGGTAG-GAAG 1 TAGATTGAAGATAGCAGATCTTGTCTTCCTATATT-GGTAGTGAAG * * * * 27214148 TAGACTGAAGAAAGCAGATCTTGTCTTCATGTATTGG-AGTGAAG 1 TAGATTGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG ** * * ** 27214192 TAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAG-GAAG 1 TAGATTGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG * * * * * * * * * 27214236 TGGATCGACGA-CGCAGATCTTGTCTTCCCATACTGGTGGCGAAT 1 TAGATTGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG * * * * * * * 27214280 TAGATCGAAGAAAGCAGATCTTATTTTCATATATTGAT-GTGAAA 1 TAGATTGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG * * 27214324 TAGATTGAAGATAGCAGATCCTGCCTTCCTATATTGGTAG-GAAG 1 TAGATTGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG * 27214368 TGGATTGAA 1 TAGATTGAA 27214377 AAACAGACTC Statistics Matches: 176, Mismatches: 48, Indels: 11 0.75 0.20 0.05 Matches are distributed among these distances: 43 22 0.12 44 102 0.58 45 52 0.30 ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31 Consensus pattern (45 bp): TAGATTGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG Found at i:27214739 original size:229 final size:229 Alignment explanation
Indices: 27214320--27214748 Score: 705 Period size: 229 Copynumber: 1.9 Consensus size: 229 27214310 ATATTGATGT * * 27214320 GAAATAGATTGAAGATAGCAGATCCTGCCTTCCTATATTGGTAGGAAGTGGATTGAAAAACAGAC 1 GAAATAGATCGAAGATAGCAGATCCTGCCTCCCTATATTGGTAGGAAGTGGATTGAAAAACAGAC * * * * 27214385 TCTATCTCCCTGTATTTAGCAGTGGAATAGATTGCAGGTCGAAGACGGCAGACTTTACCTCCCTG 66 TCTATCTCCCTGTATTTAGCAGTGGAACAGATTGAAGATCAAAGACGGCAGACTTTACCTCCCTG * * * * 27214450 ACTACAGTAGAGTACGTTGAAGCTGATAACTCTATCTCCCTGTATTGGGCAGTAGAATAGATTGA 131 ACTACAATAGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTGGGCAGTAGAATAGATTGA 27214515 AGATTGCAGATCTTACCTTCCTGTATTCGGCAAC 196 AGATTGCAGATCTTACCTTCCTGTATTCGGCAAC 27214549 GAAATAGATCGAAGATAGCAGATCCTGCCTCCCTATATTGGTAGGAAGTGGATTGAAAAACAGAC 1 GAAATAGATCGAAGATAGCAGATCCTGCCTCCCTATATTGGTAGGAAGTGGATTGAAAAACAGAC * * * 27214614 TCTATCTCCCTGTATTTGGCAGTGGAACAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG 66 TCTATCTCCCTGTATTTAGCAGTGGAACAGATTGAAGATCAAAGACGGCAGACTTTACCTCCCTG * * * * 27214679 ACTACAATGGAGTACATTGAAGCCGATGACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGA 131 ACTACAATAGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTGGGCAGTAGAATAGATTGA 27214744 AGATT 196 AGATT 27214749 TTAGGTCTTA Statistics Matches: 183, Mismatches: 17, Indels: 0 0.92 0.09 0.00 Matches are distributed among these distances: 229 183 1.00 ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28 Consensus pattern (229 bp): GAAATAGATCGAAGATAGCAGATCCTGCCTCCCTATATTGGTAGGAAGTGGATTGAAAAACAGAC TCTATCTCCCTGTATTTAGCAGTGGAACAGATTGAAGATCAAAGACGGCAGACTTTACCTCCCTG ACTACAATAGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTGGGCAGTAGAATAGATTGA AGATTGCAGATCTTACCTTCCTGTATTCGGCAAC Found at i:27214839 original size:43 final size:40 Alignment explanation
Indices: 27214754--27214839 Score: 109 Period size: 40 Copynumber: 2.1 Consensus size: 40 27214744 AGATTTTAGG * * * * 27214754 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACACCCAA 1 TCTTATCTCCCTAAATAGTAGTGGAGCAGATAAAACCAAA 27214794 TCTTATCTCCCTAAATAGTAGTGGAGCAGACTAAAAACACAAA 1 TCTTATCTCCCTAAATAGTAGTGGAGCAGA-T-AAAAC-CAAA 27214837 TCT 1 TCT 27214840 CACCCCCATG Statistics Matches: 39, Mismatches: 4, Indels: 3 0.85 0.09 0.07 Matches are distributed among these distances: 40 29 0.74 41 1 0.03 42 3 0.08 43 6 0.15 ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26 Consensus pattern (40 bp): TCTTATCTCCCTAAATAGTAGTGGAGCAGATAAAACCAAA Found at i:27215119 original size:22 final size:22 Alignment explanation
Indices: 27215091--27215143 Score: 79 Period size: 22 Copynumber: 2.4 Consensus size: 22 27215081 TAATACCAAA * 27215091 CCCCATACCCCCACTACAATAG 1 CCCCATACCCCCACTACAACAG * 27215113 CCCCATACCTCCACTACAACAG 1 CCCCATACCCCCACTACAACAG * 27215135 TCCCATACC 1 CCCCATACC 27215144 GTCTGACACC Statistics Matches: 28, Mismatches: 3, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 22 28 1.00 ACGTcount: A:0.30, C:0.51, G:0.04, T:0.15 Consensus pattern (22 bp): CCCCATACCCCCACTACAACAG Found at i:27216178 original size:20 final size:20 Alignment explanation
Indices: 27216153--27216190 Score: 67 Period size: 20 Copynumber: 1.9 Consensus size: 20 27216143 ATTTGTTATT * 27216153 TTAGTTATTTTATCATTAAA 1 TTAGTTATTTTAACATTAAA 27216173 TTAGTTATTTTAACATTA 1 TTAGTTATTTTAACATTA 27216191 TTATTACTAT Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 20 17 1.00 ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55 Consensus pattern (20 bp): TTAGTTATTTTAACATTAAA Found at i:27216249 original size:16 final size:16 Alignment explanation
Indices: 27216230--27216260 Score: 53 Period size: 16 Copynumber: 1.9 Consensus size: 16 27216220 TATTGTTATC * 27216230 TATTTATTTATATTTA 1 TATTTATTTAAATTTA 27216246 TATTTATTTAAATTT 1 TATTTATTTAAATTT 27216261 TCGGTACATA Statistics Matches: 14, Mismatches: 1, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 16 14 1.00 ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68 Consensus pattern (16 bp): TATTTATTTAAATTTA Found at i:27218536 original size:35 final size:35 Alignment explanation
Indices: 27218490--27218722 Score: 298 Period size: 35 Copynumber: 6.8 Consensus size: 35 27218480 ATCAAATGAT * 27218490 GTGAACAGGAGAGATTCCCTGCAACAAAATAATCC 1 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGC * * 27218525 GTGAACAGGAGAGATTCCCTGCAA-GAAATGAT-- 1 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGC * * 27218557 GTGAACAGGAAAGATTCCCTGCAACAAAATAATGT 1 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGC * 27218592 GTGAACAGGAGAGATTCCCTACAACAAAATAATGC 1 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGC * * 27218627 GTGAACAGGAGAGATTCCCTGCAA-GAAATGAT-- 1 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGC * * * 27218659 GTGAACAGTAAAGATTCCCTGCAACAGAATAATGC 1 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGC * * * 27218694 GTGAACAGGAAATATTCCCTGCAAGAAAA 1 GTGAACAGGAGAGATTCCCTGCAACAAAA 27218723 GACAAGTGAA Statistics Matches: 172, Mismatches: 20, Indels: 12 0.84 0.10 0.06 Matches are distributed among these distances: 32 45 0.26 33 11 0.06 34 12 0.07 35 104 0.60 ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18 Consensus pattern (35 bp): GTGAACAGGAGAGATTCCCTGCAACAAAATAATGC Found at i:27218596 original size:67 final size:67 Alignment explanation
Indices: 27218490--27218722 Score: 274 Period size: 67 Copynumber: 3.4 Consensus size: 67 27218480 ATCAAATGAT * * * * 27218490 GTGAACAGGAGAGATTCCCTGCAACAAAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATG 1 GTGAACAGGAAAGATTCCCTGCAACAAAATAAT-TGTGAACAGGAGAGATTCCCTGCAAAAAATA 27218555 AT- 65 ATC * 27218557 GTGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTACAACAAAAT 1 GTGAACAGGAAAGATTCCCTGCAACAAAATAAT-TGTGAACAGGAGAGATTCCCTGCAA-AAAAT 27218622 AATGC 64 AAT-C * * * * * * 27218627 GTGAACAGGAGAGATTCCCTGCAA-GAAATGA-TGTGAACAGTAAAGATTCCCTGCAACAGAATA 1 GTGAACAGGAAAGATTCCCTGCAACAAAATAATTGTGAACAGGAGAGATTCCCTGCAA-AAAATA 27218690 ATGC 65 AT-C * * 27218694 GTGAACAGGAAATATTCCCTGCAAGAAAA 1 GTGAACAGGAAAGATTCCCTGCAACAAAA 27218723 GACAAGTGAA Statistics Matches: 146, Mismatches: 16, Indels: 7 0.86 0.09 0.04 Matches are distributed among these distances: 67 109 0.75 68 9 0.06 69 5 0.03 70 23 0.16 ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18 Consensus pattern (67 bp): GTGAACAGGAAAGATTCCCTGCAACAAAATAATTGTGAACAGGAGAGATTCCCTGCAAAAAATAA TC Found at i:27218665 original size:102 final size:102 Alignment explanation
Indices: 27218484--27218722 Score: 397 Period size: 102 Copynumber: 2.3 Consensus size: 102 27218474 ATATTTATCA 27218484 AATGATGTGAACAGGAGAGATTCCCTGCAACAAAATAATCCGTGAACAGGAGAGATTCCCTGCAA 1 AATG-TGTGAACAGGAGAGATTCCCTGCAACAAAATAATCCGTGAACAGGAGAGATTCCCTGCAA 27218549 GAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAAT 65 GAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAAT * * 27218587 AATGTGTGAACAGGAGAGATTCCCTACAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAAG 1 AATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATCCGTGAACAGGAGAGATTCCCTGCAAG * * 27218652 AAATGATGTGAACAGTAAAGATTCCCTGCAACAGAAT 66 AAATGATGTGAACAGGAAAGATTCCCTGCAACAAAAT * * * * 27218689 AATGCGTGAACAGGAAATATTCCCTGCAAGAAAA 1 AATGTGTGAACAGGAGAGATTCCCTGCAACAAAA 27218723 GACAAGTGAA Statistics Matches: 127, Mismatches: 9, Indels: 1 0.93 0.07 0.01 Matches are distributed among these distances: 102 123 0.97 103 4 0.03 ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19 Consensus pattern (102 bp): AATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATCCGTGAACAGGAGAGATTCCCTGCAAG AAATGATGTGAACAGGAAAGATTCCCTGCAACAAAAT Found at i:27222706 original size:41 final size:41 Alignment explanation
Indices: 27222648--27222780 Score: 194 Period size: 41 Copynumber: 3.2 Consensus size: 41 27222638 ACTGGCACTT ** * 27222648 AGCCTGCTAGAAATAAAGTCTGAAATGTTTCACCGGCGTCA 1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA 27222689 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA 1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA ** * ** 27222730 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTAGCATCA 1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA 27222771 AGCCTGCTAG 1 AGCCTGCTAG 27222781 GCACCGAGCC Statistics Matches: 84, Mismatches: 8, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 41 84 1.00 ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25 Consensus pattern (41 bp): AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA Found at i:27227216 original size:4 final size:4 Alignment explanation
Indices: 27227207--27227232 Score: 52 Period size: 4 Copynumber: 6.5 Consensus size: 4 27227197 AGAATTTTGA 27227207 AAAT AAAT AAAT AAAT AAAT AAAT AA 1 AAAT AAAT AAAT AAAT AAAT AAAT AA 27227233 CCCAAAAGAA Statistics Matches: 22, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 4 22 1.00 ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23 Consensus pattern (4 bp): AAAT Found at i:27235902 original size:10 final size:10 Alignment explanation
Indices: 27235874--27235903 Score: 51 Period size: 10 Copynumber: 3.0 Consensus size: 10 27235864 GAGTTATAGC * 27235874 ATGTATGTAT 1 ATGTATGTGT 27235884 ATGTATGTGT 1 ATGTATGTGT 27235894 ATGTATGTGT 1 ATGTATGTGT 27235904 GTATTGTTCA Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 10 19 1.00 ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50 Consensus pattern (10 bp): ATGTATGTGT Found at i:27240381 original size:31 final size:30 Alignment explanation
Indices: 27240311--27240387 Score: 95 Period size: 31 Copynumber: 2.6 Consensus size: 30 27240301 TGCTTGTATC * * 27240311 ATTTAAATATTATTTATTATTATATTAAGTT 1 ATTTAAATATAATTTATTATTATATTAAG-A * 27240342 ATTTAAATATAATTTATTTTTATATTTAA-A 1 ATTTAAATATAATTTATTATTATA-TTAAGA 27240372 ATTTAAA-ATAATTTAT 1 ATTTAAATATAATTTAT 27240388 GTGTCATTAA Statistics Matches: 42, Mismatches: 3, Indels: 4 0.86 0.06 0.08 Matches are distributed among these distances: 29 9 0.21 30 7 0.17 31 22 0.52 32 4 0.10 ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56 Consensus pattern (30 bp): ATTTAAATATAATTTATTATTATATTAAGA Found at i:27248331 original size:6 final size:6 Alignment explanation
Indices: 27248316--27248349 Score: 52 Period size: 6 Copynumber: 5.8 Consensus size: 6 27248306 TGGTCACCGC * 27248316 AAAAAA AAAAAG AAAAA- AAAAAG AAAAAG AAAAA 1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA 27248350 TGGTCAAATT Statistics Matches: 26, Mismatches: 1, Indels: 2 0.90 0.03 0.07 Matches are distributed among these distances: 5 5 0.19 6 21 0.81 ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00 Consensus pattern (6 bp): AAAAAG Found at i:27248333 original size:11 final size:11 Alignment explanation
Indices: 27248317--27248349 Score: 57 Period size: 11 Copynumber: 2.9 Consensus size: 11 27248307 GGTCACCGCA 27248317 AAAAAAAAAAG 1 AAAAAAAAAAG 27248328 AAAAAAAAAAG 1 AAAAAAAAAAG 27248339 AAAAAGAAAAA 1 AAAAA-AAAAA 27248350 TGGTCAAATT Statistics Matches: 21, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 11 16 0.76 12 5 0.24 ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00 Consensus pattern (11 bp): AAAAAAAAAAG Found at i:27248342 original size:17 final size:16 Alignment explanation
Indices: 27248316--27248349 Score: 59 Period size: 17 Copynumber: 2.1 Consensus size: 16 27248306 TGGTCACCGC 27248316 AAAAAAAAAAAGAAAA 1 AAAAAAAAAAAGAAAA 27248332 AAAAAAGAAAAAGAAAA 1 AAAAAA-AAAAAGAAAA 27248349 A 1 A 27248350 TGGTCAAATT Statistics Matches: 17, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 16 6 0.35 17 11 0.65 ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00 Consensus pattern (16 bp): AAAAAAAAAAAGAAAA Found at i:27252949 original size:29 final size:29 Alignment explanation
Indices: 27252895--27252950 Score: 69 Period size: 30 Copynumber: 1.9 Consensus size: 29 27252885 ATGGAAAATT * * * 27252895 AAAAAAAATATTTTATAAATTCTTTAAAG 1 AAAAAAAATACTTCATAAAATCTTTAAAG 27252924 AAAAATAAATACTTCATAAAAT-TTTAA 1 AAAAA-AAATACTTCATAAAATCTTTAA 27252951 TTTTTTTTTC Statistics Matches: 23, Mismatches: 3, Indels: 2 0.82 0.11 0.07 Matches are distributed among these distances: 29 10 0.43 30 13 0.57 ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36 Consensus pattern (29 bp): AAAAAAAATACTTCATAAAATCTTTAAAG Found at i:27258252 original size:117 final size:117 Alignment explanation
Indices: 27258123--27258365 Score: 434 Period size: 117 Copynumber: 2.1 Consensus size: 117 27258113 TCTAAGTGTC 27258123 GATTTGATAATTGATATATTAGATCAGTGTCTATCAATAAATACAAAAATATACTTTAGATCTAA 1 GATTTGATAATTGATATATTAGATCAGTGTCTATCAATAAATACAAAAATATACTTTAGATCTAA * * 27258188 GTTAATCTAACAGTCTATGACAGAAATTAGAAAAAAAAACTGTTTGAATTTT 66 GTTAATCTAACAGTCTATGACAGAAATTAGAAAAAAAAACTATTTAAATTTT 27258240 GATTTGATAATTGATATATTAGATCAGTGTCTATCAATAAATACAAAAATATACTTTAGATCTAA 1 GATTTGATAATTGATATATTAGATCAGTGTCTATCAATAAATACAAAAATATACTTTAGATCTAA * * 27258305 GTTAATCTAACAGTCTATGACCGAAATTAGAGAAAAAAACTATTTAAATTTT 66 GTTAATCTAACAGTCTATGACAGAAATTAGAAAAAAAAACTATTTAAATTTT * 27258357 AATTT-ATAA 1 GATTTGATAA 27258366 ATGTATGACG Statistics Matches: 121, Mismatches: 5, Indels: 1 0.95 0.04 0.01 Matches are distributed among these distances: 116 4 0.03 117 117 0.97 ACGTcount: A:0.44, C:0.09, G:0.11, T:0.35 Consensus pattern (117 bp): GATTTGATAATTGATATATTAGATCAGTGTCTATCAATAAATACAAAAATATACTTTAGATCTAA GTTAATCTAACAGTCTATGACAGAAATTAGAAAAAAAAACTATTTAAATTTT Found at i:27262806 original size:20 final size:19 Alignment explanation
Indices: 27262778--27262833 Score: 71 Period size: 20 Copynumber: 2.9 Consensus size: 19 27262768 ATAATAAAAG 27262778 ATAAAATAAA-ATAAAATAT 1 ATAAAATAAATAT-AAATAT 27262797 ATAAATATAAATATAAATAT 1 ATAAA-ATAAATATAAATAT * 27262817 ATAAAA-AAATATGAATA 1 ATAAAATAAATATAAATA 27262834 AAAAGAATGC Statistics Matches: 34, Mismatches: 1, Indels: 5 0.85 0.03 0.12 Matches are distributed among these distances: 18 10 0.29 19 6 0.18 20 16 0.47 21 2 0.06 ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29 Consensus pattern (19 bp): ATAAAATAAATATAAATAT Found at i:27262808 original size:14 final size:13 Alignment explanation
Indices: 27262771--27262821 Score: 61 Period size: 14 Copynumber: 3.9 Consensus size: 13 27262761 AATAACAATA * 27262771 ATAAAAGATAAA- 1 ATAAAATATAAAT 27262783 ATAAAATA-AAAT 1 ATAAAATATAAAT 27262795 ATATAAATATAAAT 1 ATA-AAATATAAAT 27262809 ATAAATATATAAA 1 ATAAA-ATATAAA 27262822 AAAATATGAA Statistics Matches: 34, Mismatches: 1, Indels: 6 0.83 0.02 0.15 Matches are distributed among these distances: 11 3 0.09 12 10 0.29 13 7 0.21 14 14 0.41 ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27 Consensus pattern (13 bp): ATAAAATATAAAT Found at i:27262987 original size:17 final size:18 Alignment explanation
Indices: 27262962--27262997 Score: 56 Period size: 17 Copynumber: 2.1 Consensus size: 18 27262952 AATTGAAAAT 27262962 AAATAAATAAATCAAACA 1 AAATAAATAAATCAAACA * 27262980 AAAT-AATAAATGAAACA 1 AAATAAATAAATCAAACA 27262997 A 1 A 27262998 TTTAAAATAA Statistics Matches: 17, Mismatches: 1, Indels: 1 0.89 0.05 0.05 Matches are distributed among these distances: 17 13 0.76 18 4 0.24 ACGTcount: A:0.72, C:0.08, G:0.03, T:0.17 Consensus pattern (18 bp): AAATAAATAAATCAAACA Found at i:27264457 original size:3 final size:3 Alignment explanation
Indices: 27264442--27264505 Score: 56 Period size: 3 Copynumber: 20.7 Consensus size: 3 27264432 TTAATACTAA * * * 27264442 TAT TAT TAC TAT TAT TAT CGTAT TAT TAT TAG TAT TAT TAT TAA TAT 1 TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT TAT * * * 27264489 TAC TAC TAT TAT CAT TA 1 TAT TAT TAT TAT TAT TA 27264506 CATTTCCATT Statistics Matches: 49, Mismatches: 10, Indels: 4 0.78 0.16 0.06 Matches are distributed among these distances: 3 46 0.94 5 3 0.06 ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55 Consensus pattern (3 bp): TAT Found at i:27264467 original size:20 final size:20 Alignment explanation
Indices: 27264442--27264479 Score: 58 Period size: 20 Copynumber: 1.9 Consensus size: 20 27264432 TTAATACTAA * 27264442 TATTATTACTATTATTATCG 1 TATTATTACTAGTATTATCG * 27264462 TATTATTATTAGTATTAT 1 TATTATTACTAGTATTAT 27264480 TATTAATATT Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 20 16 1.00 ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58 Consensus pattern (20 bp): TATTATTACTAGTATTATCG Found at i:27264814 original size:18 final size:18 Alignment explanation
Indices: 27264793--27264858 Score: 55 Period size: 18 Copynumber: 3.7 Consensus size: 18 27264783 ATGTATATAC ** 27264793 ATACTTATATATTTTTTT 1 ATACTTATATATTTTAAT 27264811 ATACTT-TATAATTTTAAT 1 ATACTTATAT-ATTTTAAT * * * 27264829 ATACATATATACATATAA- 1 ATACTTATATA-TTTTAAT 27264847 ATACTTATATAT 1 ATACTTATATAT 27264859 CTTCTTATAT Statistics Matches: 38, Mismatches: 7, Indels: 7 0.73 0.13 0.13 Matches are distributed among these distances: 17 3 0.08 18 28 0.74 19 7 0.18 ACGTcount: A:0.41, C:0.08, G:0.00, T:0.52 Consensus pattern (18 bp): ATACTTATATATTTTAAT Found at i:27268413 original size:7 final size:7 Alignment explanation
Indices: 27268401--27268464 Score: 80 Period size: 7 Copynumber: 9.3 Consensus size: 7 27268391 CAGTGGAGGC 27268401 AACAAAA 1 AACAAAA 27268408 AACAAAA 1 AACAAAA 27268415 AACAAAA 1 AACAAAA 27268422 AAC--AA 1 AACAAAA 27268427 AA-AAAA 1 AACAAAA 27268433 AACAAAA 1 AACAAAA 27268440 AACAAAAA 1 AAC-AAAA * 27268448 TAAAAAAA 1 -AACAAAA 27268456 AACAAAA 1 AACAAAA 27268463 AA 1 AA 27268465 AACTCTACCG Statistics Matches: 50, Mismatches: 2, Indels: 10 0.81 0.03 0.16 Matches are distributed among these distances: 5 4 0.08 6 4 0.08 7 32 0.64 8 8 0.16 9 2 0.04 ACGTcount: A:0.88, C:0.11, G:0.00, T:0.02 Consensus pattern (7 bp): AACAAAA Found at i:27268415 original size:1 final size:1 Alignment explanation
Indices: 27268404--27268466 Score: 63 Period size: 1 Copynumber: 63.0 Consensus size: 1 27268394 TGGAGGCAAC * * * * * * * 27268404 AAAAAACAAAAAACAAAAAACAAAAAAAAAACAAAAAACAAAAATAAAAAAAAACAAAAAAAA 1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 27268467 CTCTACCGGA Statistics Matches: 48, Mismatches: 14, Indels: 0 0.77 0.23 0.00 Matches are distributed among these distances: 1 48 1.00 ACGTcount: A:0.89, C:0.10, G:0.00, T:0.02 Consensus pattern (1 bp): A Done.