Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Gbar_D05 Parameters: 2 7 7 80 10 50 1000 Pmatch=0.80,Pindel=0.10 tuple sizes 0,4,5,7 tuple distances 0, 29, 159, 1000 Length: 63323194 ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32 Warning! 1953226 characters in sequence are not A, C, G, or T File 129 of 199 Found at i:43165517 original size:43 final size:43 Alignment explanation
Indices: 43165409--43165537 Score: 149 Period size: 43 Copynumber: 3.0 Consensus size: 43 43165399 AACTCGTACA * * * 43165409 ATACCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG 1 ATACCAATGTCCCAGACGTGGTCTTACACGTAAACACATATCG * * * 43165452 AT-GCACTGTCCCAGATAG-GGTCTTACACGTAAACACA-AGTCG 1 ATACCAATGTCCCAGA-CGTGGTCTTACACGTAAACACATA-TCG 43165494 ATACCAATGTCCCAGACGTGGTCTTACACG-ATAACACATATCG 1 ATACCAATGTCCCAGACGTGGTCTTACACGTA-AACACATATCG 43165537 A 1 A 43165538 AAATCCTATG Statistics Matches: 71, Mismatches: 9, Indels: 12 0.77 0.10 0.13 Matches are distributed among these distances: 41 1 0.01 42 34 0.48 43 35 0.49 44 1 0.01 ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23 Consensus pattern (43 bp): ATACCAATGTCCCAGACGTGGTCTTACACGTAAACACATATCG Found at i:43166101 original size:28 final size:29 Alignment explanation
Indices: 43166050--43166106 Score: 71 Period size: 28 Copynumber: 2.0 Consensus size: 29 43166040 TATTTCACAT ** * 43166050 TTTAGTCCCTTAATTTACACTTTTCTTAA 1 TTTAGTCCCTTAATACACACTTTTATTAA * 43166079 TTTAGT-CCTTAATACACATTTTTATTAA 1 TTTAGTCCCTTAATACACACTTTTATTAA 43166107 AACTTACTAA Statistics Matches: 24, Mismatches: 4, Indels: 1 0.83 0.14 0.03 Matches are distributed among these distances: 28 18 0.75 29 6 0.25 ACGTcount: A:0.28, C:0.18, G:0.04, T:0.51 Consensus pattern (29 bp): TTTAGTCCCTTAATACACACTTTTATTAA Found at i:43169296 original size:64 final size:61 Alignment explanation
Indices: 43169166--43169298 Score: 142 Period size: 63 Copynumber: 2.1 Consensus size: 61 43169156 TCAGGTCATT * * ** * 43169166 TTCATTTTGAGAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTTTCATTTTTATT 1 TTCATTTTGAGAAAACCACAATCATTCCCAAATGATTCCATTTCTCCA-TTTCACATTTATG * * * 43169228 TTCATTTTGGAGATAACCATAATCATTCCCAAATGTTTCCTATTTCTCCA-TTCGACCATTTATG 1 TTCATTTT-GAGAAAACCACAATCATTCCCAAATGATTCC-ATTTCTCCATTTC-A-CATTTATG 43169292 TTCATTT 1 TTCATTT 43169299 CATACATTAC Statistics Matches: 59, Mismatches: 8, Indels: 6 0.81 0.11 0.08 Matches are distributed among these distances: 62 11 0.19 63 27 0.46 64 21 0.36 ACGTcount: A:0.26, C:0.22, G:0.07, T:0.45 Consensus pattern (61 bp): TTCATTTTGAGAAAACCACAATCATTCCCAAATGATTCCATTTCTCCATTTCACATTTATG Found at i:43172877 original size:20 final size:21 Alignment explanation
Indices: 43172849--43172888 Score: 64 Period size: 20 Copynumber: 2.0 Consensus size: 21 43172839 CTCTCCAATT 43172849 AAATCGTATGG-TTATAGTTA 1 AAATCGTATGGTTTATAGTTA * 43172869 AAATTGTATGGTTTATAGTT 1 AAATCGTATGGTTTATAGTT 43172889 GAATCTTAAT Statistics Matches: 18, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 20 10 0.56 21 8 0.44 ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45 Consensus pattern (21 bp): AAATCGTATGGTTTATAGTTA Found at i:43173187 original size:32 final size:32 Alignment explanation
Indices: 43173146--43173212 Score: 89 Period size: 32 Copynumber: 2.1 Consensus size: 32 43173136 TCCTTACAAT * * * 43173146 ACAAGCAAATTGCACACAAGTGCATCTATCCC 1 ACAACCAAATTGCACACAAATGCATCCATCCC * * 43173178 ACAACCAAATTGCACATAAATTCATCCATCCC 1 ACAACCAAATTGCACACAAATGCATCCATCCC 43173210 ACA 1 ACA 43173213 CAACCAGAAA Statistics Matches: 30, Mismatches: 5, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 32 30 1.00 ACGTcount: A:0.40, C:0.33, G:0.07, T:0.19 Consensus pattern (32 bp): ACAACCAAATTGCACACAAATGCATCCATCCC Found at i:43173941 original size:24 final size:21 Alignment explanation
Indices: 43173914--43173962 Score: 53 Period size: 21 Copynumber: 2.2 Consensus size: 21 43173904 CTTATTTAAT 43173914 ATAACATTTCAAAATCAGGATATG 1 ATAACATTT-AAAATC--GATATG * * 43173938 ATAATATTTTAAATCGATATG 1 ATAACATTTAAAATCGATATG 43173959 ATAA 1 ATAA 43173963 AGATATTAAA Statistics Matches: 23, Mismatches: 2, Indels: 3 0.82 0.07 0.11 Matches are distributed among these distances: 21 10 0.43 23 5 0.22 24 8 0.35 ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35 Consensus pattern (21 bp): ATAACATTTAAAATCGATATG Found at i:43173974 original size:22 final size:21 Alignment explanation
Indices: 43173932--43173974 Score: 59 Period size: 22 Copynumber: 2.0 Consensus size: 21 43173922 TCAAAATCAG * * 43173932 GATATGATAATATTTTAAATC 1 GATATGATAAGATATTAAATC 43173953 GATATGATAAAGATATTAAATC 1 GATATGAT-AAGATATTAAATC 43173975 AATTAAAAAA 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:0.47, C:0.05, G:0.12, T:0.37 Consensus pattern (21 bp): GATATGATAAGATATTAAATC Found at i:43200526 original size:16 final size:18 Alignment explanation
Indices: 43200507--43200541 Score: 56 Period size: 16 Copynumber: 2.1 Consensus size: 18 43200497 GATGAATTCC 43200507 TGATATG-AATAT-TGTA 1 TGATATGAAATATCTGTA 43200523 TGATATGAAATATCTGTA 1 TGATATGAAATATCTGTA 43200541 T 1 T 43200542 ACTTGATCTG Statistics Matches: 17, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 16 7 0.41 17 5 0.29 18 5 0.29 ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43 Consensus pattern (18 bp): TGATATGAAATATCTGTA Found at i:43200849 original size:35 final size:35 Alignment explanation
Indices: 43200802--43200879 Score: 111 Period size: 35 Copynumber: 2.2 Consensus size: 35 43200792 CTTTGGGGCA * 43200802 ACACCGTATAAATGATATATAGGTCATTCAGGGTG 1 ACACCGTGTAAATGATATATAGGTCATTCAGGGTG * * * * 43200837 ACATCGTGTAAATGGTATATAGGTCTTTCGGGGTG 1 ACACCGTGTAAATGATATATAGGTCATTCAGGGTG 43200872 ACACCGTG 1 ACACCGTG 43200880 AAAACAATAT Statistics Matches: 37, Mismatches: 6, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 35 37 1.00 ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29 Consensus pattern (35 bp): ACACCGTGTAAATGATATATAGGTCATTCAGGGTG Found at i:43203704 original size:14 final size:13 Alignment explanation
Indices: 43203676--43203719 Score: 52 Period size: 14 Copynumber: 3.2 Consensus size: 13 43203666 TATTTGTTTC * 43203676 ATAACATGCTATA 1 ATAACATGTTATA 43203689 ATAACAGTGTTATA 1 ATAACA-TGTTATA * 43203703 ATAACAATGTAATA 1 ATAAC-ATGTTATA 43203717 ATA 1 ATA 43203720 TATTAATCCT Statistics Matches: 27, Mismatches: 2, Indels: 3 0.84 0.06 0.09 Matches are distributed among these distances: 13 6 0.22 14 20 0.74 15 1 0.04 ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32 Consensus pattern (13 bp): ATAACATGTTATA Found at i:43204604 original size:12 final size:12 Alignment explanation
Indices: 43204587--43204614 Score: 56 Period size: 12 Copynumber: 2.3 Consensus size: 12 43204577 AGGCTTTTGG 43204587 TTTTTGGATTAA 1 TTTTTGGATTAA 43204599 TTTTTGGATTAA 1 TTTTTGGATTAA 43204611 TTTT 1 TTTT 43204615 GATTACAGGT Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 16 1.00 ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64 Consensus pattern (12 bp): TTTTTGGATTAA Found at i:43205308 original size:16 final size:16 Alignment explanation
Indices: 43205289--43205322 Score: 50 Period size: 16 Copynumber: 2.1 Consensus size: 16 43205279 AAAAATATGC * 43205289 AAAAAAAAAAGAAAAT 1 AAAAAAAAAACAAAAT * 43205305 AAAATAAAAACAAAAT 1 AAAAAAAAAACAAAAT 43205321 AA 1 AA 43205323 GGTCTAACGA Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 16 16 1.00 ACGTcount: A:0.85, C:0.03, G:0.03, T:0.09 Consensus pattern (16 bp): AAAAAAAAAACAAAAT Found at i:43207682 original size:13 final size:13 Alignment explanation
Indices: 43207664--43207710 Score: 76 Period size: 13 Copynumber: 3.5 Consensus size: 13 43207654 TATCAAGTTG 43207664 TGAAAAAAAATTT 1 TGAAAAAAAATTT * 43207677 TGAAAAAAAAATTG 1 TG-AAAAAAAATTT 43207691 TGAAAAAAAATTT 1 TGAAAAAAAATTT 43207704 TGAAAAA 1 TGAAAAA 43207711 GAGAGCTAGT Statistics Matches: 31, Mismatches: 2, Indels: 2 0.89 0.06 0.06 Matches are distributed among these distances: 13 19 0.61 14 12 0.39 ACGTcount: A:0.64, C:0.00, G:0.11, T:0.26 Consensus pattern (13 bp): TGAAAAAAAATTT Found at i:43207685 original size:14 final size:14 Alignment explanation
Indices: 43207666--43207710 Score: 74 Period size: 14 Copynumber: 3.3 Consensus size: 14 43207656 TCAAGTTGTG 43207666 AAAAAAAATTTTGA 1 AAAAAAAATTTTGA * 43207680 AAAAAAAATTGTG- 1 AAAAAAAATTTTGA 43207693 AAAAAAAATTTTGA 1 AAAAAAAATTTTGA 43207707 AAAA 1 AAAA 43207711 GAGAGCTAGT Statistics Matches: 28, Mismatches: 2, Indels: 2 0.88 0.06 0.06 Matches are distributed among these distances: 13 12 0.43 14 16 0.57 ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24 Consensus pattern (14 bp): AAAAAAAATTTTGA Found at i:43212968 original size:369 final size:370 Alignment explanation
Indices: 43212275--43213008 Score: 1150 Period size: 369 Copynumber: 2.0 Consensus size: 370 43212265 GCAAACTAGA * 43212275 TATGAAAATATAATGAGACTAATTCTAAATTATCAATTAAAATACCTAAATTAAGATTTCTTCCT 1 TATGAAAATATAATGAGACTAATTCTAAATTATCAATTAAAATACCTAAACTAAGATTTCTTCCT * * * * 43212340 GTTGTATTCGACTATGCAAATGATAAAAATGATGGTTGATTGATTAGTCAATTACTAATTAAGCC 66 ATTGTATTCGACTATGAAAATGATAAAAACGATGGTTGATTGATTAGTCAATTACTAACTAAGCC * * * 43212405 AATAACCTATCCCGATTAGATCGCTTGCCACTCCTCACTAGAATCTCGTCTTAGTCTCATCCTAA 131 AATAACCTATCCCGATTAGATCACTTGCCACTCCTCACTAGAATCTCCTCTCAGTCTCATCCTAA * * * * 43212470 TTCGGAATTGCCAACTAAGTTTTTCTCTCAGTCTCACTTAGACAAGTAGTTCTTCTCTCAATCTC 196 TTCGAAATTGACAACTAAGTTCTTCTCTCAATCTCACTTAGACAAGTAGTTCTTCTCTCAATCTC * * * * 43212535 ACTACCCAATACAATTATGTCGAACTATTAAGGATAAACTCTCCTCTTTGTCTTTTTTATCTAGA 261 ACTACCCAATACAATTATATCGAACTATTAAGGATAAACTCTCCTCTCTGTCTTGTTAATCTAGA * * 43212600 TTTTCCACTAGA-GCATCAATTCTAGCGTATTAAGCAATTCTAGCG 326 TTGTCCACTAGAGGCATCAATTCTAAC-TATTAAGCAATTCTAGCG * 43212645 TATGAAAATA-AATGAGACTAATTCTAAATTATCAATTAAACTACCTAAACTAAGATTTCTTCCT 1 TATGAAAATATAATGAGACTAATTCTAAATTATCAATTAAAATACCTAAACTAAGATTTCTTCCT * 43212709 ATTGTATTCGACTATGAAAATGATAAAAACGATGGTTGATTGATTAGTCGATTACTAACTAAGCC 66 ATTGTATTCGACTATGAAAATGATAAAAACGATGGTTGATTGATTAGTCAATTACTAACTAAGCC * * 43212774 AATAACCTATCCCGATTAGATCACTTGTCATTCCTCACTAGAATCTCCTCTCAGTCTCATCCTAA 131 AATAACCTATCCCGATTAGATCACTTGCCACTCCTCACTAGAATCTCCTCTCAGTCTCATCCTAA * * * 43212839 TTTGAAATT-ACAACCTAAGTTCTTCTCTCAATCTCACTTTGACAAGTAGTTCTTCTCTTAATCT 196 TTCGAAATTGACAA-CTAAGTTCTTCTCTCAATCTCACTTAGACAAGTAGTTCTTCTCTCAATCT **** * 43212903 CACTACTTGGTACAATTATATCGAACTATTAAGTATAAACTCTCCTCTCTGTCTTGTTAATCTAG 260 CACTACCCAATACAATTATATCGAACTATTAAGGATAAACTCTCCTCTCTGTCTTGTTAATCTAG * 43212968 ATTGTCTACTAGAGGCATCAATTCTAACTATTAAGCAATTC 325 ATTGTCCACTAGAGGCATCAATTCTAACTATTAAGCAATTC 43213009 AATATAATAA Statistics Matches: 331, Mismatches: 31, Indels: 5 0.90 0.08 0.01 Matches are distributed among these distances: 368 3 0.01 369 305 0.92 370 23 0.07 ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36 Consensus pattern (370 bp): TATGAAAATATAATGAGACTAATTCTAAATTATCAATTAAAATACCTAAACTAAGATTTCTTCCT ATTGTATTCGACTATGAAAATGATAAAAACGATGGTTGATTGATTAGTCAATTACTAACTAAGCC AATAACCTATCCCGATTAGATCACTTGCCACTCCTCACTAGAATCTCCTCTCAGTCTCATCCTAA TTCGAAATTGACAACTAAGTTCTTCTCTCAATCTCACTTAGACAAGTAGTTCTTCTCTCAATCTC ACTACCCAATACAATTATATCGAACTATTAAGGATAAACTCTCCTCTCTGTCTTGTTAATCTAGA TTGTCCACTAGAGGCATCAATTCTAACTATTAAGCAATTCTAGCG Found at i:43213043 original size:22 final size:23 Alignment explanation
Indices: 43213018--43213061 Score: 56 Period size: 22 Copynumber: 2.0 Consensus size: 23 43213008 CAATATAATA 43213018 AAACAACCAA-TTAATC-AACAAT 1 AAAC-ACCAACTTAATCTAACAAT * 43213040 AAACATCAACTTAATCTAACAA 1 AAACACCAACTTAATCTAACAA 43213062 ATAACTAATC Statistics Matches: 19, Mismatches: 1, Indels: 3 0.83 0.04 0.13 Matches are distributed among these distances: 21 4 0.21 22 10 0.53 23 5 0.26 ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20 Consensus pattern (23 bp): AAACACCAACTTAATCTAACAAT Found at i:43213218 original size:81 final size:79 Alignment explanation
Indices: 43213083--43213243 Score: 268 Period size: 81 Copynumber: 2.0 Consensus size: 79 43213073 ATCAACTAAC * 43213083 AACCAATTTAGCACATAATCAAACTTTAATTTCAAACAAGCATTTTATTAAACACATGGTATGCA 1 AACCAATTTAGCAAATAATCAAACTTTAATTTCAAACAAGCATTTTATTAAACACATGGTA-G-A * * 43213148 TATAATAAAAGTAAAG 64 CATAATAAAAGAAAAG * 43213164 AACCAATTTAGCAAATAATCTAACTTTAATTTCAAACAAGCATTTTATTAAACACATGGTAGACA 1 AACCAATTTAGCAAATAATCAAACTTTAATTTCAAACAAGCATTTTATTAAACACATGGTAGACA 43213229 TAATAAAAGAAAAG 66 TAATAAAAGAAAAG 43213243 A 1 A 43213244 GTTTAAGAAA Statistics Matches: 76, Mismatches: 4, Indels: 2 0.93 0.05 0.02 Matches are distributed among these distances: 79 16 0.21 80 1 0.01 81 59 0.78 ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29 Consensus pattern (79 bp): AACCAATTTAGCAAATAATCAAACTTTAATTTCAAACAAGCATTTTATTAAACACATGGTAGACA TAATAAAAGAAAAG Found at i:43229639 original size:13 final size:12 Alignment explanation
Indices: 43229621--43229704 Score: 62 Period size: 13 Copynumber: 6.4 Consensus size: 12 43229611 GAGTAAACGA 43229621 AAATGGTGATATG 1 AAATGGT-ATATG 43229634 AAATGGATATATG 1 AAATGG-TATATG * 43229647 AAATGATTATATCG 1 AAATG-GTATAT-G * 43229661 AAATAGATATATG 1 AAAT-GGTATATG 43229674 AAATGGT-TACTTG 1 AAATGGTATA--TG * 43229687 AAATGGACATATG 1 AAATGG-TATATG 43229700 AAATG 1 AAATG 43229705 TTAAATGAAT Statistics Matches: 59, Mismatches: 4, Indels: 16 0.75 0.05 0.20 Matches are distributed among these distances: 11 2 0.03 12 2 0.03 13 41 0.69 14 11 0.19 15 3 0.05 ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31 Consensus pattern (12 bp): AAATGGTATATG Found at i:43232496 original size:20 final size:21 Alignment explanation
Indices: 43232460--43232498 Score: 55 Period size: 20 Copynumber: 1.9 Consensus size: 21 43232450 ATAGTAAATT 43232460 TTATCAAAATTAATAATTTAA 1 TTATCAAAATTAATAATTTAA 43232481 TTAT-AAAA-TAATTAATTT 1 TTATCAAAATTAA-TAATTT 43232499 TCACTTAAAT Statistics Matches: 17, Mismatches: 0, Indels: 3 0.85 0.00 0.15 Matches are distributed among these distances: 19 3 0.18 20 10 0.59 21 4 0.24 ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46 Consensus pattern (21 bp): TTATCAAAATTAATAATTTAA Found at i:43232540 original size:22 final size:22 Alignment explanation
Indices: 43232506--43232549 Score: 52 Period size: 22 Copynumber: 2.0 Consensus size: 22 43232496 TTTTCACTTA * * 43232506 AATTATTAATATATTTAATTTT 1 AATTATTAATATAATAAATTTT ** 43232528 AATTATTTTTATAATAAATTTT 1 AATTATTAATATAATAAATTTT 43232550 TACAAATTTA Statistics Matches: 18, Mismatches: 4, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 22 18 1.00 ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59 Consensus pattern (22 bp): AATTATTAATATAATAAATTTT Found at i:43238025 original size:26 final size:27 Alignment explanation
Indices: 43237991--43238043 Score: 81 Period size: 26 Copynumber: 2.0 Consensus size: 27 43237981 ACCATAGCAC 43237991 AAATCAGTCATTTACCATCGAGGGGCA 1 AAATCAGTCATTTACCATCGAGGGGCA * * 43238018 AAAT-AGTCATTTACCCTCTAGGGGCA 1 AAATCAGTCATTTACCATCGAGGGGCA 43238044 TTACGATCAT Statistics Matches: 24, Mismatches: 2, Indels: 1 0.89 0.07 0.04 Matches are distributed among these distances: 26 20 0.83 27 4 0.17 ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25 Consensus pattern (27 bp): AAATCAGTCATTTACCATCGAGGGGCA Found at i:43246004 original size:27 final size:27 Alignment explanation
Indices: 43245970--43246147 Score: 205 Period size: 27 Copynumber: 6.6 Consensus size: 27 43245960 GTAAATTGAC 43245970 AGCACTAAGTGTGCGATTTGACTATGT 1 AGCACTAAGTGTGCGATTTGACTATGT * ** * 43245997 TGCACTAAGTGTGCGAAATGAATATG- 1 AGCACTAAGTGTGCGATTTGACTATGT * * * 43246023 ATGCACTAAGTGTGCGAATTGACCATGC 1 A-GCACTAAGTGTGCGATTTGACTATGT * 43246051 GGCACTAAGTGTGCGAGTTTGACTATGT 1 AGCACTAAGTGTGCGA-TTTGACTATGT * * 43246079 AGCACTAAGTGTGCGATTTGATTACGT 1 AGCACTAAGTGTGCGATTTGACTATGT * * * 43246106 AGCACTAAGTGTGCGAGTTGATTATAT 1 AGCACTAAGTGTGCGATTTGACTATGT * 43246133 AGCACTGAGTGTGCG 1 AGCACTAAGTGTGCG 43246148 GACTCAATAT Statistics Matches: 129, Mismatches: 19, Indels: 6 0.84 0.12 0.04 Matches are distributed among these distances: 27 106 0.82 28 23 0.18 ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30 Consensus pattern (27 bp): AGCACTAAGTGTGCGATTTGACTATGT Found at i:43246084 original size:82 final size:81 Alignment explanation
Indices: 43245971--43246126 Score: 233 Period size: 82 Copynumber: 1.9 Consensus size: 81 43245961 TAAATTGACA * * 43245971 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG 1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG 43246035 TGCGAATTGACCATGCG 65 TGCGAATTGACCATGCG ** * 43246052 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG 1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG * 43246117 TGCGAGTTGA 65 TGCGAATTGA 43246127 TTATATAGCA Statistics Matches: 67, Mismatches: 6, Indels: 3 0.88 0.08 0.04 Matches are distributed among these distances: 81 15 0.22 82 51 0.76 83 1 0.01 ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29 Consensus pattern (81 bp): GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT GCGAATTGACCATGCG Found at i:43246138 original size:82 final size:81 Alignment explanation
Indices: 43245968--43246147 Score: 227 Period size: 82 Copynumber: 2.2 Consensus size: 81 43245958 GAGTAAATTG * * 43245968 ACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAG 1 ACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG 43246033 TGTGCGAATTGACCAT 66 TGTGCGAATTGACCAT * * ** * 43246049 GCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTA 1 ACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA * ** 43246113 AGTGTGCGAGTTGATTAT 64 AGTGTGCGAATTGACCAT * * 43246131 ATAGCACTGAGTGTGCG 1 ACAGCACTAAGTGTGCG 43246148 GACTCAATAT Statistics Matches: 83, Mismatches: 14, Indels: 3 0.83 0.14 0.03 Matches are distributed among these distances: 81 17 0.20 82 66 0.80 ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29 Consensus pattern (81 bp): ACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAG TGTGCGAATTGACCAT Found at i:43254230 original size:27 final size:27 Alignment explanation
Indices: 43254196--43254373 Score: 205 Period size: 27 Copynumber: 6.6 Consensus size: 27 43254186 TAAATTGTAC 43254196 AGCACTAAGTGTGCGATTTGACTATGT 1 AGCACTAAGTGTGCGATTTGACTATGT * ** * 43254223 TGCACTAAGTGTGCGAAATGAATATG- 1 AGCACTAAGTGTGCGATTTGACTATGT * * * 43254249 ATGCACTAAGTGTGCGAATTGACCATGC 1 A-GCACTAAGTGTGCGATTTGACTATGT * 43254277 GGCACTAAGTGTGCGAGTTTGACTATGT 1 AGCACTAAGTGTGCGA-TTTGACTATGT * * 43254305 AGCACTAAGTGTGCGATTTGATTACGT 1 AGCACTAAGTGTGCGATTTGACTATGT * * * 43254332 AGCACTAAGTGTGCGAGTTGATTATAT 1 AGCACTAAGTGTGCGATTTGACTATGT * 43254359 AGCACTGAGTGTGCG 1 AGCACTAAGTGTGCG 43254374 GACTCAATAT Statistics Matches: 129, Mismatches: 19, Indels: 6 0.84 0.12 0.04 Matches are distributed among these distances: 27 106 0.82 28 23 0.18 ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30 Consensus pattern (27 bp): AGCACTAAGTGTGCGATTTGACTATGT Found at i:43254310 original size:82 final size:81 Alignment explanation
Indices: 43254197--43254352 Score: 233 Period size: 82 Copynumber: 1.9 Consensus size: 81 43254187 AAATTGTACA * * 43254197 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG 1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG 43254261 TGCGAATTGACCATGCG 65 TGCGAATTGACCATGCG ** * 43254278 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG 1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG * 43254343 TGCGAGTTGA 65 TGCGAATTGA 43254353 TTATATAGCA Statistics Matches: 67, Mismatches: 6, Indels: 3 0.88 0.08 0.04 Matches are distributed among these distances: 81 15 0.22 82 51 0.76 83 1 0.01 ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29 Consensus pattern (81 bp): GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT GCGAATTGACCATGCG Found at i:43254364 original size:82 final size:81 Alignment explanation
Indices: 43254193--43254373 Score: 229 Period size: 82 Copynumber: 2.2 Consensus size: 81 43254183 GAGTAAATTG * * 43254193 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA 1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA 43254258 GTGTGCGAATTGACCA 66 GTGTGCGAATTGACCA * * ** * 43254274 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT 1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT * ** 43254338 AAGTGTGCGAGTTGATTA 64 AAGTGTGCGAATTGACCA * * 43254356 TATAGCACTGAGTGTGCG 1 TACAGCACTAAGTGTGCG 43254374 GACTCAATAT Statistics Matches: 84, Mismatches: 14, Indels: 3 0.83 0.14 0.03 Matches are distributed among these distances: 81 18 0.21 82 66 0.79 ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30 Consensus pattern (81 bp): TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA GTGTGCGAATTGACCA Found at i:43259188 original size:33 final size:33 Alignment explanation
Indices: 43259144--43259234 Score: 103 Period size: 33 Copynumber: 2.8 Consensus size: 33 43259134 ACTTACCTCA 43259144 TGTTTATTGTCCTGACAAACTATCTCTGTTTCG 1 TGTTTATTGTCCTGACAAACTATCTCTGTTTCG * ** * * 43259177 TGTTTACTGTCCTGGA-GGACTATCTTTGTTTTG 1 TGTTTATTGTCCT-GACAAACTATCTCTGTTTCG ** 43259210 TGTTTATTGTCCCAACAAACTATCT 1 TGTTTATTGTCCTGACAAACTATCT 43259235 GTATGGATTC Statistics Matches: 46, Mismatches: 10, Indels: 4 0.77 0.17 0.07 Matches are distributed among these distances: 32 1 0.02 33 43 0.93 34 2 0.04 ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45 Consensus pattern (33 bp): TGTTTATTGTCCTGACAAACTATCTCTGTTTCG Found at i:43261902 original size:6 final size:6 Alignment explanation
Indices: 43261891--43261919 Score: 58 Period size: 6 Copynumber: 4.8 Consensus size: 6 43261881 ATGGATCTTG 43261891 ACATAC ACATAC ACATAC ACATAC ACATA 1 ACATAC ACATAC ACATAC ACATAC ACATA 43261920 AATCACATGT Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 23 1.00 ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17 Consensus pattern (6 bp): ACATAC Found at i:43265549 original size:3 final size:3 Alignment explanation
Indices: 43265535--43265568 Score: 59 Period size: 3 Copynumber: 11.3 Consensus size: 3 43265525 TTTTTAATCA * 43265535 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT T 1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T 43265569 CCTTCTTTAT Statistics Matches: 29, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 3 29 1.00 ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65 Consensus pattern (3 bp): TAT Found at i:43269227 original size:26 final size:26 Alignment explanation
Indices: 43269198--43269247 Score: 82 Period size: 26 Copynumber: 1.9 Consensus size: 26 43269188 AATAAAAGAA * 43269198 AACATTCAATATTTCAGTTTAATTAG 1 AACATTCAAGATTTCAGTTTAATTAG * 43269224 AACATTCAGGATTTCAGTTTAATT 1 AACATTCAAGATTTCAGTTTAATT 43269248 TGCATTAATT Statistics Matches: 22, Mismatches: 2, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 26 22 1.00 ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42 Consensus pattern (26 bp): AACATTCAAGATTTCAGTTTAATTAG Found at i:43271178 original size:26 final size:26 Alignment explanation
Indices: 43271149--43271198 Score: 100 Period size: 26 Copynumber: 1.9 Consensus size: 26 43271139 AATAAAAGAA 43271149 AACATTCAATATTTCAGTTTAATTAG 1 AACATTCAATATTTCAGTTTAATTAG 43271175 AACATTCAATATTTCAGTTTAATT 1 AACATTCAATATTTCAGTTTAATT 43271199 TGCATTAATT Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 26 24 1.00 ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44 Consensus pattern (26 bp): AACATTCAATATTTCAGTTTAATTAG Found at i:43273319 original size:26 final size:26 Alignment explanation
Indices: 43273270--43273319 Score: 73 Period size: 26 Copynumber: 1.9 Consensus size: 26 43273260 AATAAAAGAA * * 43273270 AACATTCAATATTTCAGTTGAATTAG 1 AACATTCAATATTTAAATTGAATTAG * 43273296 AACATTCAATATTTAAATTTAATT 1 AACATTCAATATTTAAATTGAATT 43273320 TGCATTAATT Statistics Matches: 21, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 26 21 1.00 ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42 Consensus pattern (26 bp): AACATTCAATATTTAAATTGAATTAG Found at i:43279743 original size:12 final size:12 Alignment explanation
Indices: 43279726--43279750 Score: 50 Period size: 12 Copynumber: 2.1 Consensus size: 12 43279716 AGCAATATCG 43279726 GATATAGTACAC 1 GATATAGTACAC 43279738 GATATAGTACAC 1 GATATAGTACAC 43279750 G 1 G 43279751 TCGCCGACAG Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 13 1.00 ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24 Consensus pattern (12 bp): GATATAGTACAC Found at i:43281431 original size:31 final size:31 Alignment explanation
Indices: 43281338--43281433 Score: 165 Period size: 31 Copynumber: 3.1 Consensus size: 31 43281328 GGCAAATTAC * 43281338 AAGAGTAATTGAATCCTAATAAAACTCTTTC 1 AAGAGTAATTGAATCCTAATAAAACTCTTTA * 43281369 AAGATTAATTGAATCCTAATAAAAACTCTTTA 1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA 43281401 AAGAGTAATTGAATCCTAATAAAACTCTTTA 1 AAGAGTAATTGAATCCTAATAAAACTCTTTA 43281432 AA 1 AA 43281434 ATTATCTAAG Statistics Matches: 61, Mismatches: 3, Indels: 2 0.92 0.05 0.03 Matches are distributed among these distances: 31 32 0.52 32 29 0.48 ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32 Consensus pattern (31 bp): AAGAGTAATTGAATCCTAATAAAACTCTTTA Found at i:43286486 original size:4 final size:4 Alignment explanation
Indices: 43286474--43286512 Score: 62 Period size: 4 Copynumber: 10.0 Consensus size: 4 43286464 TAAAATTAGT * 43286474 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TACA TAAA TAAA 1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA 43286513 AGGATAGATT Statistics Matches: 32, Mismatches: 2, Indels: 2 0.89 0.06 0.06 Matches are distributed among these distances: 3 3 0.09 4 29 0.91 ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26 Consensus pattern (4 bp): TAAA Found at i:43286874 original size:31 final size:32 Alignment explanation
Indices: 43286815--43286879 Score: 123 Period size: 32 Copynumber: 2.1 Consensus size: 32 43286805 GGCAAATTAC 43286815 AAGAGTAATTGAATCCTAATAAAAACTCTTTA 1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA 43286847 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA 1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA 43286878 AA 1 AA 43286880 ATTATCTAAG Statistics Matches: 33, Mismatches: 0, Indels: 1 0.97 0.00 0.03 Matches are distributed among these distances: 31 13 0.39 32 20 0.61 ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31 Consensus pattern (32 bp): AAGAGTAATTGAATCCTAATAAAAACTCTTTA Found at i:43295460 original size:40 final size:40 Alignment explanation
Indices: 43295308--43295453 Score: 181 Period size: 40 Copynumber: 3.6 Consensus size: 40 43295298 TTGAATGATG * * * * 43295308 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA * 43295348 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA 1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA * 43295388 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA 1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA * 43295429 -CCGGGCTATGTCCCGAAGGCATTTG 1 TCCGGGCTAAGTCCCGAAGGCATTTG 43295454 AACGAGTAGC Statistics Matches: 93, Mismatches: 9, Indels: 8 0.85 0.08 0.07 Matches are distributed among these distances: 39 1 0.01 40 82 0.88 41 10 0.11 ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26 Consensus pattern (40 bp): TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA Found at i:43295460 original size:80 final size:80 Alignment explanation
Indices: 43295308--43295486 Score: 195 Period size: 80 Copynumber: 2.2 Consensus size: 80 43295298 TTGAATGATG * * 43295308 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT 1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT ** 43295373 GTGCGAGTTA-CTAAA 66 GAACGAG-TAGCTAAA * * * * * 43295388 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT 1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT * 43295451 TTGAACGAGTAGCTATA 64 TTGAACGAGTAGCTAAA * * 43295468 TCC-GGTTAAATTCCGAAGG 1 TCCGGGTTAAGTCCCGAAGG 43295487 TACGTGATTT Statistics Matches: 84, Mismatches: 12, Indels: 7 0.82 0.12 0.07 Matches are distributed among these distances: 79 17 0.20 80 60 0.71 81 7 0.08 ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26 Consensus pattern (80 bp): TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT GAACGAGTAGCTAAA Found at i:43298824 original size:31 final size:31 Alignment explanation
Indices: 43298731--43298826 Score: 174 Period size: 31 Copynumber: 3.1 Consensus size: 31 43298721 GGCAAATTAC * 43298731 AAGAGTAATTGAATCCTAATAAAACTCTTTC 1 AAGAGTAATTGAATCCTAATAAAACTCTTTA 43298762 AAGAGTAATTGAATCCTAATAAAAACTCTTTA 1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA 43298794 AAGAGTAATTGAATCCTAATAAAACTCTTTA 1 AAGAGTAATTGAATCCTAATAAAACTCTTTA 43298825 AA 1 AA 43298827 ATTATCTAAG Statistics Matches: 63, Mismatches: 1, Indels: 2 0.95 0.02 0.03 Matches are distributed among these distances: 31 33 0.52 32 30 0.48 ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31 Consensus pattern (31 bp): AAGAGTAATTGAATCCTAATAAAACTCTTTA Found at i:43304409 original size:45 final size:46 Alignment explanation
Indices: 43304336--43304435 Score: 159 Period size: 47 Copynumber: 2.2 Consensus size: 46 43304326 AGGTAGGCAA 43304336 CTTTTTTTTTTGCACTGTTTGCTTTTTTTTTAAGATTTTTCTCAACT 1 CTTTTTTTTTTGCACTGTTTGC-TTTTTTTTAAGATTTTTCTCAACT ** 43304383 CTTTTTTTTTTGCGTTGTTTGCTTTTTTTT-AGATTTTTCTCAACT 1 CTTTTTTTTTTGCACTGTTTGCTTTTTTTTAAGATTTTTCTCAACT 43304428 -TTTTTTTT 1 CTTTTTTTT 43304436 GCGCTTTTTA Statistics Matches: 51, Mismatches: 2, Indels: 3 0.91 0.04 0.05 Matches are distributed among these distances: 44 8 0.16 45 15 0.29 46 8 0.16 47 20 0.39 ACGTcount: A:0.10, C:0.13, G:0.09, T:0.68 Consensus pattern (46 bp): CTTTTTTTTTTGCACTGTTTGCTTTTTTTTAAGATTTTTCTCAACT Found at i:43305056 original size:31 final size:31 Alignment explanation
Indices: 43304963--43305058 Score: 174 Period size: 31 Copynumber: 3.1 Consensus size: 31 43304953 GGCAAATTAC * 43304963 AAGAGTAATTGAATCCTAATAAAACTCTTTC 1 AAGAGTAATTGAATCCTAATAAAACTCTTTA 43304994 AAGAGTAATTGAATCCTAATAAAAACTCTTTA 1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA 43305026 AAGAGTAATTGAATCCTAATAAAACTCTTTA 1 AAGAGTAATTGAATCCTAATAAAACTCTTTA 43305057 AA 1 AA 43305059 ATTATCTAAG Statistics Matches: 63, Mismatches: 1, Indels: 2 0.95 0.02 0.03 Matches are distributed among these distances: 31 33 0.52 32 30 0.48 ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31 Consensus pattern (31 bp): AAGAGTAATTGAATCCTAATAAAACTCTTTA Found at i:43310615 original size:26 final size:26 Alignment explanation
Indices: 43310586--43310635 Score: 100 Period size: 26 Copynumber: 1.9 Consensus size: 26 43310576 AATAAAAGAA 43310586 AACATTCAATATTTCAGTTTAATTAG 1 AACATTCAATATTTCAGTTTAATTAG 43310612 AACATTCAATATTTCAGTTTAATT 1 AACATTCAATATTTCAGTTTAATT 43310636 TGCATTAATT Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 26 24 1.00 ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44 Consensus pattern (26 bp): AACATTCAATATTTCAGTTTAATTAG Found at i:43314752 original size:26 final size:26 Alignment explanation
Indices: 43314723--43314772 Score: 91 Period size: 26 Copynumber: 1.9 Consensus size: 26 43314713 AATGAAAGAA 43314723 AACATTCAATATTTCAGTTTAATTAG 1 AACATTCAATATTTCAGTTTAATTAG * 43314749 AACATTCACTATTTCAGTTTAATT 1 AACATTCAATATTTCAGTTTAATT 43314773 TGCATTAATT Statistics Matches: 23, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 26 23 1.00 ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44 Consensus pattern (26 bp): AACATTCAATATTTCAGTTTAATTAG Found at i:43316871 original size:26 final size:26 Alignment explanation
Indices: 43316842--43316893 Score: 86 Period size: 26 Copynumber: 2.0 Consensus size: 26 43316832 AATAAAAGAA * 43316842 AACATTCAGTATTTCAATTTAATTTG 1 AACATTCAATATTTCAATTTAATTTG * 43316868 AACATTCAATATTTCAGTTTAATTTG 1 AACATTCAATATTTCAATTTAATTTG 43316894 CATTAATTTT Statistics Matches: 24, Mismatches: 2, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 26 24 1.00 ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46 Consensus pattern (26 bp): AACATTCAATATTTCAATTTAATTTG Found at i:43320151 original size:12 final size:11 Alignment explanation
Indices: 43320099--43320154 Score: 53 Period size: 12 Copynumber: 5.1 Consensus size: 11 43320089 TCCAAATAAG 43320099 TAAAAT-AAAA 1 TAAAATAAAAA 43320109 TAAAAT-AAAA 1 TAAAATAAAAA * * 43320119 TAAAGTGATAAA 1 TAAAAT-AAAAA * 43320131 TAAAGTAAAAA 1 TAAAATAAAAA 43320142 TAAAAATAAAAA 1 T-AAAATAAAAA 43320154 T 1 T 43320155 TGGGTTGCCT Statistics Matches: 39, Mismatches: 4, Indels: 4 0.83 0.09 0.09 Matches are distributed among these distances: 10 15 0.38 11 5 0.13 12 19 0.49 ACGTcount: A:0.73, C:0.00, G:0.05, T:0.21 Consensus pattern (11 bp): TAAAATAAAAA Found at i:43320154 original size:6 final size:5 Alignment explanation
Indices: 43320099--43320152 Score: 54 Period size: 5 Copynumber: 10.0 Consensus size: 5 43320089 TCCAAATAAG * * 43320099 TAAAA TAAAA TAAAA TAAAA TAAAG TGATAAA TAAAG TAAAAA TAAAAA 1 TAAAA TAAAA TAAAA TAAAA TAAAA T-A-AAA TAAAA T-AAAA T-AAAA 43320148 TAAAA 1 TAAAA 43320153 ATTGGGTTGC Statistics Matches: 42, Mismatches: 4, Indels: 6 0.81 0.08 0.12 Matches are distributed among these distances: 5 27 0.64 6 12 0.29 7 3 0.07 ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20 Consensus pattern (5 bp): TAAAA Found at i:43329123 original size:26 final size:26 Alignment explanation
Indices: 43329086--43329135 Score: 75 Period size: 26 Copynumber: 1.9 Consensus size: 26 43329076 AATAAAAGAA * 43329086 AACATTATATATTTTAGTTTAATTAG 1 AACATTATATATTTCAGTTTAATTAG 43329112 AACATTCA-ATATTTCAGTTTAATT 1 AACATT-ATATATTTCAGTTTAATT 43329136 TTCATTAATT Statistics Matches: 22, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 26 21 0.95 27 1 0.05 ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48 Consensus pattern (26 bp): AACATTATATATTTCAGTTTAATTAG Found at i:43331228 original size:26 final size:26 Alignment explanation
Indices: 43331199--43331248 Score: 91 Period size: 26 Copynumber: 1.9 Consensus size: 26 43331189 AATAAAAGAA * 43331199 AACATTCAATATTTCAGTTTAATTAG 1 AACATTCAATATTTAAGTTTAATTAG 43331225 AACATTCAATATTTAAGTTTAATT 1 AACATTCAATATTTAAGTTTAATT 43331249 TTCATTAATT Statistics Matches: 23, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 26 23 1.00 ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44 Consensus pattern (26 bp): AACATTCAATATTTAAGTTTAATTAG Found at i:43333340 original size:26 final size:26 Alignment explanation
Indices: 43333311--43333360 Score: 100 Period size: 26 Copynumber: 1.9 Consensus size: 26 43333301 AATAAAAGAA 43333311 AACATTCAATATTTCAGTTTAATTAG 1 AACATTCAATATTTCAGTTTAATTAG 43333337 AACATTCAATATTTCAGTTTAATT 1 AACATTCAATATTTCAGTTTAATT 43333361 TGCATTATTT Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 26 24 1.00 ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44 Consensus pattern (26 bp): AACATTCAATATTTCAGTTTAATTAG Found at i:43337313 original size:26 final size:26 Alignment explanation
Indices: 43337284--43337333 Score: 91 Period size: 26 Copynumber: 1.9 Consensus size: 26 43337274 AATAAAAGAA 43337284 AACATTCAATATTTCAATTTAATTAG 1 AACATTCAATATTTCAATTTAATTAG * 43337310 AACATTCAATATTTCAGTTTAATT 1 AACATTCAATATTTCAATTTAATT 43337334 TTCATTAATT Statistics Matches: 23, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 26 23 1.00 ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44 Consensus pattern (26 bp): AACATTCAATATTTCAATTTAATTAG Found at i:43339241 original size:26 final size:26 Alignment explanation
Indices: 43339212--43339261 Score: 91 Period size: 26 Copynumber: 1.9 Consensus size: 26 43339202 AATAAAAGAA 43339212 AACATTCAATATTTCAATTTAATTAG 1 AACATTCAATATTTCAATTTAATTAG * 43339238 AACATTCAATATTTCAGTTTAATT 1 AACATTCAATATTTCAATTTAATT 43339262 TTCATTAATT Statistics Matches: 23, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 26 23 1.00 ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44 Consensus pattern (26 bp): AACATTCAATATTTCAATTTAATTAG Found at i:43352687 original size:26 final size:26 Alignment explanation
Indices: 43352651--43352700 Score: 91 Period size: 26 Copynumber: 1.9 Consensus size: 26 43352641 CTGAGTGGCA 43352651 AACATTCAATATTTCAGTTTAATTAG 1 AACATTCAATATTTCAGTTTAATTAG * 43352677 AACATTCAATATTTTAGTTTAATT 1 AACATTCAATATTTCAGTTTAATT 43352701 TGTATTAATT Statistics Matches: 23, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 26 23 1.00 ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46 Consensus pattern (26 bp): AACATTCAATATTTCAGTTTAATTAG Found at i:43356959 original size:47 final size:48 Alignment explanation
Indices: 43356869--43356960 Score: 132 Period size: 47 Copynumber: 1.9 Consensus size: 48 43356859 ATGGCAACAA * * * 43356869 GTGATATGTGATTTCTGTATAAGACCATATCTGGGATATGGCATCGGT 1 GTGATATGTGACTACTGTATAAGACCATAGCTGGGATATGGCATCGGT * * 43356917 GTGATATGT-ACTACTGTGTAAGACCATAGCTGGGCTATGGCATC 1 GTGATATGTGACTACTGTATAAGACCATAGCTGGGATATGGCATC 43356961 AATATGTAAA Statistics Matches: 39, Mismatches: 5, Indels: 1 0.87 0.11 0.02 Matches are distributed among these distances: 47 30 0.77 48 9 0.23 ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33 Consensus pattern (48 bp): GTGATATGTGACTACTGTATAAGACCATAGCTGGGATATGGCATCGGT Found at i:43358207 original size:11 final size:11 Alignment explanation
Indices: 43358191--43358217 Score: 54 Period size: 11 Copynumber: 2.5 Consensus size: 11 43358181 ATCGTATAAG 43358191 AACATTAGCTA 1 AACATTAGCTA 43358202 AACATTAGCTA 1 AACATTAGCTA 43358213 AACAT 1 AACAT 43358218 ATTAATAGAT Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 11 16 1.00 ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26 Consensus pattern (11 bp): AACATTAGCTA Found at i:43359844 original size:51 final size:51 Alignment explanation
Indices: 43359774--43360002 Score: 214 Period size: 51 Copynumber: 4.5 Consensus size: 51 43359764 AGGTCGTATT * * 43359774 TGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGATCACTTG 1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCATCGATCACGTG * * * * ** * 43359825 TGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT-GGTCACGTG 1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGAAT-AGCATCGATCACGTG * *** * * * * 43359876 TGTACTACTATGTGCAGGCTACTACATGTACCAGAAT-G-ATAGGTCGCATG 1 TGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCATCGATCACGTG * * 43359926 TGTAGTACTATGTGCAGGCTACTATGCATACC-AGATAGCTTCGATCACGTG 1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGA-ATAGCATCGATCACGTG * * 43359977 CGTAGTACTATGTGCAAGCTACTATG 1 TGTAGTACTATGTGCAGGCTACTATG 43360003 TGAACCGGGT Statistics Matches: 144, Mismatches: 28, Indels: 12 0.78 0.15 0.07 Matches are distributed among these distances: 48 1 0.01 49 4 0.03 50 35 0.24 51 99 0.69 52 5 0.03 ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30 Consensus pattern (51 bp): TGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCATCGATCACGTG Found at i:43359998 original size:152 final size:152 Alignment explanation
Indices: 43359717--43360000 Score: 464 Period size: 152 Copynumber: 1.9 Consensus size: 152 43359707 AGTTGCTAGA * * * * 43359717 TCACGTGTGTAGCACTATGTGCAGGCTAGTACATGTACCGGAATGATAGGTCGTATTTGTAGTAC 1 TCACGTGTGTAGCACTATGTGCAGGCTACTACATGTACCAGAATGATAGGTCGCATGTGTAGTAC * * * * 43359782 TATGTGCAGGCTACTATGCGTACCGAATAGCTTCGATCACTTGTGTAGTACTATGTGCAGGCTAC 66 TATGTGCAGGCTACTATGCATACCGAATAGCTTCGATCACGTGCGTAGTACTATGTGCAAGCTAC 43359847 TACGTGTATCGGATGAAAATGG 131 TACGTGTATCGGATGAAAATGG 43359869 TCACGTGTGTA-CTACTATGTGCAGGCTACTACATGTACCAGAATGATAGGTCGCATGTGTAGTA 1 TCACGTGTGTAGC-ACTATGTGCAGGCTACTACATGTACCAGAATGATAGGTCGCATGTGTAGTA 43359933 CTATGTGCAGGCTACTATGCATACC-AGATAGCTTCGATCACGTGCGTAGTACTATGTGCAAGCT 65 CTATGTGCAGGCTACTATGCATACCGA-ATAGCTTCGATCACGTGCGTAGTACTATGTGCAAGCT 43359997 ACTA 129 ACTA 43360001 TGTGAACCGG Statistics Matches: 122, Mismatches: 8, Indels: 4 0.91 0.06 0.03 Matches are distributed among these distances: 151 2 0.02 152 120 0.98 ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30 Consensus pattern (152 bp): TCACGTGTGTAGCACTATGTGCAGGCTACTACATGTACCAGAATGATAGGTCGCATGTGTAGTAC TATGTGCAGGCTACTATGCATACCGAATAGCTTCGATCACGTGCGTAGTACTATGTGCAAGCTAC TACGTGTATCGGATGAAAATGG Found at i:43364911 original size:26 final size:26 Alignment explanation
Indices: 43364882--43364933 Score: 104 Period size: 26 Copynumber: 2.0 Consensus size: 26 43364872 AAGAAAAGAA 43364882 AACATTCAATATTTTAGTTTAATTAG 1 AACATTCAATATTTTAGTTTAATTAG 43364908 AACATTCAATATTTTAGTTTAATTAG 1 AACATTCAATATTTTAGTTTAATTAG 43364934 CATTAATTTT Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 26 26 1.00 ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46 Consensus pattern (26 bp): AACATTCAATATTTTAGTTTAATTAG Found at i:43364944 original size:21 final size:24 Alignment explanation
Indices: 43364883--43364940 Score: 82 Period size: 26 Copynumber: 2.3 Consensus size: 24 43364873 AGAAAAGAAA 43364883 ACATTCAATATTTTAGTTTAATTAG 1 ACATT-AATATTTTAGTTTAATTAG 43364908 AACATTCAATATTTTAGTTTAATTAG 1 -ACATT-AATATTTTAGTTTAATTAG 43364934 -CATTAAT 1 ACATTAAT 43364941 TTTAATTACT Statistics Matches: 32, Mismatches: 0, Indels: 3 0.91 0.00 0.09 Matches are distributed among these distances: 23 3 0.09 24 4 0.12 26 25 0.78 ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47 Consensus pattern (24 bp): ACATTAATATTTTAGTTTAATTAG Found at i:43367204 original size:27 final size:29 Alignment explanation
Indices: 43367174--43367232 Score: 68 Period size: 29 Copynumber: 2.1 Consensus size: 29 43367164 ATTTATGAAA * 43367174 ATAAA-GAAAA-ATGTATAAAAAATATAT 1 ATAAATGAAAATATATATAAAAAATATAT * * * 43367201 ATAAATTAAAATATATGTTAAAAATATAT 1 ATAAATGAAAATATATATAAAAAATATAT 43367230 ATA 1 ATA 43367233 TGTATTTGAG Statistics Matches: 26, Mismatches: 4, Indels: 2 0.81 0.12 0.06 Matches are distributed among these distances: 27 5 0.19 28 4 0.15 29 17 0.65 ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32 Consensus pattern (29 bp): ATAAATGAAAATATATATAAAAAATATAT Found at i:43369140 original size:44 final size:43 Alignment explanation
Indices: 43369082--43369194 Score: 118 Period size: 43 Copynumber: 2.6 Consensus size: 43 43369072 CTAATCCACT * * * * * 43369082 CCACTACAACTTTAGGAAGATAGGATTTGTTTATTCAGTCTGCC 1 CCACTGCAACTTTAGGAAGATAAGACTT-CTTACTCAGTCTGCC * ** * 43369126 CCACTGCAATTTTAGGGGGATAAGACTTCTTACTCAGTCTGCT 1 CCACTGCAACTTTAGGAAGATAAGACTTCTTACTCAGTCTGCC * * 43369169 CCACTGCAACTTCAGGGAGATAAGAC 1 CCACTGCAACTTTAGGAAGATAAGAC 43369195 CCGATGTGAT Statistics Matches: 57, Mismatches: 12, Indels: 1 0.81 0.17 0.01 Matches are distributed among these distances: 43 35 0.61 44 22 0.39 ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29 Consensus pattern (43 bp): CCACTGCAACTTTAGGAAGATAAGACTTCTTACTCAGTCTGCC Found at i:43369712 original size:218 final size:217 Alignment explanation
Indices: 43369073--43369751 Score: 862 Period size: 208 Copynumber: 3.2 Consensus size: 217 43369063 CCCATCATTC * * * * * ** * * * 43369073 TAATCCACTCCACTACAACTTTAGGAAGATAGGATTTG-TTTATTCAG-TCTGCCCCACTGCAAT 1 TAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGCT-TGCCCCACTGTAAC * * ** 43369136 TTTAGGGGGATAAGAC-TT-CTTACTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGA 65 TTCAGGGGGATAAGACTTTGCTTACTTAGTCTGCTCCACTG-AACTTCAGGGAGATAAGACTAGA * * * * 43369199 TGTGATCTACTCTACTGCACCTTCAGAGAGATAAGATCTGTAATTTTAATCCACTGCACTGCAAC 129 TGTGATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAAC 43369264 TTCAGGGAGATAGGATTATTGGCTT 193 TTCAGGGAGATAGGATTATTGGCTT * * * * * 43369289 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGTCCCACTGTAACT 1 TAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGCTTGCCCCACTGTAACT * ** 43369354 TCAGGGGGATAAGGCTTTGCTTACTTA----G-T---CT-AACTTCAGGGAGATAAGACTAGAAA 66 TCAGGGGGATAAGACTTTGCTTACTTAGTCTGCTCCACTGAACTTCAGGGAGATAAGACTAGATG * * * * * * 43369410 CGATCTGCTTTCTACAACTTCAGAAAGATAAGATCTGTGTTTTTAATCCACTCCATTGCAACTTC 131 TGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTC 43369475 AGGGAGATAGGATTATTGGCTT 196 AGGGAGATAGGATTATTGGCTT 43369497 TAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGCTTGCCCCACTGTAACT 1 TAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGCTTGCCCCACTGTAACT 43369562 TCAGGGGGATAAGACTTTGCTTACTTAGTCTGCTCCACTGAAACTTCAGGGAGATAAGACTAGAT 66 TCAGGGGGATAAGACTTTGCTTACTTAGTCTGCTCCACTG-AACTTCAGGGAGATAAGACTAGAT * * ** 43369627 GTGATTTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTAAAACTT 130 GTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTT 43369692 CAGGGAGATAGGATTATTGGCTT 195 CAGGGAGATAGGATTATTGGCTT * * * * * 43369715 TAATCTGCCCCATTGCAACTTTAGGGAGATAAGATTC 1 TAATCTACTCCACTACAACTTCAGGGAGATAAGATTC 43369752 TCTATATTCA Statistics Matches: 396, Mismatches: 53, Indels: 26 0.83 0.11 0.05 Matches are distributed among these distances: 208 155 0.39 209 29 0.07 211 2 0.01 212 1 0.00 213 1 0.00 214 1 0.00 215 1 0.00 216 34 0.09 217 31 0.08 218 134 0.34 219 7 0.02 ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30 Consensus pattern (217 bp): TAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGCTTGCCCCACTGTAACT TCAGGGGGATAAGACTTTGCTTACTTAGTCTGCTCCACTGAACTTCAGGGAGATAAGACTAGATG TGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTC AGGGAGATAGGATTATTGGCTT Found at i:43371029 original size:25 final size:26 Alignment explanation
Indices: 43371001--43371049 Score: 82 Period size: 25 Copynumber: 1.9 Consensus size: 26 43370991 AGTGTCTTGA 43371001 AAAGAAAGAAGTATT-CAAGAACAGC 1 AAAGAAAGAAGTATTACAAGAACAGC * 43371026 AAAGAATGAAGTATTACAAGAACA 1 AAAGAAAGAAGTATTACAAGAACA 43371050 AACAAATTCA Statistics Matches: 22, Mismatches: 1, Indels: 1 0.92 0.04 0.04 Matches are distributed among these distances: 25 14 0.64 26 8 0.36 ACGTcount: A:0.57, C:0.10, G:0.18, T:0.14 Consensus pattern (26 bp): AAAGAAAGAAGTATTACAAGAACAGC Found at i:43382558 original size:28 final size:28 Alignment explanation
Indices: 43382485--43382558 Score: 91 Period size: 28 Copynumber: 2.7 Consensus size: 28 43382475 TATTTACATG * * 43382485 TACATATATATAAA-AA-AATAAATCTA 1 TACATATATATAAATAATAAAAAATATA * 43382511 TACATATATATAAATTATAAAAAATA-A 1 TACATATATATAAATAATAAAAAATATA 43382538 TTACATATATATAAATAATAA 1 -TACATATATATAAATAATAA 43382559 TAATTACATT Statistics Matches: 41, Mismatches: 4, Indels: 4 0.84 0.08 0.08 Matches are distributed among these distances: 26 14 0.34 27 2 0.05 28 25 0.61 ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34 Consensus pattern (28 bp): TACATATATATAAATAATAAAAAATATA Found at i:43382560 original size:24 final size:23 Alignment explanation
Indices: 43382485--43382567 Score: 69 Period size: 24 Copynumber: 3.2 Consensus size: 23 43382475 TATTTACATG 43382485 TACATATATATAAA-AAAATAAATCT 1 TACATATATATAAATAAAAT-AA--T 43382510 ATACATATATATAAATTATAAAAAATAAT 1 -TACATATATAT-AA--AT--AAAATAAT 43382539 TACATATATATAAATAATAATAAT 1 TACATATATATAAATAA-AATAAT 43382563 TACAT 1 TACAT 43382568 TATTGAAATT Statistics Matches: 50, Mismatches: 0, Indels: 16 0.76 0.00 0.24 Matches are distributed among these distances: 23 2 0.04 24 11 0.22 25 2 0.04 26 11 0.22 27 4 0.08 28 11 0.22 29 2 0.04 31 2 0.04 32 5 0.10 ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35 Consensus pattern (23 bp): TACATATATATAAATAAAATAAT Found at i:43382580 original size:24 final size:25 Alignment explanation
Indices: 43382533--43382586 Score: 69 Period size: 24 Copynumber: 2.2 Consensus size: 25 43382523 AATTATAAAA 43382533 AATAATTACATATATATAAATAA-T 1 AATAATTACATATATATAAATAATT 43382557 AATAATTACAT-TAT-TGAAATTAATT 1 AATAATTACATATATAT-AAA-TAATT 43382582 AATAA 1 AATAA 43382587 AAATATATAA Statistics Matches: 27, Mismatches: 0, Indels: 5 0.84 0.00 0.16 Matches are distributed among these distances: 22 1 0.04 23 6 0.22 24 14 0.52 25 6 0.22 ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39 Consensus pattern (25 bp): AATAATTACATATATATAAATAATT Found at i:43382626 original size:28 final size:27 Alignment explanation
Indices: 43382587--43382657 Score: 79 Period size: 28 Copynumber: 2.6 Consensus size: 27 43382577 TAATTAATAA * * * 43382587 AAATATATAAATTATGAAAACATTAATT 1 AAATATAAAAATTATGAAAA-AATAAAT * * 43382615 ACATATAAAAATTATTAAAAAATAAAT 1 AAATATAAAAATTATGAAAAAATAAAT 43382642 AAATAATAAAAATTAT 1 AAAT-ATAAAAATTAT 43382658 AATTATATTT Statistics Matches: 36, Mismatches: 6, Indels: 2 0.82 0.14 0.05 Matches are distributed among these distances: 27 8 0.22 28 28 0.78 ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32 Consensus pattern (27 bp): AAATATAAAAATTATGAAAAAATAAAT Found at i:43382674 original size:47 final size:48 Alignment explanation
Indices: 43382528--43382680 Score: 132 Period size: 47 Copynumber: 3.1 Consensus size: 48 43382518 ATATAAATTA * * 43382528 TAAAAAATAATTACATATATATAAATAATAATAATTACATTATTGAAATTAAT 1 TAAAAAATAAATA-A-ATA-ATAAA-AATTATAATTACATT-TTGAAATTAAT * * * ** 43382581 TAATAAAAATATATAAATTATGAAAACA-T-TAATTACATATAAAAATT-AT 1 T-A-AAAAATAAATAAATAAT-AAAA-ATTATAATTACATTTTGAAATTAAT * 43382630 TAAAAAATAAATAAATAATAAAAATTATAATTATATTTTGAAATTAAT 1 TAAAAAATAAATAAATAATAAAAATTATAATTACATTTTGAAATTAAT 43382678 TAA 1 TAA 43382681 TTCTCTAAAA Statistics Matches: 80, Mismatches: 13, Indels: 19 0.71 0.12 0.17 Matches are distributed among these distances: 45 1 0.01 46 5 0.06 47 29 0.36 48 6 0.08 49 3 0.04 50 6 0.08 51 9 0.11 52 3 0.04 53 7 0.09 54 2 0.03 55 9 0.11 ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37 Consensus pattern (48 bp): TAAAAAATAAATAAATAATAAAAATTATAATTACATTTTGAAATTAAT Found at i:43384887 original size:26 final size:26 Alignment explanation
Indices: 43384858--43384909 Score: 104 Period size: 26 Copynumber: 2.0 Consensus size: 26 43384848 AATAAAAGAA 43384858 AACATTCAATATTTCAGTTTAATTAG 1 AACATTCAATATTTCAGTTTAATTAG 43384884 AACATTCAATATTTCAGTTTAATTAG 1 AACATTCAATATTTCAGTTTAATTAG 43384910 CATTAATTTT Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 26 26 1.00 ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42 Consensus pattern (26 bp): AACATTCAATATTTCAGTTTAATTAG Found at i:43385389 original size:43 final size:44 Alignment explanation
Indices: 43385305--43385413 Score: 132 Period size: 43 Copynumber: 2.5 Consensus size: 44 43385295 CCTTGCTAAC * * 43385305 TTTAGTGGCGCTTTTACCCA-AAAACACCGCTATAGACCATGATA 1 TTTAGCGGCGCTTTT-CCCACAAAACACCGCTAAAGACCATGATA ** * 43385349 TTTAGCGGCGCTTTTCCCACAAAA-GTCGCTAAAGACCATGATC 1 TTTAGCGGCGCTTTTCCCACAAAACACCGCTAAAGACCATGATA * * 43385392 TTTAGCGACGCTTTTTCCACAA 1 TTTAGCGGCGCTTTTCCCACAA 43385414 GCGCCGCTAA Statistics Matches: 57, Mismatches: 7, Indels: 3 0.85 0.10 0.04 Matches are distributed among these distances: 43 39 0.68 44 18 0.32 ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28 Consensus pattern (44 bp): TTTAGCGGCGCTTTTCCCACAAAACACCGCTAAAGACCATGATA Found at i:43386162 original size:23 final size:23 Alignment explanation
Indices: 43386112--43386163 Score: 59 Period size: 23 Copynumber: 2.3 Consensus size: 23 43386102 GTTAGGTGTC * * 43386112 AGTATAAAGACATGTCAGATATG 1 AGTATGAAGACATGTCAGAGATG * * * 43386135 GGTATGAAGGCATGTCTGAGATG 1 AGTATGAAGACATGTCAGAGATG 43386158 AGTATG 1 AGTATG 43386164 TTCAATTTTT Statistics Matches: 23, Mismatches: 6, Indels: 0 0.79 0.21 0.00 Matches are distributed among these distances: 23 23 1.00 ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27 Consensus pattern (23 bp): AGTATGAAGACATGTCAGAGATG Found at i:43390979 original size:34 final size:34 Alignment explanation
Indices: 43390927--43391001 Score: 91 Period size: 36 Copynumber: 2.2 Consensus size: 34 43390917 CTAATTAATT * * * 43390927 TAAACCTTAAACCCTAACTC-AGCCCCAAATCTC 1 TAAACCCTAAACACTAACTCTAACCCCAAATCTC 43390960 TAAACCCTAAATCACTAACTCTTAACCCCAAATCTC 1 TAAACCCTAAA-CACTAACTC-TAACCCCAAATCTC 43390996 -AAACCC 1 TAAACCC 43391002 ATAACCCCTA Statistics Matches: 36, Mismatches: 3, Indels: 4 0.84 0.07 0.09 Matches are distributed among these distances: 33 10 0.28 34 8 0.22 35 6 0.17 36 12 0.33 ACGTcount: A:0.39, C:0.39, G:0.01, T:0.21 Consensus pattern (34 bp): TAAACCCTAAACACTAACTCTAACCCCAAATCTC Found at i:43391113 original size:33 final size:33 Alignment explanation
Indices: 43391057--43391135 Score: 124 Period size: 33 Copynumber: 2.4 Consensus size: 33 43391047 TAATCTAAAT 43391057 CCTAAACCCTAAA-CCTAACCCGACCCTGAATC 1 CCTAAACCCTAAACCCTAACCCGACCCTGAATC * * 43391089 CCTAATCCCTAAACCCTAATCCGACCCTGAATC 1 CCTAAACCCTAAACCCTAACCCGACCCTGAATC * 43391122 CCTAACCCCTAAAC 1 CCTAAACCCTAAAC 43391136 ATTATCTAAT Statistics Matches: 43, Mismatches: 3, Indels: 1 0.91 0.06 0.02 Matches are distributed among these distances: 32 12 0.28 33 31 0.72 ACGTcount: A:0.33, C:0.44, G:0.05, T:0.18 Consensus pattern (33 bp): CCTAAACCCTAAACCCTAACCCGACCCTGAATC Found at i:43391839 original size:41 final size:41 Alignment explanation
Indices: 43391754--43392035 Score: 359 Period size: 41 Copynumber: 6.9 Consensus size: 41 43391744 TTTTATTATT * * * * 43391754 ATTAGCGTCGCTTTTCCAAAAACGCCGCTAAAGG-TCGAGT 1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC * * * 43391794 ATTAGCTGCGCTTTTTCAACAACGCCGCTAAAAGCCCGAGC 1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC * * 43391835 ATTAGCAGCGCTTTTTCAAAAACGCTGCTAAAGGCCCGAGC 1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC * * * * 43391876 ATTAGCGGCTCTTATTCAAAAATGCCGCTAAAGGCTCGAGC 1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC * 43391917 ATTAGCGGCGCTTTTTCAAAACCGCCGCTAAAGGCCCGAGC 1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC * * * * * 43391958 ATTAGCGGCGATTTTTAAAAAATGCTGCTAAAGGCCCAAGC 1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC * * * 43391999 ATTTGCGGCGCTTTTTCAAAAACGCCACTAAATGCCC 1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC 43392036 CCAAAAAATC Statistics Matches: 206, Mismatches: 35, Indels: 1 0.85 0.14 0.00 Matches are distributed among these distances: 40 29 0.14 41 177 0.86 ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23 Consensus pattern (41 bp): ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC Found at i:43393985 original size:26 final size:26 Alignment explanation
Indices: 43393948--43393999 Score: 95 Period size: 26 Copynumber: 2.0 Consensus size: 26 43393938 AATAAAAGAA * 43393948 AACATTCTATATTTCAGTTTAATTAG 1 AACATTCAATATTTCAGTTTAATTAG 43393974 AACATTCAATATTTCAGTTTAATTAG 1 AACATTCAATATTTCAGTTTAATTAG 43394000 CATTAATTTT Statistics Matches: 25, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 26 25 1.00 ACGTcount: A:0.37, C:0.12, G:0.08, T:0.44 Consensus pattern (26 bp): AACATTCAATATTTCAGTTTAATTAG Found at i:43396726 original size:24 final size:25 Alignment explanation
Indices: 43396698--43396744 Score: 60 Period size: 24 Copynumber: 1.9 Consensus size: 25 43396688 TCCGACCCAA * 43396698 TTTTACTGGAATATG-AATGGAAGC 1 TTTTACTGGAATAAGTAATGGAAGC * * 43396722 TTTTAGTGGGATAAGTAATGGAA 1 TTTTACTGGAATAAGTAATGGAA 43396745 CTTGGAAAAT Statistics Matches: 19, Mismatches: 3, Indels: 1 0.83 0.13 0.04 Matches are distributed among these distances: 24 12 0.63 25 7 0.37 ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34 Consensus pattern (25 bp): TTTTACTGGAATAAGTAATGGAAGC Found at i:43407800 original size:21 final size:21 Alignment explanation
Indices: 43407776--43407828 Score: 72 Period size: 21 Copynumber: 2.5 Consensus size: 21 43407766 TGAAGAGTGT 43407776 TGTGGATGCATCTGA-TTCTGG 1 TGTGGATGCATCTGACTT-TGG * * 43407797 TGTGGATGCCTCTGACTTTGT 1 TGTGGATGCATCTGACTTTGG 43407818 TGTGGATGCAT 1 TGTGGATGCAT 43407829 TTAAGGGTGC Statistics Matches: 28, Mismatches: 3, Indels: 2 0.85 0.09 0.06 Matches are distributed among these distances: 21 26 0.93 22 2 0.07 ACGTcount: A:0.13, C:0.15, G:0.32, T:0.40 Consensus pattern (21 bp): TGTGGATGCATCTGACTTTGG Found at i:43412384 original size:56 final size:49 Alignment explanation
Indices: 43412316--43412604 Score: 185 Period size: 49 Copynumber: 5.7 Consensus size: 49 43412306 AATGAGATCT * * 43412316 CATGTAAAACCATGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCC 1 CATGTAAGACCATGTCTGGGACATGGC-TTGGCATC---GAG---ATGAGAGGTCC * * 43412372 CATGTAAGACCATGTCTAGGACATGGTGTTGGCATCGAGATGAGAGGTCC 1 CATGTAAGACCATGTCTGGGACATGG-CTTGGCATCGAGATGAGAGGTCC ** * * ** 43412422 CCCGTAAGACCATGTCTGGGACATGGCTTGGGCACCGATATGAGAACTCC 1 CATGTAAGACCATGTCTGGGACATGGCTT-GGCATCGAGATGAGAGGTCC * * * * ** 43412472 CATGTAAGACTATATCTGGGATATGGCTTTGGCAGT-GCAG--GAAACATCC 1 CATGTAAGACCATGTCTGGGACATGGC-TTGGCA-TCG-AGATGAGAGGTCC * * * * ** 43412521 CATGTAAGACCATATCTAGGATATGGCATTGGCAGT-GCAG--GAAACATCC 1 CATGTAAGACCATGTCTGGGACATGGC-TTGGCA-TCG-AGATGAGAGGTCC * 43412570 CATGTAAGACCATGTCTAGGACATGGCTTTGGCAT 1 CATGTAAGACCATGTCTGGGACATGGC-TTGGCAT 43412605 GTTATTATCA Statistics Matches: 200, Mismatches: 28, Indels: 18 0.81 0.11 0.07 Matches are distributed among these distances: 48 1 0.00 49 85 0.43 50 77 0.38 51 3 0.01 53 3 0.01 56 31 0.16 ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25 Consensus pattern (49 bp): CATGTAAGACCATGTCTGGGACATGGCTTGGCATCGAGATGAGAGGTCC Found at i:43412536 original size:49 final size:49 Alignment explanation
Indices: 43412369--43412603 Score: 217 Period size: 49 Copynumber: 4.8 Consensus size: 49 43412359 TTATGAGAGG * * ** 43412369 TCCCATGTAAGACCATGTCTAGGACATGG-TGTTGGCA-T-CGAGATGAGAGG 1 TCCCATGTAAGACCATATCTAGGACATGGCT-TTGGCAGTGC-AG--GAAACA ** * * * ** * * 43412419 TCCCCCGTAAGACCATGTCTGGGACATGGCTTGGGCACCGATATGAGAAC- 1 TCCCATGTAAGACCATATCTAGGACATGGCTTTGGCAGTG-CAGGA-AACA * * * 43412469 TCCCATGTAAGACTATATCTGGGATATGGCTTTGGCAGTGCAGGAAACA 1 TCCCATGTAAGACCATATCTAGGACATGGCTTTGGCAGTGCAGGAAACA * * 43412518 TCCCATGTAAGACCATATCTAGGATATGGCATTGGCAGTGCAGGAAACA 1 TCCCATGTAAGACCATATCTAGGACATGGCTTTGGCAGTGCAGGAAACA * 43412567 TCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCA 1 TCCCATGTAAGACCATATCTAGGACATGGCTTTGGCA 43412604 TGTTATTATC Statistics Matches: 154, Mismatches: 25, Indels: 13 0.80 0.13 0.07 Matches are distributed among these distances: 48 3 0.02 49 83 0.54 50 65 0.42 51 2 0.01 52 1 0.01 ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24 Consensus pattern (49 bp): TCCCATGTAAGACCATATCTAGGACATGGCTTTGGCAGTGCAGGAAACA Found at i:43417033 original size:25 final size:25 Alignment explanation
Indices: 43416996--43417069 Score: 105 Period size: 25 Copynumber: 3.0 Consensus size: 25 43416986 TCTTGTACAT 43416996 GTATGCTCATACGAGCTATGAATCA 1 GTATGCTCATACGAGCTATGAATCA * 43417021 GTATGCTCTTACGAGCTAT-AGATCA 1 GTATGCTCATACGAGCTATGA-ATCA * * 43417046 GTAAGCTCATACGAGCTAAGAATC 1 GTATGCTCATACGAGCTATGAATC 43417070 GATAATCCCT Statistics Matches: 43, Mismatches: 4, Indels: 4 0.84 0.08 0.08 Matches are distributed among these distances: 24 1 0.02 25 41 0.95 26 1 0.02 ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27 Consensus pattern (25 bp): GTATGCTCATACGAGCTATGAATCA Found at i:43420203 original size:20 final size:20 Alignment explanation
Indices: 43420156--43420205 Score: 64 Period size: 21 Copynumber: 2.5 Consensus size: 20 43420146 GAAATGATTC * * 43420156 TTTTCAATCGATTTTTTTGT 1 TTTTCAATCGATTGTTATGT * 43420176 TGTTTCAATTGATTGTTATGT 1 T-TTTCAATCGATTGTTATGT 43420197 TTTTCAATC 1 TTTTCAATC 43420206 AATTATTTCG Statistics Matches: 25, Mismatches: 4, Indels: 2 0.81 0.13 0.06 Matches are distributed among these distances: 20 8 0.32 21 17 0.68 ACGTcount: A:0.18, C:0.10, G:0.12, T:0.60 Consensus pattern (20 bp): TTTTCAATCGATTGTTATGT Found at i:43425212 original size:21 final size:20 Alignment explanation
Indices: 43425183--43425305 Score: 138 Period size: 21 Copynumber: 6.0 Consensus size: 20 43425173 TGAAATGATT 43425183 CTTTTCAATCGATTGTTTTCA 1 CTTTTCAATCGATTGTTTT-A * * 43425204 CTTTACAATCGATTGTTTTG 1 CTTTTCAATCGATTGTTTTA * 43425224 CTGTTTCAATTGATTGTTTTCA 1 CT-TTTCAATCGATTGTTTT-A * * 43425246 CTTTACAATCGATTGTTTTG 1 CTTTTCAATCGATTGTTTTA * * 43425266 TTGTTTCAATTGATTGTTTTA 1 CT-TTTCAATCGATTGTTTTA * 43425287 CTTTCCAATCGATTGTTTT 1 CTTTTCAATCGATTGTTTT 43425306 GCTATGTATT Statistics Matches: 84, Mismatches: 15, Indels: 7 0.79 0.14 0.07 Matches are distributed among these distances: 20 18 0.21 21 64 0.76 22 2 0.02 ACGTcount: A:0.19, C:0.15, G:0.13, T:0.54 Consensus pattern (20 bp): CTTTTCAATCGATTGTTTTA Found at i:43425244 original size:42 final size:42 Alignment explanation
Indices: 43425185--43425308 Score: 214 Period size: 42 Copynumber: 3.0 Consensus size: 42 43425175 AAATGATTCT * 43425185 TTTCAATCGATTGTTTTCACTTTACAATCGATTGTTTTGCTG 1 TTTCAATTGATTGTTTTCACTTTACAATCGATTGTTTTGCTG * 43425227 TTTCAATTGATTGTTTTCACTTTACAATCGATTGTTTTGTTG 1 TTTCAATTGATTGTTTTCACTTTACAATCGATTGTTTTGCTG * 43425269 TTTCAATTGATTGTTTT-ACTTTCCAATCGATTGTTTTGCT 1 TTTCAATTGATTGTTTTCACTTTACAATCGATTGTTTTGCT 43425309 ATGTATTAAT Statistics Matches: 78, Mismatches: 4, Indels: 1 0.94 0.05 0.01 Matches are distributed among these distances: 41 21 0.27 42 57 0.73 ACGTcount: A:0.19, C:0.15, G:0.14, T:0.53 Consensus pattern (42 bp): TTTCAATTGATTGTTTTCACTTTACAATCGATTGTTTTGCTG Found at i:43427811 original size:79 final size:79 Alignment explanation
Indices: 43427678--43427835 Score: 298 Period size: 79 Copynumber: 2.0 Consensus size: 79 43427668 AAGAGTAATG * * 43427678 AAATGTCGATCACTCAATCAATCTCCTAAACTGTATGGCAAGTATGTTATTCTTACCATTCCCGA 1 AAATGTCAATCACTCAATCAATCTCCTAAACTGTATGGCAAGTATGTTAGTCTTACCATTCCCGA 43427743 TCCAATCAAGTACT 66 TCCAATCAAGTACT 43427757 AAATGTCAATCACTCAATCAATCTCCTAAACTGTATGGCAAGTATGTTAGTCTTACCATTCCCGA 1 AAATGTCAATCACTCAATCAATCTCCTAAACTGTATGGCAAGTATGTTAGTCTTACCATTCCCGA 43427822 TCCAATCAAGTACT 66 TCCAATCAAGTACT 43427836 GGATTGTCTT Statistics Matches: 77, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 79 77 1.00 ACGTcount: A:0.32, C:0.25, G:0.11, T:0.31 Consensus pattern (79 bp): AAATGTCAATCACTCAATCAATCTCCTAAACTGTATGGCAAGTATGTTAGTCTTACCATTCCCGA TCCAATCAAGTACT Found at i:43429174 original size:15 final size:16 Alignment explanation
Indices: 43429142--43429180 Score: 55 Period size: 15 Copynumber: 2.5 Consensus size: 16 43429132 TCGATAAAAA 43429142 TAAAATAATAGTTATT 1 TAAAATAATAGTTATT 43429158 TAAATATAATA-TT-TT 1 TAAA-ATAATAGTTATT 43429173 TAAAATAA 1 TAAAATAA 43429181 ATTAAATTCA Statistics Matches: 22, Mismatches: 0, Indels: 4 0.85 0.00 0.15 Matches are distributed among these distances: 14 4 0.18 15 6 0.27 16 6 0.27 17 6 0.27 ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44 Consensus pattern (16 bp): TAAAATAATAGTTATT Found at i:43429515 original size:18 final size:18 Alignment explanation
Indices: 43429492--43429534 Score: 59 Period size: 18 Copynumber: 2.4 Consensus size: 18 43429482 TTTATATTTT 43429492 AAAAAATACATAAAACAC 1 AAAAAATACATAAAACAC * * * 43429510 AAAAAAAAGATAAAATAC 1 AAAAAATACATAAAACAC 43429528 AAAAAAT 1 AAAAAAT 43429535 TGTCAAAAAA Statistics Matches: 21, Mismatches: 4, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 18 21 1.00 ACGTcount: A:0.77, C:0.09, G:0.02, T:0.12 Consensus pattern (18 bp): AAAAAATACATAAAACAC Found at i:43429849 original size:11 final size:11 Alignment explanation
Indices: 43429827--43429859 Score: 50 Period size: 11 Copynumber: 3.0 Consensus size: 11 43429817 TATATTTTTT 43429827 AATTTT-TATA 1 AATTTTATATA 43429837 AATTTTATATA 1 AATTTTATATA 43429848 AATTTTCATATA 1 AATTTT-ATATA 43429860 TCTTTTCTGA Statistics Matches: 21, Mismatches: 0, Indels: 2 0.91 0.00 0.09 Matches are distributed among these distances: 10 6 0.29 11 10 0.48 12 5 0.24 ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55 Consensus pattern (11 bp): AATTTTATATA Found at i:43436603 original size:43 final size:42 Alignment explanation
Indices: 43436556--43436654 Score: 112 Period size: 42 Copynumber: 2.3 Consensus size: 42 43436546 TCTCAGATGT * * 43436556 GGTCTTACATGTAATCA-ACTATCGATGCCACTGTCCC-AGACAG 1 GGTCTTACACGTAATCATA-TA-CGATGCCAATG-CCCTAGACAG ** * 43436599 GGTCTTACACAAAATCATATACGATGCCAATGCCCTAGACAT 1 GGTCTTACACGTAATCATATACGATGCCAATGCCCTAGACAG 43436641 GGTCTTACACGTAA 1 GGTCTTACACGTAA 43436655 ATCTCAAATC Statistics Matches: 47, Mismatches: 7, Indels: 5 0.80 0.12 0.08 Matches are distributed among these distances: 41 3 0.06 42 27 0.57 43 16 0.34 44 1 0.02 ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25 Consensus pattern (42 bp): GGTCTTACACGTAATCATATACGATGCCAATGCCCTAGACAG Found at i:43436683 original size:44 final size:40 Alignment explanation
Indices: 43436576--43436688 Score: 111 Period size: 42 Copynumber: 2.6 Consensus size: 40 43436566 GTAATCAACT * * * 43436576 ATCGATGCCACTGTCCCAGACAGGGTCTTACACAAAATCAT 1 ATCGATGCCAC-ATCCCAGACATGGTCTTACACAAAATCAA * 43436617 ATACGATGCCA-ATGCCCTAGACATGGTCTTACACGTAAATCTCAA 1 AT-CGATGCCACAT-CCC-AGACATGGTCTTACAC--AAA-ATCAA 43436662 ATCGATGCCAACATCCCAGACATGGTC 1 ATCGATGCC-ACATCCCAGACATGGTC 43436689 CTATACGAAA Statistics Matches: 60, Mismatches: 4, Indels: 13 0.78 0.05 0.17 Matches are distributed among these distances: 40 1 0.02 41 5 0.08 42 23 0.38 44 20 0.33 45 9 0.15 46 2 0.03 ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22 Consensus pattern (40 bp): ATCGATGCCACATCCCAGACATGGTCTTACACAAAATCAA Found at i:43437543 original size:13 final size:13 Alignment explanation
Indices: 43437525--43437589 Score: 87 Period size: 13 Copynumber: 5.0 Consensus size: 13 43437515 AGTTCTTCAT 43437525 TGCTTTTGAAAAG 1 TGCTTTTGAAAAG 43437538 TGCTTTTGAAAAG 1 TGCTTTTGAAAAG * * 43437551 TGCTGTGGAAAAG 1 TGCTTTTGAAAAG 43437564 TGCTTTT-AAGAAG 1 TGCTTTTGAA-AAG * 43437577 TGCTTTTAAAAAG 1 TGCTTTTGAAAAG 43437590 ATTGGTTTAA Statistics Matches: 46, Mismatches: 4, Indels: 4 0.85 0.07 0.07 Matches are distributed among these distances: 12 2 0.04 13 42 0.91 14 2 0.04 ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35 Consensus pattern (13 bp): TGCTTTTGAAAAG Found at i:43450727 original size:16 final size:15 Alignment explanation
Indices: 43450697--43450725 Score: 58 Period size: 15 Copynumber: 1.9 Consensus size: 15 43450687 TGTGTTTCTT 43450697 TTTTTAAAATATTTA 1 TTTTTAAAATATTTA 43450712 TTTTTAAAATATTT 1 TTTTTAAAATATTT 43450726 TACTATACTC 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:0.38, C:0.00, G:0.00, T:0.62 Consensus pattern (15 bp): TTTTTAAAATATTTA Found at i:43453282 original size:45 final size:45 Alignment explanation
Indices: 43453218--43453394 Score: 191 Period size: 45 Copynumber: 4.0 Consensus size: 45 43453208 TACGTGTACC * * 43453218 GGGTACCATTGATTATAAAGGTGGTTGATGTGTGCTGATTCCACT 1 GGGTATCATTGATTATAAAGGTGGTTGATATGTGCTGATTCCACT * * * 43453263 GGGTATCATTGATTATAAAGGTGGTTGCTGTGTGTTGATTCCACT 1 GGGTATCATTGATTATAAAGGTGGTTGATATGTGCTGATTCCACT * * * * 43453308 GGGTA-CTATTGATTATGAAGGTGGTT-ACTATGTGCTAATTTCACC 1 GGGTATC-ATTGATTATAAAGGTGGTTGA-TATGTGCTGATTCCACT * * * * 43453353 GAGTATCATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCAC 1 GGGTATCATTGATTATAAAGGTGGTTGATATGTGCTGATTCCAC 43453395 CGTGTATCTG Statistics Matches: 111, Mismatches: 17, Indels: 10 0.80 0.12 0.07 Matches are distributed among these distances: 43 4 0.04 44 11 0.10 45 95 0.86 46 1 0.01 ACGTcount: A:0.23, C:0.14, G:0.28, T:0.36 Consensus pattern (45 bp): GGGTATCATTGATTATAAAGGTGGTTGATATGTGCTGATTCCACT Found at i:43453376 original size:90 final size:88 Alignment explanation
Indices: 43453218--43453394 Score: 221 Period size: 90 Copynumber: 2.0 Consensus size: 88 43453208 TACGTGTACC * * * * * 43453218 GGGTACCATTGATTATAAAGGTGGTTGATGTGTGCTGATTCCACTGGGTATCATTGATTATAAAG 1 GGGTACCATTGATTATAAAGGTGGTTGATATGTGCTAATTCCACCGAGTATCATTGACTATAAAG * * 43453283 GTGGTTGCTGTGTGTTGATTCCACT 66 GTGG-TGCTATGTGCTGA-TCCACT * * * * 43453308 GGGTACTATTGATTATGAAGGTGGTT-ACTATGTGCTAATTTCACCGAGTATCATTGACTATAAG 1 GGGTACCATTGATTATAAAGGTGGTTGA-TATGTGCTAATTCCACCGAGTATCATTGACTATAAA 43453372 GGTGGTGCTATGTGCTGATCCAC 65 GGTGGTGCTATGTGCTGATCCAC 43453395 CGTGTATCTG Statistics Matches: 75, Mismatches: 11, Indels: 4 0.83 0.12 0.04 Matches are distributed among these distances: 88 5 0.07 89 12 0.16 90 58 0.77 ACGTcount: A:0.23, C:0.14, G:0.28, T:0.36 Consensus pattern (88 bp): GGGTACCATTGATTATAAAGGTGGTTGATATGTGCTAATTCCACCGAGTATCATTGACTATAAAG GTGGTGCTATGTGCTGATCCACT Found at i:43456847 original size:21 final size:19 Alignment explanation
Indices: 43456804--43456848 Score: 54 Period size: 21 Copynumber: 2.3 Consensus size: 19 43456794 ATTAATATGA * 43456804 AATTATTCAAATCAACATG 1 AATTATTCAAATCAACATC * 43456823 AATTATTCAATATTCAATATC 1 AATTATTCAA-A-TCAACATC 43456844 AATTA 1 AATTA 43456849 ACATACTCAA Statistics Matches: 22, Mismatches: 2, Indels: 2 0.85 0.08 0.08 Matches are distributed among these distances: 19 10 0.45 20 1 0.05 21 11 0.50 ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38 Consensus pattern (19 bp): AATTATTCAAATCAACATC Found at i:43457092 original size:23 final size:23 Alignment explanation
Indices: 43457042--43457093 Score: 68 Period size: 23 Copynumber: 2.3 Consensus size: 23 43457032 ACCGAAATGA * * * 43457042 CAATAACAATCACATCAAAGTTC 1 CAATAAAAATCACACCAAAGTGC * 43457065 TAATAAAAATCACACCAAAGTGC 1 CAATAAAAATCACACCAAAGTGC 43457088 CAATAA 1 CAATAA 43457094 GCTCTCCACC Statistics Matches: 24, Mismatches: 5, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 23 24 1.00 ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19 Consensus pattern (23 bp): CAATAAAAATCACACCAAAGTGC Found at i:43464622 original size:29 final size:29 Alignment explanation
Indices: 43464580--43464638 Score: 109 Period size: 29 Copynumber: 2.0 Consensus size: 29 43464570 TGAAAGCATG * 43464580 TATGCGGTTTAAATGGTGGTATTAGACAA 1 TATGCAGTTTAAATGGTGGTATTAGACAA 43464609 TATGCAGTTTAAATGGTGGTATTAGACAA 1 TATGCAGTTTAAATGGTGGTATTAGACAA 43464638 T 1 T 43464639 GGTCAATTGT Statistics Matches: 29, Mismatches: 1, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 29 29 1.00 ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36 Consensus pattern (29 bp): TATGCAGTTTAAATGGTGGTATTAGACAA Found at i:43473415 original size:26 final size:27 Alignment explanation
Indices: 43473359--43473415 Score: 73 Period size: 27 Copynumber: 2.1 Consensus size: 27 43473349 CATTAGTTCT * 43473359 ATTTTAAAAAATAATTTATTTAATATC 1 ATTTTAAAAAATAATTTATTTAATATA * 43473386 ATTTTAAAAATTATATTT-TTTAA-ATA 1 ATTTTAAAAAATA-ATTTATTTAATATA 43473412 ATTT 1 ATTT 43473416 CTCTAATTTA Statistics Matches: 27, Mismatches: 2, Indels: 3 0.84 0.06 0.09 Matches are distributed among these distances: 26 6 0.22 27 17 0.63 28 4 0.15 ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53 Consensus pattern (27 bp): ATTTTAAAAAATAATTTATTTAATATA Found at i:43474215 original size:60 final size:60 Alignment explanation
Indices: 43474113--43474304 Score: 208 Period size: 60 Copynumber: 3.2 Consensus size: 60 43474103 TAATAAATTT * * * * * 43474113 AGGTACCAAATTGAACCTAAAAAAAAGCTCAAGTACCAAATTAGGAAAAAATGTCAAGTTC 1 AGGTACCAAATTG-AGCTAAAAAAAAGTTTAAGTATCAAATTAAGAAAAAATGTCAAGTTC * * * * 43474174 AGGTACCAAATTGGGCTCAAAAAAAGTTTAAGTATCAAATTAAGAAAAAGTGTCAAGTTT 1 AGGTACCAAATTGAGCTAAAAAAAAGTTTAAGTATCAAATTAAGAAAAAATGTCAAGTTC *** * * 43474234 AGGTATTGAATTGAGCAAAAAAAAAGTTT-AG-ATACTAAATTAAGAAAAAATGTCAAATTC 1 AGGTACCAAATTGAGCTAAAAAAAAGTTTAAGTAT-C-AAATTAAGAAAAAATGTCAAGTTC * 43474294 AAGTACCAAAT 1 AGGTACCAAAT 43474305 ATTATATTAA Statistics Matches: 107, Mismatches: 22, Indels: 5 0.80 0.16 0.04 Matches are distributed among these distances: 58 2 0.02 59 3 0.03 60 89 0.83 61 13 0.12 ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24 Consensus pattern (60 bp): AGGTACCAAATTGAGCTAAAAAAAAGTTTAAGTATCAAATTAAGAAAAAATGTCAAGTTC Found at i:43475236 original size:22 final size:21 Alignment explanation
Indices: 43475211--43475280 Score: 79 Period size: 22 Copynumber: 3.3 Consensus size: 21 43475201 AAATTCTAAC 43475211 AAATATACTTTAGAATATATAA 1 AAATATACTTTA-AATATATAA * * 43475233 AAATATACTTTCAAATTTTTAA 1 AAATATACTTT-AAATATATAA * * 43475255 AAATATA-TTTTAATAAATAA 1 AAATATACTTTAAATATATAA 43475275 AAATAT 1 AAATAT 43475281 TAAGTTTTGA Statistics Matches: 41, Mismatches: 6, Indels: 4 0.80 0.12 0.08 Matches are distributed among these distances: 20 12 0.29 21 3 0.07 22 25 0.61 23 1 0.02 ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40 Consensus pattern (21 bp): AAATATACTTTAAATATATAA Found at i:43475663 original size:43 final size:43 Alignment explanation
Indices: 43475582--43475717 Score: 139 Period size: 43 Copynumber: 3.2 Consensus size: 43 43475572 ATAGAACATG * * ** * 43475582 ACCTTTAGAGGCGCTTCTCATA-AAACACCGCTAAAGAACAAA 1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAA ** * ** 43475624 ATTTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGAACATG 1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAA * * ** 43475667 ACCTTTAGTGGCGCTTTTCCCACAAACGCCTCTAAAGAACATG 1 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAA 43475710 ACCTTTAG 1 ACCTTTAG 43475718 AGGCATGACC Statistics Matches: 79, Mismatches: 14, Indels: 1 0.84 0.15 0.01 Matches are distributed among these distances: 42 16 0.20 43 63 0.80 ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25 Consensus pattern (43 bp): ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAA Found at i:43475726 original size:15 final size:15 Alignment explanation
Indices: 43475706--43475736 Score: 62 Period size: 15 Copynumber: 2.1 Consensus size: 15 43475696 CTCTAAAGAA 43475706 CATGACCTTTAGAGG 1 CATGACCTTTAGAGG 43475721 CATGACCTTTAGAGG 1 CATGACCTTTAGAGG 43475736 C 1 C 43475737 GCTTTTAGTG Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 15 16 1.00 ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26 Consensus pattern (15 bp): CATGACCTTTAGAGG Found at i:43477549 original size:19 final size:21 Alignment explanation
Indices: 43477503--43477547 Score: 81 Period size: 21 Copynumber: 2.1 Consensus size: 21 43477493 ATACACAAAG * 43477503 ATATAATAACCTGGTTTACTT 1 ATATAATAACATGGTTTACTT 43477524 ATATAATAACATGGTTTACTT 1 ATATAATAACATGGTTTACTT 43477545 ATA 1 ATA 43477548 ATGTTTTCAT Statistics Matches: 23, Mismatches: 1, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 21 23 1.00 ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42 Consensus pattern (21 bp): ATATAATAACATGGTTTACTT Found at i:43479131 original size:41 final size:41 Alignment explanation
Indices: 43479017--43479134 Score: 146 Period size: 41 Copynumber: 2.9 Consensus size: 41 43479007 TTTTGCAACA * * * *** 43479017 TTTATGATAAAAACGCCGCTATAGCTCCAATCGTTTGTGGTG 1 TTTATGA-AAAAACGCCGCTATAGCTCTAACCTTTTACAGTG * * 43479059 TTTATGAAAAAATGTCGCTATAGCTCTAACCTTTTACAGTG 1 TTTATGAAAAAACGCCGCTATAGCTCTAACCTTTTACAGTG * 43479100 TTTATGAAAAAACGCCACTATAGCTCTAACCTTTT 1 TTTATGAAAAAACGCCGCTATAGCTCTAACCTTTT 43479135 GCGGCGTTTT Statistics Matches: 65, Mismatches: 11, Indels: 1 0.84 0.14 0.01 Matches are distributed among these distances: 41 58 0.89 42 7 0.11 ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35 Consensus pattern (41 bp): TTTATGAAAAAACGCCGCTATAGCTCTAACCTTTTACAGTG Found at i:43481310 original size:28 final size:28 Alignment explanation
Indices: 43481247--43481372 Score: 191 Period size: 28 Copynumber: 4.5 Consensus size: 28 43481237 ATATTAAGTC * 43481247 CGCACACTCAGTGCTATATAATC-AACT 1 CGCACACTTAGTGCTATATAATCAAACT 43481274 CGCACACTTAGTGCTATATAATCAAACT 1 CGCACACTTAGTGCTATATAATCAAACT 43481302 CGCACACTTAGTGCTATATAATCAAACT 1 CGCACACTTAGTGCTATATAATCAAACT * * * * 43481330 CGCACACTTAGTGCTGTACAATTTAAACC 1 CGCACACTTAGTGCTATATAA-TCAAACT 43481359 CGCACACTTAGTGC 1 CGCACACTTAGTGC 43481373 CAATCTCATG Statistics Matches: 92, Mismatches: 5, Indels: 2 0.93 0.05 0.02 Matches are distributed among these distances: 27 22 0.24 28 51 0.55 29 19 0.21 ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27 Consensus pattern (28 bp): CGCACACTTAGTGCTATATAATCAAACT Found at i:43481836 original size:12 final size:12 Alignment explanation
Indices: 43481819--43481845 Score: 54 Period size: 12 Copynumber: 2.2 Consensus size: 12 43481809 TGGGCATACT 43481819 TATGTATATATA 1 TATGTATATATA 43481831 TATGTATATATA 1 TATGTATATATA 43481843 TAT 1 TAT 43481846 ACTTCGGAAT Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 15 1.00 ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52 Consensus pattern (12 bp): TATGTATATATA Found at i:43494082 original size:20 final size:18 Alignment explanation
Indices: 43494057--43494098 Score: 57 Period size: 18 Copynumber: 2.2 Consensus size: 18 43494047 GTAGGACCTG 43494057 TATACTGTATAATTTGTTAC 1 TATACTG-ATAA-TTGTTAC * 43494077 TATACTGATTATTGTTAC 1 TATACTGATAATTGTTAC 43494095 TATA 1 TATA 43494099 ATAGGCCAAG Statistics Matches: 21, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 18 11 0.52 19 3 0.14 20 7 0.33 ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50 Consensus pattern (18 bp): TATACTGATAATTGTTAC Found at i:43495651 original size:31 final size:30 Alignment explanation
Indices: 43495613--43496014 Score: 240 Period size: 31 Copynumber: 13.1 Consensus size: 30 43495603 ATATACCACA * 43495613 CAATTCGGCAATGTATAACCATACACAAAT 1 CAATTCGGCAATGTATAACCATATACAAAT * 43495643 CAAGTTCGGCAATGTATAATCATATACAAAT 1 CAA-TTCGGCAATGTATAACCATATACAAAT * * ** * * 43495674 CAAATTCGGC-TTCCTATATTCATAAACAATT 1 C-AATTCGGCAAT-GTATAACCATATACAAAT * * * 43495705 CAACTTCGACAATATATAACCATGTACAAAT 1 CAA-TTCGGCAATGTATAACCATATACAAAT * * * * 43495736 TAATTCCAGCAATGTACAACCATATACGAAT 1 CAATT-CGGCAATGTATAACCATATACAAAT ** ** 43495767 CAATTAAGCAACT-TATATTCATATACCAAA- 1 CAATTCGGCAA-TGTATAACCATATA-CAAAT * * * 43495797 CAATTCGGCAATGCATAACCATACACGAAT 1 CAATTCGGCAATGTATAACCATATACAAAT * * 43495827 CAAGTTCAGCAATGTATAATCATATACAAAT 1 CAA-TTCGGCAATGTATAACCATATACAAAT * * * ** * * 43495858 CAAACTCGGC-TTCCTATATTCATAAACAATT 1 C-AATTCGGCAAT-GTATAACCATATACAAAT * * * 43495889 CAATTTCGTCAATATATAACCATGTACAAAT 1 CAA-TTCGGCAATGTATAACCATATACAAAT * * * * * 43495920 TAATTCCAGAAATGTACAACCATATACGAAT 1 CAATT-CGGCAATGTATAACCATATACAAAT * * * 43495951 CAATTCAGTAACT-TATATCCATATACAAAAT 1 CAATTCGGCAA-TGTATAACCATATAC-AAAT * * 43495982 -AATTCGGCAATGTATAACCATACACGAAT 1 CAATTCGGCAATGTATAACCATATACAAAT 43496011 CAAT 1 CAAT 43496015 ATATCCATAT Statistics Matches: 278, Mismatches: 74, Indels: 40 0.71 0.19 0.10 Matches are distributed among these distances: 29 8 0.03 30 85 0.31 31 179 0.64 32 6 0.02 ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28 Consensus pattern (30 bp): CAATTCGGCAATGTATAACCATATACAAAT Found at i:43495912 original size:184 final size:184 Alignment explanation
Indices: 43495597--43496013 Score: 708 Period size: 184 Copynumber: 2.3 Consensus size: 184 43495587 TCAACAATGA * * * * 43495597 ATATCAATATACCACACAATTCGGCAATGTATAACCATACACAAATCAAGTTCGGCAATGTATAA 1 ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACGAATCAAGTTCAGCAATGTATAA * 43495662 TCATATACAAATCAAATTCGGCTTCCTATATTCATAAACAATTCAACTTCGACAATATATAACCA 66 TCATATACAAATCAAACTCGGCTTCCTATATTCATAAACAATTCAACTTCGACAATATATAACCA * 43495727 TGTACAAATTAATTCCAGCAATGTACAACCATATACGAATCAATTAAGCAACTT 131 TGTACAAATTAATTCCAGAAATGTACAACCATATACGAATCAATTAAGCAACTT * * 43495781 ATATTCATATACCAAACAATTCGGCAATGCATAACCATACACGAATCAAGTTCAGCAATGTATAA 1 ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACGAATCAAGTTCAGCAATGTATAA * * 43495846 TCATATACAAATCAAACTCGGCTTCCTATATTCATAAACAATTCAATTTCGTCAATATATAACCA 66 TCATATACAAATCAAACTCGGCTTCCTATATTCATAAACAATTCAACTTCGACAATATATAACCA * * 43495911 TGTACAAATTAATTCCAGAAATGTACAACCATATACGAATCAATTCAGTAACTT 131 TGTACAAATTAATTCCAGAAATGTACAACCATATACGAATCAATTAAGCAACTT * * 43495965 ATATCCATATACAAAATAATTCGGCAATGTATAACCATACACGAATCAA 1 ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACGAATCAA 43496014 TATATCCATA Statistics Matches: 217, Mismatches: 16, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 184 217 1.00 ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28 Consensus pattern (184 bp): ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACGAATCAAGTTCAGCAATGTATAA TCATATACAAATCAAACTCGGCTTCCTATATTCATAAACAATTCAACTTCGACAATATATAACCA TGTACAAATTAATTCCAGAAATGTACAACCATATACGAATCAATTAAGCAACTT Found at i:43500319 original size:28 final size:31 Alignment explanation
Indices: 43500250--43500312 Score: 87 Period size: 28 Copynumber: 2.1 Consensus size: 31 43500240 TATATTTGTA * 43500250 ATAGACTATTTTAATCATTTTTTATAATTTTT 1 ATAG-CTATTTTAATCATTTTTTATAATTTAT 43500282 ATAGCT-TTTTAAT-A-TTTTTATAATTTAT 1 ATAGCTATTTTAATCATTTTTTATAATTTAT 43500310 ATA 1 ATA 43500313 TTATTTTTAG Statistics Matches: 30, Mismatches: 1, Indels: 4 0.86 0.03 0.11 Matches are distributed among these distances: 28 16 0.53 29 1 0.03 30 7 0.23 31 2 0.07 32 4 0.13 ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59 Consensus pattern (31 bp): ATAGCTATTTTAATCATTTTTTATAATTTAT Found at i:43503661 original size:3 final size:3 Alignment explanation
Indices: 43503653--43503687 Score: 70 Period size: 3 Copynumber: 11.7 Consensus size: 3 43503643 CTTTAAGTAA 43503653 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA 1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA 43503688 AAGGTTATGA Statistics Matches: 32, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 32 1.00 ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00 Consensus pattern (3 bp): AAG Found at i:43504117 original size:4 final size:4 Alignment explanation
Indices: 43504110--43504136 Score: 54 Period size: 4 Copynumber: 6.8 Consensus size: 4 43504100 TTAAAAAAAA 43504110 AAAG AAAG AAAG AAAG AAAG AAAG AAA 1 AAAG AAAG AAAG AAAG AAAG AAAG AAA 43504137 AGAAGAAGCT Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 4 23 1.00 ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00 Consensus pattern (4 bp): AAAG Found at i:43504143 original size:12 final size:13 Alignment explanation
Indices: 43504109--43504140 Score: 57 Period size: 12 Copynumber: 2.5 Consensus size: 13 43504099 GTTAAAAAAA 43504109 AAAAGAAAGAAAG 1 AAAAGAAAGAAAG 43504122 -AAAGAAAGAAAG 1 AAAAGAAAGAAAG 43504134 AAAAGAA 1 AAAAGAA 43504141 GAAGCTTAAA Statistics Matches: 18, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 12 12 0.67 13 6 0.33 ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00 Consensus pattern (13 bp): AAAAGAAAGAAAG Found at i:43504804 original size:29 final size:31 Alignment explanation
Indices: 43504740--43504805 Score: 84 Period size: 29 Copynumber: 2.2 Consensus size: 31 43504730 GCTAAAATTA * 43504740 AATTTTAAATTTTAATAGTTAATATTTTTAT 1 AATTTTAAATATTAATAGTTAATATTTTTAT 43504771 AATTTTAAAGTATTAA-A-TTAA-ATTTTTAT 1 AATTTTAAA-TATTAATAGTTAATATTTTTAT * 43504800 TATTTT 1 AATTTT 43504806 TAAGAGTTTA Statistics Matches: 32, Mismatches: 2, Indels: 4 0.84 0.05 0.11 Matches are distributed among these distances: 29 13 0.41 30 4 0.12 31 10 0.31 32 5 0.16 ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58 Consensus pattern (31 bp): AATTTTAAATATTAATAGTTAATATTTTTAT Found at i:43505145 original size:18 final size:18 Alignment explanation
Indices: 43505115--43505150 Score: 56 Period size: 18 Copynumber: 2.0 Consensus size: 18 43505105 AATGTACGGG 43505115 TGACAGTTGTGAATATAA 1 TGACAGTTGTGAATATAA 43505133 TGACAAGTT-TGAATATAA 1 TGAC-AGTTGTGAATATAA 43505151 AAAATAAAAT Statistics Matches: 17, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 18 13 0.76 19 4 0.24 ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33 Consensus pattern (18 bp): TGACAGTTGTGAATATAA Found at i:43505227 original size:27 final size:25 Alignment explanation
Indices: 43505196--43505251 Score: 67 Period size: 27 Copynumber: 2.2 Consensus size: 25 43505186 TTAAAATTAC * * 43505196 ATATGAATTTTGATTTAATGTGCAATT 1 ATATGAACTTTAATTT-A-GTGCAATT * 43505223 ATATGAACTTTAATTTAGTGTAATT 1 ATATGAACTTTAATTTAGTGCAATT 43505248 ATAT 1 ATAT 43505252 ACATGAAACT Statistics Matches: 26, Mismatches: 3, Indels: 2 0.84 0.10 0.06 Matches are distributed among these distances: 25 11 0.42 26 1 0.04 27 14 0.54 ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48 Consensus pattern (25 bp): ATATGAACTTTAATTTAGTGCAATT Found at i:43505267 original size:30 final size:30 Alignment explanation
Indices: 43505228--43505299 Score: 83 Period size: 31 Copynumber: 2.4 Consensus size: 30 43505218 CAATTATATG * 43505228 AACTTTAATTTAGTGT-AATTATATACATGA 1 AACTTTAATTTAGT-TCAAATATATACATGA * * * 43505258 AACTCTAATTGTGGTTCAAATATATACTTGA 1 AACTTTAATT-TAGTTCAAATATATACATGA 43505289 AACTTTAATTT 1 AACTTTAATTT 43505300 TAATTTAGTC Statistics Matches: 35, Mismatches: 5, Indels: 4 0.80 0.11 0.09 Matches are distributed among these distances: 30 11 0.31 31 24 0.69 ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43 Consensus pattern (30 bp): AACTTTAATTTAGTTCAAATATATACATGA Found at i:43505660 original size:19 final size:20 Alignment explanation
Indices: 43505611--43505650 Score: 80 Period size: 20 Copynumber: 2.0 Consensus size: 20 43505601 ATTTATATAA 43505611 ATTCACTAAAAATTAAAATT 1 ATTCACTAAAAATTAAAATT 43505631 ATTCACTAAAAATTAAAATT 1 ATTCACTAAAAATTAAAATT 43505651 TTCTTCAAAA Statistics Matches: 20, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 20 20 1.00 ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35 Consensus pattern (20 bp): ATTCACTAAAAATTAAAATT Found at i:43508852 original size:16 final size:17 Alignment explanation
Indices: 43508831--43508863 Score: 50 Period size: 18 Copynumber: 1.9 Consensus size: 17 43508821 CAATTAGATA 43508831 TTCATC-ACATGTAATT 1 TTCATCAACATGTAATT 43508847 TTCATCTAACATGTAAT 1 TTCATC-AACATGTAAT 43508864 GCCAATGAGA Statistics Matches: 15, Mismatches: 0, Indels: 2 0.88 0.00 0.12 Matches are distributed among these distances: 16 6 0.40 18 9 0.60 ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42 Consensus pattern (17 bp): TTCATCAACATGTAATT Found at i:43517222 original size:13 final size:13 Alignment explanation
Indices: 43517204--43517233 Score: 51 Period size: 13 Copynumber: 2.3 Consensus size: 13 43517194 GAGTACGTAT * 43517204 AAAACATGACTTG 1 AAAACATAACTTG 43517217 AAAACATAACTTG 1 AAAACATAACTTG 43517230 AAAA 1 AAAA 43517234 TAGAGTTTAT Statistics Matches: 16, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 13 16 1.00 ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20 Consensus pattern (13 bp): AAAACATAACTTG Found at i:43518710 original size:44 final size:44 Alignment explanation
Indices: 43518647--43518735 Score: 169 Period size: 44 Copynumber: 2.0 Consensus size: 44 43518637 GATGCTTGCT 43518647 TGGTAACTATTATTATATATAAACTCTGAAAAAGGTAAATAACA 1 TGGTAACTATTATTATATATAAACTCTGAAAAAGGTAAATAACA * 43518691 TGGTAACTATTATTATATATAAACTCTGACAAAGGTAAATAACA 1 TGGTAACTATTATTATATATAAACTCTGAAAAAGGTAAATAACA 43518735 T 1 T 43518736 TTCCAACTTC Statistics Matches: 44, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 44 44 1.00 ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33 Consensus pattern (44 bp): TGGTAACTATTATTATATATAAACTCTGAAAAAGGTAAATAACA Done.