Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Gbar_A06 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: 115140250 ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32 Warning! 2234201 characters in sequence are not A, C, G, or T File 124 of 345 Found at i:41753888 original size:16 final size:16 Alignment explanation
Indices: 41753867--41753899 Score: 66 Period size: 16 Copynumber: 2.1 Consensus size: 16 41753857 AATTGAGTTG 41753867 AGAAATTTATTTAATT 1 AGAAATTTATTTAATT 41753883 AGAAATTTATTTAATT 1 AGAAATTTATTTAATT 41753899 A 1 A 41753900 AATTAAATAA Statistics Matches: 17, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 17 1.00 ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48 Consensus pattern (16 bp): AGAAATTTATTTAATT Found at i:41757213 original size:40 final size:40 Alignment explanation
Indices: 41757131--41757282 Score: 182 Period size: 40 Copynumber: 3.8 Consensus size: 40 41757121 GAATATGCCC * * * * * * 41757131 CTGGCTTGAAGGCCCTTCGAAACTGAGTTCGGTCATGA-CA 1 CTGGCTTAAAAGCCCTTCGGAACTAAGTCCGGTTAT-ATCA * * 41757171 CTGG-TTCGAAAGTCCTTCGGAACTAAGTCCGGTTATATCA 1 CTGGCTT-AAAAGCCCTTCGGAACTAAGTCCGGTTATATCA * * 41757211 CTGGCTTAAAAGCCCTTCAGAACTAAGTCCGATTATATCA 1 CTGGCTTAAAAGCCCTTCGGAACTAAGTCCGGTTATATCA 41757251 CTGGCTTAAAAGCCCTTCGGAACTAAGTCCGG 1 CTGGCTTAAAAGCCCTTCGGAACTAAGTCCGG 41757283 ATTTTAAATC Statistics Matches: 97, Mismatches: 12, Indels: 6 0.84 0.10 0.05 Matches are distributed among these distances: 39 3 0.03 40 92 0.95 41 2 0.02 ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26 Consensus pattern (40 bp): CTGGCTTAAAAGCCCTTCGGAACTAAGTCCGGTTATATCA Found at i:41760784 original size:29 final size:29 Alignment explanation
Indices: 41760751--41760859 Score: 94 Period size: 30 Copynumber: 3.6 Consensus size: 29 41760741 CAGAAAATGA 41760751 TAAAAATTATAAAAATATTTAAATTTTAT 1 TAAAAATTATAAAAATATTTAAATTTTAT ** * 41760780 TAAAAATTATAAATTTATTTAAAATTATAT 1 TAAAAATTATAAAAATATTT-AAATTTTAT * * * * 41760810 AAAAAAATATAAAAAAATATTAAA-ATTAT 1 TAAAAATTATAAAAATAT-TTAAATTTTAT * 41760839 ATAAAATTTAATATAAAATAT 1 -TAAAAATT-ATA-AAAATAT 41760860 AAATATAAAG Statistics Matches: 61, Mismatches: 14, Indels: 7 0.74 0.17 0.09 Matches are distributed among these distances: 29 21 0.34 30 29 0.48 31 5 0.08 32 6 0.10 ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39 Consensus pattern (29 bp): TAAAAATTATAAAAATATTTAAATTTTAT Found at i:41760798 original size:18 final size:19 Alignment explanation
Indices: 41760760--41760808 Score: 64 Period size: 18 Copynumber: 2.6 Consensus size: 19 41760750 ATAAAAATTA * 41760760 TAAAAATATTTAAATTTTAT 1 TAAAAAT-TATAAATTTTAT 41760780 TAAAAATTATAAA-TTTAT 1 TAAAAATTATAAATTTTAT * 41760798 TTAAAATTATA 1 TAAAAATTATA 41760809 TAAAAAAATA Statistics Matches: 27, Mismatches: 2, Indels: 2 0.87 0.06 0.06 Matches are distributed among these distances: 18 15 0.56 19 5 0.19 20 7 0.26 ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47 Consensus pattern (19 bp): TAAAAATTATAAATTTTAT Found at i:41760845 original size:10 final size:10 Alignment explanation
Indices: 41760744--41760857 Score: 67 Period size: 10 Copynumber: 11.5 Consensus size: 10 41760734 CACGTGGCAG * 41760744 AAAATGATA- 1 AAAATTATAT 41760753 AAAATTATA- 1 AAAATTATAT 41760762 AAAA-TAT-T 1 AAAATTATAT * * 41760770 TAAATTTTATT 1 AAAATTATA-T * 41760781 AAAAAT-TAT 1 AAAATTATAT * * 41760790 AAATTTATTT 1 AAAATTATAT 41760800 AAAATTATAT 1 AAAATTATAT ** 41760810 AAAAAAATAT 1 AAAATTATAT ** 41760820 AAAAAAATATT 1 AAAATTATA-T 41760831 AAAATTATAT 1 AAAATTATAT 41760841 AAAATTTAATAT 1 AAAA-TT-ATAT 41760853 AAAAT 1 AAAAT 41760858 ATAAATATAA Statistics Matches: 83, Mismatches: 14, Indels: 14 0.75 0.13 0.13 Matches are distributed among these distances: 8 6 0.07 9 19 0.23 10 34 0.41 11 16 0.19 12 8 0.10 ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38 Consensus pattern (10 bp): AAAATTATAT Found at i:41760866 original size:13 final size:12 Alignment explanation
Indices: 41760806--41760868 Score: 57 Period size: 10 Copynumber: 5.6 Consensus size: 12 41760796 ATTTAAAATT 41760806 ATATAAAA--AA 1 ATATAAAATTAA 41760816 ATATAAAA--AA 1 ATATAAAATTAA 41760826 ATATTAAAATT-- 1 ATA-TAAAATTAA * 41760837 ATATAAAATTTA 1 ATATAAAATTAA 41760849 ATATAAAATATAA 1 ATATAAAAT-TAA 41760862 ATATAAA 1 ATATAAA 41760869 GAGAAACATA Statistics Matches: 46, Mismatches: 1, Indels: 9 0.82 0.02 0.16 Matches are distributed among these distances: 10 20 0.43 11 8 0.17 12 9 0.20 13 9 0.20 ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32 Consensus pattern (12 bp): ATATAAAATTAA Found at i:41762308 original size:34 final size:34 Alignment explanation
Indices: 41762265--41762340 Score: 125 Period size: 34 Copynumber: 2.2 Consensus size: 34 41762255 GATTTCAGAG * 41762265 TGTGATGAATCAGTTGCTTGGTATGGGTGTCAAA 1 TGTGATGAATCAGTTACTTGGTATGGGTGTCAAA * 41762299 TGTGATGAATTAGTTACTTGGTATGGGTGTCAAA 1 TGTGATGAATCAGTTACTTGGTATGGGTGTCAAA * 41762333 TTTGATGA 1 TGTGATGA 41762341 CGCGATTTTA Statistics Matches: 39, Mismatches: 3, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 34 39 1.00 ACGTcount: A:0.25, C:0.07, G:0.30, T:0.38 Consensus pattern (34 bp): TGTGATGAATCAGTTACTTGGTATGGGTGTCAAA Found at i:41767275 original size:131 final size:133 Alignment explanation
Indices: 41766973--41767441 Score: 369 Period size: 133 Copynumber: 3.5 Consensus size: 133 41766963 TTCCAAAGAA * * * * * * ** * 41766973 ATATCCGATTGTTTTGAACAAACGAGAGATTGCAA-CCAAGTACGACAGGGCACGATT-CTCGAA 1 ATATTCGATTATTTTGAGCAAACGAGAAATTACAACCCAA-CACGTTAGGGCACGATTCCGCGAA * * * * * * ** * ** 41767036 TTGCCAAACATCGAACATAGCCTTTGTTTTAAAGGGTTTTCTTAAGAA-ACATGAGTGAAA-ACC 65 TGGCCAAACATCAAACTTTGCCTTCGCTTTAAAGAATTTT-TTAA-AAGACATGAATGAAAGTTC * * 41767099 TAAAGGA 128 -GAAGGG * * * * * * * * * 41767106 ATATTCGATCATTTTGAACAAACAAGAAATCACAACCCAGCACGATAGGGCATGATTTC-TGAAT 1 ATATTCGATTATTTTGAGCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCCGCGAAT * * * * * * * * * 41767170 TGTCAAACATC-GAGTATTGCCTTCGCTTTAGAGGA-TTTTTAGAAGACCTGAATGGAA-TCTCG 66 GGCCAAACATCAAACT-TTGCCTTCGCTTTAAAGAATTTTTTAAAAGACATGAATGAAAGT-TCG 41767232 AAGGG 129 AAGGG * 41767237 ATATTTGATTATTTTGAGCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCCGCGAAT 1 ATATTCGATTATTTTGAGCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCCGCGAAT * * * * * 41767302 GGCCAAATATCAAACTTTGCCTTCGTTTTAAAGAATTTTTTAAAAGGCATGAGTGAAAGTTTGAA 66 GGCCAAACATCAAACTTTGCCTTCGCTTTAAAGAATTTTTTAAAAGACATGAATGAAAGTTCGAA 41767367 GGG 131 GGG * * * * 41767370 ATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCCGCGAAT 1 ATATTCGATTATTTTGAGCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCCGCGAAT * 41767435 TGCCAAA 66 GGCCAAA 41767442 TATCGAATCT Statistics Matches: 268, Mismatches: 59, Indels: 18 0.78 0.17 0.05 Matches are distributed among these distances: 130 2 0.01 131 66 0.25 132 33 0.12 133 162 0.60 134 5 0.02 ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27 Consensus pattern (133 bp): ATATTCGATTATTTTGAGCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCCGCGAAT GGCCAAACATCAAACTTTGCCTTCGCTTTAAAGAATTTTTTAAAAGACATGAATGAAAGTTCGAA GGG Found at i:41767389 original size:133 final size:133 Alignment explanation
Indices: 41767231--41767474 Score: 382 Period size: 133 Copynumber: 1.8 Consensus size: 133 41767221 ATGGAATCTC * * 41767231 GAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCC 1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCC * 41767296 GCGAATGGCCAAATATCAAA-CTTTGCCTTCGTTTTAAAGAATTTTTTAAAAGGCATGAGTGAAA 66 GCGAATGGCCAAATATCAAATC-TCGCCTTCGTTTTAAAGAATTTTTTAAAAGGCATGAGTGAAA 41767360 GTTT 130 GTTT * * * 41767364 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCC 1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCC * * * * 41767429 GCGAATTGCCAAATATCGAATCTCGTCTTCTTTTTAAAGAATTTTT 66 GCGAATGGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTT 41767475 AAATGAATAC Statistics Matches: 100, Mismatches: 10, Indels: 2 0.89 0.09 0.02 Matches are distributed among these distances: 133 99 0.99 134 1 0.01 ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30 Consensus pattern (133 bp): GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTACAACCCAACACGTTAGGGCACGATTCC GCGAATGGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTTAAAAGGCATGAGTGAAAG TTT Found at i:41771067 original size:20 final size:19 Alignment explanation
Indices: 41771030--41771081 Score: 52 Period size: 20 Copynumber: 2.6 Consensus size: 19 41771020 TTCTATACTT * 41771030 TTATATTTTATAACAATTT- 1 TTATATTTT-TAAAAATTTA 41771049 TATATATTTTTAATAAATTTA 1 T-TATATTTTTAA-AAATTTA 41771070 TTATAATTTTTA 1 TTAT-ATTTTTA 41771082 TATTAAAATA Statistics Matches: 28, Mismatches: 1, Indels: 6 0.80 0.03 0.17 Matches are distributed among these distances: 19 4 0.14 20 16 0.57 21 8 0.29 ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60 Consensus pattern (19 bp): TTATATTTTTAAAAATTTA Found at i:41771150 original size:46 final size:46 Alignment explanation
Indices: 41771028--41771169 Score: 125 Period size: 46 Copynumber: 3.1 Consensus size: 46 41771018 TATTCTATAC * * 41771028 TTTTATATTTTATAACAATTTTATATATTTTTAAT-AAATTTATTATAAT 1 TTTTATATTTTAT-A-AATTTTATATATTTTT-ATCTAATTT-TTATATT * * * 41771077 TTTTATA--TTAAAATATTTTAAATATTTTTCTCTAATTTTTATATT 1 TTTTATATTTTATAA-ATTTTATATATTTTTATCTAATTTTTATATT * 41771122 TGTTTATATTTTATAAATTTTATA-ATTTTTTTCT--TTTTTATCATT 1 T-TTTATATTTTATAAATTTTATATATTTTTATCTAATTTTTAT-ATT 41771167 TTT 1 TTT 41771170 CCATTATGTG Statistics Matches: 79, Mismatches: 8, Indels: 17 0.76 0.08 0.16 Matches are distributed among these distances: 44 9 0.11 45 13 0.16 46 35 0.44 47 10 0.13 48 5 0.06 49 7 0.09 ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64 Consensus pattern (46 bp): TTTTATATTTTATAAATTTTATATATTTTTATCTAATTTTTATATT Found at i:41771169 original size:27 final size:26 Alignment explanation
Indices: 41771109--41771169 Score: 68 Period size: 27 Copynumber: 2.3 Consensus size: 26 41771099 TATTTTTCTC 41771109 TAATTTTTATATTTGTTTATATTTTA 1 TAATTTTTATATTTGTTTATATTTTA * * * * 41771135 TAAATTTTATAATTTTTTTCTTTTTTA 1 TAATTTTTAT-ATTTGTTTATATTTTA * 41771162 TCATTTTT 1 TAATTTTT 41771170 CCATTATGTG Statistics Matches: 28, Mismatches: 6, Indels: 1 0.80 0.17 0.03 Matches are distributed among these distances: 26 9 0.32 27 19 0.68 ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70 Consensus pattern (26 bp): TAATTTTTATATTTGTTTATATTTTA Found at i:41771528 original size:23 final size:24 Alignment explanation
Indices: 41771493--41771544 Score: 63 Period size: 23 Copynumber: 2.2 Consensus size: 24 41771483 TTAAATTCAA ** 41771493 ATTT-AATATATAATTTAAATATT 1 ATTTAAATATATAAGGTAAATATT * 41771516 ATTTAAATA-ATAAGGTAATTATT 1 ATTTAAATATATAAGGTAAATATT 41771539 ATTTAA 1 ATTTAA 41771545 CTTTATTATG Statistics Matches: 25, Mismatches: 3, Indels: 2 0.83 0.10 0.07 Matches are distributed among these distances: 23 21 0.84 24 4 0.16 ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48 Consensus pattern (24 bp): ATTTAAATATATAAGGTAAATATT Found at i:41772767 original size:9 final size:9 Alignment explanation
Indices: 41772755--41772792 Score: 51 Period size: 9 Copynumber: 4.3 Consensus size: 9 41772745 TATATATAAG 41772755 ATATTTAAA 1 ATATTTAAA 41772764 ATATTTAAA 1 ATATTTAAA * * 41772773 ATATTGATA 1 ATATTTAAA 41772782 A-ATTTAAA 1 ATATTTAAA 41772790 ATA 1 ATA 41772793 ATACACGAAA Statistics Matches: 24, Mismatches: 4, Indels: 2 0.80 0.13 0.07 Matches are distributed among these distances: 8 6 0.25 9 18 0.75 ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42 Consensus pattern (9 bp): ATATTTAAA Found at i:41773773 original size:20 final size:20 Alignment explanation
Indices: 41773711--41773784 Score: 62 Period size: 20 Copynumber: 3.7 Consensus size: 20 41773701 TTATAGTTTT * 41773711 AAAAATTAT-TAAATTT-TA 1 AAAAATTATAAAAATTTGTA * * * 41773729 ATAAAAATATTAAAAATTAGAA 1 A-AAAATTA-TAAAAATTTGTA 41773751 AAAAATTATAAAAATTTGTA 1 AAAAATTATAAAAATTTGTA ** 41773771 AAATTTTATAAAAA 1 AAAAATTATAAAAA 41773785 ATCATAATAA Statistics Matches: 43, Mismatches: 9, Indels: 6 0.74 0.16 0.10 Matches are distributed among these distances: 18 1 0.02 19 6 0.14 20 23 0.53 21 11 0.26 22 2 0.05 ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35 Consensus pattern (20 bp): AAAAATTATAAAAATTTGTA Found at i:41781821 original size:35 final size:35 Alignment explanation
Indices: 41781770--41781846 Score: 109 Period size: 35 Copynumber: 2.2 Consensus size: 35 41781760 CAATATTATG ** 41781770 ATGAATTGACGAATATTAAGTCTTGGTTAAACCTT 1 ATGAATTGACGAATATTAAGTCCCGGTTAAACCTT * * 41781805 ATGAATTGACGGATATTAAGTCCCGGTTGAACCTT 1 ATGAATTGACGAATATTAAGTCCCGGTTAAACCTT * 41781840 AGGAATT 1 ATGAATT 41781847 CTTATGATAC Statistics Matches: 37, Mismatches: 5, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 35 37 1.00 ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34 Consensus pattern (35 bp): ATGAATTGACGAATATTAAGTCCCGGTTAAACCTT Found at i:41785444 original size:21 final size:21 Alignment explanation
Indices: 41785419--41785462 Score: 70 Period size: 21 Copynumber: 2.1 Consensus size: 21 41785409 TTTACCTCTC 41785419 TTCGTCTTTAAACTTATACTT 1 TTCGTCTTTAAACTTATACTT * * 41785440 TTCGTCTTTAAATTTGTACTT 1 TTCGTCTTTAAACTTATACTT 41785461 TT 1 TT 41785463 AGTTAAATTG 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:0.16, G:0.07, T:0.57 Consensus pattern (21 bp): TTCGTCTTTAAACTTATACTT Found at i:41787489 original size:136 final size:129 Alignment explanation
Indices: 41787230--41787566 Score: 417 Period size: 136 Copynumber: 2.5 Consensus size: 129 41787220 GCAAGAGCTT * * * 41787230 AAGCTAGCAGAGAAGAAGTATGAGAGAGTCTAGAG-AGAGTTACTCGGGTATTTATACCTAGCCT 1 AAGCTAGCAGAGAAGAAGTA-GAGAGAG---AGAGTTG-G-TACTTGGATATTTATACCTAGCCT * * * 41787294 TGGGGGCATCAATGCTCCAGAGTGCTATCTGATGCTTAAGTTAGCAAAGGAGATTGTGTAATGGA 60 T-GGGGCATCAATGCTCCAGAATGCTATCTGATGCTTAAGTTAGAAAAGGAGATAGTGTAATGGA 41787359 TAAAAAAAGAGC 124 T-----AA-AGC * 41787371 TTAAGCTAGCAGAGAAGAAGT-GTGAGAGAGAGTTGGTACTTGGATATTTATACCTAGCCTTGGG 1 --AAGCTAGCAGAGAAGAAGTAGAGAGAGAGAGTTGGTACTTGGATATTTATACCTAGCCTTGGG * * * 41787435 GCATCAATGCTCCAGAATGCTCTTTGATGCTTAAGTTAGAAAAGGAGATAGTGTAATGGGTAAAG 64 GCATCAATGCTCCAGAATGCTATCTGATGCTTAAGTTAGAAAAGGAGATAGTGTAATGGATAAAG 41787500 C 129 C * 41787501 AAGCTAGCAGAGAAGAAGTAAGAGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGCCTTGGGG 1 AAGCTAGCAGAGAAGAAGT-AGAGAGAGAGAGTTGGTACTTGGATATTTATACCTAGCCTTGGGG 41787566 C 65 C 41787567 TGCCTGTTGC Statistics Matches: 179, Mismatches: 12, Indels: 19 0.85 0.06 0.09 Matches are distributed among these distances: 128 19 0.11 130 46 0.26 131 2 0.01 136 58 0.32 137 23 0.13 138 5 0.03 139 1 0.01 141 6 0.03 143 19 0.11 ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25 Consensus pattern (129 bp): AAGCTAGCAGAGAAGAAGTAGAGAGAGAGAGTTGGTACTTGGATATTTATACCTAGCCTTGGGGC ATCAATGCTCCAGAATGCTATCTGATGCTTAAGTTAGAAAAGGAGATAGTGTAATGGATAAAGC Found at i:41790647 original size:20 final size:22 Alignment explanation
Indices: 41790608--41790649 Score: 61 Period size: 20 Copynumber: 2.0 Consensus size: 22 41790598 ACGAAGTAGG 41790608 AAAGTGATTATGAATATTAAAT 1 AAAGTGATTATGAATATTAAAT * 41790630 AAAGT-ATT-TGATTATTAAAT 1 AAAGTGATTATGAATATTAAAT 41790650 TTTCTATCCC Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 20 11 0.58 21 3 0.16 22 5 0.26 ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40 Consensus pattern (22 bp): AAAGTGATTATGAATATTAAAT Found at i:41791493 original size:2 final size:2 Alignment explanation
Indices: 41791488--41791514 Score: 54 Period size: 2 Copynumber: 13.5 Consensus size: 2 41791478 CAAGTAAAAC 41791488 AT AT AT AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT A 41791515 ATTTTTTATT Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 25 1.00 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): AT Found at i:41795052 original size:42 final size:42 Alignment explanation
Indices: 41794954--41795108 Score: 145 Period size: 42 Copynumber: 3.6 Consensus size: 42 41794944 TACCAACGTA * * * * 41794954 CCAGACGTGGTCTTACATGT-AATCAAATATTGATGCCACTGTC 1 CCAGACATGGTCTTACACGTAAATC-AA-ATCGATGCCAATGTC *** 41794997 CCAGACA-GAGTCTTACACG-AAATCAAATACGATGTTGATGTC 1 CCAGACATG-GTCTTACACGTAAATCAAAT-CGATGCCAATGTC * * 41795039 CCAAACATGGTCTTACACGTAAATCTCAAATCGATGCCAACGTC 1 CCAGACATGGTCTTACACGTAAA--TCAAATCGATGCCAATGTC * 41795083 CTAGACATGGTCTTACACGTAAATCA 1 CCAGACATGGTCTTACACGTAAATCA 41795109 CATATAGGAA Statistics Matches: 91, Mismatches: 14, Indels: 15 0.76 0.12 0.12 Matches are distributed among these distances: 41 2 0.02 42 30 0.33 43 23 0.25 44 30 0.33 45 6 0.07 ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26 Consensus pattern (42 bp): CCAGACATGGTCTTACACGTAAATCAAATCGATGCCAATGTC Found at i:41798626 original size:21 final size:21 Alignment explanation
Indices: 41798600--41798639 Score: 80 Period size: 21 Copynumber: 1.9 Consensus size: 21 41798590 CACGTAAAAA 41798600 GAAATTTCTCTAAATCCTGAT 1 GAAATTTCTCTAAATCCTGAT 41798621 GAAATTTCTCTAAATCCTG 1 GAAATTTCTCTAAATCCTG 41798640 TGGTTCCGAG Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 21 19 1.00 ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38 Consensus pattern (21 bp): GAAATTTCTCTAAATCCTGAT Found at i:41804193 original size:43 final size:43 Alignment explanation
Indices: 41804074--41804185 Score: 122 Period size: 42 Copynumber: 2.6 Consensus size: 43 41804064 TCGATTTGAT * * 41804074 AATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTG 1 AATTACGTGTAAGACCACGTCTGGGACATAGGCATCGTATCTG ** * * 41804117 -ATTTTGTGTAAGACC-CTATCTGGGACAAAGGCATCG-ATACTG 1 AATTACGTGTAAGACCAC-GTCTGGGACATAGGCATCGTAT-CTG * 41804159 AATTACATGTAAGACCACGTCTGGGAC 1 AATTACGTGTAAGACCACGTCTGGGAC 41804186 GTCGGCATTT Statistics Matches: 55, Mismatches: 10, Indels: 8 0.75 0.14 0.11 Matches are distributed among these distances: 41 2 0.04 42 32 0.58 43 20 0.36 44 1 0.02 ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28 Consensus pattern (43 bp): AATTACGTGTAAGACCACGTCTGGGACATAGGCATCGTATCTG Found at i:41804488 original size:26 final size:26 Alignment explanation
Indices: 41804459--41804511 Score: 106 Period size: 26 Copynumber: 2.0 Consensus size: 26 41804449 GTACTTTATA 41804459 TGATTTAGTAGTTAGAGAAATTGTAT 1 TGATTTAGTAGTTAGAGAAATTGTAT 41804485 TGATTTAGTAGTTAGAGAAATTGTAT 1 TGATTTAGTAGTTAGAGAAATTGTAT 41804511 T 1 T 41804512 TGGCTTACTA Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 26 27 1.00 ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43 Consensus pattern (26 bp): TGATTTAGTAGTTAGAGAAATTGTAT Found at i:41814971 original size:19 final size:19 Alignment explanation
Indices: 41814935--41814971 Score: 56 Period size: 19 Copynumber: 1.9 Consensus size: 19 41814925 AGTAGTGTGT * * 41814935 TTAATTAGGTGAATTTAGC 1 TTAATTAGGAGAAATTAGC 41814954 TTAATTAGGAGAAATTAG 1 TTAATTAGGAGAAATTAG 41814972 GAAAAATGAC Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 19 16 1.00 ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38 Consensus pattern (19 bp): TTAATTAGGAGAAATTAGC Found at i:41816204 original size:3 final size:3 Alignment explanation
Indices: 41816196--41816243 Score: 96 Period size: 3 Copynumber: 16.0 Consensus size: 3 41816186 AATGAGAATT 41816196 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA 1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA 41816244 AAGAGCTAGA Statistics Matches: 45, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 45 1.00 ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33 Consensus pattern (3 bp): TAA Found at i:41816393 original size:10 final size:10 Alignment explanation
Indices: 41816378--41816412 Score: 70 Period size: 10 Copynumber: 3.5 Consensus size: 10 41816368 TCAGAAAATG 41816378 AATAATAATA 1 AATAATAATA 41816388 AATAATAATA 1 AATAATAATA 41816398 AATAATAATA 1 AATAATAATA 41816408 AATAA 1 AATAA 41816413 ATAAAATTAA Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 10 25 1.00 ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29 Consensus pattern (10 bp): AATAATAATA Found at i:41816423 original size:14 final size:14 Alignment explanation
Indices: 41816373--41816417 Score: 58 Period size: 14 Copynumber: 3.2 Consensus size: 14 41816363 GAAGATCAGA 41816373 AAATGAATAAT-AAT 1 AAAT-AATAATAAAT 41816387 AAATAATAATAAAT 1 AAATAATAATAAAT 41816401 -AATAATAAATAAAT 1 AAATAAT-AATAAAT 41816415 AAA 1 AAA 41816418 ATTAAAATAG Statistics Matches: 28, Mismatches: 0, Indels: 5 0.85 0.00 0.15 Matches are distributed among these distances: 13 12 0.43 14 14 0.50 15 2 0.07 ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27 Consensus pattern (14 bp): AAATAATAATAAAT Found at i:41816771 original size:14 final size:14 Alignment explanation
Indices: 41816752--41816778 Score: 54 Period size: 14 Copynumber: 1.9 Consensus size: 14 41816742 AGAGCCTAGA 41816752 AAAAAAATAAAAAT 1 AAAAAAATAAAAAT 41816766 AAAAAAATAAAAA 1 AAAAAAATAAAAA 41816779 AAATATATAT Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 14 13 1.00 ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11 Consensus pattern (14 bp): AAAAAAATAAAAAT Found at i:41817654 original size:19 final size:19 Alignment explanation
Indices: 41817618--41817654 Score: 56 Period size: 19 Copynumber: 1.9 Consensus size: 19 41817608 TAATTAGGAT * * 41817618 TTAATTAGGTGAATTTAGC 1 TTAATTAGGAGAAATTAGC 41817637 TTAATTAGGAGAAATTAG 1 TTAATTAGGAGAAATTAG 41817655 GAAAAAGAAC Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 19 16 1.00 ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38 Consensus pattern (19 bp): TTAATTAGGAGAAATTAGC Found at i:41818274 original size:7 final size:7 Alignment explanation
Indices: 41818264--41818303 Score: 53 Period size: 7 Copynumber: 5.4 Consensus size: 7 41818254 TATTATGTTT 41818264 TATTATA 1 TATTATA 41818271 TATTATA 1 TATTATA 41818278 TATTATA 1 TATTATA * 41818285 TTCTTATTA 1 -TATTA-TA 41818294 TATTATA 1 TATTATA 41818301 TAT 1 TAT 41818304 ATAAAGTAAA Statistics Matches: 29, Mismatches: 2, Indels: 4 0.83 0.06 0.11 Matches are distributed among these distances: 7 19 0.66 8 8 0.28 9 2 0.07 ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60 Consensus pattern (7 bp): TATTATA Found at i:41818293 original size:25 final size:26 Alignment explanation
Indices: 41818222--41818306 Score: 77 Period size: 27 Copynumber: 3.3 Consensus size: 26 41818212 TTTAAGTTTA * * * 41818222 ATATATATTATATTATTA-AATAATAAA 1 ATATATATTATATT-TTATTAT-ATTAT * * 41818249 ATATTTATTATGTTTTATTATA-TAT 1 ATATATATTATATTTTATTATATTAT 41818274 -TATATATTATATTCTTATTATATTAT 1 ATATATATTATATT-TTATTATATTAT 41818300 ATATATA 1 ATATATA 41818307 AAGTAAAGTA Statistics Matches: 47, Mismatches: 7, Indels: 8 0.76 0.11 0.13 Matches are distributed among these distances: 24 11 0.23 25 9 0.19 26 7 0.15 27 20 0.43 ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55 Consensus pattern (26 bp): ATATATATTATATTTTATTATATTAT Found at i:41819195 original size:70 final size:75 Alignment explanation
Indices: 41819116--41819282 Score: 191 Period size: 78 Copynumber: 2.2 Consensus size: 75 41819106 AATTGGAAAT ** * 41819116 TAAAAGTGATTTGAATT-AAGTAATTGAATT-AT-G-AATTATGTGAATATTTGAAA-GTATATT 1 TAAAAGTGATTTGAATTAAACAAATTGAATTAATAGAAAATATGTGAATATTTGAAATGTATATT * 41819176 GACTGAAAAC 66 GACTGAAAAA * 41819186 TAAAAGTGATTTGAATTGAAACAAATTGAATTGAATGAAGAAAATATGTGAGTATTTGAAATGTA 1 TAAAAGTGATTTGAATT-AAACAAATTGAATT-AAT--AGAAAATATGTGAATATTTGAAATGTA * 41819251 TATTGATTGAAAAA 62 TATTGACTGAAAAA * 41819265 TAATTAGTGATTTGAATT 1 TAA-AAGTGATTTGAATT 41819283 TGATTGGAAA Statistics Matches: 80, Mismatches: 7, Indels: 10 0.82 0.07 0.10 Matches are distributed among these distances: 70 17 0.21 72 11 0.14 74 2 0.03 77 1 0.01 78 18 0.22 79 18 0.22 80 13 0.16 ACGTcount: A:0.44, C:0.02, G:0.18, T:0.37 Consensus pattern (75 bp): TAAAAGTGATTTGAATTAAACAAATTGAATTAATAGAAAATATGTGAATATTTGAAATGTATATT GACTGAAAAA Found at i:41819314 original size:29 final size:28 Alignment explanation
Indices: 41819252--41819338 Score: 74 Period size: 29 Copynumber: 3.1 Consensus size: 28 41819242 TGAAATGTAT ** 41819252 ATTGATTGAAAAAT-AATTAGTGATT-TGA 1 ATTGATTG-AAAATGAATTA-AAATTATGA 41819280 ATTTGATTGGAAAATGAATTAAAATTATGA 1 A-TTGATT-GAAAATGAATTAAAATTATGA * 41819310 ATTGAAT-AAAAGTGAATT-AAATTATGA 1 ATTGATTGAAAA-TGAATTAAAATTATGA 41819337 AT 1 AT 41819339 ATGTGTGAAT Statistics Matches: 51, Mismatches: 3, Indels: 11 0.78 0.05 0.17 Matches are distributed among these distances: 27 15 0.29 28 7 0.14 29 19 0.37 30 10 0.20 ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37 Consensus pattern (28 bp): ATTGATTGAAAATGAATTAAAATTATGA Found at i:41821843 original size:5 final size:5 Alignment explanation
Indices: 41821833--41821867 Score: 52 Period size: 5 Copynumber: 6.6 Consensus size: 5 41821823 TTGTATGTTC 41821833 TTTAT TTTAT TTTAT TTTATTT TTTAT TTTAT TTT 1 TTTAT TTTAT TTTAT TTTA--T TTTAT TTTAT TTT 41821868 TCACAAATTG Statistics Matches: 28, Mismatches: 0, Indels: 4 0.88 0.00 0.12 Matches are distributed among these distances: 5 23 0.82 7 5 0.18 ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83 Consensus pattern (5 bp): TTTAT Found at i:41829191 original size:61 final size:57 Alignment explanation
Indices: 41829066--41829208 Score: 171 Period size: 61 Copynumber: 2.4 Consensus size: 57 41829056 TTTAATTCAT * * * 41829066 ATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTTTAAAATTGTATTTA 1 ATAATAATTATATTAA-AATATAATTAAATTATATATTATTTTTTAAAATTATATTTA * 41829124 ATAATAATTATGTTAAAATATAATTAAATTATTTATTATTATTTTTAATAAAA-TATATTTA 1 ATAATAATTATATTAAAATATAATTAAATTA--TA-TATTATTTTT--TAAAATTATATTTA * * 41829185 ATAATAATTTTATTAAAATTTAAT 1 ATAATAATTATATTAAAATATAAT 41829209 AATAATAACA Statistics Matches: 73, Mismatches: 7, Indels: 7 0.84 0.08 0.08 Matches are distributed among these distances: 57 13 0.18 58 15 0.21 59 2 0.03 60 10 0.14 61 28 0.38 62 5 0.07 ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51 Consensus pattern (57 bp): ATAATAATTATATTAAAATATAATTAAATTATATATTATTTTTTAAAATTATATTTA Found at i:41829195 original size:26 final size:25 Alignment explanation
Indices: 41829144--41829204 Score: 68 Period size: 26 Copynumber: 2.4 Consensus size: 25 41829134 TGTTAAAATA * * * * 41829144 TAATTAAATTATTTATTATTATTTT 1 TAATAAAATTATTTAATAATAATTT 41829169 TAATAAAATATATTTAATAATAATTT 1 TAATAAAAT-TATTTAATAATAATTT * 41829195 TATTAAAATT 1 TAATAAAATT 41829205 TAATAATAAT Statistics Matches: 30, Mismatches: 5, Indels: 2 0.81 0.14 0.05 Matches are distributed among these distances: 25 9 0.30 26 21 0.70 ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54 Consensus pattern (25 bp): TAATAAAATTATTTAATAATAATTT Found at i:41829400 original size:23 final size:24 Alignment explanation
Indices: 41829374--41829429 Score: 62 Period size: 23 Copynumber: 2.4 Consensus size: 24 41829364 AACTGATTAC 41829374 AACT-TTACTTCATCACAATTCTA 1 AACTATTACTTCATCACAATTCTA ** * 41829397 AACTATTAC-TCATTGCCATTCTA 1 AACTATTACTTCATCACAATTCTA * 41829420 AACTGTTACT 1 AACTATTACT 41829430 GCTCTATTCA Statistics Matches: 27, Mismatches: 4, Indels: 3 0.79 0.12 0.09 Matches are distributed among these distances: 23 23 0.85 24 4 0.15 ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39 Consensus pattern (24 bp): AACTATTACTTCATCACAATTCTA Found at i:41832767 original size:27 final size:26 Alignment explanation
Indices: 41832714--41832771 Score: 71 Period size: 26 Copynumber: 2.2 Consensus size: 26 41832704 GAACAGAATT * * * * 41832714 GAATTGAATAGACTAAAAATTACACC 1 GAATTAAACAGACTAAAAATAAAACC 41832740 GAATTAAACAGACTAAAAATAAAAACC 1 GAATTAAACAGACTAAAAAT-AAAACC 41832767 GAATT 1 GAATT 41832772 GATAGTTTGA Statistics Matches: 27, Mismatches: 4, Indels: 1 0.84 0.12 0.03 Matches are distributed among these distances: 26 18 0.67 27 9 0.33 ACGTcount: A:0.55, C:0.14, G:0.10, T:0.21 Consensus pattern (26 bp): GAATTAAACAGACTAAAAATAAAACC Found at i:41844644 original size:44 final size:43 Alignment explanation
Indices: 41844581--41844732 Score: 152 Period size: 43 Copynumber: 3.5 Consensus size: 43 41844571 TATGTATTAT * 41844581 CGTGTAAGACCACGTCTGGGACGTTAGCATCGATTTGTGATTTA 1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-TGATTTA * * * * 41844625 CGTGTAAGACCATGTCTGGGACATTGGCGTCG-TATATGATTT- 1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTTGATTTA * 41844667 CGTGTAAGACC-CTGTCTGGGTCAG-TGGCATCGATATTTGA-TTA 1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TTTGATTTA * * 41844710 CATGTAAGACCACGTTTGGGACG 1 CGTGTAAGACCACGTCTGGGACG 41844733 CTTGCATTGT Statistics Matches: 89, Mismatches: 13, Indels: 14 0.77 0.11 0.12 Matches are distributed among these distances: 42 29 0.33 43 30 0.34 44 30 0.34 ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31 Consensus pattern (43 bp): CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTTGATTTA Found at i:41844677 original size:86 final size:87 Alignment explanation
Indices: 41844570--41844731 Score: 208 Period size: 86 Copynumber: 1.9 Consensus size: 87 41844560 TAGGATTCCG * 41844570 ATATGTATTATCGTGTAAGACCAC-GTCTGGGAC-GTTAGCATCGAT-TTGTGATTTACGTGTAA 1 ATATGTATTATCGTGTAAGACC-CTGTCTGGGACAG-TAGCATCGATATT-TGA-TTACATGTAA * 41844632 GACCATGTCTGGGACATTGGCGTCGT 62 GACCACGTCTGGGACATTGGCGTCGT * * 41844658 ATATG-ATT-TCGTGTAAGACCCTGTCTGGGTCAGTGGCATCGATATTTGATTACATGTAAGACC 1 ATATGTATTATCGTGTAAGACCCTGTCTGGGACAGTAGCATCGATATTTGATTACATGTAAGACC * 41844721 ACGTTTGGGAC 66 ACGTCTGGGAC 41844732 GCTTGCATTG Statistics Matches: 66, Mismatches: 5, Indels: 9 0.82 0.06 0.11 Matches are distributed among these distances: 85 23 0.35 86 32 0.48 87 6 0.09 88 5 0.08 ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33 Consensus pattern (87 bp): ATATGTATTATCGTGTAAGACCCTGTCTGGGACAGTAGCATCGATATTTGATTACATGTAAGACC ACGTCTGGGACATTGGCGTCGT Found at i:41844683 original size:42 final size:43 Alignment explanation
Indices: 41844570--41844720 Score: 153 Period size: 44 Copynumber: 3.5 Consensus size: 43 41844560 TAGGATTCCG * * 41844570 ATATGTATTATCGTGTAAGACCAC-GTCTGGGACGTTAGCATCGAT 1 ATATG-ATT-TCGTGTAAGACC-CTGTCTGGGACATTGGCATCGAT * * * * 41844615 TTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCGTCG-T 1 ATATGATTT-CGTGTAAGACCCTGTCTGGGACATTGGCATCGAT * * 41844658 ATATGATTTCGTGTAAGACCCTGTCTGGGTCAGTGGCATCGAT 1 ATATGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGAT * * * 41844701 ATTTGATTACATGTAAGACC 1 ATATGATTTCGTGTAAGACC 41844721 ACGTTTGGGA Statistics Matches: 88, Mismatches: 15, Indels: 8 0.79 0.14 0.07 Matches are distributed among these distances: 42 28 0.32 43 27 0.31 44 30 0.34 45 3 0.03 ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33 Consensus pattern (43 bp): ATATGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGAT Found at i:41846414 original size:21 final size:22 Alignment explanation
Indices: 41846389--41846429 Score: 59 Period size: 22 Copynumber: 1.9 Consensus size: 22 41846379 TGTTGATATC 41846389 TGAC-TTTGA-TGTGATAATGTA 1 TGACTTTTGATTGTGA-AATGTA 41846410 TGACTTTTGATTGTGAAATG 1 TGACTTTTGATTGTGAAATG 41846430 ATTGCGAAAT Statistics Matches: 18, Mismatches: 0, Indels: 3 0.86 0.00 0.14 Matches are distributed among these distances: 21 4 0.22 22 9 0.50 23 5 0.28 ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44 Consensus pattern (22 bp): TGACTTTTGATTGTGAAATGTA Found at i:41861274 original size:42 final size:42 Alignment explanation
Indices: 41861200--41861281 Score: 128 Period size: 42 Copynumber: 2.0 Consensus size: 42 41861190 GTGTCCTCAA * 41861200 CCGTGTAACTCACTGAGATGCCCCACACGCCCATGTGCCAAG 1 CCGTGTAACTCACTGAGATGCCACACACGCCCATGTGCCAAG * * * 41861242 CCGTGTAACTCTCTGAGTTGCCACACATGCCCATGTGCCA 1 CCGTGTAACTCACTGAGATGCCACACACGCCCATGTGCCA 41861282 GACCGTTTGC Statistics Matches: 36, Mismatches: 4, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 42 36 1.00 ACGTcount: A:0.22, C:0.37, G:0.21, T:0.21 Consensus pattern (42 bp): CCGTGTAACTCACTGAGATGCCACACACGCCCATGTGCCAAG Found at i:41868815 original size:33 final size:32 Alignment explanation
Indices: 41868717--41868827 Score: 134 Period size: 32 Copynumber: 3.4 Consensus size: 32 41868707 TAAATGAATA * 41868717 TTGTTATCATTT-AACAAAATTAAAGTTGATAT 1 TTGTTATCATTTCAA-AAAATTAAAGTTGAAAT * * * 41868749 TTGTTATCATTTTACAAAATTAAAGTTGTAAT 1 TTGTTATCATTTCAAAAAATTAAAGTTGAAAT * * 41868781 TTATTATCATTTCAAAAAATGAAAAGTTGAAAT 1 TTGTTATCATTTCAAAAAAT-TAAAGTTGAAAT * 41868814 TTGTTACCATTTCA 1 TTGTTATCATTTCA 41868828 CAGAACCACA Statistics Matches: 67, Mismatches: 10, Indels: 3 0.84 0.12 0.04 Matches are distributed among these distances: 32 44 0.66 33 23 0.34 ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43 Consensus pattern (32 bp): TTGTTATCATTTCAAAAAATTAAAGTTGAAAT Found at i:41869781 original size:17 final size:17 Alignment explanation
Indices: 41869732--41869785 Score: 65 Period size: 17 Copynumber: 3.2 Consensus size: 17 41869722 GATAGTGTCG * 41869732 ATTACATATCAAAGAAT 1 ATTACAAATCAAAGAAT * * 41869749 A-TAAAAATGAATAGAAT 1 ATTACAAATCAA-AGAAT 41869766 ATTACAAATCAAAGAAT 1 ATTACAAATCAAAGAAT 41869783 ATT 1 ATT 41869786 GGTCAATATT Statistics Matches: 30, Mismatches: 5, Indels: 4 0.77 0.13 0.10 Matches are distributed among these distances: 16 7 0.23 17 15 0.50 18 8 0.27 ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28 Consensus pattern (17 bp): ATTACAAATCAAAGAAT Found at i:41872094 original size:45 final size:45 Alignment explanation
Indices: 41872043--41872134 Score: 184 Period size: 45 Copynumber: 2.0 Consensus size: 45 41872033 AATTCTAACC 41872043 CATAACCATTTTTGTACAATTTTTAGTGATTTTCCAAAGTTGAGA 1 CATAACCATTTTTGTACAATTTTTAGTGATTTTCCAAAGTTGAGA 41872088 CATAACCATTTTTGTACAATTTTTAGTGATTTTCCAAAGTTGAGA 1 CATAACCATTTTTGTACAATTTTTAGTGATTTTCCAAAGTTGAGA 41872133 CA 1 CA 41872135 GGGGAGCCCA Statistics Matches: 47, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 45 47 1.00 ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41 Consensus pattern (45 bp): CATAACCATTTTTGTACAATTTTTAGTGATTTTCCAAAGTTGAGA Found at i:41872725 original size:48 final size:47 Alignment explanation
Indices: 41872654--41872823 Score: 191 Period size: 48 Copynumber: 3.6 Consensus size: 47 41872644 TAAAGTACCA * * * * 41872654 ATGCCATGTCCCCAACACGGTCTTACAT-GAATTCACATATCATTGCTG 1 ATGCCATGTCCCGAACATGGTCTTACATGGCA--CACATATCATCGCTG * * 41872702 ATGCCATGTCCCGAACATGGTCTTACATAGGCACACAAATCATCGCCG 1 ATGCCATGTCCCGAACATGGTCTTACAT-GGCACACATATCATCGCTG * * * * 41872750 ATGCCATGTCTCGGACATGGTCCTACACTGGCACACATATCATCACTG 1 ATGCCATGTCCCGAACATGGTCTTACA-TGGCACACATATCATCGCTG 41872798 ATGCCATGTCCC-AGACATGGTCTTAC 1 ATGCCATGTCCCGA-ACATGGTCTTAC 41872824 CCAGTCCCAG Statistics Matches: 103, Mismatches: 15, Indels: 8 0.82 0.12 0.06 Matches are distributed among these distances: 48 100 0.97 49 1 0.01 50 2 0.02 ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25 Consensus pattern (47 bp): ATGCCATGTCCCGAACATGGTCTTACATGGCACACATATCATCGCTG Found at i:41875224 original size:29 final size:27 Alignment explanation
Indices: 41875174--41875227 Score: 72 Period size: 29 Copynumber: 1.9 Consensus size: 27 41875164 GATTTTTAGT * 41875174 GAAAATGTCAATTAGGGATTAAATTAA 1 GAAAATGTAAATTAGGGATTAAATTAA * 41875201 GAAAAGTGTAAATTGAGGGGTTAAATT 1 GAAAA-TGTAAATT-AGGGATTAAATT 41875228 GTGAAATAAA Statistics Matches: 23, Mismatches: 2, Indels: 2 0.85 0.07 0.07 Matches are distributed among these distances: 27 5 0.22 28 7 0.30 29 11 0.48 ACGTcount: A:0.44, C:0.02, G:0.24, T:0.30 Consensus pattern (27 bp): GAAAATGTAAATTAGGGATTAAATTAA Found at i:41875233 original size:29 final size:27 Alignment explanation
Indices: 41875172--41875233 Score: 70 Period size: 29 Copynumber: 2.2 Consensus size: 27 41875162 GTGATTTTTA * 41875172 GTGAAAATGTCAATTAGGGATTAAATT 1 GTGAAAATGTAAATTAGGGATTAAATT ** * 41875199 AAGAAAAGTGTAAATTGAGGGGTTAAATT 1 GTGAAAA-TGTAAATT-AGGGATTAAATT 41875228 GTGAAA 1 GTGAAA 41875234 TAAATGAAAA Statistics Matches: 27, Mismatches: 6, Indels: 2 0.77 0.17 0.06 Matches are distributed among these distances: 27 5 0.19 28 7 0.26 29 15 0.56 ACGTcount: A:0.44, C:0.02, G:0.26, T:0.29 Consensus pattern (27 bp): GTGAAAATGTAAATTAGGGATTAAATT Found at i:41875840 original size:47 final size:47 Alignment explanation
Indices: 41875777--41875895 Score: 211 Period size: 47 Copynumber: 2.5 Consensus size: 47 41875767 GTGCGAATAA * 41875777 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTGAGAGGAGT 1 TACCTTGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT * * 41875824 TACCTTGATATAGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT 1 TACCTTGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT 41875871 TACCTTGATTTGGCTACGGGCCATG 1 TACCTTGATTTGGCTACGGGCCATG 41875896 GTATGGATAC Statistics Matches: 67, Mismatches: 5, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 47 67 1.00 ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33 Consensus pattern (47 bp): TACCTTGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT Found at i:41891668 original size:29 final size:27 Alignment explanation
Indices: 41891615--41891674 Score: 66 Period size: 29 Copynumber: 2.1 Consensus size: 27 41891605 GATTTCTAGT * * 41891615 GAAAATGTCAATTAGGGATTCAATTGA 1 GAAAATGTAAATTAGGGATTAAATTGA * * 41891642 GAAAAGTGTAAATTGAGGGGTTAAATTGT 1 GAAAA-TGTAAATT-AGGGATTAAATTGA 41891671 GAAA 1 GAAA 41891675 TAAATGAAAA Statistics Matches: 27, Mismatches: 4, Indels: 2 0.82 0.12 0.06 Matches are distributed among these distances: 27 5 0.19 28 7 0.26 29 15 0.56 ACGTcount: A:0.42, C:0.03, G:0.27, T:0.28 Consensus pattern (27 bp): GAAAATGTAAATTAGGGATTAAATTGA Found at i:41898782 original size:17 final size:17 Alignment explanation
Indices: 41898762--41898817 Score: 60 Period size: 17 Copynumber: 3.2 Consensus size: 17 41898752 TATATGCATT 41898762 TAAAAAATCAAATAACA 1 TAAAAAATCAAATAACA * ** 41898779 TAAACAAA-GAAATAGATT 1 TAAA-AAATCAAATA-ACA 41898797 TAAAAAATCAAATAACA 1 TAAAAAATCAAATAACA 41898814 TAAA 1 TAAA 41898818 CAAAGGAATA Statistics Matches: 30, Mismatches: 6, Indels: 6 0.71 0.14 0.14 Matches are distributed among these distances: 17 17 0.57 18 13 0.43 ACGTcount: A:0.68, C:0.09, G:0.04, T:0.20 Consensus pattern (17 bp): TAAAAAATCAAATAACA Found at i:41898846 original size:35 final size:35 Alignment explanation
Indices: 41898759--41898831 Score: 137 Period size: 35 Copynumber: 2.1 Consensus size: 35 41898749 AAATATATGC 41898759 ATTTAAAAAATCAAATAACATAAACAAAGAAATAG 1 ATTTAAAAAATCAAATAACATAAACAAAGAAATAG * 41898794 ATTTAAAAAATCAAATAACATAAACAAAGGAATAG 1 ATTTAAAAAATCAAATAACATAAACAAAGAAATAG 41898829 ATT 1 ATT 41898832 GTAAGTTAAC Statistics Matches: 37, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 35 37 1.00 ACGTcount: A:0.63, C:0.08, G:0.07, T:0.22 Consensus pattern (35 bp): ATTTAAAAAATCAAATAACATAAACAAAGAAATAG Found at i:41909209 original size:29 final size:29 Alignment explanation
Indices: 41909175--41909248 Score: 96 Period size: 29 Copynumber: 2.6 Consensus size: 29 41909165 TAATCAACCG * 41909175 CGCACACTTAGTGCCATGTACTTT-AAACT 1 CGCACACTTAGTGCCATGCA-TTTCAAACT ** 41909204 CGCACACTTAGTGCCATGCATTTCAAGTT 1 CGCACACTTAGTGCCATGCATTTCAAACT * 41909233 CGCACACCTAGTGCCA 1 CGCACACTTAGTGCCA 41909249 ATCCTCACAA Statistics Matches: 40, Mismatches: 4, Indels: 2 0.87 0.09 0.04 Matches are distributed among these distances: 28 3 0.08 29 37 0.93 ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27 Consensus pattern (29 bp): CGCACACTTAGTGCCATGCATTTCAAACT Found at i:41917357 original size:29 final size:29 Alignment explanation
Indices: 41917323--41917396 Score: 96 Period size: 29 Copynumber: 2.6 Consensus size: 29 41917313 TAATCAACCG * 41917323 CGCACACTTAGTGCCATGTACTTT-AAACT 1 CGCACACTTAGTGCCATGCA-TTTCAAACT ** 41917352 CGCACACTTAGTGCCATGCATTTCAAGTT 1 CGCACACTTAGTGCCATGCATTTCAAACT * 41917381 CGCACACCTAGTGCCA 1 CGCACACTTAGTGCCA 41917397 ATCTCACAAC Statistics Matches: 40, Mismatches: 4, Indels: 2 0.87 0.09 0.04 Matches are distributed among these distances: 28 3 0.08 29 37 0.93 ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27 Consensus pattern (29 bp): CGCACACTTAGTGCCATGCATTTCAAACT Found at i:41920641 original size:29 final size:29 Alignment explanation
Indices: 41920577--41920642 Score: 71 Period size: 29 Copynumber: 2.3 Consensus size: 29 41920567 CTTTCATTTA * * * 41920577 TTTCACAATTTAACTCCTTAATTTACAGT 1 TTTCTCAATTTAACTCCCTAATATACAGT * * 41920606 TTTCTCAATTTAA-TCCCTAATATGCATT 1 TTTCTCAATTTAACTCCCTAATATACAGT 41920634 TTTACTCAA 1 TTT-CTCAA 41920643 AATCACTTTA Statistics Matches: 31, Mismatches: 5, Indels: 2 0.82 0.13 0.05 Matches are distributed among these distances: 28 14 0.45 29 17 0.55 ACGTcount: A:0.30, C:0.21, G:0.03, T:0.45 Consensus pattern (29 bp): TTTCTCAATTTAACTCCCTAATATACAGT Found at i:41922524 original size:18 final size:18 Alignment explanation
Indices: 41922485--41922527 Score: 61 Period size: 19 Copynumber: 2.4 Consensus size: 18 41922475 GCAATTATAA * 41922485 CCAAAGAAAATTAAAATC 1 CCAAAGAAAAATAAAATC 41922503 CCAAATGAAAAATAAAAT- 1 CCAAA-GAAAAATAAAATC 41922521 CCAAAGA 1 CCAAAGA 41922528 GGCCGTATTA Statistics Matches: 23, Mismatches: 1, Indels: 3 0.85 0.04 0.11 Matches are distributed among these distances: 17 2 0.09 18 10 0.43 19 11 0.48 ACGTcount: A:0.63, C:0.16, G:0.07, T:0.14 Consensus pattern (18 bp): CCAAAGAAAAATAAAATC Found at i:41930330 original size:18 final size:18 Alignment explanation
Indices: 41930291--41930333 Score: 61 Period size: 19 Copynumber: 2.4 Consensus size: 18 41930281 GCAGTTATAA * 41930291 CCAAAGAAAATTAAAATC 1 CCAAAGAAAAATAAAATC 41930309 CCAAATGAAAAATAAAAT- 1 CCAAA-GAAAAATAAAATC 41930327 CCAAAGA 1 CCAAAGA 41930334 GGCCGTATTA Statistics Matches: 23, Mismatches: 1, Indels: 3 0.85 0.04 0.11 Matches are distributed among these distances: 17 2 0.09 18 10 0.43 19 11 0.48 ACGTcount: A:0.63, C:0.16, G:0.07, T:0.14 Consensus pattern (18 bp): CCAAAGAAAAATAAAATC Found at i:41939176 original size:16 final size:16 Alignment explanation
Indices: 41939155--41939189 Score: 70 Period size: 16 Copynumber: 2.2 Consensus size: 16 41939145 CAGCAGCTGC 41939155 GTCAACCATTTGCCGA 1 GTCAACCATTTGCCGA 41939171 GTCAACCATTTGCCGA 1 GTCAACCATTTGCCGA 41939187 GTC 1 GTC 41939190 GAATTCAGAC Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 16 19 1.00 ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26 Consensus pattern (16 bp): GTCAACCATTTGCCGA Found at i:41941265 original size:49 final size:49 Alignment explanation
Indices: 41941208--41941309 Score: 204 Period size: 49 Copynumber: 2.1 Consensus size: 49 41941198 ATTTCATATA 41941208 CCATAGTTTCCATGTATTCCACATATATTTATTTTCCTCCTCCTCCTCT 1 CCATAGTTTCCATGTATTCCACATATATTTATTTTCCTCCTCCTCCTCT 41941257 CCATAGTTTCCATGTATTCCACATATATTTATTTTCCTCCTCCTCCTCT 1 CCATAGTTTCCATGTATTCCACATATATTTATTTTCCTCCTCCTCCTCT 41941306 CCAT 1 CCAT 41941310 TCCACATCCT Statistics Matches: 53, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 49 53 1.00 ACGTcount: A:0.19, C:0.33, G:0.04, T:0.44 Consensus pattern (49 bp): CCATAGTTTCCATGTATTCCACATATATTTATTTTCCTCCTCCTCCTCT Found at i:41967348 original size:20 final size:20 Alignment explanation
Indices: 41967323--41967365 Score: 59 Period size: 20 Copynumber: 2.1 Consensus size: 20 41967313 TTGTGGTCAC * * 41967323 ACACACCCGTATGGCTTGGG 1 ACACACCCATATGGCTTAGG * 41967343 ACACACCCATGTGGCTTAGG 1 ACACACCCATATGGCTTAGG 41967363 ACA 1 ACA 41967366 TGCCCGTGTC Statistics Matches: 20, Mismatches: 3, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 20 20 1.00 ACGTcount: A:0.26, C:0.30, G:0.26, T:0.19 Consensus pattern (20 bp): ACACACCCATATGGCTTAGG Found at i:41969167 original size:50 final size:50 Alignment explanation
Indices: 41969102--41969299 Score: 236 Period size: 50 Copynumber: 3.9 Consensus size: 50 41969092 ACCGAAGCTC * * 41969102 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA 1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAA * * * * * 41969152 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGCTA 1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT-AA-CAA * * * 41969203 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA 1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAA * * * * * 41969253 TCTGATACACGTACTAGCCTGCAATTAGTACTACACACGTGACCTAA 1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA 41969300 AACCGTCTTA Statistics Matches: 122, Mismatches: 23, Indels: 6 0.81 0.15 0.04 Matches are distributed among these distances: 49 1 0.01 50 80 0.66 51 40 0.33 52 1 0.01 ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25 Consensus pattern (50 bp): TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAA Found at i:41969240 original size:101 final size:101 Alignment explanation
Indices: 41969095--41969294 Score: 346 Period size: 101 Copynumber: 2.0 Consensus size: 101 41969085 TCTTGTAACC * * * * 41969095 GAAGCTCTCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTAC 1 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATAC * * 41969160 ACGTAGTAGCCTGCACTTAGTACTACACACGTGATT 66 ACGTACTAGCCTGCAATTAGTACTACACACGTGATT 41969196 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATAC 1 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATAC 41969261 ACGTACTAGCCTGCAATTAGTACTACACACGTGA 66 ACGTACTAGCCTGCAATTAGTACTACACACGTGA 41969295 CCTAAAACCG Statistics Matches: 93, Mismatches: 6, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 101 93 1.00 ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25 Consensus pattern (101 bp): GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATAC ACGTACTAGCCTGCAATTAGTACTACACACGTGATT Found at i:41973180 original size:19 final size:20 Alignment explanation
Indices: 41973143--41973197 Score: 64 Period size: 18 Copynumber: 2.9 Consensus size: 20 41973133 AATTAAAATT 41973143 CATAATTTTAA-TATTTT-TAA 1 CATAA-TTTAATTATTTTAT-A 41973163 CATAATTTAATTATTTTATA 1 CATAATTTAATTATTTTATA 41973183 -AT-ATTTAATTATTTT 1 CATAATTTAATTATTTT 41973198 TTGACAAGAA Statistics Matches: 33, Mismatches: 0, Indels: 6 0.85 0.00 0.15 Matches are distributed among these distances: 18 13 0.39 19 7 0.21 20 12 0.36 21 1 0.03 ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58 Consensus pattern (20 bp): CATAATTTAATTATTTTATA Found at i:41973198 original size:19 final size:19 Alignment explanation
Indices: 41973144--41973198 Score: 64 Period size: 19 Copynumber: 3.0 Consensus size: 19 41973134 ATTAAAATTC 41973144 ATAAT-TTTAA-TATTTTT 1 ATAATATTTAATTATTTTT 41973161 A-ACATAATTTAATTA-TTTT 1 ATA-AT-ATTTAATTATTTTT 41973180 ATAATATTTAATTATTTTT 1 ATAATATTTAATTATTTTT 41973199 TGACAAGAAT Statistics Matches: 32, Mismatches: 0, Indels: 10 0.76 0.00 0.24 Matches are distributed among these distances: 16 1 0.03 17 3 0.09 18 9 0.28 19 16 0.50 20 3 0.09 ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60 Consensus pattern (19 bp): ATAATATTTAATTATTTTT Found at i:41993647 original size:6 final size:6 Alignment explanation
Indices: 41993633--41993691 Score: 64 Period size: 6 Copynumber: 9.5 Consensus size: 6 41993623 ATTGAAACGT * * * 41993633 AAATAA AAATCA AAAGAA AAATAA AAATAA AATAAAGA AAATAA AAATAA 1 AAATAA AAATAA AAATAA AAATAA AAATAA AA-ATA-A AAATAA AAATAA * 41993683 GAATAA AAA 1 AAATAA AAA 41993692 ATAGGAGGAT Statistics Matches: 43, Mismatches: 8, Indels: 4 0.78 0.15 0.07 Matches are distributed among these distances: 6 36 0.84 7 4 0.09 8 3 0.07 ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14 Consensus pattern (6 bp): AAATAA Found at i:41993671 original size:21 final size:21 Alignment explanation
Indices: 41993645--41993689 Score: 74 Period size: 20 Copynumber: 2.1 Consensus size: 21 41993635 ATAAAAATCA 41993645 AAAGAAAAATAAAAATAA-AAT 1 AAAG-AAAATAAAAATAAGAAT 41993666 AAAGAAAATAAAAATAAGAAT 1 AAAGAAAATAAAAATAAGAAT 41993687 AAA 1 AAA 41993690 AAATAGGAGG Statistics Matches: 23, Mismatches: 0, Indels: 2 0.92 0.00 0.08 Matches are distributed among these distances: 20 13 0.57 21 10 0.43 ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13 Consensus pattern (21 bp): AAAGAAAATAAAAATAAGAAT Found at i:42006101 original size:46 final size:46 Alignment explanation
Indices: 42006048--42006183 Score: 200 Period size: 46 Copynumber: 3.0 Consensus size: 46 42006038 ATATATACAA * * * 42006048 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCC 1 ATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATCC * * * 42006094 ATCTCATACATGTTTCGCATTAGCCATTCGGCTTTACCTCATATCT 1 ATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATCC * * 42006140 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT 1 ATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATAT 42006184 ATACATGTTC Statistics Matches: 80, Mismatches: 10, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 46 80 1.00 ACGTcount: A:0.26, C:0.30, G:0.09, T:0.35 Consensus pattern (46 bp): ATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATCC Found at i:42006222 original size:47 final size:47 Alignment explanation
Indices: 42006157--42006398 Score: 322 Period size: 47 Copynumber: 5.1 Consensus size: 47 42006147 ACACATTTCG * * 42006157 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA 1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA * * * 42006204 CATTGGCCATTCGACCTTATCTCATATATGCATGTTCACATTCATCA 1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA * ** 42006251 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA 1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA * 42006298 CATTGGCCATTCGGCCTTATCATGCATATATATACAGGTTCACATTCATCA 1 CATTGGCCATTCGGCCTTATCA--C--ATATATACATGTTCACATTCATCA ** * ** 42006349 CATTTTCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA 1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA 42006396 CAT 1 CAT 42006399 AAAATCCTAA Statistics Matches: 173, Mismatches: 18, Indels: 8 0.87 0.09 0.04 Matches are distributed among these distances: 47 132 0.76 49 2 0.01 51 39 0.23 ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34 Consensus pattern (47 bp): CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA Found at i:42006285 original size:94 final size:97 Alignment explanation
Indices: 42006157--42006398 Score: 337 Period size: 98 Copynumber: 2.5 Consensus size: 97 42006147 ACACATTTCG * 42006157 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGACCTT 1 CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGACCTT * * 42006222 ATC-T-C-ATATATGCATGTTCACATTCATCA 66 ATCATGCAATATATACAGGTTCACATTCATCA * * ** * 42006251 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT 1 CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGACCTT 42006316 ATCATGCATATATATACAGGTTCACATTCATCA 66 ATCATGCA-ATATATACAGGTTCACATTCATCA ** * ** 42006349 CATTTTCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT 1 CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT 42006399 AAAATCCTAA Statistics Matches: 128, Mismatches: 16, Indels: 4 0.86 0.11 0.03 Matches are distributed among these distances: 94 62 0.48 95 1 0.01 96 1 0.01 98 64 0.50 ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34 Consensus pattern (97 bp): CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGACCTT ATCATGCAATATATACAGGTTCACATTCATCA Found at i:42006320 original size:25 final size:25 Alignment explanation
Indices: 42006245--42006320 Score: 63 Period size: 23 Copynumber: 3.2 Consensus size: 25 42006235 ATGTTCACAT 42006245 TCATCACATTGGCCATTCGGCCTTA 1 TCATCACATTGGCCATTCGGCCTTA ** * * 42006270 TCA-CACATACG-CATGTTC--ACAT- 1 TCATCACATTGGCCA--TTCGGCCTTA 42006292 TCATCACATTGGCCATTCGGCCTTA 1 TCATCACATTGGCCATTCGGCCTTA 42006317 TCAT 1 TCAT 42006321 GCATATATAT Statistics Matches: 36, Mismatches: 8, Indels: 14 0.62 0.14 0.24 Matches are distributed among these distances: 22 6 0.17 23 10 0.28 24 10 0.28 25 10 0.28 ACGTcount: A:0.24, C:0.32, G:0.13, T:0.32 Consensus pattern (25 bp): TCATCACATTGGCCATTCGGCCTTA Found at i:42010120 original size:40 final size:40 Alignment explanation
Indices: 42010050--42010326 Score: 414 Period size: 40 Copynumber: 7.0 Consensus size: 40 42010040 CCTCATAATT * * * 42010050 CTAGCATGAATGC-CTTCGAGG-TTTAACCCGGATATATCA 1 CTAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCA * 42010089 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGTTATATCA 1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA * 42010129 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCA 1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA * 42010169 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCA 1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA * * * 42010209 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGACATATTA 1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA * * * 42010249 CCAGCACGGATGCTCTTCGGGACTTAGCCCGGATATAACA 1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA * 42010289 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT 1 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT 42010327 AACTCTCAGT Statistics Matches: 220, Mismatches: 16, Indels: 3 0.92 0.07 0.01 Matches are distributed among these distances: 39 14 0.06 40 206 0.94 ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25 Consensus pattern (40 bp): CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA Found at i:42011862 original size:46 final size:46 Alignment explanation
Indices: 42011809--42011945 Score: 202 Period size: 46 Copynumber: 3.0 Consensus size: 46 42011799 TATATATACA * * * * 42011809 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC 1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC * * 42011855 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC 1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC * * 42011901 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT 1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT 42011946 ATACATGTTC Statistics Matches: 81, Mismatches: 10, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 46 81 1.00 ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34 Consensus pattern (46 bp): CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC Found at i:42011984 original size:47 final size:47 Alignment explanation
Indices: 42011919--42012207 Score: 362 Period size: 47 Copynumber: 6.1 Consensus size: 47 42011909 ACACATTTCG * * * 42011919 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA 1 CATTGGCCATTCGGCCTTATCACATATACACATGTTCACATTCATCA * * * 42011966 CATTGGCCATTCGACCTTATCTCATATACGCATGTTCACATTCATCA 1 CATTGGCCATTCGGCCTTATCACATATACACATGTTCACATTCATCA * * * * 42012013 CATTGGCCATTCGGCCTTATCACACATGCGCATGTTCACATTCATAA 1 CATTGGCCATTCGGCCTTATCACATATACACATGTTCACATTCATCA * * * 42012060 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA 1 CATTGGCCATTCGGCCTTATCACATATACACATGTTCACATTCATCA * * 42012107 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA 1 CATTGGCCATTCGGCCTTATCA--C--ATATACACATGTTCACATTCATCA * * * ** 42012158 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA 1 CATTGGCCATTCGGCCTTATCACATATACACATGTTCACATTCATCA 42012205 CAT 1 CAT 42012208 AAAATCCTAA Statistics Matches: 215, Mismatches: 23, Indels: 8 0.87 0.09 0.03 Matches are distributed among these distances: 47 173 0.80 49 2 0.01 51 40 0.19 ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32 Consensus pattern (47 bp): CATTGGCCATTCGGCCTTATCACATATACACATGTTCACATTCATCA Found at i:42012086 original size:24 final size:24 Alignment explanation
Indices: 42012011--42012086 Score: 63 Period size: 24 Copynumber: 3.2 Consensus size: 24 42012001 TCACATTCAT * 42012011 CACATTGGCCATTCGGCCTTATCA 1 CACATTGGCCATTCAGCCTTATCA * 42012035 CACA-T-GCGCATGTTCA-CATTCAT-A 1 CACATTGGC-CA--TTCAGCCTT-ATCA 42012059 -ACATTGGCCATTCAGCCTTATCA 1 CACATTGGCCATTCAGCCTTATCA 42012082 CACAT 1 CACAT 42012087 ACGCATGTTC Statistics Matches: 40, Mismatches: 3, Indels: 18 0.66 0.05 0.30 Matches are distributed among these distances: 22 8 0.20 23 10 0.25 24 15 0.38 25 7 0.17 ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29 Consensus pattern (24 bp): CACATTGGCCATTCAGCCTTATCA Found at i:42012106 original size:25 final size:25 Alignment explanation
Indices: 42012031--42012108 Score: 67 Period size: 25 Copynumber: 3.2 Consensus size: 25 42012021 ATTCGGCCTT * 42012031 ATCACACATGCGCATGTTCACATTC 1 ATCACACATACGCATGTTCACATTC ** * 42012056 AT-A-ACATTGGCCA--TTCAGCCTT- 1 ATCACACATACG-CATGTTCA-CATTC 42012078 ATCACACATACGCATGTTCACATTC 1 ATCACACATACGCATGTTCACATTC 42012103 ATCACA 1 ATCACA 42012109 TTGGCCATTC Statistics Matches: 40, Mismatches: 6, Indels: 14 0.67 0.10 0.23 Matches are distributed among these distances: 22 6 0.15 23 11 0.28 24 11 0.28 25 12 0.30 ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28 Consensus pattern (25 bp): ATCACACATACGCATGTTCACATTC Found at i:42020658 original size:46 final size:48 Alignment explanation
Indices: 42020600--42020730 Score: 164 Period size: 46 Copynumber: 2.8 Consensus size: 48 42020590 ATGGTTGAGC * * 42020600 ATCCGAATTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG 1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG * * 42020647 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGG 1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG * 42020692 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG 1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG 42020731 GCGGGTTACA Statistics Matches: 71, Mismatches: 6, Indels: 11 0.81 0.07 0.12 Matches are distributed among these distances: 43 6 0.08 45 4 0.06 46 29 0.41 47 29 0.41 48 2 0.03 50 1 0.01 ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31 Consensus pattern (48 bp): ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG Found at i:42022509 original size:37 final size:37 Alignment explanation
Indices: 42022468--42022547 Score: 144 Period size: 37 Copynumber: 2.2 Consensus size: 37 42022458 GTGACACGGA 42022468 TTTAGCCTGAACTAGTAATTTGTTGT-GATTTTAAAGG 1 TTTAGCCTGAACTAGTAATTTGTTGTCG-TTTTAAAGG 42022505 TTTAGCCTGAACTAGTAATTTGTTGTCGTTTTAAAGG 1 TTTAGCCTGAACTAGTAATTTGTTGTCGTTTTAAAGG 42022542 TTTAGC 1 TTTAGC 42022548 TTGGACTGGT Statistics Matches: 42, Mismatches: 0, Indels: 2 0.95 0.00 0.05 Matches are distributed among these distances: 37 41 0.98 38 1 0.02 ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44 Consensus pattern (37 bp): TTTAGCCTGAACTAGTAATTTGTTGTCGTTTTAAAGG Found at i:42024886 original size:3 final size:3 Alignment explanation
Indices: 42024878--42024911 Score: 68 Period size: 3 Copynumber: 11.3 Consensus size: 3 42024868 GTAGGCCAGC 42024878 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T 1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T 42024912 TTTTGGGTAA Statistics Matches: 31, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 31 1.00 ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68 Consensus pattern (3 bp): TAT Found at i:42024997 original size:20 final size:20 Alignment explanation
Indices: 42024968--42025012 Score: 72 Period size: 20 Copynumber: 2.2 Consensus size: 20 42024958 CAAAATAGTT * * 42024968 ACCTATGTTTTATTTCAGTC 1 ACCTAGGTTTCATTTCAGTC 42024988 ACCTAGGTTTCATTTCAGTC 1 ACCTAGGTTTCATTTCAGTC 42025008 ACCTA 1 ACCTA 42025013 ACTTTTGAAA Statistics Matches: 23, Mismatches: 2, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 20 23 1.00 ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42 Consensus pattern (20 bp): ACCTAGGTTTCATTTCAGTC Found at i:42025058 original size:19 final size:19 Alignment explanation
Indices: 42025029--42025072 Score: 70 Period size: 19 Copynumber: 2.3 Consensus size: 19 42025019 GAAAAATAAC * 42025029 AAAACAGTCACTAACGTTAT 1 AAAA-AGTCACTAACCTTAT 42025049 AAAAAGTCACTAACCTTAT 1 AAAAAGTCACTAACCTTAT 42025068 AAAAA 1 AAAAA 42025073 AGTGACAAAA Statistics Matches: 23, Mismatches: 1, Indels: 1 0.92 0.04 0.04 Matches are distributed among these distances: 19 19 0.83 20 4 0.17 ACGTcount: A:0.52, C:0.18, G:0.07, T:0.23 Consensus pattern (19 bp): AAAAAGTCACTAACCTTAT Found at i:42025227 original size:3 final size:3 Alignment explanation
Indices: 42025219--42025265 Score: 85 Period size: 3 Copynumber: 15.7 Consensus size: 3 42025209 CATTTAACAG * 42025219 AGA AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA AGA AGA AG 1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG 42025266 CAGCAGCAGT Statistics Matches: 42, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 3 42 1.00 ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00 Consensus pattern (3 bp): AGA Found at i:42026281 original size:21 final size:21 Alignment explanation
Indices: 42026242--42026282 Score: 55 Period size: 21 Copynumber: 2.0 Consensus size: 21 42026232 CAACGTGGCA * * 42026242 AGTTAACTGGTCACGTCAGCT 1 AGTTAACTGGCCACATCAGCT * 42026263 AGTTAACTTGCCACATCAGC 1 AGTTAACTGGCCACATCAGC 42026283 GGTTCTGTTA Statistics Matches: 17, Mismatches: 3, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 21 17 1.00 ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27 Consensus pattern (21 bp): AGTTAACTGGCCACATCAGCT Found at i:42026402 original size:20 final size:20 Alignment explanation
Indices: 42026377--42026425 Score: 89 Period size: 20 Copynumber: 2.5 Consensus size: 20 42026367 TTTCAAAAGT 42026377 TAGGTGACTGAAATGAAACC 1 TAGGTGACTGAAATGAAACC * 42026397 TAGGTGACTGAAATGAAACT 1 TAGGTGACTGAAATGAAACC 42026417 TAGGTGACT 1 TAGGTGACT 42026426 ATTTTGTTAG Statistics Matches: 28, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 20 28 1.00 ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24 Consensus pattern (20 bp): TAGGTGACTGAAATGAAACC Found at i:42030775 original size:25 final size:24 Alignment explanation
Indices: 42030747--42030824 Score: 70 Period size: 24 Copynumber: 3.2 Consensus size: 24 42030737 CTATATAATA * 42030747 GGAAGCTCATGTGAGCCATGTAACG 1 GGAAGCTCATGAGAGCCAT-TAACG * * 42030772 GGAAACTCCA-GAGAGCCATTAATG 1 GGAAGCT-CATGAGAGCCATTAACG * * 42030796 GGAAGCTCAT-ACGAGCCAATATCG 1 GGAAGCTCATGA-GAGCCATTAACG 42030820 GGAAG 1 GGAAG 42030825 TTTAAGCAAG Statistics Matches: 43, Mismatches: 7, Indels: 7 0.75 0.12 0.12 Matches are distributed among these distances: 23 3 0.07 24 24 0.56 25 14 0.33 26 2 0.05 ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17 Consensus pattern (24 bp): GGAAGCTCATGAGAGCCATTAACG Found at i:42034219 original size:20 final size:20 Alignment explanation
Indices: 42034194--42034234 Score: 82 Period size: 20 Copynumber: 2.0 Consensus size: 20 42034184 TGTGATATGT 42034194 TGACACTACTAAGTCATAAA 1 TGACACTACTAAGTCATAAA 42034214 TGACACTACTAAGTCATAAA 1 TGACACTACTAAGTCATAAA 42034234 T 1 T 42034235 TAACCATGTA Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 20 21 1.00 ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27 Consensus pattern (20 bp): TGACACTACTAAGTCATAAA Found at i:42047782 original size:44 final size:44 Alignment explanation
Indices: 42047733--42047822 Score: 180 Period size: 44 Copynumber: 2.0 Consensus size: 44 42047723 ATTCATGAGG 42047733 GTATGATCATGTTTTACTTTGTTTTTAATAATCGTTAAGTATAA 1 GTATGATCATGTTTTACTTTGTTTTTAATAATCGTTAAGTATAA 42047777 GTATGATCATGTTTTACTTTGTTTTTAATAATCGTTAAGTATAA 1 GTATGATCATGTTTTACTTTGTTTTTAATAATCGTTAAGTATAA 42047821 GT 1 GT 42047823 GTTAAAAAGG Statistics Matches: 46, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 44 46 1.00 ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50 Consensus pattern (44 bp): GTATGATCATGTTTTACTTTGTTTTTAATAATCGTTAAGTATAA Found at i:42058337 original size:47 final size:47 Alignment explanation
Indices: 42058283--42058440 Score: 262 Period size: 47 Copynumber: 3.4 Consensus size: 47 42058273 TTAGGATTTT ** * ** 42058283 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGAAA 1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA 42058330 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA 1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA * 42058377 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA 1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA 42058424 ATGTGATGAATGTGAAC 1 ATGTGATGAATGTGAAC 42058441 CGAATGGCCA Statistics Matches: 105, Mismatches: 6, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 47 105 1.00 ACGTcount: A:0.36, C:0.09, G:0.28, T:0.26 Consensus pattern (47 bp): ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA Found at i:42058449 original size:74 final size:74 Alignment explanation
Indices: 42058366--42058514 Score: 289 Period size: 74 Copynumber: 2.0 Consensus size: 74 42058356 TGAGATAAGG * 42058366 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAT 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGACCGAATGGCCAATGTGAT 42058431 GAATGTGAA 66 GAATGTGAA 42058440 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGACCGAATGGCCAATGTGAT 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGACCGAATGGCCAATGTGAT 42058505 GAATGTGAA 66 GAATGTGAA 42058514 C 1 C 42058515 ATGCGTATGT Statistics Matches: 74, Mismatches: 1, Indels: 0 0.99 0.01 0.00 Matches are distributed among these distances: 74 74 1.00 ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24 Consensus pattern (74 bp): CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGACCGAATGGCCAATGTGAT GAATGTGAA Found at i:42058454 original size:121 final size:121 Alignment explanation
Indices: 42058319--42058702 Score: 444 Period size: 121 Copynumber: 3.0 Consensus size: 121 42058309 TGAGATAAGG * 42058319 CCGAATGGAAAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGAT 1 CCGAATGGAAAATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGCCAATGTGAT 42058384 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA 66 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA ** * 42058440 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGACCGAATGGCCAATGTGAT 1 CCGAATGGAAAATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGCCAATGTGAT * * 42058505 GAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA 66 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA * * * * * * 42058561 CATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAA 1 C---CG-A-ATG-GAAAATG-TG-AT-G--AA--TG-------TGAACATGCATATATGAGATAA * * * * 42058626 GGCCGAATGGCCAATGTGATGAATGCGAACATGCATATATGTGATAAGGCCGAATGGTCAATGTC 46 GACCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG 42058691 ATGAATGTGAA 111 ATGAATGTGAA 42058702 C 1 C 42058703 ATGCATATAT Statistics Matches: 225, Mismatches: 18, Indels: 20 0.86 0.07 0.08 Matches are distributed among these distances: 121 116 0.52 124 2 0.01 125 1 0.00 126 2 0.01 127 4 0.02 128 2 0.01 129 2 0.01 130 1 0.00 132 2 0.01 134 2 0.01 141 91 0.40 ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25 Consensus pattern (121 bp): CCGAATGGAAAATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGCCAATGTGAT GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA Found at i:42058478 original size:168 final size:168 Alignment explanation
Indices: 42058283--42058608 Score: 535 Period size: 168 Copynumber: 1.9 Consensus size: 168 42058273 TTAGGATTTT ** * * 42058283 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACA 1 ATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGAAAATGTGATGAATGTGAACA 42058348 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG 66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG 42058413 CCGAATGGCCAATGTGATGAATGTGAACCGAATGGCCA 131 CCGAATGGCCAATGTGATGAATGTGAACCGAATGGCCA * ** 42058451 ATGTGATGAATGTGAACATGCATATATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAACA 1 ATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGAAAATGTGATGAATGTGAACA * * * * * 42058516 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG 66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG * 42058581 CTGAATGGCCAATGTGATGAATGTGAAC 131 CCGAATGGCCAATGTGATGAATGTGAAC 42058609 ATGCGTATGT Statistics Matches: 145, Mismatches: 13, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 168 145 1.00 ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26 Consensus pattern (168 bp): ATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGAAAATGTGATGAATGTGAACA TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG CCGAATGGCCAATGTGATGAATGTGAACCGAATGGCCA Found at i:42058645 original size:22 final size:22 Alignment explanation
Indices: 42058618--42058689 Score: 58 Period size: 22 Copynumber: 3.1 Consensus size: 22 42058608 CATGCGTATG 42058618 TGTGATAAGGCCGAATGGCCAA 1 TGTGATAAGGCCGAATGGCCAA * * 42058640 TGTGATGAATG-CGAACAT-GCATATA 1 TGTGAT-AAGGCCG-A-ATGGC-CA-A * 42058665 TGTGATAAGGCCGAATGGTCAA 1 TGTGATAAGGCCGAATGGCCAA 42058687 TGT 1 TGT 42058690 CATGAATGTG Statistics Matches: 38, Mismatches: 5, Indels: 14 0.67 0.09 0.25 Matches are distributed among these distances: 22 12 0.32 23 9 0.24 24 8 0.21 25 9 0.24 ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25 Consensus pattern (22 bp): TGTGATAAGGCCGAATGGCCAA Found at i:42058667 original size:25 final size:25 Alignment explanation
Indices: 42058639--42058716 Score: 67 Period size: 25 Copynumber: 3.2 Consensus size: 25 42058629 CGAATGGCCA 42058639 ATGTGATGAATGCGAACATGCATAT 1 ATGTGATGAATGCGAACATGCATAT * * 42058664 ATGTGAT-AAGGCCG-A-ATG-GTCA- 1 ATGTGATGAATG-CGAACATGCAT-AT * * 42058686 ATGTCATGAATGTGAACATGCATAT 1 ATGTGATGAATGCGAACATGCATAT 42058711 ATGTGA 1 ATGTGA 42058717 CAAGGCAGAA Statistics Matches: 39, Mismatches: 7, Indels: 14 0.65 0.12 0.23 Matches are distributed among these distances: 22 8 0.21 23 8 0.21 24 8 0.21 25 15 0.38 ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28 Consensus pattern (25 bp): ATGTGATGAATGCGAACATGCATAT Found at i:42058775 original size:94 final size:94 Alignment explanation
Indices: 42058440--42058782 Score: 485 Period size: 94 Copynumber: 3.6 Consensus size: 94 42058430 TGAATGTGAA 42058440 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAT-AAGACCGAATGGCCAATGTGA 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAAG-CCGAATGGCCAATGTGA 42058504 TGAATGTGAACATGCGTATGTGTGATAAGG 65 TGAATGTGAACATGCGTATGTGTGATAAGG * * * * 42058534 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGAT 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGAT 42058599 GAATGTGAACATGCGTATGTGTGATAAGG 66 GAATGTGAACATGCGTATGTGTGATAAGG * * * * 42058628 CCGAATGGCCAATGTGATGAATGCGAACATGCATATATGTGATAAGGCCGAATGGTCAATGTCAT 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGAT * * * 42058693 GAATGTGAACATGCATATATGTGACAAGG 66 GAATGTGAACATGCGTATGTGTGATAAGG * * * * * * 42058722 CAGAATGGCCAATGTGATGAACATG-GAA-GTGTATATATGTGGTAAAGCTGAATGGCTAATG 1 CCGAATGGCCAATGTGATG-A-ATGTGAACATGCATATATGTGATAAAGCCGAATGGCCAATG 42058783 CGAAATGTGT Statistics Matches: 225, Mismatches: 21, Indels: 6 0.89 0.08 0.02 Matches are distributed among these distances: 94 216 0.96 95 6 0.03 96 3 0.01 ACGTcount: A:0.33, C:0.13, G:0.29, T:0.26 Consensus pattern (94 bp): CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGAT GAATGTGAACATGCGTATGTGTGATAAGG Found at i:42058775 original size:141 final size:141 Alignment explanation
Indices: 42058442--42058782 Score: 481 Period size: 141 Copynumber: 2.4 Consensus size: 141 42058432 AATGTGAACC 42058442 GAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAT-AAGACCGAATGGCCAATGTGATG 1 GAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAAG-CCGAATGGCCAATGTGATG * * * * * * 42058506 AATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATG 65 AATGCGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTCATGAATGTGAACATGCATATA * * 42058571 TGTGATAAGGCT 130 TGTGACAAGGCA * * * 42058583 GAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGA 1 GAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGA * 42058648 ATGCGAACATGCATATATGTGATAAGGCCGAATGGTCAATGTCATGAATGTGAACATGCATATAT 66 ATGCGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTCATGAATGTGAACATGCATATAT 42058713 GTGACAAGGCA 131 GTGACAAGGCA * * * * * 42058724 GAATGGCCAATGTGATGAACATG-GAA-GTGTATATATGTGGTAAAGCTGAATGGCTAATG 1 GAATGGCCAATGTGATG-A-ATGTGAACATGCATATATGTGATAAAGCCGAATGGCCAATG 42058783 CGAAATGTGT Statistics Matches: 177, Mismatches: 20, Indels: 6 0.87 0.10 0.03 Matches are distributed among these distances: 141 168 0.95 142 6 0.03 143 3 0.02 ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26 Consensus pattern (141 bp): GAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGA ATGCGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTCATGAATGTGAACATGCATATAT GTGACAAGGCA Found at i:42058777 original size:47 final size:47 Alignment explanation
Indices: 42058440--42058742 Score: 489 Period size: 47 Copynumber: 6.4 Consensus size: 47 42058430 TGAATGTGAA * 42058440 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGA 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG * * 42058487 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG * * 42058534 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG * * * 42058581 CTGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGG 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG * 42058628 CCGAATGGCCAATGTGATGAATGCGAACATGCATATATGTGATAAGG 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG * * * 42058675 CCGAATGGTCAATGTCATGAATGTGAACATGCATATATGTGACAAGG 1 CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG * 42058722 CAGAATGGCCAATGTGATGAA 1 CCGAATGGCCAATGTGATGAA 42058743 CATGGAAGTG Statistics Matches: 241, Mismatches: 15, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 47 241 1.00 ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25 Consensus pattern (47 bp): CCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG Found at i:42058812 original size:46 final size:46 Alignment explanation
Indices: 42058756--42058892 Score: 184 Period size: 46 Copynumber: 3.0 Consensus size: 46 42058746 GGAAGTGTAT * * 42058756 ATATGTGGTAAAGCTGAATGGCTAATGCGAAATGTGTATGAGATGG 1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG * 42058802 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG 1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG * * * * * * * 42058848 ACATGCGGTAAAGCCAAATGGCTAATGTGAGATATGTATAAGATG 1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG 42058893 TGTATATATA Statistics Matches: 80, Mismatches: 11, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 46 80 1.00 ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25 Consensus pattern (46 bp): ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG Found at i:42075552 original size:39 final size:39 Alignment explanation
Indices: 42075429--42075648 Score: 273 Period size: 40 Copynumber: 5.6 Consensus size: 39 42075419 ACTCGCTCAA * * 42075429 ATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACA- 1 ATGCCTTCGGGACTTAGCCCGGATT--AGTAACTAGCACAG * * * 42075468 ATTGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCACAA 1 A-TGCCTTCGGGACTTAGCCCGGA-TTAGTAACTAGCACAG * * 42075509 ATGCCTTCGGGACTTAGCCCGGATTAGTCACTAGTACAG 1 ATGCCTTCGGGACTTAGCCCGGATTAGTAACTAGCACAG * * 42075548 ATGCCTTCGGGACTTAGCCCGGGTTTAGTAACTTGCACAG 1 ATGCCTTCGGGACTTAGCCC-GGATTAGTAACTAGCACAG * ** 42075588 ATGCCTTCGGGACTTAGCCCGGATTAGTCACTAGTGCAG 1 ATGCCTTCGGGACTTAGCCCGGATTAGTAACTAGCACAG 42075627 ATGCCTTCGGGACTTAGCCCGG 1 ATGCCTTCGGGACTTAGCCCGG 42075649 TTTTCATCCA Statistics Matches: 160, Mismatches: 16, Indels: 10 0.86 0.09 0.05 Matches are distributed among these distances: 39 69 0.43 40 88 0.55 41 1 0.01 42 2 0.01 ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25 Consensus pattern (39 bp): ATGCCTTCGGGACTTAGCCCGGATTAGTAACTAGCACAG Found at i:42075580 original size:79 final size:79 Alignment explanation
Indices: 42075419--42075648 Score: 329 Period size: 79 Copynumber: 2.9 Consensus size: 79 42075409 GGATATAACT * * * * * 42075419 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACA-ATTGCCTTCGGGAC 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT--AGTCACTAGTACAGA-TGCCTTCGGGAC * 42075482 TTAGCCCGAATTTAGTA 63 TTAGCCCGGATTTAGTA 42075499 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTCACTAGTACAGATGCCTTCGGGACTTA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTCACTAGTACAGATGCCTTCGGGACTTA * 42075564 GCCCGGGTTTAGTA 66 GCCCGGATTTAGTA * * * 42075578 ACTTGCACAGATGCCTTCGGGACTTAGCCCGGATTAGTCACTAGTGCAGATGCCTTCGGGACTTA 1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTCACTAGTACAGATGCCTTCGGGACTTA 42075643 GCCCGG 66 GCCCGG 42075649 TTTTCATCCA Statistics Matches: 138, Mismatches: 10, Indels: 5 0.90 0.07 0.03 Matches are distributed among these distances: 79 105 0.76 80 31 0.22 81 2 0.01 ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25 Consensus pattern (79 bp): ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTCACTAGTACAGATGCCTTCGGGACTTA GCCCGGATTTAGTA Found at i:42099767 original size:40 final size:41 Alignment explanation
Indices: 42099723--42099800 Score: 104 Period size: 40 Copynumber: 1.9 Consensus size: 41 42099713 ACCAGCATTT ** * 42099723 AGCCTGCTAGGTTTTAAACCTGAATTCA-TCACCGGCACGA 1 AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCACGA ** 42099763 AGCCTGCTAGACTTTAAGTCTGAACTCATTCACCGGCA 1 AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCA 42099801 TTTCGTCTAC Statistics Matches: 32, Mismatches: 5, Indels: 1 0.84 0.13 0.03 Matches are distributed among these distances: 40 23 0.72 41 9 0.28 ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26 Consensus pattern (41 bp): AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCACGA Found at i:42099867 original size:43 final size:42 Alignment explanation
Indices: 42099818--42099961 Score: 130 Period size: 43 Copynumber: 3.3 Consensus size: 42 42099808 TACTAGGCTT * 42099818 GAAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGTCC 1 GAAGCCCGATATCATTTCACCAGCATTATAGCCTGCTAGG-CC * * * * 42099861 GAAGCCCGATATTATCTCACTAGTATTATAGCCTGCTAGGCCC 1 GAAGCCCGATATCATTTCACCAGCATTATAGCCTGCTAGG-CC * * * * 42099904 TAAGCCTGATAAT-ATTATTCACCAGC-TTAAAGCTTGCTAGGCC 1 GAAGCCCGAT-ATCA-T-TTCACCAGCATTATAGCCTGCTAGGCC * 42099947 GAGGCCCGAATATCA 1 GAAGCCCG-ATATCA 42099962 CATTTCGATA Statistics Matches: 80, Mismatches: 16, Indels: 9 0.76 0.15 0.09 Matches are distributed among these distances: 43 55 0.69 44 19 0.24 45 6 0.08 ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26 Consensus pattern (42 bp): GAAGCCCGATATCATTTCACCAGCATTATAGCCTGCTAGGCC Found at i:42106740 original size:41 final size:41 Alignment explanation
Indices: 42106682--42106812 Score: 192 Period size: 41 Copynumber: 3.2 Consensus size: 41 42106672 ACAACATTTC * 42106682 CATTTGTTATCCTTTACGGATAAC-TCCTTTTTTGACCTTTT 1 CATTTGTTATCCTTTACGGATAACTTCC-TTTTTAACCTTTT * * * 42106723 CATTTGTTATCCATTACGAAGAACTTCCTTTTTAACCTTTT 1 CATTTGTTATCCTTTACGGATAACTTCCTTTTTAACCTTTT * * 42106764 CATTTGTTATCCTTTACGGATAACTTCCTTTTCAACCTTTC 1 CATTTGTTATCCTTTACGGATAACTTCCTTTTTAACCTTTT 42106805 CATTTGTT 1 CATTTGTT 42106813 CAAAAATACC Statistics Matches: 80, Mismatches: 9, Indels: 2 0.88 0.10 0.02 Matches are distributed among these distances: 41 77 0.96 42 3 0.04 ACGTcount: A:0.20, C:0.23, G:0.08, T:0.49 Consensus pattern (41 bp): CATTTGTTATCCTTTACGGATAACTTCCTTTTTAACCTTTT Found at i:42113399 original size:31 final size:30 Alignment explanation
Indices: 42113344--42113416 Score: 83 Period size: 31 Copynumber: 2.4 Consensus size: 30 42113334 TTGTATACCT * * 42113344 AAACTATAATTTGGTGCAATTATATACGTG 1 AAACTCTAATTTGGTGCAAATATATACGTG * * * 42113374 AAGCTCTAATTGTGGTTCAAATATATACTTG 1 AAACTCTAATT-TGGTGCAAATATATACGTG * 42113405 AAACTTTAATTT 1 AAACTCTAATTT 42113417 TGATTTAATA Statistics Matches: 35, Mismatches: 7, Indels: 2 0.80 0.16 0.05 Matches are distributed among these distances: 30 10 0.29 31 25 0.71 ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40 Consensus pattern (30 bp): AAACTCTAATTTGGTGCAAATATATACGTG Found at i:42117927 original size:16 final size:17 Alignment explanation
Indices: 42117906--42117937 Score: 57 Period size: 16 Copynumber: 1.9 Consensus size: 17 42117896 ATAACAATAA 42117906 TTTAATCAT-CAAAAAG 1 TTTAATCATCCAAAAAG 42117922 TTTAATCATCCAAAAA 1 TTTAATCATCCAAAAA 42117938 TCATACATCC Statistics Matches: 15, Mismatches: 0, Indels: 1 0.94 0.00 0.06 Matches are distributed among these distances: 16 9 0.60 17 6 0.40 ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31 Consensus pattern (17 bp): TTTAATCATCCAAAAAG Found at i:42121751 original size:40 final size:42 Alignment explanation
Indices: 42121680--42121776 Score: 130 Period size: 40 Copynumber: 2.4 Consensus size: 42 42121670 TCGACTATGC 42121680 TGGCACTAAGTGTGC-AGTTCGAAATAACTTCGGCTACAA-A 1 TGGCACTAAGTGTGCGAGTTCGAAATAACTTCGGCTACAAGA * * * * 42121720 TGGCACTAAGTGTGCGAGTT-GGAATAGCTTCGGTTATAAGA 1 TGGCACTAAGTGTGCGAGTTCGAAATAACTTCGGCTACAAGA 42121761 -GGCACTAAGTGTGCGA 1 TGGCACTAAGTGTGCGA 42121777 TACCGAGATA Statistics Matches: 51, Mismatches: 4, Indels: 4 0.86 0.07 0.07 Matches are distributed among these distances: 40 46 0.90 41 5 0.10 ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26 Consensus pattern (42 bp): TGGCACTAAGTGTGCGAGTTCGAAATAACTTCGGCTACAAGA Found at i:42124859 original size:24 final size:23 Alignment explanation
Indices: 42124824--42124868 Score: 56 Period size: 24 Copynumber: 1.9 Consensus size: 23 42124814 CTGTTACGTA 42124824 GCTCTTTGTGAGCAATCCTGATAG 1 GCTCTTTGTGAGC-ATCCTGATAG * 42124848 GCTCTTCT-TGAGCTTCCTGAT 1 GCTCTT-TGTGAGCATCCTGAT 42124869 TAAAAGTTCT Statistics Matches: 19, Mismatches: 1, Indels: 3 0.83 0.04 0.13 Matches are distributed among these distances: 23 7 0.37 24 11 0.58 25 1 0.05 ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38 Consensus pattern (23 bp): GCTCTTTGTGAGCATCCTGATAG Found at i:42131551 original size:25 final size:25 Alignment explanation
Indices: 42131523--42131570 Score: 78 Period size: 25 Copynumber: 1.9 Consensus size: 25 42131513 CACAGAGTAA * * 42131523 GGATATGTTCGATTTTTGAACCTAG 1 GGATATATTCAATTTTTGAACCTAG 42131548 GGATATATTCAATTTTTGAACCT 1 GGATATATTCAATTTTTGAACCT 42131571 GAATTGTGGA Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 25 21 1.00 ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42 Consensus pattern (25 bp): GGATATATTCAATTTTTGAACCTAG Found at i:42138912 original size:19 final size:17 Alignment explanation
Indices: 42138889--42138954 Score: 71 Period size: 17 Copynumber: 3.6 Consensus size: 17 42138879 CGATTTTTTA 42138889 TAATTTTTATAAAATTT 1 TAATTTTTATAAAATTT * 42138906 TACAATTTTTTATAAAAAATT 1 T--AA-TTTTTAT-AAAATTT 42138927 TAATTTTTA-ATAAATTT 1 TAATTTTTATA-AAATTT 42138944 TAATTTTTATA 1 TAATTTTTATA 42138955 TTTTTACTAA Statistics Matches: 41, Mismatches: 2, Indels: 11 0.76 0.04 0.20 Matches are distributed among these distances: 16 1 0.02 17 15 0.37 18 7 0.17 19 4 0.10 20 7 0.17 21 7 0.17 ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56 Consensus pattern (17 bp): TAATTTTTATAAAATTT Found at i:42138934 original size:20 final size:20 Alignment explanation
Indices: 42138892--42138940 Score: 57 Period size: 19 Copynumber: 2.5 Consensus size: 20 42138882 TTTTTTATAA * 42138892 TTTTTATAAAATTTTACAAT 1 TTTTTATAAAAATTTACAAT 42138912 TTTTTATAAAAAATTT--AAT 1 TTTTTAT-AAAAATTTACAAT * 42138931 TTTTAATAAA 1 TTTTTATAAA 42138941 TTTTAATTTT Statistics Matches: 26, Mismatches: 2, Indels: 4 0.81 0.06 0.12 Matches are distributed among these distances: 18 3 0.12 19 9 0.35 20 7 0.27 21 7 0.27 ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53 Consensus pattern (20 bp): TTTTTATAAAAATTTACAAT Found at i:42138965 original size:25 final size:25 Alignment explanation
Indices: 42138925--42139018 Score: 76 Period size: 25 Copynumber: 4.0 Consensus size: 25 42138915 TTATAAAAAA * 42138925 TTTA-ATTTTTAATAAATTTTAATT 1 TTTATATTTTTACTAAATTTTAATT * 42138949 TTTATATTTTTACTAAAATTTAA-- 1 TTTATATTTTTACTAAATTTTAATT * 42138972 --TAT-TTTTT-CTAAAATTTTTATT 1 TTTATATTTTTACT-AAATTTTAATT * * 42138994 TTTATATTTTTTTCTAATTTTTAAT 1 TTTATA-TTTTTACTAAATTTTAAT 42139019 AAAAGCAGGG Statistics Matches: 55, Mismatches: 6, Indels: 16 0.71 0.08 0.21 Matches are distributed among these distances: 19 2 0.04 20 12 0.22 21 3 0.05 24 7 0.13 25 16 0.29 26 13 0.24 27 2 0.04 ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65 Consensus pattern (25 bp): TTTATATTTTTACTAAATTTTAATT Found at i:42138976 original size:19 final size:18 Alignment explanation
Indices: 42138949--42138997 Score: 71 Period size: 19 Copynumber: 2.7 Consensus size: 18 42138939 AATTTTAATT 42138949 TTTATATTTTTACTAAAA 1 TTTATATTTTTACTAAAA * 42138967 TTTAATATTTTTTCTAAAA 1 TTT-ATATTTTTACTAAAA * 42138986 TTTTTATTTTTA 1 TTTATATTTTTA 42138998 TATTTTTTTC Statistics Matches: 27, Mismatches: 3, Indels: 2 0.84 0.09 0.06 Matches are distributed among these distances: 18 10 0.37 19 17 0.63 ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63 Consensus pattern (18 bp): TTTATATTTTTACTAAAA Found at i:42140180 original size:41 final size:41 Alignment explanation
Indices: 42140106--42140186 Score: 108 Period size: 41 Copynumber: 2.0 Consensus size: 41 42140096 GACTTAGTTT * * * 42140106 ATTTAGTGGGTAAAAAATATGTTTTTGCCGTGAAGAATATA 1 ATTTAGTGGGTAAAAAATATGTTTCTACAGTGAAGAATATA * * * 42140147 ATTTGGTGGGTAAAAATTATGTTTCTATAGTGAAGAATAT 1 ATTTAGTGGGTAAAAAATATGTTTCTACAGTGAAGAATAT 42140187 GAGAAGAGAG Statistics Matches: 34, Mismatches: 6, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 41 34 1.00 ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38 Consensus pattern (41 bp): ATTTAGTGGGTAAAAAATATGTTTCTACAGTGAAGAATATA Found at i:42144838 original size:45 final size:44 Alignment explanation
Indices: 42144786--42145048 Score: 219 Period size: 45 Copynumber: 5.8 Consensus size: 44 42144776 GCAAACTTGA * 42144786 AGAAGAAGATTCATAGATATGGTGAACTTATACATGCGGTTTCAT 1 AGAAGAAGATTCATAGATAT-GTGAACTTATACATGCGGATTCAT * * ** * * 42144831 GGTAGAAGATTCAT-GAATATGGTGAACTCGTATATGTGGATTCAT 1 AGAAGAAGATTCATAG-ATAT-GTGAACTTATACATGCGGATTCAT * * * * 42144876 AGTAGAAGATTCATAGATAT-TACAGACTCATACATGTGGATTCAT 1 AGAAGAAGATTCATAGATATGT-GA-ACTTATACATGCGGATTCAT * ** * 42144921 AGAAGAAGATTAATAGATATGACAGA-TTCATACATGCTGATTCAT 1 AGAAGAAGATTCATAGATATGTGA-ACTT-ATACATGCGGATTCAT * * * 42144966 AGAAGAAGATTAATAGATATG-GAAGATTCATACATGCAGATTCAT 1 AGAAGAAGATTCATAGATATGTGAA-CTT-ATACATGCGGATTCAT * * * 42145011 AGAAGAAGATTCATAAATATGGTGGACTAATACATGCG 1 AGAAGAAGATTCATAGATAT-GTGAACTTATACATGCG 42145049 AACTGTGTTG Statistics Matches: 183, Mismatches: 25, Indels: 20 0.80 0.11 0.09 Matches are distributed among these distances: 43 2 0.01 44 4 0.02 45 172 0.94 46 3 0.02 47 2 0.01 ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29 Consensus pattern (44 bp): AGAAGAAGATTCATAGATATGTGAACTTATACATGCGGATTCAT Found at i:42144888 original size:14 final size:15 Alignment explanation
Indices: 42144869--42145025 Score: 76 Period size: 14 Copynumber: 10.5 Consensus size: 15 42144859 CGTATATGTG 42144869 GATTCATAGTA-GAA 1 GATTCATAGTATGAA * 42144883 GATTCATAGATATTACA 1 GATTCATAG-TATGA-A * * ** 42144900 GACTCATA-CATGTG 1 GATTCATAGTATGAA * 42144914 GATTCATAG-AAGAA 1 GATTCATAGTATGAA * 42144928 GATTAATAGATATGACA 1 GATTCATAG-TATGA-A * ** 42144945 GATTCATA-CATGCT 1 GATTCATAGTATGAA * 42144959 GATTCATAG-AAGAA 1 GATTCATAGTATGAA * 42144973 GATTAATAGATATGGAA 1 GATTCATAG-TAT-GAA * * 42144990 GATTCATA-CATGCA 1 GATTCATAGTATGAA * 42145004 GATTCATAG-AAGAA 1 GATTCATAGTATGAA 42145018 GATTCATA 1 GATTCATA 42145026 AATATGGTGG Statistics Matches: 105, Mismatches: 26, Indels: 24 0.68 0.17 0.15 Matches are distributed among these distances: 14 65 0.62 15 9 0.09 16 5 0.05 17 26 0.25 ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29 Consensus pattern (15 bp): GATTCATAGTATGAA Found at i:42144920 original size:90 final size:90 Alignment explanation
Indices: 42144786--42145047 Score: 266 Period size: 90 Copynumber: 2.9 Consensus size: 90 42144776 GCAAACTTGA * * * * * 42144786 AGAAGAAGATTCATAGATATGGTGA-ACTTATACATGCGGTTTCATGGTAGAAGATTCATGAATA 1 AGAAGAAGATTCATAGATAT-GTAAGACTCATACATGCGGATTCATAGAAGAAGATTCAT-AATA * * 42144850 TGGTGA-ACTCGTATATG-TGGATTCAT 64 TGGTGAGACTCATACATGCT-GATTCAT * * * 42144876 AGTAGAAGATTCATAGATAT-TACAGACTCATACATGTGGATTCATAGAAGAAGATTAATAGATA 1 AGAAGAAGATTCATAGATATGTA-AGACTCATACATGCGGATTCATAGAAGAAGATTCATA-ATA ** * 42144940 T-GACAGATTCATACATGCTGATTCAT 64 TGGTGAGACTCATACATGCTGATTCAT * * * * 42144966 AGAAGAAGATTAATAGATATGGAAGATTCATACATGCAGATTCATAGAAGAAGATTCATAAATAT 1 AGAAGAAGATTCATAGATATGTAAGACTCATACATGCGGATTCATAGAAGAAGATTCAT-AATAT * 42145031 GGTG-GACTAATACATGC 65 GGTGAGACTCATACATGC 42145048 GAACTGTGTT Statistics Matches: 140, Mismatches: 24, Indels: 16 0.78 0.13 0.09 Matches are distributed among these distances: 88 1 0.01 89 4 0.03 90 131 0.94 91 4 0.03 ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29 Consensus pattern (90 bp): AGAAGAAGATTCATAGATATGTAAGACTCATACATGCGGATTCATAGAAGAAGATTCATAATATG GTGAGACTCATACATGCTGATTCAT Found at i:42152876 original size:20 final size:20 Alignment explanation
Indices: 42152853--42152891 Score: 53 Period size: 22 Copynumber: 1.9 Consensus size: 20 42152843 TTTACTCTGA 42152853 TTTAA-TATAATATATATTTT 1 TTTAATTATAATAT-TATTTT 42152873 TTTAATTTATAATATTATT 1 TTTAA-TTATAATATTATT 42152892 AGTAACTTTA Statistics Matches: 17, Mismatches: 0, Indels: 3 0.85 0.00 0.15 Matches are distributed among these distances: 20 5 0.29 21 4 0.24 22 8 0.47 ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62 Consensus pattern (20 bp): TTTAATTATAATATTATTTT Found at i:42158478 original size:19 final size:20 Alignment explanation
Indices: 42158454--42158493 Score: 64 Period size: 19 Copynumber: 2.0 Consensus size: 20 42158444 CAATAAATGA * 42158454 ATACACATGTAT-AAATAAT 1 ATACACATATATAAAATAAT 42158473 ATACACATATATAAAATAAT 1 ATACACATATATAAAATAAT 42158493 A 1 A 42158494 AATAAGTATT Statistics Matches: 19, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 19 11 0.58 20 8 0.42 ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30 Consensus pattern (20 bp): ATACACATATATAAAATAAT Found at i:42158607 original size:25 final size:25 Alignment explanation
Indices: 42158557--42158608 Score: 70 Period size: 25 Copynumber: 2.1 Consensus size: 25 42158547 AATAATAAAG * 42158557 TAAATAAAAGAATAAACAAAGTAAA 1 TAAATAAAAGAATAAACAAAGAAAA * 42158582 TAAATAAAAGAA-AAAGAATAGAAAA 1 TAAATAAAAGAATAAACAA-AGAAAA 42158607 TA 1 TA 42158609 GAAAGAAGGT Statistics Matches: 24, Mismatches: 2, Indels: 2 0.86 0.07 0.07 Matches are distributed among these distances: 24 5 0.21 25 19 0.79 ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15 Consensus pattern (25 bp): TAAATAAAAGAATAAACAAAGAAAA Found at i:42164165 original size:41 final size:40 Alignment explanation
Indices: 42164117--42164203 Score: 102 Period size: 41 Copynumber: 2.1 Consensus size: 40 42164107 TCAAATACAT * 42164117 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATTATA 1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAA-TATA * * * * * 42164158 TTAAAACAATTCTTAAAACAATACACAAATTAAAAATATA 1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA * 42164198 ATAAAA 1 TTAAAA 42164204 AGTGATTATA Statistics Matches: 39, Mismatches: 7, Indels: 1 0.83 0.15 0.02 Matches are distributed among these distances: 40 9 0.23 41 30 0.77 ACGTcount: A:0.66, C:0.08, G:0.01, T:0.25 Consensus pattern (40 bp): TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA Done.