TRAP (Tandem Repeats Analysis Program) TRF Version 4.00 Sequence: 97739973 P. falciparum 3D7 GENOMIC pfal_chr2 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: 947102 ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40 Found at i: i:165582 original size:18 final size:16 Alignment explanation
Indices: 165555--165644 Score: 123 Period size: 16 Copynumber: 5.4 Consensus size: 16 165545 ATTCATTAGG * 165555 AAATAAAAGAAAAACGAA 1 AAAAAAAAGAAAAA--AA 165573 AAAAAAAAGAAAAATGAA 1 AAAAAAAAGAAAAA--AA * 165591 AAAAATAAGAAAAAAA 1 AAAAAAAAGAAAAAAA * 165607 AAAAATAAGAAAAAAA 1 AAAAAAAAGAAAAAAA 165623 AAAAAAAAGAAAAAAA 1 AAAAAAAAGAAAAAAA 165639 AAAAAA 1 AAAAAA 165645 GTAAAACTAG Statistics Matches: 68, Mismatches: 4, Indels: 2 0.92 0.05 0.03 Matches are distributed among these distances: 16 39 0.57 18 29 0.43 ACGTcount: A:0.87, C:0.01, G:0.08, T:0.04 Consensus pattern (16 bp): AAAAAAAAGAAAAAAA Left flanking sequence: Indices 165055 -- 165554 ACAAATGTATTTAAATATATATTTTATATTCATATATTAGGATATACTCACTCTTGTAATTTATT ATATTTTATTTTTCTCTCATTTTTTCTGAAGGTTTTATAATAATATATAAAGATGTATGTATATA ATATATATATATATATATATATATATATATATATATACTACTATCTATTCAGAAAATATATAATT TAAAAAAAAAAAAAAAAAAATTAATAATAATAATATGTGTATAATGTAAAAAAAGGTAATATACC CTCATGAAAAGGAATTCCTAAAAGAATACAAAATATATAAATATATAAATATATATATATATATA TATATATATTAACTTACCTTTTTATAATATACACATTACAAATATATTATAACATATATATAAAT AAATATATATTTTTATATATTCATATATATATAATACTTATATATTTATATGCCATATTGCACTA TGATGAAATATCATTACACCCTCCTTTCCTTTTCGATTCATTAGG Right flanking sequence: Indices 165645 -- 166144 GTAAAACTAGATCATCCCATATATAAATATATTTTATAAATAACTTTGGAATGCACATTTAAGGA TATTTTTATACTTTTTTTTTTTTTTTTTTTTTTTTTCTTATCTTATTTTTTCATATCTTATCTTA TTTTTTCTTATCTTATCCTTTTTTTTCTTATCTTATCCTTTTTTTTTCTTATCTTATCTTATTTT TTCTTATCTTATCCTTTTTTTTTCTTATCTTATTTCTTCTTCTTCTTTTTTTTTTTTTTTTTTTT TTTTTAATATTACCTGTGGATGATATGTGCTCGTCTTTTTCTTCTGCCTTAGATGACCAGGAGAA AGAATAAAAAAAATTGGAAAGTTAATATATATGTATTTATTTATATAAGTGTATTATATGTGTAT ATTAGTACATTCGTATGTTCATACGCAACCACCCCTACAACATATATATATATATACATATATAT ATATATTTTTTTTTTATTTTTTTTTTTTTCTGTGAGTTAACCCAA Found at i:165800 original size:41 final size:41 Alignment explanation
Indices: 165732--165872 Score: 233 Period size: 41 Copynumber: 3.5 Consensus size: 41 165722 TTTTTTTTTT * * * 165732 TTTTTTTTTTTTTTCTTATCTTATTTTTTCATATCTTAT-C 1 TTTTTTTTTCTTATCTTATCTTATTTTTTCTTATCTTATCC * * * 165772 TTATTTTTTCTTATCTTATCCTTTTTTTTCTTATCTTATCC 1 TTTTTTTTTCTTATCTTATCTTATTTTTTCTTATCTTATCC 165813 TTTTTTTTTCTTATCTTATCTTATTTTTTCTTATCTTATCC 1 TTTTTTTTTCTTATCTTATCTTATTTTTTCTTATCTTATCC 165854 TTTTTTTTTCTTATCTTAT 1 TTTTTTTTTCTTATCTTAT 165873 TTCTTCTTCT Statistics Matches: 91, Mismatches: 9, Indels: 1 0.90 0.09 0.01 Matches are distributed among these distances: 40 33 0.36 41 58 0.64 ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72 Consensus pattern (41 bp): TTTTTTTTTCTTATCTTATCTTATTTTTTCTTATCTTATCC Left flanking sequence: Indices 165232 -- 165731 TTCAGAAAATATATAATTTAAAAAAAAAAAAAAAAAAATTAATAATAATAATATGTGTATAATGT AAAAAAAGGTAATATACCCTCATGAAAAGGAATTCCTAAAAGAATACAAAATATATAAATATATA AATATATATATATATATATATATATATTAACTTACCTTTTTATAATATACACATTACAAATATAT TATAACATATATATAAATAAATATATATTTTTATATATTCATATATATATAATACTTATATATTT ATATGCCATATTGCACTATGATGAAATATCATTACACCCTCCTTTCCTTTTCGATTCATTAGGAA ATAAAAGAAAAACGAAAAAAAAAAGAAAAATGAAAAAAATAAGAAAAAAAAAAAATAAGAAAAAA AAAAAAAAAGAAAAAAAAAAAAAGTAAAACTAGATCATCCCATATATAAATATATTTTATAAATA ACTTTGGAATGCACATTTAAGGATATTTTTATACTTTTTTTTTTT Right flanking sequence: Indices 165873 -- 166372 TTCTTCTTCTTCTTTTTTTTTTTTTTTTTTTTTTTTTAATATTACCTGTGGATGATATGTGCTCG TCTTTTTCTTCTGCCTTAGATGACCAGGAGAAAGAATAAAAAAAATTGGAAAGTTAATATATATG TATTTATTTATATAAGTGTATTATATGTGTATATTAGTACATTCGTATGTTCATACGCAACCACC CCTACAACATATATATATATATACATATATATATATATTTTTTTTTTATTTTTTTTTTTTTCTGT GAGTTAACCCAATGAGTCTTTATATGAATATTTTTGAACAAATCGAAATTATTTTAGAAAAATGT AATAATGAAACGTTTATAAAGATTAACACATTAATTGATCATATTATTAGAAATTATGCGAATGA AAATATGAAAGAAATCCATGAGAGAAAAAAAGGAAATGATAATAATAATAAAAAGAAGAAGAAAA AGAAAAAAGAAAATAACACAAATACCATACGTAATTATTTTAATT Found at i:166119 original size:11 final size:11 Alignment explanation
Indices: 166103--166125 Score: 46 Period size: 11 Copynumber: 2.1 Consensus size: 11 166093 TATATATATA 166103 TATTTTTTTTT 1 TATTTTTTTTT 166114 TATTTTTTTTT 1 TATTTTTTTTT 166125 T 1 T 166126 TTTCTGTGAG Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 11 12 1.00 ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91 Consensus pattern (11 bp): TATTTTTTTTT Left flanking sequence: Indices 165603 -- 166102 AAAAAAAAATAAGAAAAAAAAAAAAAAAGAAAAAAAAAAAAAGTAAAACTAGATCATCCCATATA TAAATATATTTTATAAATAACTTTGGAATGCACATTTAAGGATATTTTTATACTTTTTTTTTTTT TTTTTTTTTTTTTCTTATCTTATTTTTTCATATCTTATCTTATTTTTTCTTATCTTATCCTTTTT TTTCTTATCTTATCCTTTTTTTTTCTTATCTTATCTTATTTTTTCTTATCTTATCCTTTTTTTTT CTTATCTTATTTCTTCTTCTTCTTTTTTTTTTTTTTTTTTTTTTTTTAATATTACCTGTGGATGA TATGTGCTCGTCTTTTTCTTCTGCCTTAGATGACCAGGAGAAAGAATAAAAAAAATTGGAAAGTT AATATATATGTATTTATTTATATAAGTGTATTATATGTGTATATTAGTACATTCGTATGTTCATA CGCAACCACCCCTACAACATATATATATATATACATATATATATA Right flanking sequence: Indices 166126 -- 166625 TTTCTGTGAGTTAACCCAATGAGTCTTTATATGAATATTTTTGAACAAATCGAAATTATTTTAGA AAAATGTAATAATGAAACGTTTATAAAGATTAACACATTAATTGATCATATTATTAGAAATTATG CGAATGAAAATATGAAAGAAATCCATGAGAGAAAAAAAGGAAATGATAATAATAATAAAAAGAAG AAGAAAAAGAAAAAAGAAAATAACACAAATACCATACGTAATTATTTTAATTTGGTCGATAAAGA AAATAATTTAAAAAATAATAATAATAATGATGATGGTGTAACAAATGTAATGGAGCAAGATAAAA ATAAAGATTGTTTATTATCATTAACAATTAAAAATAATAATAATAATAAGACCATAATTAATATG TTTTTTTTCTTTGGACATTTTAATATTATGATTATTATATATTATGTTATATATAAATTAAAAAT GTTTGATAAGGATTTATTTATACATGAAAAAAATTCAAACATTCA Found at i:166123 original size:13 final size:13 Alignment explanation
Indices: 166101--166127 Score: 47 Period size: 13 Copynumber: 2.1 Consensus size: 13 166091 CATATATATA 166101 TATATTTTTTTTT 1 TATATTTTTTTTT * 166114 TATTTTTTTTTTT 1 TATATTTTTTTTT 166127 T 1 T 166128 TCTGTGAGTT Statistics Matches: 13, Mismatches: 1, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 13 13 1.00 ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89 Consensus pattern (13 bp): TATATTTTTTTTT Left flanking sequence: Indices 165601 -- 166100 AAAAAAAAAAATAAGAAAAAAAAAAAAAAAGAAAAAAAAAAAAAGTAAAACTAGATCATCCCATA TATAAATATATTTTATAAATAACTTTGGAATGCACATTTAAGGATATTTTTATACTTTTTTTTTT TTTTTTTTTTTTTTTCTTATCTTATTTTTTCATATCTTATCTTATTTTTTCTTATCTTATCCTTT TTTTTCTTATCTTATCCTTTTTTTTTCTTATCTTATCTTATTTTTTCTTATCTTATCCTTTTTTT TTCTTATCTTATTTCTTCTTCTTCTTTTTTTTTTTTTTTTTTTTTTTTTAATATTACCTGTGGAT GATATGTGCTCGTCTTTTTCTTCTGCCTTAGATGACCAGGAGAAAGAATAAAAAAAATTGGAAAG TTAATATATATGTATTTATTTATATAAGTGTATTATATGTGTATATTAGTACATTCGTATGTTCA TACGCAACCACCCCTACAACATATATATATATATACATATATATA Right flanking sequence: Indices 166128 -- 166627 TCTGTGAGTTAACCCAATGAGTCTTTATATGAATATTTTTGAACAAATCGAAATTATTTTAGAAA AATGTAATAATGAAACGTTTATAAAGATTAACACATTAATTGATCATATTATTAGAAATTATGCG AATGAAAATATGAAAGAAATCCATGAGAGAAAAAAAGGAAATGATAATAATAATAAAAAGAAGAA GAAAAAGAAAAAAGAAAATAACACAAATACCATACGTAATTATTTTAATTTGGTCGATAAAGAAA ATAATTTAAAAAATAATAATAATAATGATGATGGTGTAACAAATGTAATGGAGCAAGATAAAAAT AAAGATTGTTTATTATCATTAACAATTAAAAATAATAATAATAATAAGACCATAATTAATATGTT TTTTTTCTTTGGACATTTTAATATTATGATTATTATATATTATGTTATATATAAATTAAAAATGT TTGATAAGGATTTATTTATACATGAAAAAAATTCAAACATTCATA Found at i:166329 original size:12 final size:13 Alignment explanation
Indices: 166312--166340 Score: 44 Period size: 13 Copynumber: 2.3 Consensus size: 13 166302 TAATAATAAT * 166312 AAAAAG-AAGAAG 1 AAAAAGAAAAAAG 166324 AAAAAGAAAAAAG 1 AAAAAGAAAAAAG 166337 AAAA 1 AAAA 166341 TAACACAAAT Statistics Matches: 15, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 12 6 0.40 13 9 0.60 ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00 Consensus pattern (13 bp): AAAAAGAAAAAAG Left flanking sequence: Indices 165812 -- 166311 CTTTTTTTTTCTTATCTTATCTTATTTTTTCTTATCTTATCCTTTTTTTTTCTTATCTTATTTCT TCTTCTTCTTTTTTTTTTTTTTTTTTTTTTTTTAATATTACCTGTGGATGATATGTGCTCGTCTT TTTCTTCTGCCTTAGATGACCAGGAGAAAGAATAAAAAAAATTGGAAAGTTAATATATATGTATT TATTTATATAAGTGTATTATATGTGTATATTAGTACATTCGTATGTTCATACGCAACCACCCCTA CAACATATATATATATATACATATATATATATATTTTTTTTTTATTTTTTTTTTTTTCTGTGAGT TAACCCAATGAGTCTTTATATGAATATTTTTGAACAAATCGAAATTATTTTAGAAAAATGTAATA ATGAAACGTTTATAAAGATTAACACATTAATTGATCATATTATTAGAAATTATGCGAATGAAAAT ATGAAAGAAATCCATGAGAGAAAAAAAGGAAATGATAATAATAAT Right flanking sequence: Indices 166341 -- 166840 TAACACAAATACCATACGTAATTATTTTAATTTGGTCGATAAAGAAAATAATTTAAAAAATAATA ATAATAATGATGATGGTGTAACAAATGTAATGGAGCAAGATAAAAATAAAGATTGTTTATTATCA TTAACAATTAAAAATAATAATAATAATAAGACCATAATTAATATGTTTTTTTTCTTTGGACATTT TAATATTATGATTATTATATATTATGTTATATATAAATTAAAAATGTTTGATAAGGATTTATTTA TACATGAAAAAAATTCAAACATTCATACAAATCAAAGTTATACAGCCGATAGTATAAGTGATGAT CTAAATAAAGTAGGCTCAGATAATAATAGAAATAAAAATATTATTATGAGGCATACTAATATAAA TAATAAAGAACATTATCTTCAAAAAAAATATAATATACAAGATGACGAAGAAGAAGATAATGAAA CCATAAGAAGCGACAGCAAATTAAGAGACATATATAGTGATAGTC Found at i:166568 original size:14 final size:16 Alignment explanation
Indices: 166538--166575 Score: 53 Period size: 16 Copynumber: 2.4 Consensus size: 16 166528 GGACATTTTA 166538 ATATTATGATTATTAT 1 ATATTATGATTATTAT 166554 ATATTATG-TTATATAT 1 ATATTATGATTAT-TAT * 166570 AAATTA 1 ATATTA 166576 AAAATGTTTG Statistics Matches: 20, Mismatches: 1, Indels: 2 0.87 0.04 0.09 Matches are distributed among these distances: 15 4 0.20 16 16 0.80 ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53 Consensus pattern (16 bp): ATATTATGATTATTAT Left flanking sequence: Indices 166038 -- 166537 AGTACATTCGTATGTTCATACGCAACCACCCCTACAACATATATATATATATACATATATATATA TATTTTTTTTTTATTTTTTTTTTTTTCTGTGAGTTAACCCAATGAGTCTTTATATGAATATTTTT GAACAAATCGAAATTATTTTAGAAAAATGTAATAATGAAACGTTTATAAAGATTAACACATTAAT TGATCATATTATTAGAAATTATGCGAATGAAAATATGAAAGAAATCCATGAGAGAAAAAAAGGAA ATGATAATAATAATAAAAAGAAGAAGAAAAAGAAAAAAGAAAATAACACAAATACCATACGTAAT TATTTTAATTTGGTCGATAAAGAAAATAATTTAAAAAATAATAATAATAATGATGATGGTGTAAC AAATGTAATGGAGCAAGATAAAAATAAAGATTGTTTATTATCATTAACAATTAAAAATAATAATA ATAATAAGACCATAATTAATATGTTTTTTTTCTTTGGACATTTTA Right flanking sequence: Indices 166576 -- 167075 AAAATGTTTGATAAGGATTTATTTATACATGAAAAAAATTCAAACATTCATACAAATCAAAGTTA TACAGCCGATAGTATAAGTGATGATCTAAATAAAGTAGGCTCAGATAATAATAGAAATAAAAATA TTATTATGAGGCATACTAATATAAATAATAAAGAACATTATCTTCAAAAAAAATATAATATACAA GATGACGAAGAAGAAGATAATGAAACCATAAGAAGCGACAGCAAATTAAGAGACATATATAGTGA TAGTCAAAGTAAAGATATTATGATGAGTTCAAGTCCAAACAAAGAAGAAGAAAGTATGAGTAGTG ATAATCATAATAAAGATATTAATAGTAGTGATAATCAAAATAAAGATATTAATAGTAGTGATCAT AATATGAATGATAGTACTAATGAAAGTACAACAACAAGTTTAAGTACAAGTATAAATAACACAAA TAGGAATAAGAAGAATAGAAAAAAAAATAATATTAACATTAATAA Found at i:166929 original size:30 final size:30 Alignment explanation
Indices: 166894--166969 Score: 131 Period size: 30 Copynumber: 2.5 Consensus size: 30 166884 AGAAAGTATG 166894 AGTAGTGATAATCATAATAAAGATATTAAT 1 AGTAGTGATAATCATAATAAAGATATTAAT * 166924 AGTAGTGATAATCAAAATAAAGATATTAAT 1 AGTAGTGATAATCATAATAAAGATATTAAT * * 166954 AGTAGTGATCATAATA 1 AGTAGTGATAATCATA 166970 TGAATGATAG Statistics Matches: 42, Mismatches: 4, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 30 42 1.00 ACGTcount: A:0.50, C:0.04, G:0.14, T:0.32 Consensus pattern (30 bp): AGTAGTGATAATCATAATAAAGATATTAAT Left flanking sequence: Indices 166394 -- 166893 TAAAAAATAATAATAATAATGATGATGGTGTAACAAATGTAATGGAGCAAGATAAAAATAAAGAT TGTTTATTATCATTAACAATTAAAAATAATAATAATAATAAGACCATAATTAATATGTTTTTTTT CTTTGGACATTTTAATATTATGATTATTATATATTATGTTATATATAAATTAAAAATGTTTGATA AGGATTTATTTATACATGAAAAAAATTCAAACATTCATACAAATCAAAGTTATACAGCCGATAGT ATAAGTGATGATCTAAATAAAGTAGGCTCAGATAATAATAGAAATAAAAATATTATTATGAGGCA TACTAATATAAATAATAAAGAACATTATCTTCAAAAAAAATATAATATACAAGATGACGAAGAAG AAGATAATGAAACCATAAGAAGCGACAGCAAATTAAGAGACATATATAGTGATAGTCAAAGTAAA GATATTATGATGAGTTCAAGTCCAAACAAAGAAGAAGAAAGTATG Right flanking sequence: Indices 166970 -- 167469 TGAATGATAGTACTAATGAAAGTACAACAACAAGTTTAAGTACAAGTATAAATAACACAAATAGG AATAAGAAGAATAGAAAAAAAAATAATATTAACATTAATAATAATAATAATAATAGTAATAATAT TAATAGTAGTAGTAATAATAATAGTGGGGTATATCATTATCTTCCTAGTCAAAAATATAATAATA AATATAATACATACAATAATAAAGATCATATTATTTATCACAATAAATGTATTACACATATATTA TGTTCACAATTAATGTATCTAGATATGAATTCATTCAATCAAGCTATACAAGATATTGTTAAAAC AAATAAATACAAATTATTAAGAATTATTATTCTTGAAGCTTTTGATAGTCTAAATGAATATTATA GAAAAAATTTTTTGAATAAGTTAAAAAAATGTAATGTACTTATTTTTATACACAGTACTCATGCC TTAAATGATACCTTCCTACATAATTGTTTATATATACGTATACCC Found at i:167169 original size:12 final size:12 Alignment explanation
Indices: 167152--167186 Score: 47 Period size: 12 Copynumber: 2.9 Consensus size: 12 167142 TCCTAGTCAA 167152 AAATATAATAAT 1 AAATATAATAAT 167164 AAATATAATACAT 1 AAATATAATA-AT * 167177 ACA-ATAATAA 1 AAATATAATAA 167187 AGATCATATT Statistics Matches: 21, Mismatches: 1, Indels: 3 0.84 0.04 0.12 Matches are distributed among these distances: 11 1 0.05 12 16 0.76 13 4 0.19 ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29 Consensus pattern (12 bp): AAATATAATAAT Left flanking sequence: Indices 166652 -- 167151 GTATAAGTGATGATCTAAATAAAGTAGGCTCAGATAATAATAGAAATAAAAATATTATTATGAGG CATACTAATATAAATAATAAAGAACATTATCTTCAAAAAAAATATAATATACAAGATGACGAAGA AGAAGATAATGAAACCATAAGAAGCGACAGCAAATTAAGAGACATATATAGTGATAGTCAAAGTA AAGATATTATGATGAGTTCAAGTCCAAACAAAGAAGAAGAAAGTATGAGTAGTGATAATCATAAT AAAGATATTAATAGTAGTGATAATCAAAATAAAGATATTAATAGTAGTGATCATAATATGAATGA TAGTACTAATGAAAGTACAACAACAAGTTTAAGTACAAGTATAAATAACACAAATAGGAATAAGA AGAATAGAAAAAAAAATAATATTAACATTAATAATAATAATAATAATAGTAATAATATTAATAGT AGTAGTAATAATAATAGTGGGGTATATCATTATCTTCCTAGTCAA Right flanking sequence: Indices 167187 -- 167686 AGATCATATTATTTATCACAATAAATGTATTACACATATATTATGTTCACAATTAATGTATCTAG ATATGAATTCATTCAATCAAGCTATACAAGATATTGTTAAAACAAATAAATACAAATTATTAAGA ATTATTATTCTTGAAGCTTTTGATAGTCTAAATGAATATTATAGAAAAAATTTTTTGAATAAGTT AAAAAAATGTAATGTACTTATTTTTATACACAGTACTCATGCCTTAAATGATACCTTCCTACATA ATTGTTTATATATACGTATACCCAAACCAGATAAAATATTATTTAATAATCATATATTAGACTTT CTAAAAACAAATTATAAAATCAATAATCTTAATAATCAAAAAAAACAATATATTATTAATGTTTT AAATTATTGTAATTTTGATATACCACTTATATTAGCATTATTATATATAATACAACTACATAAAT TTCCAGATATCAAAAAAATTATTAAACTAATCATTAATTCAAATA Found at i:167184 original size:21 final size:21 Alignment explanation
Indices: 167154--167194 Score: 61 Period size: 21 Copynumber: 2.0 Consensus size: 21 167144 CTAGTCAAAA * * 167154 ATATAATAATAAATATAATAC 1 ATACAATAATAAAGATAATAC * 167175 ATACAATAATAAAGATCATA 1 ATACAATAATAAAGATAATA 167195 TTATTTATCA Statistics Matches: 17, Mismatches: 3, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 21 17 1.00 ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29 Consensus pattern (21 bp): ATACAATAATAAAGATAATAC Left flanking sequence: Indices 166654 -- 167153 ATAAGTGATGATCTAAATAAAGTAGGCTCAGATAATAATAGAAATAAAAATATTATTATGAGGCA TACTAATATAAATAATAAAGAACATTATCTTCAAAAAAAATATAATATACAAGATGACGAAGAAG AAGATAATGAAACCATAAGAAGCGACAGCAAATTAAGAGACATATATAGTGATAGTCAAAGTAAA GATATTATGATGAGTTCAAGTCCAAACAAAGAAGAAGAAAGTATGAGTAGTGATAATCATAATAA AGATATTAATAGTAGTGATAATCAAAATAAAGATATTAATAGTAGTGATCATAATATGAATGATA GTACTAATGAAAGTACAACAACAAGTTTAAGTACAAGTATAAATAACACAAATAGGAATAAGAAG AATAGAAAAAAAAATAATATTAACATTAATAATAATAATAATAATAGTAATAATATTAATAGTAG TAGTAATAATAATAGTGGGGTATATCATTATCTTCCTAGTCAAAA Right flanking sequence: Indices 167195 -- 167694 TTATTTATCACAATAAATGTATTACACATATATTATGTTCACAATTAATGTATCTAGATATGAAT TCATTCAATCAAGCTATACAAGATATTGTTAAAACAAATAAATACAAATTATTAAGAATTATTAT TCTTGAAGCTTTTGATAGTCTAAATGAATATTATAGAAAAAATTTTTTGAATAAGTTAAAAAAAT GTAATGTACTTATTTTTATACACAGTACTCATGCCTTAAATGATACCTTCCTACATAATTGTTTA TATATACGTATACCCAAACCAGATAAAATATTATTTAATAATCATATATTAGACTTTCTAAAAAC AAATTATAAAATCAATAATCTTAATAATCAAAAAAAACAATATATTATTAATGTTTTAAATTATT GTAATTTTGATATACCACTTATATTAGCATTATTATATATAATACAACTACATAAATTTCCAGAT ATCAAAAAAATTATTAAACTAATCATTAATTCAAATATTAAAAAA Found at i:167773 original size:12 final size:12 Alignment explanation
Indices: 167752--167782 Score: 46 Period size: 12 Copynumber: 2.5 Consensus size: 12 167742 TGTTATTAGA 167752 AATATATTATAT 1 AATATATTATAT * 167764 AATATCTTATAT 1 AATATATTATAT 167776 ACATATA 1 A-ATATA 167783 ATTTTCATCT Statistics Matches: 16, Mismatches: 2, Indels: 1 0.84 0.11 0.05 Matches are distributed among these distances: 12 12 0.75 13 4 0.25 ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45 Consensus pattern (12 bp): AATATATTATAT Left flanking sequence: Indices 167252 -- 167751 ATATGAATTCATTCAATCAAGCTATACAAGATATTGTTAAAACAAATAAATACAAATTATTAAGA ATTATTATTCTTGAAGCTTTTGATAGTCTAAATGAATATTATAGAAAAAATTTTTTGAATAAGTT AAAAAAATGTAATGTACTTATTTTTATACACAGTACTCATGCCTTAAATGATACCTTCCTACATA ATTGTTTATATATACGTATACCCAAACCAGATAAAATATTATTTAATAATCATATATTAGACTTT CTAAAAACAAATTATAAAATCAATAATCTTAATAATCAAAAAAAACAATATATTATTAATGTTTT AAATTATTGTAATTTTGATATACCACTTATATTAGCATTATTATATATAATACAACTACATAAAT TTCCAGATATCAAAAAAATTATTAAACTAATCATTAATTCAAATATTAAAAAATTAATAAATGTA ATACATAAATGTATCATATCAAATAATTCTTTTTTTGTTATTAGA Right flanking sequence: Indices 167783 -- 168282 ATTTTCATCTACATAATTTCCTAAATACATTCTGTAAAGAACTAGCAGCATATCATAAAAATGAT AATAATTATAAAAAAGATTTATATGCTCTATTCTCCAAATATACATATATTACATCAATGCATGA TATGCACATATGCTCTCTAGAAAATCTATGCTCCAATATCATACTACTTGAAAAAAAATATGCAA AAACGTTTAATGAAGTTGATACCAATTCTGAAGATACAGAGGACTTTTCTATAAACATAAAGTTG GAAGAATAAATCAAACAAAATATATCCATATGTATATATATAAAAACATATTTATATCTATTTAT TTATTTATACAACCTATTATATCAGTAGACACACATATAACATTTATATTAAATAAATAAATATT TATATATATATATATATATATATATATATATATAATTTCCTTTTTTTATTAAAATATATATGTTT TTTCTTTTTTTTCAAGTTAATATATACAAAAGGGAAATAATAATA Found at i:169008 original size:11 final size:11 Alignment explanation
Indices: 168994--169020 Score: 40 Period size: 11 Copynumber: 2.5 Consensus size: 11 168984 CCTTTTTGTA 168994 TTCTTTTCTCT 1 TTCTTTTCTCT * * 169005 TTCTCTTCTTT 1 TTCTTTTCTCT 169016 TTCTT 1 TTCTT 169021 CTTTTTATCA Statistics Matches: 13, Mismatches: 3, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 11 13 1.00 ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74 Consensus pattern (11 bp): TTCTTTTCTCT Left flanking sequence: Indices 168494 -- 168993 TATTCAAAATTTGAAACAAAAATTAAAATAACACAAAAGATATAATAATGAATTATTAGAAAAAA AAAAAAAAAAAAAAAAAAAAAAAAAAAATATAACTATAGGCGAAATTATTCACCTTTTATCATTT TATATATTAATATGTTTCCATATAAATATATTTTTTCTTCTATCTTCTACATAACTGTTTAGTCA TTTTCGTAAACCATTTTAATCTTCTTCTTGCCTATAAAAAGTGGAAAAACAAAATATAAATAAAT AAATAAATAAATATATATATATATATATATATATATATTTATATATATATTTATATATATATGCA TATTCATTATATCACAAAATCACATACAATATTTACCTTTTTCCTTTTTACTATTTGATTTTTTT TTTCTTCTAAAATTATGATTCATTTCTTCTATTTCATCATCGTCCATTGCCAGCTTCCCATTTGC TTGTAAATTTTTTATGTGCTCATTGTCAACATATTCCTTTTTGTA Right flanking sequence: Indices 169021 -- 169520 CTTTTTATCATTACTTATTGAGGTACTTTCTTCAACGCTGTCTTTATCATTATCATTATAATTAT CATAGTCATCCTCATCATTATCATCATATATACCACCTTCATCATCATCATCACCAACATCATCC ATATCTACATCTTCATCATCATCATCAACATCATCCATATCTACATCTTCATCATCATCATCAAC ATCATCCATATCTACATCCTCATCTTCATCATCCATATCTACATCCTCATCTTCATCATCCATAT CTACATCCTCATCTTCATCATCCATATCTACATCCTCATCTTCATCATCCATATCTACATCCTCA TCTTCATCATCCATATCTACATCCTCATCTTCATCATCCATATCTACATCCTCATCATCATCATC CATATCCACATCTTCATCATCATCCTCCTGGCCTCCCCCCTCCTGAGACATTGTCTCATAATTTA CATTTTCGTCCTTTCCTTTTTTCCCCTTCTTTTTCATTTCATCTT Found at i:169197 original size:27 final size:27 Alignment explanation
Indices: 169167--169438 Score: 379 Period size: 27 Copynumber: 9.7 Consensus size: 27 169157 ACATCTTCAT * ** 169167 CATCATCATCAACATCATCCATATCTA 1 CATCCTCATCTTCATCATCCATATCTA * * * 169194 CATCTTCATCATCATCATCAACATCATCCA 1 CATCCTCATCTTCATCATC--CAT-ATCTA * 169224 TATCTACATCCTCATCTTCATCATCCATATCTA 1 CATC--C-TC---ATCTTCATCATCCATATCTA 169257 CATCCTCATCTTCATCATCCATATCTA 1 CATCCTCATCTTCATCATCCATATCTA 169284 CATCCTCATCTTCATCATCCATATCTA 1 CATCCTCATCTTCATCATCCATATCTA 169311 CATCCTCATCTTCATCATCCATATCTA 1 CATCCTCATCTTCATCATCCATATCTA 169338 CATCCTCATCTTCATCATCCATATCTA 1 CATCCTCATCTTCATCATCCATATCTA 169365 CATCCTCATCTTCATCATCCATATCTA 1 CATCCTCATCTTCATCATCCATATCTA * * 169392 CATCCTCATCATCATCATCCATATCCA 1 CATCCTCATCTTCATCATCCATATCTA * * * 169419 CATCTTCATCATCATCCTCC 1 CATCCTCATCTTCATCATCC 169439 TGGCCTCCCC Statistics Matches: 224, Mismatches: 12, Indels: 18 0.88 0.05 0.07 Matches are distributed among these distances: 27 188 0.84 29 3 0.01 30 9 0.04 31 1 0.00 33 9 0.04 34 3 0.01 36 11 0.05 ACGTcount: A:0.28, C:0.37, G:0.00, T:0.35 Consensus pattern (27 bp): CATCCTCATCTTCATCATCCATATCTA Left flanking sequence: Indices 168667 -- 169166 CTTCTACATAACTGTTTAGTCATTTTCGTAAACCATTTTAATCTTCTTCTTGCCTATAAAAAGTG GAAAAACAAAATATAAATAAATAAATAAATAAATATATATATATATATATATATATATATTTATA TATATATTTATATATATATGCATATTCATTATATCACAAAATCACATACAATATTTACCTTTTTC CTTTTTACTATTTGATTTTTTTTTTCTTCTAAAATTATGATTCATTTCTTCTATTTCATCATCGT CCATTGCCAGCTTCCCATTTGCTTGTAAATTTTTTATGTGCTCATTGTCAACATATTCCTTTTTG TATTCTTTTCTCTTTCTCTTCTTTTTCTTCTTTTTATCATTACTTATTGAGGTACTTTCTTCAAC GCTGTCTTTATCATTATCATTATAATTATCATAGTCATCCTCATCATTATCATCATATATACCAC CTTCATCATCATCATCACCAACATCATCCATATCTACATCTTCAT Right flanking sequence: Indices 169439 -- 169938 TGGCCTCCCCCCTCCTGAGACATTGTCTCATAATTTACATTTTCGTCCTTTCCTTTTTTCCCCTT CTTTTTCATTTCATCTTTATTCTCCCCCATCACATCAAATATTTTTGTTAACTCAGAATCCTTAT TTTTCATTTTCTTTTTAGGAGTTAAGAACTTATATAGAGATCCATAAATTCCAGTATTTAATCTA TTCAACAATTCCTTTTCTACGTTATTTAAAAGGTTTGCAGCTTTTAAAGCTTTTTTTTCTCTTGT TTTATCTCTCCTTTCCGTTTTCTTCTTAATAGGCATCATTTTTACTTGTTTTTGTAATATGAGTT TTCTACTCCTCTTTAATATTTCTTTTATCCTTACATATCTCTTCATACATTTCTTTATATGTTTT ATATTCTGTGTAAATTTTAACTCTTTATAAATAACATTAAAAGCTTCCTTTTTGTTTAAACTCAA AAGAACCCTACTCCATAAGGCACTAGGTAAATGTGCTCTTTCAAC Found at i:170287 original size:16 final size:16 Alignment explanation
Indices: 170262--170299 Score: 48 Period size: 16 Copynumber: 2.4 Consensus size: 16 170252 GTCACACTAC * * 170262 ATACATATATATAAAT 1 ATATATATATAAAAAT * 170278 ATATATATATCAAAAT 1 ATATATATATAAAAAT * 170294 ATTTAT 1 ATATAT 170300 CTGCTAAATA Statistics Matches: 18, Mismatches: 4, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 16 18 1.00 ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42 Consensus pattern (16 bp): ATATATATATAAAAAT Left flanking sequence: Indices 169762 -- 170261 TTTTCTACTCCTCTTTAATATTTCTTTTATCCTTACATATCTCTTCATACATTTCTTTATATGTT TTATATTCTGTGTAAATTTTAACTCTTTATAAATAACATTAAAAGCTTCCTTTTTGTTTAAACTC AAAAGAACCCTACTCCATAAGGCACTAGGTAAATGTGCTCTTTCAACAGATTTCATATATAAATA TATTTCACCCTTATCTAATATTATTGTAGAATATACACTATTACTTAGCGGACAATTTGCTTTTG TACATAAACCTGTTACATTATATTCATTTAAACAAAATATTTCAGTATCCACTTTTTTCTTAAAG GAACATTTCCCTTTACCCAATATTTCCCACGTCACTGAATCGTTATTCATTATTTCTTCAAATCA TAAAAATTTTAAATATTTATTTAAATAATACGTAACAATATAAAAATATATAACACCAAAAAAAA AAAAATTTTAATATATATCCATTTATATTGGTACCGTCACACTAC Right flanking sequence: Indices 170300 -- 170799 CTGCTAAATAAGAGTAAATTTTATTATTTATACATTTTTATTTTTTTATATTTTTATTTTTTTAT TTTTTTATTTAATTAAAGCAATATAAACGGGAAAAGCTCAATATTATAATAATATATATAATATA TATAATATATATTATATTTTTAATTAATATACTGTTATATATATATTGTATATATATTTAAAATT CTTTACCCTTGAAAAATTACAAATACATATATATAATTATATTTAAAAATATATATATGATCATA ATCATATAAATATTTCTCTAAAATGATTTTCCTAAATATATATATATATATATAATATATTTTTT TTTTCTTATAAAATAGCAAAGAACAGTAAGAAATAAAATATTAAGTAATAAAAAAAAAAAATAAT AATAATAAATAAATAAATAAATTTTCTATATATATAAATCATAAATATTATAATATAAATATATA TTTTATATTAAGAAATTTTCTACATACATATATAATATATATATA Found at i:170295 original size:12 final size:14 Alignment explanation
Indices: 170262--170299 Score: 48 Period size: 14 Copynumber: 2.7 Consensus size: 14 170252 GTCACACTAC * * 170262 ATACATATATATAA 1 ATATATATATATCA 170276 ATATATATATATCA 1 ATATATATATATCA * * 170290 AAATATTTAT 1 ATATATATAT 170300 CTGCTAAATA Statistics Matches: 20, Mismatches: 4, Indels: 0 0.83 0.17 0.00 Matches are distributed among these distances: 14 20 1.00 ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42 Consensus pattern (14 bp): ATATATATATATCA Left flanking sequence: Indices 169762 -- 170261 TTTTCTACTCCTCTTTAATATTTCTTTTATCCTTACATATCTCTTCATACATTTCTTTATATGTT TTATATTCTGTGTAAATTTTAACTCTTTATAAATAACATTAAAAGCTTCCTTTTTGTTTAAACTC AAAAGAACCCTACTCCATAAGGCACTAGGTAAATGTGCTCTTTCAACAGATTTCATATATAAATA TATTTCACCCTTATCTAATATTATTGTAGAATATACACTATTACTTAGCGGACAATTTGCTTTTG TACATAAACCTGTTACATTATATTCATTTAAACAAAATATTTCAGTATCCACTTTTTTCTTAAAG GAACATTTCCCTTTACCCAATATTTCCCACGTCACTGAATCGTTATTCATTATTTCTTCAAATCA TAAAAATTTTAAATATTTATTTAAATAATACGTAACAATATAAAAATATATAACACCAAAAAAAA AAAAATTTTAATATATATCCATTTATATTGGTACCGTCACACTAC Right flanking sequence: Indices 170300 -- 170799 CTGCTAAATAAGAGTAAATTTTATTATTTATACATTTTTATTTTTTTATATTTTTATTTTTTTAT TTTTTTATTTAATTAAAGCAATATAAACGGGAAAAGCTCAATATTATAATAATATATATAATATA TATAATATATATTATATTTTTAATTAATATACTGTTATATATATATTGTATATATATTTAAAATT CTTTACCCTTGAAAAATTACAAATACATATATATAATTATATTTAAAAATATATATATGATCATA ATCATATAAATATTTCTCTAAAATGATTTTCCTAAATATATATATATATATATAATATATTTTTT TTTTCTTATAAAATAGCAAAGAACAGTAAGAAATAAAATATTAAGTAATAAAAAAAAAAAATAAT AATAATAAATAAATAAATAAATTTTCTATATATATAAATCATAAATATTATAATATAAATATATA TTTTATATTAAGAAATTTTCTACATACATATATAATATATATATA Found at i:171107 original size:21 final size:22 Alignment explanation
Indices: 171000--171120 Score: 67 Period size: 24 Copynumber: 5.2 Consensus size: 22 170990 ATTTTTATTT * * * * 171000 TTATTTTTAATTTTATTTTTAATT 1 TTATTATTAACTTTATATTT--TA * * * * 171024 TTATTTTTAATTTTATTTTTAATT 1 TTATTATTAACTTTATATTT--TA * * * * 171048 TTATTTTTAATTTTATTTTTAATT 1 TTATTATTAACTTTATATTT--TA * * 171072 TTATTTTTAATTTTA-ATTTTA 1 TTATTATTAACTTTATATTTTA * 171093 TTATTATTCACTTTATATTTTA 1 TTATTATTAACTTTATATTTTA 171115 TATATT 1 T-TATT 171121 CTTTTTTCAA Statistics Matches: 90, Mismatches: 5, Indels: 5 0.90 0.05 0.05 Matches are distributed among these distances: 21 13 0.14 22 7 0.08 23 7 0.08 24 63 0.70 ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72 Consensus pattern (22 bp): TTATTATTAACTTTATATTTTA Left flanking sequence: Indices 170500 -- 170999 CCCTTGAAAAATTACAAATACATATATATAATTATATTTAAAAATATATATATGATCATAATCAT ATAAATATTTCTCTAAAATGATTTTCCTAAATATATATATATATATATAATATATTTTTTTTTTC TTATAAAATAGCAAAGAACAGTAAGAAATAAAATATTAAGTAATAAAAAAAAAAAATAATAATAA TAAATAAATAAATAAATTTTCTATATATATAAATCATAAATATTATAATATAAATATATATTTTA TATTAAGAAATTTTCTACATACATATATAATATATATATATATATATTATAAATTATATTATAAC TTTGAAAAAAAAAAAAATTACCCATAATATTAAATATATAATATATATATTATATATTATGTATG TATAATTTTTTTTTTTCCATATGGTATATTTCCTTCATACCTATATTTCTTGTAACAACAACCAA ATATCAAAAGGATAGCTTTTATTAATTACATTTTTATTTTTATTT Right flanking sequence: Indices 171121 -- 171620 CTTTTTTCAATTCAACATCAAAAAAAAAAAAAAAAAAAAATAAAAAAAAAAAAAAAGTGACATAT GATAAATTTATAAATATATAATAAAATAATAATATTATAATATTATAATAATTAATAATAAAAAC AAATAAATTTTTTTTTTCCTTTTTCTTTTTTTTTTTCTTTAATAAATAAATATATATATATATAT GTATATATATACATATACATATTATTATAGGTACTGACTCCATAAAAACATATATTATAAAAAGG AATAATATAAAAAAATATATTATATAATATTAATGTGAGATATTATAATAAATAAAATAAATATA TAATAATTTATATTATTATTAAAATGTTACTATAATTTATTTAAAAAAAAAAAAGAAGATGTGAA TAATTCCATATATATATATTTATAAACTTATTCCATTCCTTAGTTCCACATTTTAATGATCAGAA AAGTTCTCCATCTTAGCCTTCTTTAACAAATCCTGTTGTTTGTCG Found at i:171108 original size:12 final size:12 Alignment explanation
Indices: 170986--171100 Score: 202 Period size: 12 Copynumber: 9.6 Consensus size: 12 170976 TTAATTACAT * 170986 TTTTATTTTTAT 1 TTTTATTTTTAA 170998 TTTTATTTTTAA 1 TTTTATTTTTAA 171010 TTTTATTTTTAA 1 TTTTATTTTTAA 171022 TTTTATTTTTAA 1 TTTTATTTTTAA 171034 TTTTATTTTTAA 1 TTTTATTTTTAA 171046 TTTTATTTTTAA 1 TTTTATTTTTAA 171058 TTTTATTTTTAA 1 TTTTATTTTTAA 171070 TTTTATTTTTAA 1 TTTTATTTTTAA * * 171082 TTTTAATTTTAT 1 TTTTATTTTTAA * 171094 TATTATT 1 TTTTATT 171101 CACTTTATAT Statistics Matches: 98, Mismatches: 5, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 12 98 1.00 ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76 Consensus pattern (12 bp): TTTTATTTTTAA Left flanking sequence: Indices 170486 -- 170985 TTTAAAATTCTTTACCCTTGAAAAATTACAAATACATATATATAATTATATTTAAAAATATATAT ATGATCATAATCATATAAATATTTCTCTAAAATGATTTTCCTAAATATATATATATATATATAAT ATATTTTTTTTTTCTTATAAAATAGCAAAGAACAGTAAGAAATAAAATATTAAGTAATAAAAAAA AAAAATAATAATAATAAATAAATAAATAAATTTTCTATATATATAAATCATAAATATTATAATAT AAATATATATTTTATATTAAGAAATTTTCTACATACATATATAATATATATATATATATATTATA AATTATATTATAACTTTGAAAAAAAAAAAAATTACCCATAATATTAAATATATAATATATATATT ATATATTATGTATGTATAATTTTTTTTTTTCCATATGGTATATTTCCTTCATACCTATATTTCTT GTAACAACAACCAAATATCAAAAGGATAGCTTTTATTAATTACAT Right flanking sequence: Indices 171101 -- 171600 CACTTTATATTTTATATATTCTTTTTTCAATTCAACATCAAAAAAAAAAAAAAAAAAAAATAAAA AAAAAAAAAAAGTGACATATGATAAATTTATAAATATATAATAAAATAATAATATTATAATATTA TAATAATTAATAATAAAAACAAATAAATTTTTTTTTTCCTTTTTCTTTTTTTTTTTCTTTAATAA ATAAATATATATATATATATGTATATATATACATATACATATTATTATAGGTACTGACTCCATAA AAACATATATTATAAAAAGGAATAATATAAAAAAATATATTATATAATATTAATGTGAGATATTA TAATAAATAAAATAAATATATAATAATTTATATTATTATTAAAATGTTACTATAATTTATTTAAA AAAAAAAAAGAAGATGTGAATAATTCCATATATATATATTTATAAACTTATTCCATTCCTTAGTT CCACATTTTAATGATCAGAAAAGTTCTCCATCTTAGCCTTCTTTA Found at i:172110 original size:16 final size:16 Alignment explanation
Indices: 172085--172158 Score: 97 Period size: 16 Copynumber: 4.6 Consensus size: 16 172075 TCGTAAATTG 172085 TTTTTATTTTATTTTA 1 TTTTTATTTTATTTTA ** 172101 TTTTATTTTTATTTTA 1 TTTTTATTTTATTTTA 172117 -TTTTATTTTATTTTTA 1 TTTTTATTTTA-TTTTA * * 172133 TTTTTATTTTTTTTTT 1 TTTTTATTTTATTTTA * 172149 TTTTTTTTTT 1 TTTTTATTTT 172159 CTCATTTACG Statistics Matches: 49, Mismatches: 7, Indels: 4 0.82 0.12 0.07 Matches are distributed among these distances: 15 8 0.16 16 32 0.65 17 9 0.18 ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86 Consensus pattern (16 bp): TTTTTATTTTATTTTA Left flanking sequence: Indices 171585 -- 172084 ATCTTAGCCTTCTTTAACAAATCCTGTTGTTTGTCGATACTCTTTTTTCTTTTCGTTTGGTATGA ATTTCTTCTTCTCTCGTCTATCTTAATTATTTTATTATTAAATAGTTTAGTGCAGCATTCTTTAT CAACGTCCTAAATAATACATACGAAAACAATATTATTTCTTGTTTATTCAAATATAAAAATATCC ACATATATGAAATATATATATATATATATATATATATATTTATATTTATATAATAGATACATCTA AAAATATGTATCCAAGAAATTTTCATATAATACATACTCGAATCATCTGTGTATTCTTTATTTCG AAATCATCATATTTTGGGTTATTTCTTAAAATGCGGATAAAACCCTTATCATCTCCGCACACAAG AGTCTAAAAAGGAACCATAAAAGAAAAATTGCATACATACAAATATATATATATATATATTATAT CATACGTATAATATTATATAAGTTCAAATGTGCTCTCGTAAATTG Right flanking sequence: Indices 172159 -- 172658 CTCATTTACGGTCATGGAATTATTCGAAGCAAGTACTTCTACTGAATTACCACATATATTTTCAG AAATATAATTTAAAAATTCACCATCATTTAAAGAAAAAAATAAAAGAGCCCCATAATTAAACTGT TCTTTTTTAATGTCAAACTTTAATTTCTTATCTTGAATATTATTACTTAATATTCTTTTCTTATA TAAGAAACTGCTCTCTTCTTCATTCCTCTTCTTATATAATTCACTTTCTTTTAAATTACCGTAAT CAACATAAGTGAATAAATTGTCATATTTTCTTATCTTCTCAAAAGCGTTGGAACTATAAATGCAT AAAATCTCGGCCATCAAACTGTGGTTACATAAATCAGGGTCTCGTAAACCTAAAATCAAAAAAAA AAAAAAAAAAAAAAAAAAAAAAAAAAATGCAATATATAGGAATAAATATAATAAGATATGTACAT ATATATATATATATATATATATATATATATTTTTTTTTTAAAAAT Found at i:172111 original size:21 final size:21 Alignment explanation
Indices: 172085--172158 Score: 118 Period size: 21 Copynumber: 3.5 Consensus size: 21 172075 TCGTAAATTG 172085 TTTTTATTTTATTTTATTTTA 1 TTTTTATTTTATTTTATTTTA 172106 TTTTTATTTTATTTTATTTTA 1 TTTTTATTTTATTTTATTTTA * * 172127 TTTTTATTTTTATTTTTTTTTT 1 TTTTTA-TTTTATTTTATTTTA * 172149 TTTTTTTTTT 1 TTTTTATTTT 172159 CTCATTTACG Statistics Matches: 49, Mismatches: 3, Indels: 2 0.91 0.06 0.04 Matches are distributed among these distances: 21 31 0.63 22 18 0.37 ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86 Consensus pattern (21 bp): TTTTTATTTTATTTTATTTTA Left flanking sequence: Indices 171585 -- 172084 ATCTTAGCCTTCTTTAACAAATCCTGTTGTTTGTCGATACTCTTTTTTCTTTTCGTTTGGTATGA ATTTCTTCTTCTCTCGTCTATCTTAATTATTTTATTATTAAATAGTTTAGTGCAGCATTCTTTAT CAACGTCCTAAATAATACATACGAAAACAATATTATTTCTTGTTTATTCAAATATAAAAATATCC ACATATATGAAATATATATATATATATATATATATATATTTATATTTATATAATAGATACATCTA AAAATATGTATCCAAGAAATTTTCATATAATACATACTCGAATCATCTGTGTATTCTTTATTTCG AAATCATCATATTTTGGGTTATTTCTTAAAATGCGGATAAAACCCTTATCATCTCCGCACACAAG AGTCTAAAAAGGAACCATAAAAGAAAAATTGCATACATACAAATATATATATATATATATTATAT CATACGTATAATATTATATAAGTTCAAATGTGCTCTCGTAAATTG Right flanking sequence: Indices 172159 -- 172658 CTCATTTACGGTCATGGAATTATTCGAAGCAAGTACTTCTACTGAATTACCACATATATTTTCAG AAATATAATTTAAAAATTCACCATCATTTAAAGAAAAAAATAAAAGAGCCCCATAATTAAACTGT TCTTTTTTAATGTCAAACTTTAATTTCTTATCTTGAATATTATTACTTAATATTCTTTTCTTATA TAAGAAACTGCTCTCTTCTTCATTCCTCTTCTTATATAATTCACTTTCTTTTAAATTACCGTAAT CAACATAAGTGAATAAATTGTCATATTTTCTTATCTTCTCAAAAGCGTTGGAACTATAAATGCAT AAAATCTCGGCCATCAAACTGTGGTTACATAAATCAGGGTCTCGTAAACCTAAAATCAAAAAAAA AAAAAAAAAAAAAAAAAAAAAAAAAAATGCAATATATAGGAATAAATATAATAAGATATGTACAT ATATATATATATATATATATATATATATATTTTTTTTTTAAAAAT Found at i:172756 original size:20 final size:20 Alignment explanation
Indices: 172727--172769 Score: 56 Period size: 20 Copynumber: 2.1 Consensus size: 20 172717 AAATTCTATC 172727 AAATTGTTTG-ATATCGTAAA 1 AAATTGTTTGCATATC-TAAA * * 172747 AAATTTTTTGCTTATCTAAA 1 AAATTGTTTGCATATCTAAA 172767 AAA 1 AAA 172770 AAAAAAAATA Statistics Matches: 20, Mismatches: 2, Indels: 2 0.83 0.08 0.08 Matches are distributed among these distances: 20 16 0.80 21 4 0.20 ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42 Consensus pattern (20 bp): AAATTGTTTGCATATCTAAA Left flanking sequence: Indices 172227 -- 172726 TATAATTTAAAAATTCACCATCATTTAAAGAAAAAAATAAAAGAGCCCCATAATTAAACTGTTCT TTTTTAATGTCAAACTTTAATTTCTTATCTTGAATATTATTACTTAATATTCTTTTCTTATATAA GAAACTGCTCTCTTCTTCATTCCTCTTCTTATATAATTCACTTTCTTTTAAATTACCGTAATCAA CATAAGTGAATAAATTGTCATATTTTCTTATCTTCTCAAAAGCGTTGGAACTATAAATGCATAAA ATCTCGGCCATCAAACTGTGGTTACATAAATCAGGGTCTCGTAAACCTAAAATCAAAAAAAAAAA AAAAAAAAAAAAAAAAAAAAAAAATGCAATATATAGGAATAAATATAATAAGATATGTACATATA TATATATATATATATATATATATATATTTTTTTTTTAAAAATTGACACCTGGTACATATATAGTG TACATTTTCCTCAACATGAAGGAATCTAATTCCCAAAATTCTATC Right flanking sequence: Indices 172770 -- 173269 AAAAAAAATATTCAAAAATTATCCACATAAGAAAAAACAACAATAATATAATATATATATATATG TTCATTTACTCTATTTTTATTTTATATAATCTCATACTTCATTGTTGTACACTTTTCCATTTATT GGAGAAGGATGCTACATGGATTGTCAAGAATGTTGATAAAATATTAATATAAAATATAAAAATTC TTATATAAGTTTATATATTCTTTTTACAATGTAACGAGGAACCATAAATGGGCTATATATATATA TATATATATATATATATATATTTTTTTTTTTTTTTTTTTTTTTTGTTTCCCATATTTACATCATA AAATACAAAAGCGCTGGGTTGAAAAGTATAAGTATTCTTCACTTTCTGTCTTGTCTTTTTTAGTA AATCATAAATTCTAAGGGAAGAACCTTCTTGCTTTATCTACAAATAAAATAAAATAAAAGTATTA ATTTGTTATAACTATTCATCCATATAACACATTCTTTAAAAAAAA Found at i:174319 original size:13 final size:15 Alignment explanation
Indices: 174302--174336 Score: 49 Period size: 13 Copynumber: 2.5 Consensus size: 15 174292 AAAAAATAAA 174302 ATATATAA-AAATAT 1 ATATATAATAAATAT * 174316 -TATATAATATATAT 1 ATATATAATAAATAT 174330 ATATATA 1 ATATATA 174337 TATATATGCT Statistics Matches: 18, Mismatches: 1, Indels: 3 0.82 0.05 0.14 Matches are distributed among these distances: 13 7 0.39 14 5 0.28 15 6 0.33 ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43 Consensus pattern (15 bp): ATATATAATAAATAT Left flanking sequence: Indices 173802 -- 174301 ATACAAATATCATATTGGTATATTTTTATTTTATATTTCTATGAACCTTATTTCTTGAAATTCTT CCTCTATTTCAAATACAGGCTCATATGTTTCCATATTCCAGAAGGTGTACGAATTTGTATTTAAA TTTGCAGCACCTATTCTACCATTAGTTTCTTAAAGAAATCATCGATAAATATAAAACAAATGATA AACTATATATATATATATATATATATATTTTTATTATATTTTTTTTTTCTACATTATCCTCAATT TGTACCGCAAAATTCAAAAAAAGCTGGGTGACTTAATATAACCCTTTCTACATAATAATAATCAT TCATAATTTAAAAACAAAAACAAATCGAATTACTCATATTTAAATTTTTTTTTTTTTTTCTCATT AATCCATAAAAAAAAAAAAAGGAAAGTATAAATTACGTACCAAATAATATACCAAGTTTCGAAGA ATTAGTTATCCCATGTTTTAAATCCTATTACAATAAAAAAATAAA Right flanking sequence: Indices 174337 -- 174836 TATATATGCTTAAATATTCATGTAATAAAAACCGTTCAGGTAAAATAAAATAATAACATGAACAG TTCAGGTAATTCGTAAGATTATCCTTACACATATATATATATATATATATATATTTTTATTTATA TGTCCATTTTTATGTTTTATTATTCTGCGAATTTGTAGTTGACTTACATTACAATCAATAACTTT ACATTGTAAATGTGCCGGAAAAGAAGCATATGCAATAATCAATGTATTATTATAAGAATTATAGA CAATTGTATGTACAACAGAAAAATTGTTCGGATTAATTTCACATAAGAATTCTCCATTAATCATA TTATAAGCTCTTGAAATTCCAGATATTAACAAAACAACAAGAACGTCATTAGCTAATATAATTTC TTTAATTTTAGTTCTTCCATTATTTAATTGATTATATGGTAAATTTTCATAAATGTCAATTATTT TTATAGTCTTATAATTTGTACATATATTTTTTTGTATTAATTTTC Found at i:174843 original size:14 final size:14 Alignment explanation
Indices: 174817--174849 Score: 52 Period size: 14 Copynumber: 2.4 Consensus size: 14 174807 TTGTACATAT * 174817 ATTTTTTTGTATTA 1 ATTTTCTTGTATTA * 174831 ATTTTCTTTTATTA 1 ATTTTCTTGTATTA 174845 ATTTT 1 ATTTT 174850 TGATGATAGA Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 14 17 1.00 ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73 Consensus pattern (14 bp): ATTTTCTTGTATTA Left flanking sequence: Indices 174317 -- 174816 ATATAATATATATATATATATATATATGCTTAAATATTCATGTAATAAAAACCGTTCAGGTAAAA TAAAATAATAACATGAACAGTTCAGGTAATTCGTAAGATTATCCTTACACATATATATATATATA TATATATATTTTTATTTATATGTCCATTTTTATGTTTTATTATTCTGCGAATTTGTAGTTGACTT ACATTACAATCAATAACTTTACATTGTAAATGTGCCGGAAAAGAAGCATATGCAATAATCAATGT ATTATTATAAGAATTATAGACAATTGTATGTACAACAGAAAAATTGTTCGGATTAATTTCACATA AGAATTCTCCATTAATCATATTATAAGCTCTTGAAATTCCAGATATTAACAAAACAACAAGAACG TCATTAGCTAATATAATTTCTTTAATTTTAGTTCTTCCATTATTTAATTGATTATATGGTAAATT TTCATAAATGTCAATTATTTTTATAGTCTTATAATTTGTACATAT Right flanking sequence: Indices 174850 -- 175349 TGATGATAGACTTTTTGGTATATGCTTTCCATATTTTTTCCTTTCTCTCATGTATTGTAACATTT TACAAGTATTGATAAATAAGAAATATATAAAATGTGGAAAACTAAAATAAATAAATATAAAACGA TCTGGATTTAATCTCCTATATATTATAAGAAAATATAAAATGCACACTATAAATTGTATATATAT ATATATATATATATATATATATAATATGTGAATTTATATACAATTTAGAAACAAAACATAAACAT CACATACATAAATTTATATTCATTTTTTTTCTTATATATTTTAATTTGTTTGTGTTTTTTTTTTT TTTTTTTTTTTTTTTTTTTTGGAATAGATAACGTAAATAGTTTAATAAAATTTTTATAAGGAAAT ACTTTTAATGTATGAACAAATAGGACAAATGAAAAAGGTAGACAACAAATGCTTAAGCATATATA AGATAATTTATAATAGCCATATTGAAAGAAACATTAAAGATCATA Found at i:175098 original size:11 final size:11 Alignment explanation
Indices: 175075--175098 Score: 34 Period size: 11 Copynumber: 2.2 Consensus size: 11 175065 ATAATATGTG * * 175075 AATTTATATAC 1 AATTTAGAAAC 175086 AATTTAGAAAC 1 AATTTAGAAAC 175097 AA 1 AA 175099 AACATAAACA Statistics Matches: 11, Mismatches: 2, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 11 11 1.00 ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33 Consensus pattern (11 bp): AATTTAGAAAC Left flanking sequence: Indices 174575 -- 175074 GTATTATTATAAGAATTATAGACAATTGTATGTACAACAGAAAAATTGTTCGGATTAATTTCACA TAAGAATTCTCCATTAATCATATTATAAGCTCTTGAAATTCCAGATATTAACAAAACAACAAGAA CGTCATTAGCTAATATAATTTCTTTAATTTTAGTTCTTCCATTATTTAATTGATTATATGGTAAA TTTTCATAAATGTCAATTATTTTTATAGTCTTATAATTTGTACATATATTTTTTTGTATTAATTT TCTTTTATTAATTTTTGATGATAGACTTTTTGGTATATGCTTTCCATATTTTTTCCTTTCTCTCA TGTATTGTAACATTTTACAAGTATTGATAAATAAGAAATATATAAAATGTGGAAAACTAAAATAA ATAAATATAAAACGATCTGGATTTAATCTCCTATATATTATAAGAAAATATAAAATGCACACTAT AAATTGTATATATATATATATATATATATATATATATAATATGTG Right flanking sequence: Indices 175099 -- 175598 AACATAAACATCACATACATAAATTTATATTCATTTTTTTTCTTATATATTTTAATTTGTTTGTG TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGAATAGATAACGTAAATAGTTTAATAAAATTTT TATAAGGAAATACTTTTAATGTATGAACAAATAGGACAAATGAAAAAGGTAGACAACAAATGCTT AAGCATATATAAGATAATTTATAATAGCCATATTGAAAGAAACATTAAAGATCATAAACAAAATG TAGAAGTAAAAGATTATAACACCATATAAGTAAAAATTACAAATATATATATTCAAAAAAAAAAA AAAAAAAAAAAAAAAAAAATATATATATATATATATATAGTATATATTTTAAAATGAATAAATAT GTTCATTTGAAAAGTGAAAGGTTATTAACAATATTTTTATAAATATTATTGTCATTAATAGTTTA TTCTTATTATTATTATTATATATTTTTTTTCTTTTTTTTTTCTTT Found at i:175608 original size:23 final size:21 Alignment explanation
Indices: 175576--175639 Score: 80 Period size: 22 Copynumber: 2.9 Consensus size: 21 175566 TTATTATATA 175576 TTTTTTTTCTTTTTTTTTTCTT 1 TTTTTTTTCTTTTTTTTTT-TT 175598 TTTTCTTTTCTTTTTTTTTTTT 1 TTTT-TTTTCTTTTTTTTTTTT * * * 175620 TTTTACTATCTTTTATTTTT 1 TTTT-TTTTCTTTTTTTTTT 175640 ATGCTTAATA Statistics Matches: 37, Mismatches: 4, Indels: 2 0.86 0.09 0.05 Matches are distributed among these distances: 22 22 0.59 23 15 0.41 ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86 Consensus pattern (21 bp): TTTTTTTTCTTTTTTTTTTTT Left flanking sequence: Indices 175076 -- 175575 ATTTATATACAATTTAGAAACAAAACATAAACATCACATACATAAATTTATATTCATTTTTTTTC TTATATATTTTAATTTGTTTGTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGAATAGATAA CGTAAATAGTTTAATAAAATTTTTATAAGGAAATACTTTTAATGTATGAACAAATAGGACAAATG AAAAAGGTAGACAACAAATGCTTAAGCATATATAAGATAATTTATAATAGCCATATTGAAAGAAA CATTAAAGATCATAAACAAAATGTAGAAGTAAAAGATTATAACACCATATAAGTAAAAATTACAA ATATATATATTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATATATATATATATATATATAGTA TATATTTTAAAATGAATAAATATGTTCATTTGAAAAGTGAAAGGTTATTAACAATATTTTTATAA ATATTATTGTCATTAATAGTTTATTCTTATTATTATTATTATATA Right flanking sequence: Indices 175640 -- 176139 ATGCTTAATACTTTTTATTACATTTTTATAACTTATAAAAATTAAATAAAGTTTTGAATCTCCTA TCTTTAATTGCCACGAATTTATAATATTTCCTTCATCTTTTTTATTAAAATATAAAATGTGAACA GAAAAATGGCATATATAGTTCCTCCTTTTTTTGTGTATGTACCTGTTTACAGATATTCATATAAA CACACATACAAATTATGTATATAAGGAGAAAAAAAAAAAAAAAAAAAACATATATAGGTATATGT ATATATATATATATATATATATATATATATATTTATTTATTTATTAATTCATATTAACTACACGT TTTGGGTCCTATTATGTCAAGACTTAAAAAATCAAATCAAACAATTTTAATTTTTTTTATTTTAT TTGTTCTTTATTTATTTTTATATAAGATAAAATTATATATACTCACACTGAACAAAATGTGTAGA GTAATTCTTCCATATATATATATATATATATAAAATAATTTTTCT Found at i:176028 original size:15 final size:16 Alignment explanation
Indices: 176008--176042 Score: 49 Period size: 16 Copynumber: 2.2 Consensus size: 16 175998 AAATCAAACA * 176008 ATTTTAATT-TTTTTT 1 ATTTTAATTGTTCTTT * 176023 ATTTTATTTGTTCTTT 1 ATTTTAATTGTTCTTT 176039 ATTT 1 ATTT 176043 ATTTTTATAT Statistics Matches: 17, Mismatches: 2, Indels: 1 0.85 0.10 0.05 Matches are distributed among these distances: 15 8 0.47 16 9 0.53 ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77 Consensus pattern (16 bp): ATTTTAATTGTTCTTT Left flanking sequence: Indices 175508 -- 176007 GGTTATTAACAATATTTTTATAAATATTATTGTCATTAATAGTTTATTCTTATTATTATTATTAT ATATTTTTTTTCTTTTTTTTTTCTTTTTTCTTTTCTTTTTTTTTTTTTTTTACTATCTTTTATTT TTATGCTTAATACTTTTTATTACATTTTTATAACTTATAAAAATTAAATAAAGTTTTGAATCTCC TATCTTTAATTGCCACGAATTTATAATATTTCCTTCATCTTTTTTATTAAAATATAAAATGTGAA CAGAAAAATGGCATATATAGTTCCTCCTTTTTTTGTGTATGTACCTGTTTACAGATATTCATATA AACACACATACAAATTATGTATATAAGGAGAAAAAAAAAAAAAAAAAAAACATATATAGGTATAT GTATATATATATATATATATATATATATATATATTTATTTATTTATTAATTCATATTAACTACAC GTTTTGGGTCCTATTATGTCAAGACTTAAAAAATCAAATCAAACA Right flanking sequence: Indices 176043 -- 176542 ATTTTTATATAAGATAAAATTATATATACTCACACTGAACAAAATGTGTAGAGTAATTCTTCCAT ATATATATATATATATATAAAATAATTTTTCTCAGTATAAATAAATAAACATACATGTATATAAT ATATTTATGATTATGTGTATTTTATATATTATGAAAAATCTTTATAATTATAATTTCCAAAGGAA TTTCTTATATTATATATATATATATATATATATATTTTATTTTATTTTATTTTTTTCTATAATGA TTTATAATATATGACCTTACTTTAATATATATATATATATATATATATATATATTTTTTTTTTTT TTTTTTTCTTTTATATATATATATTAAACGATTAATACATATAATGATAATAAATATTTAAAATA TTATGTTTATACATATATTTATACATATATTAATTATATGAATATATGAAAAGATTCCAAACTTC ATATCACAATGAAACTGTAGTAAGAATGATATTCAGCATAAGATC Found at i:176455 original size:12 final size:12 Alignment explanation
Indices: 176434--176463 Score: 53 Period size: 12 Copynumber: 2.5 Consensus size: 12 176424 TTTAAAATAT * 176434 TATGTTTATACA 1 TATATTTATACA 176446 TATATTTATACA 1 TATATTTATACA 176458 TATATT 1 TATATT 176464 AATTATATGA Statistics Matches: 17, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 12 17 1.00 ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53 Consensus pattern (12 bp): TATATTTATACA Left flanking sequence: Indices 175934 -- 176433 ATTTATTTATTAATTCATATTAACTACACGTTTTGGGTCCTATTATGTCAAGACTTAAAAAATCA AATCAAACAATTTTAATTTTTTTTATTTTATTTGTTCTTTATTTATTTTTATATAAGATAAAATT ATATATACTCACACTGAACAAAATGTGTAGAGTAATTCTTCCATATATATATATATATATATAAA ATAATTTTTCTCAGTATAAATAAATAAACATACATGTATATAATATATTTATGATTATGTGTATT TTATATATTATGAAAAATCTTTATAATTATAATTTCCAAAGGAATTTCTTATATTATATATATAT ATATATATATATATTTTATTTTATTTTATTTTTTTCTATAATGATTTATAATATATGACCTTACT TTAATATATATATATATATATATATATATATATTTTTTTTTTTTTTTTTTTCTTTTATATATATA TATTAAACGATTAATACATATAATGATAATAAATATTTAAAATAT Right flanking sequence: Indices 176464 -- 176963 AATTATATGAATATATGAAAAGATTCCAAACTTCATATCACAATGAAACTGTAGTAAGAATGATA TTCAGCATAAGATCATATAAAAATCTACAAAAAAAAAAATGAATAAAAGTATTTACATAATACTT CTTTGTGTGAAATATTTTCTAATATATAGTAAAGCATATAAAAAAAAAAATAATAATGATGTTAT AAATAATATTCAAAGAGCGAAAAATGATTTATTTTTTATAAAACCATCTGTAAAATTAAATTTAT GTTCAAGTAAATTTATACATAGAATAAAAAGTGTGAACAAAAGATATGTTGAAAAAAATGAGTAT ATTCAACAAATAGATAATGATATAGAAGAAAAAAAAAAAAAAAAAAAAACTACATCTAAACGCAA CAATAAAAGTAGTAATCAAATTAATGATGATTATGAAACGTTTTTAATAGTTGATGGATCGTCTA TATTATTTAAAAATTTTTTTGGTATGCCGTTTTTAAAAAATGATA Found at