Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Scaffold59 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: 3999109 ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32 Warning! 268233 characters in sequence are not A, C, G, or T File 21 of 25 Found at i:3075798 original size:507 final size:506 Alignment explanation
Indices: 3074839--3075837 Score: 1724 Period size: 507 Copynumber: 2.0 Consensus size: 506 3074829 ATATATATAT 3074839 ATATATATATATATATAAACACACACATAGCAATGGAGTCGTGGGCCATGGGATTTTCTTCTATG 1 ATATATATATATATATAAACACACACATAGCAATGGAGTCGTGGGCCATGGGATTTTCTTCTATG 3074904 AAAGTGATTTATTTTCTCACTCACTTTTCCAAAACATTCTTATAAAAGGAAATAGTGAGGAAGGT 66 AAAGTGATTTATTTTCTCACTCACTTTTCCAAAACATTCTTATAAAAGGAAATAGTGAGGAAGGT * 3074969 GAGTGAAAGAACATTTATTCTTTTTCAAGCACTTGTCATTTGTATTAGAAGAAATATTTAATAGA 131 GAGTGAAAGAACATTTATTCATTTTCAAGCACTTGTCATTTGTATTAGAAGAAATATTTAATAGA * * * 3075034 AGTCTCAAACTAAAAATATTTTGTAATTCAATATTTAATTTAATTAATTTATGTAGTTATTTTTA 196 AGTCTCAAACTAAAAATATTTTATAATTCAATATGTAATTTAATTAATTTATATAGTTATTTTTA * * 3075099 AAAAATAGTATTTAGTGAGTTTGAATTCAATTGTAAAAAAAAAAAATATTCTCGACAATTCTTTA 261 AAAAATAGTATTTAGTGAGTTTGAATTCAATTGT--AAAAAAAAAATATCCCCGACAATTCTTTA 3075164 TACTATAATTTTATAATTATGCTTAATTGGATTAAAAAAATTGATACATATAAAAAAAAAAACCT 324 TACTATAATTTTATAATTATGCTTAATTGGATTAAAAAAATTGATACATATAAAAAAAAAAACCT * 3075229 TAGTTGCCAATATTGCAATTAAGAAGTAAGTCGTCAATGTTGTAAACCTATTAAATTTTTCCTTA 389 TAGTTGCCAATATTGCAATTAAGAAGTAAGTCGTCAATGTTGTAAACCTATTAAAATTTTCCTTA 3075294 ATCTAACTAAATACAATTG-A-ATTATAATATAAAAGTCCGGAAAAAGAATAC 454 ATCTAACTAAATACAATTGAAGATTATAATATAAAAGTCCGGAAAAAGAATAC * 3075345 ATATATATATATATATAAACACACACATAGCAATGGAGTCGTGGGCCATGGGAATTTTCTTTTAT 1 ATATATATATATATATAAACACACACATAGCAATGGAGTCGTGGGCCATGGG-ATTTTCTTCTAT * 3075410 GAAAGTGATTTATTTTCTCACTCACTTTTCCAAAACATTCTTATTAAAGGAAATAGTGAGGAAGG 65 GAAAGTGATTTATTTTCTCACTCACTTTTCCAAAACATTCTTATAAAAGGAAATAGTGAGGAAGG 3075475 TGAGTGAAAGAACATTTATTCATTTTCAAGCACTTGTCATTTGTATTAGAAGAAATATTTAATAG 130 TGAGTGAAAGAACATTTATTCATTTTCAAGCACTTGTCATTTGTATTAGAAGAAATATTTAATAG * * 3075540 AAGTCTCAAACTAAAAATATTTTATAATTCAATGTGTAATTTAATTGATTTATATAGTTATTTTT 195 AAGTCTCAAACTAAAAATATTTTATAATTCAATATGTAATTTAATTAATTTATATAGTTATTTTT * * 3075605 AAAAAAT-GATATTTAGTGAGTTTGAATTCAA-T-T-ATAAAAAAA-ATCCCCGATAATTCTTTA 260 AAAAAATAG-TATTTAGTGAGTTTGAATTCAATTGTAAAAAAAAAATATCCCCGACAATTCTTTA * 3075665 TAGTATAATTTTATAATTATGCTTAATTGGATTAAAAAAATTGATACATATAGAAAAAAAAAAAA 324 TACTATAATTTTATAATTATGCTTAATTGGATTAAAAAAATTGATACATAT------AAAAAAAA 3075730 AAACCTTAGTTGCCAATATTGCAATTAAGAAGTAAGTCGTCAATGTTGTAAACCTATTAAAATTT 383 AAACCTTAGTTGCCAATATTGCAATTAAGAAGTAAGTCGTCAATGTTGTAAACCTATTAAAATTT 3075795 TCCTTAATCTAACTAAATACAATTGAAGGATTATAATATAAAA 448 TCCTTAATCTAACTAAATACAATTGAA-GATTATAATATAAAA 3075838 AAATTGTAAA Statistics Matches: 468, Mismatches: 14, Indels: 18 0.94 0.03 0.04 Matches are distributed among these distances: 501 65 0.14 502 8 0.02 505 1 0.00 506 54 0.12 507 325 0.69 508 1 0.00 510 14 0.03 ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36 Consensus pattern (506 bp): ATATATATATATATATAAACACACACATAGCAATGGAGTCGTGGGCCATGGGATTTTCTTCTATG AAAGTGATTTATTTTCTCACTCACTTTTCCAAAACATTCTTATAAAAGGAAATAGTGAGGAAGGT GAGTGAAAGAACATTTATTCATTTTCAAGCACTTGTCATTTGTATTAGAAGAAATATTTAATAGA AGTCTCAAACTAAAAATATTTTATAATTCAATATGTAATTTAATTAATTTATATAGTTATTTTTA AAAAATAGTATTTAGTGAGTTTGAATTCAATTGTAAAAAAAAAATATCCCCGACAATTCTTTATA CTATAATTTTATAATTATGCTTAATTGGATTAAAAAAATTGATACATATAAAAAAAAAAACCTTA GTTGCCAATATTGCAATTAAGAAGTAAGTCGTCAATGTTGTAAACCTATTAAAATTTTCCTTAAT CTAACTAAATACAATTGAAGATTATAATATAAAAGTCCGGAAAAAGAATAC Found at i:3079454 original size:209 final size:209 Alignment explanation
Indices: 3079090--3079482 Score: 644 Period size: 209 Copynumber: 1.9 Consensus size: 209 3079080 CGTCTTAAAA * * * * * * 3079090 TTTAATTTATATATATTACATGAACCAGCATATATGTGTTTTTAATATGAGATCTGACACCAACC 1 TTTAATTTATATATACTACATGAACCACCATATATATATTTCTAATATGAGATCCGACACCAACC * * * 3079155 ACTCTTTTTTACTTTAAGTAAATATTTTGTGATTAATTTTTAATTTATTATAAATATTAATTATA 66 ACTCTTTTCTACTTTAAGTAAATATTTTATAATTAATTTTTAATTTATTATAAATATTAATTATA * 3079220 TAATATATTTTATACATCGTATATTTAAATATAATAAATTATATAAATATATATTACATGTATAC 131 TAATATATTTTATACATCATATATTTAAATATAATAAATTATATAAATATATATTACATGTATAC 3079285 TACATGAATCAATT 196 TACATGAATCAATT * * * * 3079299 TTTAATTTATATATACTACATGAATCACCCTGTATATATTTCTAATATGAGATCCGACACCAACT 1 TTTAATTTATATATACTACATGAACCACCATATATATATTTCTAATATGAGATCCGACACCAACC 3079364 ACTCTTTTCTACTTTTAAGTAAATATTTTATAATTAATTTTTAATTTATTATAAATATTAATTAT 66 ACTCTTTTCTAC-TTTAAGTAAATATTTTATAATTAATTTTTAATTTATTATAAATATTAATTAT 3079429 ATAATATA-TTTATACATCATATATTTAAATATAATAAATTATATAAATATATAT 130 ATAATATATTTTATACATCATATATTTAAATATAATAAATTATATAAATATATAT 3079483 ATTTAATATT Statistics Matches: 169, Mismatches: 14, Indels: 2 0.91 0.08 0.01 Matches are distributed among these distances: 209 111 0.66 210 58 0.34 ACGTcount: A:0.40, C:0.10, G:0.05, T:0.46 Consensus pattern (209 bp): TTTAATTTATATATACTACATGAACCACCATATATATATTTCTAATATGAGATCCGACACCAACC ACTCTTTTCTACTTTAAGTAAATATTTTATAATTAATTTTTAATTTATTATAAATATTAATTATA TAATATATTTTATACATCATATATTTAAATATAATAAATTATATAAATATATATTACATGTATAC TACATGAATCAATT Found at i:3079482 original size:10 final size:10 Alignment explanation
Indices: 3079447--3079483 Score: 51 Period size: 9 Copynumber: 3.9 Consensus size: 10 3079437 TTTATACATC * 3079447 ATATATTTAA 1 ATATATATAA 3079457 ATATA-ATAA 1 ATATATATAA 3079466 AT-TATATAA 1 ATATATATAA 3079475 ATATATATA 1 ATATATATA 3079484 TTTAATATTT Statistics Matches: 24, Mismatches: 1, Indels: 4 0.83 0.03 0.14 Matches are distributed among these distances: 8 2 0.08 9 11 0.46 10 11 0.46 ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43 Consensus pattern (10 bp): ATATATATAA Found at i:3079482 original size:22 final size:22 Alignment explanation
Indices: 3079423--3079483 Score: 54 Period size: 22 Copynumber: 2.9 Consensus size: 22 3079413 TATAAATATT * 3079423 AATTATAT-AATATAT-TTATA 1 AATTATATAAATATATATAATA * * ** * 3079443 CATCATATATTTAAATATAATA 1 AATTATATAAATATATATAATA 3079465 AATTATATAAATATATATA 1 AATTATATAAATATATATA 3079484 TTTAATATTT Statistics Matches: 28, Mismatches: 11, Indels: 2 0.68 0.27 0.05 Matches are distributed among these distances: 20 6 0.21 21 4 0.14 22 18 0.64 ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44 Consensus pattern (22 bp): AATTATATAAATATATATAATA Found at i:3079808 original size:14 final size:14 Alignment explanation
Indices: 3079775--3079808 Score: 59 Period size: 14 Copynumber: 2.4 Consensus size: 14 3079765 TAATGCATTC * 3079775 ATATTAAAAATAAT 1 ATATTTAAAATAAT 3079789 ATATTTAAAATAAT 1 ATATTTAAAATAAT 3079803 ATATTT 1 ATATTT 3079809 TATTTATAAT Statistics Matches: 19, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 14 19 1.00 ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44 Consensus pattern (14 bp): ATATTTAAAATAAT Found at i:3080225 original size:10 final size:10 Alignment explanation
Indices: 3080210--3080243 Score: 52 Period size: 10 Copynumber: 3.4 Consensus size: 10 3080200 AAGAAATCGA 3080210 AAATATTATT 1 AAATATTATT 3080220 AAATATT-TT 1 AAATATTATT 3080229 AAAATATTATT 1 -AAATATTATT 3080240 AAAT 1 AAAT 3080244 TCATATTTAT Statistics Matches: 22, Mismatches: 0, Indels: 4 0.85 0.00 0.15 Matches are distributed among these distances: 9 2 0.09 10 18 0.82 11 2 0.09 ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47 Consensus pattern (10 bp): AAATATTATT Found at i:3080744 original size:20 final size:20 Alignment explanation
Indices: 3080694--3080747 Score: 65 Period size: 20 Copynumber: 2.8 Consensus size: 20 3080684 AATAAATATT * 3080694 TTAATTTTATA-AAAAATAA 1 TTAATTTTAAATAAAAATAA * ** 3080713 TTAACTAAAAATAAAAATAA 1 TTAATTTTAAATAAAAATAA 3080733 TTAATTTTAAATAAA 1 TTAATTTTAAATAAA 3080748 GATATATATA Statistics Matches: 27, Mismatches: 7, Indels: 1 0.77 0.20 0.03 Matches are distributed among these distances: 19 7 0.26 20 20 0.74 ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37 Consensus pattern (20 bp): TTAATTTTAAATAAAAATAA Found at i:3081339 original size:11 final size:11 Alignment explanation
Indices: 3081323--3081353 Score: 53 Period size: 11 Copynumber: 2.7 Consensus size: 11 3081313 TCATCTTTTA 3081323 ATTTATTAAAT 1 ATTTATTAAAT 3081334 ATTTATTAAAT 1 ATTTATTAAAT 3081345 ATTATATTA 1 ATT-TATTA 3081354 TTAAATTTTT Statistics Matches: 19, Mismatches: 0, Indels: 1 0.95 0.00 0.05 Matches are distributed among these distances: 11 14 0.74 12 5 0.26 ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55 Consensus pattern (11 bp): ATTTATTAAAT Found at i:3081453 original size:3 final size:3 Alignment explanation
Indices: 3081447--3081489 Score: 77 Period size: 3 Copynumber: 14.3 Consensus size: 3 3081437 GCTCAACAAC * 3081447 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT A 1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A 3081490 TTATTTACTT Statistics Matches: 38, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 3 38 1.00 ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33 Consensus pattern (3 bp): AAT Found at i:3081788 original size:24 final size:25 Alignment explanation
Indices: 3081754--3081819 Score: 68 Period size: 24 Copynumber: 2.7 Consensus size: 25 3081744 ATACAATTAA 3081754 TTAATATTAAATTTATTATTAT-ATT 1 TTAAT-TTAAATTTATTATTATCATT 3081779 TTAATTTAAAATTT-TT-TTATCATT 1 TTAATTT-AAATTTATTATTATCATT * 3081803 ATAATTT-AATTTCATTA 1 TTAATTTAAATTT-ATTA 3081820 ATTTGTTAAA Statistics Matches: 35, Mismatches: 1, Indels: 10 0.76 0.02 0.22 Matches are distributed among these distances: 22 5 0.14 23 4 0.11 24 15 0.43 25 11 0.31 ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59 Consensus pattern (25 bp): TTAATTTAAATTTATTATTATCATT Found at i:3082250 original size:20 final size:20 Alignment explanation
Indices: 3082225--3082264 Score: 64 Period size: 20 Copynumber: 2.0 Consensus size: 20 3082215 TAATTTAATT 3082225 ATAAAAATATAAAAA-TATTA 1 ATAAAAATA-AAAAATTATTA 3082245 ATAAAAATAAAAAATTATTA 1 ATAAAAATAAAAAATTATTA 3082265 TTTTATTATT Statistics Matches: 19, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 19 5 0.26 20 14 0.74 ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30 Consensus pattern (20 bp): ATAAAAATAAAAAATTATTA Found at i:3082310 original size:6 final size:6 Alignment explanation
Indices: 3082299--3082323 Score: 50 Period size: 6 Copynumber: 4.2 Consensus size: 6 3082289 CGATTTGAAC 3082299 TAAATT TAAATT TAAATT TAAATT T 1 TAAATT TAAATT TAAATT TAAATT T 3082324 TTTAAATTCG Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 19 1.00 ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52 Consensus pattern (6 bp): TAAATT Found at i:3082777 original size:18 final size:18 Alignment explanation
Indices: 3082751--3082786 Score: 63 Period size: 18 Copynumber: 2.0 Consensus size: 18 3082741 TATTCTTTTT * 3082751 TTTTGTAAAATTTAAAAA 1 TTTTATAAAATTTAAAAA 3082769 TTTTATAAAATTTAAAAA 1 TTTTATAAAATTTAAAAA 3082787 CGTATTGAAT Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 18 17 1.00 ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44 Consensus pattern (18 bp): TTTTATAAAATTTAAAAA Found at i:3082990 original size:15 final size:14 Alignment explanation
Indices: 3082970--3083023 Score: 56 Period size: 15 Copynumber: 3.7 Consensus size: 14 3082960 TGATCTCAAA 3082970 ATTTAATTTATATTT 1 ATTTAATTT-TATTT 3082985 ATTTAATTTT-TTAT 1 ATTTAATTTTATT-T * 3082999 AATTTAATTTTATAT 1 -ATTTAATTTTATTT * 3083014 ATTAAATTTT 1 ATTTAATTTT 3083024 TAGACAAACA Statistics Matches: 34, Mismatches: 2, Indels: 7 0.79 0.05 0.16 Matches are distributed among these distances: 13 2 0.06 14 11 0.32 15 20 0.59 16 1 0.03 ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65 Consensus pattern (14 bp): ATTTAATTTTATTT Found at i:3083920 original size:24 final size:24 Alignment explanation
Indices: 3083867--3083921 Score: 58 Period size: 24 Copynumber: 2.3 Consensus size: 24 3083857 ATTATTATTT * * 3083867 AAATAA-TAAAAATATTTATATAT 1 AAATAATTAAAAATATTAATATAA ** * 3083890 ATTTAATTATAAATATTAATATAA 1 AAATAATTAAAAATATTAATATAA 3083914 AAATAATT 1 AAATAATT 3083922 TTTATATTAT Statistics Matches: 24, Mismatches: 7, Indels: 1 0.75 0.22 0.03 Matches are distributed among these distances: 23 4 0.17 24 20 0.83 ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42 Consensus pattern (24 bp): AAATAATTAAAAATATTAATATAA Found at i:3084242 original size:21 final size:22 Alignment explanation
Indices: 3084218--3084259 Score: 68 Period size: 21 Copynumber: 2.0 Consensus size: 22 3084208 CTATATTATA * 3084218 ATTTTTTAAAATTTAA-AATTT 1 ATTTTTTAAAAATTAATAATTT 3084239 ATTTTTTAAAAATTAATAATT 1 ATTTTTTAAAAATTAATAATT 3084260 GATAATTTAA Statistics Matches: 19, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 21 15 0.79 22 4 0.21 ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55 Consensus pattern (22 bp): ATTTTTTAAAAATTAATAATTT Found at i:3084713 original size:3 final size:3 Alignment explanation
Indices: 3084705--3084751 Score: 85 Period size: 3 Copynumber: 15.7 Consensus size: 3 3084695 AACATAATCT * 3084705 ATA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT 1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT 3084752 TAGACAAATA 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:0.64, C:0.00, G:0.00, T:0.36 Consensus pattern (3 bp): ATA Found at i:3084997 original size:29 final size:30 Alignment explanation
Indices: 3084965--3085023 Score: 84 Period size: 29 Copynumber: 2.0 Consensus size: 30 3084955 ATAAACAAGA * * 3084965 TTAATAATTTTTTTTATATTTTATT-TATT 1 TTAATAATTTTTTTAATATTTAATTATATT * 3084994 TTAATTATTTTTTTAATATTTAATTATATT 1 TTAATAATTTTTTTAATATTTAATTATATT 3085024 ATGTCATTTT Statistics Matches: 26, Mismatches: 3, Indels: 1 0.87 0.10 0.03 Matches are distributed among these distances: 29 22 0.85 30 4 0.15 ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69 Consensus pattern (30 bp): TTAATAATTTTTTTAATATTTAATTATATT Found at i:3085005 original size:19 final size:20 Alignment explanation
Indices: 3084978--3085023 Score: 60 Period size: 19 Copynumber: 2.4 Consensus size: 20 3084968 ATAATTTTTT * 3084978 TTATATTTTATTTAT-TTTAA 1 TTATATTTT-TTAATATTTAA 3084998 TTAT-TTTTTTAATATTTAA 1 TTATATTTTTTAATATTTAA 3085017 TTATATT 1 TTATATT 3085024 ATGTCATTTT Statistics Matches: 23, Mismatches: 1, Indels: 4 0.82 0.04 0.14 Matches are distributed among these distances: 18 4 0.17 19 13 0.57 20 6 0.26 ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70 Consensus pattern (20 bp): TTATATTTTTTAATATTTAA Found at i:3085134 original size:4 final size:4 Alignment explanation
Indices: 3085127--3085167 Score: 59 Period size: 4 Copynumber: 10.8 Consensus size: 4 3085117 AAGAAAGAGG * 3085127 ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATTT ATGT ATG 1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG 3085168 GGTGTGTGCT Statistics Matches: 33, Mismatches: 2, Indels: 4 0.85 0.05 0.10 Matches are distributed among these distances: 2 2 0.06 4 31 0.94 ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51 Consensus pattern (4 bp): ATGT Found at i:3085153 original size:18 final size:18 Alignment explanation
Indices: 3085130--3085166 Score: 65 Period size: 18 Copynumber: 2.1 Consensus size: 18 3085120 AAAGAGGATG 3085130 TATGTATGTATGTATGTA 1 TATGTATGTATGTATGTA * 3085148 TATGTATGTATTTATGTA 1 TATGTATGTATGTATGTA 3085166 T 1 T 3085167 GGGTGTGTGC Statistics Matches: 18, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 18 18 1.00 ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54 Consensus pattern (18 bp): TATGTATGTATGTATGTA Found at i:3090258 original size:20 final size:19 Alignment explanation
Indices: 3090217--3090275 Score: 64 Period size: 20 Copynumber: 2.9 Consensus size: 19 3090207 ATATAATTAT * 3090217 ATTATTAAATTTAATAATAAA 1 ATTATTAAATAT-ATAA-AAA * 3090238 TTTATTAAATATATAAAAA 1 ATTATTAAATATATAAAAA * 3090257 ATTATAAAATTATATAAAA 1 ATTATTAAA-TATATAAAA 3090276 TTAATTTAAT Statistics Matches: 33, Mismatches: 4, Indels: 3 0.82 0.10 0.08 Matches are distributed among these distances: 19 10 0.30 20 13 0.39 21 10 0.30 ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41 Consensus pattern (19 bp): ATTATTAAATATATAAAAA Found at i:3090276 original size:18 final size:19 Alignment explanation
Indices: 3090233--3090278 Score: 58 Period size: 19 Copynumber: 2.5 Consensus size: 19 3090223 AAATTTAATA * * 3090233 ATAAATTTATTAAATATAT 1 ATAAAATTATAAAATATAT * 3090252 AAAAAATTATAAAAT-TAT 1 ATAAAATTATAAAATATAT 3090270 ATAAAATTA 1 ATAAAATTA 3090279 ATTTAATTTT Statistics Matches: 23, Mismatches: 4, Indels: 1 0.82 0.14 0.04 Matches are distributed among these distances: 18 11 0.48 19 12 0.52 ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39 Consensus pattern (19 bp): ATAAAATTATAAAATATAT Found at i:3090477 original size:10 final size:10 Alignment explanation
Indices: 3090448--3090483 Score: 56 Period size: 10 Copynumber: 3.7 Consensus size: 10 3090438 TTTAGCAATG 3090448 TTATTAAATA 1 TTATTAAATA * 3090458 TTATT-GATA 1 TTATTAAATA 3090467 TTATTAAATA 1 TTATTAAATA 3090477 TTATTAA 1 TTATTAA 3090484 TGTGATATGT Statistics Matches: 23, Mismatches: 2, Indels: 2 0.85 0.07 0.07 Matches are distributed among these distances: 9 8 0.35 10 15 0.65 ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53 Consensus pattern (10 bp): TTATTAAATA Found at i:3092144 original size:15 final size:16 Alignment explanation
Indices: 3092126--3092161 Score: 56 Period size: 15 Copynumber: 2.3 Consensus size: 16 3092116 CTATATATTA * 3092126 TATATATTATA-AATT 1 TATATATTACATAATT 3092141 TATATATTACATAATT 1 TATATATTACATAATT 3092157 TATAT 1 TATAT 3092162 TATATAAAAA Statistics Matches: 19, Mismatches: 1, Indels: 1 0.90 0.05 0.05 Matches are distributed among these distances: 15 10 0.53 16 9 0.47 ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53 Consensus pattern (16 bp): TATATATTACATAATT Found at i:3092173 original size:17 final size:16 Alignment explanation
Indices: 3092123--3092184 Score: 54 Period size: 17 Copynumber: 3.7 Consensus size: 16 3092113 CTTCTATATA * 3092123 TTATATATATTATAAAT 1 TTATATATA-TAAAAAT * 3092140 TTATATAT-TACATAAT 1 TTATATATATA-AAAAT 3092156 TTATATTATATAAAAAT 1 TTATA-TATATAAAAAT * 3092173 TAATCATATATA 1 TTAT-ATATATA 3092185 GTATAAACAT Statistics Matches: 37, Mismatches: 4, Indels: 8 0.76 0.08 0.16 Matches are distributed among these distances: 15 2 0.05 16 8 0.22 17 24 0.65 18 3 0.08 ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48 Consensus pattern (16 bp): TTATATATATAAAAAT Found at i:3094137 original size:19 final size:18 Alignment explanation
Indices: 3094111--3094146 Score: 54 Period size: 19 Copynumber: 1.9 Consensus size: 18 3094101 AATAATTAAA * 3094111 AAATTAAATTAAAATTAT 1 AAATTAAAATAAAATTAT 3094129 AAATATAAAATAAAATTA 1 AAAT-TAAAATAAAATTA 3094147 AAAGTATTTA Statistics Matches: 16, Mismatches: 1, Indels: 1 0.89 0.06 0.06 Matches are distributed among these distances: 18 4 0.25 19 12 0.75 ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33 Consensus pattern (18 bp): AAATTAAAATAAAATTAT Found at i:3095199 original size:2 final size:2 Alignment explanation
Indices: 3095192--3095227 Score: 72 Period size: 2 Copynumber: 18.0 Consensus size: 2 3095182 TCTCTGCCGA 3095192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 3095228 GACTATGAGA Statistics Matches: 34, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 34 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:3095506 original size:2 final size:2 Alignment explanation
Indices: 3095499--3095555 Score: 59 Period size: 2 Copynumber: 30.5 Consensus size: 2 3095489 TCTTATCTTT * * * 3095499 TA TA TA TA CA TA TA TA TA -A TC T- TA TA -A TA TA TA TC T- TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 3095537 TA TA TA TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA T 3095556 GTATCAATCA Statistics Matches: 47, Mismatches: 4, Indels: 8 0.80 0.07 0.14 Matches are distributed among these distances: 1 4 0.09 2 43 0.91 ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49 Consensus pattern (2 bp): TA Found at i:3095530 original size:15 final size:16 Alignment explanation
Indices: 3095508--3095546 Score: 64 Period size: 15 Copynumber: 2.6 Consensus size: 16 3095498 TTATATATAC 3095508 ATATATATAATCTTAT 1 ATATATATAATCTTAT 3095524 A-ATATAT-ATCTTAT 1 ATATATATAATCTTAT 3095538 ATATATATA 1 ATATATATA 3095547 TATATATATG Statistics Matches: 21, Mismatches: 0, Indels: 4 0.84 0.00 0.16 Matches are distributed among these distances: 14 8 0.38 15 12 0.57 16 1 0.05 ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49 Consensus pattern (16 bp): ATATATATAATCTTAT Found at i:3095549 original size:17 final size:15 Alignment explanation
Indices: 3095508--3095547 Score: 66 Period size: 14 Copynumber: 2.8 Consensus size: 15 3095498 TTATATATAC 3095508 ATATATATA-ATCTT 1 ATATATATATATCTT 3095522 ATA-ATATATATCTT 1 ATATATATATATCTT 3095536 ATATATATATAT 1 ATATATATATAT 3095548 ATATATATGT Statistics Matches: 24, Mismatches: 0, Indels: 3 0.89 0.00 0.11 Matches are distributed among these distances: 13 5 0.21 14 11 0.46 15 8 0.33 ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50 Consensus pattern (15 bp): ATATATATATATCTT Found at i:3097243 original size:20 final size:20 Alignment explanation
Indices: 3097218--3097262 Score: 56 Period size: 20 Copynumber: 2.2 Consensus size: 20 3097208 TATAAATTAA 3097218 AAATTATAATTT-TTTAAATT 1 AAATTA-AATTTATTTAAATT * 3097238 AAATTAAATTTATTTTAATT 1 AAATTAAATTTATTTAAATT * 3097258 TAATT 1 AAATT 3097263 TTTTATAATA Statistics Matches: 22, Mismatches: 2, Indels: 2 0.85 0.08 0.08 Matches are distributed among these distances: 19 5 0.23 20 17 0.77 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (20 bp): AAATTAAATTTATTTAAATT Found at i:3097389 original size:12 final size:12 Alignment explanation
Indices: 3097368--3097400 Score: 50 Period size: 12 Copynumber: 2.8 Consensus size: 12 3097358 TTTAATTTAA 3097368 ATAT-ATTTTTT 1 ATATAATTTTTT 3097379 ATATAATTTTTT 1 ATATAATTTTTT * 3097391 ATTTAATTTT 1 ATATAATTTT 3097401 AATACCATTT Statistics Matches: 20, Mismatches: 1, Indels: 1 0.91 0.05 0.05 Matches are distributed among these distances: 11 4 0.20 12 16 0.80 ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70 Consensus pattern (12 bp): ATATAATTTTTT Found at i:3100018 original size:14 final size:14 Alignment explanation
Indices: 3099973--3100025 Score: 52 Period size: 14 Copynumber: 3.6 Consensus size: 14 3099963 TTTAATAATT * 3099973 ATATAAATATAAAATA 1 ATATAAAT-TTAAA-A 3099989 ATATAATATTTAAAA 1 ATATAA-ATTTAAAA * * 3100004 ATTTAAATTTTAAA 1 ATATAAATTTAAAA 3100018 ATATAAAT 1 ATATAAAT 3100026 ATAATATGTA Statistics Matches: 32, Mismatches: 4, Indels: 4 0.80 0.10 0.10 Matches are distributed among these distances: 14 14 0.44 15 6 0.19 16 10 0.31 17 2 0.06 ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40 Consensus pattern (14 bp): ATATAAATTTAAAA Found at i:3100111 original size:19 final size:17 Alignment explanation
Indices: 3100069--3100127 Score: 68 Period size: 16 Copynumber: 3.4 Consensus size: 17 3100059 ATATTTTAAA 3100069 TATAATTTTATTATATT 1 TATAATTTTATTATATT 3100086 TAT-ATTTTATTATATT 1 TATAATTTTATTATATT 3100102 TATTAAATTTT-TATATATT 1 TA-T-AATTTTAT-TATATT * 3100121 TAAAATT 1 TATAATT 3100128 ATTAAATTTA Statistics Matches: 37, Mismatches: 1, Indels: 8 0.80 0.02 0.17 Matches are distributed among these distances: 16 15 0.41 17 8 0.22 18 1 0.03 19 13 0.35 ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63 Consensus pattern (17 bp): TATAATTTTATTATATT Found at i:3100111 original size:25 final size:26 Alignment explanation
Indices: 3100075--3100142 Score: 68 Period size: 25 Copynumber: 2.7 Consensus size: 26 3100065 TAAATATAAT * * 3100075 TTTATTATATTTATATTTTA-TTATA 1 TTTATTAAATTTATATTTTATTTAAA * * 3100100 TTTATTAAATTTTTA-TATATTTAAA 1 TTTATTAAATTTATATTTTATTTAAA * * 3100125 ATTATTAAATTTAAATTT 1 TTTATTAAATTTATATTT 3100143 AAATTTTTTT Statistics Matches: 33, Mismatches: 8, Indels: 3 0.75 0.18 0.07 Matches are distributed among these distances: 24 3 0.09 25 29 0.88 26 1 0.03 ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62 Consensus pattern (26 bp): TTTATTAAATTTATATTTTATTTAAA Found at i:3100123 original size:16 final size:16 Alignment explanation
Indices: 3100074--3100142 Score: 52 Period size: 17 Copynumber: 4.1 Consensus size: 16 3100064 TTAAATATAA * 3100074 TTTTATTATATTTATATT 1 TTTTA-TATATTTA-AAT * 3100092 TTATTATATTTATTAAAT 1 TT-TTATATAT-TTAAAT 3100110 TTTTATATATTTAAAAT 1 TTTTATATATTT-AAAT * 3100127 TATTA-A-ATTTAAAT 1 TTTTATATATTTAAAT 3100141 TT 1 TT 3100143 AAATTTTTTT Statistics Matches: 43, Mismatches: 5, Indels: 10 0.74 0.09 0.17 Matches are distributed among these distances: 14 5 0.12 15 4 0.09 16 3 0.07 17 15 0.35 18 10 0.23 19 6 0.14 ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62 Consensus pattern (16 bp): TTTTATATATTTAAAT Found at i:3100228 original size:17 final size:16 Alignment explanation
Indices: 3100196--3100262 Score: 50 Period size: 16 Copynumber: 4.1 Consensus size: 16 3100186 ATTATTTATG 3100196 TTATATTTATATATAT 1 TTATATTTATATATAT 3100212 TTATATATTAT-TAATAT 1 TTATAT-TTATAT-ATAT * * 3100229 TTATCA-TCATAGATAT 1 TTAT-ATTTATATATAT * 3100245 TTATTATTT-TATTTAT 1 TTA-TATTTATATATAT 3100261 TT 1 TT 3100263 TTAAAATATA Statistics Matches: 40, Mismatches: 5, Indels: 12 0.70 0.09 0.21 Matches are distributed among these distances: 16 25 0.62 17 14 0.35 18 1 0.03 ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61 Consensus pattern (16 bp): TTATATTTATATATAT Found at i:3100737 original size:32 final size:29 Alignment explanation
Indices: 3100667--3100767 Score: 98 Period size: 32 Copynumber: 3.3 Consensus size: 29 3100657 TTAATTCAAA * 3100667 AAATTTT-ATATTTATAATTT-TATATTAT 1 AAATTTTAATATTTAAAATTTATATA-TAT ** 3100695 AAATAATAATATTTAAAATTATATAATCATAT 1 AAATTTTAATATTTAAAATT-TAT-AT-ATAT 3100727 AAATTTTAATATATTAATAATTTATATTATAT 1 AAATTTTAATAT-TTAA-AATTTATA-TATAT 3100759 AAATTTTAA 1 AAATTTTAA 3100768 AATATTTTTA Statistics Matches: 60, Mismatches: 5, Indels: 12 0.78 0.06 0.16 Matches are distributed among these distances: 28 5 0.08 29 11 0.18 30 1 0.02 31 1 0.02 32 29 0.48 33 9 0.15 34 4 0.07 ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50 Consensus pattern (29 bp): AAATTTTAATATTTAAAATTTATATATAT Found at i:3100746 original size:18 final size:19 Alignment explanation
Indices: 3100723--3100773 Score: 51 Period size: 13 Copynumber: 3.0 Consensus size: 19 3100713 TTATATAATC 3100723 ATATAAATTTTAATATATT 1 ATATAAATTTTAATATATT 3100742 A-AT-AA--TT--TATATT 1 ATATAAATTTTAATATATT * 3100755 ATATAAATTTTAAAATATT 1 ATATAAATTTTAATATATT 3100774 TTTATATTTA Statistics Matches: 25, Mismatches: 1, Indels: 12 0.66 0.03 0.32 Matches are distributed among these distances: 13 7 0.28 14 2 0.08 15 4 0.16 17 4 0.16 18 2 0.08 19 6 0.24 ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51 Consensus pattern (19 bp): ATATAAATTTTAATATATT Found at i:3100772 original size:14 final size:14 Alignment explanation
Indices: 3100667--3100772 Score: 54 Period size: 14 Copynumber: 7.0 Consensus size: 14 3100657 TTAATTCAAA * 3100667 AAATTTT-ATATTT 1 AAATTTTAATATAT 3100680 ATAATTTT-ATATTAT 1 A-AATTTTAATA-TAT ** * 3100695 AAATAATAATATTT 1 AAATTTTAATATAT 3100709 AAAATTATATAATCATAT 1 -AAATT-T-TAAT-ATAT 3100727 AAATTTTAATATATT 1 AAATTTTAATATA-T * 3100742 AATAATTTATATTATAT 1 -A-AATTT-TAATATAT * 3100759 AAATTTTAAAATAT 1 AAATTTTAATATAT 3100773 TTTTATATTT Statistics Matches: 72, Mismatches: 10, Indels: 21 0.70 0.10 0.20 Matches are distributed among these distances: 13 1 0.01 14 24 0.33 15 20 0.28 16 3 0.04 17 15 0.21 18 9 0.12 ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50 Consensus pattern (14 bp): AAATTTTAATATAT Found at i:3100773 original size:32 final size:33 Alignment explanation
Indices: 3100723--3100790 Score: 102 Period size: 32 Copynumber: 2.1 Consensus size: 33 3100713 TTATATAATC * 3100723 ATATAAATTTTAATATATTAATA-ATTTATATT 1 ATATAAATTTTAAAATATTAATATATTTATATT ** 3100755 ATATAAATTTTAAAATATTTTTATATTTATATT 1 ATATAAATTTTAAAATATTAATATATTTATATT 3100788 ATA 1 ATA 3100791 ATTATCTTAA Statistics Matches: 32, Mismatches: 3, Indels: 1 0.89 0.08 0.03 Matches are distributed among these distances: 32 20 0.62 33 12 0.38 ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54 Consensus pattern (33 bp): ATATAAATTTTAAAATATTAATATATTTATATT Found at i:3100808 original size:24 final size:22 Alignment explanation
Indices: 3100780--3100826 Score: 67 Period size: 24 Copynumber: 2.0 Consensus size: 22 3100770 TATTTTTATA 3100780 TTTATATTATAATTATCTTAATTT 1 TTTATATTATAATTAT-TT-ATTT * 3100804 TTTATATTTTAATTATTTATTT 1 TTTATATTATAATTATTTATTT 3100826 T 1 T 3100827 ATAGTTACGT Statistics Matches: 22, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 22 5 0.23 23 2 0.09 24 15 0.68 ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68 Consensus pattern (22 bp): TTTATATTATAATTATTTATTT Found at i:3101276 original size:22 final size:22 Alignment explanation
Indices: 3101251--3101298 Score: 60 Period size: 22 Copynumber: 2.2 Consensus size: 22 3101241 AAATCATATT * 3101251 TTAAAATAAAAAATTATAACTA 1 TTAAAATAAAAAATTAAAACTA * * * 3101273 TTAAAATTAAAATTTAAAATTA 1 TTAAAATAAAAAATTAAAACTA 3101295 TTAA 1 TTAA 3101299 TTTTAATTAA Statistics Matches: 22, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 22 22 1.00 ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38 Consensus pattern (22 bp): TTAAAATAAAAAATTAAAACTA Found at i:3101788 original size:26 final size:25 Alignment explanation
Indices: 3101731--3101793 Score: 65 Period size: 26 Copynumber: 2.5 Consensus size: 25 3101721 TTATTAAAAT * 3101731 AAATTCAT-AAATATATCTTTTTAA 1 AAATTAATAAAATATATCTTTTTAA * * 3101755 AATTTTAATAAAATATATTTTATTTAA 1 AA-ATTAATAAAATATATCTT-TTTAA * 3101782 AAATTAAAAAAA 1 AAATTAATAAAA 3101794 ATTACTTGAA Statistics Matches: 31, Mismatches: 5, Indels: 4 0.77 0.12 0.10 Matches are distributed among these distances: 24 2 0.06 25 4 0.13 26 18 0.58 27 7 0.23 ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43 Consensus pattern (25 bp): AAATTAATAAAATATATCTTTTTAA Found at i:3103906 original size:15 final size:16 Alignment explanation
Indices: 3103882--3103918 Score: 53 Period size: 15 Copynumber: 2.5 Consensus size: 16 3103872 TTTTATTATA 3103882 ATTATA-TTTAA-AAT 1 ATTATATTTTAATAAT 3103896 ATTATATTTTAATAAT 1 ATTATATTTTAATAAT 3103912 -TTATATT 1 ATTATATT 3103919 ATATATTTTT Statistics Matches: 21, Mismatches: 0, Indels: 3 0.88 0.00 0.12 Matches are distributed among these distances: 14 6 0.29 15 12 0.57 16 3 0.14 ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57 Consensus pattern (16 bp): ATTATATTTTAATAAT Found at i:3103960 original size:9 final size:8 Alignment explanation
Indices: 3103948--3103990 Score: 50 Period size: 9 Copynumber: 4.9 Consensus size: 8 3103938 TATATCGGTA 3103948 TTATATTT 1 TTATATTT 3103956 ATTATATATT 1 -TTATAT-TT 3103966 TTATATTT 1 TTATATTT 3103974 TTATTATTTT 1 TTA-TA-TTT 3103984 TTATATT 1 TTATATT 3103991 ATATAATTAC Statistics Matches: 31, Mismatches: 0, Indels: 7 0.82 0.00 0.18 Matches are distributed among these distances: 8 7 0.23 9 16 0.52 10 8 0.26 ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72 Consensus pattern (8 bp): TTATATTT Found at i:3103969 original size:18 final size:18 Alignment explanation
Indices: 3103948--3103990 Score: 61 Period size: 18 Copynumber: 2.4 Consensus size: 18 3103938 TATATCGGTA 3103948 TTATATTTATTA-TATATT 1 TTATATTT-TTATTATATT * 3103966 TTATATTTTTATTATTTT 1 TTATATTTTTATTATATT 3103984 TTATATT 1 TTATATT 3103991 ATATAATTAC Statistics Matches: 23, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 17 3 0.13 18 20 0.87 ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72 Consensus pattern (18 bp): TTATATTTTTATTATATT Found at i:3104113 original size:35 final size:35 Alignment explanation
Indices: 3104067--3104142 Score: 152 Period size: 35 Copynumber: 2.2 Consensus size: 35 3104057 TAACACCTAG 3104067 CTAAATATTAGAATTGTTTATGAGCAGGTATCCAT 1 CTAAATATTAGAATTGTTTATGAGCAGGTATCCAT 3104102 CTAAATATTAGAATTGTTTATGAGCAGGTATCCAT 1 CTAAATATTAGAATTGTTTATGAGCAGGTATCCAT 3104137 CTAAAT 1 CTAAAT 3104143 CTCATGCCGA Statistics Matches: 41, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 35 41 1.00 ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37 Consensus pattern (35 bp): CTAAATATTAGAATTGTTTATGAGCAGGTATCCAT Found at i:3104303 original size:20 final size:20 Alignment explanation
Indices: 3104278--3104321 Score: 63 Period size: 20 Copynumber: 2.2 Consensus size: 20 3104268 TCGTTTTTAA 3104278 TTATA-TAATATATATTAATG 1 TTATATTAATATATATT-ATG * 3104298 TTATATTTATATATATTATG 1 TTATATTAATATATATTATG 3104318 TTAT 1 TTAT 3104322 TTTTATATAA Statistics Matches: 22, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 20 12 0.55 21 10 0.45 ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57 Consensus pattern (20 bp): TTATATTAATATATATTATG Found at i:3104326 original size:20 final size:21 Alignment explanation
Indices: 3104285--3104330 Score: 76 Period size: 20 Copynumber: 2.2 Consensus size: 21 3104275 TAATTATATA 3104285 ATATATATTAATGTTATATTT 1 ATATATATTAATGTTATATTT * 3104306 ATATATATT-ATGTTATTTTT 1 ATATATATTAATGTTATATTT 3104326 ATATA 1 ATATA 3104331 AAAATATATA Statistics Matches: 24, Mismatches: 1, Indels: 1 0.92 0.04 0.04 Matches are distributed among these distances: 20 15 0.62 21 9 0.38 ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59 Consensus pattern (21 bp): ATATATATTAATGTTATATTT Found at i:3104450 original size:16 final size:15 Alignment explanation
Indices: 3104429--3104458 Score: 51 Period size: 16 Copynumber: 1.9 Consensus size: 15 3104419 AAAGAATAAA 3104429 TTTAAAAAATATATTT 1 TTTAAAAAAT-TATTT 3104445 TTTAAAAAATTATT 1 TTTAAAAAATTATT 3104459 ATGAGAATTT Statistics Matches: 14, Mismatches: 0, Indels: 1 0.93 0.00 0.07 Matches are distributed among these distances: 15 4 0.29 16 10 0.71 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (15 bp): TTTAAAAAATTATTT Found at i:3104881 original size:18 final size:18 Alignment explanation
Indices: 3104858--3104892 Score: 54 Period size: 18 Copynumber: 1.9 Consensus size: 18 3104848 TGTTTTTAAG 3104858 TTAAAAATAT-TATATATT 1 TTAAAAA-ATGTATATATT 3104876 TTAAAAAATGTATATAT 1 TTAAAAAATGTATATAT 3104893 AATTTATATA Statistics Matches: 16, Mismatches: 0, Indels: 2 0.89 0.00 0.11 Matches are distributed among these distances: 17 2 0.12 18 14 0.88 ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46 Consensus pattern (18 bp): TTAAAAAATGTATATATT Found at i:3107954 original size:33 final size:34 Alignment explanation
Indices: 3107907--3107973 Score: 109 Period size: 34 Copynumber: 2.0 Consensus size: 34 3107897 AAAATGACAT * * 3107907 TCACTTTAAGA-TTTTTTCATGTAGTTCTCTTAC 1 TCACTTTAAAATTTTTTTCAGGTAGTTCTCTTAC 3107940 TCACTTTAAAATTTTTTTCAGGTAGTTCTCTTAC 1 TCACTTTAAAATTTTTTTCAGGTAGTTCTCTTAC 3107974 ACCAGATTGC Statistics Matches: 31, Mismatches: 2, Indels: 1 0.91 0.06 0.03 Matches are distributed among these distances: 33 10 0.32 34 21 0.68 ACGTcount: A:0.22, C:0.18, G:0.09, T:0.51 Consensus pattern (34 bp): TCACTTTAAAATTTTTTTCAGGTAGTTCTCTTAC Found at i:3112798 original size:24 final size:22 Alignment explanation
Indices: 3112755--3112816 Score: 54 Period size: 24 Copynumber: 2.7 Consensus size: 22 3112745 AATACATATG * 3112755 AATAAAAATAATAATGAAAAGC 1 AATAAAAATAATAATAAAAAGC * 3112777 AATAAAAATGTAATAGTAAAAAG- 1 AATAAAAA--TAATAATAAAAAGC * * 3112800 AATGACAAACAATAATA 1 AAT-AAAAATAATAATA 3112817 TTAAAGTTTA Statistics Matches: 32, Mismatches: 5, Indels: 6 0.74 0.12 0.14 Matches are distributed among these distances: 22 14 0.44 23 3 0.09 24 15 0.47 ACGTcount: A:0.66, C:0.05, G:0.10, T:0.19 Consensus pattern (22 bp): AATAAAAATAATAATAAAAAGC Found at i:3113418 original size:2 final size:2 Alignment explanation
Indices: 3113411--3113450 Score: 80 Period size: 2 Copynumber: 20.0 Consensus size: 2 3113401 TATGTCAAAA 3113411 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 3113451 GTACTACTCT Statistics Matches: 38, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 38 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:3115025 original size:41 final size:42 Alignment explanation
Indices: 3114968--3115050 Score: 114 Period size: 41 Copynumber: 2.0 Consensus size: 42 3114958 ATGAATGAGA * * * * * 3114968 GAGAGATGTATGCATTTTATAAATTACTTT-ATTCATGTATG 1 GAGAGATGAATACATTTAATAAATTAATTTGATTCATATATG 3115009 GAGAGATGAATACATTTAATAAATTAATTTGATTCATATATG 1 GAGAGATGAATACATTTAATAAATTAATTTGATTCATATATG 3115051 AAAGAAAGAA Statistics Matches: 36, Mismatches: 5, Indels: 1 0.86 0.12 0.02 Matches are distributed among these distances: 41 26 0.72 42 10 0.28 ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41 Consensus pattern (42 bp): GAGAGATGAATACATTTAATAAATTAATTTGATTCATATATG Found at i:3115062 original size:42 final size:41 Alignment explanation
Indices: 3114980--3115062 Score: 96 Period size: 41 Copynumber: 2.0 Consensus size: 41 3114970 GAGATGTATG * * * * * 3114980 CATTTTATAAATTACTTTATTCATGTATGGAGAGATGAATA 1 CATTTAATAAATTAATTTATTCATATATGAAGAGAAGAATA 3115021 CATTTAATAAATTAATTTGATTCATATATGAA-AGAAAGAATA 1 CATTTAATAAATTAATTT-ATTCATATATGAAGAG-AAGAATA 3115063 TTTATATATT Statistics Matches: 35, Mismatches: 5, Indels: 3 0.81 0.12 0.07 Matches are distributed among these distances: 41 18 0.51 42 17 0.49 ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39 Consensus pattern (41 bp): CATTTAATAAATTAATTTATTCATATATGAAGAGAAGAATA Found at i:3118771 original size:20 final size:18 Alignment explanation
Indices: 3118732--3118793 Score: 61 Period size: 20 Copynumber: 3.1 Consensus size: 18 3118722 TATCATTGAT 3118732 TTTAATTTTACAATTATAATA 1 TTTAATTTTAC---TATAATA 3118753 TTTAATCTTATACTATAATA 1 TTTAAT-TT-TACTATAATA * 3118773 ATTAATTTTACTATTAATA 1 TTTAATTTTACTA-TAATA 3118792 TT 1 TT 3118794 ATTTTTAATT Statistics Matches: 36, Mismatches: 2, Indels: 8 0.78 0.04 0.17 Matches are distributed among these distances: 18 5 0.14 19 8 0.22 20 12 0.33 21 6 0.17 22 2 0.06 23 3 0.08 ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53 Consensus pattern (18 bp): TTTAATTTTACTATAATA Found at i:3118786 original size:18 final size:18 Alignment explanation
Indices: 3118746--3118800 Score: 58 Period size: 18 Copynumber: 2.9 Consensus size: 18 3118736 ATTTTACAAT * 3118746 TATAATATTTAATCTTATAC 1 TATAATAATTAAT-TT-TAC 3118766 TATAATAATTAATTTTAC 1 TATAATAATTAATTTTAC * 3118784 TATTAAT-ATTATTTTTA 1 TA-TAATAATTAATTTTA 3118801 ATTTTACGAA Statistics Matches: 32, Mismatches: 2, Indels: 4 0.84 0.05 0.11 Matches are distributed among these distances: 18 14 0.44 19 6 0.19 20 12 0.38 ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55 Consensus pattern (18 bp): TATAATAATTAATTTTAC Found at i:3119492 original size:16 final size:16 Alignment explanation
Indices: 3119480--3119548 Score: 86 Period size: 15 Copynumber: 4.2 Consensus size: 16 3119470 GTATAAATTT 3119480 ATTTAAATATAAAATA 1 ATTTAAATATAAAATA * 3119496 ATTTGAAT-TAAAATA 1 ATTTAAATATAAAATA * 3119511 ATTTAAATTTAAAATAA 1 ATTTAAATATAAAAT-A * 3119528 ATTTAAATTAAAAAATA 1 ATTTAAA-TATAAAATA 3119545 ATTT 1 ATTT 3119549 GATTTTAAGT Statistics Matches: 46, Mismatches: 4, Indels: 5 0.84 0.07 0.09 Matches are distributed among these distances: 15 14 0.30 16 13 0.28 17 13 0.28 18 6 0.13 ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41 Consensus pattern (16 bp): ATTTAAATATAAAATA Found at i:3119518 original size:31 final size:32 Alignment explanation
Indices: 3119480--3119540 Score: 97 Period size: 31 Copynumber: 1.9 Consensus size: 32 3119470 GTATAAATTT * 3119480 ATTTAAATATAAAAT-AATTTGAATTAAAATA 1 ATTTAAATATAAAATAAATTTAAATTAAAATA * 3119511 ATTTAAATTTAAAATAAATTTAAATTAAAA 1 ATTTAAATATAAAATAAATTTAAATTAAAA 3119541 AATAATTTGA Statistics Matches: 27, Mismatches: 2, Indels: 1 0.90 0.07 0.03 Matches are distributed among these distances: 31 14 0.52 32 13 0.48 ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39 Consensus pattern (32 bp): ATTTAAATATAAAATAAATTTAAATTAAAATA Found at i:3119590 original size:18 final size:16 Alignment explanation
Indices: 3119567--3119614 Score: 60 Period size: 18 Copynumber: 2.9 Consensus size: 16 3119557 GTAATATAAA 3119567 AAAATTAAATCAATTT 1 AAAATTAAATCAATTT * 3119583 AATTAATTAAATTAATTT 1 AA--AATTAAATCAATTT * 3119601 AAATTTAAATCAAT 1 AAAATTAAATCAAT 3119615 GACTTAATTG Statistics Matches: 27, Mismatches: 3, Indels: 4 0.79 0.09 0.12 Matches are distributed among these distances: 16 12 0.44 18 15 0.56 ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42 Consensus pattern (16 bp): AAAATTAAATCAATTT Found at i:3119800 original size:16 final size:15 Alignment explanation
Indices: 3119762--3119811 Score: 61 Period size: 16 Copynumber: 3.5 Consensus size: 15 3119752 TTAATATTTT 3119762 AATTATTTATTAA-A 1 AATTATTTATTAATA 3119776 AATTA--TATTAATA 1 AATTATTTATTAATA * 3119789 AATTATTTTATTAATT 1 AATTA-TTTATTAATA 3119805 AATTATT 1 AATTATT 3119812 AATATTTAAT Statistics Matches: 31, Mismatches: 1, Indels: 7 0.79 0.03 0.18 Matches are distributed among these distances: 12 6 0.19 13 6 0.19 14 5 0.16 15 2 0.06 16 12 0.39 ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54 Consensus pattern (15 bp): AATTATTTATTAATA Found at i:3120189 original size:17 final size:17 Alignment explanation
Indices: 3120167--3120199 Score: 57 Period size: 17 Copynumber: 1.9 Consensus size: 17 3120157 TATTTTATTA 3120167 ATATTTAAAATAATTTT 1 ATATTTAAAATAATTTT * 3120184 ATATTTTAAATAATTT 1 ATATTTAAAATAATTT 3120200 AATAATTTAT Statistics Matches: 15, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 17 15 1.00 ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55 Consensus pattern (17 bp): ATATTTAAAATAATTTT Found at i:3120208 original size:17 final size:17 Alignment explanation
Indices: 3120164--3120208 Score: 56 Period size: 17 Copynumber: 2.6 Consensus size: 17 3120154 ATATATTTTA 3120164 TTAAT-ATTTAAAATAAT 1 TTAATAATTT-AAATAAT * * 3120181 TTTATATTTTAAATAAT 1 TTAATAATTTAAATAAT 3120198 TTAATAATTTA 1 TTAATAATTTA 3120209 TATTATGTTA Statistics Matches: 23, Mismatches: 4, Indels: 2 0.79 0.14 0.07 Matches are distributed among these distances: 17 20 0.87 18 3 0.13 ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53 Consensus pattern (17 bp): TTAATAATTTAAATAAT Found at i:3120231 original size:29 final size:28 Alignment explanation
Indices: 3120199--3120270 Score: 69 Period size: 27 Copynumber: 2.6 Consensus size: 28 3120189 TTAAATAATT * 3120199 TAATAATTTATATTATGTTAT-TTGTATTA 1 TAAT-ATTTATATTATATTATATTGTA-TA * * 3120228 TAAT-TTTATATTTTATTATATTTTATA 1 TAATATTTATATTATATTATATTGTATA 3120255 TAATATTT-TAATTATA 1 TAATATTTAT-ATTATA 3120271 ATTTCCTACT Statistics Matches: 36, Mismatches: 4, Indels: 7 0.77 0.09 0.15 Matches are distributed among these distances: 27 20 0.56 28 12 0.33 29 4 0.11 ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61 Consensus pattern (28 bp): TAATATTTATATTATATTATATTGTATA Found at i:3120246 original size:27 final size:26 Alignment explanation
Indices: 3120141--3120254 Score: 74 Period size: 27 Copynumber: 4.3 Consensus size: 26 3120131 TATTTGTATG 3120141 TATTATATATTTCATATATTTTATTAATATT 1 TATTATA-ATTT--TATATTTTATT-AT-TT ** * * 3120172 TAAAATAATTTTATATTTTAAATAATT 1 TATTATAATTTTATATTTT-ATTATTT * * 3120199 TA--ATAA-TTTATATTATGTTATTT 1 TATTATAATTTTATATTTTATTATTT * 3120222 GTATTATAATTTTATATTTTATTATAT 1 -TATTATAATTTTATATTTTATTATTT 3120249 T-TTATA 1 TATTATA 3120255 TAATATTTTA Statistics Matches: 67, Mismatches: 11, Indels: 16 0.71 0.12 0.17 Matches are distributed among these distances: 23 4 0.06 24 11 0.16 25 9 0.13 26 5 0.07 27 18 0.27 28 9 0.13 29 2 0.03 30 4 0.06 31 5 0.07 ACGTcount: A:0.38, C:0.01, G:0.02, T:0.60 Consensus pattern (26 bp): TATTATAATTTTATATTTTATTATTT Found at i:3120250 original size:17 final size:17 Alignment explanation
Indices: 3120176--3120255 Score: 74 Period size: 17 Copynumber: 4.7 Consensus size: 17 3120166 AATATTTAAA * 3120176 ATAATTTTATATTTTAA 1 ATAATTTTATATTTTAT * * 3120193 ATAATTTAATAATTTAT 1 ATAATTTTATATTTTAT * * * 3120210 ATTATGTTAT-TTGTATT 1 ATAATTTTATATTTTA-T 3120227 ATAATTTTATATTTTAT 1 ATAATTTTATATTTTAT 3120244 -TATATTTTATAT 1 ATA-ATTTTATAT 3120256 AATATTTTAA Statistics Matches: 49, Mismatches: 11, Indels: 6 0.74 0.17 0.09 Matches are distributed among these distances: 16 5 0.10 17 40 0.82 18 4 0.08 ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61 Consensus pattern (17 bp): ATAATTTTATATTTTAT Found at i:3120261 original size:17 final size:18 Alignment explanation
Indices: 3120223--3120267 Score: 56 Period size: 17 Copynumber: 2.6 Consensus size: 18 3120213 ATGTTATTTG ** 3120223 TATTATAATTTTATATTT 1 TATTATAATTTTATATAA 3120241 TATTAT-ATTTTATATAA 1 TATTATAATTTTATATAA * 3120258 TATTTTAATT 1 TATTATAATT 3120268 ATAATTTCCT Statistics Matches: 23, Mismatches: 3, Indels: 2 0.82 0.11 0.07 Matches are distributed among these distances: 17 14 0.61 18 9 0.39 ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64 Consensus pattern (18 bp): TATTATAATTTTATATAA Found at i:3120274 original size:12 final size:11 Alignment explanation
Indices: 3120233--3120270 Score: 51 Period size: 12 Copynumber: 3.5 Consensus size: 11 3120223 TATTATAATT 3120233 TTATATTTT-A 1 TTATATTTTAA 3120243 TTATATTTTATA 1 TTATATTTTA-A * 3120255 TAATATTTTAA 1 TTATATTTTAA 3120266 TTATA 1 TTATA 3120271 ATTTCCTACT Statistics Matches: 24, Mismatches: 2, Indels: 3 0.83 0.07 0.10 Matches are distributed among these distances: 10 9 0.38 11 5 0.21 12 10 0.42 ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63 Consensus pattern (11 bp): TTATATTTTAA Found at i:3126499 original size:17 final size:17 Alignment explanation
Indices: 3126479--3126517 Score: 53 Period size: 18 Copynumber: 2.2 Consensus size: 17 3126469 AGCTTCCATT 3126479 AAAAAAAAAT-TGGATTGA 1 AAAAAAAAATGT-G-TTGA 3126497 AAAAAAAAATGTGTTGA 1 AAAAAAAAATGTGTTGA 3126514 AAAA 1 AAAA 3126518 TATAGTTTAA Statistics Matches: 20, Mismatches: 0, Indels: 3 0.87 0.00 0.13 Matches are distributed among these distances: 17 8 0.40 18 11 0.55 19 1 0.05 ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21 Consensus pattern (17 bp): AAAAAAAAATGTGTTGA Found at i:3129712 original size:32 final size:32 Alignment explanation
Indices: 3129634--3129715 Score: 87 Period size: 32 Copynumber: 2.5 Consensus size: 32 3129624 TTATATTTAA 3129634 AATATTATATATTTATATAAATTCAGATACGAT 1 AATATTATATA-TTATATAAATTCAGATACGAT * ** 3129667 AATAATT-TTTATTATATAAATTTTTGATACG-T 1 AAT-ATTATATATTATATAAA-TTCAGATACGAT * 3129699 TATATTATATATTATAT 1 AATATTATATATTATAT 3129716 TTTAATTATT Statistics Matches: 41, Mismatches: 5, Indels: 7 0.77 0.09 0.13 Matches are distributed among these distances: 31 3 0.07 32 21 0.51 33 14 0.34 34 3 0.07 ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50 Consensus pattern (32 bp): AATATTATATATTATATAAATTCAGATACGAT Found at i:3130851 original size:13 final size:13 Alignment explanation
Indices: 3130829--3130872 Score: 61 Period size: 13 Copynumber: 3.3 Consensus size: 13 3130819 AAAATTTAAG 3130829 TTTTATTATGTTAT 1 TTTTA-TATGTTAT 3130843 TTTTATATGTTAT 1 TTTTATATGTTAT * * 3130856 TCTTATATATTAT 1 TTTTATATGTTAT 3130869 TTTT 1 TTTT 3130873 TAAAAAATTT Statistics Matches: 27, Mismatches: 3, Indels: 1 0.87 0.10 0.03 Matches are distributed among these distances: 13 22 0.81 14 5 0.19 ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70 Consensus pattern (13 bp): TTTTATATGTTAT Found at i:3134994 original size:19 final size:17 Alignment explanation
Indices: 3134959--3135001 Score: 50 Period size: 17 Copynumber: 2.3 Consensus size: 17 3134949 TTTTTAACAT 3134959 TTTATAAAAAAAAAATAG 1 TTTA-AAAAAAAAAATAG 3134977 TTTAAAAAAATAATAATAG 1 TTTAAAAAAA-AA-AATAG 3134996 TATTAA 1 T-TTAA 3135002 TAATTTACTA Statistics Matches: 22, Mismatches: 0, Indels: 4 0.85 0.00 0.15 Matches are distributed among these distances: 17 6 0.27 18 6 0.27 19 6 0.27 20 4 0.18 ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33 Consensus pattern (17 bp): TTTAAAAAAAAAAATAG Found at i:3135779 original size:25 final size:25 Alignment explanation
Indices: 3135733--3135780 Score: 69 Period size: 25 Copynumber: 1.9 Consensus size: 25 3135723 TGAAATTGAT * * 3135733 TATAAAGTAAAAAATAATATAAATA 1 TATAAAATAAAAAATAACATAAATA * 3135758 TATAAAATAAAAAATTACATAAA 1 TATAAAATAAAAAATAACATAAA 3135781 AATTCTCGCT Statistics Matches: 20, Mismatches: 3, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 25 20 1.00 ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27 Consensus pattern (25 bp): TATAAAATAAAAAATAACATAAATA Found at i:3136122 original size:27 final size:22 Alignment explanation
Indices: 3136067--3136110 Score: 88 Period size: 22 Copynumber: 2.0 Consensus size: 22 3136057 TAAAATTAAA 3136067 GTAAAAAGGTAAGATCCATAAT 1 GTAAAAAGGTAAGATCCATAAT 3136089 GTAAAAAGGTAAGATCCATAAT 1 GTAAAAAGGTAAGATCCATAAT 3136111 ATTTGTTGAA Statistics Matches: 22, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 22 22 1.00 ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23 Consensus pattern (22 bp): GTAAAAAGGTAAGATCCATAAT Found at i:3136177 original size:27 final size:24 Alignment explanation
Indices: 3136147--3136202 Score: 67 Period size: 24 Copynumber: 2.2 Consensus size: 24 3136137 ATTTAATTTT 3136147 TATTAAAATGATAATGTAAATAATTAA 1 TATTAAAATGAT-A--TAAATAATTAA * * 3136174 TATTAATATGATATAAATAATTTA 1 TATTAAAATGATATAAATAATTAA 3136198 TATTA 1 TATTA 3136203 TTTTAATATA Statistics Matches: 27, Mismatches: 2, Indels: 3 0.84 0.06 0.09 Matches are distributed among these distances: 24 15 0.56 26 1 0.04 27 11 0.41 ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43 Consensus pattern (24 bp): TATTAAAATGATATAAATAATTAA Found at i:3136211 original size:24 final size:24 Alignment explanation
Indices: 3136157--3136213 Score: 69 Period size: 24 Copynumber: 2.4 Consensus size: 24 3136147 TATTAAAATG * 3136157 ATAATGTAAATAATTAATATTAAT 1 ATAATATAAATAATTAATATTAAT * * * 3136181 ATGATATAAATAATTTATATTATT 1 ATAATATAAATAATTAATATTAAT * 3136205 TTAATATAA 1 ATAATATAA 3136214 TTTTTTATAA Statistics Matches: 27, Mismatches: 6, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 24 27 1.00 ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46 Consensus pattern (24 bp): ATAATATAAATAATTAATATTAAT Found at i:3136665 original size:2 final size:2 Alignment explanation
Indices: 3136658--3136683 Score: 52 Period size: 2 Copynumber: 13.0 Consensus size: 2 3136648 TCGAAGAAGG 3136658 AT AT AT AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT 3136684 TGACAATGAT Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 24 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Found at i:3137191 original size:88 final size:89 Alignment explanation
Indices: 3137092--3137434 Score: 280 Period size: 89 Copynumber: 3.9 Consensus size: 89 3137082 GTTTCATATG * * * * 3137092 AAAAAATTT-TATAGGCATTAATTGAATTTTTTTTTGTCATGTCAGAAA-AATTTGGTACTT-GC 1 AAAAAATTTAT-TAGGCATTAATT-AAATATTTTATGTCATGTCAGAAAGAATTTGATA-TTCGC * * * 3137154 ATACAACTATCACATCTTTTGATTTTT 63 ATACAACTATCACATCTTTCGAGTTTC * * * * 3137181 AAAAAATTTATTAGGTATTAGTTAAATATTTTATGTCGTGTCAGAAAGAATTTGATATTCGCATG 1 AAAAAATTTATTAGGCATTAATTAAATATTTTATGTCATGTCAGAAAGAATTTGATATTCGCATA ** 3137246 CATTTATCACATCTTTCGAGTTTC 66 CAACTATCACATCTTTCGAGTTTC * * * * * * * * * * 3137270 AAAAAATTTATTAAGCATTAGTCAAATATTTTTTATTATGTCAGAAAGAATCTGATATCCGTATG 1 AAAAAATTTATTAGGCATTAATTAAATATTTTATGTCATGTCAGAAAGAATTTGATATTCGCATA ** * * * * 3137335 CTTCTGTCATATCTTTTGGGTTTC 66 CAACTATCACATCTTTCGAGTTTC * * * * * * * * * 3137359 AAAAAATTTATTAGGTATTTACTAAATATTTTCTATCATGCCAGAAAGAATCT-ATATCCGTATA 1 AAAAAATTTATTAGGCATTAATTAAATATTTTATGTCATGTCAGAAAGAATTTGATATTCGCATA * 3137423 CATCTATCACAT 66 CAACTATCACAT 3137435 ATTTTGGATT Statistics Matches: 209, Mismatches: 42, Indels: 7 0.81 0.16 0.03 Matches are distributed among these distances: 88 41 0.20 89 167 0.80 90 1 0.00 ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42 Consensus pattern (89 bp): AAAAAATTTATTAGGCATTAATTAAATATTTTATGTCATGTCAGAAAGAATTTGATATTCGCATA CAACTATCACATCTTTCGAGTTTC Found at i:3137725 original size:7 final size:7 Alignment explanation
Indices: 3137712--3137825 Score: 100 Period size: 7 Copynumber: 16.6 Consensus size: 7 3137702 ATGCTATATA 3137712 ATATTAT 1 ATATTAT * 3137719 ATGTTAT 1 ATATTAT 3137726 ATA-T-T 1 ATATTAT 3137731 ATA-TAT 1 ATATTAT 3137737 ATATTAT 1 ATATTAT * 3137744 ATATGTAG 1 ATAT-TAT 3137752 ACTATATAT 1 A-TAT-TAT 3137761 ATTATTAT 1 A-TATTAT 3137769 ATATTAT 1 ATATTAT 3137776 ATATCTAT 1 ATAT-TAT 3137784 -TA-TAT 1 ATATTAT 3137789 ATATT-T 1 ATATTAT 3137795 ATATTA- 1 ATATTAT 3137801 ATATTAT 1 ATATTAT 3137808 ATA-TAT 1 ATATTAT 3137814 ATATATAT 1 ATAT-TAT 3137822 ATAT 1 ATAT 3137826 AATTGGGAAC Statistics Matches: 90, Mismatches: 6, Indels: 21 0.77 0.05 0.18 Matches are distributed among these distances: 5 8 0.09 6 25 0.28 7 31 0.34 8 17 0.19 9 9 0.10 ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54 Consensus pattern (7 bp): ATATTAT Found at i:3137728 original size:2 final size:2 Alignment explanation
Indices: 3137706--3137826 Score: 104 Period size: 2 Copynumber: 66.0 Consensus size: 2 3137696 TATTATATGC * 3137706 TA TA TA -A TA T- TA TA TG T- TA TA TA T- TA TA TA TA TA T- TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA * * * 3137743 TA TA TG TA GA CTA TA TA TA T- TA T- TA TA TA T- TA TA TA TC TA 1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA * 3137783 T- TA TA TA TA TT TA TA T- TA -A TA T- TA TA TA TA TA TA TA TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 3137821 TA TA TA 1 TA TA TA 3137827 ATTGGGAACT Statistics Matches: 97, Mismatches: 9, Indels: 26 0.73 0.07 0.20 Matches are distributed among these distances: 1 12 0.12 2 84 0.87 3 1 0.01 ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53 Consensus pattern (2 bp): TA Found at i:3137739 original size:11 final size:11 Alignment explanation
Indices: 3137723--3137825 Score: 126 Period size: 11 Copynumber: 9.6 Consensus size: 11 3137713 TATTATATGT 3137723 TATATATTATA 1 TATATATTATA 3137734 TATATATTATA 1 TATATATTATA * * 3137745 TATGTA-GACTA 1 TATATATTA-TA 3137756 TATATATTAT- 1 TATATATTATA 3137766 TATATATTATA 1 TATATATTATA * 3137777 TATCTATTATA 1 TATATATTATA 3137788 TATAT-TTATA 1 TATATATTATA 3137798 T-TAATATTATA 1 TAT-ATATTATA 3137809 TATATA-TATA 1 TATATATTATA 3137819 TATATAT 1 TATATAT 3137826 AATTGGGAAC Statistics Matches: 79, Mismatches: 6, Indels: 14 0.80 0.06 0.14 Matches are distributed among these distances: 9 1 0.01 10 29 0.37 11 47 0.59 12 2 0.03 ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53 Consensus pattern (11 bp): TATATATTATA Found at i:3137776 original size:17 final size:17 Alignment explanation
Indices: 3137696--3137825 Score: 107 Period size: 17 Copynumber: 8.0 Consensus size: 17 3137686 ATAAATAAAA ** * 3137696 TATTATATGCTATATAA 1 TATTATATATTATATAT * 3137713 TATTATATGTTATATAT 1 TATTATATATTATATAT 3137730 TATATATATATTATATAT 1 TAT-TATATATTATATAT * * 3137748 GTA-GA-CTA-TATATAT 1 -TATTATATATTATATAT 3137763 TATTATATATTATATAT 1 TATTATATATTATATAT * 3137780 CTATTATATA-TATTTA- 1 -TATTATATATTATATAT 3137796 TATTA-ATATTATATA- 1 TATTATATATTATATAT 3137811 TA-TATATA-TATATAT 1 TATTATATATTATATAT 3137826 AATTGGGAAC Statistics Matches: 95, Mismatches: 9, Indels: 20 0.77 0.07 0.16 Matches are distributed among these distances: 14 13 0.14 15 23 0.24 16 4 0.04 17 31 0.33 18 22 0.23 19 2 0.02 ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53 Consensus pattern (17 bp): TATTATATATTATATAT Found at i:3137778 original size:43 final size:42 Alignment explanation
Indices: 3137706--3137826 Score: 133 Period size: 43 Copynumber: 2.9 Consensus size: 42 3137696 TATTATATGC * 3137706 TATATA-ATATT-ATA-TGTTATATATTATATATATATTATA 1 TATATAGATATTAATATTATTATATATTATATATATATTATA * * 3137745 TATGTAGACTA-TATATATTATTATATATTATATATCTATTATA 1 TATATAGA-TATTA-ATATTATTATATATTATATATATATTATA ** 3137788 TATATTTATATTAATATTATATATATATATATATATATA 1 TATATAGATATTAATATTAT-TATATAT-TATATATATA 3137827 ATTGGGAACT Statistics Matches: 67, Mismatches: 7, Indels: 11 0.79 0.08 0.13 Matches are distributed among these distances: 39 5 0.07 40 2 0.03 41 2 0.03 42 12 0.18 43 37 0.55 44 9 0.13 ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53 Consensus pattern (42 bp): TATATAGATATTAATATTATTATATATTATATATATATTATA Found at i:3144623 original size:2 final size:2 Alignment explanation
Indices: 3144616--3144645 Score: 51 Period size: 2 Copynumber: 15.0 Consensus size: 2 3144606 TTTGGTTATG * 3144616 GA GA GA GA GA CA GA GA GA GA GA GA GA GA GA 1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA 3144646 ACCACCCACA Statistics Matches: 26, Mismatches: 2, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 2 26 1.00 ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00 Consensus pattern (2 bp): GA Found at i:3145029 original size:2 final size:2 Alignment explanation
Indices: 3145022--3145048 Score: 54 Period size: 2 Copynumber: 13.5 Consensus size: 2 3145012 GTTTGTTAAG 3145022 TC TC TC TC TC TC TC TC TC TC TC TC TC T 1 TC TC TC TC TC TC TC TC TC TC TC TC TC T 3145049 GGATCTGGGT 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:0.00, C:0.48, G:0.00, T:0.52 Consensus pattern (2 bp): TC Found at i:3145978 original size:5 final size:5 Alignment explanation
Indices: 3145968--3145996 Score: 58 Period size: 5 Copynumber: 5.8 Consensus size: 5 3145958 AACAACAACG 3145968 CAAAT CAAAT CAAAT CAAAT CAAAT CAAA 1 CAAAT CAAAT CAAAT CAAAT CAAAT CAAA 3145997 AGTATTCATC Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 5 24 1.00 ACGTcount: A:0.62, C:0.21, G:0.00, T:0.17 Consensus pattern (5 bp): CAAAT Found at i:3146499 original size:2 final size:2 Alignment explanation
Indices: 3146492--3146523 Score: 64 Period size: 2 Copynumber: 16.0 Consensus size: 2 3146482 CTGCTTCCTT 3146492 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 3146524 GTGTGTGTGT Statistics Matches: 30, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 30 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): TA Found at i:3146529 original size:2 final size:2 Alignment explanation
Indices: 3146524--3146549 Score: 52 Period size: 2 Copynumber: 13.0 Consensus size: 2 3146514 TATATATATA 3146524 GT GT GT GT GT GT GT GT GT GT GT GT GT 1 GT GT GT GT GT GT GT GT GT GT GT GT GT 3146550 TGATAATTTT Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 24 1.00 ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50 Consensus pattern (2 bp): GT Found at i:3148643 original size:15 final size:15 Alignment explanation
Indices: 3148623--3148653 Score: 62 Period size: 15 Copynumber: 2.1 Consensus size: 15 3148613 TCTACATTAA 3148623 TTATAAGGTTAAGAT 1 TTATAAGGTTAAGAT 3148638 TTATAAGGTTAAGAT 1 TTATAAGGTTAAGAT 3148653 T 1 T 3148654 GTTTTTAGAA 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:0.39, C:0.00, G:0.19, T:0.42 Consensus pattern (15 bp): TTATAAGGTTAAGAT Found at i:3153242 original size:27 final size:27 Alignment explanation
Indices: 3153204--3153271 Score: 136 Period size: 27 Copynumber: 2.5 Consensus size: 27 3153194 TTGAAAACGA 3153204 GGTTGGAGTGTCCCTTTAGAGGAATGG 1 GGTTGGAGTGTCCCTTTAGAGGAATGG 3153231 GGTTGGAGTGTCCCTTTAGAGGAATGG 1 GGTTGGAGTGTCCCTTTAGAGGAATGG 3153258 GGTTGGAGTGTCCC 1 GGTTGGAGTGTCCC 3153272 CGATGAATAA Statistics Matches: 41, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 27 41 1.00 ACGTcount: A:0.16, C:0.13, G:0.41, T:0.29 Consensus pattern (27 bp): GGTTGGAGTGTCCCTTTAGAGGAATGG Found at i:3155500 original size:20 final size:20 Alignment explanation
Indices: 3155477--3155521 Score: 63 Period size: 20 Copynumber: 2.2 Consensus size: 20 3155467 AGATGTATTA * 3155477 ATACAAAGATTAATGTATCG 1 ATACAAAGAATAATGTATCG ** 3155497 ATACATTGAATAATGTATCG 1 ATACAAAGAATAATGTATCG 3155517 ATACA 1 ATACA 3155522 TTTCCTTGGC Statistics Matches: 22, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 20 22 1.00 ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31 Consensus pattern (20 bp): ATACAAAGAATAATGTATCG Found at i:3160537 original size:62 final size:63 Alignment explanation
Indices: 3160440--3160566 Score: 186 Period size: 62 Copynumber: 2.0 Consensus size: 63 3160430 GAATTTGAAC * * 3160440 TAAAAGTGAGAAGTTTTTTTAGGAAAAATGATATGAATTAAGTGT-GGATATGTATAGAGGGA 1 TAAAAGTGAGAAGTTGTTTTAAGAAAAATGATATGAATTAAGTGTGGGATATGTATAGAGGGA * * 3160502 TAAAAGTGAGAA-TTGTTTTAAGAAAGAATGATATGAATTAAGTGTGGGGGTGTGTATAGAGGGA 1 TAAAAGTGAGAAGTTGTTTTAAGAAA-AATGATATGAATTAAGTGT-GGGATATGTATAGAGGGA 3160566 T 1 T 3160567 TTGATGAGTG Statistics Matches: 58, Mismatches: 4, Indels: 4 0.88 0.06 0.06 Matches are distributed among these distances: 61 11 0.19 62 31 0.53 64 16 0.28 ACGTcount: A:0.39, C:0.00, G:0.30, T:0.31 Consensus pattern (63 bp): TAAAAGTGAGAAGTTGTTTTAAGAAAAATGATATGAATTAAGTGTGGGATATGTATAGAGGGA Found at i:3160668 original size:11 final size:11 Alignment explanation
Indices: 3160652--3160707 Score: 53 Period size: 11 Copynumber: 5.0 Consensus size: 11 3160642 TTGATTTTTT 3160652 GAAAAAGAAAA 1 GAAAAAGAAAA * 3160663 GAAAAA-AAATT 1 GAAAAAGAAA-A 3160674 GAAAAATGAAAA 1 GAAAAA-GAAAA * 3160686 AAAAAAGAGAAA 1 GAAAAAGA-AAA 3160698 G-AAAAGAAAA 1 GAAAAAGAAAA 3160708 AAATTGAAAA Statistics Matches: 37, Mismatches: 4, Indels: 9 0.74 0.08 0.18 Matches are distributed among these distances: 10 6 0.16 11 20 0.54 12 8 0.22 13 3 0.08 ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05 Consensus pattern (11 bp): GAAAAAGAAAA Found at i:3160697 original size:31 final size:31 Alignment explanation
Indices: 3160653--3160720 Score: 75 Period size: 31 Copynumber: 2.2 Consensus size: 31 3160643 TGATTTTTTG * *** 3160653 AAAAAGAAAAGAAAAAAAATTGAAAAA-TGA 1 AAAAAAAAAAGAAAAAAAAGAAAAAAATTGA * 3160683 AAAAAAAAAGAGAAAGAAAAGAAAAAAATTGA 1 AAAAAAAAA-AGAAAAAAAAGAAAAAAATTGA 3160715 AAAAAA 1 AAAAAA 3160721 TTATATAAGC Statistics Matches: 31, Mismatches: 5, Indels: 2 0.82 0.13 0.05 Matches are distributed among these distances: 30 8 0.26 31 14 0.45 32 9 0.29 ACGTcount: A:0.79, C:0.00, G:0.13, T:0.07 Consensus pattern (31 bp): AAAAAAAAAAGAAAAAAAAGAAAAAAATTGA Found at i:3160706 original size:29 final size:28 Alignment explanation
Indices: 3160651--3160708 Score: 73 Period size: 29 Copynumber: 2.0 Consensus size: 28 3160641 TTTGATTTTT * 3160651 TGAAAAAGAAAAGAAAAAAAATTGAAAAA 1 TGAAAAAAAAAAGAAAAAAAA-TGAAAAA 3160680 TGAAAAAAAAAAGAGAAAGAAAA-GAAAAA 1 TGAAAAAAAAAAGA-AAA-AAAATGAAAAA 3160709 AATTGAAAAA Statistics Matches: 26, Mismatches: 1, Indels: 4 0.84 0.03 0.13 Matches are distributed among these distances: 29 19 0.73 30 3 0.12 31 4 0.15 ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07 Consensus pattern (28 bp): TGAAAAAAAAAAGAAAAAAAATGAAAAA Found at i:3165419 original size:16 final size:16 Alignment explanation
Indices: 3165398--3165438 Score: 55 Period size: 16 Copynumber: 2.5 Consensus size: 16 3165388 TTACTAAATG * 3165398 TTTTAATATATTTATA 1 TTTTAATATAATTATA * 3165414 TTTTAAAATAATTATA 1 TTTTAATATAATTATA 3165430 TATTTAATA 1 T-TTTAATA 3165439 AAAAATAATT Statistics Matches: 21, Mismatches: 3, Indels: 1 0.84 0.12 0.04 Matches are distributed among these distances: 16 15 0.71 17 6 0.29 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (16 bp): TTTTAATATAATTATA Found at i:3166092 original size:23 final size:23 Alignment explanation
Indices: 3166066--3166109 Score: 63 Period size: 23 Copynumber: 1.9 Consensus size: 23 3166056 AAAAAGTAAA * 3166066 AAATATA-AAATTAAGTAATAATT 1 AAATATATAAA-TAAATAATAATT 3166089 AAATATATAAATAAATAATAA 1 AAATATATAAATAAATAATAA 3166110 ATTTAGATAT Statistics Matches: 19, Mismatches: 1, Indels: 2 0.86 0.05 0.09 Matches are distributed among these distances: 23 16 0.84 24 3 0.16 ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32 Consensus pattern (23 bp): AAATATATAAATAAATAATAATT Found at i:3169023 original size:26 final size:26 Alignment explanation
Indices: 3168985--3169062 Score: 102 Period size: 26 Copynumber: 3.0 Consensus size: 26 3168975 CACATAGTTT 3168985 TGTATATAGCATCAGACCTAATTGGC 1 TGTATATAGCATCAGACCTAATTGGC * * * 3169011 TGTATATAACATCGGACCTAGTTGGC 1 TGTATATAGCATCAGACCTAATTGGC ** * 3169037 TGTAGGTTGCATCAGACCTAATTGGC 1 TGTATATAGCATCAGACCTAATTGGC 3169063 CTCCAGTTGT Statistics Matches: 43, Mismatches: 9, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 26 43 1.00 ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31 Consensus pattern (26 bp): TGTATATAGCATCAGACCTAATTGGC Found at i:3169354 original size:34 final size:33 Alignment explanation
Indices: 3169308--3169371 Score: 87 Period size: 34 Copynumber: 1.9 Consensus size: 33 3169298 ATATTTAAAT 3169308 TTTAAAATTTTAATATATATT-ATT-TTATATTTA 1 TTTAAAATTTTAAT-TA-ATTAATTATTATATTTA 3169341 TTTAAATATTTTAATTAATTAATTATTATAT 1 TTTAAA-ATTTTAATTAATTAATTATTATAT 3169372 AACTAGATAA Statistics Matches: 28, Mismatches: 0, Indels: 5 0.85 0.00 0.15 Matches are distributed among these distances: 32 3 0.11 33 11 0.39 34 14 0.50 ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59 Consensus pattern (33 bp): TTTAAAATTTTAATTAATTAATTATTATATTTA Found at i:3169367 original size:17 final size:19 Alignment explanation
Indices: 3169316--3169372 Score: 55 Period size: 17 Copynumber: 3.0 Consensus size: 19 3169306 ATTTTAAAAT 3169316 TTTAATATATATTATTTTATA 1 TTTAAT-TA-ATTATTTTATA * * 3169337 TTTATTTAAATATTTTA-A 1 TTTAATTAATTATTTTATA * 3169355 -TTAATTAATTATTATATA 1 TTTAATTAATTATTTTATA 3169373 ACTAGATAAT Statistics Matches: 30, Mismatches: 5, Indels: 5 0.75 0.12 0.12 Matches are distributed among these distances: 17 13 0.43 18 2 0.07 19 8 0.27 20 2 0.07 21 5 0.17 ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60 Consensus pattern (19 bp): TTTAATTAATTATTTTATA Found at i:3169922 original size:13 final size:13 Alignment explanation
Indices: 3169906--3169939 Score: 50 Period size: 13 Copynumber: 2.6 Consensus size: 13 3169896 TGACTTTAGA 3169906 AATTGAATCCATG 1 AATTGAATCCATG * * 3169919 AATTGAAACTATG 1 AATTGAATCCATG 3169932 AATTGAAT 1 AATTGAAT 3169940 TGATATATTG Statistics Matches: 18, Mismatches: 3, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 13 18 1.00 ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32 Consensus pattern (13 bp): AATTGAATCCATG Found at i:3171042 original size:20 final size:21 Alignment explanation
Indices: 3171004--3171042 Score: 53 Period size: 20 Copynumber: 1.9 Consensus size: 21 3170994 TTTTAATTTT * * 3171004 TTAATAATTTTTTACTTTAAA 1 TTAATAATTATTTAATTTAAA 3171025 TTAAT-ATTATTTAATTTA 1 TTAATAATTATTTAATTTA 3171043 TAACATTATT Statistics Matches: 16, Mismatches: 2, Indels: 1 0.84 0.11 0.05 Matches are distributed among these distances: 20 11 0.69 21 5 0.31 ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59 Consensus pattern (21 bp): TTAATAATTATTTAATTTAAA Found at i:3171120 original size:23 final size:25 Alignment explanation
Indices: 3171071--3171146 Score: 79 Period size: 24 Copynumber: 3.2 Consensus size: 25 3171061 AATTTTACTA * * 3171071 TTAA-TATAAATAAAA-AATTATCAT 1 TTAATTATATATAAAATATTTAT-AT 3171095 TTAATTATA-ATAAAATATTTAT-T 1 TTAATTATATATAAAATATTTATAT * * 3171118 TTAATTATATGTAAAATTTTTATAT 1 TTAATTATATATAAAATATTTATAT 3171143 TTAA 1 TTAA 3171147 AAATTTATTA Statistics Matches: 45, Mismatches: 3, Indels: 7 0.82 0.05 0.13 Matches are distributed among these distances: 23 10 0.22 24 21 0.47 25 14 0.31 ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49 Consensus pattern (25 bp): TTAATTATATATAAAATATTTATAT Found at i:3172975 original size:3 final size:3 Alignment explanation
Indices: 3172967--3173004 Score: 76 Period size: 3 Copynumber: 12.7 Consensus size: 3 3172957 ATGATAATGA 3172967 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA 1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA 3173005 GAATGAAACT Statistics Matches: 35, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 35 1.00 ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66 Consensus pattern (3 bp): TAT Found at i:3176593 original size:88 final size:89 Alignment explanation
Indices: 3176491--3176659 Score: 322 Period size: 89 Copynumber: 1.9 Consensus size: 89 3176481 TTAATTTTTG * 3176491 GGCCAAAATTGTGCATAGAGCTGAATTATTTG-GCTTGTCTTCAAGTTTCTAATCTACCTTTAAT 1 GGCCAAAATTGTGCATAGAGCGGAATTATTTGTGCTTGTCTTCAAGTTTCTAATCTACCTTTAAT 3176555 CTCCAACCCGATTTATAAATCTTT 66 CTCCAACCCGATTTATAAATCTTT 3176579 GGCCAAAATTGTGCATAGAGCGGAATTATTTGTGCTTGTCTTCAAGTTTCTAATCTACCTTTAAT 1 GGCCAAAATTGTGCATAGAGCGGAATTATTTGTGCTTGTCTTCAAGTTTCTAATCTACCTTTAAT 3176644 CTCCAACCCGATTTAT 66 CTCCAACCCGATTTAT 3176660 CTAATAAACT Statistics Matches: 79, Mismatches: 1, Indels: 1 0.98 0.01 0.01 Matches are distributed among these distances: 88 31 0.39 89 48 0.61 ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38 Consensus pattern (89 bp): GGCCAAAATTGTGCATAGAGCGGAATTATTTGTGCTTGTCTTCAAGTTTCTAATCTACCTTTAAT CTCCAACCCGATTTATAAATCTTT Found at i:3176778 original size:31 final size:31 Alignment explanation
Indices: 3176740--3176799 Score: 120 Period size: 31 Copynumber: 1.9 Consensus size: 31 3176730 TTTGTCAGCA 3176740 ACATGTATGCCATATAAACTAATACCGAGCG 1 ACATGTATGCCATATAAACTAATACCGAGCG 3176771 ACATGTATGCCATATAAACTAATACCGAG 1 ACATGTATGCCATATAAACTAATACCGAG 3176800 TTGACCACTA Statistics Matches: 29, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 31 29 1.00 ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23 Consensus pattern (31 bp): ACATGTATGCCATATAAACTAATACCGAGCG Found at i:3177978 original size:39 final size:39 Alignment explanation
Indices: 3177916--3177999 Score: 125 Period size: 39 Copynumber: 2.2 Consensus size: 39 3177906 CATATAGCAT 3177916 CAAA-TATAAATTAATATTAAATTACATTTATTTAAGAA 1 CAAACTATAAATTAATATTAAATTACATTTATTTAAGAA * * * * 3177954 CAAACTATTAATTCATATTGAATTACTTTTATTTAAGAA 1 CAAACTATAAATTAATATTAAATTACATTTATTTAAGAA 3177993 CAAACTA 1 CAAACTA 3178000 GAATTTGGTA Statistics Matches: 41, Mismatches: 4, Indels: 1 0.89 0.09 0.02 Matches are distributed among these distances: 38 4 0.10 39 37 0.90 ACGTcount: A:0.48, C:0.10, G:0.04, T:0.39 Consensus pattern (39 bp): CAAACTATAAATTAATATTAAATTACATTTATTTAAGAA Found at i:3180189 original size:9 final size:9 Alignment explanation
Indices: 3180175--3180233 Score: 50 Period size: 9 Copynumber: 6.6 Consensus size: 9 3180165 TTTAATTAGT 3180175 TTTTATTAA 1 TTTTATTAA * 3180184 TTTTATTGA 1 TTTTATTAA ** 3180193 TTAAATTAA 1 TTTTATTAA 3180202 TTTTATATTAA 1 -TTT-TATTAA * 3180213 TTTAATTAA 1 TTTTATTAA 3180222 -TTT-TTAA 1 TTTTATTAA 3180229 TTTTA 1 TTTTA 3180234 ACATATATAA Statistics Matches: 38, Mismatches: 8, Indels: 8 0.70 0.15 0.15 Matches are distributed among these distances: 7 4 0.11 8 5 0.13 9 19 0.50 10 5 0.13 11 5 0.13 ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63 Consensus pattern (9 bp): TTTTATTAA Found at i:3180199 original size:28 final size:29 Alignment explanation
Indices: 3180156--3180215 Score: 86 Period size: 28 Copynumber: 2.1 Consensus size: 29 3180146 AAAATCAGAT * * 3180156 TTTTAATGATTTAATTAGTTTT-TATTAA 1 TTTTAATGATTAAATTAATTTTATATTAA * 3180184 TTTTATTGATTAAATTAATTTTATATTAA 1 TTTTAATGATTAAATTAATTTTATATTAA 3180213 TTT 1 TTT 3180216 AATTAATTTT Statistics Matches: 28, Mismatches: 3, Indels: 1 0.88 0.09 0.03 Matches are distributed among these distances: 28 19 0.68 29 9 0.32 ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62 Consensus pattern (29 bp): TTTTAATGATTAAATTAATTTTATATTAA Found at i:3180213 original size:11 final size:10 Alignment explanation
Indices: 3180165--3180230 Score: 57 Period size: 10 Copynumber: 6.7 Consensus size: 10 3180155 TTTTTAATGA * 3180165 TTTAATTAGT 1 TTTAATTAAT * 3180175 TTTTATTAAT 1 TTTAATTAAT * 3180185 TTT-ATTGA- 1 TTTAATTAAT * 3180193 TTAAATTAAT 1 TTTAATTAAT 3180203 TTTATATTAA- 1 TTTA-ATTAAT 3180213 TTTAATTAATT 1 TTTAATTAA-T 3180224 TTTAATT 1 TTTAATT 3180231 TTAACATATA Statistics Matches: 45, Mismatches: 6, Indels: 9 0.75 0.10 0.15 Matches are distributed among these distances: 8 2 0.04 9 13 0.29 10 18 0.40 11 12 0.27 ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62 Consensus pattern (10 bp): TTTAATTAAT Found at i:3180217 original size:16 final size:18 Alignment explanation
Indices: 3180179--3180219 Score: 59 Period size: 16 Copynumber: 2.4 Consensus size: 18 3180169 ATTAGTTTTT 3180179 ATTAATTTTATTGATTAA 1 ATTAATTTTATTGATTAA 3180197 ATTAATTTTA-T-ATTAA 1 ATTAATTTTATTGATTAA * 3180213 TTTAATT 1 ATTAATT 3180220 AATTTTTAAT Statistics Matches: 22, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 16 11 0.50 17 1 0.05 18 10 0.45 ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59 Consensus pattern (18 bp): ATTAATTTTATTGATTAA Found at i:3180219 original size:20 final size:19 Alignment explanation
Indices: 3180179--3180227 Score: 64 Period size: 20 Copynumber: 2.6 Consensus size: 19 3180169 ATTAGTTTTT * 3180179 ATTAA-TTTTATTGATTAA 1 ATTAATTTTTATTAATTAA * 3180197 ATTAATTTTATATTAATTTA 1 ATTAATTTT-TATTAATTAA 3180217 ATTAATTTTTA 1 ATTAATTTTTA 3180228 ATTTTAACAT Statistics Matches: 27, Mismatches: 2, Indels: 3 0.84 0.06 0.09 Matches are distributed among these distances: 18 5 0.19 19 5 0.19 20 17 0.63 ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59 Consensus pattern (19 bp): ATTAATTTTTATTAATTAA Found at i:3180872 original size:10 final size:10 Alignment explanation
Indices: 3180853--3180886 Score: 50 Period size: 10 Copynumber: 3.4 Consensus size: 10 3180843 TATTTAATAA * 3180853 TTTATATATT 1 TTTAAATATT * 3180863 TTTAATTATT 1 TTTAAATATT 3180873 TTTAAATATT 1 TTTAAATATT 3180883 TTTA 1 TTTA 3180887 TGTATTATAA Statistics Matches: 21, Mismatches: 3, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 10 21 1.00 ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68 Consensus pattern (10 bp): TTTAAATATT Found at i:3180929 original size:28 final size:28 Alignment explanation
Indices: 3180841--3180930 Score: 94 Period size: 28 Copynumber: 3.2 Consensus size: 28 3180831 TCCTACATAC * 3180841 TATATTTAATAATTTATATATTTTTA-AT 1 TATATTTAA-AATTTATATTTTTTTATAT * * * * 3180869 TATTTTTAAATATTTTTA-TGTATTATAAT 1 TATATTTAAA-ATTTATATTTTTTTAT-AT 3180898 TATATTTAAAATTTATATTTTTTTATAT 1 TATATTTAAAATTTATATTTTTTTATAT 3180926 TATAT 1 TATAT 3180931 ATATTTTGAT Statistics Matches: 49, Mismatches: 9, Indels: 8 0.74 0.14 0.12 Matches are distributed among these distances: 27 5 0.10 28 27 0.55 29 17 0.35 ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62 Consensus pattern (28 bp): TATATTTAAAATTTATATTTTTTTATAT Found at i:3181854 original size:18 final size:17 Alignment explanation
Indices: 3181818--3181862 Score: 54 Period size: 18 Copynumber: 2.6 Consensus size: 17 3181808 TTGAGTATTG * 3181818 AATAATTTTTTTATGTT 1 AATAATTTTTTAATGTT * 3181835 AATACATTTTTTAATTTT 1 AATA-ATTTTTTAATGTT * 3181853 AATTATTTTT 1 AATAATTTTT 3181863 AAAATAAATA Statistics Matches: 24, Mismatches: 3, Indels: 2 0.83 0.10 0.07 Matches are distributed among these distances: 17 10 0.42 18 14 0.58 ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64 Consensus pattern (17 bp): AATAATTTTTTAATGTT Found at i:3182333 original size:9 final size:8 Alignment explanation
Indices: 3182301--3182331 Score: 53 Period size: 8 Copynumber: 3.9 Consensus size: 8 3182291 TTCAAGGTAA 3182301 AATTTTTT 1 AATTTTTT 3182309 AATTTTTT 1 AATTTTTT * 3182317 AATTTTAT 1 AATTTTTT 3182325 AATTTTT 1 AATTTTT 3182332 ATGATTAATT Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 8 21 1.00 ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71 Consensus pattern (8 bp): AATTTTTT Found at i:3184072 original size:26 final size:24 Alignment explanation
Indices: 3184043--3184102 Score: 93 Period size: 25 Copynumber: 2.4 Consensus size: 24 3184033 GGTACAACTT 3184043 CAAGTGTTTGTCTTTGTTGAATTTGG 1 CAAGT-TTT-TCTTTGTTGAATTTGG 3184069 CAAGTTCTTTCTTTGTTGAATTTGG 1 CAAGTT-TTTCTTTGTTGAATTTGG 3184094 CAAGTTTTT 1 CAAGTTTTT 3184103 TCTTGTTTAT Statistics Matches: 33, Mismatches: 0, Indels: 4 0.89 0.00 0.11 Matches are distributed among these distances: 24 3 0.09 25 23 0.70 26 7 0.21 ACGTcount: A:0.17, C:0.10, G:0.22, T:0.52 Consensus pattern (24 bp): CAAGTTTTTCTTTGTTGAATTTGG Done.