TRAP (Tandem Repeats Analysis Program) TRF Version 4.00 Sequence: 102845780 P. falciparum 3D7 GENOMIC chr6 Parameters: 2 5 7 80 10 25 1000 Pmatch=0.80,Pindel=0.10 tuple sizes 0,4,5,7 tuple distances 0, 29, 159, 1000 Length: 1418244 ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40 Found at i: i:1183568 original size:4 final size:4 Alignment explanation
Indices: 1183561--1183620 Score: 36 Period size: 4 Copynumber: 15.5 Consensus size: 4 1183551 AAAAATGTTT * * * * * * * * * * 1183561 TTTA TTTA TTTA -TAA TGTA -ATA TATA TATA TATA TATA TATA TATT 1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA 1183607 TTTA TTTA TTTA TT 1 TTTA TTTA TTTA TT 1183621 AAATGTATGA Statistics Matches: 47, Mismatches: 7, Indels: 4 0.81 0.12 0.07 Matches are distributed among these distances: 3 4 0.09 4 43 0.91 ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62 Consensus pattern (4 bp): TTTA Left flanking sequence: Indices 1183061 -- 1183560 TAATAAATATCTCTAGAAATATGATAAATATAATATATATATATATATATATATATTTTTTTTCA TTAGGAATATAAAATAAAACAAAAAATATGAATAAAAAGTTGTTATGTTACATTTTGAATTATTT CCTTTTATATATAATAGTAGAATATAAATGAATAAGATTGCTTATGTAAGAAGAAAAAAATAAAA AGGCAAAAAAAAAAAATTATCTCTTTGATTTTTAATATGAAATTATATATAATATATTTACATAA TATAGAATTAAAAAATGTAGGCCAAAATAAATACACGTGCATTATATCATCTACTTTGAAAATTA TAATTAATAAATATGTATAAAATATTTTATGTACATAATATATATATATATATATATATATATAT TATTATATATATTGATTTATTAATTAAAGAAAAAAATAAAAATATAATATAAATATAATTAAAAT ATCAAATGCAAAAATGATTAATCCTTAAAAATAAAAAAAATGTTT Right flanking sequence: Indices 1183621 -- 1184120 AAATGTATGATTATGGGGCATTCAATATGGTAAATATGCAGAAAAGAAATAAAATAATATAAACA CTTGAAAATTAAAATTTTCAGTAATAAAGAAAAATGAGGAAATTGATATGTTTACATTAAGATAG CACATATTATATATATATTATATATGTATAATATATTTTTTTCCTTTCCTTTTTATGTTATTTTA TTCTCTTTAATATAACAACTCTTATAAAACTGCTTCGTACATGATGATAAGATGTTCTTCTTGTC GATAATCATCTTTTTGATGATTGTCACACAAAAATATTTAACTACTTGTATTATAAAAAAGAAAT ATTCTTTTTTAAAATCGGGACCAAATAATAAGCAATGTTATAGGATACGTGGTTTTTTAACGGAA CCTAAAAAGGTGCGATGTTCATTATTAAATAAAAAATATGAAGATAAAGATCTATTTTATAAAAA TGACAAAAATAACGTATTAAATAGATATAAGGTGGATGATATAAA Found at i:1183587 original size:2 final size:2 Alignment explanation
Indices: 1183580--1183605 Score: 52 Period size: 2 Copynumber: 13.0 Consensus size: 2 1183570 TTATAATGTA 1183580 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 1183606 TTTTATTTAT 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 Left flanking sequence: Indices 1183080 -- 1183579 TATGATAAATATAATATATATATATATATATATATATTTTTTTTCATTAGGAATATAAAATAAAA CAAAAAATATGAATAAAAAGTTGTTATGTTACATTTTGAATTATTTCCTTTTATATATAATAGTA GAATATAAATGAATAAGATTGCTTATGTAAGAAGAAAAAAATAAAAAGGCAAAAAAAAAAAATTA TCTCTTTGATTTTTAATATGAAATTATATATAATATATTTACATAATATAGAATTAAAAAATGTA GGCCAAAATAAATACACGTGCATTATATCATCTACTTTGAAAATTATAATTAATAAATATGTATA AAATATTTTATGTACATAATATATATATATATATATATATATATATTATTATATATATTGATTTA TTAATTAAAGAAAAAAATAAAAATATAATATAAATATAATTAAAATATCAAATGCAAAAATGATT AATCCTTAAAAATAAAAAAAATGTTTTTTATTTATTTATAATGTA Right flanking sequence: Indices 1183606 -- 1184105 TTTTATTTATTTATTAAATGTATGATTATGGGGCATTCAATATGGTAAATATGCAGAAAAGAAAT AAAATAATATAAACACTTGAAAATTAAAATTTTCAGTAATAAAGAAAAATGAGGAAATTGATATG TTTACATTAAGATAGCACATATTATATATATATTATATATGTATAATATATTTTTTTCCTTTCCT TTTTATGTTATTTTATTCTCTTTAATATAACAACTCTTATAAAACTGCTTCGTACATGATGATAA GATGTTCTTCTTGTCGATAATCATCTTTTTGATGATTGTCACACAAAAATATTTAACTACTTGTA TTATAAAAAAGAAATATTCTTTTTTAAAATCGGGACCAAATAATAAGCAATGTTATAGGATACGT GGTTTTTTAACGGAACCTAAAAAGGTGCGATGTTCATTATTAAATAAAAAATATGAAGATAAAGA TCTATTTTATAAAAATGACAAAAATAACGTATTAAATAGATATAA Found at i:1183675 original size:5 final size:5 Alignment explanation
Indices: 1183667--1183683 Score: 27 Period size: 5 Copynumber: 3.4 Consensus size: 5 1183657 TGCAGAAAAG * 1183667 AAATA AAATA ATATA AA 1 AAATA AAATA AAATA AA 1183684 CACTTGAAAA Statistics Matches: 10, Mismatches: 2, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 5 10 1.00 ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24 Consensus pattern (5 bp): AAATA Left flanking sequence: Indices 1183167 -- 1183666 GTTATGTTACATTTTGAATTATTTCCTTTTATATATAATAGTAGAATATAAATGAATAAGATTGC TTATGTAAGAAGAAAAAAATAAAAAGGCAAAAAAAAAAAATTATCTCTTTGATTTTTAATATGAA ATTATATATAATATATTTACATAATATAGAATTAAAAAATGTAGGCCAAAATAAATACACGTGCA TTATATCATCTACTTTGAAAATTATAATTAATAAATATGTATAAAATATTTTATGTACATAATAT ATATATATATATATATATATATATTATTATATATATTGATTTATTAATTAAAGAAAAAAATAAAA ATATAATATAAATATAATTAAAATATCAAATGCAAAAATGATTAATCCTTAAAAATAAAAAAAAT GTTTTTTATTTATTTATAATGTAATATATATATATATATATATATATATTTTTATTTATTTATTA AATGTATGATTATGGGGCATTCAATATGGTAAATATGCAGAAAAG Right flanking sequence: Indices 1183684 -- 1184183 CACTTGAAAATTAAAATTTTCAGTAATAAAGAAAAATGAGGAAATTGATATGTTTACATTAAGAT AGCACATATTATATATATATTATATATGTATAATATATTTTTTTCCTTTCCTTTTTATGTTATTT TATTCTCTTTAATATAACAACTCTTATAAAACTGCTTCGTACATGATGATAAGATGTTCTTCTTG TCGATAATCATCTTTTTGATGATTGTCACACAAAAATATTTAACTACTTGTATTATAAAAAAGAA ATATTCTTTTTTAAAATCGGGACCAAATAATAAGCAATGTTATAGGATACGTGGTTTTTTAACGG AACCTAAAAAGGTGCGATGTTCATTATTAAATAAAAAATATGAAGATAAAGATCTATTTTATAAA AATGACAAAAATAACGTATTAAATAGATATAAGGTGGATGATATAAAAAACATATATTTTTATAA TTTATTGAATTTTAATCTGGTAGACGTACTTCATATATGTAAAAT Found at i:1183765 original size:2 final size:2 Alignment explanation
Indices: 1183754--1183786 Score: 38 Period size: 2 Copynumber: 18.0 Consensus size: 2 1183744 AAGATAGCAC * 1183754 AT AT -T AT AT AT AT AT -T AT AT AT GT AT A- AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1183787 TTTTTTCCTT Statistics Matches: 26, Mismatches: 2, Indels: 6 0.76 0.06 0.18 Matches are distributed among these distances: 1 3 0.12 2 23 0.88 ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52 Consensus pattern (2 bp): AT Left flanking sequence: Indices 1183254 -- 1183753 AAAGGCAAAAAAAAAAAATTATCTCTTTGATTTTTAATATGAAATTATATATAATATATTTACAT AATATAGAATTAAAAAATGTAGGCCAAAATAAATACACGTGCATTATATCATCTACTTTGAAAAT TATAATTAATAAATATGTATAAAATATTTTATGTACATAATATATATATATATATATATATATAT ATTATTATATATATTGATTTATTAATTAAAGAAAAAAATAAAAATATAATATAAATATAATTAAA ATATCAAATGCAAAAATGATTAATCCTTAAAAATAAAAAAAATGTTTTTTATTTATTTATAATGT AATATATATATATATATATATATATATTTTTATTTATTTATTAAATGTATGATTATGGGGCATTC AATATGGTAAATATGCAGAAAAGAAATAAAATAATATAAACACTTGAAAATTAAAATTTTCAGTA ATAAAGAAAAATGAGGAAATTGATATGTTTACATTAAGATAGCAC Right flanking sequence: Indices 1183787 -- 1184286 TTTTTTCCTTTCCTTTTTATGTTATTTTATTCTCTTTAATATAACAACTCTTATAAAACTGCTTC GTACATGATGATAAGATGTTCTTCTTGTCGATAATCATCTTTTTGATGATTGTCACACAAAAATA TTTAACTACTTGTATTATAAAAAAGAAATATTCTTTTTTAAAATCGGGACCAAATAATAAGCAAT GTTATAGGATACGTGGTTTTTTAACGGAACCTAAAAAGGTGCGATGTTCATTATTAAATAAAAAA TATGAAGATAAAGATCTATTTTATAAAAATGACAAAAATAACGTATTAAATAGATATAAGGTGGA TGATATAAAAAACATATATTTTTATAATTTATTGAATTTTAATCTGGTAGACGTACTTCATATAT GTAAAATATTATTGCATATGAAAAGTATTACTCTATATAAATATAATAATAATATGTCCATAAAC ATTCAACAATCCATTAAAGAGAAAGAAAAAAAGAAAATAGAAATA Found at i:1183798 original size:5 final size:5 Alignment explanation
Indices: 1183790--1183802 Score: 26 Period size: 5 Copynumber: 2.6 Consensus size: 5 1183780 AATATATTTT 1183790 TTTCC TTTCC TTT 1 TTTCC TTTCC TTT 1183803 TTATGTTATT Statistics Matches: 8, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 5 8 1.00 ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69 Consensus pattern (5 bp): TTTCC Left flanking sequence: Indices 1183290 -- 1183789 ATATGAAATTATATATAATATATTTACATAATATAGAATTAAAAAATGTAGGCCAAAATAAATAC ACGTGCATTATATCATCTACTTTGAAAATTATAATTAATAAATATGTATAAAATATTTTATGTAC ATAATATATATATATATATATATATATATATTATTATATATATTGATTTATTAATTAAAGAAAAA AATAAAAATATAATATAAATATAATTAAAATATCAAATGCAAAAATGATTAATCCTTAAAAATAA AAAAAATGTTTTTTATTTATTTATAATGTAATATATATATATATATATATATATATTTTTATTTA TTTATTAAATGTATGATTATGGGGCATTCAATATGGTAAATATGCAGAAAAGAAATAAAATAATA TAAACACTTGAAAATTAAAATTTTCAGTAATAAAGAAAAATGAGGAAATTGATATGTTTACATTA AGATAGCACATATTATATATATATTATATATGTATAATATATTTT Right flanking sequence: Indices 1183803 -- 1184302 TTATGTTATTTTATTCTCTTTAATATAACAACTCTTATAAAACTGCTTCGTACATGATGATAAGA TGTTCTTCTTGTCGATAATCATCTTTTTGATGATTGTCACACAAAAATATTTAACTACTTGTATT ATAAAAAAGAAATATTCTTTTTTAAAATCGGGACCAAATAATAAGCAATGTTATAGGATACGTGG TTTTTTAACGGAACCTAAAAAGGTGCGATGTTCATTATTAAATAAAAAATATGAAGATAAAGATC TATTTTATAAAAATGACAAAAATAACGTATTAAATAGATATAAGGTGGATGATATAAAAAACATA TATTTTTATAATTTATTGAATTTTAATCTGGTAGACGTACTTCATATATGTAAAATATTATTGCA TATGAAAAGTATTACTCTATATAAATATAATAATAATATGTCCATAAACATTCAACAATCCATTA AAGAGAAAGAAAAAAAGAAAATAGAAATAAAAAAAAGAAAAAATG Found at i:1183817 original size:5 final size:5 Alignment explanation
Indices: 1183801--1183817 Score: 27 Period size: 5 Copynumber: 3.4 Consensus size: 5 1183791 TTCCTTTCCT * 1183801 TTTTA TGTTA TTTTA TT 1 TTTTA TTTTA TTTTA TT 1183818 CTCTTTAATA Statistics Matches: 10, Mismatches: 2, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 5 10 1.00 ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76 Consensus pattern (5 bp): TTTTA Left flanking sequence: Indices 1183301 -- 1183800 TATATAATATATTTACATAATATAGAATTAAAAAATGTAGGCCAAAATAAATACACGTGCATTAT ATCATCTACTTTGAAAATTATAATTAATAAATATGTATAAAATATTTTATGTACATAATATATAT ATATATATATATATATATATTATTATATATATTGATTTATTAATTAAAGAAAAAAATAAAAATAT AATATAAATATAATTAAAATATCAAATGCAAAAATGATTAATCCTTAAAAATAAAAAAAATGTTT TTTATTTATTTATAATGTAATATATATATATATATATATATATATTTTTATTTATTTATTAAATG TATGATTATGGGGCATTCAATATGGTAAATATGCAGAAAAGAAATAAAATAATATAAACACTTGA AAATTAAAATTTTCAGTAATAAAGAAAAATGAGGAAATTGATATGTTTACATTAAGATAGCACAT ATTATATATATATTATATATGTATAATATATTTTTTTCCTTTCCT Right flanking sequence: Indices 1183818 -- 1184317 CTCTTTAATATAACAACTCTTATAAAACTGCTTCGTACATGATGATAAGATGTTCTTCTTGTCGA TAATCATCTTTTTGATGATTGTCACACAAAAATATTTAACTACTTGTATTATAAAAAAGAAATAT TCTTTTTTAAAATCGGGACCAAATAATAAGCAATGTTATAGGATACGTGGTTTTTTAACGGAACC TAAAAAGGTGCGATGTTCATTATTAAATAAAAAATATGAAGATAAAGATCTATTTTATAAAAATG ACAAAAATAACGTATTAAATAGATATAAGGTGGATGATATAAAAAACATATATTTTTATAATTTA TTGAATTTTAATCTGGTAGACGTACTTCATATATGTAAAATATTATTGCATATGAAAAGTATTAC TCTATATAAATATAATAATAATATGTCCATAAACATTCAACAATCCATTAAAGAGAAAGAAAAAA AGAAAATAGAAATAAAAAAAAGAAAAAATGTTATATGGCAAAATA Found at i:1184278 original size:6 final size:6 Alignment explanation
Indices: 1184257--1184299 Score: 40 Period size: 6 Copynumber: 6.8 Consensus size: 6 1184247 ACAATCCATT * * * * 1184257 AAAGAG AAAGAA AAAAAG AAAATAG AAATAAA AAAAAG AAAAA 1 AAAAAG AAAAAG AAAAAG AAAA-AG AAA-AAG AAAAAG AAAAA 1184300 ATGTTATATG Statistics Matches: 30, Mismatches: 5, Indels: 4 0.77 0.13 0.10 Matches are distributed among these distances: 6 20 0.67 7 9 0.30 8 1 0.03 ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05 Consensus pattern (6 bp): AAAAAG Left flanking sequence: Indices 1183757 -- 1184256 TTATATATATATTATATATGTATAATATATTTTTTTCCTTTCCTTTTTATGTTATTTTATTCTCT TTAATATAACAACTCTTATAAAACTGCTTCGTACATGATGATAAGATGTTCTTCTTGTCGATAAT CATCTTTTTGATGATTGTCACACAAAAATATTTAACTACTTGTATTATAAAAAAGAAATATTCTT TTTTAAAATCGGGACCAAATAATAAGCAATGTTATAGGATACGTGGTTTTTTAACGGAACCTAAA AAGGTGCGATGTTCATTATTAAATAAAAAATATGAAGATAAAGATCTATTTTATAAAAATGACAA AAATAACGTATTAAATAGATATAAGGTGGATGATATAAAAAACATATATTTTTATAATTTATTGA ATTTTAATCTGGTAGACGTACTTCATATATGTAAAATATTATTGCATATGAAAAGTATTACTCTA TATAAATATAATAATAATATGTCCATAAACATTCAACAATCCATT Right flanking sequence: Indices 1184300 -- 1184799 ATGTTATATGGCAAAATAATTCAAACTATTTAATTAATAGTTTAGTACTATTTTTTAAAAAATAT TTGAAAAGATATAAAGAGGAAAAGGACTTGTTCTTTAAGTTGGCTAGCTACCAAATGGAAAAAAA AGAAAAAAAAAAAAAAAAAAAAAAAAAAACGCAAATTAATAGTGATAATTATGTGTTGACTATCA AAAATTTGATCGATGAAAATATAGAGAACAAATCTGTAGAAAAAAAAAGGAAAAGAAATTATTTC AAGAAATATATTATAAGAGGTATTTTGGAAAATATGAATATTTGTGTAAAGAAAAGAAGTTATGT AAATAATATGAAAGATAAATTCTTTTTATTTGAATTTCGTGTGGATAACATACAGTTTTCCTTAG AGTGTCTTTATAAAAAAGTAAGAGGTATATATTTTTTGTATAGAAATATTATGTATATAAAAATA AATGAAGATTATAAAATCCCCATTGCTGTTTTAAATATTATATCA Found at i:1184429 original size:1 final size:1 Alignment explanation
Indices: 1184423--1184458 Score: 65 Period size: 1 Copynumber: 36.0 Consensus size: 1 1184413 TACCAAATGG * 1184423 AAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAA 1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 1184459 CGCAAATTAA Statistics Matches: 33, Mismatches: 2, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 1 33 1.00 ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00 Consensus pattern (1 bp): A Left flanking sequence: Indices 1183923 -- 1184422 TACTTGTATTATAAAAAAGAAATATTCTTTTTTAAAATCGGGACCAAATAATAAGCAATGTTATA GGATACGTGGTTTTTTAACGGAACCTAAAAAGGTGCGATGTTCATTATTAAATAAAAAATATGAA GATAAAGATCTATTTTATAAAAATGACAAAAATAACGTATTAAATAGATATAAGGTGGATGATAT AAAAAACATATATTTTTATAATTTATTGAATTTTAATCTGGTAGACGTACTTCATATATGTAAAA TATTATTGCATATGAAAAGTATTACTCTATATAAATATAATAATAATATGTCCATAAACATTCAA CAATCCATTAAAGAGAAAGAAAAAAAGAAAATAGAAATAAAAAAAAGAAAAAATGTTATATGGCA AAATAATTCAAACTATTTAATTAATAGTTTAGTACTATTTTTTAAAAAATATTTGAAAAGATATA AAGAGGAAAAGGACTTGTTCTTTAAGTTGGCTAGCTACCAAATGG Right flanking sequence: Indices 1184459 -- 1184958 CGCAAATTAATAGTGATAATTATGTGTTGACTATCAAAAATTTGATCGATGAAAATATAGAGAAC AAATCTGTAGAAAAAAAAAGGAAAAGAAATTATTTCAAGAAATATATTATAAGAGGTATTTTGGA AAATATGAATATTTGTGTAAAGAAAAGAAGTTATGTAAATAATATGAAAGATAAATTCTTTTTAT TTGAATTTCGTGTGGATAACATACAGTTTTCCTTAGAGTGTCTTTATAAAAAAGTAAGAGGTATA TATTTTTTGTATAGAAATATTATGTATATAAAAATAAATGAAGATTATAAAATCCCCATTGCTGT TTTAAATATTATATCAAATATTAATGTATACTATAAGGTGATGAAAAATTATATTCTTGTTAATT CCTTTTTTATAAAATATTATTTCAAGTATTATTTAAATAAATTTTTTAATTTAAACAAGATGTTT ATTCAGGAAAAAAAAAAGAAAAGAAAAGAATATATGTTTAAAAAT i:1184927 original size:1 final size:1 Alignment explanation
Indices: 1184921--1184940 Score: 26 Period size: 1 Copynumber: 20.0 Consensus size: 1 1184911 TTTATTCAGG * * 1184921 AAAAAAAAAAGAAAAGAAAA 1 AAAAAAAAAAAAAAAAAAAA 1184941 GAATATATGT Statistics Matches: 15, Mismatches: 4, Indels: 0 0.79 0.21 0.00 Matches are distributed among these distances: 1 15 1.00 ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00 Consensus pattern (1 bp): A Left flanking sequence: Indices 1184421 -- 1184920 GGAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAACGCAAATTAATAGTGATAATTATGTGT TGACTATCAAAAATTTGATCGATGAAAATATAGAGAACAAATCTGTAGAAAAAAAAAGGAAAAGA AATTATTTCAAGAAATATATTATAAGAGGTATTTTGGAAAATATGAATATTTGTGTAAAGAAAAG AAGTTATGTAAATAATATGAAAGATAAATTCTTTTTATTTGAATTTCGTGTGGATAACATACAGT TTTCCTTAGAGTGTCTTTATAAAAAAGTAAGAGGTATATATTTTTTGTATAGAAATATTATGTAT ATAAAAATAAATGAAGATTATAAAATCCCCATTGCTGTTTTAAATATTATATCAAATATTAATGT ATACTATAAGGTGATGAAAAATTATATTCTTGTTAATTCCTTTTTTATAAAATATTATTTCAAGT ATTATTTAAATAAATTTTTTAATTTAAACAAGATGTTTATTCAGG Right flanking sequence: Indices 1184941 -- 1185440 GAATATATGTTTAAAAATATAAAGGATAGTATAATATATGTAAAAGAAATAAAAAAAACAACTAT GAATAATCATCTTTGTGATGACAAAAAAAAAGAAATAATAACTCCGCCATGTTATGCAAAAGATA TAATAAATGGGACGAAGTTTTATAACATATTAATAAAAAATAATATAAAAATAAAAAGAGTAAAA ATATATTTTAATGGAAAGTTATTTGTGTCTTTTCCTATATGTTTAACATACAACATAAATAATTA TCAATTTTATTTGAATAATATAAAATATTTTAATATTAATAATTTTACAACAAATGAATTATTTA TTCTTAAAGACATATATTTAAACAATAAGGCATATTTTATGAATAATGCATTTTGTTATTTAAAT AATGAGAATATCATTATGAGTAATGAAATGCTAAATATAGATCTTGATTATATTTTGTTATTTTA TATTTTATATTTTAACGATAATCAGAATTTATACATTCCTCGGGT Found at i:1184935 original size:5 final size:5 Alignment explanation
Indices: 1184922--1184943 Score: 37 Period size: 5 Copynumber: 4.4 Consensus size: 5 1184912 TTATTCAGGA * 1184922 AAAAA AAAAG AAAAG AAAAG AA 1 AAAAG AAAAG AAAAG AAAAG AA 1184944 TATATGTTTA Statistics Matches: 16, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 5 16 1.00 ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00 Consensus pattern (5 bp): AAAAG Left flanking sequence: Indices 1184422 -- 1184921 GAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAACGCAAATTAATAGTGATAATTATGTGTT GACTATCAAAAATTTGATCGATGAAAATATAGAGAACAAATCTGTAGAAAAAAAAAGGAAAAGAA ATTATTTCAAGAAATATATTATAAGAGGTATTTTGGAAAATATGAATATTTGTGTAAAGAAAAGA AGTTATGTAAATAATATGAAAGATAAATTCTTTTTATTTGAATTTCGTGTGGATAACATACAGTT TTCCTTAGAGTGTCTTTATAAAAAAGTAAGAGGTATATATTTTTTGTATAGAAATATTATGTATA TAAAAATAAATGAAGATTATAAAATCCCCATTGCTGTTTTAAATATTATATCAAATATTAATGTA TACTATAAGGTGATGAAAAATTATATTCTTGTTAATTCCTTTTTTATAAAATATTATTTCAAGTA TTATTTAAATAAATTTTTTAATTTAAACAAGATGTTTATTCAGGA Right flanking sequence: Indices 1184944 -- 1185443 TATATGTTTAAAAATATAAAGGATAGTATAATATATGTAAAAGAAATAAAAAAAACAACTATGAA TAATCATCTTTGTGATGACAAAAAAAAAGAAATAATAACTCCGCCATGTTATGCAAAAGATATAA TAAATGGGACGAAGTTTTATAACATATTAATAAAAAATAATATAAAAATAAAAAGAGTAAAAATA TATTTTAATGGAAAGTTATTTGTGTCTTTTCCTATATGTTTAACATACAACATAAATAATTATCA ATTTTATTTGAATAATATAAAATATTTTAATATTAATAATTTTACAACAAATGAATTATTTATTC TTAAAGACATATATTTAAACAATAAGGCATATTTTATGAATAATGCATTTTGTTATTTAAATAAT GAGAATATCATTATGAGTAATGAAATGCTAAATATAGATCTTGATTATATTTTGTTATTTTATAT TTTATATTTTAACGATAATCAGAATTTATACATTCCTCGGGTGTG Found at i:1185126 original size:6 final size:6 Alignment explanation
Indices: 1185102--1185127 Score: 31 Period size: 6 Copynumber: 4.3 Consensus size: 6 1185092 ATAACATATT ** * 1185102 AATAAA AAATAA TATAAA AATAAA AA 1 AATAAA AATAAA AATAAA AATAAA AA 1185128 GAGTAAAAAT Statistics Matches: 14, Mismatches: 6, Indels: 0 0.70 0.30 0.00 Matches are distributed among these distances: 6 14 1.00 ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19 Consensus pattern (6 bp): AATAAA Left flanking sequence: Indices 1184602 -- 1185101 TGTGTAAAGAAAAGAAGTTATGTAAATAATATGAAAGATAAATTCTTTTTATTTGAATTTCGTGT GGATAACATACAGTTTTCCTTAGAGTGTCTTTATAAAAAAGTAAGAGGTATATATTTTTTGTATA GAAATATTATGTATATAAAAATAAATGAAGATTATAAAATCCCCATTGCTGTTTTAAATATTATA TCAAATATTAATGTATACTATAAGGTGATGAAAAATTATATTCTTGTTAATTCCTTTTTTATAAA ATATTATTTCAAGTATTATTTAAATAAATTTTTTAATTTAAACAAGATGTTTATTCAGGAAAAAA AAAAGAAAAGAAAAGAATATATGTTTAAAAATATAAAGGATAGTATAATATATGTAAAAGAAATA AAAAAAACAACTATGAATAATCATCTTTGTGATGACAAAAAAAAAGAAATAATAACTCCGCCATG TTATGCAAAAGATATAATAAATGGGACGAAGTTTTATAACATATT Right flanking sequence: Indices 1185128 -- 1185627 GAGTAAAAATATATTTTAATGGAAAGTTATTTGTGTCTTTTCCTATATGTTTAACATACAACATA AATAATTATCAATTTTATTTGAATAATATAAAATATTTTAATATTAATAATTTTACAACAAATGA ATTATTTATTCTTAAAGACATATATTTAAACAATAAGGCATATTTTATGAATAATGCATTTTGTT ATTTAAATAATGAGAATATCATTATGAGTAATGAAATGCTAAATATAGATCTTGATTATATTTTG TTATTTTATATTTTATATTTTAACGATAATCAGAATTTATACATTCCTCGGGTGTGTAATCCAGC ATGGCCTTTTTATTCCATGATAAATAGAAATAATTTAGTTCTTAAAAAAACAACTAAAATAATAA AAAGTGTTGACAAAAAGGAATCAAAAAATATAAAAAGTAGGAATATTTTAAAAAGGGTAATATAT AAGGCTGATCAAAATTTTGTAAATTTTGTGTTCTGATGGGATAAC Found at i:1185665 original size:3 final size:3 Alignment explanation
Indices: 1185638--1185665 Score: 28 Period size: 3 Copynumber: 10.0 Consensus size: 3 1185628 ATAAAAGGAG * * 1185638 TAA T-A TAA -AA TCA TAA TAT TAA TAA TAA 1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA 1185666 AGAAATGTTC Statistics Matches: 19, Mismatches: 4, Indels: 4 0.70 0.15 0.15 Matches are distributed among these distances: 2 4 0.21 3 15 0.79 ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36 Consensus pattern (3 bp): TAA Left flanking sequence: Indices 1185138 -- 1185637 ATATTTTAATGGAAAGTTATTTGTGTCTTTTCCTATATGTTTAACATACAACATAAATAATTATC AATTTTATTTGAATAATATAAAATATTTTAATATTAATAATTTTACAACAAATGAATTATTTATT CTTAAAGACATATATTTAAACAATAAGGCATATTTTATGAATAATGCATTTTGTTATTTAAATAA TGAGAATATCATTATGAGTAATGAAATGCTAAATATAGATCTTGATTATATTTTGTTATTTTATA TTTTATATTTTAACGATAATCAGAATTTATACATTCCTCGGGTGTGTAATCCAGCATGGCCTTTT TATTCCATGATAAATAGAAATAATTTAGTTCTTAAAAAAACAACTAAAATAATAAAAAGTGTTGA CAAAAAGGAATCAAAAAATATAAAAAGTAGGAATATTTTAAAAAGGGTAATATATAAGGCTGATC AAAATTTTGTAAATTTTGTGTTCTGATGGGATAACATAAAAGGAG Right flanking sequence: Indices 1185666 -- 1186165 AGAAATGTTCCTATGTATTTATATATTTATATATTTATTTGTTTGTTTTTTTTACGATTTTTATT TTTTTTTTTTTTTTTTGTGAAAATAATATTGTATATACAAATATATATATTTAAATGAAAAATAT ATATTTTGTATGATTTTGTAATTTTTTCGTATCTATATTTGAAATTATAATATTTATATATTTTT TTTAAAACATGGAGTGGACTTGTAAATATATATACATATATATATATATATATATATATATATAT ATATATATATATATATATATATAATTATGTGTTGATTTCCAGGTTATTGTACAAAATTAATTTTC GAATCATTATAACAGATGTTTATTTATATAATTCAATATAAAATCATTGACGTGTTTATAATTTA TAATTACATTCGACGTATGTACATTGAATTTATTTTTTAATAATCCGATAATTCTGTTTTTAAAA TTTTGTTGATTAATGATAGACATTTTATTTTGATCATATTTTAAA Found at i:1185727 original size:1 final size:1 Alignment explanation
Indices: 1185723--1185746 Score: 41 Period size: 1 Copynumber: 24.0 Consensus size: 1 1185713 TTTTTTACGA * 1185723 TTTTTATTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTT 1185747 GTGAAAATAA Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 1 21 1.00 ACGTcount: A:0.04, C:0.00, G:0.00, T:0.96 Consensus pattern (1 bp): T Left flanking sequence: Indices 1185223 -- 1185722 AAATATTTTAATATTAATAATTTTACAACAAATGAATTATTTATTCTTAAAGACATATATTTAAA CAATAAGGCATATTTTATGAATAATGCATTTTGTTATTTAAATAATGAGAATATCATTATGAGTA ATGAAATGCTAAATATAGATCTTGATTATATTTTGTTATTTTATATTTTATATTTTAACGATAAT CAGAATTTATACATTCCTCGGGTGTGTAATCCAGCATGGCCTTTTTATTCCATGATAAATAGAAA TAATTTAGTTCTTAAAAAAACAACTAAAATAATAAAAAGTGTTGACAAAAAGGAATCAAAAAATA TAAAAAGTAGGAATATTTTAAAAAGGGTAATATATAAGGCTGATCAAAATTTTGTAAATTTTGTG TTCTGATGGGATAACATAAAAGGAGTAATATAAAATCATAATATTAATAATAAAGAAATGTTCCT ATGTATTTATATATTTATATATTTATTTGTTTGTTTTTTTTACGA Right flanking sequence: Indices 1185747 -- 1186246 GTGAAAATAATATTGTATATACAAATATATATATTTAAATGAAAAATATATATTTTGTATGATTT TGTAATTTTTTCGTATCTATATTTGAAATTATAATATTTATATATTTTTTTTAAAACATGGAGTG GACTTGTAAATATATATACATATATATATATATATATATATATATATATATATATATATATATAT ATATATAATTATGTGTTGATTTCCAGGTTATTGTACAAAATTAATTTTCGAATCATTATAACAGA TGTTTATTTATATAATTCAATATAAAATCATTGACGTGTTTATAATTTATAATTACATTCGACGT ATGTACATTGAATTTATTTTTTAATAATCCGATAATTCTGTTTTTAAAATTTTGTTGATTAATGA TAGACATTTTATTTTGATCATATTTTAAATAATGTTTATTTTGTTTAATTAATTCGATTAAGGTA TGTTCAATATCATTTGCATTTATATGTTTGAGTTGTTCGTAGAAA Found at i:1185776 original size:2 final size:2 Alignment explanation
Indices: 1185762--1185799 Score: 25 Period size: 2 Copynumber: 18.5 Consensus size: 2 1185752 AATAATATTG * * * * * * 1185762 TA TA TA CA AA TA TA TA TA TT TA AA TGA AA AA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA T 1185800 TTTGTATGAT Statistics Matches: 26, Mismatches: 9, Indels: 2 0.70 0.24 0.05 Matches are distributed among these distances: 2 25 0.96 3 1 0.04 ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39 Consensus pattern (2 bp): TA Left flanking sequence: Indices 1185262 -- 1185761 TTTATTCTTAAAGACATATATTTAAACAATAAGGCATATTTTATGAATAATGCATTTTGTTATTT AAATAATGAGAATATCATTATGAGTAATGAAATGCTAAATATAGATCTTGATTATATTTTGTTAT TTTATATTTTATATTTTAACGATAATCAGAATTTATACATTCCTCGGGTGTGTAATCCAGCATGG CCTTTTTATTCCATGATAAATAGAAATAATTTAGTTCTTAAAAAAACAACTAAAATAATAAAAAG TGTTGACAAAAAGGAATCAAAAAATATAAAAAGTAGGAATATTTTAAAAAGGGTAATATATAAGG CTGATCAAAATTTTGTAAATTTTGTGTTCTGATGGGATAACATAAAAGGAGTAATATAAAATCAT AATATTAATAATAAAGAAATGTTCCTATGTATTTATATATTTATATATTTATTTGTTTGTTTTTT TTACGATTTTTATTTTTTTTTTTTTTTTTTGTGAAAATAATATTG Right flanking sequence: Indices 1185800 -- 1186299 TTTGTATGATTTTGTAATTTTTTCGTATCTATATTTGAAATTATAATATTTATATATTTTTTTTA AAACATGGAGTGGACTTGTAAATATATATACATATATATATATATATATATATATATATATATAT ATATATATATATATATATAATTATGTGTTGATTTCCAGGTTATTGTACAAAATTAATTTTCGAAT CATTATAACAGATGTTTATTTATATAATTCAATATAAAATCATTGACGTGTTTATAATTTATAAT TACATTCGACGTATGTACATTGAATTTATTTTTTAATAATCCGATAATTCTGTTTTTAAAATTTT GTTGATTAATGATAGACATTTTATTTTGATCATATTTTAAATAATGTTTATTTTGTTTAATTAAT TCGATTAAGGTATGTTCAATATCATTTGCATTTATATGTTTGAGTTGTTCGTAGAAATCTTCTCT TTTAAATTCTTTGTCTATAAATTGGAAAATAAATGATTTTAAGAA Found at i:1185893 original size:2 final size:2 Alignment explanation
Indices: 1185886--1185948 Score: 119 Period size: 2 Copynumber: 31.5 Consensus size: 2 1185876 GGACTTGTAA * 1185886 AT AT AT AT AC 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 AT 1185928 AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT A 1185949 ATTATGTGTT Statistics Matches: 59, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 2 59 1.00 ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48 Consensus pattern (2 bp): AT Left flanking sequence: Indices 1185386 -- 1185885 TGTTATTTTATATTTTATATTTTAACGATAATCAGAATTTATACATTCCTCGGGTGTGTAATCCA GCATGGCCTTTTTATTCCATGATAAATAGAAATAATTTAGTTCTTAAAAAAACAACTAAAATAAT AAAAAGTGTTGACAAAAAGGAATCAAAAAATATAAAAAGTAGGAATATTTTAAAAAGGGTAATAT ATAAGGCTGATCAAAATTTTGTAAATTTTGTGTTCTGATGGGATAACATAAAAGGAGTAATATAA AATCATAATATTAATAATAAAGAAATGTTCCTATGTATTTATATATTTATATATTTATTTGTTTG TTTTTTTTACGATTTTTATTTTTTTTTTTTTTTTTTGTGAAAATAATATTGTATATACAAATATA TATATTTAAATGAAAAATATATATTTTGTATGATTTTGTAATTTTTTCGTATCTATATTTGAAAT TATAATATTTATATATTTTTTTTAAAACATGGAGTGGACTTGTAA Right flanking sequence: Indices 1185949 -- 1186448 ATTATGTGTTGATTTCCAGGTTATTGTACAAAATTAATTTTCGAATCATTATAACAGATGTTTAT TTATATAATTCAATATAAAATCATTGACGTGTTTATAATTTATAATTACATTCGACGTATGTACA TTGAATTTATTTTTTAATAATCCGATAATTCTGTTTTTAAAATTTTGTTGATTAATGATAGACAT TTTATTTTGATCATATTTTAAATAATGTTTATTTTGTTTAATTAATTCGATTAAGGTATGTTCAA TATCATTTGCATTTATATGTTTGAGTTGTTCGTAGAAATCTTCTCTTTTAAATTCTTTGTCTATA AATTGGAAAATAAATGATTTTAAGAATGTATTATCTATATTATTTGTATGTGCATAATTAATAAG GAAACATAAATCTTTAGGTTTGATTAATATTTGTTTGGATAGGATATTTTTTTTTTTTAGAATAT CTAATAGAATATTAACTAAAAAATTTGATACATATTTTTCTTGTT Found at i:1188669 original size:4 final size:4 Alignment explanation
Indices: 1188660--1188752 Score: 88 Period size: 4 Copynumber: 23.5 Consensus size: 4 1188650 AAGGGGAAAA * * * 1188660 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATTT ATGT ATGT 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT * * * * * * * * * * 1188708 ATGT ATGT ATGT ATAT TTAT -TTT ATTT ATTT ATTT ATTT ATTT AT 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT 1188753 TTTTTTTTTT Statistics Matches: 83, Mismatches: 5, Indels: 2 0.92 0.06 0.02 Matches are distributed among these distances: 3 2 0.02 4 81 0.98 ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59 Consensus pattern (4 bp): ATAT Left flanking sequence: Indices 1188160 -- 1188659 ATTTTTTTGCTTCCATATATTTTCTCTTATAAAATCTATCAAATCATTGTGATTTTTTTCATATG TTTTTTCTCCATATAATGATGATATATTGAAACAATTACAAAAAGCTTTATATTTTGTACTTAGC TGTATATGTACTTCTAAACCTATTTTACACTTTACATTTTTATCGATATATGATACAGTGTTTTC TTCTATTTCTTTATTTCTTATATCACCAAAAAATACAGCATTTTTTCTCAATGCATATCCATGTT TTTTTACTTGACCCATTCCATCACAATAAAAGTTAAGATATTCATTTTTCCTTCCCTTTTTAAGT AAACATGTATTTGTTGGAGTGAGCAAAATATTGTTGTTAGTGATATGGTTTATATTGAAGCAAGT AATAAAAGAATGATATTGTATTATCAACATAAAAAAAGAGGTGAAAATTACATATCTGATCATTA TATGATAGAAATGTAAAACATGGCCCAACATACACAAGGGGAAAA Right flanking sequence: Indices 1188753 -- 1189252 TTTTTTTTTTTTTATTCCCCTTTCGAAAAAAACCTTTCGTAGGGAAGTGTAAGAATATCTGGTTA TTTCTTCATATTATGTTCCTTTAAATATATATTAATATATATTATTATATATATATATATATTTA AATTTTTTTTTTTTTTATTTCCCCATATTTGTATAACTATAAATGTATATATATAAAATATATAT ATATATATTTTATTTTATTTGTATTAGGTTGATTTATACTAAGATATTATATATTAGGAAGAAAA AAAAATAATAATAATCAAATATTTTATTATGCATATGTAATAATATATTATACATATGTACATTT GCTTATTTTTGTTTACACCTTTGAGGTTCTACAGAAAAATAAAATAAAATAAATAAAAATAGAAT ATTATACATATATATTATATATATTATAAATATTTAAATATTATATATAATTTACATGTTATTTA TATATTATTTTTTATGTAGATTAAAAAATTTTCTATTTTGTGTTT Found at i:1188753 original size:4 final size:4 Alignment explanation
Indices: 1188663--1188768 Score: 80 Period size: 4 Copynumber: 26.0 Consensus size: 4 1188653 GGGAAAAATA * * * * * * * * * * * 1188663 TATA TATA TATA TATA TATA TATA TATA TATA TATT TATG TATG TATG 1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT * * 1188711 TATG TATGT ATATT TATTT TATT TATT TATT TATT TATT TATT T-TT TTTT 1 TATT TAT-T -TATT TA-TT TATT TATT TATT TATT TATT TATT TATT TATT * 1188761 TTTT TATT 1 TATT TATT 1188769 CCCCTTTCGA Statistics Matches: 94, Mismatches: 4, Indels: 8 0.89 0.04 0.08 Matches are distributed among these distances: 3 3 0.03 4 83 0.88 5 5 0.05 6 3 0.03 ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65 Consensus pattern (4 bp): TATT Left flanking sequence: Indices 1188163 -- 1188662 TTTTTGCTTCCATATATTTTCTCTTATAAAATCTATCAAATCATTGTGATTTTTTTCATATGTTT TTTCTCCATATAATGATGATATATTGAAACAATTACAAAAAGCTTTATATTTTGTACTTAGCTGT ATATGTACTTCTAAACCTATTTTACACTTTACATTTTTATCGATATATGATACAGTGTTTTCTTC TATTTCTTTATTTCTTATATCACCAAAAAATACAGCATTTTTTCTCAATGCATATCCATGTTTTT TTACTTGACCCATTCCATCACAATAAAAGTTAAGATATTCATTTTTCCTTCCCTTTTTAAGTAAA CATGTATTTGTTGGAGTGAGCAAAATATTGTTGTTAGTGATATGGTTTATATTGAAGCAAGTAAT AAAAGAATGATATTGTATTATCAACATAAAAAAAGAGGTGAAAATTACATATCTGATCATTATAT GATAGAAATGTAAAACATGGCCCAACATACACAAGGGGAAAAATA Right flanking sequence: Indices 1188769 -- 1189268 CCCCTTTCGAAAAAAACCTTTCGTAGGGAAGTGTAAGAATATCTGGTTATTTCTTCATATTATGT TCCTTTAAATATATATTAATATATATTATTATATATATATATATATTTAAATTTTTTTTTTTTTT ATTTCCCCATATTTGTATAACTATAAATGTATATATATAAAATATATATATATATATTTTATTTT ATTTGTATTAGGTTGATTTATACTAAGATATTATATATTAGGAAGAAAAAAAAATAATAATAATC AAATATTTTATTATGCATATGTAATAATATATTATACATATGTACATTTGCTTATTTTTGTTTAC ACCTTTGAGGTTCTACAGAAAAATAAAATAAAATAAATAAAAATAGAATATTATACATATATATT ATATATATTATAAATATTTAAATATTATATATAATTTACATGTTATTTATATATTATTTTTTATG TAGATTAAAAAATTTTCTATTTTGTGTTTGGTTTTTCTTTTTTTT Found at i:1188849 original size:2 final size:2 Alignment explanation
Indices: 1188842--1188879 Score: 48 Period size: 2 Copynumber: 20.0 Consensus size: 2 1188832 GTTCCTTTAA ** 1188842 AT AT AT AT TA AT AT AT AT -T AT -T 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 1188880 TTAAATTTTT Statistics Matches: 30, Mismatches: 4, Indels: 4 0.79 0.11 0.11 Matches are distributed among these distances: 1 2 0.07 2 28 0.93 ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53 Consensus pattern (2 bp): AT Left flanking sequence: Indices 1188342 -- 1188841 ATACAGTGTTTTCTTCTATTTCTTTATTTCTTATATCACCAAAAAATACAGCATTTTTTCTCAAT GCATATCCATGTTTTTTTACTTGACCCATTCCATCACAATAAAAGTTAAGATATTCATTTTTCCT TCCCTTTTTAAGTAAACATGTATTTGTTGGAGTGAGCAAAATATTGTTGTTAGTGATATGGTTTA TATTGAAGCAAGTAATAAAAGAATGATATTGTATTATCAACATAAAAAAAGAGGTGAAAATTACA TATCTGATCATTATATGATAGAAATGTAAAACATGGCCCAACATACACAAGGGGAAAAATATATA TATATATATATATATATATATATATATATATTTATGTATGTATGTATGTATGTATATTTATTTTA TTTATTTATTTATTTATTTATTTTTTTTTTTTTTATTCCCCTTTCGAAAAAAACCTTTCGTAGGG AAGTGTAAGAATATCTGGTTATTTCTTCATATTATGTTCCTTTAA Right flanking sequence: Indices 1188880 -- 1189379 TTAAATTTTTTTTTTTTTTATTTCCCCATATTTGTATAACTATAAATGTATATATATAAAATATA TATATATATATTTTATTTTATTTGTATTAGGTTGATTTATACTAAGATATTATATATTAGGAAGA AAAAAAAATAATAATAATCAAATATTTTATTATGCATATGTAATAATATATTATACATATGTACA TTTGCTTATTTTTGTTTACACCTTTGAGGTTCTACAGAAAAATAAAATAAAATAAATAAAAATAG AATATTATACATATATATTATATATATTATAAATATTTAAATATTATATATAATTTACATGTTAT TTATATATTATTTTTTATGTAGATTAAAAAATTTTCTATTTTGTGTTTGGTTTTTCTTTTTTTTT TTTTCCTTAGATTCTTACATATTTTATATATATAATTATGACACATCCATAAAATATAAGATTGT ATAATAATTTATGTTACTGCTTAAAAATGACTAATAACACGTAAT Found at i:1188891 original size:1 final size:1 Alignment explanation
Indices: 1188885--1188902 Score: 29 Period size: 1 Copynumber: 18.0 Consensus size: 1 1188875 TATATTTAAA * 1188885 TTTTTTTTTTTTTTATTT 1 TTTTTTTTTTTTTTTTTT 1188903 CCCCATATTT Statistics Matches: 15, Mismatches: 2, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 1 15 1.00 ACGTcount: A:0.06, C:0.00, G:0.00, T:0.94 Consensus pattern (1 bp): T Left flanking sequence: Indices 1188385 -- 1188884 AAATACAGCATTTTTTCTCAATGCATATCCATGTTTTTTTACTTGACCCATTCCATCACAATAAA AGTTAAGATATTCATTTTTCCTTCCCTTTTTAAGTAAACATGTATTTGTTGGAGTGAGCAAAATA TTGTTGTTAGTGATATGGTTTATATTGAAGCAAGTAATAAAAGAATGATATTGTATTATCAACAT AAAAAAAGAGGTGAAAATTACATATCTGATCATTATATGATAGAAATGTAAAACATGGCCCAACA TACACAAGGGGAAAAATATATATATATATATATATATATATATATATATATATTTATGTATGTAT GTATGTATGTATATTTATTTTATTTATTTATTTATTTATTTATTTTTTTTTTTTTTATTCCCCTT TCGAAAAAAACCTTTCGTAGGGAAGTGTAAGAATATCTGGTTATTTCTTCATATTATGTTCCTTT AAATATATATTAATATATATTATTATATATATATATATATTTAAA Right flanking sequence: Indices 1188903 -- 1189402 CCCCATATTTGTATAACTATAAATGTATATATATAAAATATATATATATATATTTTATTTTATTT GTATTAGGTTGATTTATACTAAGATATTATATATTAGGAAGAAAAAAAAATAATAATAATCAAAT ATTTTATTATGCATATGTAATAATATATTATACATATGTACATTTGCTTATTTTTGTTTACACCT TTGAGGTTCTACAGAAAAATAAAATAAAATAAATAAAAATAGAATATTATACATATATATTATAT ATATTATAAATATTTAAATATTATATATAATTTACATGTTATTTATATATTATTTTTTATGTAGA TTAAAAAATTTTCTATTTTGTGTTTGGTTTTTCTTTTTTTTTTTTTCCTTAGATTCTTACATATT TTATATATATAATTATGACACATCCATAAAATATAAGATTGTATAATAATTTATGTTACTGCTTA AAAATGACTAATAACACGTAATAAAAAAATAAAATACATATGTTA Found at i:1188935 original size:2 final size:2 Alignment explanation
Indices: 1188920--1188955 Score: 44 Period size: 2 Copynumber: 18.5 Consensus size: 2 1188910 TTTGTATAAC * * * 1188920 TA TA AA TG TA TA TA TA TA -A AA TA TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 1188956 TTTATTTTAT Statistics Matches: 28, Mismatches: 5, Indels: 2 0.80 0.14 0.06 Matches are distributed among these distances: 1 1 0.04 2 27 0.96 ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44 Consensus pattern (2 bp): TA Left flanking sequence: Indices 1188420 -- 1188919 TTTTTACTTGACCCATTCCATCACAATAAAAGTTAAGATATTCATTTTTCCTTCCCTTTTTAAGT AAACATGTATTTGTTGGAGTGAGCAAAATATTGTTGTTAGTGATATGGTTTATATTGAAGCAAGT AATAAAAGAATGATATTGTATTATCAACATAAAAAAAGAGGTGAAAATTACATATCTGATCATTA TATGATAGAAATGTAAAACATGGCCCAACATACACAAGGGGAAAAATATATATATATATATATAT ATATATATATATATATATTTATGTATGTATGTATGTATGTATATTTATTTTATTTATTTATTTAT TTATTTATTTTTTTTTTTTTTATTCCCCTTTCGAAAAAAACCTTTCGTAGGGAAGTGTAAGAATA TCTGGTTATTTCTTCATATTATGTTCCTTTAAATATATATTAATATATATTATTATATATATATA TATATTTAAATTTTTTTTTTTTTTATTTCCCCATATTTGTATAAC Right flanking sequence: Indices 1188956 -- 1189455 TTTATTTTATTTGTATTAGGTTGATTTATACTAAGATATTATATATTAGGAAGAAAAAAAAATAA TAATAATCAAATATTTTATTATGCATATGTAATAATATATTATACATATGTACATTTGCTTATTT TTGTTTACACCTTTGAGGTTCTACAGAAAAATAAAATAAAATAAATAAAAATAGAATATTATACA TATATATTATATATATTATAAATATTTAAATATTATATATAATTTACATGTTATTTATATATTAT TTTTTATGTAGATTAAAAAATTTTCTATTTTGTGTTTGGTTTTTCTTTTTTTTTTTTTCCTTAGA TTCTTACATATTTTATATATATAATTATGACACATCCATAAAATATAAGATTGTATAATAATTTA TGTTACTGCTTAAAAATGACTAATAACACGTAATAAAAAAATAAAATACATATGTTAATATATAT GTATATATATATATATGTATATATTTTTTTTTTTTTTTTTTTTTA Found at i:1188972 original size:6 final size:5 Alignment explanation
Indices: 1188953--1188972 Score: 31 Period size: 5 Copynumber: 3.8 Consensus size: 5 1188943 TATATATATA 1188953 TATTT TATTT TATTT GTATT 1 TATTT TATTT TATTT -TATT 1188973 AGGTTGATTT Statistics Matches: 14, Mismatches: 0, Indels: 1 0.93 0.00 0.07 Matches are distributed among these distances: 5 10 0.71 6 4 0.29 ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75 Consensus pattern (5 bp): TATTT Left flanking sequence: Indices 1188453 -- 1188952 TAAGATATTCATTTTTCCTTCCCTTTTTAAGTAAACATGTATTTGTTGGAGTGAGCAAAATATTG TTGTTAGTGATATGGTTTATATTGAAGCAAGTAATAAAAGAATGATATTGTATTATCAACATAAA AAAAGAGGTGAAAATTACATATCTGATCATTATATGATAGAAATGTAAAACATGGCCCAACATAC ACAAGGGGAAAAATATATATATATATATATATATATATATATATATATATTTATGTATGTATGTA TGTATGTATATTTATTTTATTTATTTATTTATTTATTTATTTTTTTTTTTTTTATTCCCCTTTCG AAAAAAACCTTTCGTAGGGAAGTGTAAGAATATCTGGTTATTTCTTCATATTATGTTCCTTTAAA TATATATTAATATATATTATTATATATATATATATATTTAAATTTTTTTTTTTTTTATTTCCCCA TATTTGTATAACTATAAATGTATATATATAAAATATATATATATA Right flanking sequence: Indices 1188973 -- 1189472 AGGTTGATTTATACTAAGATATTATATATTAGGAAGAAAAAAAAATAATAATAATCAAATATTTT ATTATGCATATGTAATAATATATTATACATATGTACATTTGCTTATTTTTGTTTACACCTTTGAG GTTCTACAGAAAAATAAAATAAAATAAATAAAAATAGAATATTATACATATATATTATATATATT ATAAATATTTAAATATTATATATAATTTACATGTTATTTATATATTATTTTTTATGTAGATTAAA AAATTTTCTATTTTGTGTTTGGTTTTTCTTTTTTTTTTTTTCCTTAGATTCTTACATATTTTATA TATATAATTATGACACATCCATAAAATATAAGATTGTATAATAATTTATGTTACTGCTTAAAAAT GACTAATAACACGTAATAAAAAAATAAAATACATATGTTAATATATATGTATATATATATATATG TATATATTTTTTTTTTTTTTTTTTTTTATTTCTTTAAAAATATAA Found at i:1189133 original size:4 final size:5 Alignment explanation
Indices: 1189113--1189143 Score: 41 Period size: 5 Copynumber: 6.2 Consensus size: 5 1189103 GTTCTACAGA ** * 1189113 AAAAT AAAAT AAAAT AAATA AAAAT AGAAT A 1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A 1189144 TTATACATAT Statistics Matches: 21, Mismatches: 5, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 5 21 1.00 ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19 Consensus pattern (5 bp): AAAAT Left flanking sequence: Indices 1188613 -- 1189112 TATATGATAGAAATGTAAAACATGGCCCAACATACACAAGGGGAAAAATATATATATATATATAT ATATATATATATATATATATTTATGTATGTATGTATGTATGTATATTTATTTTATTTATTTATTT ATTTATTTATTTTTTTTTTTTTTATTCCCCTTTCGAAAAAAACCTTTCGTAGGGAAGTGTAAGAA TATCTGGTTATTTCTTCATATTATGTTCCTTTAAATATATATTAATATATATTATTATATATATA TATATATTTAAATTTTTTTTTTTTTTATTTCCCCATATTTGTATAACTATAAATGTATATATATA AAATATATATATATATATTTTATTTTATTTGTATTAGGTTGATTTATACTAAGATATTATATATT AGGAAGAAAAAAAAATAATAATAATCAAATATTTTATTATGCATATGTAATAATATATTATACAT ATGTACATTTGCTTATTTTTGTTTACACCTTTGAGGTTCTACAGA Right flanking sequence: Indices 1189144 -- 1189643 TTATACATATATATTATATATATTATAAATATTTAAATATTATATATAATTTACATGTTATTTAT ATATTATTTTTTATGTAGATTAAAAAATTTTCTATTTTGTGTTTGGTTTTTCTTTTTTTTTTTTT CCTTAGATTCTTACATATTTTATATATATAATTATGACACATCCATAAAATATAAGATTGTATAA TAATTTATGTTACTGCTTAAAAATGACTAATAACACGTAATAAAAAAATAAAATACATATGTTAA TATATATGTATATATATATATATGTATATATTTTTTTTTTTTTTTTTTTTTATTTCTTTAAAAAT ATAAATGTTGATAAGGGGAAGGAATATAATTACTCATTTTCATTTTAATTTGCCGATTTTTTTTC ATATAAGATATAAATGCAATTTGAACATTAAGAAGACGCATAACCATTTTTTAAAAAACTTATGT AACAAAAATGTTATAAATAATATGGATTGCTTAAATTTAATTGAG Found at i:1189157 original size:2 final size:2 Alignment explanation
Indices: 1189141--1189191 Score: 46 Period size: 2 Copynumber: 27.5 Consensus size: 2 1189131 TAAAAATAGA * * * * 1189141 AT AT -T AT AC AT AT AT AT -T AT AT AT AT -T AT AA AT AT TT AA 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1189180 AT AT -T AT AT AT A 1 AT AT AT AT AT AT A 1189192 ATTTACATGT Statistics Matches: 37, Mismatches: 8, Indels: 8 0.70 0.15 0.15 Matches are distributed among these distances: 1 4 0.11 2 33 0.89 ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49 Consensus pattern (2 bp): AT Left flanking sequence: Indices 1188641 -- 1189140 AACATACACAAGGGGAAAAATATATATATATATATATATATATATATATATATATATTTATGTAT GTATGTATGTATGTATATTTATTTTATTTATTTATTTATTTATTTATTTTTTTTTTTTTTATTCC CCTTTCGAAAAAAACCTTTCGTAGGGAAGTGTAAGAATATCTGGTTATTTCTTCATATTATGTTC CTTTAAATATATATTAATATATATTATTATATATATATATATATTTAAATTTTTTTTTTTTTTAT TTCCCCATATTTGTATAACTATAAATGTATATATATAAAATATATATATATATATTTTATTTTAT TTGTATTAGGTTGATTTATACTAAGATATTATATATTAGGAAGAAAAAAAAATAATAATAATCAA ATATTTTATTATGCATATGTAATAATATATTATACATATGTACATTTGCTTATTTTTGTTTACAC CTTTGAGGTTCTACAGAAAAATAAAATAAAATAAATAAAAATAGA Right flanking sequence: Indices 1189192 -- 1189691 ATTTACATGTTATTTATATATTATTTTTTATGTAGATTAAAAAATTTTCTATTTTGTGTTTGGTT TTTCTTTTTTTTTTTTTCCTTAGATTCTTACATATTTTATATATATAATTATGACACATCCATAA AATATAAGATTGTATAATAATTTATGTTACTGCTTAAAAATGACTAATAACACGTAATAAAAAAA TAAAATACATATGTTAATATATATGTATATATATATATATGTATATATTTTTTTTTTTTTTTTTT TTTATTTCTTTAAAAATATAAATGTTGATAAGGGGAAGGAATATAATTACTCATTTTCATTTTAA TTTGCCGATTTTTTTTCATATAAGATATAAATGCAATTTGAACATTAAGAAGACGCATAACCATT TTTTAAAAAACTTATGTAACAAAAATGTTATAAATAATATGGATTGCTTAAATTTAATTGAGAAC ATGAAATATGTAGATGAGAATAATGTAAGTAAAGATATAATTTTT Found at i:1189265 original size:1 final size:1 Alignment explanation
Indices: 1189255--1189273 Score: 31 Period size: 1 Copynumber: 19.0 Consensus size: 1 1189245 TTGTGTTTGG * 1189255 TTTTTCTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTT 1189274 CCTTAGATTC Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 1 16 1.00 ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95 Consensus pattern (1 bp): T Left flanking sequence: Indices 1188755 -- 1189254 TTTTTTTTTTTATTCCCCTTTCGAAAAAAACCTTTCGTAGGGAAGTGTAAGAATATCTGGTTATT TCTTCATATTATGTTCCTTTAAATATATATTAATATATATTATTATATATATATATATATTTAAA TTTTTTTTTTTTTTATTTCCCCATATTTGTATAACTATAAATGTATATATATAAAATATATATAT ATATATTTTATTTTATTTGTATTAGGTTGATTTATACTAAGATATTATATATTAGGAAGAAAAAA AAATAATAATAATCAAATATTTTATTATGCATATGTAATAATATATTATACATATGTACATTTGC TTATTTTTGTTTACACCTTTGAGGTTCTACAGAAAAATAAAATAAAATAAATAAAAATAGAATAT TATACATATATATTATATATATTATAAATATTTAAATATTATATATAATTTACATGTTATTTATA TATTATTTTTTATGTAGATTAAAAAATTTTCTATTTTGTGTTTGG Right flanking sequence: Indices 1189274 -- 1189773 CCTTAGATTCTTACATATTTTATATATATAATTATGACACATCCATAAAATATAAGATTGTATAA TAATTTATGTTACTGCTTAAAAATGACTAATAACACGTAATAAAAAAATAAAATACATATGTTAA TATATATGTATATATATATATATGTATATATTTTTTTTTTTTTTTTTTTTTATTTCTTTAAAAAT ATAAATGTTGATAAGGGGAAGGAATATAATTACTCATTTTCATTTTAATTTGCCGATTTTTTTTC ATATAAGATATAAATGCAATTTGAACATTAAGAAGACGCATAACCATTTTTTAAAAAACTTATGT AACAAAAATGTTATAAATAATATGGATTGCTTAAATTTAATTGAGAACATGAAATATGTAGATGA GAATAATGTAAGTAAAGATATAATTTTTCGTTATATAGAAAAATTGAAATGTGTGAATGATATAT GGAATGTAAATAAGATATATGTTATTTTTAAGACATTAATAAAAT Found at i:1189410 original size:2 final size:2 Alignment explanation
Indices: 1189403--1189434 Score: 50 Period size: 2 Copynumber: 16.0 Consensus size: 2 1189393 ACATATGTTA * * 1189403 AT AT AT AT GT AT AT AT AT AT AT AT GT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 1189435 TTTTTTTTTT Statistics Matches: 26, Mismatches: 4, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 2 26 1.00 ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50 Consensus pattern (2 bp): AT Left flanking sequence: Indices 1188903 -- 1189402 CCCCATATTTGTATAACTATAAATGTATATATATAAAATATATATATATATATTTTATTTTATTT GTATTAGGTTGATTTATACTAAGATATTATATATTAGGAAGAAAAAAAAATAATAATAATCAAAT ATTTTATTATGCATATGTAATAATATATTATACATATGTACATTTGCTTATTTTTGTTTACACCT TTGAGGTTCTACAGAAAAATAAAATAAAATAAATAAAAATAGAATATTATACATATATATTATAT ATATTATAAATATTTAAATATTATATATAATTTACATGTTATTTATATATTATTTTTTATGTAGA TTAAAAAATTTTCTATTTTGTGTTTGGTTTTTCTTTTTTTTTTTTTCCTTAGATTCTTACATATT TTATATATATAATTATGACACATCCATAAAATATAAGATTGTATAATAATTTATGTTACTGCTTA AAAATGACTAATAACACGTAATAAAAAAATAAAATACATATGTTA Right flanking sequence: Indices 1189435 -- 1189934 TTTTTTTTTTTTTTTTTTTTATTTCTTTAAAAATATAAATGTTGATAAGGGGAAGGAATATAATT ACTCATTTTCATTTTAATTTGCCGATTTTTTTTCATATAAGATATAAATGCAATTTGAACATTAA GAAGACGCATAACCATTTTTTAAAAAACTTATGTAACAAAAATGTTATAAATAATATGGATTGCT TAAATTTAATTGAGAACATGAAATATGTAGATGAGAATAATGTAAGTAAAGATATAATTTTTCGT TATATAGAAAAATTGAAATGTGTGAATGATATATGGAATGTAAATAAGATATATGTTATTTTTAA GACATTAATAAAATATAATATATATGATATGATATTATTAAAGAAGATAGAAAATAATATTATTA ATATAAATATAGTAGATGATATAAAAAAGGATTATTATGAAAATATTTATATTATAAGAATATCT TATGTATTATATGCATTTTATTATTTTTTAAATGAAAATATTAAT Found at