TRAP (Tandem Repeats Analysis Program) TRF Version 4.00 Sequence: 97739983 P. falciparum 3D7 GENOMIC pfal_chr9 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: 1541723 ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40 Found at i: i:396050 original size:11 final size:11 Alignment explanation
Indices: 396030--396055 Score: 38 Period size: 11 Copynumber: 2.5 Consensus size: 11 396020 CATATGTGCA 396030 TATT-CCTTTT 1 TATTGCCTTTT * 396040 TCTTGCCTTTT 1 TATTGCCTTTT 396051 TATTG 1 TATTG 396056 TTGCAAAATT Statistics Matches: 13, Mismatches: 2, Indels: 1 0.81 0.12 0.06 Matches are distributed among these distances: 10 3 0.23 11 10 0.77 ACGTcount: A:0.08, C:0.19, G:0.08, T:0.65 Consensus pattern (11 bp): TATTGCCTTTT Left flanking sequence: Indices 395530 -- 396029 TTTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATGGTAACTATTATACAATAAATCTTCATATAA TATTTATCATATAATATGTGGTTGCTATAATATTATATTTGTCTTTTTTTTTTTTTTTTTTTTTT TTTTTTTTTTTTTGGCCTACCTTTAAGTAATTTATTCACATATCTGGGGCTGGTATATTTTCTAA TAAGGGAAATTACACATATAAATAAATAAATAAATAAATATATATATATATATATATATATATAA AATTTTATTTATTTTATATTTATTATTCATGCACTCTTACGTATATTCTTGTATTATAACATATT TGGAAAACTGCGCGGCAATATTTAGAAATACACTATCTAGATAAAGAAATAAGCTACAAGTTCTA ATTTCCTCATACATTTGATAATCCTACAAAGAAAAATATATATATATATATATTATTTTAATAAT ATCTTATATTTATAATTAAAACATATCAATAAACACATATGTGCA Right flanking sequence: Indices 396056 -- 396555 TTGCAAAATTGGAAATGTTTAATTAAGTGTAAATCGTAGGCATCGTTAATGATTTTTAACCATGG AGGATTTTCTATGCCATCTAAAAATATATGTTTATTAAAAAGAAAATGAACTCACTATGTATATA TATATATATATATTAGCATAAATATATTTTTTATTCCTACTTATTCTATATTGAAAAAGCATCGT GCTTAAAAGAACGTCAACCACATTCGAAGTTGTTATTAAAGGAATAGGCATTTTCTTATAAGCAT ATTTAAAGGAAGAAGAAAATATCTCAAGAACATTTCTTTTATCTGAAAATTAAAAATAAATATAC TTTTTAGTATAAAAAAAAAAAAAAAAAATTCGTATTCTTTTTTGTAGATATATTTTAATTACATG GTGATGATTTCTCAATGTTATTGTCTTTATTCTCCAGATTCTAAAAAGAACAAAAAATTGAAATA AACATATAGTGTTATATAACTATGCAGAAATATATGATATAAAAA Found at i:396615 original size:12 final size:12 Alignment explanation
Indices: 396598--396627 Score: 46 Period size: 12 Copynumber: 2.5 Consensus size: 12 396588 AACATATGAA 396598 ATATATACACAC 1 ATATATACACAC * * 396610 ATATATACATAT 1 ATATATACACAC 396622 ATATAT 1 ATATAT 396628 GTTCATATTT Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 12 16 1.00 ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37 Consensus pattern (12 bp): ATATATACACAC Left flanking sequence: Indices 396098 -- 396597 TCGTTAATGATTTTTAACCATGGAGGATTTTCTATGCCATCTAAAAATATATGTTTATTAAAAAG AAAATGAACTCACTATGTATATATATATATATATATTAGCATAAATATATTTTTTATTCCTACTT ATTCTATATTGAAAAAGCATCGTGCTTAAAAGAACGTCAACCACATTCGAAGTTGTTATTAAAGG AATAGGCATTTTCTTATAAGCATATTTAAAGGAAGAAGAAAATATCTCAAGAACATTTCTTTTAT CTGAAAATTAAAAATAAATATACTTTTTAGTATAAAAAAAAAAAAAAAAAATTCGTATTCTTTTT TGTAGATATATTTTAATTACATGGTGATGATTTCTCAATGTTATTGTCTTTATTCTCCAGATTCT AAAAAGAACAAAAAATTGAAATAAACATATAGTGTTATATAACTATGCAGAAATATATGATATAA AAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAATATAACATATGAA Right flanking sequence: Indices 396628 -- 397127 GTTCATATTTATTTATTTAATTACATATGATTCTATGTGAGCATCCATATCTTTATCCGTTTTGC ATATGATCATTTCCTTTCTTAGCTTGCTAATGGATATATCTGTTACCAATGAAAAGTAGTCATCG TTATCCTACAAATTTTTATAAAAAAATTATAAATATAATATTGATAAAAATATTTTATTTGGAAT AAGCATGAACCTATATTATATATACATTCCCACTTTTGTGTGTTATTATTATTTTTATAAAAGTT GTTTTTATTTTCTTACCATTTTTTTATTTTTTTCTAGAAAATACTCCAAGGGGTGTTCACAACTA ACTATTCCACATGCCAACTCTACATAGCCTAATATGCAGTTTCAAAAAGTAAAATAAATAAATAT AATATTAAATATTATATAATTCTCTACAAAAACTATATTCATTACAATATAAAACCTAATATTTT TCCTTTTAAGTTTAAATTCATTATTCATATTTTTAACCTTTAACA Found at i:397028 original size:12 final size:12 Alignment explanation
Indices: 397011--397034 Score: 41 Period size: 12 Copynumber: 2.0 Consensus size: 12 397001 GTAAAATAAA 397011 TAAATATAATAT 1 TAAATATAATAT * 397023 TAAATATTATAT 1 TAAATATAATAT 397035 AATTCTCTAC Statistics Matches: 11, Mismatches: 1, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 12 11 1.00 ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46 Consensus pattern (12 bp): TAAATATAATAT Left flanking sequence: Indices 396511 -- 397010 AACATATAGTGTTATATAACTATGCAGAAATATATGATATAAAAAAAAAAAAAAGAAAAAAAAAA AAAAAAAAATATAACATATGAAATATATACACACATATATACATATATATATGTTCATATTTATT TATTTAATTACATATGATTCTATGTGAGCATCCATATCTTTATCCGTTTTGCATATGATCATTTC CTTTCTTAGCTTGCTAATGGATATATCTGTTACCAATGAAAAGTAGTCATCGTTATCCTACAAAT TTTTATAAAAAAATTATAAATATAATATTGATAAAAATATTTTATTTGGAATAAGCATGAACCTA TATTATATATACATTCCCACTTTTGTGTGTTATTATTATTTTTATAAAAGTTGTTTTTATTTTCT TACCATTTTTTTATTTTTTTCTAGAAAATACTCCAAGGGGTGTTCACAACTAACTATTCCACATG CCAACTCTACATAGCCTAATATGCAGTTTCAAAAAGTAAAATAAA Right flanking sequence: Indices 397035 -- 397534 AATTCTCTACAAAAACTATATTCATTACAATATAAAACCTAATATTTTTCCTTTTAAGTTTAAAT TCATTATTCATATTTTTAACCTTTAACATTGTTGTTATTGCCTTCATAAACATTATATGTTTTAT ATGAACTGTAATATTTTAAAAAGCTATACTTTTTATTTAAGTATATTTTTAATCCTAAGTTTTTT CTTTCTTTTTTTTTCCCATTCTCATCTACAAATGTGATATGTATAAAATTGGGACATTCTCCCTT TAAACAGATAAAGGGTAAATAGAAACATTTATTTACACTGATTTTGAACTGAACAAAATAAGAAA TAAATATAATAAGATATATTTATGAAGTTGTAGAAACAATTTATTTATTTATTTATTATTATTAT TATTATAGTGTATTATTATTATTATTTTTTTTTTTTTTATTATTATTGTTATGGTTGTACCACAA AATTGTATTCATTATTAAACGTTTCAATTGAATGAACTCTCTCTG Found at i:398132 original size:14 final size:14 Alignment explanation
Indices: 398113--398140 Score: 49 Period size: 14 Copynumber: 2.0 Consensus size: 14 398103 TTGATGTTAT 398113 GAAAAAAAAAAAAA 1 GAAAAAAAAAAAAA * 398127 GAAAAAAAAAGAAA 1 GAAAAAAAAAAAAA 398141 TAGGTAGATA Statistics Matches: 13, Mismatches: 1, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 14 13 1.00 ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00 Consensus pattern (14 bp): GAAAAAAAAAAAAA Left flanking sequence: Indices 397613 -- 398112 AAAATAATTAAATACTAAAAATATATATATTACGTATAAAGCATATTTTATTTTATTTCATTTTA TTTCATTTTATTTTATATTTTTTTTATTTTTTTTTTTTATTTTTCTTTTATTTGCATACATTAAC TACATTCTTAGACGAATCATTCAAAAGATGTAATGACTTTAATTTTACTTTAAGAGAAAAATTAT TCTTAACTTTAGGGATACTTATAGACATTTTTAATTTGTTGAATAAAAGTATTTCATCGTTTTTA ATAAGACATAATATAGAATTGTTTTTCTATATAATGAATAAATAAATATACACATATATAAATAT ATTTTTCATTATATTATTTTTTCTTTTGTACAATGTACAAAAGTGTTTTTATTTTTATAAAAATG TTCATATATTTCTATAAATAACCTTTCTACATTATTATTATCCTATATAATTTTATGCATTTCGC AACATATTTAAGTATTATAACACATATAAATGTTGTTGATGTTAT Right flanking sequence: Indices 398141 -- 398640 TAGGTAGATAAAATAATATGCACTTTAATGCACTTTCAATATTACAGTTAAAAATGGATATATAA ATATATAAATATATATATATATATATGTATATTATGTATTTATAAATACAACTTTATTTTTACAT TATAAATATAACATATATAATACATATATAATATATATATTATTTCCTTTATGTATGTATTATGT CTAAAAAAAAATACACAACATTCTATATTATGTTATTCTACATATACACACAAATAACAATTTAA AAATTTATAAGAATATAATAAAATTACGTGAACATCAAATAATTTTTTTCGTTTTTTTTTAAAAA ATTACCTGAACATGTCAGGAAAAATAGCTATTTAGTAATATATTTTGGCTATATTTATTTTTTCA CATATTATTCTAATTTTTTTTTTATTTCTTCATTTACTATTTTTATGTAATTAGTCAAAAGGATT TTAATTGTTCATAATGAAATATTAAATTATTAAAAGAAAAGAAAA Found at i:398297 original size:11 final size:11 Alignment explanation
Indices: 398281--398310 Score: 53 Period size: 11 Copynumber: 2.7 Consensus size: 11 398271 TATAAATATA 398281 ACATATATAAT 1 ACATATATAAT 398292 ACATATATAAT 1 ACATATATAAT * 398303 ATATATAT 1 ACATATAT 398311 TATTTCCTTT Statistics Matches: 18, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 11 18 1.00 ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40 Consensus pattern (11 bp): ACATATATAAT Left flanking sequence: Indices 397781 -- 398280 TTAATTTTACTTTAAGAGAAAAATTATTCTTAACTTTAGGGATACTTATAGACATTTTTAATTTG TTGAATAAAAGTATTTCATCGTTTTTAATAAGACATAATATAGAATTGTTTTTCTATATAATGAA TAAATAAATATACACATATATAAATATATTTTTCATTATATTATTTTTTCTTTTGTACAATGTAC AAAAGTGTTTTTATTTTTATAAAAATGTTCATATATTTCTATAAATAACCTTTCTACATTATTAT TATCCTATATAATTTTATGCATTTCGCAACATATTTAAGTATTATAACACATATAAATGTTGTTG ATGTTATGAAAAAAAAAAAAAGAAAAAAAAAGAAATAGGTAGATAAAATAATATGCACTTTAATG CACTTTCAATATTACAGTTAAAAATGGATATATAAATATATAAATATATATATATATATATGTAT ATTATGTATTTATAAATACAACTTTATTTTTACATTATAAATATA Right flanking sequence: Indices 398311 -- 398810 TATTTCCTTTATGTATGTATTATGTCTAAAAAAAAATACACAACATTCTATATTATGTTATTCTA CATATACACACAAATAACAATTTAAAAATTTATAAGAATATAATAAAATTACGTGAACATCAAAT AATTTTTTTCGTTTTTTTTTAAAAAATTACCTGAACATGTCAGGAAAAATAGCTATTTAGTAATA TATTTTGGCTATATTTATTTTTTCACATATTATTCTAATTTTTTTTTTATTTCTTCATTTACTAT TTTTATGTAATTAGTCAAAAGGATTTTAATTGTTCATAATGAAATATTAAATTATTAAAAGAAAA GAAAAATACAAAAAAATTGTAAGATTTAAAATTATATTTCAAACAATGTTTATTTATACTTTTTA GTTTTATGTTTAAAAAGACAATTTTTTTTTTTTTTTTTTAAAAGCAACAATATTTGAGATTAATT TGGTATGTTTAAAAAAAAAAAAAAAAAAAAAAATGTATCATCTAC Found at i:399503 original size:12 final size:12 Alignment explanation
Indices: 399488--399511 Score: 41 Period size: 12 Copynumber: 2.0 Consensus size: 12 399478 TATCATATTC 399488 ATTTATAATTTT 1 ATTTATAATTTT * 399500 ATTTATATTTTT 1 ATTTATAATTTT 399512 TAACATATCC Statistics Matches: 11, Mismatches: 1, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 12 11 1.00 ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71 Consensus pattern (12 bp): ATTTATAATTTT Left flanking sequence: Indices 398988 -- 399487 GAGTAGAAAAAAAAAAAAGGGAATTGTTTTTTATATATAATTATAAATGTCAATCATTAATTCTT TAACGAATAATTATATTATAAAATGAATAGAGTTAAAATGTTTTATCTACATTTTTTTTTTTATA ATAATTACATATCTTGTAATATTTGAACACTTACATACATATATATATATATATATATGTGCAAT ATTCGTAGTAACTATTTTTTTACCTCTTGTCTTTTTTTCTGCAATGATAACATATAAGGAGGTTT TAATGGCATGAGTTGGGGTTCGTGTCTCACATAATTTTCTGGTAACAAATAAGATTTATCCGAAT CATAATAATTATCTGTTGCAATAAATGAAAATAATTTATTGCTCATAAAACTTTCTGATGAAATA TAATTATTGACAACTTCTTCATCTTCTGAGTTAAAATATTTTATTTCTTCATCACTATCCGAACA ATAAAAATTAAATATATCTAAGTTATTTTTGTCATTATCATATTC Right flanking sequence: Indices 399512 -- 400011 TAACATATCCGAATTTGGAGTAACATTATTTTCTACAATATTATTATGTTCATATGGTGATGACA CCTCTTTAGTTTCTATTTCATCAGATATATTTTTATTGTGTTTTGTTGTATGGCATAAATTATAA TCAATATTATCATGAGAATTGTAGTTTTCCTTTTTTTCTTCAGACTCTTGATCATCTTTATCCTT ATAAGTTATTAGCTGAGCATGAAATTTTCTCATTTGTTCTTCAGATAAATATTTGTCATTAATTT TATTTTCTGCATTATGATTATTCATTGATATAATATTAGATCTGGGTAAAGAGAAATTGAGACAA ACTAGGAATGATTCTAAACTTTTATTTCTACTACTTTGAGGTTTACATATATAGACCCTTTGAAA AAATTTATTTAGGTGTAAAATTAATAATCCTGTATGTTCTCCCCTAAATATTTTGCTAATAAAAT TCCCACCTACTTTTAAAACGGAACAACAAACTTTTAAGCTAGACA Found at i:402659 original size:22 final size:22 Alignment explanation
Indices: 402582--402659 Score: 86 Period size: 22 Copynumber: 3.5 Consensus size: 22 402572 CACATAATAA * * * * 402582 ATAAATATATATATATATATAT 1 ATATATACATATATTTATTTAT * 402604 ATATATATATATATTTATTTAT 1 ATATATACATATATTTATTTAT * * * 402626 ATATATATATATATTTTTTTTT 1 ATATATACATATATTTATTTAT * * 402648 ATTTATTCATAT 1 ATATATACATAT 402660 TTTGTCACAT Statistics Matches: 48, Mismatches: 8, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 22 48 1.00 ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58 Consensus pattern (22 bp): ATATATACATATATTTATTTAT Left flanking sequence: Indices 402082 -- 402581 TCATAATTTTGTCAGCAAAAATATATATTATGTCCATATGATAATAATATTACTTGGTTATATAA AAAAGAAATACCCTTAATTTTAAAATAATAAAAATGTTTATCTATATTTCGGATATCAAATTTTA ATACAGTTCTTCTACATATAATAATAAAAAAAAAATAAGAATAATCAAATAAGGAATATTAATTC AAAATAAATTATACATATTATAGATTATAATATAATTTATATATCTACTTTGTATTTTATTCATA TACCTATTAGATGTTACATTTTTCCCTTTCTTGCAACAGTTCGAAAAATCATGCTCACCAATCTA ATAAGAATAAAGGATTGATATATATATATATATATATATTTTTTTTTTTTTTTTTTTTTTTTTTT TTGCCTTACAAATAATTTTGCTGCTTTCTTCATCTTTTCGATGTTATAATTTTTATTTATAAAAA AATAGACATACGTTCTTTGGATACAATTTAATCTGCACATAATAA Right flanking sequence: Indices 402660 -- 403159 TTTGTCACATATTATTTTCACCGTGCGTCAAATGTATTGGAAACATGTTTAATATCATGTATGTG TATATTCTTAAGCTTCTTTTTTAATTCTTTAACATATTTCTTTTCTATTTCAAAAATAGGAACAT TCTCATATTTTATATTTAATCTTAAATTTATTCCATTGATACGAGCAGATACACCTTTGTCTGTT CGTGATACCCTTGATAATGGCCTAATAGAAAAAAAAAAAAAAAATATATATATATATATATATAT ATATATATATATATATATATATATATTATATATAAACATTTTATATATGATTAAAAACAGATTGT ATACTTACGTATCATAATTATCAATCAATTCTAATTTATAAAGATTTTCTAAAAGCTTATTCTCT ACAGTATTATCGTTGTCCTTTTGATATGCAGATCCCTATATATTTTTTCATAATAAAAAATAAAA GTGATTTTTATATTTTTTACAGTGTTACGTTTTCAAATATATATG Found at i:403604 original size:18 final size:18 Alignment explanation
Indices: 403583--403651 Score: 73 Period size: 16 Copynumber: 4.1 Consensus size: 18 403573 TATATATACA * 403583 ACATAATTTATTATATAT 1 ACATAATATATTATATAT 403601 ACAT-ATATATT-TATAT 1 ACATAATATATTATATAT * 403617 ATAT-ATATA-TATATAT 1 ACATAATATATTATATAT * 403633 ATAT-ATATATATATATAT 1 ACATAATATAT-TATATAT 403651 A 1 A 403652 TTAATTTTGT Statistics Matches: 46, Mismatches: 2, Indels: 6 0.85 0.04 0.11 Matches are distributed among these distances: 15 1 0.02 16 27 0.59 17 6 0.13 18 12 0.26 ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49 Consensus pattern (18 bp): ACATAATATATTATATAT Left flanking sequence: Indices 403083 -- 403582 CCCTATATATTTTTTCATAATAAAAAATAAAAGTGATTTTTATATTTTTTACAGTGTTACGTTTT CAAATATATATGAATACATAAAAAGATAATAATATTATATATGTAGATAGATATAATGCTGGCTA CAGAAAAAACGAAGTTTATAATTAATTTTTTTTTTTTTTATAAAACATTCTCATATATATATATA TATATATAATACATATGTATATATAAATATTGATGAAAAAATATTATTATACATTAAATTCCATT CCAAAGTATGATAAAAGAATTAGAAAGTTATGCGTTTCTTTCATTTTCTTGGTATATGATTTATC CTAAATAAGTAAATTCATACTGTTCTATATATATATATATATATATAATATGCCAAATAAACTTG GGTATTTCTTTTTTACGCTACCCTGCAATATAATTTATATATAATAATTCATTAAAAATAAAACA AAAAATTAAAAGGAAATTTAAAAGAGCAAATATTTTATATATACA Right flanking sequence: Indices 403652 -- 404151 TTAATTTTGTGCACAAATGGAAATGTTTGAACTGTGAAATTAGAACATAAAAAAAAAAAAAAGAA CATAATATAAAAAAATAATATAGGTATTATATATATATATAATAATATATATATATAATATACAT ATTTTATATATCCATAAAGGGAATGTATAATATATGAAATTATACCTCAAATATATATATATATA TATATATATAATATATATATAATATATTTATATATATAGGATATATGGAAAGTTATATAATATTT TTGTTAATTATTAAAAAAAAAAAAAAATTTAATAATATATACATTGTTTAATATTTTACATTATA TTTTTATAATTATTATATATTTTATGTTTTATATTTTCATCTTTTTTTTTTTTTTTTTTTTATTT TATATTTTTTCCCCTTTTATATTATAATTAAATGGTTGAAAAAGGAAAAAAGCACAAATTTATAG ATACATGAAAAATAATATACATTTGTAAATAAATAAATAAATAAA Found at i:403904 original size:38 final size:36 Alignment explanation
Indices: 403831--403913 Score: 99 Period size: 36 Copynumber: 2.2 Consensus size: 36 403821 TTATACCTCA * * * * 403831 AATATATATATATATATATATATATAATATATATAT 1 AATATATTTATATATATAGATATATAAAAGATATAT * * 403867 AATATATTTATATATATAGGATATATGGAAAGTTATAT 1 AATATATTTATATATATA-GATATAT-AAAAGATATAT * 403905 AATATTTTT 1 AATATATTT 403914 GTTAATTATT Statistics Matches: 38, Mismatches: 7, Indels: 2 0.81 0.15 0.04 Matches are distributed among these distances: 36 17 0.45 37 6 0.16 38 15 0.39 ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47 Consensus pattern (36 bp): AATATATTTATATATATAGATATATAAAAGATATAT Left flanking sequence: Indices 403331 -- 403830 TTAAATTCCATTCCAAAGTATGATAAAAGAATTAGAAAGTTATGCGTTTCTTTCATTTTCTTGGT ATATGATTTATCCTAAATAAGTAAATTCATACTGTTCTATATATATATATATATATATAATATGC CAAATAAACTTGGGTATTTCTTTTTTACGCTACCCTGCAATATAATTTATATATAATAATTCATT AAAAATAAAACAAAAAATTAAAAGGAAATTTAAAAGAGCAAATATTTTATATATACAACATAATT TATTATATATACATATATATTTATATATATATATATATATATATATATATATATATATATATTAA TTTTGTGCACAAATGGAAATGTTTGAACTGTGAAATTAGAACATAAAAAAAAAAAAAAGAACATA ATATAAAAAAATAATATAGGTATTATATATATATATAATAATATATATATATAATATACATATTT TATATATCCATAAAGGGAATGTATAATATATGAAATTATACCTCA Right flanking sequence: Indices 403914 -- 404413 GTTAATTATTAAAAAAAAAAAAAAATTTAATAATATATACATTGTTTAATATTTTACATTATATT TTTATAATTATTATATATTTTATGTTTTATATTTTCATCTTTTTTTTTTTTTTTTTTTTATTTTA TATTTTTTCCCCTTTTATATTATAATTAAATGGTTGAAAAAGGAAAAAAGCACAAATTTATAGAT ACATGAAAAATAATATACATTTGTAAATAAATAAATAAATAAAATATAAGATATATATATATTTA TATATATATATTATATAATGTGTCAACAAAGTATAAGATAATATTATAATTCATATAAGATAATA ATATACATTTATATATTTATAAAAAAATATATAAAATAAAAGAATGGGTATTGTTATTTAAAAAT ATGAAAAATTCTTTTAATAATAAAGGAGGCTTGGTTAATACTACGAAAAAAATCGATGAATCTGA TATAGAGCCTGTAGGTGAAGAAAAAGAAAAAGAAAAAAATGAAAC Found at i:404008 original size:19 final size:17 Alignment explanation
Indices: 403971--404013 Score: 56 Period size: 17 Copynumber: 2.6 Consensus size: 17 403961 AATATTTTAC 403971 ATTATATTTTTATAATT 1 ATTATATTTTTATAATT * 403988 ATTATATATTTTAT-GTT 1 ATTATAT-TTTTATAATT 404005 -TTATATTTT 1 ATTATATTTT 404014 CATCTTTTTT Statistics Matches: 24, Mismatches: 1, Indels: 4 0.83 0.03 0.14 Matches are distributed among these distances: 15 3 0.12 16 6 0.25 17 9 0.38 18 6 0.25 ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67 Consensus pattern (17 bp): ATTATATTTTTATAATT Left flanking sequence: Indices 403471 -- 403970 TGGGTATTTCTTTTTTACGCTACCCTGCAATATAATTTATATATAATAATTCATTAAAAATAAAA CAAAAAATTAAAAGGAAATTTAAAAGAGCAAATATTTTATATATACAACATAATTTATTATATAT ACATATATATTTATATATATATATATATATATATATATATATATATATATATTAATTTTGTGCAC AAATGGAAATGTTTGAACTGTGAAATTAGAACATAAAAAAAAAAAAAAGAACATAATATAAAAAA ATAATATAGGTATTATATATATATATAATAATATATATATATAATATACATATTTTATATATCCA TAAAGGGAATGTATAATATATGAAATTATACCTCAAATATATATATATATATATATATATAATAT ATATATAATATATTTATATATATAGGATATATGGAAAGTTATATAATATTTTTGTTAATTATTAA AAAAAAAAAAAAATTTAATAATATATACATTGTTTAATATTTTAC Right flanking sequence: Indices 404014 -- 404513 CATCTTTTTTTTTTTTTTTTTTTTATTTTATATTTTTTCCCCTTTTATATTATAATTAAATGGTT GAAAAAGGAAAAAAGCACAAATTTATAGATACATGAAAAATAATATACATTTGTAAATAAATAAA TAAATAAAATATAAGATATATATATATTTATATATATATATTATATAATGTGTCAACAAAGTATA AGATAATATTATAATTCATATAAGATAATAATATACATTTATATATTTATAAAAAAATATATAAA ATAAAAGAATGGGTATTGTTATTTAAAAATATGAAAAATTCTTTTAATAATAAAGGAGGCTTGGT TAATACTACGAAAAAAATCGATGAATCTGATATAGAGCCTGTAGGTGAAGAAAAAGAAAAAGAAA AAAATGAAACAGATAAAATAAAACAAAATAATAATAATAATAATAATAATAAGTTGTACTGTGAG AATCCACAAAATGATAATATTATTAACAATTTATATAATTTAAAC Found at i:404231 original size:22 final size:23 Alignment explanation
Indices: 404205--404253 Score: 77 Period size: 22 Copynumber: 2.2 Consensus size: 23 404195 GTCAACAAAG * 404205 TATAAGATAATATTATA-ATTCA 1 TATAAGATAATAATATACATTCA * 404227 TATAAGATAATAATATACATTTA 1 TATAAGATAATAATATACATTCA 404250 TATA 1 TATA 404254 TTTATAAAAA Statistics Matches: 24, Mismatches: 2, Indels: 1 0.89 0.07 0.04 Matches are distributed among these distances: 22 16 0.67 23 8 0.33 ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41 Consensus pattern (23 bp): TATAAGATAATAATATACATTCA Left flanking sequence: Indices 403705 -- 404204 AAAAAAAAAGAACATAATATAAAAAAATAATATAGGTATTATATATATATATAATAATATATATA TATAATATACATATTTTATATATCCATAAAGGGAATGTATAATATATGAAATTATACCTCAAATA TATATATATATATATATATATAATATATATATAATATATTTATATATATAGGATATATGGAAAGT TATATAATATTTTTGTTAATTATTAAAAAAAAAAAAAAATTTAATAATATATACATTGTTTAATA TTTTACATTATATTTTTATAATTATTATATATTTTATGTTTTATATTTTCATCTTTTTTTTTTTT TTTTTTTTATTTTATATTTTTTCCCCTTTTATATTATAATTAAATGGTTGAAAAAGGAAAAAAGC ACAAATTTATAGATACATGAAAAATAATATACATTTGTAAATAAATAAATAAATAAAATATAAGA TATATATATATTTATATATATATATTATATAATGTGTCAACAAAG Right flanking sequence: Indices 404254 -- 404753 TTTATAAAAAAATATATAAAATAAAAGAATGGGTATTGTTATTTAAAAATATGAAAAATTCTTTT AATAATAAAGGAGGCTTGGTTAATACTACGAAAAAAATCGATGAATCTGATATAGAGCCTGTAGG TGAAGAAAAAGAAAAAGAAAAAAATGAAACAGATAAAATAAAACAAAATAATAATAATAATAATA ATAATAAGTTGTACTGTGAGAATCCACAAAATGATAATATTATTAACAATTTATATAATTTAAAC TCAAATGTAAAAATAAATAATAATGTTGAGGTAGTGGGTTTAAGTTCTAAAGAAAAGAACTATAT TAATACATATAAACATTTTCAAAATGATAAGGAAAAATATAAAAAGGAAAAAGAACATAATAATA AAAATATGTTTGAAAATAATAACTTTCATAATAATAATAAATATAATATTAATAATAAAAAGAAA AATTCCAAACATTTTGACATATTCATAGATAAAAGAAATGCTGTT Found at i:404412 original size:15 final size:15 Alignment explanation
Indices: 404385--404421 Score: 46 Period size: 15 Copynumber: 2.5 Consensus size: 15 404375 GCCTGTAGGT * 404385 GAAGAAAAAGAAAAA 1 GAAAAAAAAGAAAAA * * 404400 GAAAAAAATGAAACA 1 GAAAAAAAAGAAAAA * 404415 GATAAAA 1 GAAAAAA 404422 TAAAACAAAA Statistics Matches: 18, Mismatches: 4, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 15 18 1.00 ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05 Consensus pattern (15 bp): GAAAAAAAAGAAAAA Left flanking sequence: Indices 403885 -- 404384 GGATATATGGAAAGTTATATAATATTTTTGTTAATTATTAAAAAAAAAAAAAAATTTAATAATAT ATACATTGTTTAATATTTTACATTATATTTTTATAATTATTATATATTTTATGTTTTATATTTTC ATCTTTTTTTTTTTTTTTTTTTTATTTTATATTTTTTCCCCTTTTATATTATAATTAAATGGTTG AAAAAGGAAAAAAGCACAAATTTATAGATACATGAAAAATAATATACATTTGTAAATAAATAAAT AAATAAAATATAAGATATATATATATTTATATATATATATTATATAATGTGTCAACAAAGTATAA GATAATATTATAATTCATATAAGATAATAATATACATTTATATATTTATAAAAAAATATATAAAA TAAAAGAATGGGTATTGTTATTTAAAAATATGAAAAATTCTTTTAATAATAAAGGAGGCTTGGTT AATACTACGAAAAAAATCGATGAATCTGATATAGAGCCTGTAGGT Right flanking sequence: Indices 404422 -- 404921 TAAAACAAAATAATAATAATAATAATAATAATAAGTTGTACTGTGAGAATCCACAAAATGATAAT ATTATTAACAATTTATATAATTTAAACTCAAATGTAAAAATAAATAATAATGTTGAGGTAGTGGG TTTAAGTTCTAAAGAAAAGAACTATATTAATACATATAAACATTTTCAAAATGATAAGGAAAAAT ATAAAAAGGAAAAAGAACATAATAATAAAAATATGTTTGAAAATAATAACTTTCATAATAATAAT AAATATAATATTAATAATAAAAAGAAAAATTCCAAACATTTTGACATATTCATAGATAAAAGAAA TGCTGTTAACAGTATCTTAAGTTCCACATTCGCAGGTATTATGTCTCGTACTATGACAGCACCTT TAGATAGAGTAAAATATATAATGCAAATTACAAATAATTTACCTATATATGAAATATTCAAAATT ATTAAAAAAGATGGTATTATATGTGGATTTTTTCGAGGGAATTGT Found at i:404679 original size:18 final size:18 Alignment explanation
Indices: 404658--404702 Score: 62 Period size: 18 Copynumber: 2.5 Consensus size: 18 404648 TATGTTTGAA * * * 404658 AATAATAACTTTCATAAT 1 AATAATAAATATAATAAT * 404676 AATAATAAATATAATATT 1 AATAATAAATATAATAAT 404694 AATAATAAA 1 AATAATAAA 404703 AAGAAAAATT Statistics Matches: 23, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 18 23 1.00 ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36 Consensus pattern (18 bp): AATAATAAATATAATAAT Left flanking sequence: Indices 404158 -- 404657 GATATATATATATTTATATATATATATTATATAATGTGTCAACAAAGTATAAGATAATATTATAA TTCATATAAGATAATAATATACATTTATATATTTATAAAAAAATATATAAAATAAAAGAATGGGT ATTGTTATTTAAAAATATGAAAAATTCTTTTAATAATAAAGGAGGCTTGGTTAATACTACGAAAA AAATCGATGAATCTGATATAGAGCCTGTAGGTGAAGAAAAAGAAAAAGAAAAAAATGAAACAGAT AAAATAAAACAAAATAATAATAATAATAATAATAATAAGTTGTACTGTGAGAATCCACAAAATGA TAATATTATTAACAATTTATATAATTTAAACTCAAATGTAAAAATAAATAATAATGTTGAGGTAG TGGGTTTAAGTTCTAAAGAAAAGAACTATATTAATACATATAAACATTTTCAAAATGATAAGGAA AAATATAAAAAGGAAAAAGAACATAATAATAAAAATATGTTTGAA Right flanking sequence: Indices 404703 -- 405202 AAGAAAAATTCCAAACATTTTGACATATTCATAGATAAAAGAAATGCTGTTAACAGTATCTTAAG TTCCACATTCGCAGGTATTATGTCTCGTACTATGACAGCACCTTTAGATAGAGTAAAATATATAA TGCAAATTACAAATAATTTACCTATATATGAAATATTCAAAATTATTAAAAAAGATGGTATTATA TGTGGATTTTTTCGAGGGAATTGTGTTAATATTGTAAAAATTATTCCAGAGTTATCGATAAAAAT GTATTCATATGAATTTATGAAATTAAATGTTTATAAATATTATTATAATAATAAAAATAAAAATA ATAATGAAAATAATGATATCATACATACAGATGAACCAAATATGAATATTCCGTTTTTTATTCGT TTTTTAATAGGAAGTTCAAGTGGTGCTATAGCAGCTTTATTCATTTATCCTTTAGAAATTGTAAA AACAAGATTAATCGTTTCCAATAAAATTGATTCAAGTGGTATTAT Found at i:405095 original size:11 final size:12 Alignment explanation
Indices: 405074--405098 Score: 43 Period size: 11 Copynumber: 2.2 Consensus size: 12 405064 CAAATATGAA 405074 TATTCCGTTTTT 1 TATTCCGTTTTT 405086 TATT-CGTTTTT 1 TATTCCGTTTTT 405097 TA 1 TA 405099 ATAGGAAGTT Statistics Matches: 13, Mismatches: 0, Indels: 1 0.93 0.00 0.07 Matches are distributed among these distances: 11 9 0.69 12 4 0.31 ACGTcount: A:0.12, C:0.12, G:0.08, T:0.68 Consensus pattern (12 bp): TATTCCGTTTTT Left flanking sequence: Indices 404574 -- 405073 TATATTAATACATATAAACATTTTCAAAATGATAAGGAAAAATATAAAAAGGAAAAAGAACATAA TAATAAAAATATGTTTGAAAATAATAACTTTCATAATAATAATAAATATAATATTAATAATAAAA AGAAAAATTCCAAACATTTTGACATATTCATAGATAAAAGAAATGCTGTTAACAGTATCTTAAGT TCCACATTCGCAGGTATTATGTCTCGTACTATGACAGCACCTTTAGATAGAGTAAAATATATAAT GCAAATTACAAATAATTTACCTATATATGAAATATTCAAAATTATTAAAAAAGATGGTATTATAT GTGGATTTTTTCGAGGGAATTGTGTTAATATTGTAAAAATTATTCCAGAGTTATCGATAAAAATG TATTCATATGAATTTATGAAATTAAATGTTTATAAATATTATTATAATAATAAAAATAAAAATAA TAATGAAAATAATGATATCATACATACAGATGAACCAAATATGAA Right flanking sequence: Indices 405099 -- 405598 ATAGGAAGTTCAAGTGGTGCTATAGCAGCTTTATTCATTTATCCTTTAGAAATTGTAAAAACAAG ATTAATCGTTTCCAATAAAATTGATTCAAGTGGTATTATTAAATGTTTTTATGATATTTATAAAA ATGAACCATATAGACATTTCTATAATGGTTTATCTATGCATCTTTATGGAGTCATTTTATTTTCA GGATGTAATATGAGTATATATGATTATTTAAAATATTTATTCTTTTCCTTATATAAGGAATATAT TCATTCAAATTATTGTCTTACGAAAAATGATAACAAACAAAATAAAAATTTAACAAAAAAAAGTC CACATGACAAATTTAATCAATTAAATAATTATGAAAATTATAAAATTGGAAATAATAACAACATG GATAATAGTATTCATAAAAATAAACAAACAAATTCACAACAATATTATTCTCCATATATACATAA TGAAAATCGAAATGATAATTTTACTTTCAATTCTTTGAAAGAGGT Found at i:406366 original size:12 final size:12 Alignment explanation
Indices: 406341--406366 Score: 38 Period size: 12 Copynumber: 2.2 Consensus size: 12 406331 TATATATATT * 406341 TTTTTTTGTGTG 1 TTTATTTGTGTG * 406353 TTTATTTGTTTG 1 TTTATTTGTGTG 406365 TT 1 TT 406367 CGGGTGCTTA Statistics Matches: 12, Mismatches: 2, Indels: 0 0.86 0.14 0.00 Matches are distributed among these distances: 12 12 1.00 ACGTcount: A:0.04, C:0.00, G:0.19, T:0.77 Consensus pattern (12 bp): TTTATTTGTGTG Left flanking sequence: Indices 405841 -- 406340 CTTTTCTTGTTTTACGTACAAGGATGCAAACACTTAATAATGAGATAGCAACTAATTATCTGAAC AACGAAAGGAAGAAATTTAAGTCCTGTAGCTTTATTTTATACAACATCAAAATTTATGGATACAA ATCGTTATATCGAGGTACAACATATAACAAAAAAGGGAAAAATAAATAAATACATACATACATAC ATACATACATACATACATACATACATACATACATACATACATACATATATATATATATATATATA TATATATATATATATATATATATATATATATATAGGTACAGATTCGTTTTAATTTTTACATGTAC ATTTAATTTTTTTCCTTTAGGCGTTTATGTAAATTTGTTAAAAACCATACCTGCTACTTCTATCA CGTGGTTTGCCTACGAATATGCCATGCGGAAACTACAAAGGATTTAAGACATGAAATATATGGAT GAATAAATTAATATATATATATATATATATATATATATATATATT Right flanking sequence: Indices 406367 -- 406866 CGGGTGCTTACATATATTCTTATAACATGCATGGCCAAACCTTCGCCTTATCCTTTTTATATACC CTTATGGAAATATCCATAGGAACTTTCAAATTCTTTAAATATGTATCATCTTTAATTTTTTTATT TGGTTACACTTTGTAAGTTACATCTTAATTATCAAACTTGGGACAAGATTAGGAAGAAGAGGTAA TTTCTCATAGTTCACATATACATATGAACAGCTATTATATATATTGTAAGAATTAAATATATTTA ATTGAATATAGTTAATTTGATTAAAAGAGATATCAATATAATTTAATAAATTATCCATATGTAAC CTTTCAAGGTAAAAAGAATATATCTTCATTTTATTTTTCTTTGTTTTTGTATAATTCGTAAAATT TATGAATCCTTTTTCCTTCTTCATTTTAATCTTATAAATATTTTTAATATGTTCATCATATGTAA TATTTTTATCATATATAATATTTTTATCATATATAATATTTTTAT Found at i:406634 original size:14 final size:14 Alignment explanation
Indices: 406612--406643 Score: 50 Period size: 14 Copynumber: 2.3 Consensus size: 14 406602 ATATTGTAAG * 406612 AATTAAATATATTT 1 AATTAAATATAGTT * 406626 AATTGAATATAGTT 1 AATTAAATATAGTT 406640 AATT 1 AATT 406644 TGATTAAAAG Statistics Matches: 16, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 14 16 1.00 ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47 Consensus pattern (14 bp): AATTAAATATAGTT Left flanking sequence: Indices 406112 -- 406611 ATATATATATATATATATATATAGGTACAGATTCGTTTTAATTTTTACATGTACATTTAATTTTT TTCCTTTAGGCGTTTATGTAAATTTGTTAAAAACCATACCTGCTACTTCTATCACGTGGTTTGCC TACGAATATGCCATGCGGAAACTACAAAGGATTTAAGACATGAAATATATGGATGAATAAATTAA TATATATATATATATATATATATATATATATATTTTTTTTTGTGTGTTTATTTGTTTGTTCGGGT GCTTACATATATTCTTATAACATGCATGGCCAAACCTTCGCCTTATCCTTTTTATATACCCTTAT GGAAATATCCATAGGAACTTTCAAATTCTTTAAATATGTATCATCTTTAATTTTTTTATTTGGTT ACACTTTGTAAGTTACATCTTAATTATCAAACTTGGGACAAGATTAGGAAGAAGAGGTAATTTCT CATAGTTCACATATACATATGAACAGCTATTATATATATTGTAAG Right flanking sequence: Indices 406644 -- 407143 TGATTAAAAGAGATATCAATATAATTTAATAAATTATCCATATGTAACCTTTCAAGGTAAAAAGA ATATATCTTCATTTTATTTTTCTTTGTTTTTGTATAATTCGTAAAATTTATGAATCCTTTTTCCT TCTTCATTTTAATCTTATAAATATTTTTAATATGTTCATCATATGTAATATTTTTATCATATATA ATATTTTTATCATATATAATATTTTTATCATATATAATATTTTTATCATATATAATATTATTATC ATACATAATATTATTATCATACATAATATTATTATCATACATAATATTATTATCATACATAATAT TATTATCATACATAATATTATTATCATACGTAACATTTTTATTGCATTCAATATTTTCATGATAT ATAATATTTTCACAATTTGTACTATATTTTTTATAATTTAAAATATTTTCCCTGCATTTATTACT TGCACACTTTTTATGATTTTTCCATTTTAAATTATAATTTTTAAT Found at i:407045 original size:18 final size:18 Alignment explanation
Indices: 406801--407043 Score: 318 Period size: 18 Copynumber: 13.5 Consensus size: 18 406791 TAAATATTTT * * * 406801 TAATATGTTCATCATATG 1 TAATATTTTTATCATATA 406819 TAATATTTTTATCATATA 1 TAATATTTTTATCATATA 406837 TAATATTTTTATCATATA 1 TAATATTTTTATCATATA 406855 TAATATTTTTATCATATA 1 TAATATTTTTATCATATA 406873 TAATATTTTTATCATATA 1 TAATATTTTTATCATATA * * 406891 TAATATTATTATCATACA 1 TAATATTTTTATCATATA * * 406909 TAATATTATTATCATACA 1 TAATATTTTTATCATATA * * 406927 TAATATTATTATCATACA 1 TAATATTTTTATCATATA * * 406945 TAATATTATTATCATACA 1 TAATATTTTTATCATATA * * 406963 TAATATTATTATCATACA 1 TAATATTTTTATCATATA * ** 406981 TAATATTATTATCATACG 1 TAATATTTTTATCATATA * *** * 406999 TAACATTTTTATTGCATT 1 TAATATTTTTATCATATA * * * 407017 CAATATTTTCATGATATA 1 TAATATTTTTATCATATA 407035 TAATATTTT 1 TAATATTTT 407044 CACAATTTGT Statistics Matches: 204, Mismatches: 21, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 18 204 1.00 ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49 Consensus pattern (18 bp): TAATATTTTTATCATATA Left flanking sequence: Indices 406301 -- 406800 AATTAATATATATATATATATATATATATATATATATATTTTTTTTTGTGTGTTTATTTGTTTGT TCGGGTGCTTACATATATTCTTATAACATGCATGGCCAAACCTTCGCCTTATCCTTTTTATATAC CCTTATGGAAATATCCATAGGAACTTTCAAATTCTTTAAATATGTATCATCTTTAATTTTTTTAT TTGGTTACACTTTGTAAGTTACATCTTAATTATCAAACTTGGGACAAGATTAGGAAGAAGAGGTA ATTTCTCATAGTTCACATATACATATGAACAGCTATTATATATATTGTAAGAATTAAATATATTT AATTGAATATAGTTAATTTGATTAAAAGAGATATCAATATAATTTAATAAATTATCCATATGTAA CCTTTCAAGGTAAAAAGAATATATCTTCATTTTATTTTTCTTTGTTTTTGTATAATTCGTAAAAT TTATGAATCCTTTTTCCTTCTTCATTTTAATCTTATAAATATTTT Right flanking sequence: Indices 407044 -- 407543 CACAATTTGTACTATATTTTTTATAATTTAAAATATTTTCCCTGCATTTATTACTTGCACACTTT TTATGATTTTTCCATTTTAAATTATAATTTTTAATTTTTTTGTTACTTCCTGTTGTTATTCTTAA TATTGTTTTATCGATTTTGTGAAATAATTCATAAACTTCTCTTAAATCTTTTAACTTGAAAAAAT TTAAAAATGTATATTCCTTATTATTGTATAAAAAAAATATATTGAAATATAGGCCTAGAAGAAAA AGATGATCATTTAAGGTTAGCACCCTATCCCTATTAATATTATTATTATTATTATTATTATTATT ATATTTTAAATAATATTCTGTACATTTTACAAATGTTTTTATATATAACGAATAAATAGTTTTAT CATATATATTAGGAGGGAAGAAAACGAATCCATAATTATTTGTAACCATATTCTTATGTAAATAT GTATCTTTGTTCCTTTCATATATACATTTCTTTTTTTCATCTATT Found at i:407935 original size:12 final size:12 Alignment explanation
Indices: 407911--407935 Score: 36 Period size: 12 Copynumber: 2.1 Consensus size: 12 407901 TGTAGAATGG 407911 TCAAAATAGAAT 1 TCAAAATAGAAT * * 407923 TCATAATATAAT 1 TCAAAATAGAAT 407935 T 1 T 407936 TCTCATTTTA Statistics Matches: 11, Mismatches: 2, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 12 11 1.00 ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36 Consensus pattern (12 bp): TCAAAATAGAAT Left flanking sequence: Indices 407411 -- 407910 ATATAACGAATAAATAGTTTTATCATATATATTAGGAGGGAAGAAAACGAATCCATAATTATTTG TAACCATATTCTTATGTAAATATGTATCTTTGTTCCTTTCATATATACATTTCTTTTTTTCATCT ATTATTTCATTTATTGTTGTATATATTATTCGATATACATATTTGTCACATTTGTGTAGGACACA AAATTGTAATAATAATAGAAGGTGTTTTAAAGAATATTGTCTATATGATTTTTTAAAATGGTATA TTAATAAATCTAAAATTTTATCATTTTGTATATTCATTTGATTTATTATATTTAACAAAATATAT GTATGATCATTAGTAAGATGATAATTTTTTCTATTGCTTTTTTTTAATATATATACATATCTTAC ATCGTCATACATATAATTATTTAACATCATCGAATTGTTGCTTTTATATGTTCCTTTTTCATTAT TGATAACATTTAATTGATCTATAGAATAATAATTTTGTAGAATGG Right flanking sequence: Indices 407936 -- 408435 TCTCATTTTATTAAAATAATGAATGTGATTATTTATTCCTTGGTTATATAAAAATATATACATTT GTAAATTATTATGTGTGAATATATCTTCATATAAATAGTTGTCTTTGTGTGCAAAATCATAATTA TTTTCTTTAATAATATTTTTTATATTATCTATATTTATTTTATAATTTAATATATTTTTATAATA TGAAAGATATATATAAAAACTATGCAGCAATTTACAATTTTTCCATATATTATCTACAAGATTAC AATTATCTGTAACATTTTCAATCTTTTCATTTAAACACATATCATTATATTTATTTATAAAATTA TATAAATAAATATTACAACTATAAATATTAAAAAATGTCTGTTTCGTTTTTTTAAGAGGTATACA AAATGGTGCATTTTTATGATCCCTTTGGTGTATAACATTAGTACATATATGAGGAAAATTATTTT GTTCTGATATGAATTTATTACCACTATTAAAAAATATTTCCTGAT Found at i:408087 original size:13 final size:13 Alignment explanation
Indices: 408060--408087 Score: 35 Period size: 13 Copynumber: 2.2 Consensus size: 13 408050 TGCAAAATCA * * 408060 TAATTATTTTCTT 1 TAATAATATTCTT * 408073 TAATAATATTTTT 1 TAATAATATTCTT 408086 TA 1 TA 408088 TATTATCTAT Statistics Matches: 12, Mismatches: 3, Indels: 0 0.80 0.20 0.00 Matches are distributed among these distances: 13 12 1.00 ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64 Consensus pattern (13 bp): TAATAATATTCTT Left flanking sequence: Indices 407560 -- 408059 TATATATTATTCGATATACATATTTGTCACATTTGTGTAGGACACAAAATTGTAATAATAATAGA AGGTGTTTTAAAGAATATTGTCTATATGATTTTTTAAAATGGTATATTAATAAATCTAAAATTTT ATCATTTTGTATATTCATTTGATTTATTATATTTAACAAAATATATGTATGATCATTAGTAAGAT GATAATTTTTTCTATTGCTTTTTTTTAATATATATACATATCTTACATCGTCATACATATAATTA TTTAACATCATCGAATTGTTGCTTTTATATGTTCCTTTTTCATTATTGATAACATTTAATTGATC TATAGAATAATAATTTTGTAGAATGGTCAAAATAGAATTCATAATATAATTTCTCATTTTATTAA AATAATGAATGTGATTATTTATTCCTTGGTTATATAAAAATATATACATTTGTAAATTATTATGT GTGAATATATCTTCATATAAATAGTTGTCTTTGTGTGCAAAATCA Right flanking sequence: Indices 408088 -- 408587 TATTATCTATATTTATTTTATAATTTAATATATTTTTATAATATGAAAGATATATATAAAAACTA TGCAGCAATTTACAATTTTTCCATATATTATCTACAAGATTACAATTATCTGTAACATTTTCAAT CTTTTCATTTAAACACATATCATTATATTTATTTATAAAATTATATAAATAAATATTACAACTAT AAATATTAAAAAATGTCTGTTTCGTTTTTTTAAGAGGTATACAAAATGGTGCATTTTTATGATCC CTTTGGTGTATAACATTAGTACATATATGAGGAAAATTATTTTGTTCTGATATGAATTTATTACC ACTATTAAAAAATATTTCCTGATTTGTTTCATGATTTGTTTCATGATTTGTTTCATGATTTGTTT CATGATTTGTTTCATGATTTGTTTCATGATTTGTTCCATGATTTGTTCCATGATTTGTTCCATGA TTTGTTCCATGATTTGTTTCATGATTTGTTTCATGATTTGTTCCA Found at i:408668 original size:12 final size:12 Alignment explanation
Indices: 408427--408665 Score: 359 Period size: 12 Copynumber: 19.9 Consensus size: 12 408417 TTAAAAAATA * 408427 TTTCCTGATTTG 1 TTTCATGATTTG 408439 TTTCATGATTTG 1 TTTCATGATTTG 408451 TTTCATGATTTG 1 TTTCATGATTTG 408463 TTTCATGATTTG 1 TTTCATGATTTG 408475 TTTCATGATTTG 1 TTTCATGATTTG 408487 TTTCATGATTTG 1 TTTCATGATTTG 408499 TTTCATGATTTG 1 TTTCATGATTTG * 408511 TTCCATGATTTG 1 TTTCATGATTTG * 408523 TTCCATGATTTG 1 TTTCATGATTTG * 408535 TTCCATGATTTG 1 TTTCATGATTTG * 408547 TTCCATGATTTG 1 TTTCATGATTTG 408559 TTTCATGATTTG 1 TTTCATGATTTG 408571 TTTCATGATTTG 1 TTTCATGATTTG * 408583 TTCCATGATTTG 1 TTTCATGATTTG * * 408595 TTTCCTGATTTA 1 TTTCATGATTTG * * 408607 TTTCCTGATTTA 1 TTTCATGATTTG * * 408619 TTTCCTGATTTA 1 TTTCATGATTTG * * 408631 TTTCCTGATTTA 1 TTTCATGATTTG * * 408643 TTTCCTGATTTA 1 TTTCATGATTTG * 408655 TTTCCTGATTT 1 TTTCATGATTT 408666 ATTGTCTCAT Statistics Matches: 220, Mismatches: 7, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 12 220 1.00 ACGTcount: A:0.16, C:0.13, G:0.14, T:0.56 Consensus pattern (12 bp): TTTCATGATTTG Left flanking sequence: Indices 407927 -- 408426 AATATAATTTCTCATTTTATTAAAATAATGAATGTGATTATTTATTCCTTGGTTATATAAAAATA TATACATTTGTAAATTATTATGTGTGAATATATCTTCATATAAATAGTTGTCTTTGTGTGCAAAA TCATAATTATTTTCTTTAATAATATTTTTTATATTATCTATATTTATTTTATAATTTAATATATT TTTATAATATGAAAGATATATATAAAAACTATGCAGCAATTTACAATTTTTCCATATATTATCTA CAAGATTACAATTATCTGTAACATTTTCAATCTTTTCATTTAAACACATATCATTATATTTATTT ATAAAATTATATAAATAAATATTACAACTATAAATATTAAAAAATGTCTGTTTCGTTTTTTTAAG AGGTATACAAAATGGTGCATTTTTATGATCCCTTTGGTGTATAACATTAGTACATATATGAGGAA AATTATTTTGTTCTGATATGAATTTATTACCACTATTAAAAAATA Right flanking sequence: Indices 408666 -- 409165 ATTGTCTCATTTATTTTCTCATTTATTGTATGGATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT ATTATGTTCACATTGTGGATATAAAAATAATGTATTATTCATTTCATTGTACATATGATAATGTT GACATATTTTATTTATTAATGTTTTAAAAAAGAAATTATTTATATAATAAAAATTATATATCAAA TTAGTTATATCTGTATCTTTACATTTCTTGATATTCTTAAAAATTTTATCTAATATCTTATTATG TAGTTCTATGGTTATATTTTCTCTACATAAAAAACTATATAATATACATAAATTTTTGATTTGTT TAAAATTATCTAAATAATCATTACTTCTTTTTATAATTTGCTTAGTTATTACATCTGTACTTTTC TCGTTTCTTATATATCTTTCTGAATATAATTTATAACTATGCTTAATACAACTTAGAAAGGTTAA TACTGTTGATAAGTCATCTTCATCAAGCTTATCTAAATTTTTTTC Found at i:408706 original size:24 final size:24 Alignment explanation
Indices: 408600--408707 Score: 102 Period size: 24 Copynumber: 4.5 Consensus size: 24 408590 ATTTGTTTCC * * *** 408600 TGATTTATTTCCTGATTTATTTCC 1 TGATTTATTTTCTCATTTATTGTA * * *** 408624 TGATTTATTTCCTGATTTATTTCC 1 TGATTTATTTTCTCATTTATTGTA * * * 408648 TGATTTATTTCCTGATTTATTGTC 1 TGATTTATTTTCTCATTTATTGTA * 408672 TCATTTATTTTCTCATTTATTGTA 1 TGATTTATTTTCTCATTTATTGTA * 408696 TGGATTTTTTTT 1 T-GATTTATTTT 408708 TTTTTTTTTT Statistics Matches: 75, Mismatches: 8, Indels: 1 0.89 0.10 0.01 Matches are distributed among these distances: 24 67 0.89 25 8 0.11 ACGTcount: A:0.17, C:0.13, G:0.09, T:0.61 Consensus pattern (24 bp): TGATTTATTTTCTCATTTATTGTA Left flanking sequence: Indices 408100 -- 408599 TTATTTTATAATTTAATATATTTTTATAATATGAAAGATATATATAAAAACTATGCAGCAATTTA CAATTTTTCCATATATTATCTACAAGATTACAATTATCTGTAACATTTTCAATCTTTTCATTTAA ACACATATCATTATATTTATTTATAAAATTATATAAATAAATATTACAACTATAAATATTAAAAA ATGTCTGTTTCGTTTTTTTAAGAGGTATACAAAATGGTGCATTTTTATGATCCCTTTGGTGTATA ACATTAGTACATATATGAGGAAAATTATTTTGTTCTGATATGAATTTATTACCACTATTAAAAAA TATTTCCTGATTTGTTTCATGATTTGTTTCATGATTTGTTTCATGATTTGTTTCATGATTTGTTT CATGATTTGTTTCATGATTTGTTCCATGATTTGTTCCATGATTTGTTCCATGATTTGTTCCATGA TTTGTTTCATGATTTGTTTCATGATTTGTTCCATGATTTGTTTCC Right flanking sequence: Indices 408708 -- 409207 TTTTTTTTTTTTTTTTTTTTTTTATTATGTTCACATTGTGGATATAAAAATAATGTATTATTCAT TTCATTGTACATATGATAATGTTGACATATTTTATTTATTAATGTTTTAAAAAAGAAATTATTTA TATAATAAAAATTATATATCAAATTAGTTATATCTGTATCTTTACATTTCTTGATATTCTTAAAA ATTTTATCTAATATCTTATTATGTAGTTCTATGGTTATATTTTCTCTACATAAAAAACTATATAA TATACATAAATTTTTGATTTGTTTAAAATTATCTAAATAATCATTACTTCTTTTTATAATTTGCT TAGTTATTACATCTGTACTTTTCTCGTTTCTTATATATCTTTCTGAATATAATTTATAACTATGC TTAATACAACTTAGAAAGGTTAATACTGTTGATAAGTCATCTTCATCAAGCTTATCTAAATTTTT TTCTATGGCATCTTTTATATAATTCATTACATCCTTTTCATAAAT Found at i:409887 original size:15 final size:16 Alignment explanation
Indices: 409858--409945 Score: 146 Period size: 16 Copynumber: 5.6 Consensus size: 16 409848 TTAAATATAC 409858 AAGAAAGATAAAAAAAA 1 AAGAAAGA-AAAAAAAA * 409875 AAGAAAAAAAAAAAAA 1 AAGAAAGAAAAAAAAA 409891 AAGAAAGAAAAAAAAA 1 AAGAAAGAAAAAAAAA 409907 AAGAAAG-AAAAAAAA 1 AAGAAAGAAAAAAAAA 409922 AAGAAAGAAAAAAAAA 1 AAGAAAGAAAAAAAAA 409938 AA-AAAGAA 1 AAGAAAGAA 409946 TAGGGTATAT Statistics Matches: 68, Mismatches: 2, Indels: 4 0.92 0.03 0.05 Matches are distributed among these distances: 15 21 0.31 16 40 0.59 17 7 0.10 ACGTcount: A:0.88, C:0.00, G:0.11, T:0.01 Consensus pattern (16 bp): AAGAAAGAAAAAAAAA Left flanking sequence: Indices 409358 -- 409857 AATAAAGGGTTATGTATACAGCAATAATTATAATATCTCCAAAGGGGTATATACATAATTGTATA TGTAATATATATATATATATATATATATATATATATTTATTTATTTATTTATTTAATTCATTAAA TTGTGCTTACCATTTTTAGGAGACGTATTAGATAAACAAAGGTACAGGCCCTTGGAAAAATTAAT TAAATCTATATAACTTTTTTGTTTTATATGGTCATAAAATCTTGACAAAGTTCTGATGTTCATAC ATTTATATATGTAGGGAATATAAGAACACCCTCTAAGCATATTACATTATTCAAAAAAATTTATA TGGTTATAGGTAATGTTAACAACAATAATATTTTGAGAAAAGGGCAATTATGTCTTTATATATAT ATATTATATTGCTATGTATTTATATTTTATTTATTTTTAATCATATATATTTTTACAATTTATAC AAGTCTGTTCAAAAGTTTATTTCATATAAATTTTTTTAAATATAC Right flanking sequence: Indices 409946 -- 410445 TAGGGTATATTATGATCATATAAATATAAAAATAAATATATATATATTCATATATTTATATGTTT ATATAGTGGCTATAAAGCATTTATGTAAAGTTACAAAAAAAAAATTGAGCAAATGAAAAACCTAT ATAATCTTATCATATCACAATTATAATTTTTAATTAAATTTTAAAATATACATATATATATATAT ATATATATATATATATATATATATATATATTTTATAATGCAATTTTTCCGTTTAATGTTATAGAG CTCAATCACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAATTATATATAATATGTA TATATTTATTTATTTGTGTAAATGCATGAATATATATCATACTTGTGTCAATAAATTTTATACTC TTTTGCTGCTTTTCTCAATTTATCGTAAAAGAAAATATTTTTCTGCAACTCTTTATTATAGTCTT CATTTATTTCAAATTCTTTACATACTTTAATAAAATGGGTTATGC Found at i:410117 original size:12 final size:13 Alignment explanation
Indices: 410094--410125 Score: 43 Period size: 12 Copynumber: 2.5 Consensus size: 13 410084 ATCATATCAC 410094 AATTATAATTTTT 1 AATTATAATTTTT * 410107 AATTA-AATTTTA 1 AATTATAATTTTT * 410119 AAATATA 1 AATTATA 410126 CATATATATA Statistics Matches: 16, Mismatches: 2, Indels: 2 0.80 0.10 0.10 Matches are distributed among these distances: 12 10 0.62 13 6 0.38 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (13 bp): AATTATAATTTTT Left flanking sequence: Indices 409594 -- 410093 TTGACAAAGTTCTGATGTTCATACATTTATATATGTAGGGAATATAAGAACACCCTCTAAGCATA TTACATTATTCAAAAAAATTTATATGGTTATAGGTAATGTTAACAACAATAATATTTTGAGAAAA GGGCAATTATGTCTTTATATATATATATTATATTGCTATGTATTTATATTTTATTTATTTTTAAT CATATATATTTTTACAATTTATACAAGTCTGTTCAAAAGTTTATTTCATATAAATTTTTTTAAAT ATACAAGAAAGATAAAAAAAAAAGAAAAAAAAAAAAAAAGAAAGAAAAAAAAAAAGAAAGAAAAA AAAAAGAAAGAAAAAAAAAAAAAAGAATAGGGTATATTATGATCATATAAATATAAAAATAAATA TATATATATTCATATATTTATATGTTTATATAGTGGCTATAAAGCATTTATGTAAAGTTACAAAA AAAAAATTGAGCAAATGAAAAACCTATATAATCTTATCATATCAC Right flanking sequence: Indices 410126 -- 410625 CATATATATATATATATATATATATATATATATATATATATATATTTTATAATGCAATTTTTCCG TTTAATGTTATAGAGCTCAATCACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAT TATATATAATATGTATATATTTATTTATTTGTGTAAATGCATGAATATATATCATACTTGTGTCA ATAAATTTTATACTCTTTTGCTGCTTTTCTCAATTTATCGTAAAAGAAAATATTTTTCTGCAACT CTTTATTATAGTCTTCATTTATTTCAAATTCTTTACATACTTTAATAAAATGGGTTATGCAACTT TTAATAAAAACTCTATAAAATGAAATTCAAACCCTCATAAATATATAAGAATAATTATACATGTT TATATTTTATGATTTATAAAAAAAAAAAGGAAAACTACACATTCATACTTTGTTATAAAAGATAT AAAAAATTCATTGAAATTCATGTTTGGTGATATTTCAACATAACA Found at i:410980 original size:14 final size:13 Alignment explanation
Indices: 410963--411003 Score: 38 Period size: 12 Copynumber: 3.2 Consensus size: 13 410953 TAAATACCTA 410963 ATAAAAAATATCAT 1 ATAAAAAATAT-AT * * 410977 ATAATATATATAT 1 ATAAAAAATATAT * * 410990 AT-ATATATATAT 1 ATAAAAAATATAT 411002 AT 1 AT 411004 TTATATAATA Statistics Matches: 25, Mismatches: 2, Indels: 2 0.86 0.07 0.07 Matches are distributed among these distances: 12 12 0.48 13 4 0.16 14 9 0.36 ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41 Consensus pattern (13 bp): ATAAAAAATATAT Left flanking sequence: Indices 410463 -- 410962 CTATAAAATGAAATTCAAACCCTCATAAATATATAAGAATAATTATACATGTTTATATTTTATGA TTTATAAAAAAAAAAAGGAAAACTACACATTCATACTTTGTTATAAAAGATATAAAAAATTCATT GAAATTCATGTTTGGTGATATTTCAACATAACACTTAACATTAGTTTTGTCAAAACTTTTTGGAC ATATGAAAGCATGAATGCTCATGTCAATTTCTATACAATTATCAGTATCAAAGTTGACATTATTC TGAAAAAAAAAAAAAAAAAAAAAAAAAAAAATTACATACATATATATACACATATATATATATAT ATATATATATATATATATAATTTTTCTATAAATGCAAGTATATAAATTTCTTATGCATTATATTT TTCATAATACATTTATTTCGGTATTTCTCGGGAAATTGGTAGCATATAAAAATATACCCCTTGAG TATTCAAAATCTTCACATATCCATACATCCATTAATAAATACCTA Right flanking sequence: Indices 411004 -- 411503 TTATATAATAATCATATTCTTATGTAAAGCGGATAATATTATATAACCTATCCCTAATTATCCAC GGCATAGCTATTTTGGTATATACCATTTTATCTATTAAACCTCTTTCTTTTAATAATTTACAATC AGTGATTCCAAATCTGGATAATAAAAAGATCGATATCAAAATGAAAAAAAAAAAAAAAAAAAAAA AAAAAAAAATACACACACACACACACATATATATATATATATATATATACATATATATGTATATA TTTTTTTTTTTTTTTTTTTTTTTCAACTTGAATGGAAATGTATAAAAGGGAATCCACGACTTGAA TAATGTTGCTTCAATCAATGATGCTATAATATATATAAAATTTGATGGTATTAATAAATTAACAT AAAAATATATGACTGTATTAAAATCACTTTTTTCATCACATTTTTCTAAAGAAATATTTTGTGAA TTTTGTTCTATACTATGTGATTTTTTATTTATGTATAAATGATTT Found at i:411437 original size:12 final size:12 Alignment explanation
Indices: 411416--411439 Score: 41 Period size: 12 Copynumber: 2.0 Consensus size: 12 411406 CTGTATTAAA * 411416 ATCACTTTTTTC 1 ATCACATTTTTC 411428 ATCACATTTTTC 1 ATCACATTTTTC 411440 TAAAGAAATA Statistics Matches: 11, Mismatches: 1, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 12 11 1.00 ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54 Consensus pattern (12 bp): ATCACATTTTTC Left flanking sequence: Indices 410916 -- 411415 AGTATTCAAAATCTTCACATATCCATACATCCATTAATAAATACCTAATAAAAAATATCATATAA TATATATATATATATATATATATTTATATAATAATCATATTCTTATGTAAAGCGGATAATATTAT ATAACCTATCCCTAATTATCCACGGCATAGCTATTTTGGTATATACCATTTTATCTATTAAACCT CTTTCTTTTAATAATTTACAATCAGTGATTCCAAATCTGGATAATAAAAAGATCGATATCAAAAT GAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATACACACACACACACACATATATATATATATAT ATATATACATATATATGTATATATTTTTTTTTTTTTTTTTTTTTTTCAACTTGAATGGAAATGTA TAAAAGGGAATCCACGACTTGAATAATGTTGCTTCAATCAATGATGCTATAATATATATAAAATT TGATGGTATTAATAAATTAACATAAAAATATATGACTGTATTAAA Right flanking sequence: Indices 411440 -- 411939 TAAAGAAATATTTTGTGAATTTTGTTCTATACTATGTGATTTTTTATTTATGTATAAATGATTTT TTTTATTTTTATTTATTTTTTTATATTGTTCTGGTTCCGAATTTTTCCTATCGTCTTCTTTTATA TGATCATGTTCTACATCTAAATGTGTCATATTAATATCTTCTACACGTTCAACTGTTTTTTTTTT TATTGTTTTGTTTTCTTCCTTCTTTCCCTCTTTTTCTATATAATAAGAAAAGCTAGAACTCCTCC TTAATAGGGCATATTCCTTTTTGGTCACGTAATAAAAAACTTCATTATCTTCATCCTCATAAGCA AGATTAAAATGAGAAAAATCTATATATACATTTGATATACATTTATCACACATACTTTCACTTTT TTTTTTTTTTTTTTTTTTTTCTTTTTGGTTTTTGCTCCTTCCTTTGATGTTATTTTTAGAGTATA TATTTTTGTTCTTCTTTTCAAGGTCACTAAATTCTTCACTACTTA Found at