Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Scaffold32 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: 5587194 ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26 Warning! 895791 characters in sequence are not A, C, G, or T File 25 of 33 Found at i:3557236 original size:3 final size:3 Alignment explanation
Indices: 3557230--3557258 Score: 58 Period size: 3 Copynumber: 9.7 Consensus size: 3 3557220 TCTGAGTTGT 3557230 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA 1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA 3557259 CCAACTCTTG Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 26 1.00 ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34 Consensus pattern (3 bp): TAA Found at i:3561723 original size:20 final size:20 Alignment explanation
Indices: 3561698--3561774 Score: 102 Period size: 20 Copynumber: 3.9 Consensus size: 20 3561688 GTAAAAAGAT 3561698 AGAATGTATCGATACATTGA 1 AGAATGTATCGATACATTGA * 3561718 AGAATGTATCGATACATTCA 1 AGAATGTATCGATACATTGA * * 3561738 TA-CATATATCGATACATTGA 1 -AGAATGTATCGATACATTGA * 3561758 AAAATGTATCGATACAT 1 AGAATGTATCGATACAT 3561775 CCGGGTACTT Statistics Matches: 49, Mismatches: 6, Indels: 4 0.83 0.10 0.07 Matches are distributed among these distances: 19 1 0.02 20 47 0.96 21 1 0.02 ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31 Consensus pattern (20 bp): AGAATGTATCGATACATTGA Found at i:3562605 original size:20 final size:19 Alignment explanation
Indices: 3562560--3562615 Score: 69 Period size: 20 Copynumber: 2.9 Consensus size: 19 3562550 TTGTATCGAT * 3562560 ACATTGTATCGAT-CATGT 1 ACATTGTATCGATACATGG * 3562578 TCATTGTATCGATACATGG 1 ACATTGTATCGATACATGG * 3562597 ACAATTGTATCGGTACATG 1 AC-ATTGTATCGATACATG 3562616 AAACTGGCAG Statistics Matches: 32, Mismatches: 4, Indels: 2 0.84 0.11 0.05 Matches are distributed among these distances: 18 12 0.38 19 5 0.16 20 15 0.47 ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36 Consensus pattern (19 bp): ACATTGTATCGATACATGG Found at i:3568812 original size:20 final size:20 Alignment explanation
Indices: 3568772--3568812 Score: 57 Period size: 20 Copynumber: 2.0 Consensus size: 20 3568762 GAAAATTTCT * 3568772 AGAATGTATCGATTCATTAA 1 AGAATGTATCGATACATTAA 3568792 AGAATGTAT-GATACATCTAA 1 AGAATGTATCGATACAT-TAA 3568812 A 1 A 3568813 AAACCCAAAT Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 19 6 0.32 20 13 0.68 ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32 Consensus pattern (20 bp): AGAATGTATCGATACATTAA Found at i:3569023 original size:20 final size:20 Alignment explanation
Indices: 3568985--3569024 Score: 55 Period size: 20 Copynumber: 1.9 Consensus size: 20 3568975 TTACAAATTT 3568985 CTTCTTTTTCACTTCAAAATA 1 CTTCTTTTTCAC-TCAAAATA 3569006 CTTCATTTTTCA-TCAAAAT 1 CTTC-TTTTTCACTCAAAAT 3569025 CATCAACAAA Statistics Matches: 18, Mismatches: 0, Indels: 3 0.86 0.00 0.14 Matches are distributed among these distances: 20 7 0.39 21 4 0.22 22 7 0.39 ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47 Consensus pattern (20 bp): CTTCTTTTTCACTCAAAATA Found at i:3571421 original size:20 final size:20 Alignment explanation
Indices: 3571375--3571431 Score: 73 Period size: 19 Copynumber: 3.0 Consensus size: 20 3571365 TTGTATTGAT * 3571375 ACAA-TGTATCGATACATGT 1 ACAATTGTATCGATACATGG * * 3571394 TC-ATTGTATCGATTCATGG 1 ACAATTGTATCGATACATGG 3571413 ACAATTGTATCGATACATG 1 ACAATTGTATCGATACATG 3571432 AAACTAGCAG Statistics Matches: 31, Mismatches: 5, Indels: 3 0.79 0.13 0.08 Matches are distributed among these distances: 18 1 0.03 19 15 0.48 20 15 0.48 ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35 Consensus pattern (20 bp): ACAATTGTATCGATACATGG Found at i:3573346 original size:17 final size:15 Alignment explanation
Indices: 3573320--3573365 Score: 92 Period size: 15 Copynumber: 3.1 Consensus size: 15 3573310 ATTGGAATTC 3573320 TTTTTTTCTCTCTTA 1 TTTTTTTCTCTCTTA 3573335 TTTTTTTCTCTCTTA 1 TTTTTTTCTCTCTTA 3573350 TTTTTTTCTCTCTTA 1 TTTTTTTCTCTCTTA 3573365 T 1 T 3573366 AAAAATTCCA Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 31 1.00 ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74 Consensus pattern (15 bp): TTTTTTTCTCTCTTA Found at i:3574616 original size:47 final size:47 Alignment explanation
Indices: 3574543--3574638 Score: 183 Period size: 47 Copynumber: 2.0 Consensus size: 47 3574533 TATACAAGAT * 3574543 GACCTAGTATCACAAGTTAGATGACTAGTTACCCGACTAGCTTGTGA 1 GACCTAGTATCACAAGTTAGAGGACTAGTTACCCGACTAGCTTGTGA 3574590 GACCTAGTATCACAAGTTAGAGGACTAGTTACCCGACTAGCTTGTGA 1 GACCTAGTATCACAAGTTAGAGGACTAGTTACCCGACTAGCTTGTGA 3574637 GA 1 GA 3574639 ACATTTCAAA Statistics Matches: 48, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 47 48 1.00 ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26 Consensus pattern (47 bp): GACCTAGTATCACAAGTTAGAGGACTAGTTACCCGACTAGCTTGTGA Found at i:3579704 original size:18 final size:18 Alignment explanation
Indices: 3579683--3579720 Score: 67 Period size: 18 Copynumber: 2.1 Consensus size: 18 3579673 ATATGAGGTA 3579683 AAATACTAGTTAGAGGAG 1 AAATACTAGTTAGAGGAG * 3579701 AAATACTAGTTAGTGGAG 1 AAATACTAGTTAGAGGAG 3579719 AA 1 AA 3579721 GCTATGTTGC Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 18 19 1.00 ACGTcount: A:0.45, C:0.05, G:0.26, T:0.24 Consensus pattern (18 bp): AAATACTAGTTAGAGGAG Found at i:3580740 original size:29 final size:29 Alignment explanation
Indices: 3580707--3580776 Score: 140 Period size: 29 Copynumber: 2.4 Consensus size: 29 3580697 CATATATTAG 3580707 TTAATCAAGTGACACCCTAAACCTAGCAC 1 TTAATCAAGTGACACCCTAAACCTAGCAC 3580736 TTAATCAAGTGACACCCTAAACCTAGCAC 1 TTAATCAAGTGACACCCTAAACCTAGCAC 3580765 TTAATCAAGTGA 1 TTAATCAAGTGA 3580777 TACAAGGTTT Statistics Matches: 41, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 29 41 1.00 ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23 Consensus pattern (29 bp): TTAATCAAGTGACACCCTAAACCTAGCAC Found at i:3582791 original size:28 final size:28 Alignment explanation
Indices: 3582750--3582805 Score: 85 Period size: 28 Copynumber: 2.0 Consensus size: 28 3582740 TTTCATCTAA * * * 3582750 ACATGTTGGTGATGAATATAAGTAATTT 1 ACATGTTAGCGATGAATATAACTAATTT 3582778 ACATGTTAGCGATGAATATAACTAATTT 1 ACATGTTAGCGATGAATATAACTAATTT 3582806 TATTAATTAC Statistics Matches: 25, Mismatches: 3, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 28 25 1.00 ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38 Consensus pattern (28 bp): ACATGTTAGCGATGAATATAACTAATTT Found at i:3587190 original size:79 final size:76 Alignment explanation
Indices: 3587053--3587252 Score: 199 Period size: 79 Copynumber: 2.6 Consensus size: 76 3587043 AAAATTTAAT * * * * * * * * 3587053 ATGGGGTTGAAGTATCCCCTC-AGAAGTTATAGGGTTAGAGTATCCCCGATGGTGAAAAATTGAT 1 ATGGGGTTGGAGTATCCCTTCGA-AAATAATAAGGTTAGAGTATCCCCGATGATAAAAAATT-AA * 3587117 TTTTTGAAAATAAAA 64 TATTT-AAAA-AAAA * 3587132 ATGGGGTTGGAGTATCCCTTCGAAAATAATAAGGTTGGAGTATCCCCGA-GATAAAAAAATTAAT 1 ATGGGGTTGGAGTATCCCTTCGAAAATAATAAGGTTAGAGTATCCCCGATGAT-AAAAAATTAAT 3587196 ATTTAAAAAAAA 65 ATTTAAAAAAAA * * *** 3587208 ACGGGGTTAGAGTATCCCTTCG-AAATAACGGGGTTAGAGTATCCC 1 ATGGGGTTGGAGTATCCCTTCGAAAATAATAAGGTTAGAGTATCCC 3587253 TTCGAAATAA Statistics Matches: 103, Mismatches: 16, Indels: 8 0.81 0.13 0.06 Matches are distributed among these distances: 75 19 0.18 76 24 0.23 77 4 0.04 78 7 0.07 79 48 0.47 80 1 0.01 ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28 Consensus pattern (76 bp): ATGGGGTTGGAGTATCCCTTCGAAAATAATAAGGTTAGAGTATCCCCGATGATAAAAAATTAATA TTTAAAAAAAA Found at i:3587245 original size:27 final size:27 Alignment explanation
Indices: 3587207--3587279 Score: 137 Period size: 27 Copynumber: 2.7 Consensus size: 27 3587197 TTTAAAAAAA 3587207 AACGGGGTTAGAGTATCCCTTCGAAAT 1 AACGGGGTTAGAGTATCCCTTCGAAAT 3587234 AACGGGGTTAGAGTATCCCTTCGAAAT 1 AACGGGGTTAGAGTATCCCTTCGAAAT * 3587261 AACGGGGTTAGAATATCCC 1 AACGGGGTTAGAGTATCCC 3587280 CGAGATGAAA Statistics Matches: 45, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 27 45 1.00 ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25 Consensus pattern (27 bp): AACGGGGTTAGAGTATCCCTTCGAAAT Found at i:3587328 original size:78 final size:80 Alignment explanation
Indices: 3587234--3587565 Score: 401 Period size: 79 Copynumber: 4.2 Consensus size: 80 3587224 CCTTCGAAAT * * 3587234 AACGGGGTTAGAGTATCCCTTC-GAAATAACGGGGTTAGAA-TATCCCCGAGATGAAAAATTTAA 1 AACGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTAGAAGTATCCCCGAGATGAAAAATTTAA * 3587297 TATTTCAGAAATAAA 66 TATTTCAAAAATAAA * * ** 3587312 AATGGGGTTGGAGTAT-CCTCTCAAAAATAATGGGGTTA-AAGTATCCTTGAGATGAAAAATTTA 1 AACGGGGTTGGAGTATCCCT-TCAAAAATAACGGGGTTAGAAGTATCCCCGAGATGAAAAATTTA ** 3587375 ATATTTTGAAAAT-AA 65 ATATTTCAAAAATAAA * * * * * 3587390 AACGGGGTTGGAGTATCCCCTCAAAAATAGCAGGGTT-GGAGTATTCCCGAGATGAAAAATTTAA 1 AACGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTAGAAGTATCCCCGAGATGAAAAATTTAA * 3587454 TGTTTCAAAAATAAA 66 TATTTCAAAAATAAA * * * 3587469 AATGAGGTTGGAGTATTCCC-TCGAAAATAACGGGGTT-GAAGTATCCCCGAGATGAAAAATTTA 1 AACGGGGTTGGAGTA-TCCCTTCAAAAATAACGGGGTTAGAAGTATCCCCGAGATGAAAAATTTA * 3587532 ATATTTTAAAAATAAA 65 ATATTTCAAAAATAAA * * 3587548 AACGAGGTTGGAGAATCC 1 AACGGGGTTGGAGTATCC 3587566 TCGAGATGAA Statistics Matches: 215, Mismatches: 32, Indels: 14 0.82 0.12 0.05 Matches are distributed among these distances: 77 3 0.01 78 83 0.39 79 125 0.58 80 4 0.02 ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27 Consensus pattern (80 bp): AACGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTAGAAGTATCCCCGAGATGAAAAATTTAA TATTTCAAAAATAAA Found at i:3587447 original size:157 final size:157 Alignment explanation
Indices: 3587234--3587565 Score: 461 Period size: 157 Copynumber: 2.1 Consensus size: 157 3587224 CCTTCGAAAT * * * * 3587234 AACGGGGTTAGAGTATCCCTTCGAAATAACGGGGTTAGAATATCCCCGAGATGAAAAATTTAATA 1 AACGGGGTTGGAGTATCCCCTCAAAATAACAGGGTTAGAATATCCCCGAGATGAAAAATTTAATA * * * ** 3587299 TTTCAGAAATAAAAATGGGGTTGGAGTA-TCCTCTCAAAAATAATGGGGTTAAAGTATCCTTGAG 66 TTTCAAAAATAAAAATGAGGTTGGAGTATTCC-CTCAAAAATAACGGGGTTAAAGTATCCCCGAG * 3587363 ATGAAAAATTTAATATTTTGAAAAT-AA 130 ATGAAAAATTTAATATTTTAAAAATAAA * * * * 3587390 AACGGGGTTGGAGTATCCCCTCAAAAATAGCAGGGTTGGAGTATTCCCGAGATGAAAAATTTAAT 1 AACGGGGTTGGAGTATCCCCTC-AAAATAACAGGGTTAGAATATCCCCGAGATGAAAAATTTAAT * * * 3587455 GTTTCAAAAATAAAAATGAGGTTGGAGTATTCCCTCGAAAATAACGGGGTTGAAGTATCCCCGAG 65 ATTTCAAAAATAAAAATGAGGTTGGAGTATTCCCTCAAAAATAACGGGGTTAAAGTATCCCCGAG 3587520 ATGAAAAATTTAATATTTTAAAAATAAA 130 ATGAAAAATTTAATATTTTAAAAATAAA * * 3587548 AACGAGGTTGGAGAATCC 1 AACGGGGTTGGAGTATCC 3587566 TCGAGATGAA Statistics Matches: 154, Mismatches: 19, Indels: 4 0.87 0.11 0.02 Matches are distributed among these distances: 156 20 0.13 157 113 0.73 158 21 0.14 ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27 Consensus pattern (157 bp): AACGGGGTTGGAGTATCCCCTCAAAATAACAGGGTTAGAATATCCCCGAGATGAAAAATTTAATA TTTCAAAAATAAAAATGAGGTTGGAGTATTCCCTCAAAAATAACGGGGTTAAAGTATCCCCGAGA TGAAAAATTTAATATTTTAAAAATAAA Found at i:3587571 original size:51 final size:51 Alignment explanation
Indices: 3587497--3587652 Score: 195 Period size: 51 Copynumber: 3.0 Consensus size: 51 3587487 CCTCGAAAAT * * * 3587497 AACGGGGTTGAAGTATCCCCGAGATGAAAAATTTAATATTTTAAAAATAAA 1 AACGAGGTTGGAGTATCCCCGAGATGAAAAATTTAATGTTTTAAAAATAAA * * * * 3587548 AACGAGGTTGGAGAATCCTCGAGATGAAAAATTTAATGTTTCAGAAATAAA 1 AACGAGGTTGGAGTATCCCCGAGATGAAAAATTTAATGTTTTAAAAATAAA * * * * * 3587599 AACGAGGTTAGAGTATCCCCCAAGAAGAAAAATTTAATGTATTGAAAATAAA 1 AACGAGGTTGGAGTAT-CCCCGAGATGAAAAATTTAATGTTTTAAAAATAAA 3587651 AA 1 AA 3587653 TGGAATTGGA Statistics Matches: 88, Mismatches: 16, Indels: 1 0.84 0.15 0.01 Matches are distributed among these distances: 51 58 0.66 52 30 0.34 ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25 Consensus pattern (51 bp): AACGAGGTTGGAGTATCCCCGAGATGAAAAATTTAATGTTTTAAAAATAAA Found at i:3593930 original size:551 final size:551 Alignment explanation
Indices: 3592889--3593990 Score: 2204 Period size: 551 Copynumber: 2.0 Consensus size: 551 3592879 GGGCTCAAGA 3592889 ACAAAATAGGGTGGCTAGACATGCATGCTTGATAGCCAAGGGAGGTTAGGTGCTTCATCATGCCA 1 ACAAAATAGGGTGGCTAGACATGCATGCTTGATAGCCAAGGGAGGTTAGGTGCTTCATCATGCCA 3592954 TTTCCATTAATACAATGCATTGGACTTCAAAAATTGTTGACATTTAAATATAAAGTCTGGCATTT 66 TTTCCATTAATACAATGCATTGGACTTCAAAAATTGTTGACATTTAAATATAAAGTCTGGCATTT 3593019 GATATTGACATGAATTTTGACCCCTTATAATGCAAAAAACCTGTTTGAACCACATATTGGAGGTG 131 GATATTGACATGAATTTTGACCCCTTATAATGCAAAAAACCTGTTTGAACCACATATTGGAGGTG 3593084 TTATGGCAAAGGATAAAAAGTCACGAAATGTGAAAAATTGACTAAATATATTGATACATTCAAGA 196 TTATGGCAAAGGATAAAAAGTCACGAAATGTGAAAAATTGACTAAATATATTGATACATTCAAGA 3593149 TGAGGTGTCTACATGTATATCTAAGCATGCCTCGGATTGCTCCAAATTGGCCCGAACAAAATGAG 261 TGAGGTGTCTACATGTATATCTAAGCATGCCTCGGATTGCTCCAAATTGGCCCGAACAAAATGAG 3593214 GTGTCTACACTTAGCCAATGAGCTTAGGAGACAAACCAAGGGCATTGTGTGGTTTTCTCCTTTAC 326 GTGTCTACACTTAGCCAATGAGCTTAGGAGACAAACCAAGGGCATTGTGTGGTTTTCTCCTTTAC 3593279 ACAAGGGGACGATCAGCCACAAGTTCAGTCTGCTCTTCTTTGTTATTGGTTCTGCAATGCAGGAT 391 ACAAGGGGACGATCAGCCACAAGTTCAGTCTGCTCTTCTTTGTTATTGGTTCTGCAATGCAGGAT 3593344 GGTGTGCCTGTAATCTGAAAAGCCTATCTTGTCCTTTAGTAGGCCATTAAACTTCTTAAAAATGG 456 GGTGTGCCTGTAATCTGAAAAGCCTATCTTGTCCTTTAGTAGGCCATTAAACTTCTTAAAAATGG 3593409 CTTTTGTTTTTTGCAAATTTGGTTTTGAACT 521 CTTTTGTTTTTTGCAAATTTGGTTTTGAACT 3593440 ACAAAATAGGGTGGCTAGACATGCATGCTTGATAGCCAAGGGAGGTTAGGTGCTTCATCATGCCA 1 ACAAAATAGGGTGGCTAGACATGCATGCTTGATAGCCAAGGGAGGTTAGGTGCTTCATCATGCCA 3593505 TTTCCATTAATACAATGCATTGGACTTCAAAAATTGTTGACATTTAAATATAAAGTCTGGCATTT 66 TTTCCATTAATACAATGCATTGGACTTCAAAAATTGTTGACATTTAAATATAAAGTCTGGCATTT 3593570 GATATTGACATGAATTTTGACCCCTTATAATGCAAAAAACCTGTTTGAACCACATATTGGAGGTG 131 GATATTGACATGAATTTTGACCCCTTATAATGCAAAAAACCTGTTTGAACCACATATTGGAGGTG 3593635 TTATGGCAAAGGATAAAAAGTCACGAAATGTGAAAAATTGACTAAATATATTGATACATTCAAGA 196 TTATGGCAAAGGATAAAAAGTCACGAAATGTGAAAAATTGACTAAATATATTGATACATTCAAGA 3593700 TGAGGTGTCTACATGTATATCTAAGCATGCCTCGGATTGCTCCAAATTGGCCCGAACAAAATGAG 261 TGAGGTGTCTACATGTATATCTAAGCATGCCTCGGATTGCTCCAAATTGGCCCGAACAAAATGAG 3593765 GTGTCTACACTTAGCCAATGAGCTTAGGAGACAAACCAAGGGCATTGTGTGGTTTTCTCCTTTAC 326 GTGTCTACACTTAGCCAATGAGCTTAGGAGACAAACCAAGGGCATTGTGTGGTTTTCTCCTTTAC 3593830 ACAAGGGGACGATCAGCCACAAGTTCAGTCTGCTCTTCTTTGTTATTGGTTCTGCAATGCAGGAT 391 ACAAGGGGACGATCAGCCACAAGTTCAGTCTGCTCTTCTTTGTTATTGGTTCTGCAATGCAGGAT 3593895 GGTGTGCCTGTAATCTGAAAAGCCTATCTTGTCCTTTAGTAGGCCATTAAACTTCTTAAAAATGG 456 GGTGTGCCTGTAATCTGAAAAGCCTATCTTGTCCTTTAGTAGGCCATTAAACTTCTTAAAAATGG 3593960 CTTTTGTTTTTTGCAAATTTGGTTTTGAACT 521 CTTTTGTTTTTTGCAAATTTGGTTTTGAACT 3593991 TGTTTAAATT Statistics Matches: 551, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 551 551 1.00 ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32 Consensus pattern (551 bp): ACAAAATAGGGTGGCTAGACATGCATGCTTGATAGCCAAGGGAGGTTAGGTGCTTCATCATGCCA TTTCCATTAATACAATGCATTGGACTTCAAAAATTGTTGACATTTAAATATAAAGTCTGGCATTT GATATTGACATGAATTTTGACCCCTTATAATGCAAAAAACCTGTTTGAACCACATATTGGAGGTG TTATGGCAAAGGATAAAAAGTCACGAAATGTGAAAAATTGACTAAATATATTGATACATTCAAGA TGAGGTGTCTACATGTATATCTAAGCATGCCTCGGATTGCTCCAAATTGGCCCGAACAAAATGAG GTGTCTACACTTAGCCAATGAGCTTAGGAGACAAACCAAGGGCATTGTGTGGTTTTCTCCTTTAC ACAAGGGGACGATCAGCCACAAGTTCAGTCTGCTCTTCTTTGTTATTGGTTCTGCAATGCAGGAT GGTGTGCCTGTAATCTGAAAAGCCTATCTTGTCCTTTAGTAGGCCATTAAACTTCTTAAAAATGG CTTTTGTTTTTTGCAAATTTGGTTTTGAACT Found at i:3594255 original size:52 final size:52 Alignment explanation
Indices: 3594150--3594270 Score: 147 Period size: 51 Copynumber: 2.3 Consensus size: 52 3594140 TACATCGAAG * ** 3594150 AATGTATCGATACATTTGGGTCAAAAAGCCAGAATGTATCGATGCAATAAAAA 1 AATGTATCGATACATTTAGGTCAAAAAGCCAGAATGTATCGATAAAAT-AAAA * * * * 3594203 AATGTATCGATACATTTAGG-CTAAAA-CTTAGAATTTATCGATAAAATGAAA 1 AATGTATCGATACATTTAGGTCAAAAAGC-CAGAATGTATCGATAAAATAAAA 3594254 AATGTATCGATACATTT 1 AATGTATCGATACATTT 3594271 TCTTTTCTGA Statistics Matches: 60, Mismatches: 7, Indels: 4 0.85 0.10 0.06 Matches are distributed among these distances: 51 21 0.35 52 20 0.33 53 19 0.32 ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30 Consensus pattern (52 bp): AATGTATCGATACATTTAGGTCAAAAAGCCAGAATGTATCGATAAAATAAAA Found at i:3595253 original size:19 final size:21 Alignment explanation
Indices: 3595201--3595256 Score: 62 Period size: 21 Copynumber: 2.8 Consensus size: 21 3595191 GAATTTCTAC 3595201 ATTTGTATCGATACAAACAGT 1 ATTTGTATCGATACAAACAGT ** * * 3595222 AAATGTATTGATACATA-AGT 1 ATTTGTATCGATACAAACAGT 3595242 -TTTGTATCGATACAA 1 ATTTGTATCGATACAA 3595257 TGTATCGATA Statistics Matches: 27, Mismatches: 8, Indels: 2 0.73 0.22 0.05 Matches are distributed among these distances: 19 11 0.41 20 3 0.11 21 13 0.48 ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36 Consensus pattern (21 bp): ATTTGTATCGATACAAACAGT Found at i:3595262 original size:13 final size:13 Alignment explanation
Indices: 3595244--3595269 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 3595234 ACATAAGTTT 3595244 TGTATCGATACAA 1 TGTATCGATACAA 3595257 TGTATCGATACAA 1 TGTATCGATACAA 3595270 ACTTACCTTG 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:0.15, G:0.15, T:0.31 Consensus pattern (13 bp): TGTATCGATACAA Found at i:3595921 original size:13 final size:13 Alignment explanation
Indices: 3595903--3595927 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 3595893 ATTACTCAAA 3595903 TGTATCGATACAT 1 TGTATCGATACAT 3595916 TGTATCGATACA 1 TGTATCGATACA 3595928 CTGATCTTTG Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:3596064 original size:52 final size:52 Alignment explanation
Indices: 3595936--3596056 Score: 224 Period size: 52 Copynumber: 2.3 Consensus size: 52 3595926 CACTGATCTT * 3595936 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA 1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA * 3595988 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA 1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA 3596040 TGTATCGATACATGCAG 1 TGTATCGATACATGCAG 3596057 ATAAATTTTC Statistics Matches: 67, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 52 67 1.00 ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29 Consensus pattern (52 bp): TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA Found at i:3596650 original size:15 final size:15 Alignment explanation
Indices: 3596630--3596658 Score: 58 Period size: 15 Copynumber: 1.9 Consensus size: 15 3596620 GCTTGTTTAC 3596630 AACCCCAAAGAAGGA 1 AACCCCAAAGAAGGA 3596645 AACCCCAAAGAAGG 1 AACCCCAAAGAAGG 3596659 GTTAAACAAG Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 14 1.00 ACGTcount: A:0.52, C:0.28, G:0.21, T:0.00 Consensus pattern (15 bp): AACCCCAAAGAAGGA Found at i:3601293 original size:95 final size:95 Alignment explanation
Indices: 3601130--3601339 Score: 312 Period size: 95 Copynumber: 2.2 Consensus size: 95 3601120 TTCCTTTATT * * * * 3601130 GGGGATACTCCAGCCCCATTATTCCGAGGGGATACTCTAATCCTGTTTTTAAACTTGTCAAGATA 1 GGGGATACTCCAACCCCATTATTCCAAAGGGATACTCTAATCCTGTTTTTAAACTTATCAAGATA * 3601195 CTTCTTATTTTTGCCTAAAATATCATTGTC 66 CTTCCTATTTTTGCCTAAAATATCATTGTC * ** * 3601225 GGGGATACTCCAACCCCATTCTTCCAAAGGGATACTCTAATTTTGTTTTTAAATTTATCAAGATA 1 GGGGATACTCCAACCCCATTATTCCAAAGGGATACTCTAATCCTGTTTTTAAACTTATCAAGATA * 3601290 CTTCCTATTTTTGCTTAAAATATCATTGTC 66 CTTCCTATTTTTGCCTAAAATATCATTGTC * * 3601320 GGGGACACTCCAACACCATT 1 GGGGATACTCCAACCCCATT 3601340 TTTCTGAGGG Statistics Matches: 103, Mismatches: 12, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 95 103 1.00 ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36 Consensus pattern (95 bp): GGGGATACTCCAACCCCATTATTCCAAAGGGATACTCTAATCCTGTTTTTAAACTTATCAAGATA CTTCCTATTTTTGCCTAAAATATCATTGTC Found at i:3602993 original size:13 final size:13 Alignment explanation
Indices: 3602975--3603000 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 3602965 AGTTAAGTAT 3602975 GACATATTTGAAC 1 GACATATTTGAAC 3602988 GACATATTTGAAC 1 GACATATTTGAAC 3603001 CATACAACAA 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:0.15, G:0.15, T:0.31 Consensus pattern (13 bp): GACATATTTGAAC Found at i:3610024 original size:51 final size:51 Alignment explanation
Indices: 3609968--3610156 Score: 238 Period size: 52 Copynumber: 3.7 Consensus size: 51 3609958 ATTTAACTAG * * 3609968 ATGTATCAATACATTGAAAAATGTATCGATACATTTGAGTCAAAACCCAGA 1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGAGTCAAAACCCAGA * * * 3610019 ATGTATCGATACAATGAATAATGTATCAATACATTTGGGTCAAAAACCCAGA 1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGAGTC-AAAACCCAGA * * * * * * 3610071 TTGCATCGATATAATGAAAAATGTATCGATATAGTT-AGATC-AAACCCAAA 1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGAG-TCAAAACCCAGA * 3610121 ATGTATCGATACAATAAAAAATGTATCGATACATTT 1 ATGTATCGATACAATGAAAAATGTATCGATACATTT 3610157 TTCTTTCCAG Statistics Matches: 116, Mismatches: 20, Indels: 5 0.82 0.14 0.04 Matches are distributed among these distances: 50 38 0.33 51 37 0.32 52 41 0.35 ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29 Consensus pattern (51 bp): ATGTATCGATACAATGAAAAATGTATCGATACATTTGAGTCAAAACCCAGA Found at i:3610236 original size:20 final size:20 Alignment explanation
Indices: 3610193--3610249 Score: 78 Period size: 20 Copynumber: 2.8 Consensus size: 20 3610183 CGACATGTCT * 3610193 TGTATTGATACATTTCAATCA 1 TGTATTGATACA-TTCAATAA * * 3610214 TGTATCGATACATTCACTAA 1 TGTATTGATACATTCAATAA 3610234 TGTATTGATACATTCA 1 TGTATTGATACATTCA 3610250 TTTGTTGTAT Statistics Matches: 32, Mismatches: 4, Indels: 1 0.86 0.11 0.03 Matches are distributed among these distances: 20 21 0.66 21 11 0.34 ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40 Consensus pattern (20 bp): TGTATTGATACATTCAATAA Found at i:3619183 original size:20 final size:20 Alignment explanation
Indices: 3619158--3619233 Score: 100 Period size: 20 Copynumber: 3.7 Consensus size: 20 3619148 CATTGGACTT 3619158 AATGTATCGATACTATTCAC 1 AATGTATCGATACTATTCAC ** 3619178 AATGTATCGATAC-ATGAAC 1 AATGTATCGATACTATTCAC 3619197 AGTGATGTATCGATACTATTCAC 1 A---ATGTATCGATACTATTCAC 3619220 AATGTATCGATACT 1 AATGTATCGATACT 3619234 TGAACAGTCA Statistics Matches: 48, Mismatches: 4, Indels: 8 0.80 0.07 0.13 Matches are distributed among these distances: 19 5 0.10 20 26 0.54 22 12 0.25 23 5 0.10 ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33 Consensus pattern (20 bp): AATGTATCGATACTATTCAC Found at i:3619205 original size:42 final size:42 Alignment explanation
Indices: 3619159--3619241 Score: 157 Period size: 42 Copynumber: 2.0 Consensus size: 42 3619149 ATTGGACTTA 3619159 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTG 1 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTG * 3619201 ATGTATCGATACTATTCACAATGTATCGATACTTGAACAGT 1 ATGTATCGATACTATTCACAATGTATCGATACATGAACAGT 3619242 CATGAATAGT Statistics Matches: 40, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 42 40 1.00 ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33 Consensus pattern (42 bp): ATGTATCGATACTATTCACAATGTATCGATACATGAACAGTG Found at i:3619207 original size:22 final size:21 Alignment explanation
Indices: 3619179--3619241 Score: 67 Period size: 20 Copynumber: 3.0 Consensus size: 21 3619169 ACTATTCACA 3619179 ATGTATCGATACATGAACAGT 1 ATGTATCGATACATGAACAGT ** 3619200 GATGTATCGATACTATTCACA-- 1 -ATGTATCGATAC-ATGAACAGT * 3619221 ATGTATCGATACTTGAACAGT 1 ATGTATCGATACATGAACAGT 3619242 CATGAATAGT Statistics Matches: 33, Mismatches: 5, Indels: 7 0.73 0.11 0.16 Matches are distributed among these distances: 19 4 0.12 20 12 0.36 22 12 0.36 23 5 0.15 ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32 Consensus pattern (21 bp): ATGTATCGATACATGAACAGT Found at i:3622010 original size:16 final size:18 Alignment explanation
Indices: 3621984--3622019 Score: 58 Period size: 16 Copynumber: 2.1 Consensus size: 18 3621974 ATTTAACACA 3621984 AAAACACAAATTTT-AAC 1 AAAACACAAATTTTCAAC 3622001 AAAA-ACAAATTTTCAAC 1 AAAACACAAATTTTCAAC 3622018 AA 1 AA 3622020 TTTCTCATAT Statistics Matches: 18, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 16 9 0.50 17 9 0.50 ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22 Consensus pattern (18 bp): AAAACACAAATTTTCAAC Found at i:3622716 original size:21 final size:21 Alignment explanation
Indices: 3622692--3622735 Score: 70 Period size: 21 Copynumber: 2.1 Consensus size: 21 3622682 TCTTTTATCC * * 3622692 TCTAATTCATTTATTTTCTTT 1 TCTAATTCACTTAATTTCTTT 3622713 TCTAATTCACTTAATTTCTTT 1 TCTAATTCACTTAATTTCTTT 3622734 TC 1 TC 3622736 AAGAATATTA Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 21 21 1.00 ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61 Consensus pattern (21 bp): TCTAATTCACTTAATTTCTTT Found at i:3627419 original size:19 final size:19 Alignment explanation
Indices: 3627395--3627459 Score: 79 Period size: 19 Copynumber: 3.7 Consensus size: 19 3627385 AGCGATACAT 3627395 TGTATCGATACAAAACTTA 1 TGTATCGATACAAAACTTA 3627414 TGTATCGATAC---A-TTA 1 TGTATCGATACAAAACTTA * 3627429 --TATCGATACAACACTTA 1 TGTATCGATACAAAACTTA 3627446 TGTATCGATACAAA 1 TGTATCGATACAAA 3627460 TTGTTGAAAT Statistics Matches: 39, Mismatches: 1, Indels: 12 0.75 0.02 0.23 Matches are distributed among these distances: 13 9 0.23 15 3 0.08 16 2 0.05 17 3 0.08 19 22 0.56 ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32 Consensus pattern (19 bp): TGTATCGATACAAAACTTA Found at i:3627433 original size:32 final size:32 Alignment explanation
Indices: 3627387--3627457 Score: 124 Period size: 32 Copynumber: 2.2 Consensus size: 32 3627377 AGCTTCATAG * 3627387 CGATACATTGTATCGATACAAAACTTATGTAT 1 CGATACATTATATCGATACAAAACTTATGTAT * 3627419 CGATACATTATATCGATACAACACTTATGTAT 1 CGATACATTATATCGATACAAAACTTATGTAT 3627451 CGATACA 1 CGATACA 3627458 AATTGTTGAA Statistics Matches: 37, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 32 37 1.00 ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32 Consensus pattern (32 bp): CGATACATTATATCGATACAAAACTTATGTAT Found at i:3632068 original size:27 final size:27 Alignment explanation
Indices: 3632030--3632090 Score: 77 Period size: 27 Copynumber: 2.3 Consensus size: 27 3632020 ATTCACGGGA * * 3632030 ATACTCCAACCTCGACCTTTCGAGGGG 1 ATACTCCAACCTCGACCTTTCAAAGGG * * * 3632057 ATACTCCCACCTTGACCTTTTAAAGGG 1 ATACTCCAACCTCGACCTTTCAAAGGG 3632084 ATACTCC 1 ATACTCC 3632091 GACCCTGCTC Statistics Matches: 29, Mismatches: 5, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 27 29 1.00 ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26 Consensus pattern (27 bp): ATACTCCAACCTCGACCTTTCAAAGGG Found at i:3632187 original size:102 final size:101 Alignment explanation
Indices: 3632079--3632298 Score: 318 Period size: 102 Copynumber: 2.2 Consensus size: 101 3632069 TGACCTTTTA * 3632079 AAGGGATACTCCGACCCTGCTCTTCAAAATTTATCTAGATTTGAACTCT-TCCTTT-GTCAAAAT 1 AAGGGATACTCCAACCCTGCTCTTCAAAATTTATCTAGATTTGAACTCTAT--TTTGGTCAAAAT * * 3632142 TATTTGTTATCCACAGGGATACTCTAACCCCACCTTTCG 64 TATTTGTTATCCACA-GGATACACCAACCCCACCTTTCG * * 3632181 AGGGGATACTCCAACCCTGCTCTTCAAAATTTATTTAGATTTGAACTCTATTTTGGTCAAAATTA 1 AAGGGATACTCCAACCCTGCTCTTCAAAATTTATCTAGATTTGAACTCTATTTTGGTCAAAATTA * * 3632246 TTTGTTATCCATAGGATACACCAACCCCATCTTTCG 66 TTTGTTATCCACAGGATACACCAACCCCACCTTTCG * * 3632282 AATGGATACTCAAACCC 1 AAGGGATACTCCAACCC 3632299 CATTTTTAAA Statistics Matches: 106, Mismatches: 10, Indels: 5 0.88 0.08 0.04 Matches are distributed among these distances: 101 37 0.35 102 68 0.64 103 1 0.01 ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34 Consensus pattern (101 bp): AAGGGATACTCCAACCCTGCTCTTCAAAATTTATCTAGATTTGAACTCTATTTTGGTCAAAATTA TTTGTTATCCACAGGATACACCAACCCCACCTTTCG Found at i:3634757 original size:20 final size:20 Alignment explanation
Indices: 3634732--3634786 Score: 76 Period size: 20 Copynumber: 2.8 Consensus size: 20 3634722 TCCCAAGGAA 3634732 ATGTATCGATACATT-ATTCT 1 ATGTATCGATACATTGA-TCT * 3634752 ATGTATCGATAGATTGATCT 1 ATGTATCGATACATTGATCT * 3634772 TTGTATCGATACATT 1 ATGTATCGATACATT 3634787 TGGGAATTTT Statistics Matches: 31, Mismatches: 3, Indels: 2 0.86 0.08 0.06 Matches are distributed among these distances: 20 30 0.97 21 1 0.03 ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44 Consensus pattern (20 bp): ATGTATCGATACATTGATCT Found at i:3638960 original size:52 final size:52 Alignment explanation
Indices: 3638904--3639081 Score: 173 Period size: 52 Copynumber: 3.4 Consensus size: 52 3638894 CGGCATATTG * * * ** 3638904 GCACCTTTATCATTTTTAAGTCCAATATTGCTGGCCTTAGATTTGCACATTA 1 GCACCTTTATCATTTCTAAGACCAATATTGCTAGCCTTAGATCAGCACATTA * * * * * 3638956 GCACCTTTATCATTTCTAAGACTAATGTCGCTAGCCTTCGATCAGCACATTG 1 GCACCTTTATCATTTCTAAGACCAATATTGCTAGCCTTAGATCAGCACATTA * * * * * 3639008 GCACCTTTATCATCTCTAAAACCAATATTGCTAGCCAT-GAATCAACACATTG 1 GCACCTTTATCATTTCTAAGACCAATATTGCTAGCCTTAG-ATCAGCACATTA 3639060 GCAACC-TTATCATCTT-TAAGAC 1 GC-ACCTTTATCAT-TTCTAAGAC 3639082 AAATGTCGCT Statistics Matches: 104, Mismatches: 19, Indels: 6 0.81 0.15 0.05 Matches are distributed among these distances: 51 1 0.01 52 99 0.95 53 4 0.04 ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34 Consensus pattern (52 bp): GCACCTTTATCATTTCTAAGACCAATATTGCTAGCCTTAGATCAGCACATTA Found at i:3639057 original size:104 final size:104 Alignment explanation
Indices: 3638900--3639119 Score: 248 Period size: 104 Copynumber: 2.1 Consensus size: 104 3638890 TAATCGGCAT * * ** * * *** 3638900 ATTGGCACCTTTATCATTTTTAAGTCCAATATTGCTGGCCTTAGATTTGCACATTAGC-ACCTTT 1 ATTGGCACCTTTATCATCTCTAAAACCAATATTGCTAGCCTGAGATCAACACATTAGCAACC-TT * * * 3638964 ATCAT-TTCTAAGACTAATGTCGCTAGCCTTCGATCAGCAC 65 ATCATCTT-TAAGACAAATGTCGCTAGCCTGCGATCAACAC * 3639004 ATTGGCACCTTTATCATCTCTAAAACCAATATTGCTAGCCATGA-ATCAACACATTGGCAACCTT 1 ATTGGCACCTTTATCATCTCTAAAACCAATATTGCTAGCC-TGAGATCAACACATTAGCAACCTT * * * 3639068 ATCATCTTTAAGACAAATGTCGCTGGCCTGGGATCAATAC 65 ATCATCTTTAAGACAAATGTCGCTAGCCTGCGATCAACAC 3639108 ATTGGCACCTTT 1 ATTGGCACCTTT 3639120 GTTGTCCTTA Statistics Matches: 97, Mismatches: 16, Indels: 6 0.82 0.13 0.05 Matches are distributed among these distances: 104 90 0.93 105 7 0.07 ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33 Consensus pattern (104 bp): ATTGGCACCTTTATCATCTCTAAAACCAATATTGCTAGCCTGAGATCAACACATTAGCAACCTTA TCATCTTTAAGACAAATGTCGCTAGCCTGCGATCAACAC Found at i:3639104 original size:52 final size:51 Alignment explanation
Indices: 3638949--3639119 Score: 175 Period size: 52 Copynumber: 3.3 Consensus size: 51 3638939 CTTAGATTTG * * * * 3638949 CACATTAGCACCTTTATCAT-TTCTAAGACTAATGTCGCTAGCCTTCGATCAG 1 CACATTGGCACCTTTATCATCTT-TAAGACAAATGTCGCTAGCC-TGGATCAA * * * * * * 3639001 CACATTGGCACCTTTATCATCTCTAAAACCAATATTGCTAGCCATGAATCAA 1 CACATTGGCACCTTTATCATCTTTAAGACAAATGTCGCTAGCC-TGGATCAA * 3639053 CACATTGGCAACC-TTATCATCTTTAAGACAAATGTCGCTGGCCTGGGATCAA 1 CACATTGGC-ACCTTTATCATCTTTAAGACAAATGTCGCTAGCCT-GGATCAA * 3639105 TACATTGGCACCTTT 1 CACATTGGCACCTTT 3639120 GTTGTCCTTA Statistics Matches: 97, Mismatches: 18, Indels: 8 0.79 0.15 0.07 Matches are distributed among these distances: 51 4 0.04 52 89 0.92 53 4 0.04 ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30 Consensus pattern (51 bp): CACATTGGCACCTTTATCATCTTTAAGACAAATGTCGCTAGCCTGGATCAA Found at i:3645798 original size:23 final size:22 Alignment explanation
Indices: 3645767--3645825 Score: 57 Period size: 23 Copynumber: 2.5 Consensus size: 22 3645757 TGAAAAAGTT 3645767 AAAAGCAAAAGCACAAAAATAA-G 1 AAAA-CAAAAGCACAAAAA-AATG * 3645790 AAACACAAAAGAAACAAAAAAATG 1 AAA-ACAAAAG-CACAAAAAAATG * 3645814 AAAAAAAAAGCA 1 AAAACAAAAGCA 3645826 AAGGCAAAAA Statistics Matches: 30, Mismatches: 3, Indels: 7 0.75 0.08 0.17 Matches are distributed among these distances: 22 1 0.03 23 17 0.57 24 12 0.40 ACGTcount: A:0.75, C:0.12, G:0.10, T:0.03 Consensus pattern (22 bp): AAAACAAAAGCACAAAAAAATG Found at i:3647430 original size:166 final size:166 Alignment explanation
Indices: 3647226--3647774 Score: 769 Period size: 169 Copynumber: 3.3 Consensus size: 166 3647216 CTCCGAAAAT * ** * * * * 3647226 TTTTTTGGA-AGGATTTTTCTTAATTTTTAATCTTTAAAATTCATAAAATATCATTATTTATTTC 1 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC * * 3647290 ATATTAATTTTGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTTATTTTTGTCCTTGAAATT- 66 ATATTAATTTAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGAAATTC *** * 3647354 TCCCTTTTTCTAGAATACGGTGTTTTCTACTCGTAAA 131 TTTTTTTTTC-AAAATACGGTGTTTTCTACTCGTAAA 3647391 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC 1 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC * * * * 3647456 ATATTAATTCACTTTTCAAAAATTAATTCATTATCATGAGTTTTTGATTTTTTTTTCCTTGAAAT 66 ATATTAATTTAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT--TATTTTTTTCCTTGAAAT * * * 3647521 TCTTTTTTTTTCAAAATACTGTGTTTTATACTTCATAAA 129 TCTTTTTTTTTCAAAATACGGTGTTTTCTAC-TCGTAAA * * 3647560 TTTTTTCGAGGGGATTTTTCTTGGCTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC 1 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC * 3647625 ATATTAACTTAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTTTATTTTTTTCCTTGAAATT 66 ATATTAATTTAGTTTTCAAAAATTAATTCATTTTCATGAG-TTTTTTATTTTTTTCCTTGAAATT 3647690 CTTTTGTTTTTCAAAATACGGTGTTTTCTACTCCGTAAA 130 CTTTT-TTTTTCAAAATACGGTGTTTTCTACT-CGTAAA * ** * * 3647729 TTTTTTCGAGGGGATTTTTCTTGGTTTAAAACTTTTAAAATGCATC 1 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATC 3647775 TAATATTGTT Statistics Matches: 341, Mismatches: 35, Indels: 12 0.88 0.09 0.03 Matches are distributed among these distances: 165 8 0.02 166 90 0.26 168 57 0.17 169 181 0.53 170 5 0.01 ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52 Consensus pattern (166 bp): TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTC ATATTAATTTAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGAAATTC TTTTTTTTTCAAAATACGGTGTTTTCTACTCGTAAA Found at i:3648375 original size:12 final size:13 Alignment explanation
Indices: 3648350--3648386 Score: 58 Period size: 12 Copynumber: 2.9 Consensus size: 13 3648340 AGCAAGTCAA 3648350 AAAAAGAGAGAAG 1 AAAAAGAGAGAAG 3648363 AAAAAGAGA-AAG 1 AAAAAGAGAGAAG * 3648375 AAAAATAGAGAA 1 AAAAAGAGAGAA 3648387 AATAGGTAGA Statistics Matches: 22, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 12 11 0.50 13 11 0.50 ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03 Consensus pattern (13 bp): AAAAAGAGAGAAG Found at i:3656353 original size:156 final size:157 Alignment explanation
Indices: 3656064--3656382 Score: 631 Period size: 156 Copynumber: 2.0 Consensus size: 157 3656054 ATGTGATGCC 3656064 ATGGACCACATTGTTTCGCTTGCCCATAGATTTTAGCCAAATAAAACAAAGCCATGCAATCGTTA 1 ATGGACCACATTGTTTCGCTTGCCCATAGATTTTAGCCAAATAAAACAAAGCCATGCAATCGTTA 3656129 AGGCTTTTGATGGGATAAGGAGAAAGATCAAAGGAACCATCATAGTTACCCTGGAGATTGGTCTT 66 AGGCTTTTGATGGGATAAGGAGAAAGATCAAAGGAACCATCATAGTTACCCTGGAGATTGGTCTT 3656194 TGTCCGTTCGAAGTAGAATTCCGTGTT 131 TGTCCGTTCGAAGTAGAATTCCGTGTT 3656221 ATGG-CCACATTGTTTCGCTTGCCCATAGATTTTAGCCAAATAAAACAAAGCCATGCAATCGTTA 1 ATGGACCACATTGTTTCGCTTGCCCATAGATTTTAGCCAAATAAAACAAAGCCATGCAATCGTTA 3656285 AGGCTTTTGATGGGATAAGGAGAAAGATCAAAGGAACCATCATAGTTACCCTGGAGATTGGTCTT 66 AGGCTTTTGATGGGATAAGGAGAAAGATCAAAGGAACCATCATAGTTACCCTGGAGATTGGTCTT 3656350 TGTCCGTTCGAAGTAGAATTCCGTGTT 131 TGTCCGTTCGAAGTAGAATTCCGTGTT 3656377 ATGGAC 1 ATGGAC 3656383 ATCGCTCTCG Statistics Matches: 161, Mismatches: 0, Indels: 2 0.99 0.00 0.01 Matches are distributed among these distances: 156 156 0.97 157 5 0.03 ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29 Consensus pattern (157 bp): ATGGACCACATTGTTTCGCTTGCCCATAGATTTTAGCCAAATAAAACAAAGCCATGCAATCGTTA AGGCTTTTGATGGGATAAGGAGAAAGATCAAAGGAACCATCATAGTTACCCTGGAGATTGGTCTT TGTCCGTTCGAAGTAGAATTCCGTGTT Found at i:3662121 original size:20 final size:20 Alignment explanation
Indices: 3662096--3662212 Score: 117 Period size: 20 Copynumber: 5.7 Consensus size: 20 3662086 ATTTTAGTAG * 3662096 ATGTATCGATATATTGAACA 1 ATGTATCGATACATTGAACA * * ** 3662116 ATGTATCGATAAATCTAGGTAGG 1 ATGTATCGATACAT-T--GAACA * 3662139 ATGTATCGATACATTGAAGA 1 ATGTATCGATACATTGAACA * * * 3662159 ATGTATCGATACATTCATCC 1 ATGTATCGATACATTGAACA * 3662179 ATGTATCGATACATTGAAAA 1 ATGTATCGATACATTGAACA 3662199 ATGTATCGATACAT 1 ATGTATCGATACAT 3662213 CTAGGTGAAA Statistics Matches: 79, Mismatches: 15, Indels: 6 0.79 0.15 0.06 Matches are distributed among these distances: 20 62 0.78 21 1 0.01 22 1 0.01 23 15 0.19 ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32 Consensus pattern (20 bp): ATGTATCGATACATTGAACA Found at i:3663350 original size:45 final size:48 Alignment explanation
Indices: 3663242--3663350 Score: 116 Period size: 49 Copynumber: 2.3 Consensus size: 48 3663232 CAATGTGCCA * * * 3663242 ATTCAAGGCGAGCGACATTAGGCTAAGGGAAAAGTGGACCAATGTGCTG 1 ATTCAAAGCCAGCGACATTAGGCTAA-GGAAAAGTGGACCAATATGCTG * * * 3663291 ATTCAAAGCCAGCGACATTAGGCTAA-TAAAGGT-G-CCAATATGTTG 1 ATTCAAAGCCAGCGACATTAGGCTAAGGAAAAGTGGACCAATATGCTG * * 3663336 ATTCAATGCTAGCGA 1 ATTCAAAGCCAGCGA 3663351 TATCAGATAG Statistics Matches: 52, Mismatches: 8, Indels: 4 0.81 0.12 0.06 Matches are distributed among these distances: 45 22 0.42 46 1 0.02 47 5 0.10 49 24 0.46 ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22 Consensus pattern (48 bp): ATTCAAAGCCAGCGACATTAGGCTAAGGAAAAGTGGACCAATATGCTG Found at i:3663710 original size:117 final size:116 Alignment explanation
Indices: 3663461--3663821 Score: 500 Period size: 117 Copynumber: 3.1 Consensus size: 116 3663451 CATCGACTCG * * 3663461 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTGACT--TGTGG 1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCAC-GACTCGTGTGG * * * * * 3663522 GCTTTG-AAAGGATGTCATTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGA-C 65 GCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACC * 3663574 TCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGATTTGAAAAGAGTTGCCATCGACTCGTGTG 1 T-GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCA-CGACTCGTGTG * * 3663639 GGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACC 64 GGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACC * 3663692 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGG 1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCA-CGACTCGTGTGG * * * 3663757 GCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT 65 GCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACC 3663809 TGTGGGCTTTGAA 1 TGTGGGCTTTGAA 3663822 GAGATGAATG Statistics Matches: 223, Mismatches: 17, Indels: 12 0.88 0.07 0.05 Matches are distributed among these distances: 113 1 0.00 114 36 0.16 115 4 0.02 116 10 0.04 117 130 0.58 118 17 0.08 119 25 0.11 ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28 Consensus pattern (116 bp): TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACGACTCGTGTGGG CTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACC Found at i:3663726 original size:175 final size:176 Alignment explanation
Indices: 3663410--3663821 Score: 606 Period size: 175 Copynumber: 2.4 Consensus size: 176 3663400 TTTTTTTAAA * * 3663410 AAAAGG-TGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTACCATCGACTCGTGTGGGCTTTG-A 1 AAAAGGATGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCATCGACTCGTGTGGGCTTTGAA ** * * * 3663473 AAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGTC 64 AAGAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACCTGTGGGCTTTGAAAGGATGCC * * 3663538 ATTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTC-GTGGGCTTT 129 ACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGGTGGGCTTT * * 3663585 GAAAGGATGCCACTGACTTGTGGGATTTGAAAAGAGTTGCCATCGACTCGTGTGGGCTTTGAAAA 1 AAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATCGACTCGTGTGGGCTTTGAAAA 3663650 GAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACCTGTGGGCTTTGAAAGGATGCCAC 66 GAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACCTGTGGGCTTTGAAAGGATGCCAC 3663715 TGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTT 131 TGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCG-GTGGGCTTT * * 3663762 AAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCA-CTGACT--TGTGGGCTTTGAA 1 AAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATC-GACTCGTGTGGGCTTTGAA 3663822 GAGATGAATG Statistics Matches: 216, Mismatches: 15, Indels: 13 0.89 0.06 0.05 Matches are distributed among these distances: 174 54 0.25 175 104 0.48 176 19 0.09 177 18 0.08 178 21 0.10 ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28 Consensus pattern (176 bp): AAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCATCGACTCGTGTGGGCTTTGAAAA GAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACCTGTGGGCTTTGAAAGGATGCCAC TGACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGGTGGGCTTT Found at i:3663827 original size:28 final size:28 Alignment explanation
Indices: 3663461--3663821 Score: 436 Period size: 28 Copynumber: 12.5 Consensus size: 28 3663451 CATCGACTCG * 3663461 TGTGGGCTTTGAAAGGGTGCCACTGACT 1 TGTGGGCTTTGAAAGGATGCCACTGACT * 3663489 TGTGGGCTTTGAAAGGGTGCCACTGACT 1 TGTGGGCTTTGAAAGGATGCCACTGACT * * 3663517 TGTGGGCTTTGAAAGGATGTCATTGACT 1 TGTGGGCTTTGAAAGGATGCCACTGACT * * 3663545 TGTGGGCTTTGAAAAGAGTTGCCACCGACT 1 TGTGGGCTTTG-AAAG-GATGCCACTGACT * 3663575 CGTGGGCTTTGAAAGGATGCCACTGACT 1 TGTGGGCTTTGAAAGGATGCCACTGACT * * 3663603 TGTGGGATTTGAAAAGAGTTGCCA-TCGACT 1 TGTGGGCTTTG-AAAG-GATGCCACT-GACT * 3663633 CGTGTGGGCTTTGAAAAGAATGCCACTGACT 1 --TGTGGGCTTTG-AAAGGATGCCACTGACT * * * 3663664 TGTGGGCTTTGAAAGGGTGCCACTAACC 1 TGTGGGCTTTGAAAGGATGCCACTGACT 3663692 TGTGGGCTTTGAAAGGATGCCACTGACT 1 TGTGGGCTTTGAAAGGATGCCACTGACT * ** 3663720 TGTGGGCTTTGAAAAGAGTTGCCACCAACT 1 TGTGGGCTTTG-AAAG-GATGCCACTGACT * * 3663750 CGTGTGGGCTTTAAAAAGAGTGCCACTGACT 1 --TGTGGGCTTTGAAAGGA-TGCCACTGACT 3663781 TGTGGGCTTTGAAAGGATGCCACTGACT 1 TGTGGGCTTTGAAAGGATGCCACTGACT 3663809 TGTGGGCTTTGAA 1 TGTGGGCTTTGAA 3663822 GAGATGAATG Statistics Matches: 287, Mismatches: 33, Indels: 26 0.83 0.10 0.08 Matches are distributed among these distances: 28 157 0.55 29 43 0.15 30 40 0.14 31 21 0.07 32 26 0.09 ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28 Consensus pattern (28 bp): TGTGGGCTTTGAAAGGATGCCACTGACT Found at i:3665538 original size:21 final size:20 Alignment explanation
Indices: 3665509--3665551 Score: 50 Period size: 20 Copynumber: 2.1 Consensus size: 20 3665499 GACTAGTGTG * * 3665509 GGGACTGCCCGGTTGTGACCT 1 GGGACTG-CCGGTCGCGACCT * 3665530 GGGAGTGCCGGTCGCGACCT 1 GGGACTGCCGGTCGCGACCT 3665550 GG 1 GG 3665552 TGGTGCTGCC Statistics Matches: 19, Mismatches: 3, Indels: 1 0.83 0.13 0.04 Matches are distributed among these distances: 20 13 0.68 21 6 0.32 ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19 Consensus pattern (20 bp): GGGACTGCCGGTCGCGACCT Found at i:3666001 original size:13 final size:13 Alignment explanation
Indices: 3665983--3666018 Score: 63 Period size: 13 Copynumber: 2.8 Consensus size: 13 3665973 ATAATCCCCC * 3665983 TGTATCGATACAG 1 TGTATCGATACAA 3665996 TGTATCGATACAA 1 TGTATCGATACAA 3666009 TGTATCGATA 1 TGTATCGATA 3666019 TAAAGAAAAA Statistics Matches: 22, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 13 22 1.00 ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33 Consensus pattern (13 bp): TGTATCGATACAA Found at i:3668085 original size:15 final size:15 Alignment explanation
Indices: 3668065--3668095 Score: 53 Period size: 15 Copynumber: 2.1 Consensus size: 15 3668055 ATTTCGTTTG * 3668065 GAGCTTCTTCATTTT 1 GAGCTTCCTCATTTT 3668080 GAGCTTCCTCATTTT 1 GAGCTTCCTCATTTT 3668095 G 1 G 3668096 GACATTTTTA 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:0.13, C:0.23, G:0.16, T:0.48 Consensus pattern (15 bp): GAGCTTCCTCATTTT Found at i:3672161 original size:13 final size:13 Alignment explanation
Indices: 3672143--3672168 Score: 52 Period size: 13 Copynumber: 2.0 Consensus size: 13 3672133 CAATTTTTTG 3672143 TGTATCGATACAT 1 TGTATCGATACAT 3672156 TGTATCGATACAT 1 TGTATCGATACAT 3672169 ACTTTGGTGT 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:0.31, C:0.15, G:0.15, T:0.38 Consensus pattern (13 bp): TGTATCGATACAT Found at i:3672184 original size:33 final size:33 Alignment explanation
Indices: 3672123--3672187 Score: 87 Period size: 33 Copynumber: 2.0 Consensus size: 33 3672113 TACAATCCAA * * 3672123 TGTATCGATACAATTTTTTGTGTATCGATACAT 1 TGTATCGATACAATCTTTGGTGTATCGATACAT * 3672156 TGTATCGATAC-ATACTTTGGTGTGTCGATACA 1 TGTATCGATACAAT-CTTTGGTGTATCGATACA 3672188 AGTTTGGCTA Statistics Matches: 28, Mismatches: 3, Indels: 2 0.85 0.09 0.06 Matches are distributed among these distances: 32 2 0.07 33 26 0.93 ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42 Consensus pattern (33 bp): TGTATCGATACAATCTTTGGTGTATCGATACAT Found at i:3672264 original size:20 final size:21 Alignment explanation
Indices: 3672217--3672271 Score: 67 Period size: 21 Copynumber: 2.7 Consensus size: 21 3672207 AATCTCAATG * * 3672217 ACATGTATCGATACATCTTTT 1 ACATGTATCGATACATCTGTA * 3672238 TCATGTATCGATACAT-TGTA 1 ACATGTATCGATACATCTGTA * 3672258 ACATGTATTGATAC 1 ACATGTATCGATAC 3672272 TTTGAATTGT Statistics Matches: 29, Mismatches: 5, Indels: 1 0.83 0.14 0.03 Matches are distributed among these distances: 20 14 0.48 21 15 0.52 ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40 Consensus pattern (21 bp): ACATGTATCGATACATCTGTA Found at i:3683531 original size:8 final size:8 Alignment explanation
Indices: 3683518--3683543 Score: 52 Period size: 8 Copynumber: 3.2 Consensus size: 8 3683508 CAAAAGATGG 3683518 CATCAAAA 1 CATCAAAA 3683526 CATCAAAA 1 CATCAAAA 3683534 CATCAAAA 1 CATCAAAA 3683542 CA 1 CA 3683544 ATCCTAAAAC Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 8 18 1.00 ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12 Consensus pattern (8 bp): CATCAAAA Found at i:3684365 original size:20 final size:20 Alignment explanation
Indices: 3684340--3684456 Score: 85 Period size: 20 Copynumber: 5.7 Consensus size: 20 3684330 TTTTAACTAG 3684340 ATGTATCGATACATTGAATA 1 ATGTATCGATACATTGAATA * ** 3684360 ATGTATCGATAAATCTGGGTA 1 ATGTATCGATACAT-TGAATA 3684381 GGATGTATCGATACATTG-ATGA 1 --ATGTATCGATACATTGAAT-A * * * 3684403 ATGTGTCGATACATT-CATCC 1 ATGTATCGATACATTGAAT-A * * * 3684423 ATGCATCGATACAATGAAAA 1 ATGTATCGATACATTGAATA * 3684443 ATGTATTGATACAT 1 ATGTATCGATACAT 3684457 CTAGGTAAAA Statistics Matches: 74, Mismatches: 17, Indels: 12 0.72 0.17 0.12 Matches are distributed among these distances: 20 52 0.70 21 6 0.08 22 3 0.04 23 13 0.18 ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32 Consensus pattern (20 bp): ATGTATCGATACATTGAATA Found at i:3684520 original size:24 final size:20 Alignment explanation
Indices: 3684340--3684507 Score: 75 Period size: 20 Copynumber: 7.7 Consensus size: 20 3684330 TTTTAACTAG * 3684340 ATGTATCGATACATTGAATA 1 ATGTATCGATACATTGAAAA * * ** 3684360 ATGTATCGATAAATCTGGGTAGG 1 ATGTATCGATACAT-T--GAAAA ** 3684383 ATGTATCGATACATTGATGA 1 ATGTATCGATACATTGAAAA * * *** 3684403 ATGTGTCGATACATTCATCC 1 ATGTATCGATACATTGAAAA * * 3684423 ATGCATCGATACAATGAAAA 1 ATGTATCGATACATTGAAAA * 3684443 ATGTATTGATACATCTAGGTAAAAAGTCAGA 1 ATGTATCGATACAT-T--G----AA---A-A 3684474 ATGTATCGATACATTGAAAA 1 ATGTATCGATACATTGAAAA 3684494 ATGTATCGATACAT 1 ATGTATCGATACAT 3684508 CTAGATAAAA Statistics Matches: 111, Mismatches: 23, Indels: 28 0.69 0.14 0.17 Matches are distributed among these distances: 20 70 0.63 21 3 0.03 22 1 0.01 23 16 0.14 24 2 0.02 27 2 0.02 28 1 0.01 30 2 0.02 31 14 0.13 ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31 Consensus pattern (20 bp): ATGTATCGATACATTGAAAA Found at i:3685878 original size:158 final size:155 Alignment explanation
Indices: 3685589--3686237 Score: 678 Period size: 157 Copynumber: 4.2 Consensus size: 155 3685579 GGTAAAATCA * * * * 3685589 CCATCTCTAGTCTTTTTAAGTCCTTTAGGGTTGTTGGGATATTTTTACATCGAAGGTATCCCATA 1 CCATCTATATTCTTTTTAAGT-CTTTAGGGTTGTCGGGATACTTTTACATCGAAGGTATCCCATA * * * * * 3685654 GGGACATTTTCATAA-TTTCCTAGAATCGAGTCCTAGGTTGTCACCGAGTTCACTTTTATGCCGA 65 GGGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGA * * 3685718 AGGTGGGCATTTAGGATAGCTTCATC 130 AGGTGGGCATTTAGGATAGGTTCACC * * ** ** 3685744 CCATCTTTATTCTTTTTAAGTCCTTTTAGGGTTGTCGGGATACTTTTACGTCGAATATATACCTG 1 CCATCTATATTCTTTTTAAGT-C-TTTAGGGTTGTCGGGATACTTTTACATCGAAGGTAT-CCCA * * ** 3685809 TAGGGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCAGGTTCGCTTTTATGTT 63 TAGGGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCC ** 3685874 GAAGGTGGGCATTTAGGATAGGTTCATT 128 GAAGGTGGGCATTTAGGATAGGTTCACC * * ** * 3685902 CCATCTTTACTCTTTTTAAGTTCTTTAGGGTTGTTAGGATACTTTTACATCGAAGGTATACCCAA 1 CCATCTATATTCTTTTTAAG-TCTTTAGGGTTGTCGGGATACTTTTACATCGAAGGTAT-CCCAT * * * * ** * 3685967 AAGGGCATTTTCGTAATTTTTCTAGAACCAAGTCCTAGGCCGTCACCGGGTCCGCTTTTATGCTG 64 AGGGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCG * 3686032 AAGGTGGGTATTTAGGATAGGTTCACC 129 AAGGTGGGCATTTAGGATAGGTTCACC * * * * * * * * ** 3686059 CCATCCATATCCTTTTTGAGTCGATTAGGGGTATC-GGACACTGTTATGTCGAAGGTAT-CCATT 1 CCATCTATATTCTTTTTAAGTC-TTTAGGGTTGTCGGGATACTTTTACATCGAAGGTATCCCA-T * * * * 3686122 AGGGGTATTTTCAAAATTTTTC-A-AAACTGAGTTCTAGGTTGTCACCGGGTCCGCTTTTATGCC 64 AGGGGCATTTTCATAATTTTTCTAGAATC-GAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCC * * * 3686185 AAAGGTGGGTATTTATGATAGGTTCACC 128 GAAGGTGGGCATTTAGGATAGGTTCACC * * * 3686213 CCATCCATATCCTTTTTCAGTCTTT 1 CCATCTATATTCTTTTTAAGTCTTT 3686238 TAGGCGTATT Statistics Matches: 420, Mismatches: 67, Indels: 16 0.83 0.13 0.03 Matches are distributed among these distances: 153 5 0.01 154 81 0.19 155 39 0.09 156 52 0.12 157 155 0.37 158 87 0.21 159 1 0.00 ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38 Consensus pattern (155 bp): CCATCTATATTCTTTTTAAGTCTTTAGGGTTGTCGGGATACTTTTACATCGAAGGTATCCCATAG GGGCATTTTCATAATTTTTCTAGAATCGAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAA GGTGGGCATTTAGGATAGGTTCACC Found at i:3687049 original size:13 final size:13 Alignment explanation
Indices: 3687031--3687061 Score: 53 Period size: 13 Copynumber: 2.4 Consensus size: 13 3687021 TACAATTCAT 3687031 AATGTATCAATAC 1 AATGTATCAATAC * 3687044 AATGTATCGATAC 1 AATGTATCAATAC 3687057 AATGT 1 AATGT 3687062 GCCATGTATC Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 13 17 1.00 ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32 Consensus pattern (13 bp): AATGTATCAATAC Found at i:3687726 original size:22 final size:20 Alignment explanation
Indices: 3687687--3687729 Score: 59 Period size: 22 Copynumber: 2.0 Consensus size: 20 3687677 GGCTCTCGTT * 3687687 AAAAAATTTTCCCTTTGATA 1 AAAAAATTTTCCCCTTGATA 3687707 AAAAAATTTCTCCCCCTTGATA 1 AAAAAATTT-T-CCCCTTGATA 3687729 A 1 A 3687730 TCGGTTAAAA Statistics Matches: 20, Mismatches: 1, Indels: 2 0.87 0.04 0.09 Matches are distributed among these distances: 20 9 0.45 21 1 0.05 22 10 0.50 ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35 Consensus pattern (20 bp): AAAAAATTTTCCCCTTGATA Found at i:3689502 original size:22 final size:21 Alignment explanation
Indices: 3689467--3689516 Score: 59 Period size: 22 Copynumber: 2.4 Consensus size: 21 3689457 TTTGTTGATG * 3689467 ATTTTG-A-TGAAAAATGAGA 1 ATTTTGAAGTGAAAAATAAGA 3689486 TATTTTGAAGTGAAAAATAAGA 1 -ATTTTGAAGTGAAAAATAAGA * 3689508 AATTTGAAG 1 ATTTTGAAG 3689517 AAATTTAATG Statistics Matches: 26, Mismatches: 2, Indels: 3 0.84 0.06 0.10 Matches are distributed among these distances: 20 6 0.23 21 9 0.35 22 11 0.42 ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32 Consensus pattern (21 bp): ATTTTGAAGTGAAAAATAAGA Found at i:3689513 original size:21 final size:22 Alignment explanation
Indices: 3689474--3689516 Score: 61 Period size: 22 Copynumber: 2.0 Consensus size: 22 3689464 ATGATTTTGA * * 3689474 TGAAAAATGAGATATTTTGAAG 1 TGAAAAATAAGATAATTTGAAG 3689496 TGAAAAATAAGA-AATTTGAAG 1 TGAAAAATAAGATAATTTGAAG 3689517 AAATTTAATG Statistics Matches: 19, Mismatches: 2, Indels: 1 0.86 0.09 0.05 Matches are distributed among these distances: 21 8 0.42 22 11 0.58 ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28 Consensus pattern (22 bp): TGAAAAATAAGATAATTTGAAG Found at i:3695375 original size:19 final size:20 Alignment explanation
Indices: 3695335--3695381 Score: 60 Period size: 19 Copynumber: 2.4 Consensus size: 20 3695325 CAGTTTGATC ** 3695335 TATCGATACAATTGTCCATG 1 TATCGATACAATTGAACATG 3695355 TATCGATACAA-TGAACATG 1 TATCGATACAATTGAACATG * 3695374 TATTGATA 1 TATCGATA 3695382 TTAATGTATC Statistics Matches: 24, Mismatches: 3, Indels: 1 0.86 0.11 0.04 Matches are distributed among these distances: 19 13 0.54 20 11 0.46 ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34 Consensus pattern (20 bp): TATCGATACAATTGAACATG Found at i:3695394 original size:33 final size:34 Alignment explanation
Indices: 3695352--3695415 Score: 96 Period size: 33 Copynumber: 1.9 Consensus size: 34 3695342 ACAATTGTCC * 3695352 ATGTATCGATACAATG-A-ACATGTATTGATATTA 1 ATGTATCGATACAAAGCATA-ATGTATTGATATTA 3695385 ATGTATCGATACAAAGCATAATGTATTGATA 1 ATGTATCGATACAAAGCATAATGTATTGATA 3695416 CATCTGGGTG Statistics Matches: 28, Mismatches: 1, Indels: 3 0.88 0.03 0.09 Matches are distributed among these distances: 33 15 0.54 34 12 0.43 35 1 0.04 ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34 Consensus pattern (34 bp): ATGTATCGATACAAAGCATAATGTATTGATATTA Found at i:3696574 original size:462 final size:462 Alignment explanation
Indices: 3695706--3696662 Score: 1233 Period size: 462 Copynumber: 2.1 Consensus size: 462 3695696 GATCCTAATA * **** 3695706 GTATCCCTTAGGGGCATTTTCATAA-TTTTCTAAAACCAGGTCCTAGGTTGTCATTGGGTTTGCT 1 GTATCCCTTAGGGGCATTTTCATAATTTTTC-AAAACCAAGTCCTAGGTTGTCACCAAGTTTGCT * * * 3695770 TTTATGCTGAATGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCTTTTAAG 65 TTTATGCTGAAGGTAGATATTTACGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAAG * * * 3695835 AGCATCAGGCACTGTTATATCAAAGGTATCCCTTAGGGGCATTTTCATAATTTTCCAAAACTGGG 130 AGCATCAGGCACTGTTATATCAAAGGTATCCCTTAAGGGCATTTTCATAATTTTCCAAAACCGAG * * * * 3695900 TCCTAGGTTCTCACCGGGTTTGCTTTTATGCCTAACGTAGATATTTAGGATAGGTTCACCCCACC 195 TCCTAGGTTCTCACCAGGTCTGCTTTTATGCCGAACGTAGATATTTAGGATAGGTTAACCCCACC * * * * * 3695965 CATATCCTTTTTGACTCTTTTAGAGGTATCGGGCACCATTACGTCGAAGGTACCCCCTAGGGGTA 260 CATATCCTTTTTGACTCCTTTAGAGGTATCAGACACCATTACGTCGAAGGTACCCCCTAGGAGCA * * * * * 3696030 TTTTCGTGTTCTTTCAAAATCGAGTCCTAGGTCATCATCAAGTCTGCTTTTGTGCCAAAGGTGGG 325 TTTTCATATTCTTTCAAAACCGAGTCCTAGGTCATCACCAAGTCTGCTTTTATGCCAAAGGTGGG * 3696095 TATTTAAGATGGGTTCGCCCCATCC-ACATCCTTTTTAACTCCTTTAGAGGTACCGGGCACTATT 390 TATTTAAGATAGGTTCGCCCCA-CCTACATCCTTTTTAACTCCTTTAGAGGTACCGGGCACTATT ** 3696159 ATGTCGAAG 454 ACATCGAAG * * 3696168 GTATCCCTTTGGGGAATTTTCATAATTTTTCAAAACCAAGTCCTAGGTTGTCACCAAGTTTGCTT 1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCAAGTCCTAGGTTGTCACCAAGTTTGCTT * * * * 3696233 TTTTGCTGAAGGTAGATATTTAACG-TAGGTTCACCCCATCCATATCTTTTTTGAGTCCTTTACG 66 TTATGCTGAAGGTAGATATTT-ACGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAAG * * * * * * * 3696297 GGTATCGGGCACTGTTACT-TCCAAGGTATCCCTTAAGGGCGTTTTTATAATTTTCTAAAACCGA 130 AGCATCAGGCACTGTTA-TATCAAAGGTATCCCTTAAGGGCATTTTCATAATTTTCCAAAACCGA * * * 3696361 GTCCTAGGTTGTCATCAGGTCTGCTTTTATGCCGAGCGTAGATATTTAGGATAGGTTAACCCCAC 194 GTCCTAGGTTCTCACCAGGTCTGCTTTTATGCCGAACGTAGATATTTAGGATAGGTTAACCCCAC * * * * * * * 3696426 CCATATCCTTTTTTAGTCCTTTAGGGGTATCAGACGCTATTACGTCGAAGGTATCCCTTAGGAGC 259 CCATATCCTTTTTGACTCCTTTAGAGGTATCAGACACCATTACGTCGAAGGTACCCCCTAGGAGC * * * 3696491 ATTTTCATAATT-TTTCAAAACCGAGTCCTAGGT-AGTCACCGAGTCTGCTTTTATGTCGAAGGT 324 ATTTTCAT-ATTCTTTCAAAACCGAGTCCTAGGTCA-TCACCAAGTCTGCTTTTATGCCAAAGGT * ** * * * * * 3696554 GGGTATTTAGGATAGGTTCGCCCCACCTATTTCCTTTTTGAGTCCTTTAGGGGTATCGGGCACTG 387 GGGTATTTAAGATAGGTTCGCCCCACCTACATCCTTTTTAACTCCTTTAGAGGTACCGGGCACTA * 3696619 TTACATTGAAG 452 TTACATCGAAG ** 3696630 GTATCCCTTAGGGGCATTTTTGTAATTTTTCAA 1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAA 3696663 GAGTAGTTAT Statistics Matches: 422, Mismatches: 67, Indels: 12 0.84 0.13 0.02 Matches are distributed among these distances: 461 3 0.01 462 409 0.97 463 10 0.02 ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36 Consensus pattern (462 bp): GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCAAGTCCTAGGTTGTCACCAAGTTTGCTT TTATGCTGAAGGTAGATATTTACGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAAGA GCATCAGGCACTGTTATATCAAAGGTATCCCTTAAGGGCATTTTCATAATTTTCCAAAACCGAGT CCTAGGTTCTCACCAGGTCTGCTTTTATGCCGAACGTAGATATTTAGGATAGGTTAACCCCACCC ATATCCTTTTTGACTCCTTTAGAGGTATCAGACACCATTACGTCGAAGGTACCCCCTAGGAGCAT TTTCATATTCTTTCAAAACCGAGTCCTAGGTCATCACCAAGTCTGCTTTTATGCCAAAGGTGGGT ATTTAAGATAGGTTCGCCCCACCTACATCCTTTTTAACTCCTTTAGAGGTACCGGGCACTATTAC ATCGAAG Found at i:3696659 original size:154 final size:154 Alignment explanation
Indices: 3695706--3696662 Score: 1019 Period size: 154 Copynumber: 6.2 Consensus size: 154 3695696 GATCCTAATA ** * * 3695706 GTATCCCTTAGGGGCATTTTCATAA-TTTTCTAAAACC-AGGTCCTAGGTTGTCATTGGGTTTGC 1 GTATCCCTTAGGGGCATTTTCATAATTTTTC-AAAACCGA-GTCCTAGGTTGTCACCGAGTCTGC * * * * 3695769 TTTTATGCTGAATGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCTTTTAA 64 TTTTATGCCGAAGGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAG * * * * ** * 3695834 GAGCATCAGGCACTGTTATATCAAAG 129 GGGTATCGGGCACTATTACGTCGAAG * * * * * * 3695860 GTATCCCTTAGGGGCATTTTCATAATTTTCCAAAACTGGGTCCTAGGTTCTCACCGGGTTTGCTT 1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCGAGTCCTAGGTTGTCACCGAGTCTGCTT * * * * * 3695925 TTATGCCTAACGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGACTCTTTTAGAG 66 TTATGCCGAAGGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAGGG * 3695990 GTATCGGGCACCATTACGTCGAAG 131 GTATCGGGCACTATTACGTCGAAG * * * * * * ** * * 3696014 GTACCCCCTAGGGGTATTTTCGT-GTTCTTTCAAAATCGAGTCCTAGGTCATCATCAAGTCTGCT 1 GTATCCCTTAGGGGCATTTTCATAATT-TTTCAAAACCGAGTCCTAGGTTGTCACCGAGTCTGCT * * * * * * * * * * * * 3696078 TTTGTGCCAAAGGTGGGTATTTAAGATGGGTTCGCCCCATCCACATCCTTTTTAACTCCTTTAGA 65 TTTATGCCGAAGGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAGG * * 3696143 GGTACCGGGCACTATTATGTCGAAG 130 GGTATCGGGCACTATTACGTCGAAG * * * * * 3696168 GTATCCCTTTGGGGAATTTTCATAATTTTTCAAAACCAAGTCCTAGGTTGTCACCAAGTTTGCTT 1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCGAGTCCTAGGTTGTCACCGAGTCTGCTT * * * * * * 3696233 TTTTGCTGAAGGTAGATATTTAACG-TAGGTTCACCCCATCCATATCTTTTTTGAGTCCTTTACG 66 TTATGCCGAAGGTAGATATTT-AGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAGG * * * 3696297 GGTATCGGGCACTGTTACTTCCAAG 130 GGTATCGGGCACTATTACGTCGAAG * * * * 3696322 GTATCCCTTAAGGGCGTTTTTATAA-TTTTCTAAAACCGAGTCCTAGGTTGTCATC-AGGTCTGC 1 GTATCCCTTAGGGGCATTTTCATAATTTTTC-AAAACCGAGTCCTAGGTTGTCACCGA-GTCTGC * * 3696385 TTTTATGCCG-AGCGTAGATATTTAGGATAGGTTAACCCCACCCATATCCTTTTTTAGTCCTTTA 64 TTTTATGCCGAAG-GTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTA * * * 3696449 GGGGTATCAGACGCTATTACGTCGAAG 128 GGGGTATCGGGCACTATTACGTCGAAG * * 3696476 GTATCCCTTAGGAGCATTTTCATAATTTTTCAAAACCGAGTCCTAGGTAGTCACCGAGTCTGCTT 1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCGAGTCCTAGGTTGTCACCGAGTCTGCTT * * * * * * 3696541 TTATGTCGAAGGTGGGTATTTAGGATAGGTTCGCCCCACCTATTTCCTTTTTGAGTCCTTTAGGG 66 TTATGCCGAAGGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAGGG * * * 3696606 GTATCGGGCACTGTTACATTGAAG 131 GTATCGGGCACTATTACGTCGAAG ** 3696630 GTATCCCTTAGGGGCATTTTTGTAATTTTTCAA 1 GTATCCCTTAGGGGCATTTTCATAATTTTTCAA 3696663 GAGTAGTTAT Statistics Matches: 665, Mismatches: 126, Indels: 24 0.82 0.15 0.03 Matches are distributed among these distances: 153 12 0.02 154 637 0.96 155 16 0.02 ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36 Consensus pattern (154 bp): GTATCCCTTAGGGGCATTTTCATAATTTTTCAAAACCGAGTCCTAGGTTGTCACCGAGTCTGCTT TTATGCCGAAGGTAGATATTTAGGATAGGTTCACCCCACCCATATCCTTTTTGAGTCCTTTAGGG GTATCGGGCACTATTACGTCGAAG Found at i:3699116 original size:164 final size:164 Alignment explanation
Indices: 3698693--3699234 Score: 728 Period size: 165 Copynumber: 3.3 Consensus size: 164 3698683 ATTCCTCTTA * * 3698693 TTTTC-AAATTACGGGGTTTTCTTCTCCGTAAATTTTTTTAGGAGGATTTTTC------TT-AAT 1 TTTTCGAAA-TACGGTGTTTTCTACTCCGTAAATTTTTTTAGG-GGATTTTTCTTGGTTTTCAAT * 3698750 TTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATT 64 TTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATT * * * 3698815 TTCGTGAGTTTTTGATTTTTTTCTTGAAATTCTTTCT 129 TTCATGAGTTTTTCATTTTTTTCTTGAAATTC-TCCT * * * 3698852 TTTTCGAAATACGATATTTTCTACTCCGTAAATTTTTTTAGGAGATTTTTCTTGGTTTTCAATTT 1 TTTTCGAAATACGGTGTTTTCTACTCCGTAAATTTTTTTAGGGGATTTTTCTTGGTTTTCAATTT * 3698917 TTAAAATTCATCAAACATCAATATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTTT 66 TTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTTT * * 3698982 CATGAG-TTATCATTTTTTTCTTAAAATTCTCCT 131 CATGAGTTTTTCATTTTTTTCTTGAAATTCTCCT * 3699015 TTTTCTGAAATATGGTGTTTTCTACTCCGTAAATTTTTTTGAGGGGATTTTTCTTGGTTTTCAAT 1 TTTTC-GAAATACGGTGTTTTCTACTCCGTAAATTTTTTT-AGGGGATTTTTCTTGGTTTTCAAT * * * * 3699080 TTTCAAATTTCGTCAAACATCATTATTTA-CTCATATTAATTCAGTTTTCAAAAATTAATTCATT 64 TTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATT * * * 3699144 TTCATGCGTTTTTTATTTTTTCCTTGAAATT-TCTCT 129 TTCATGAGTTTTTCATTTTTTTCTTGAAATTCTC-CT * * * 3699180 TTTTCCGATATACGGTGTTTTCTACTTCGTAAATTTTTTCGAGGGGATTTTTCTT 1 TTTT-CGAAATACGGTGTTTTCTACTCCGTAAATTTTTT-TAGGGGATTTTTCTT 3699235 CGTTAAAAAT Statistics Matches: 339, Mismatches: 30, Indels: 22 0.87 0.08 0.06 Matches are distributed among these distances: 158 8 0.02 159 34 0.10 160 3 0.01 163 8 0.02 164 96 0.28 165 189 0.56 166 1 0.00 ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51 Consensus pattern (164 bp): TTTTCGAAATACGGTGTTTTCTACTCCGTAAATTTTTTTAGGGGATTTTTCTTGGTTTTCAATTT TTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTTT CATGAGTTTTTCATTTTTTTCTTGAAATTCTCCT Found at i:3699300 original size:329 final size:323 Alignment explanation
Indices: 3698708--3699300 Score: 746 Period size: 329 Copynumber: 1.8 Consensus size: 323 3698698 AAATTACGGG * * 3698708 GTTTTCTTCTCCGTAAATTTTTTTAGGAGGATTTTTCTTAATTTTTAAAATTCATCAAACATCAT 1 GTTTTCTACTCCGTAAATTTTTTTAGGAGGATTTTTCTTAATTTTCAAAATTCATCAAACATCAT * * * 3698773 TATTTATTTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCGTGAGTTTTTGATTTTTTTC 66 TATTTATCTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTCC * * 3698838 TTGAAATTCTTTCTTTTTCGAAATACGATATTTTCTACTCCGTAAATTTTTTTAGGAGATTTTTC 131 TTGAAATTCTCTCTTTTTCGAAATACGATATTTTCTACTCCGTAAATTTTTTGAGGAGATTTTTC * *** * * * * * 3698903 TTGGTTTTCAATTTTTAAAATTCATCAAACATCAATATTTATTTCATATTAATTCAGTTTTCAAA 196 TTCGTTAAAAATTTTTAAAATACATCAAACATCAATATTAACTACACATTAATTCAGTTTTCAAA 3698968 AATTAATTCATTTTCATGAGTTATCATTTTTTTCTTAAAATTCTCCTTTTTCTGAAATATGGT 261 AATTAATTCATTTTCATGAGTTATCATTTTTTTCTTAAAATTCTCCTTTTTCTGAAATATGGT * * 3699031 GTTTTCTACTCCGTAAATTTTTTTGAGG-GGATTTTTCTTGGTTTTCAATTTTCAAATTTCGTCA 1 GTTTTCTACTCCGTAAATTTTTTT-AGGAGGATTTTTC------TT-AATTTTCAAAATTCATCA * * * 3699095 AACATCATTATTTA-CTCATATTAATTCAGTTTTCAAAAATTAATTCATTTTCATGCGTTTTTTA 58 AACATCATTATTTATCTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGA * * * * 3699159 TTTTTTCCTTGAAATT-TCTCTTTTTCCGATATACGGTGTTTTCTACTTCGTAAATTTTTTCGAG 123 TTTTTTCCTTGAAATTCTCTCTTTTT-CGAAATACGATATTTTCTACTCCGTAAATTTTTT-GAG * * ** *** * 3699223 GGGATTTTTCTTCGTTAAAAATTTTTAGAAA-ACATCTAATGTTGTTATTAACTAC-CATTACTT 186 GAGATTTTTCTTCGTTAAAAATTTTTA-AAATACATCAAACATCAATATTAACTACACATTAATT * 3699286 CAGTTTTGAAAAATT 250 CAGTTTTCAAAAATT 3699301 TGATTTATAT Statistics Matches: 225, Mismatches: 34, Indels: 16 0.82 0.12 0.06 Matches are distributed among these distances: 323 32 0.14 324 3 0.01 328 8 0.04 329 112 0.50 330 67 0.30 331 3 0.01 ACGTcount: A:0.27, C:0.13, G:0.09, T:0.50 Consensus pattern (323 bp): GTTTTCTACTCCGTAAATTTTTTTAGGAGGATTTTTCTTAATTTTCAAAATTCATCAAACATCAT TATTTATCTCATATTAATTCAATTTTCAAAAATTAATTCATTTTCATGAGTTTTTGATTTTTTCC TTGAAATTCTCTCTTTTTCGAAATACGATATTTTCTACTCCGTAAATTTTTTGAGGAGATTTTTC TTCGTTAAAAATTTTTAAAATACATCAAACATCAATATTAACTACACATTAATTCAGTTTTCAAA AATTAATTCATTTTCATGAGTTATCATTTTTTTCTTAAAATTCTCCTTTTTCTGAAATATGGT Found at i:3701159 original size:149 final size:149 Alignment explanation
Indices: 3700954--3701240 Score: 361 Period size: 149 Copynumber: 1.9 Consensus size: 149 3700944 TTCCAAAAAT * * 3700954 AAATAAATGTTAAATGTTTTTTAAATTTTTATATTCCTATAGGTATCCATAGGGGTA-TAAAATA 1 AAATAAATATTAAATGTTTTTTAAATTTTTATATTCCTATAGGTATCCATAGGGGTATTAAAAGA ** * * 3701018 TTTCAAAAACTTTTCATATCTTTTCGGGTGTCCATTAAGGTATGAAAT-GATTTTTTAAGAAATA 66 TTTC--AAACTTTTCATATCTTGGCGGGTGTCCATTAAGGTATGAAATACACTTTTTAAGAAA-A 3701082 ATTAAATTAACTCTCCTAACTA 128 ATTAAATTAACTCTCCTAACTA * 3701104 AAATAAATATT-AATCG-TTTTT-AATCTTTTATATTCCTAT-GAGTATCCGTAGGGGTATTAAA 1 AAATAAATATTAAAT-GTTTTTTAAAT-TTTTATATTCCTATAG-GTATCCATAGGGGTATTAAA * ** * * 3701165 AGATTTCAAATTTTTTGTATCTTGGCGGGTTTCCATTAAGGTATGAAATAACACTTTTTGAGAAA 63 AGATTTCAAACTTTTCATATCTTGGCGGGTGTCCATTAAGGTATGAAAT-ACACTTTTTAAGAAA 3701230 AATTAAATTAA 127 AATTAAATTAA 3701241 ACATGTGAAA Statistics Matches: 119, Mismatches: 12, Indels: 13 0.83 0.08 0.09 Matches are distributed among these distances: 148 40 0.34 149 47 0.39 150 32 0.27 ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41 Consensus pattern (149 bp): AAATAAATATTAAATGTTTTTTAAATTTTTATATTCCTATAGGTATCCATAGGGGTATTAAAAGA TTTCAAACTTTTCATATCTTGGCGGGTGTCCATTAAGGTATGAAATACACTTTTTAAGAAAAATT AAATTAACTCTCCTAACTA Found at i:3701522 original size:25 final size:25 Alignment explanation
Indices: 3701493--3701542 Score: 100 Period size: 25 Copynumber: 2.0 Consensus size: 25 3701483 AGTCAAACCA 3701493 AATTTGGTAGCATCGCACCACATCC 1 AATTTGGTAGCATCGCACCACATCC 3701518 AATTTGGTAGCATCGCACCACATCC 1 AATTTGGTAGCATCGCACCACATCC 3701543 CTTAGGATCA Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 25 25 1.00 ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24 Consensus pattern (25 bp): AATTTGGTAGCATCGCACCACATCC Found at i:3703816 original size:34 final size:37 Alignment explanation
Indices: 3703768--3703838 Score: 96 Period size: 34 Copynumber: 2.0 Consensus size: 37 3703758 ACATATTGGT * 3703768 ACCAACTCTTTTTCAAAGTCTACA-GA-GTCGGTGGCA 1 ACCAACTCTTTTTCAAAGTCCACATGAGGT-GGTGGCA 3703804 ACCAAC-C-TTTTCAAAGTCCACATGAGGTGGTGGCA 1 ACCAACTCTTTTTCAAAGTCCACATGAGGTGGTGGCA 3703839 CCCTAGTCAA Statistics Matches: 32, Mismatches: 1, Indels: 5 0.84 0.03 0.13 Matches are distributed among these distances: 34 14 0.44 35 10 0.31 36 8 0.25 ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25 Consensus pattern (37 bp): ACCAACTCTTTTTCAAAGTCCACATGAGGTGGTGGCA Found at i:3703880 original size:31 final size:31 Alignment explanation
Indices: 3703806--3703988 Score: 163 Period size: 31 Copynumber: 5.8 Consensus size: 31 3703796 CGGTGGCAAC ** * 3703806 CAACCTTTTCAAAGTCCACATGAGGTGGTGG 1 CAACCTTTTCAAAGTCCACACAAGTTGGTGG * ** * 3703837 CACCCTAGTCAAAGTCCATACAAGTTGGTGG 1 CAACCTTTTCAAAGTCCACACAAGTTGGTGG * ** 3703868 CAACCTTTTCAAAAG-CTTACATGAGTTGGTGG 1 CAACCTTTTC-AAAGTC-CACACAAGTTGGTGG * * ** 3703900 CAATCTTTTCGAAGTCCACATGAGTTGGTGG 1 CAACCTTTTCAAAGTCCACACAAGTTGGTGG * 3703931 CAACCTTTAT-AAAGTCCACACGAGTTGGTGG 1 CAACCTTT-TCAAAGTCCACACAAGTTGGTGG * * 3703962 CAACCTTTTCAAAAGCCCATACAAGTT 1 CAACCTTTTC-AAAGTCCACACAAGTT 3703989 TTAAAGTCCA Statistics Matches: 123, Mismatches: 23, Indels: 11 0.78 0.15 0.07 Matches are distributed among these distances: 30 1 0.01 31 83 0.67 32 39 0.32 ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27 Consensus pattern (31 bp): CAACCTTTTCAAAGTCCACACAAGTTGGTGG Found at i:3703899 original size:63 final size:62 Alignment explanation
Indices: 3703806--3703967 Score: 175 Period size: 63 Copynumber: 2.6 Consensus size: 62 3703796 CGGTGGCAAC * * 3703806 CAACCTTTTCAAAGTCCACATGAGGTGGTGGCACCCTAGTCAAAGTCCATACAAGTTGGTGG 1 CAACCTTTTCAAAGTCCACATGAGGTGGTGGCAACCTAGTCAAAGTCCACACAAGTTGGTGG * * * ** * ** 3703868 CAACCTTTTCAAAAG-CTTACATGAGTTGGTGGCAATCTTTTCGAAGTCCACATGAGTTGGTGG 1 CAACCTTTTC-AAAGTC-CACATGAGGTGGTGGCAACCTAGTCAAAGTCCACACAAGTTGGTGG * * 3703931 CAACCTTTAT-AAAGTCCACACGAGTTGGTGGCAACCT 1 CAACCTTT-TCAAAGTCCACATGAGGTGGTGGCAACCT 3703968 TTTCAAAAGC Statistics Matches: 83, Mismatches: 13, Indels: 8 0.80 0.12 0.08 Matches are distributed among these distances: 62 33 0.40 63 49 0.59 64 1 0.01 ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27 Consensus pattern (62 bp): CAACCTTTTCAAAGTCCACATGAGGTGGTGGCAACCTAGTCAAAGTCCACACAAGTTGGTGG Found at i:3704116 original size:31 final size:31 Alignment explanation
Indices: 3703987--3704178 Score: 151 Period size: 31 Copynumber: 6.3 Consensus size: 31 3703977 CCCATACAAG * 3703987 TTTTAAAGTCCACACAAG-T--TGGCAACCTT 1 TTTTAAAGTCCACACGAGTTGGTGGCAA-CTT ** * * * * * * 3704016 TTCAAAAGCCCACTCGAGTTAGTGGTAGCCT 1 TTTTAAAGTCCACACGAGTTGGTGGCAACTT * * * * 3704047 TTTCAAGGTCCACATGAGCTGGTGGC-A-TT 1 TTTTAAAGTCCACACGAGTTGGTGGCAACTT * 3704076 TTTTCAAAGTCCACACAAGTTGGTGGCAACTT 1 TTTT-AAAGTCCACACGAGTTGGTGGCAACTT * 3704108 TTTTAAAGTCCACACGAGTTGGTGGCAGCTT 1 TTTTAAAGTCCACACGAGTTGGTGGCAACTT ** * * 3704139 TTTGGAAGTCCACACGAGCTGGTGGCATCTT 1 TTTTAAAGTCCACACGAGTTGGTGGCAACTT * 3704170 TTTCAAAGT 1 TTTTAAAGT 3704179 TGTCGCAAGG Statistics Matches: 125, Mismatches: 32, Indels: 10 0.75 0.19 0.06 Matches are distributed among these distances: 29 17 0.14 30 19 0.15 31 79 0.63 32 10 0.08 ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31 Consensus pattern (31 bp): TTTTAAAGTCCACACGAGTTGGTGGCAACTT Found at i:3704152 original size:92 final size:91 Alignment explanation
Indices: 3703987--3704178 Score: 239 Period size: 92 Copynumber: 2.1 Consensus size: 91 3703977 CCCATACAAG * * 3703987 TTTT-AAAGTCCACACAAGTTGGCAACCTTTTCAAAAGCCCACTCGAGTTAGTGGTAGCCTTTTC 1 TTTTCAAAGTCCACACAAGTTGGCAACCTTTTCAAAAGCCCACACGAGTTAGTGGCAGCCTTTTC * 3704051 AAGGTCCACATGAGCTGGTGGCAT-T 66 AAGGTCCACACGAGCTGGTGGCATCT ** * * * 3704076 TTTTCAAAGTCCACACAAGTTGGTGGCAA-CTTTTTTAAAGTCCACACGAGTTGGTGGCAGCTTT 1 TTTTCAAAGTCCACACAAG-T--TGGCAACCTTTTCAAAAGCCCACACGAGTTAGTGGCAGCCTT * 3704140 TTGGAA-GTCCACACGAGCTGGTGGCATCT 63 TT-CAAGGTCCACACGAGCTGGTGGCATCT 3704169 TTTTCAAAGT 1 TTTTCAAAGT 3704179 TGTCGCAAGG Statistics Matches: 88, Mismatches: 9, Indels: 8 0.84 0.09 0.08 Matches are distributed among these distances: 89 4 0.05 90 14 0.16 91 1 0.01 92 50 0.57 93 19 0.22 ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31 Consensus pattern (91 bp): TTTTCAAAGTCCACACAAGTTGGCAACCTTTTCAAAAGCCCACACGAGTTAGTGGCAGCCTTTTC AAGGTCCACACGAGCTGGTGGCATCT Found at i:3704153 original size:62 final size:61 Alignment explanation
Indices: 3704046--3704178 Score: 167 Period size: 62 Copynumber: 2.2 Consensus size: 61 3704036 AGTGGTAGCC * * * * 3704046 TTTTCAAGGTCCACATGAGCTGGTGGCATTTTTTCAAAGTCCACACAAGTTGGTGGCAACT 1 TTTTCAAAGTCCACACGAGCTGGTGGCACTTTTTCAAAGTCCACACAAGCTGGTGGCAACT * * ** * * 3704107 TTTTTAAAGTCCACACGAGTTGGTGGCAGCTTTTTGGAAGTCCACACGAGCTGGTGGCATCT 1 TTTTCAAAGTCCACACGAGCTGGTGGCA-CTTTTTCAAAGTCCACACAAGCTGGTGGCAACT 3704169 TTTTCAAAGT 1 TTTTCAAAGT 3704179 TGTCGCAAGG Statistics Matches: 60, Mismatches: 11, Indels: 1 0.83 0.15 0.01 Matches are distributed among these distances: 61 24 0.40 62 36 0.60 ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32 Consensus pattern (61 bp): TTTTCAAAGTCCACACGAGCTGGTGGCACTTTTTCAAAGTCCACACAAGCTGGTGGCAACT Found at i:3708551 original size:63 final size:63 Alignment explanation
Indices: 3708431--3708614 Score: 172 Period size: 63 Copynumber: 2.9 Consensus size: 63 3708421 CGTTTGGTTG * * * * ** * * ** 3708431 GGGGGGAGGGAAGGAT-GCTGGGGAGGGACTCGTTGCACATGCCTGGCCCTCTGCATGTTAGGA 1 GGGGGGAGGGACGAATGGCT-GGGAGGGACTCATTGCCCACACGTGGGCCTCCACATGTTAGGA * * * * * * 3708494 GGGGGTAGGGCCGGATGGTTGGGAGGGACTCATTGCCCACACTTGGGCCTCCACATGTTTGGA 1 GGGGGGAGGGACGAATGGCTGGGAGGGACTCATTGCCCACACGTGGGCCTCCACATGTTAGGA * * * * 3708557 GGGGGGAGGGACGAATGGCTGGGTGGGACTCGTTGCGCACGCGTGGGCCTCCACATGT 1 GGGGGGAGGGACGAATGGCTGGGAGGGACTCATTGCCCACACGTGGGCCTCCACATGT 3708615 GCTATCGATG Statistics Matches: 98, Mismatches: 22, Indels: 2 0.80 0.18 0.02 Matches are distributed among these distances: 63 96 0.98 64 2 0.02 ACGTcount: A:0.16, C:0.21, G:0.43, T:0.20 Consensus pattern (63 bp): GGGGGGAGGGACGAATGGCTGGGAGGGACTCATTGCCCACACGTGGGCCTCCACATGTTAGGA Found at i:3717564 original size:63 final size:63 Alignment explanation
Indices: 3717485--3717654 Score: 243 Period size: 63 Copynumber: 2.7 Consensus size: 63 3717475 CGTTTGGTTG * 3717485 GGGGGGAGGGACGGATGCT-GGGAAGAGAGTCGTTGCATACGCTTAACCCTCCGCATGTTTGGA 1 GGGGGGAGGGACGGATGCTAGGG-AGAGAGTCGTTGCACACGCTTAACCCTCCGCATGTTTGGA * * * 3717548 GGGGGGAGGGATGGATGCTAGGGAGAGAGTCGTTGCACATGCTTAGCCCTCCGCATGTTTGGA 1 GGGGGGAGGGACGGATGCTAGGGAGAGAGTCGTTGCACACGCTTAACCCTCCGCATGTTTGGA * * * * * 3717611 GGGGGGAGGGACGGATGGTTGGGAGGGACTCGTTGCCCACGCTT 1 GGGGGGAGGGACGGATGCTAGGGAGAGAGTCGTTGCACACGCTT 3717655 GGGCCTCTGC Statistics Matches: 95, Mismatches: 11, Indels: 2 0.88 0.10 0.02 Matches are distributed among these distances: 63 92 0.97 64 3 0.03 ACGTcount: A:0.18, C:0.18, G:0.43, T:0.21 Consensus pattern (63 bp): GGGGGGAGGGACGGATGCTAGGGAGAGAGTCGTTGCACACGCTTAACCCTCCGCATGTTTGGA Found at i:3718505 original size:24 final size:24 Alignment explanation
Indices: 3718478--3718524 Score: 62 Period size: 24 Copynumber: 2.0 Consensus size: 24 3718468 TCCGCTTTAC 3718478 GAAAGAGGG-GGGACGGAA-CGAAGG 1 GAAAG-GGGAGGGAC-GAATCGAAGG 3718502 GAAAGGGGAGGGACGAATCGAAG 1 GAAAGGGGAGGGACGAATCGAAG 3718525 CGACGAAGGG Statistics Matches: 21, Mismatches: 0, Indels: 4 0.84 0.00 0.16 Matches are distributed among these distances: 23 6 0.29 24 15 0.71 ACGTcount: A:0.38, C:0.09, G:0.51, T:0.02 Consensus pattern (24 bp): GAAAGGGGAGGGACGAATCGAAGG Found at i:3724573 original size:44 final size:44 Alignment explanation
Indices: 3724525--3724684 Score: 135 Period size: 44 Copynumber: 3.6 Consensus size: 44 3724515 GCAGACAAAA * 3724525 GATGAAGGGAAGTCTCCCAGGTTTGAGCTAATAGATAGACGATT 1 GATGAAGGGAAGTCTCCCAGGTCTGAGCTAATAGATAGACGATT * ** * * * * * 3724569 GATGAAAGGAAGTCTCTTATGTCTGAGTTGATGGGTAGACGATT 1 GATGAAGGGAAGTCTCCCAGGTCTGAGCTAATAGATAGACGATT * * * * * 3724613 GATGAAGAGAAGTCTCCCAGGACTGAGCCGACGT-G-TAGACTATT 1 GATGAAGGGAAGTCTCCCAGGTCTGAG-CTA-ATAGATAGACGATT * * * 3724657 GATAAAGGGAAGTCTCCCGGGACTGAGC 1 GATGAAGGGAAGTCTCCCAGGTCTGAGC 3724685 CAATTGGCAA Statistics Matches: 91, Mismatches: 23, Indels: 5 0.76 0.19 0.04 Matches are distributed among these distances: 43 1 0.01 44 88 0.97 45 1 0.01 46 1 0.01 ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24 Consensus pattern (44 bp): GATGAAGGGAAGTCTCCCAGGTCTGAGCTAATAGATAGACGATT Found at i:3724714 original size:44 final size:44 Alignment explanation
Indices: 3724661--3724883 Score: 166 Period size: 44 Copynumber: 5.1 Consensus size: 44 3724651 ACTATTGATA * * * * 3724661 AAGGGAAGTCTCCCGGGACTGAGCCAATTGGCAAATGAAAGATG 1 AAGGAAAGTCTCTCGGGACTGAGCCAATAGGCAGATGAAAGATG * * ** 3724705 AAGGAAAGTCTC-CTAGGACTGAGCCGATAGGCAGACAAAAGATGG 1 AAGGAAAGTCTCTC-GGGACTGAGCCAATAGGCAGATGAAAGAT-G * * * * 3724750 AAAG-AATTTTCTCGGGATTGAGCCAATAGGCAGATGAAAGATG 1 AAGGAAAGTCTCTCGGGACTGAGCCAATAGGCAGATGAAAGATG * * * * * * 3724793 AAGGGAAGTCTCTCGAGTCTGAGCCAATGGGTAGATAAAAGAT- 1 AAGGAAAGTCTCTCGGGACTGAGCCAATAGGCAGATGAAAGATG * * * * * * 3724836 -AGCGAGAAGCCTCTCGGAACTGAGCCAATGGGCAAAAGAATGATG 1 AAG-GA-AAGTCTCTCGGGACTGAGCCAATAGGCAGATGAAAGATG 3724881 AAG 1 AAG 3724884 ATTGGAATAA Statistics Matches: 137, Mismatches: 34, Indels: 14 0.74 0.18 0.08 Matches are distributed among these distances: 42 2 0.01 43 6 0.04 44 122 0.89 45 5 0.04 46 2 0.01 ACGTcount: A:0.36, C:0.16, G:0.30, T:0.17 Consensus pattern (44 bp): AAGGAAAGTCTCTCGGGACTGAGCCAATAGGCAGATGAAAGATG Found at i:3724815 original size:88 final size:88 Alignment explanation
Indices: 3724674--3724883 Score: 224 Period size: 88 Copynumber: 2.4 Consensus size: 88 3724664 GGAAGTCTCC * * * 3724674 CGGGACTGAGCCAATTGGCAAATGAAAGATGAAGGAAAGTCTCCTAGGACTGAGCCGATAGGCAG 1 CGGGACTGAGCCAATAGGCAAATGAAAGATGAAGGAAAGTCTCCGAGGACTGAGCCAATAGGCAG 3724739 ACAAAAGATGGAAAGAATTTTCT 66 ACAAAAGATGGAAAGAATTTTCT * * * * * * 3724762 CGGGATTGAGCCAATAGGCAGATGAAAGATGAAGGGAAGTCTCTCGA-GTCTGAGCCAATGGGTA 1 CGGGACTGAGCCAATAGGCAAATGAAAGATGAAGGAAAGTCTC-CGAGGACTGAGCCAATAGGCA * * ** *** 3724826 GATAAAAGATAGCGAGAAGCCTCT 65 GACAAAAGATGGAAAGAATTTTCT * * * * 3724850 CGGAACTGAGCCAATGGGCAAAAGAATGATGAAG 1 CGGGACTGAGCCAATAGGCAAATGAAAGATGAAG 3724884 ATTGGAATAA Statistics Matches: 99, Mismatches: 22, Indels: 2 0.80 0.18 0.02 Matches are distributed among these distances: 88 97 0.98 89 2 0.02 ACGTcount: A:0.37, C:0.16, G:0.30, T:0.17 Consensus pattern (88 bp): CGGGACTGAGCCAATAGGCAAATGAAAGATGAAGGAAAGTCTCCGAGGACTGAGCCAATAGGCAG ACAAAAGATGGAAAGAATTTTCT Found at i:3725545 original size:78 final size:78 Alignment explanation
Indices: 3725363--3725549 Score: 195 Period size: 78 Copynumber: 2.4 Consensus size: 78 3725353 GAGAAGTCTG * ** * * 3725363 TGGGATGTG-CCCCTTATGGCCATGTGATGCATTAATACCATTTAGTGTTTGGTAAGGAAGAATA 1 TGGGAAGTGCCCCCTT-TGGCCATGTGATGCACCAATACCATATAGTATTTGGTAAGGAAGAATA * 3725427 CGATTAGGAATGTA 65 CGATGAGGAATGTA * * * 3725441 TGGGAAACGT-CCCCC-TTAGTCATGTGATGCACCAATACCATATGGTATTTGG-AGAGGAA-AG 1 TGGG-AA-GTGCCCCCTTTGGCCATGTGATGCACCAATACCATATAGTATTTGGTA-AGGAAGA- * 3725502 ATATGATGAGGAATGTA 62 ATACGATGAGGAATGTA * 3725519 TGGGAAGTGCCCCCTTTGGCCTTGTGATGCA 1 TGGGAAGTGCCCCCTTTGGCCATGTGATGCA 3725550 TTAGTATCAG Statistics Matches: 89, Mismatches: 13, Indels: 14 0.77 0.11 0.12 Matches are distributed among these distances: 76 2 0.02 77 9 0.10 78 70 0.79 79 2 0.02 80 6 0.07 ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29 Consensus pattern (78 bp): TGGGAAGTGCCCCCTTTGGCCATGTGATGCACCAATACCATATAGTATTTGGTAAGGAAGAATAC GATGAGGAATGTA Found at i:3726346 original size:52 final size:52 Alignment explanation
Indices: 3726290--3726391 Score: 116 Period size: 53 Copynumber: 2.0 Consensus size: 52 3726280 TTATTTTTTC * 3726290 TTTTT-TTACCTGAACACCCTTTCAAGTTTTCATCCAAACATTGTCATTCATT 1 TTTTTCTTACATGAACACCCTTTCAAGTTTTCA-CCAAACATTGTCATTCATT ** *** * * 3726342 TTTTTCTTACATGAATGCCCTTTTGGGTTTTCACTAAGCATTGTCATTCA 1 TTTTTCTTACATGAACACCCTTTCAAGTTTTCACCAAACATTGTCATTCA 3726392 AAAAAAAAAA Statistics Matches: 41, Mismatches: 8, Indels: 2 0.80 0.16 0.04 Matches are distributed among these distances: 52 20 0.49 53 21 0.51 ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45 Consensus pattern (52 bp): TTTTTCTTACATGAACACCCTTTCAAGTTTTCACCAAACATTGTCATTCATT Found at i:3726570 original size:19 final size:19 Alignment explanation
Indices: 3726546--3726595 Score: 82 Period size: 19 Copynumber: 2.6 Consensus size: 19 3726536 TATTTACCTT 3726546 GGAGATCTTTTTGTATTGG 1 GGAGATCTTTTTGTATTGG * 3726565 GGAGATCATTTTGTATTGG 1 GGAGATCTTTTTGTATTGG * 3726584 GAAGATCTTTTT 1 GGAGATCTTTTT 3726596 TAGCACTAGG Statistics Matches: 28, Mismatches: 3, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 19 28 1.00 ACGTcount: A:0.20, C:0.06, G:0.28, T:0.46 Consensus pattern (19 bp): GGAGATCTTTTTGTATTGG Found at i:3738481 original size:149 final size:150 Alignment explanation
Indices: 3738275--3738737 Score: 527 Period size: 151 Copynumber: 3.0 Consensus size: 150 3738265 GAAATCTTTT * * * * 3738275 AATACCCATAGGAAAATAAAATATTAAAAA-AATTAATATTTATTTTCGTGAGGAGATTTAATTT 1 AATACCCATAGGAATATAAAAGATTAAAAACGATTAATATTTATTTTAGTGAGGAGATTTAATTT * * * * 3738339 CATTATTTCT-AAAAAAATCATTTCGCACCTTAATGGATACCCGAAAATATATGAAAAGTTTTTG 66 AATTATTTCTAAAAAAAATCATTTCACACCTTAATGGATACCAGAAAAGATATGAAAAGTTTTTG * 3738403 AAATCTTTTATACCTCTACG 131 AAATCTTTTATACCCCTACG * 3738423 AATATCCATAGGAATATAAAAGATTAAAAACGATTAATATTTATTTTAGTGAGGAGATTTAATTT 1 AATACCCATAGGAATATAAAAGATTAAAAACGATTAATATTTATTTTAGTGAGGAGATTTAATTT * * * * 3738488 AATTATTTCTAAAAAAAAATTATTTCATACCTTAATGGCTACTAGAAAAGATATGAAAAGTTTTT 66 AATTATTTCT-AAAAAAAATCATTTCACACCTTAATGGATACCAGAAAAGATATGAAAAGTTTTT 3738553 GAAATCTTTTATACCCCTACG 130 GAAATCTTTTATACCCCTACG * * * ** 3738574 GATACCCATAGGAATATAAAAGATTAAAAACGATCAATATTTGTTTAAATTAACGAGGAGTGAAT 1 AATACCCATAGGAATATAAAAGATTAAAAACGATTAATATTT-ATT---TTAGTGAGGA--G-AT * * ** 3738639 TTAATATTATTTATTTATTTTTGGGAAAAAAATCATTTCGTACCTTAATGGATACTCA-AAAAGA 59 TTAAT-TTA---A-TTATTTCT--AAAAAAAATCATTTCACACCTTAATGGATAC-CAGAAAAGA ** 3738703 TACAAAAAGTTTTTCGAAATCTTTTATACCCCTAC 116 TATGAAAAGTTTTT-GAAATCTTTTATACCCCTAC 3738738 TCTAATTTGA Statistics Matches: 268, Mismatches: 29, Indels: 19 0.85 0.09 0.06 Matches are distributed among these distances: 148 27 0.10 149 41 0.15 151 105 0.39 152 2 0.01 155 8 0.03 157 1 0.00 158 7 0.03 159 3 0.01 162 1 0.00 163 7 0.03 164 45 0.17 165 21 0.08 ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36 Consensus pattern (150 bp): AATACCCATAGGAATATAAAAGATTAAAAACGATTAATATTTATTTTAGTGAGGAGATTTAATTT AATTATTTCTAAAAAAAATCATTTCACACCTTAATGGATACCAGAAAAGATATGAAAAGTTTTTG AAATCTTTTATACCCCTACG Found at i:3742229 original size:20 final size:20 Alignment explanation
Indices: 3742204--3742257 Score: 90 Period size: 20 Copynumber: 2.7 Consensus size: 20 3742194 ATTTGCCTGC 3742204 ATGTATCGATACATTGAATA 1 ATGTATCGATACATTGAATA ** 3742224 ATGTATCGATACATTTTATA 1 ATGTATCGATACATTGAATA 3742244 ATGTATCGATACAT 1 ATGTATCGATACAT 3742258 CTGGGCAAAT Statistics Matches: 32, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 20 32 1.00 ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39 Consensus pattern (20 bp): ATGTATCGATACATTGAATA Found at i:3742315 original size:13 final size:13 Alignment explanation
Indices: 3742297--3742321 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 3742287 CAAAGATCAG 3742297 TGTATCGATACAA 1 TGTATCGATACAA 3742310 TGTATCGATACA 1 TGTATCGATACA 3742322 TTTAAGTGAT 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:0.36, C:0.16, G:0.16, T:0.32 Consensus pattern (13 bp): TGTATCGATACAA Found at i:3742403 original size:13 final size:13 Alignment explanation
Indices: 3742385--3742409 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 3742375 AAAAAAAAAA 3742385 TGTATCGATACAT 1 TGTATCGATACAT 3742398 TGTATCGATACA 1 TGTATCGATACA 3742410 ACACTTTATG Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:3743238 original size:25 final size:26 Alignment explanation
Indices: 3743191--3743239 Score: 73 Period size: 25 Copynumber: 1.9 Consensus size: 26 3743181 CTTACATGTT 3743191 TTTCTACCTATTTTCTCTATTTTTTC 1 TTTCTACCTATTTTCTCTATTTTTTC * * 3743217 TTTCT-CCTTTTTTCTCTCTTTTT 1 TTTCTACCTATTTTCTCTATTTTT 3743240 CAGCTGAGCA Statistics Matches: 21, Mismatches: 2, Indels: 1 0.88 0.08 0.04 Matches are distributed among these distances: 25 16 0.76 26 5 0.24 ACGTcount: A:0.06, C:0.24, G:0.00, T:0.69 Consensus pattern (26 bp): TTTCTACCTATTTTCTCTATTTTTTC Found at i:3743750 original size:18 final size:20 Alignment explanation
Indices: 3743729--3743769 Score: 50 Period size: 19 Copynumber: 2.1 Consensus size: 20 3743719 CAACGTATAT 3743729 AAAA-AATTCAAAATT-TAA 1 AAAATAATTCAAAATTCTAA * * 3743747 AAAATAATTTAAATTTCTAA 1 AAAATAATTCAAAATTCTAA 3743767 AAA 1 AAA 3743770 CTAAATTAAT Statistics Matches: 19, Mismatches: 2, Indels: 2 0.83 0.09 0.09 Matches are distributed among these distances: 18 4 0.21 19 9 0.47 20 6 0.32 ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32 Consensus pattern (20 bp): AAAATAATTCAAAATTCTAA Found at i:3743978 original size:166 final size:163 Alignment explanation
Indices: 3743788--3744181 Score: 397 Period size: 164 Copynumber: 2.4 Consensus size: 163 3743778 ATGGGAGTTC * * ** * ** 3743788 AATAAAAATATTAGATGCATTTTAAAAATTTTATACCGAA-GCAAATGCCCTC-GAAAATATTTA 1 AATAAAAATATTTGATGAATTTTAAAAATTGAAAACC-AATAAAAAT-CCCTCAGAAAA-ATTTA * * * 3743851 CAG-AG-AAGAAAACTCGGTCTCTCGGAAAAAGGAAAATTTCAACAAAAAAATTCAAAA-CTCAT 63 C-GTAGCAA-AAAACACCGTATCTCGGAAAAAGG--AATTTCAACAAAAAAA-TCAAAAGCTCAT * * * 3743913 GAAAATGAACTAATTTTTT-ATAACTGAATTAATA-GAAATCA 123 GAAAAAGAA-TAATTTTTTGAAAACTAAATTAATATGAAAT-A * * 3743954 AATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAATAAAAATCCCTCTAGAAAAATTTACG 1 AATAAAAATATTTGATGAATTTTAAAAATTGAAAACCAATAAAAATCCCTC-AGAAAAATTTACG * ** 3744019 TAGCAAAAAACACCGTATTTCGGAAAAAGGAATTTCAAGGAAAAAATCAAAAGCTCATGAAAAAG 65 TAGCAAAAAACACCGTATCTCGGAAAAAGGAATTTCAACAAAAAAATCAAAAGCTCATGAAAAAG * * 3744084 AATGATTTTTTGAAAATTAAATTAATATGAAATA 130 AATAATTTTTTGAAAACTAAATTAATATGAAATA * * ** * * 3744118 AATAAAAATATTTTATGAATTTTAAAAATTAAAAATTAAGAAAAATCCTCTCAAAAAAATTTAC 1 AATAAAAATATTTGATGAATTTTAAAAATTGAAAACCAATAAAAATCC-CTCAGAAAAATTTAC 3744182 AAAGAAGAAA Statistics Matches: 191, Mismatches: 28, Indels: 20 0.80 0.12 0.08 Matches are distributed among these distances: 163 14 0.07 164 92 0.48 165 16 0.08 166 62 0.32 167 7 0.04 ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28 Consensus pattern (163 bp): AATAAAAATATTTGATGAATTTTAAAAATTGAAAACCAATAAAAATCCCTCAGAAAAATTTACGT AGCAAAAAACACCGTATCTCGGAAAAAGGAATTTCAACAAAAAAATCAAAAGCTCATGAAAAAGA ATAATTTTTTGAAAACTAAATTAATATGAAATA Found at i:3744109 original size:164 final size:165 Alignment explanation
Indices: 3743872--3744181 Score: 405 Period size: 164 Copynumber: 1.9 Consensus size: 165 3743862 ACTCGGTCTC * * 3743872 TCGGAAAAAGGAAAATTTCAACAAAAAAATTCAAAACTCATGAAAATGAACTAATTTTTTATAAC 1 TCGGAAAAAGG-AAATTTCAACAAAAAAATTCAAAACTCATGAAAAAGAACTAATTTTTTAAAAC * * * * * 3743937 TGAATTAATA-GAAATCAAATAATAATGTTTGATGAATTTTAAAAATTGAAAACCAATAAAAATC 65 TAAATTAATATGAAAT-AAATAAAAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC * 3744001 C-CTCTAGAAAAATTTACGTAGCAAAAAACACCGTATT 129 CTCTC-AAAAAAATTTACGTAGCAAAAAACACCGTATT ** * 3744038 TCGGAAAAAGG-AATTTCAAGGAAAAAA-TCAAAAGCTCATGAAAAAGAA-TGATTTTTTGAAAA 1 TCGGAAAAAGGAAATTTCAACAAAAAAATTCAAAA-CTCATGAAAAAGAACTAATTTTTT-AAAA * * ** 3744100 TTAAATTAATATGAAATAAATAAAAATATTTTATGAATTTTAAAAATTAAAAATTAAGAAAAATC 64 CTAAATTAATATGAAATAAATAAAAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC 3744165 CTCTCAAAAAAATTTAC 129 CTCTCAAAAAAATTTAC 3744182 AAAGAAGAAA Statistics Matches: 125, Mismatches: 15, Indels: 10 0.83 0.10 0.07 Matches are distributed among these distances: 163 14 0.11 164 92 0.74 165 8 0.06 166 11 0.09 ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28 Consensus pattern (165 bp): TCGGAAAAAGGAAATTTCAACAAAAAAATTCAAAACTCATGAAAAAGAACTAATTTTTTAAAACT AAATTAATATGAAATAAATAAAAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCT CTCAAAAAAATTTACGTAGCAAAAAACACCGTATT Found at i:3746808 original size:97 final size:97 Alignment explanation
Indices: 3746629--3746818 Score: 233 Period size: 97 Copynumber: 2.0 Consensus size: 97 3746619 CCAACCCCGC * 3746629 TCTTCCGAGGAAATACTCCAACCTCACTTTTAAACTTCTCAAAGTTTAAATCTTATTTTTGCTCA 1 TCTTCCGAGGAAATACTCCAACCTCACTTTTAAACTTCTCAAAGTTTAAATCTTATTTTCGCTCA ** * * 3746694 AATTATCATTGTCAGGGATATTCCAACCCTAT 66 AATTATCATCATCAGGGACACTCCAACCCTAT * * * * 3746726 TCTTTCGAGGAGATACTCCAATCCT-GCTTTTAAAC-TCATCAAGGTTTAAATCTTATTTTCGC- 1 TCTTCCGAGGAAATACTCCAA-CCTCACTTTTAAACTTC-TCAAAGTTTAAATCTTATTTTCGCT * * 3746788 CTAAATTGTCATCATTAGGGACACTCCAACC 64 C-AAATTATCATCATCAGGGACACTCCAACC 3746819 TCATTCCTCC Statistics Matches: 79, Mismatches: 11, Indels: 6 0.82 0.11 0.06 Matches are distributed among these distances: 96 3 0.04 97 73 0.92 98 3 0.04 ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36 Consensus pattern (97 bp): TCTTCCGAGGAAATACTCCAACCTCACTTTTAAACTTCTCAAAGTTTAAATCTTATTTTCGCTCA AATTATCATCATCAGGGACACTCCAACCCTAT Found at i:3750833 original size:19 final size:18 Alignment explanation
Indices: 3750808--3750872 Score: 77 Period size: 19 Copynumber: 3.8 Consensus size: 18 3750798 ATTTCAACGA 3750808 TTTGTATCGATACATAAG 1 TTTGTATCGATACATAAG 3750826 TGTTGTATCGATAC--AA- 1 T-TTGTATCGATACATAAG 3750842 --TGTATCGATACATAAG 1 TTTGTATCGATACATAAG 3750858 TTTTGTATCGATACA 1 -TTTGTATCGATACA 3750873 ATGTATCCCT Statistics Matches: 40, Mismatches: 0, Indels: 13 0.75 0.00 0.25 Matches are distributed among these distances: 13 11 0.28 15 2 0.05 17 2 0.05 18 1 0.03 19 24 0.60 ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38 Consensus pattern (18 bp): TTTGTATCGATACATAAG Found at i:3750846 original size:32 final size:32 Alignment explanation
Indices: 3750810--3750879 Score: 131 Period size: 32 Copynumber: 2.2 Consensus size: 32 3750800 TTCAACGATT 3750810 TGTATCGATACATAAGTGTTGTATCGATACAA 1 TGTATCGATACATAAGTGTTGTATCGATACAA * 3750842 TGTATCGATACATAAGTTTTGTATCGATACAA 1 TGTATCGATACATAAGTGTTGTATCGATACAA 3750874 TGTATC 1 TGTATC 3750880 CCTACGAAGC Statistics Matches: 37, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 32 37 1.00 ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37 Consensus pattern (32 bp): TGTATCGATACATAAGTGTTGTATCGATACAA Found at i:3750847 original size:13 final size:13 Alignment explanation
Indices: 3750829--3750853 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 3750819 ACATAAGTGT 3750829 TGTATCGATACAA 1 TGTATCGATACAA 3750842 TGTATCGATACA 1 TGTATCGATACA 3750854 TAAGTTTTGT 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:0.36, C:0.16, G:0.16, T:0.32 Consensus pattern (13 bp): TGTATCGATACAA Found at i:3750943 original size:13 final size:13 Alignment explanation
Indices: 3750925--3750949 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 3750915 ATTACCCAAA 3750925 TGTATCGATACAT 1 TGTATCGATACAT 3750938 TGTATCGATACA 1 TGTATCGATACA 3750950 CTGATCTTTG Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36 Consensus pattern (13 bp): TGTATCGATACAT Found at i:3751003 original size:52 final size:52 Alignment explanation
Indices: 3750958--3751086 Score: 213 Period size: 52 Copynumber: 2.5 Consensus size: 52 3750948 CACTGATCTT * 3750958 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA 1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA * * * 3751010 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA 1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA * 3751062 TGTATCGATACATGGAGGCAAATTT 1 TGTATCGATACATGCAGGCAAATTT 3751087 TCATATTTTG Statistics Matches: 71, Mismatches: 6, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 52 71 1.00 ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29 Consensus pattern (52 bp): TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA Found at i:3756756 original size:13 final size:13 Alignment explanation
Indices: 3756738--3756762 Score: 50 Period size: 13 Copynumber: 1.9 Consensus size: 13 3756728 CAAAGATCAG 3756738 TGTATCGATACAA 1 TGTATCGATACAA 3756751 TGTATCGATACA 1 TGTATCGATACA 3756763 TTTTTTGGCA 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:0.36, C:0.16, G:0.16, T:0.32 Consensus pattern (13 bp): TGTATCGATACAA Found at i:3756808 original size:19 final size:18 Alignment explanation
Indices: 3756784--3756880 Score: 97 Period size: 19 Copynumber: 5.8 Consensus size: 18 3756774 TAGCTTACAT 3756784 TGTATCGATACAAAACTTA 1 TGTATCGATAC-AAACTTA 3756803 TGTATCGATAC--A--T- 1 TGTATCGATACAAACTTA 3756816 TGTATCGATACAACACTTA 1 TGTATCGATACAA-ACTTA 3756835 TGTATCGATAC--A--T- 1 TGTATCGATACAAACTTA 3756848 TGTATCGATACAACACTTA 1 TGTATCGATACAA-ACTTA 3756867 TGTATCGATACAAA 1 TGTATCGATACAAA 3756881 TCGTTGAAAT Statistics Matches: 66, Mismatches: 0, Indels: 25 0.73 0.00 0.27 Matches are distributed among these distances: 13 22 0.33 14 2 0.03 16 4 0.06 18 3 0.05 19 35 0.53 ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33 Consensus pattern (18 bp): TGTATCGATACAAACTTA Found at i:3756820 original size:32 final size:32 Alignment explanation
Indices: 3756779--3756878 Score: 191 Period size: 32 Copynumber: 3.1 Consensus size: 32 3756769 GGCAGTAGCT * 3756779 TACATTGTATCGATACAAAACTTATGTATCGA 1 TACATTGTATCGATACAACACTTATGTATCGA 3756811 TACATTGTATCGATACAACACTTATGTATCGA 1 TACATTGTATCGATACAACACTTATGTATCGA 3756843 TACATTGTATCGATACAACACTTATGTATCGA 1 TACATTGTATCGATACAACACTTATGTATCGA 3756875 TACA 1 TACA 3756879 AATCGTTGAA Statistics Matches: 67, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 32 67 1.00 ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34 Consensus pattern (32 bp): TACATTGTATCGATACAACACTTATGTATCGA Found at i:3756821 original size:13 final size:13 Alignment explanation
Indices: 3756803--3756859 Score: 60 Period size: 13 Copynumber: 3.9 Consensus size: 13 3756793 ACAAAACTTA 3756803 TGTATCGATACAT 1 TGTATCGATACAT 3756816 TGTATCGATACAACACTT 1 TGTATCGAT---ACA--T 3756834 ATGTATCGATACAT 1 -TGTATCGATACAT 3756848 TGTATCGATACA 1 TGTATCGATACA 3756860 ACACTTATGT Statistics Matches: 38, Mismatches: 0, Indels: 12 0.76 0.00 0.24 Matches are distributed among these distances: 13 21 0.55 14 1 0.03 16 6 0.16 18 1 0.03 19 9 0.24 ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35 Consensus pattern (13 bp): TGTATCGATACAT Found at i:3757777 original size:58 final size:55 Alignment explanation
Indices: 3757669--3757961 Score: 197 Period size: 52 Copynumber: 5.7 Consensus size: 55 3757659 GAAGAAAAAT * ** * * * 3757669 GCCAATGTGCTGAGGCAAGGCCAGCGACATTGGGCTTAGGAATG-TTA-AAGATGAAGGT 1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGACAA-A-GAAGGC * 3757727 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAG-A--C 1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAAGGC * * * 3757779 GCCAATATGCTGATTCAAGGCCAGTGATATTGGACGTAAAGATGAC--A-AAGGC 1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAAGGC * * * 3757831 GCCAATATGCTGATTCAAGGCTAGCGATATTGGAC-T-----T-----A-AAGGT 1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAAGGC * * * 3757874 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATG----AG--GGT 1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGACAAAGAAGGC * 3757924 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA 1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA 3757962 GAGGTGCCAA Statistics Matches: 202, Mismatches: 19, Indels: 37 0.78 0.07 0.14 Matches are distributed among these distances: 43 36 0.18 44 1 0.00 46 1 0.00 49 1 0.00 50 40 0.20 51 2 0.01 52 76 0.38 54 1 0.00 55 2 0.01 56 5 0.02 57 2 0.01 58 35 0.17 ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23 Consensus pattern (55 bp): GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAAGGC Found at i:3758059 original size:92 final size:92 Alignment explanation
Indices: 3757779--3758150 Score: 546 Period size: 92 Copynumber: 4.0 Consensus size: 92 3757769 TGACAAAGAC * * * * * 3757779 GCCAATATGCTGATTCAAGGCCAGTGATATTGGACGTAAAGATGACAAAGGCGCCAATATGCTGA 1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGA * 3757844 TTCAAGGCTAGCGATATTGGACTTAAAGGT 63 TTCAAGGCCAGCGATATTGGACTTAAAGGT * * 3757874 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGCTGATT 1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGAAGGTGCCAATATGCTGATT * 3757939 CAAGGCCAGCGATATTGGACTTAGAGGT 65 CAAGGCCAGCGATATTGGACTTAAAGGT * ** * 3757967 GCCAATTTGCTGATTCAAGGCCAGTTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTC 1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC * 3758032 AAGGCCAACGATATTGGACTTAAAGGT 66 AAGGCCAGCGATATTGGACTTAAAGGT * * 3758059 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCACTATGCTGATTC 1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC * 3758124 AAGGCCAGCGATATTGGGCTTAGAAGG 66 AAGGCCAGCGATATTGGACTTA-AAGG 3758151 GTTGCCACCG Statistics Matches: 253, Mismatches: 22, Indels: 6 0.90 0.08 0.02 Matches are distributed among these distances: 92 133 0.53 93 81 0.32 95 32 0.13 96 7 0.03 ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25 Consensus pattern (92 bp): GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC AAGGCCAGCGATATTGGACTTAAAGGT Found at i:3758140 original size:49 final size:49 Alignment explanation
Indices: 3757713--3758145 Score: 470 Period size: 43 Copynumber: 9.1 Consensus size: 49 3757703 CTTAGGAATG * * 3757713 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC 1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC ** * 3757762 TTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGTGATATTGGAC 1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC * * * 3757814 GTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC 1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC * * * 3757866 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC 1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC * 3757909 TTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC 1 TT-AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC * ** * 3757959 TT----A-G-AGGTGCCAATTTGCTGATTCAAGGCCAGTTACATTGGAC 1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC * * 3758002 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC 1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC * * * 3758051 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC 1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC * * 3758094 TTAAAGATGAAGGTGCCACTATGCTGATTCAAGGCCAGCGATATTGGGC 1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC 3758143 TTA 1 TTA 3758146 GAAGGGTTGC Statistics Matches: 322, Mismatches: 40, Indels: 44 0.79 0.10 0.11 Matches are distributed among these distances: 43 110 0.34 44 1 0.00 45 2 0.01 47 2 0.01 48 3 0.01 49 82 0.25 50 38 0.12 52 84 0.26 ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25 Consensus pattern (49 bp): TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC Found at i:3758230 original size:32 final size:33 Alignment explanation
Indices: 3758145--3758345 Score: 313 Period size: 32 Copynumber: 6.2 Consensus size: 33 3758135 TATTGGGCTT 3758145 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG 1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG * ** 3758178 AGAATGGTTGCCACTAACTTGTGTGGGCTTTAG 1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG 3758211 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G 1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG 3758242 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G 1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG * 3758274 AAAAGGGTTGCCACCGACTTGTGTGGGCTTT-G 1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG * 3758306 AGAAGGGTTGCCACCGACTTATGTGGGCTTTA- 1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG * 3758338 AAAAGGGT 1 AGAAGGGT 3758346 GAAAGATGCC Statistics Matches: 156, Mismatches: 10, Indels: 5 0.91 0.06 0.03 Matches are distributed among these distances: 31 3 0.02 32 121 0.78 33 32 0.21 ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28 Consensus pattern (33 bp): AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG Found at i:3758390 original size:33 final size:33 Alignment explanation
Indices: 3758360--3758667 Score: 277 Period size: 31 Copynumber: 9.2 Consensus size: 33 3758350 GATGCCACAA * * 3758360 AGTTGTGGACTTAAAAGGAACAAGGTGCCACAG 1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG ** * * 3758393 AGTTGTGGGTTTAAAAGGGAAAAATAGTGCCACAG 1 AGTTGTGGACTTAAAA-GGAAAAA-GGTGCCACGG * ** * 3758428 AGTTGTGGGCTTTGAA--AAGAAGGTGCCACGG 1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG * * ** * 3758459 AGTCGCGGACTTTGAA--AAGAAGGTGCCACGG 1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG * * 3758490 AGTCGTGGACTTAAAAGGAACAAGGTGCCACGG 1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG * 3758523 GGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG 1 AGTTGTGGAC-TTAAAA-GGAAAAAG-GTGCCACGG * ** * 3758559 AGTTGTGGGCTTTGAA--AAGAAGGTGCCACGG 1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG * * 3758590 AGTCGTGGACTTAAAAGGAACAAGGTGCCACGG 1 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG 3758623 AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACTGG 1 AGTTGTGGAC-TTAAAA-GGAAAAAG-GTGCCAC-GG 3758660 AGTTGTGG 1 AGTTGTGG 3758668 GCTTTGAAAT Statistics Matches: 230, Mismatches: 32, Indels: 22 0.81 0.11 0.08 Matches are distributed among these distances: 31 70 0.30 32 9 0.04 33 59 0.26 34 18 0.08 35 40 0.17 36 24 0.10 37 10 0.04 ACGTcount: A:0.32, C:0.14, G:0.35, T:0.20 Consensus pattern (33 bp): AGTTGTGGACTTAAAAGGAAAAAGGTGCCACGG Found at i:3758472 original size:31 final size:31 Alignment explanation
Indices: 3758419--3758734 Score: 258 Period size: 31 Copynumber: 9.7 Consensus size: 31 3758409 GGGAAAAATA * * * 3758419 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAG 1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG * 3758450 GTGCCACGGAGTCGCGGACTTTGAAAAGAAG 1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG ** * 3758481 GTGCCACGGAGTCGTGGACTTAAAAGGAACAAG 1 GTGCCACGGAGTCGTGGACTTTGAA--AAGAAG * * 3758514 GTGCCACGGGGTTGTGGACTTT-AAAAGGGAAAAAG 1 GTGCCACGGAGTCGTGGACTTTGAAAA--G---AAG * * 3758549 AGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG 1 -GTGCCACGGAGTCGTGGACTTTGAAAAGAAG ** * 3758581 GTGCCACGGAGTCGTGGACTTAAAAGGAACAAG 1 GTGCCACGGAGTCGTGGACTTTGAA--AAGAAG * 3758614 GTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAG 1 GTGCCACGGAGTCGTGGACTTTGAAAA--G---AAG * * * 3758649 AGTGCCACTGGAGTTGTGGGCTTTGAAATGAAG 1 -GTGCCAC-GGAGTCGTGGACTTTGAAAAGAAG * ** * 3758682 GTGCCACGGAATCACGGACTTTGAAAGGAAG 1 GTGCCACGGAGTCGTGGACTTTGAAAAGAAG * 3758713 GTGCCATGGAGTCGTGGACTTT 1 GTGCCACGGAGTCGTGGACTTT 3758735 AAGAAGGTAT Statistics Matches: 232, Mismatches: 34, Indels: 38 0.76 0.11 0.12 Matches are distributed among these distances: 30 4 0.02 31 106 0.46 32 14 0.06 33 52 0.22 35 7 0.03 36 28 0.12 37 18 0.08 38 3 0.01 ACGTcount: A:0.29, C:0.15, G:0.35, T:0.20 Consensus pattern (31 bp): GTGCCACGGAGTCGTGGACTTTGAAAAGAAG Found at i:3758573 original size:100 final size:100 Alignment explanation
Indices: 3758450--3758741 Score: 437 Period size: 100 Copynumber: 2.9 Consensus size: 100 3758440 TGAAAAGAAG * * * 3758450 GTGCCACGGAGTCGCGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG 1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG * 3758515 TGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGA 66 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA 3758550 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG 1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG 3758615 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA 66 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA * * ** * 3758650 GTGCCACTGGAGTTGTGGGCTTTGAAATGAAGGTGCCACGGAATCACGGACTTTGAAAGG---AA 1 GTGCCAC-GGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAACAA * * 3758712 GGTGCCATGGAGTCGTGGACTTTAAGAAGG 64 GGTGCCACGGAGTTGTGGACTTTAA-AAGG 3758742 TATTTGAAGA Statistics Matches: 178, Mismatches: 11, Indels: 6 0.91 0.06 0.03 Matches are distributed among these distances: 99 25 0.14 100 107 0.60 101 39 0.22 102 7 0.04 ACGTcount: A:0.30, C:0.15, G:0.35, T:0.20 Consensus pattern (100 bp): GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA Found at i:3758585 original size:131 final size:131 Alignment explanation
Indices: 3758364--3758672 Score: 449 Period size: 131 Copynumber: 2.3 Consensus size: 131 3758354 CCACAAAGTT * * * 3758364 GTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGTTTAAAAGGGAAAAATAGTGCCACAGA 1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGCTTTAAAAGGGAAAAAGAGTGCCACAGA ** * 3758429 GTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTTGAA-AAGAAGGTGCCACGGAGT 66 GTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTAAAAGAACAAGGTGCCACGGAGT 3758493 C 131 C * * 3758494 GTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG 1 GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGG-CTTTAAAAGGGAAAAAGAGTGCCACAG * 3758559 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGA 65 AGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTAAAA-GAACAAGGTGCCACGGA * 3758624 GTT 129 GTC * 3758627 GTGGACTTTAAAAGGGAAAAAGAGTGCCACTGGAGTTGTGGGCTTT 1 GTGGAC-TTAAAA-GGAACAAG-GTGCCAC-GGAGTTGT-GGCTTT 3758673 GAAATGAAGG Statistics Matches: 159, Mismatches: 12, Indels: 9 0.88 0.07 0.05 Matches are distributed among these distances: 130 35 0.22 131 68 0.43 133 23 0.14 134 6 0.04 135 7 0.04 136 7 0.04 137 11 0.07 138 2 0.01 ACGTcount: A:0.31, C:0.14, G:0.35, T:0.20 Consensus pattern (131 bp): GTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGCTTTAAAAGGGAAAAAGAGTGCCACAGA GTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTAAAAGAACAAGGTGCCACGGAGT C Found at i:3766568 original size:19 final size:18 Alignment explanation
Indices: 3766540--3766637 Score: 72 Period size: 19 Copynumber: 5.8 Consensus size: 18 3766530 TAGCTTACAT * 3766540 TGTATTGATACAAAACTTA 1 TGTATCGATAC-AAACTTA 3766559 TGTATCGATAC--A--T- 1 TGTATCGATACAAACTTA * 3766572 TGTATCAATACAACACTTA 1 TGTATCGATACAA-ACTTA 3766591 TGTATCGATAC--A--T- 1 TGTATCGATACAAACTTA 3766604 TGTATCGATACAACACTTTA 1 TGTATCGATACAA-AC-TTA 3766624 TGTATCGATACAAA 1 TGTATCGATACAAA 3766638 TCGTTGAAAT Statistics Matches: 63, Mismatches: 3, Indels: 26 0.68 0.03 0.28 Matches are distributed among these distances: 13 21 0.33 14 2 0.03 16 4 0.06 18 1 0.02 19 22 0.35 20 13 0.21 ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35 Consensus pattern (18 bp): TGTATCGATACAAACTTA Found at i:3766576 original size:32 final size:32 Alignment explanation
Indices: 3766535--3766635 Score: 166 Period size: 32 Copynumber: 3.1 Consensus size: 32 3766525 GGCAGTAGCT * * 3766535 TACATTGTATTGATACAAAACTTATGTATCGA 1 TACATTGTATCGATACAACACTTATGTATCGA * 3766567 TACATTGTATCAATACAACACTTATGTATCGA 1 TACATTGTATCGATACAACACTTATGTATCGA 3766599 TACATTGTATCGATACAACACTTTATGTATCGA 1 TACATTGTATCGATACAACAC-TTATGTATCGA 3766632 TACA 1 TACA 3766636 AATCGTTGAA Statistics Matches: 64, Mismatches: 4, Indels: 1 0.93 0.06 0.01 Matches are distributed among these distances: 32 49 0.77 33 15 0.23 ACGTcount: A:0.37, C:0.17, G:0.11, T:0.36 Consensus pattern (32 bp): TACATTGTATCGATACAACACTTATGTATCGA Found at i:3766577 original size:13 final size:13 Alignment explanation
Indices: 3766559--3766615 Score: 51 Period size: 13 Copynumber: 3.9 Consensus size: 13 3766549 ACAAAACTTA 3766559 TGTATCGATACAT 1 TGTATCGATACAT * 3766572 TGTATCAATACAACACTT 1 TGTATCGAT---ACA--T 3766590 ATGTATCGATACAT 1 -TGTATCGATACAT 3766604 TGTATCGATACA 1 TGTATCGATACA 3766616 ACACTTTATG Statistics Matches: 36, Mismatches: 2, Indels: 12 0.72 0.04 0.24 Matches are distributed among these distances: 13 20 0.56 14 1 0.03 16 6 0.17 18 1 0.03 19 8 0.22 ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35 Consensus pattern (13 bp): TGTATCGATACAT Found at i:3768232 original size:20 final size:20 Alignment explanation
Indices: 3768207--3768328 Score: 91 Period size: 20 Copynumber: 5.5 Consensus size: 20 3768197 TTTTAACTAG 3768207 ATGTATCGATACATTGAAAA 1 ATGTATCGATACATTGAAAA 3768227 ATGTATCGATACATCTGGGTAAAAAGACAGA 1 ATGTATCGATACAT-T--G-----A-A-A-A * 3768258 ATGTATCGATACATTGAAGA 1 ATGTATCGATACATTGAAAA * * * 3768278 ATGTATCGATACATTCATAC 1 ATGTATCGATACATTGAAAA * 3768298 ATCTATCGATACATTGAAAA 1 ATGTATCGATACATTGAAAA * 3768318 ATGTTTCGATA 1 ATGTATCGATA 3768329 TATCTGGGTA Statistics Matches: 80, Mismatches: 11, Indels: 22 0.71 0.10 0.19 Matches are distributed among these distances: 20 56 0.70 21 1 0.01 22 1 0.01 23 2 0.03 28 2 0.03 29 1 0.01 30 2 0.03 31 15 0.19 ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30 Consensus pattern (20 bp): ATGTATCGATACATTGAAAA Found at i:3769179 original size:245 final size:245 Alignment explanation
Indices: 3768749--3769234 Score: 963 Period size: 245 Copynumber: 2.0 Consensus size: 245 3768739 AAATAAGCTT 3768749 AATTAATCTGAATCCTATAAATCCAAATCAAAGATGGCCTAATTAATTAAAAAAATGAGTATCTT 1 AATTAATCTGAATCCTATAAATCCAAATCAAAGATGGCCTAATTAATTAAAAAAATGAGTATCTT 3768814 AAAAAAAAAGGCCAGACAAAATTTGGTGTCTACAGCTACCCCTCTTTGGCCGTTGCTGAGTATCA 66 AAAAAAAAAGGCCAGACAAAATTTGGTGTCTACAGCTACCCCTCTTTGGCCGTTGCTGAGTATCA 3768879 GCAACAGGGCAAAGAAAAATAGACACCATTTTGTTCAGGGTAGAGTTAGACAAGTGTTGTGGAAG 131 GCAACAGGGCAAAGAAAAATAGACACCATTTTGTTCAGGGTAGAGTTAGACAAGTGTTGTGGAAG 3768944 GATATGAATCCTTAAGGATTATTGAAAGCATGATCAGTGTTGCGATCCTC 196 GATATGAATCCTTAAGGATTATTGAAAGCATGATCAGTGTTGCGATCCTC 3768994 AATTAATCTGAATCCTATAAATCCAAATCAAAGATGGCCTAATTAATTAAAAAAATGAGTATCTT 1 AATTAATCTGAATCCTATAAATCCAAATCAAAGATGGCCTAATTAATTAAAAAAATGAGTATCTT * 3769059 AAAAAAAAAGGCCAGACAAAATTTGGTGTCTACAGCTGCCCCTCTTTGGCCGTTGCTGAGTATCA 66 AAAAAAAAAGGCCAGACAAAATTTGGTGTCTACAGCTACCCCTCTTTGGCCGTTGCTGAGTATCA 3769124 GCAACAGGGCAAAGAAAAATAGACACCATTTTGTTCAGGGTAGAGTTAGACAAGTGTTGTGGAAG 131 GCAACAGGGCAAAGAAAAATAGACACCATTTTGTTCAGGGTAGAGTTAGACAAGTGTTGTGGAAG 3769189 GATATGAATCCTTAAGGATTATTGAAAGCATGATCAGTGTTGCGAT 196 GATATGAATCCTTAAGGATTATTGAAAGCATGATCAGTGTTGCGAT 3769235 GCGCCGTATG Statistics Matches: 240, Mismatches: 1, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 245 240 1.00 ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27 Consensus pattern (245 bp): AATTAATCTGAATCCTATAAATCCAAATCAAAGATGGCCTAATTAATTAAAAAAATGAGTATCTT AAAAAAAAAGGCCAGACAAAATTTGGTGTCTACAGCTACCCCTCTTTGGCCGTTGCTGAGTATCA GCAACAGGGCAAAGAAAAATAGACACCATTTTGTTCAGGGTAGAGTTAGACAAGTGTTGTGGAAG GATATGAATCCTTAAGGATTATTGAAAGCATGATCAGTGTTGCGATCCTC Found at i:3769589 original size:28 final size:28 Alignment explanation
Indices: 3769470--3770066 Score: 780 Period size: 28 Copynumber: 20.9 Consensus size: 28 3769460 TTTTTTAAAA * 3769470 GGTGCCACTAACTTGTGTGGGCTTTGAAAAG 1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAAG * * * 3769501 AGTTGCCATTGACTCGTGTGGGCTTTGAAAAAA 1 -GGTGCCACTGACT--TGTGGGCTTTG--AAAG * * * 3769534 GTTACCACTGGCTTGTGGGCTTTGAAAAG 1 GGTGCCACTGACTTGTGGGCTTTG-AAAG * * 3769563 AGTGCCACTGACTTGTGGGCTTTAAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG 3769591 GGTGCCACTGACTTGTGGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * * 3769619 GGTGCCACTAACTTGTGGGCTTTAAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * 3769647 GATGCCACTGACTTGTGGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * 3769675 GGTGCCACTGACTTGTAGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * 3769703 GGTGCCACTAACTTGTGGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * * 3769731 GGTGCCACTAACTTGTGGGCTTTAAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * * * * 3769759 GATGCCACTTACTGGTGGGCTTTAAAAAG 1 GGTGCCACTGACTTGTGGGCTTT-GAAAG * 3769788 AGTGCCACTGACTTGTGGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * 3769816 GGTGCCACTGACTTGTGGGCTTTGAAAAA 1 GGTGCCACTGACTTGTGGGCTTTG-AAAG * * 3769845 AGTGCCATTGACTTGTGGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG ** * 3769873 GGTGTTACTAACTTGTGGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * * 3769901 GATGCCACTGACTTATGGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * 3769929 GGTGCCACTGACTTATGGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * 3769957 GGTGCCACTAACTTGTGGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * 3769985 GGTGCCACTAACTTGTGGGCTTTGAAAG 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * * 3770013 GGTGCCACTGATTTGTGGGCTTTGAAAA 1 GGTGCCACTGACTTGTGGGCTTTGAAAG * 3770041 GGTGCCATTGACTTGTGGGCTTTGAA 1 GGTGCCACTGACTTGTGGGCTTTGAA 3770067 GAGATGAGCG Statistics Matches: 505, Mismatches: 56, Indels: 12 0.88 0.10 0.02 Matches are distributed among these distances: 28 386 0.76 29 72 0.14 30 11 0.02 31 1 0.00 32 31 0.06 33 4 0.01 ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30 Consensus pattern (28 bp): GGTGCCACTGACTTGTGGGCTTTGAAAG Found at i:3771165 original size:8 final size:8 Alignment explanation
Indices: 3771149--3771218 Score: 65 Period size: 8 Copynumber: 8.8 Consensus size: 8 3771139 GACCCCTTTC 3771149 TGTTTTTT 1 TGTTTTTT * 3771157 TG-TTATT 1 TGTTTTTT * 3771164 T-TTTCTT 1 TGTTTTTT * 3771171 GGTTTTTT 1 TGTTTTTT 3771179 TGTTTTTT 1 TGTTTTTT 3771187 TGTTTTTTT 1 TG-TTTTTT 3771196 TGTTTTTT 1 TGTTTTTT 3771204 CATGTTTTTT 1 --TGTTTTTT 3771214 T-TTTT 1 TGTTTT 3771219 GGTATAAAGA Statistics Matches: 52, Mismatches: 5, Indels: 11 0.76 0.07 0.16 Matches are distributed among these distances: 7 13 0.25 8 23 0.44 9 8 0.15 10 8 0.15 ACGTcount: A:0.03, C:0.03, G:0.11, T:0.83 Consensus pattern (8 bp): TGTTTTTT Found at i:3771185 original size:9 final size:9 Alignment explanation
Indices: 3771152--3771215 Score: 67 Period size: 10 Copynumber: 6.9 Consensus size: 9 3771142 CCCTTTCTGT * 3771152 TTTTTTGTTA 1 TTTTTT-TTG 3771162 TTTTTTCTTG 1 TTTTTT-TTG * 3771172 GTTTTTTTG 1 TTTTTTTTG 3771181 -TTTTTTTG 1 TTTTTTTTG 3771189 TTTTTTTTG 1 TTTTTTTTG * 3771198 TTTTTTCATG 1 TTTTTT-TTG 3771208 TTTTTTTT 1 TTTTTTTT 3771216 TTTGGTATAA Statistics Matches: 47, Mismatches: 5, Indels: 5 0.82 0.09 0.09 Matches are distributed among these distances: 8 8 0.17 9 18 0.38 10 21 0.45 ACGTcount: A:0.03, C:0.03, G:0.11, T:0.83 Consensus pattern (9 bp): TTTTTTTTG Done.