TRAP (Tandem Repeats Analysis Program) TRF Version 4.00 Sequence: 97739975 P. falciparum 3D7 GENOMIC pfal_chr3 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: 1060087 ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40 Found at i: i:320242 original size:2 final size:2 Alignment explanation
Indices: 320235--320260 Score: 43 Period size: 2 Copynumber: 12.5 Consensus size: 2 320225 AACAAATAAT 320235 TA TA TA TA TA TA TA TA TA TA TCA TA T 1 TA TA TA TA TA TA TA TA TA TA T-A TA T 320261 GTGTTATAAC Statistics Matches: 23, Mismatches: 0, Indels: 2 0.92 0.00 0.08 Matches are distributed among these distances: 2 21 0.91 3 2 0.09 ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50 Consensus pattern (2 bp): TA Left flanking sequence: Indices 319735 -- 320234 TATATATATATAACATATTTATACATGTGTGTGTATATAAAATAAAAAATCGTTGTAATATATCA TATTTTTCAATATATTTTATAAAATATATATATATATATATATATTATATTATGAATGAAAATAA CTATGCTAATTATACTTATTAAGGACTTCTATAATTTTTAAATATCTTAATGTGGCGATTTTAGC TTCCCCTATAAAAATAAATAAATAAATAAATAAATAAATATATTTAATATATATATATATATTTA TATTTTGATTACAAAAAAAAAAAAAAAAAAAATATGTCGCATAAAACCTTGTGAGACTATTTTTT TTCTTTTATATTATATTATACCTGTTTGTCCAAATACTTGTAAATTCATTCTCATCAATTCTAAC TTTTCCACGGGGAGACAACTAAAAAAAAAATGAAAAATAAAAAAATAAATGATTATGATAAAATT AATATTGCTAATATGTGTAGATGACCATATAAATAAACAAATAAT Right flanking sequence: Indices 320261 -- 320760 GTGTTATAACAAATCATGTTTTTTTTAAATTTTATTATTATTTTTACTTTCCATATTTTATAGCC ATATCATATAATGTCTTATAAATCATATTAATATCCTGTAATTTTGCTCTCCTTCTTATTAGAGC GGGTACTGTTTGAAAAGTTGCATCGTCTATTGGCACAAAAAAGTTTTCTTTCTCATTCATATTTC TTAGATCATCATGTTCGTTATTATTCATATTATTCATATTATTCGTATTATTCATATTATTCGTA TTATTCATATTATTCGTATTGTTCATATTATTCATATTATTCGTATTATTCGTATTATTCGTATT ATTCGTATTGTTCATATTATTCGTATTATTAATATTATTCGTATTATTAATATTATTCGTATTAT TCGTATTATTCATATTATTCGTATTGTTCATATTATTCATATTATTCATATTATTTTTATTAGAC ATACCATTTGTGTATAAATCTTGCTTTTCCATTTCATGATACTCA Found at i:320791 original size:6 final size:6 Alignment explanation
Indices: 320777--320792 Score: 25 Period size: 6 Copynumber: 2.7 Consensus size: 6 320767 CCAGTAGACG * 320777 AATTTA AATTAA AATT 1 AATTAA AATTAA AATT 320793 TTTTGAATTC Statistics Matches: 9, Mismatches: 1, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 6 9 1.00 ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44 Consensus pattern (6 bp): AATTAA Left flanking sequence: Indices 320277 -- 320776 TGTTTTTTTTAAATTTTATTATTATTTTTACTTTCCATATTTTATAGCCATATCATATAATGTCT TATAAATCATATTAATATCCTGTAATTTTGCTCTCCTTCTTATTAGAGCGGGTACTGTTTGAAAA GTTGCATCGTCTATTGGCACAAAAAAGTTTTCTTTCTCATTCATATTTCTTAGATCATCATGTTC GTTATTATTCATATTATTCATATTATTCGTATTATTCATATTATTCGTATTATTCATATTATTCG TATTGTTCATATTATTCATATTATTCGTATTATTCGTATTATTCGTATTATTCGTATTGTTCATA TTATTCGTATTATTAATATTATTCGTATTATTAATATTATTCGTATTATTCGTATTATTCATATT ATTCGTATTGTTCATATTATTCATATTATTCATATTATTTTTATTAGACATACCATTTGTGTATA AATCTTGCTTTTCCATTTCATGATACTCATTTGTCCCAGTAGACG Right flanking sequence: Indices 320793 -- 321292 TTTTGAATTCATATGTTCATTATACATTTTATTTATATTCGATTGTACTGGTGTTTGCCTATACA TATACTTCCGTTGATATTCTAGAAAGATTATATTATTTATTTCATTATAATTTATATTTAATAAA AATTTTTTGATATTTTCATAGAAATAGTTCTTTAGTAATATTTCGGAACTATGATAATTATGAAA ATATCTTGAAGGACAATTTAAATTATTTTCTAAATTTAATAAGAAATTATAATTTTGCATTTGTC TATGTAAATATTTTATGCTCATATTTTTCTTTATATACAAATTATTCAGTTCCTTATGTATATTC TCTAAATCTTTTTTAATTTTATCGAAATCGTTTAATAAATAATATGGATTTATATTATCTTCATA TAATTTTCCCATCTCATCTTTTAATTTCCTTTCTATTAATTCAATGTCACTGTTCATATTTAAAA ACTGAAACAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAGTGTCAA Found at i:321296 original size:1 final size:1 Alignment explanation
Indices: 321252--321285 Score: 54 Period size: 1 Copynumber: 34.0 Consensus size: 1 321242 TTAAAAACTG * * 321252 AAACAAAAAAAAAAAAAAAAAAAAAAAAAGAAAA 1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 321286 GTGTCAAAAA Statistics Matches: 29, Mismatches: 4, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 1 29 1.00 ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00 Consensus pattern (1 bp): A Left flanking sequence: Indices 320752 -- 321251 TGATACTCATTTGTCCCAGTAGACGAATTTAAATTAAAATTTTTTGAATTCATATGTTCATTATA CATTTTATTTATATTCGATTGTACTGGTGTTTGCCTATACATATACTTCCGTTGATATTCTAGAA AGATTATATTATTTATTTCATTATAATTTATATTTAATAAAAATTTTTTGATATTTTCATAGAAA TAGTTCTTTAGTAATATTTCGGAACTATGATAATTATGAAAATATCTTGAAGGACAATTTAAATT ATTTTCTAAATTTAATAAGAAATTATAATTTTGCATTTGTCTATGTAAATATTTTATGCTCATAT TTTTCTTTATATACAAATTATTCAGTTCCTTATGTATATTCTCTAAATCTTTTTTAATTTTATCG AAATCGTTTAATAAATAATATGGATTTATATTATCTTCATATAATTTTCCCATCTCATCTTTTAA TTTCCTTTCTATTAATTCAATGTCACTGTTCATATTTAAAAACTG Right flanking sequence: Indices 321286 -- 321785 GTGTCAAAAAATAATAACAAATGGTCTTATATGTACACAAAATAATCTTACAAAAAAAAAAAACA TAATGATACATAAATGTGTAGGAAAAAAAAAAAAAATTTTTTTTTTTTTTTTTTTTTTTTTTGTA TGCACTTATATAATCATATAAAACTATATATTCCTCTCGATATAATAATCAATTTTGGTTTACCT TTTCCTTTAATGTTTCTATTGATAACTCCATTTTTTTCTCTTTTTATTACAAAAAGGGTTTATAT ATATATATAAAATATTATATTTTAATACAACAATGTTGTATATTTATCTGTATGGTTAATAGTAA TATGGTATATTCTTGCTTTTCAGAATGTTAAAAATATAAAGTATTAAATATTGAATATTAAAAAG TAAAAGGATATAAAAAAAAAATAAGAAAAAGAAAAACAAAATCGTAATATAATAAAATAAAATAA AATAAAGGTGATAAAAAAAAAAATGTATGTATACATCACATACTA Found at i:321379 original size:1 final size:1 Alignment explanation
Indices: 321373--321386 Score: 28 Period size: 1 Copynumber: 14.0 Consensus size: 1 321363 AATGTGTAGG 321373 AAAAAAAAAAAAAA 1 AAAAAAAAAAAAAA 321387 TTTTTTTTTT Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 13 1.00 ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00 Consensus pattern (1 bp): A Left flanking sequence: Indices 320873 -- 321372 ATTCTAGAAAGATTATATTATTTATTTCATTATAATTTATATTTAATAAAAATTTTTTGATATTT TCATAGAAATAGTTCTTTAGTAATATTTCGGAACTATGATAATTATGAAAATATCTTGAAGGACA ATTTAAATTATTTTCTAAATTTAATAAGAAATTATAATTTTGCATTTGTCTATGTAAATATTTTA TGCTCATATTTTTCTTTATATACAAATTATTCAGTTCCTTATGTATATTCTCTAAATCTTTTTTA ATTTTATCGAAATCGTTTAATAAATAATATGGATTTATATTATCTTCATATAATTTTCCCATCTC ATCTTTTAATTTCCTTTCTATTAATTCAATGTCACTGTTCATATTTAAAAACTGAAACAAAAAAA AAAAAAAAAAAAAAAAAAGAAAAGTGTCAAAAAATAATAACAAATGGTCTTATATGTACACAAAA TAATCTTACAAAAAAAAAAAACATAATGATACATAAATGTGTAGG Right flanking sequence: Indices 321387 -- 321886 TTTTTTTTTTTTTTTTTTTTTTTTTTGTATGCACTTATATAATCATATAAAACTATATATTCCTC TCGATATAATAATCAATTTTGGTTTACCTTTTCCTTTAATGTTTCTATTGATAACTCCATTTTTT TCTCTTTTTATTACAAAAAGGGTTTATATATATATATAAAATATTATATTTTAATACAACAATGT TGTATATTTATCTGTATGGTTAATAGTAATATGGTATATTCTTGCTTTTCAGAATGTTAAAAATA TAAAGTATTAAATATTGAATATTAAAAAGTAAAAGGATATAAAAAAAAAATAAGAAAAAGAAAAA CAAAATCGTAATATAATAAAATAAAATAAAATAAAGGTGATAAAAAAAAAAATGTATGTATACAT CACATACTAATTCAATACTATATATAAATAATATTATATATATATATATATATATATATATATTA GTTATTTTTTTGTTTGCCTTCCCATAAAATATACTTTTAAATATA Found at i:321391 original size:1 final size:1 Alignment explanation
Indices: 321387--321412 Score: 52 Period size: 1 Copynumber: 26.0 Consensus size: 1 321377 AAAAAAAAAA 321387 TTTTTTTTTTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTT 321413 GTATGCACTT Statistics Matches: 25, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 25 1.00 ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00 Consensus pattern (1 bp): T Left flanking sequence: Indices 320887 -- 321386 ATATTATTTATTTCATTATAATTTATATTTAATAAAAATTTTTTGATATTTTCATAGAAATAGTT CTTTAGTAATATTTCGGAACTATGATAATTATGAAAATATCTTGAAGGACAATTTAAATTATTTT CTAAATTTAATAAGAAATTATAATTTTGCATTTGTCTATGTAAATATTTTATGCTCATATTTTTC TTTATATACAAATTATTCAGTTCCTTATGTATATTCTCTAAATCTTTTTTAATTTTATCGAAATC GTTTAATAAATAATATGGATTTATATTATCTTCATATAATTTTCCCATCTCATCTTTTAATTTCC TTTCTATTAATTCAATGTCACTGTTCATATTTAAAAACTGAAACAAAAAAAAAAAAAAAAAAAAA AAAAGAAAAGTGTCAAAAAATAATAACAAATGGTCTTATATGTACACAAAATAATCTTACAAAAA AAAAAAACATAATGATACATAAATGTGTAGGAAAAAAAAAAAAAA Right flanking sequence: Indices 321413 -- 321912 GTATGCACTTATATAATCATATAAAACTATATATTCCTCTCGATATAATAATCAATTTTGGTTTA CCTTTTCCTTTAATGTTTCTATTGATAACTCCATTTTTTTCTCTTTTTATTACAAAAAGGGTTTA TATATATATATAAAATATTATATTTTAATACAACAATGTTGTATATTTATCTGTATGGTTAATAG TAATATGGTATATTCTTGCTTTTCAGAATGTTAAAAATATAAAGTATTAAATATTGAATATTAAA AAGTAAAAGGATATAAAAAAAAAATAAGAAAAAGAAAAACAAAATCGTAATATAATAAAATAAAA TAAAATAAAGGTGATAAAAAAAAAAATGTATGTATACATCACATACTAATTCAATACTATATATA AATAATATTATATATATATATATATATATATATATATTAGTTATTTTTTTGTTTGCCTTCCCATA AAATATACTTTTAAATATATATATATATATATATGTATGTATGTA Found at i:321548 original size:2 final size:2 Alignment explanation
Indices: 321541--321565 Score: 29 Period size: 2 Copynumber: 13.5 Consensus size: 2 321531 AAAAAGGGTT * 321541 TA TA TA TA TA TA TA -A AA TA T- TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA T 321566 TTTAATACAA Statistics Matches: 20, Mismatches: 1, Indels: 4 0.80 0.04 0.16 Matches are distributed among these distances: 1 2 0.10 2 18 0.90 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): TA Left flanking sequence: Indices 321041 -- 321540 TTTGCATTTGTCTATGTAAATATTTTATGCTCATATTTTTCTTTATATACAAATTATTCAGTTCC TTATGTATATTCTCTAAATCTTTTTTAATTTTATCGAAATCGTTTAATAAATAATATGGATTTAT ATTATCTTCATATAATTTTCCCATCTCATCTTTTAATTTCCTTTCTATTAATTCAATGTCACTGT TCATATTTAAAAACTGAAACAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAGTGTCAAAAAATAAT AACAAATGGTCTTATATGTACACAAAATAATCTTACAAAAAAAAAAAACATAATGATACATAAAT GTGTAGGAAAAAAAAAAAAAATTTTTTTTTTTTTTTTTTTTTTTTTTGTATGCACTTATATAATC ATATAAAACTATATATTCCTCTCGATATAATAATCAATTTTGGTTTACCTTTTCCTTTAATGTTT CTATTGATAACTCCATTTTTTTCTCTTTTTATTACAAAAAGGGTT Right flanking sequence: Indices 321566 -- 322065 TTTAATACAACAATGTTGTATATTTATCTGTATGGTTAATAGTAATATGGTATATTCTTGCTTTT CAGAATGTTAAAAATATAAAGTATTAAATATTGAATATTAAAAAGTAAAAGGATATAAAAAAAAA ATAAGAAAAAGAAAAACAAAATCGTAATATAATAAAATAAAATAAAATAAAGGTGATAAAAAAAA AAATGTATGTATACATCACATACTAATTCAATACTATATATAAATAATATTATATATATATATAT ATATATATATATATTAGTTATTTTTTTGTTTGCCTTCCCATAAAATATACTTTTAAATATATATA TATATATATATGTATGTATGTATGTATGTACGTATTTATTTATTTAATAAAGGAATATGGTTTAT CCCCACTATATTCACATGTTAATATTTCAAAATGATTCTTCATATATTTATCATTCACAATTTAT ACTTTTAAAAATAAAACAAATTTAATGTAAATATTTGTTAAATTA Found at i:321691 original size:1 final size:1 Alignment explanation
Indices: 321687--321716 Score: 32 Period size: 1 Copynumber: 30.0 Consensus size: 1 321677 AAAAGGATAT * * * * 321687 AAAAAAAAAATAAGAAAAAGAAAAACAAAA 1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 321717 TCGTAATATA Statistics Matches: 21, Mismatches: 8, Indels: 0 0.72 0.28 0.00 Matches are distributed among these distances: 1 21 1.00 ACGTcount: A:0.87, C:0.03, G:0.07, T:0.03 Consensus pattern (1 bp): A Left flanking sequence: Indices 321187 -- 321686 TTTCCCATCTCATCTTTTAATTTCCTTTCTATTAATTCAATGTCACTGTTCATATTTAAAAACTG AAACAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAGTGTCAAAAAATAATAACAAATGGTCTTATA TGTACACAAAATAATCTTACAAAAAAAAAAAACATAATGATACATAAATGTGTAGGAAAAAAAAA AAAAATTTTTTTTTTTTTTTTTTTTTTTTTTGTATGCACTTATATAATCATATAAAACTATATAT TCCTCTCGATATAATAATCAATTTTGGTTTACCTTTTCCTTTAATGTTTCTATTGATAACTCCAT TTTTTTCTCTTTTTATTACAAAAAGGGTTTATATATATATATAAAATATTATATTTTAATACAAC AATGTTGTATATTTATCTGTATGGTTAATAGTAATATGGTATATTCTTGCTTTTCAGAATGTTAA AAATATAAAGTATTAAATATTGAATATTAAAAAGTAAAAGGATAT Right flanking sequence: Indices 321717 -- 322216 TCGTAATATAATAAAATAAAATAAAATAAAGGTGATAAAAAAAAAAATGTATGTATACATCACAT ACTAATTCAATACTATATATAAATAATATTATATATATATATATATATATATATATATTAGTTAT TTTTTTGTTTGCCTTCCCATAAAATATACTTTTAAATATATATATATATATATATGTATGTATGT ATGTATGTACGTATTTATTTATTTAATAAAGGAATATGGTTTATCCCCACTATATTCACATGTTA ATATTTCAAAATGATTCTTCATATATTTATCATTCACAATTTATACTTTTAAAAATAAAACAAAT TTAATGTAAATATTTGTTAAATTAATCAATCTTCACGTATGATAATGAAAAAGTAAAAAAAAAAA AAAAAAAAATTAAAAAAATTAAAAATAAAAAATAAATAATAAAAAATGTACACATATAAATATAA AGCCCTTAATTGTAAGAATACATAATATATATAATATATATATAT Found at i:321728 original size:5 final size:5 Alignment explanation
Indices: 321688--321746 Score: 46 Period size: 5 Copynumber: 11.6 Consensus size: 5 321678 AAAGGATATA * * * ** * ** * 321688 AAAAA AAAAT AAGAA AAAGA AAAAC AAAAT CGTAAT ATAAT AAAAT AAAAT 1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT 321739 AAAAT AAA 1 AAAAT AAA 321747 GGTGATAAAA Statistics Matches: 41, Mismatches: 12, Indels: 2 0.75 0.22 0.04 Matches are distributed among these distances: 5 38 0.93 6 3 0.07 ACGTcount: A:0.76, C:0.03, G:0.05, T:0.15 Consensus pattern (5 bp): AAAAT Left flanking sequence: Indices 321188 -- 321687 TTCCCATCTCATCTTTTAATTTCCTTTCTATTAATTCAATGTCACTGTTCATATTTAAAAACTGA AACAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAGTGTCAAAAAATAATAACAAATGGTCTTATAT GTACACAAAATAATCTTACAAAAAAAAAAAACATAATGATACATAAATGTGTAGGAAAAAAAAAA AAAATTTTTTTTTTTTTTTTTTTTTTTTTTGTATGCACTTATATAATCATATAAAACTATATATT CCTCTCGATATAATAATCAATTTTGGTTTACCTTTTCCTTTAATGTTTCTATTGATAACTCCATT TTTTTCTCTTTTTATTACAAAAAGGGTTTATATATATATATAAAATATTATATTTTAATACAACA ATGTTGTATATTTATCTGTATGGTTAATAGTAATATGGTATATTCTTGCTTTTCAGAATGTTAAA AATATAAAGTATTAAATATTGAATATTAAAAAGTAAAAGGATATA Right flanking sequence: Indices 321747 -- 322246 GGTGATAAAAAAAAAAATGTATGTATACATCACATACTAATTCAATACTATATATAAATAATATT ATATATATATATATATATATATATATATTAGTTATTTTTTTGTTTGCCTTCCCATAAAATATACT TTTAAATATATATATATATATATATGTATGTATGTATGTATGTACGTATTTATTTATTTAATAAA GGAATATGGTTTATCCCCACTATATTCACATGTTAATATTTCAAAATGATTCTTCATATATTTAT CATTCACAATTTATACTTTTAAAAATAAAACAAATTTAATGTAAATATTTGTTAAATTAATCAAT CTTCACGTATGATAATGAAAAAGTAAAAAAAAAAAAAAAAAAAATTAAAAAAATTAAAAATAAAA AATAAATAATAAAAAATGTACACATATAAATATAAAGCCCTTAATTGTAAGAATACATAATATAT ATAATATATATATATATATATATATATATATATATATATAAATCC Found at i:321802 original size:2 final size:2 Alignment explanation
Indices: 321795--321839 Score: 69 Period size: 2 Copynumber: 23.5 Consensus size: 2 321785 AATTCAATAC * 321795 TA TA TA TA AA TA -A TA T- TA TA TA TA TA TA TA TA TA TA TA TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 321835 TA TA T 1 TA TA T 321840 TAGTTATTTT Statistics Matches: 39, Mismatches: 2, Indels: 4 0.87 0.04 0.09 Matches are distributed among these distances: 1 2 0.05 2 37 0.95 ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49 Consensus pattern (2 bp): TA Left flanking sequence: Indices 321295 -- 321794 AATAATAACAAATGGTCTTATATGTACACAAAATAATCTTACAAAAAAAAAAAACATAATGATAC ATAAATGTGTAGGAAAAAAAAAAAAAATTTTTTTTTTTTTTTTTTTTTTTTTTGTATGCACTTAT ATAATCATATAAAACTATATATTCCTCTCGATATAATAATCAATTTTGGTTTACCTTTTCCTTTA ATGTTTCTATTGATAACTCCATTTTTTTCTCTTTTTATTACAAAAAGGGTTTATATATATATATA AAATATTATATTTTAATACAACAATGTTGTATATTTATCTGTATGGTTAATAGTAATATGGTATA TTCTTGCTTTTCAGAATGTTAAAAATATAAAGTATTAAATATTGAATATTAAAAAGTAAAAGGAT ATAAAAAAAAAATAAGAAAAAGAAAAACAAAATCGTAATATAATAAAATAAAATAAAATAAAGGT GATAAAAAAAAAAATGTATGTATACATCACATACTAATTCAATAC Right flanking sequence: Indices 321840 -- 322339 TAGTTATTTTTTTGTTTGCCTTCCCATAAAATATACTTTTAAATATATATATATATATATATGTA TGTATGTATGTATGTACGTATTTATTTATTTAATAAAGGAATATGGTTTATCCCCACTATATTCA CATGTTAATATTTCAAAATGATTCTTCATATATTTATCATTCACAATTTATACTTTTAAAAATAA AACAAATTTAATGTAAATATTTGTTAAATTAATCAATCTTCACGTATGATAATGAAAAAGTAAAA AAAAAAAAAAAAAAAATTAAAAAAATTAAAAATAAAAAATAAATAATAAAAAATGTACACATATA AATATAAAGCCCTTAATTGTAAGAATACATAATATATATAATATATATATATATATATATATATA TATATATATATAAATCCATTTAGTACTATTTTTTTGCTTACACATAATTTAAACATTTTGGTTGT ATTTGATTTTTTTTTTTTTTTTTTTTTTTTTCGTAATCCTTCATA Found at i:321936 original size:4 final size:4 Alignment explanation
Indices: 321883--321933 Score: 53 Period size: 4 Copynumber: 12.8 Consensus size: 4 321873 TACTTTTAAA * * * * * * * 321883 TATA TATA TATA TATA TATG TATG TATG TATG TATG TACG TATT TATT 1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG 321931 TAT 1 TAT 321934 TTAATAAAGG Statistics Matches: 43, Mismatches: 4, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 4 43 1.00 ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53 Consensus pattern (4 bp): TATG Left flanking sequence: Indices 321383 -- 321882 AAAATTTTTTTTTTTTTTTTTTTTTTTTTTGTATGCACTTATATAATCATATAAAACTATATATT CCTCTCGATATAATAATCAATTTTGGTTTACCTTTTCCTTTAATGTTTCTATTGATAACTCCATT TTTTTCTCTTTTTATTACAAAAAGGGTTTATATATATATATAAAATATTATATTTTAATACAACA ATGTTGTATATTTATCTGTATGGTTAATAGTAATATGGTATATTCTTGCTTTTCAGAATGTTAAA AATATAAAGTATTAAATATTGAATATTAAAAAGTAAAAGGATATAAAAAAAAAATAAGAAAAAGA AAAACAAAATCGTAATATAATAAAATAAAATAAAATAAAGGTGATAAAAAAAAAAATGTATGTAT ACATCACATACTAATTCAATACTATATATAAATAATATTATATATATATATATATATATATATAT ATTAGTTATTTTTTTGTTTGCCTTCCCATAAAATATACTTTTAAA Right flanking sequence: Indices 321934 -- 322433 TTAATAAAGGAATATGGTTTATCCCCACTATATTCACATGTTAATATTTCAAAATGATTCTTCAT ATATTTATCATTCACAATTTATACTTTTAAAAATAAAACAAATTTAATGTAAATATTTGTTAAAT TAATCAATCTTCACGTATGATAATGAAAAAGTAAAAAAAAAAAAAAAAAAAATTAAAAAAATTAA AAATAAAAAATAAATAATAAAAAATGTACACATATAAATATAAAGCCCTTAATTGTAAGAATACA TAATATATATAATATATATATATATATATATATATATATATATATATAAATCCATTTAGTACTAT TTTTTTGCTTACACATAATTTAAACATTTTGGTTGTATTTGATTTTTTTTTTTTTTTTTTTTTTT TTCGTAATCCTTCATATGTAGTGCATATTAAAAAAATAAAAATAAATAAATAGATGAAATTTGTA TGAAAAAATGTAATTAACATATATATATAAATAAATAAATAAATG Found at i:322100 original size:1 final size:1 Alignment explanation
Indices: 322096--322152 Score: 58 Period size: 1 Copynumber: 57.0 Consensus size: 1 322086 ATGAAAAAGT ** ** * * * * 322096 AAAAAAAAAAAAAAAAAAAATTAAAAAAATTAAAAATAAAAAATAAATAATAAAAAA 1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 322153 TGTACACATA Statistics Matches: 44, Mismatches: 12, Indels: 0 0.79 0.21 0.00 Matches are distributed among these distances: 1 44 1.00 ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14 Consensus pattern (1 bp): A Left flanking sequence: Indices 321596 -- 322095 TATGGTTAATAGTAATATGGTATATTCTTGCTTTTCAGAATGTTAAAAATATAAAGTATTAAATA TTGAATATTAAAAAGTAAAAGGATATAAAAAAAAAATAAGAAAAAGAAAAACAAAATCGTAATAT AATAAAATAAAATAAAATAAAGGTGATAAAAAAAAAAATGTATGTATACATCACATACTAATTCA ATACTATATATAAATAATATTATATATATATATATATATATATATATATTAGTTATTTTTTTGTT TGCCTTCCCATAAAATATACTTTTAAATATATATATATATATATATGTATGTATGTATGTATGTA CGTATTTATTTATTTAATAAAGGAATATGGTTTATCCCCACTATATTCACATGTTAATATTTCAA AATGATTCTTCATATATTTATCATTCACAATTTATACTTTTAAAAATAAAACAAATTTAATGTAA ATATTTGTTAAATTAATCAATCTTCACGTATGATAATGAAAAAGT Right flanking sequence: Indices 322153 -- 322652 TGTACACATATAAATATAAAGCCCTTAATTGTAAGAATACATAATATATATAATATATATATATA TATATATATATATATATATATATAAATCCATTTAGTACTATTTTTTTGCTTACACATAATTTAAA CATTTTGGTTGTATTTGATTTTTTTTTTTTTTTTTTTTTTTTTCGTAATCCTTCATATGTAGTGC ATATTAAAAAAATAAAAATAAATAAATAGATGAAATTTGTATGAAAAAATGTAATTAACATATAT ATATAAATAAATAAATAAATGAATAAATATAAATATATATAATATATATATAATATATATAATAT ATATATTATATTGTTACATTTGCGTACTTTACATATTCATCGTACATCTTCAGTGTAATTGTAAT TTTTATTTTTTAATAAATACCAAAAAAAAAAAAAAAAAAAATCTGGAAAATGGAATGTACTTGAA GTATATAAAAAGTACCACAATGGAGAAGACTGATATAGGATATTT Found at i:322171 original size:6 final size:6 Alignment explanation
Indices: 322160--322172 Score: 26 Period size: 6 Copynumber: 2.2 Consensus size: 6 322150 AAATGTACAC 322160 ATATAA ATATAA A 1 ATATAA ATATAA A 322173 GCCCTTAATT Statistics Matches: 7, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 7 1.00 ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31 Consensus pattern (6 bp): ATATAA Left flanking sequence: Indices 321660 -- 322159 ATTGAATATTAAAAAGTAAAAGGATATAAAAAAAAAATAAGAAAAAGAAAAACAAAATCGTAATA TAATAAAATAAAATAAAATAAAGGTGATAAAAAAAAAAATGTATGTATACATCACATACTAATTC AATACTATATATAAATAATATTATATATATATATATATATATATATATATTAGTTATTTTTTTGT TTGCCTTCCCATAAAATATACTTTTAAATATATATATATATATATATGTATGTATGTATGTATGT ACGTATTTATTTATTTAATAAAGGAATATGGTTTATCCCCACTATATTCACATGTTAATATTTCA AAATGATTCTTCATATATTTATCATTCACAATTTATACTTTTAAAAATAAAACAAATTTAATGTA AATATTTGTTAAATTAATCAATCTTCACGTATGATAATGAAAAAGTAAAAAAAAAAAAAAAAAAA ATTAAAAAAATTAAAAATAAAAAATAAATAATAAAAAATGTACAC Right flanking sequence: Indices 322173 -- 322672 GCCCTTAATTGTAAGAATACATAATATATATAATATATATATATATATATATATATATATATATA TATAAATCCATTTAGTACTATTTTTTTGCTTACACATAATTTAAACATTTTGGTTGTATTTGATT TTTTTTTTTTTTTTTTTTTTTTTCGTAATCCTTCATATGTAGTGCATATTAAAAAAATAAAAATA AATAAATAGATGAAATTTGTATGAAAAAATGTAATTAACATATATATATAAATAAATAAATAAAT GAATAAATATAAATATATATAATATATATATAATATATATAATATATATATTATATTGTTACATT TGCGTACTTTACATATTCATCGTACATCTTCAGTGTAATTGTAATTTTTATTTTTTAATAAATAC CAAAAAAAAAAAAAAAAAAAATCTGGAAAATGGAATGTACTTGAAGTATATAAAAAGTACCACAA TGGAGAAGACTGATATAGGATATTTAAAAATTGAAGATACAATTA Found at i:322203 original size:2 final size:2 Alignment explanation
Indices: 322196--322241 Score: 85 Period size: 2 Copynumber: 23.5 Consensus size: 2 322186 AGAATACATA 322196 AT AT AT AT A- 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 322237 AT AT A 1 AT AT A 322242 AATCCATTTA Statistics Matches: 43, Mismatches: 0, Indels: 2 0.96 0.00 0.04 Matches are distributed among these distances: 1 1 0.02 2 42 0.98 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): AT Left flanking sequence: Indices 321696 -- 322195 ATAAGAAAAAGAAAAACAAAATCGTAATATAATAAAATAAAATAAAATAAAGGTGATAAAAAAAA AAATGTATGTATACATCACATACTAATTCAATACTATATATAAATAATATTATATATATATATAT ATATATATATATATTAGTTATTTTTTTGTTTGCCTTCCCATAAAATATACTTTTAAATATATATA TATATATATATGTATGTATGTATGTATGTACGTATTTATTTATTTAATAAAGGAATATGGTTTAT CCCCACTATATTCACATGTTAATATTTCAAAATGATTCTTCATATATTTATCATTCACAATTTAT ACTTTTAAAAATAAAACAAATTTAATGTAAATATTTGTTAAATTAATCAATCTTCACGTATGATA ATGAAAAAGTAAAAAAAAAAAAAAAAAAAATTAAAAAAATTAAAAATAAAAAATAAATAATAAAA AATGTACACATATAAATATAAAGCCCTTAATTGTAAGAATACATA Right flanking sequence: Indices 322242 -- 322741 AATCCATTTAGTACTATTTTTTTGCTTACACATAATTTAAACATTTTGGTTGTATTTGATTTTTT TTTTTTTTTTTTTTTTTTTCGTAATCCTTCATATGTAGTGCATATTAAAAAAATAAAAATAAATA AATAGATGAAATTTGTATGAAAAAATGTAATTAACATATATATATAAATAAATAAATAAATGAAT AAATATAAATATATATAATATATATATAATATATATAATATATATATTATATTGTTACATTTGCG TACTTTACATATTCATCGTACATCTTCAGTGTAATTGTAATTTTTATTTTTTAATAAATACCAAA AAAAAAAAAAAAAAAAATCTGGAAAATGGAATGTACTTGAAGTATATAAAAAGTACCACAATGGA GAAGACTGATATAGGATATTTAAAAATTGAAGATACAATTAAAAAGAAATTATTTTCTAATAATT TAAAAACAAGTATAGCACATAACGCAACGAAACAAAGATAATATA Found at i:322307 original size:1 final size:1 Alignment explanation
Indices: 322301--322325 Score: 50 Period size: 1 Copynumber: 25.0 Consensus size: 1 322291 TTGTATTTGA 322301 TTTTTTTTTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTT 322326 CGTAATCCTT Statistics Matches: 24, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 24 1.00 ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00 Consensus pattern (1 bp): T Left flanking sequence: Indices 321801 -- 322300 TAAATAATATTATATATATATATATATATATATATATATTAGTTATTTTTTTGTTTGCCTTCCCA TAAAATATACTTTTAAATATATATATATATATATATGTATGTATGTATGTATGTACGTATTTATT TATTTAATAAAGGAATATGGTTTATCCCCACTATATTCACATGTTAATATTTCAAAATGATTCTT CATATATTTATCATTCACAATTTATACTTTTAAAAATAAAACAAATTTAATGTAAATATTTGTTA AATTAATCAATCTTCACGTATGATAATGAAAAAGTAAAAAAAAAAAAAAAAAAAATTAAAAAAAT TAAAAATAAAAAATAAATAATAAAAAATGTACACATATAAATATAAAGCCCTTAATTGTAAGAAT ACATAATATATATAATATATATATATATATATATATATATATATATATATAAATCCATTTAGTAC TATTTTTTTGCTTACACATAATTTAAACATTTTGGTTGTATTTGA Right flanking sequence: Indices 322326 -- 322825 CGTAATCCTTCATATGTAGTGCATATTAAAAAAATAAAAATAAATAAATAGATGAAATTTGTATG AAAAAATGTAATTAACATATATATATAAATAAATAAATAAATGAATAAATATAAATATATATAAT ATATATATAATATATATAATATATATATTATATTGTTACATTTGCGTACTTTACATATTCATCGT ACATCTTCAGTGTAATTGTAATTTTTATTTTTTAATAAATACCAAAAAAAAAAAAAAAAAAAATC TGGAAAATGGAATGTACTTGAAGTATATAAAAAGTACCACAATGGAGAAGACTGATATAGGATAT TTAAAAATTGAAGATACAATTAAAAAGAAATTATTTTCTAATAATTTAAAAACAAGTATAGCACA TAACGCAACGAAACAAAGATAATATATATATATATATATATAATAAATATATGTATGTTTTTTTT TTTTTTTTTTTTTTTTTTTATAGTTGAAGAGCTAAGCACGAATTA Found at i:322366 original size:6 final size:6 Alignment explanation
Indices: 322355--322369 Score: 30 Period size: 6 Copynumber: 2.5 Consensus size: 6 322345 TGCATATTAA 322355 AAAAAT AAAAAT AAA 1 AAAAAT AAAAAT AAA 322370 TAAATAGATG Statistics Matches: 9, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 9 1.00 ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13 Consensus pattern (6 bp): AAAAAT Left flanking sequence: Indices 321855 -- 322354 TTGCCTTCCCATAAAATATACTTTTAAATATATATATATATATATATGTATGTATGTATGTATGT ACGTATTTATTTATTTAATAAAGGAATATGGTTTATCCCCACTATATTCACATGTTAATATTTCA AAATGATTCTTCATATATTTATCATTCACAATTTATACTTTTAAAAATAAAACAAATTTAATGTA AATATTTGTTAAATTAATCAATCTTCACGTATGATAATGAAAAAGTAAAAAAAAAAAAAAAAAAA ATTAAAAAAATTAAAAATAAAAAATAAATAATAAAAAATGTACACATATAAATATAAAGCCCTTA ATTGTAAGAATACATAATATATATAATATATATATATATATATATATATATATATATATATAAAT CCATTTAGTACTATTTTTTTGCTTACACATAATTTAAACATTTTGGTTGTATTTGATTTTTTTTT TTTTTTTTTTTTTTTTCGTAATCCTTCATATGTAGTGCATATTAA Right flanking sequence: Indices 322370 -- 322869 TAAATAGATGAAATTTGTATGAAAAAATGTAATTAACATATATATATAAATAAATAAATAAATGA ATAAATATAAATATATATAATATATATATAATATATATAATATATATATTATATTGTTACATTTG CGTACTTTACATATTCATCGTACATCTTCAGTGTAATTGTAATTTTTATTTTTTAATAAATACCA AAAAAAAAAAAAAAAAAAATCTGGAAAATGGAATGTACTTGAAGTATATAAAAAGTACCACAATG GAGAAGACTGATATAGGATATTTAAAAATTGAAGATACAATTAAAAAGAAATTATTTTCTAATAA TTTAAAAACAAGTATAGCACATAACGCAACGAAACAAAGATAATATATATATATATATATATAAT AAATATATGTATGTTTTTTTTTTTTTTTTTTTTTTTTTTTATAGTTGAAGAGCTAAGCACGAATT ATCTGGAAAATGTCAATTTCAAGGTTGGAAAATATAATCCATCTT Found at i:322372 original size:4 final size:4 Alignment explanation
Indices: 322352--322375 Score: 27 Period size: 4 Copynumber: 6.5 Consensus size: 4 322342 TAGTGCATAT * 322352 TAAA AAAA T-AA -AAA TAAA TAAA TA 1 TAAA TAAA TAAA TAAA TAAA TAAA TA 322376 GATGAAATTT Statistics Matches: 16, Mismatches: 2, Indels: 4 0.73 0.09 0.18 Matches are distributed among these distances: 3 4 0.25 4 12 0.75 ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21 Consensus pattern (4 bp): TAAA Left flanking sequence: Indices 321852 -- 322351 TGTTTGCCTTCCCATAAAATATACTTTTAAATATATATATATATATATATGTATGTATGTATGTA TGTACGTATTTATTTATTTAATAAAGGAATATGGTTTATCCCCACTATATTCACATGTTAATATT TCAAAATGATTCTTCATATATTTATCATTCACAATTTATACTTTTAAAAATAAAACAAATTTAAT GTAAATATTTGTTAAATTAATCAATCTTCACGTATGATAATGAAAAAGTAAAAAAAAAAAAAAAA AAAATTAAAAAAATTAAAAATAAAAAATAAATAATAAAAAATGTACACATATAAATATAAAGCCC TTAATTGTAAGAATACATAATATATATAATATATATATATATATATATATATATATATATATATA AATCCATTTAGTACTATTTTTTTGCTTACACATAATTTAAACATTTTGGTTGTATTTGATTTTTT TTTTTTTTTTTTTTTTTTTCGTAATCCTTCATATGTAGTGCATAT Right flanking sequence: Indices 322376 -- 322875 GATGAAATTTGTATGAAAAAATGTAATTAACATATATATATAAATAAATAAATAAATGAATAAAT ATAAATATATATAATATATATATAATATATATAATATATATATTATATTGTTACATTTGCGTACT TTACATATTCATCGTACATCTTCAGTGTAATTGTAATTTTTATTTTTTAATAAATACCAAAAAAA AAAAAAAAAAAAATCTGGAAAATGGAATGTACTTGAAGTATATAAAAAGTACCACAATGGAGAAG ACTGATATAGGATATTTAAAAATTGAAGATACAATTAAAAAGAAATTATTTTCTAATAATTTAAA AACAAGTATAGCACATAACGCAACGAAACAAAGATAATATATATATATATATATATAATAAATAT ATGTATGTTTTTTTTTTTTTTTTTTTTTTTTTTTATAGTTGAAGAGCTAAGCACGAATTATCTGG AAAATGTCAATTTCAAGGTTGGAAAATATAATCCATCTTTATATT Found at i:322412 original size:2 final size:2 Alignment explanation
Indices: 322407--322488 Score: 80 Period size: 2 Copynumber: 43.0 Consensus size: 2 322397 TGTAATTAAC * * * * ** * * 322407 AT AT AT AT AT AA AT AA AT AA AT AA AT GA AT AA AT AT AA AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 322449 AT AT A- AT AT AT AT AT A- AT AT AT AT A- AT AT AT AT AT -T AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 322487 AT 1 AT 322489 TGTTACATTT Statistics Matches: 60, Mismatches: 16, Indels: 8 0.71 0.19 0.10 Matches are distributed among these distances: 1 4 0.07 2 56 0.93 ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40 Consensus pattern (2 bp): AT Left flanking sequence: Indices 321907 -- 322406 TATGTATGTATGTACGTATTTATTTATTTAATAAAGGAATATGGTTTATCCCCACTATATTCACA TGTTAATATTTCAAAATGATTCTTCATATATTTATCATTCACAATTTATACTTTTAAAAATAAAA CAAATTTAATGTAAATATTTGTTAAATTAATCAATCTTCACGTATGATAATGAAAAAGTAAAAAA AAAAAAAAAAAAAATTAAAAAAATTAAAAATAAAAAATAAATAATAAAAAATGTACACATATAAA TATAAAGCCCTTAATTGTAAGAATACATAATATATATAATATATATATATATATATATATATATA TATATATATAAATCCATTTAGTACTATTTTTTTGCTTACACATAATTTAAACATTTTGGTTGTAT TTGATTTTTTTTTTTTTTTTTTTTTTTTTCGTAATCCTTCATATGTAGTGCATATTAAAAAAATA AAAATAAATAAATAGATGAAATTTGTATGAAAAAATGTAATTAAC Right flanking sequence: Indices 322489 -- 322988 TGTTACATTTGCGTACTTTACATATTCATCGTACATCTTCAGTGTAATTGTAATTTTTATTTTTT AATAAATACCAAAAAAAAAAAAAAAAAAAATCTGGAAAATGGAATGTACTTGAAGTATATAAAAA GTACCACAATGGAGAAGACTGATATAGGATATTTAAAAATTGAAGATACAATTAAAAAGAAATTA TTTTCTAATAATTTAAAAACAAGTATAGCACATAACGCAACGAAACAAAGATAATATATATATAT ATATATATAATAAATATATGTATGTTTTTTTTTTTTTTTTTTTTTTTTTTTATAGTTGAAGAGCT AAGCACGAATTATCTGGAAAATGTCAATTTCAAGGTTGGAAAATATAATCCATCTTTATATTTAT ATTACATATAAAAAAAAAAAATATATATATATATATATAAAATATATTTATACATATATATGTAC ATATTTTTGTTCACGTTCATCTTGTAGGAAGTAAACTTCATACAA Found at i:322542 original size:6 final size:6 Alignment explanation
Indices: 322531--322543 Score: 26 Period size: 6 Copynumber: 2.2 Consensus size: 6 322521 ACATCTTCAG 322531 TGTAAT TGTAAT T 1 TGTAAT TGTAAT T 322544 TTTATTTTTT Statistics Matches: 7, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 7 1.00 ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54 Consensus pattern (6 bp): TGTAAT Left flanking sequence: Indices 322031 -- 322530 ATAAAACAAATTTAATGTAAATATTTGTTAAATTAATCAATCTTCACGTATGATAATGAAAAAGT AAAAAAAAAAAAAAAAAAAATTAAAAAAATTAAAAATAAAAAATAAATAATAAAAAATGTACACA TATAAATATAAAGCCCTTAATTGTAAGAATACATAATATATATAATATATATATATATATATATA TATATATATATATATAAATCCATTTAGTACTATTTTTTTGCTTACACATAATTTAAACATTTTGG TTGTATTTGATTTTTTTTTTTTTTTTTTTTTTTTTCGTAATCCTTCATATGTAGTGCATATTAAA AAAATAAAAATAAATAAATAGATGAAATTTGTATGAAAAAATGTAATTAACATATATATATAAAT AAATAAATAAATGAATAAATATAAATATATATAATATATATATAATATATATAATATATATATTA TATTGTTACATTTGCGTACTTTACATATTCATCGTACATCTTCAG Right flanking sequence: Indices 322544 -- 323043 TTTATTTTTTAATAAATACCAAAAAAAAAAAAAAAAAAAATCTGGAAAATGGAATGTACTTGAAG TATATAAAAAGTACCACAATGGAGAAGACTGATATAGGATATTTAAAAATTGAAGATACAATTAA AAAGAAATTATTTTCTAATAATTTAAAAACAAGTATAGCACATAACGCAACGAAACAAAGATAAT ATATATATATATATATATAATAAATATATGTATGTTTTTTTTTTTTTTTTTTTTTTTTTTTATAG TTGAAGAGCTAAGCACGAATTATCTGGAAAATGTCAATTTCAAGGTTGGAAAATATAATCCATCT TTATATTTATATTACATATAAAAAAAAAAAATATATATATATATATATAAAATATATTTATACAT ATATATGTACATATTTTTGTTCACGTTCATCTTGTAGGAAGTAAACTTCATACAAGCAGAAATTT TCAAACAACATATGAAAGAACTAGGTTTAAAGGAGACTCAAGAAA Found at i:322568 original size:1 final size:1 Alignment explanation
Indices: 322564--322583 Score: 40 Period size: 1 Copynumber: 20.0 Consensus size: 1 322554 AATAAATACC 322564 AAAAAAAAAAAAAAAAAAAA 1 AAAAAAAAAAAAAAAAAAAA 322584 TCTGGAAAAT Statistics Matches: 19, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 19 1.00 ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00 Consensus pattern (1 bp): A Left flanking sequence: Indices 322064 -- 322563 TAATCAATCTTCACGTATGATAATGAAAAAGTAAAAAAAAAAAAAAAAAAAATTAAAAAAATTAA AAATAAAAAATAAATAATAAAAAATGTACACATATAAATATAAAGCCCTTAATTGTAAGAATACA TAATATATATAATATATATATATATATATATATATATATATATATATAAATCCATTTAGTACTAT TTTTTTGCTTACACATAATTTAAACATTTTGGTTGTATTTGATTTTTTTTTTTTTTTTTTTTTTT TTCGTAATCCTTCATATGTAGTGCATATTAAAAAAATAAAAATAAATAAATAGATGAAATTTGTA TGAAAAAATGTAATTAACATATATATATAAATAAATAAATAAATGAATAAATATAAATATATATA ATATATATATAATATATATAATATATATATTATATTGTTACATTTGCGTACTTTACATATTCATC GTACATCTTCAGTGTAATTGTAATTTTTATTTTTTAATAAATACC Right flanking sequence: Indices 322584 -- 323083 TCTGGAAAATGGAATGTACTTGAAGTATATAAAAAGTACCACAATGGAGAAGACTGATATAGGAT ATTTAAAAATTGAAGATACAATTAAAAAGAAATTATTTTCTAATAATTTAAAAACAAGTATAGCA CATAACGCAACGAAACAAAGATAATATATATATATATATATATAATAAATATATGTATGTTTTTT TTTTTTTTTTTTTTTTTTTTTATAGTTGAAGAGCTAAGCACGAATTATCTGGAAAATGTCAATTT CAAGGTTGGAAAATATAATCCATCTTTATATTTATATTACATATAAAAAAAAAAAATATATATAT ATATATATAAAATATATTTATACATATATATGTACATATTTTTGTTCACGTTCATCTTGTAGGAA GTAAACTTCATACAAGCAGAAATTTTCAAACAACATATGAAAGAACTAGGTTTAAAGGAGACTCA AGAAAAAGGTGATAATGAACAAAATGTACATTCAATTAAAAGATA Found at i:322744 original size:2 final size:2 Alignment explanation
Indices: 322737--322771 Score: 49 Period size: 2 Copynumber: 18.0 Consensus size: 2 322727 AACAAAGATA * * 322737 AT AT AT AT AT AT AT AT AT AT A- AT AA AT AT AT GT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 322772 GTTTTTTTTT Statistics Matches: 28, Mismatches: 4, Indels: 2 0.82 0.12 0.06 Matches are distributed among these distances: 1 1 0.04 2 27 0.96 ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46 Consensus pattern (2 bp): AT Left flanking sequence: Indices 322237 -- 322736 ATATAAATCCATTTAGTACTATTTTTTTGCTTACACATAATTTAAACATTTTGGTTGTATTTGAT TTTTTTTTTTTTTTTTTTTTTTTTCGTAATCCTTCATATGTAGTGCATATTAAAAAAATAAAAAT AAATAAATAGATGAAATTTGTATGAAAAAATGTAATTAACATATATATATAAATAAATAAATAAA TGAATAAATATAAATATATATAATATATATATAATATATATAATATATATATTATATTGTTACAT TTGCGTACTTTACATATTCATCGTACATCTTCAGTGTAATTGTAATTTTTATTTTTTAATAAATA CCAAAAAAAAAAAAAAAAAAAATCTGGAAAATGGAATGTACTTGAAGTATATAAAAAGTACCACA ATGGAGAAGACTGATATAGGATATTTAAAAATTGAAGATACAATTAAAAAGAAATTATTTTCTAA TAATTTAAAAACAAGTATAGCACATAACGCAACGAAACAAAGATA Right flanking sequence: Indices 322772 -- 323271 GTTTTTTTTTTTTTTTTTTTTTTTTTTTATAGTTGAAGAGCTAAGCACGAATTATCTGGAAAATG TCAATTTCAAGGTTGGAAAATATAATCCATCTTTATATTTATATTACATATAAAAAAAAAAAATA TATATATATATATATAAAATATATTTATACATATATATGTACATATTTTTGTTCACGTTCATCTT GTAGGAAGTAAACTTCATACAAGCAGAAATTTTCAAACAACATATGAAAGAACTAGGTTTAAAGG AGACTCAAGAAAAAGGTGATAATGAACAAAATGTACATTCAATTAAAAGATACTATAAGGATATA TATTCAATAAGTGATCATGAAAAATATTGTACGAGAAAAAAAAAAAATATATATTGTTCTTATAT GAATAAATCTGAACGTTTTAATGGGAACGATAAAGACCTTTCTTCCGCATCGTCATATAATTCAT CTTATAATTTGTCATCCAACATTTCATGTGACATATCAAATGATA Found at i:322779 original size:1 final size:1 Alignment explanation
Indices: 322773--322799 Score: 54 Period size: 1 Copynumber: 27.0 Consensus size: 1 322763 TATATGTATG 322773 TTTTTTTTTTTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTTT 322800 ATAGTTGAAG Statistics Matches: 26, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 26 1.00 ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00 Consensus pattern (1 bp): T Left flanking sequence: Indices 322273 -- 322772 ATAATTTAAACATTTTGGTTGTATTTGATTTTTTTTTTTTTTTTTTTTTTTTTCGTAATCCTTCA TATGTAGTGCATATTAAAAAAATAAAAATAAATAAATAGATGAAATTTGTATGAAAAAATGTAAT TAACATATATATATAAATAAATAAATAAATGAATAAATATAAATATATATAATATATATATAATA TATATAATATATATATTATATTGTTACATTTGCGTACTTTACATATTCATCGTACATCTTCAGTG TAATTGTAATTTTTATTTTTTAATAAATACCAAAAAAAAAAAAAAAAAAAATCTGGAAAATGGAA TGTACTTGAAGTATATAAAAAGTACCACAATGGAGAAGACTGATATAGGATATTTAAAAATTGAA GATACAATTAAAAAGAAATTATTTTCTAATAATTTAAAAACAAGTATAGCACATAACGCAACGAA ACAAAGATAATATATATATATATATATATAATAAATATATGTATG Right flanking sequence: Indices 322800 -- 323299 ATAGTTGAAGAGCTAAGCACGAATTATCTGGAAAATGTCAATTTCAAGGTTGGAAAATATAATCC ATCTTTATATTTATATTACATATAAAAAAAAAAAATATATATATATATATATAAAATATATTTAT ACATATATATGTACATATTTTTGTTCACGTTCATCTTGTAGGAAGTAAACTTCATACAAGCAGAA ATTTTCAAACAACATATGAAAGAACTAGGTTTAAAGGAGACTCAAGAAAAAGGTGATAATGAACA AAATGTACATTCAATTAAAAGATACTATAAGGATATATATTCAATAAGTGATCATGAAAAATATT GTACGAGAAAAAAAAAAAATATATATTGTTCTTATATGAATAAATCTGAACGTTTTAATGGGAAC GATAAAGACCTTTCTTCCGCATCGTCATATAATTCATCTTATAATTTGTCATCCAACATTTCATG TGACATATCAAATGATAGATCATCTGACTTATCATCCGACTTATC Found at i:322879 original size:6 final size:6 Alignment explanation
Indices: 322868--322881 Score: 28 Period size: 6 Copynumber: 2.3 Consensus size: 6 322858 ATAATCCATC 322868 TTTATA TTTATA TT 1 TTTATA TTTATA TT 322882 ACATATAAAA Statistics Matches: 8, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 6 8 1.00 ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71 Consensus pattern (6 bp): TTTATA Left flanking sequence: Indices 322368 -- 322867 AATAAATAGATGAAATTTGTATGAAAAAATGTAATTAACATATATATATAAATAAATAAATAAAT GAATAAATATAAATATATATAATATATATATAATATATATAATATATATATTATATTGTTACATT TGCGTACTTTACATATTCATCGTACATCTTCAGTGTAATTGTAATTTTTATTTTTTAATAAATAC CAAAAAAAAAAAAAAAAAAAATCTGGAAAATGGAATGTACTTGAAGTATATAAAAAGTACCACAA TGGAGAAGACTGATATAGGATATTTAAAAATTGAAGATACAATTAAAAAGAAATTATTTTCTAAT AATTTAAAAACAAGTATAGCACATAACGCAACGAAACAAAGATAATATATATATATATATATATA ATAAATATATGTATGTTTTTTTTTTTTTTTTTTTTTTTTTTTATAGTTGAAGAGCTAAGCACGAA TTATCTGGAAAATGTCAATTTCAAGGTTGGAAAATATAATCCATC Right flanking sequence: Indices 322882 -- 323381 ACATATAAAAAAAAAAAATATATATATATATATATAAAATATATTTATACATATATATGTACATA TTTTTGTTCACGTTCATCTTGTAGGAAGTAAACTTCATACAAGCAGAAATTTTCAAACAACATAT GAAAGAACTAGGTTTAAAGGAGACTCAAGAAAAAGGTGATAATGAACAAAATGTACATTCAATTA AAAGATACTATAAGGATATATATTCAATAAGTGATCATGAAAAATATTGTACGAGAAAAAAAAAA AATATATATTGTTCTTATATGAATAAATCTGAACGTTTTAATGGGAACGATAAAGACCTTTCTTC CGCATCGTCATATAATTCATCTTATAATTTGTCATCCAACATTTCATGTGACATATCAAATGATA GATCATCTGACTTATCATCCGACTTATCAGATGATAAGTCAACAAATTCGTCAAGCATTTCATCC AACTCATCATTAAATTCCTCCTTCTATCACACACAACCTAGGATG Found at i:322904 original size:2 final size:2 Alignment explanation
Indices: 322899--322947 Score: 56 Period size: 2 Copynumber: 25.0 Consensus size: 2 322889 AAAAAAAAAA * * * 322899 AT AT AT AT AT AT AT AT AT A- AA AT AT AT TT AT AC 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 * * 322940 GT AC AT AT 1 AT AT AT AT 322948 TTTTGTTCAC Statistics Matches: 37, Mismatches: 9, Indels: 2 0.77 0.19 0.04 Matches are distributed among these distances: 1 1 0.03 2 36 0.97 ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45 Consensus pattern (2 bp): AT Left flanking sequence: Indices 322399 -- 322898 TAATTAACATATATATATAAATAAATAAATAAATGAATAAATATAAATATATATAATATATATAT AATATATATAATATATATATTATATTGTTACATTTGCGTACTTTACATATTCATCGTACATCTTC AGTGTAATTGTAATTTTTATTTTTTAATAAATACCAAAAAAAAAAAAAAAAAAAATCTGGAAAAT GGAATGTACTTGAAGTATATAAAAAGTACCACAATGGAGAAGACTGATATAGGATATTTAAAAAT TGAAGATACAATTAAAAAGAAATTATTTTCTAATAATTTAAAAACAAGTATAGCACATAACGCAA CGAAACAAAGATAATATATATATATATATATATAATAAATATATGTATGTTTTTTTTTTTTTTTT TTTTTTTTTTTATAGTTGAAGAGCTAAGCACGAATTATCTGGAAAATGTCAATTTCAAGGTTGGA AAATATAATCCATCTTTATATTTATATTACATATAAAAAAAAAAA Right flanking sequence: Indices 322948 -- 323447 TTTTGTTCACGTTCATCTTGTAGGAAGTAAACTTCATACAAGCAGAAATTTTCAAACAACATATG AAAGAACTAGGTTTAAAGGAGACTCAAGAAAAAGGTGATAATGAACAAAATGTACATTCAATTAA AAGATACTATAAGGATATATATTCAATAAGTGATCATGAAAAATATTGTACGAGAAAAAAAAAAA ATATATATTGTTCTTATATGAATAAATCTGAACGTTTTAATGGGAACGATAAAGACCTTTCTTCC GCATCGTCATATAATTCATCTTATAATTTGTCATCCAACATTTCATGTGACATATCAAATGATAG ATCATCTGACTTATCATCCGACTTATCAGATGATAAGTCAACAAATTCGTCAAGCATTTCATCCA ACTCATCATTAAATTCCTCCTTCTATCACACACAACCTAGGATGTCTAGTTCTTACGAAGGACTA ATACATGAACATAATACAAATATGTACACATCCATCAGGTGCAAT Found at i:324010 original size:3 final size:3 Alignment explanation
Indices: 323992--324013 Score: 30 Period size: 3 Copynumber: 7.3 Consensus size: 3 323982 GTATATTGTG * * 323992 ATA ATA AAA ATT ATA ATA ATA A 1 ATA ATA ATA ATA ATA ATA ATA A 324014 AGAGGAAAAC Statistics Matches: 15, Mismatches: 4, Indels: 0 0.79 0.21 0.00 Matches are distributed among these distances: 3 15 1.00 ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32 Consensus pattern (3 bp): ATA Left flanking sequence: Indices 323492 -- 323991 GACTAAAAAAACTCTTCCATATAAAAAACAAAACTCATTAGAAGAAAATTTTTTAATATATTCAG ACTTTATGAAAAAGAATATAAAAAATAAGAAATATTATAAAACAACAATTAATTCTTTAAACAAT TTATTGTGTGATGGTATAGAGACAACACAGTTATATTATTTTTACGGTGAAAAGACAAAAATAAA TAAAATTATTCTAATCAATTTATTATATGATATTATTGTTAACAATAGTTATGATAATAGACGTT TATCAATCAATAATGAGTCCATAATATTTATATATTTTAGTCATATTAATGATATATCTAAAATA CTTCATATTGTAACAAATAAATTAAAAAGAGATGAACAATGTGAATATAATATAACAGAGGATGA TATCCTACAACGTTTTTATATGTTACGAATTAAAAATATTTCAGAAATTATATCTTTTTTATCTT ATATTAAAGAGCATTCATTAAAAAATAAATGGAATGTATATTGTG Right flanking sequence: Indices 324014 -- 324513 AGAGGAAAACTACATAAAAAGTGATCATTACAATAATAATGTATATGTAAAGATGGAACATGGAA ATAAATATAATACTCATCAATATAATAATTATATACATAATAAAAATGATAGACTAAAAAACATT TCTTGTATAACTATATATAATTTTACTAATTTATTAAAAAATATAAATATCAATAATCCCTTTGA TTATTTTTATCTCATAAGAGAATTAAAAATTGTAGCAAGTATGTTAAATATAGCTATCCTCATTT TTGATGTTGCAAAACATGAAGGGGTGGATAGTAACCACAATAATAAAAATAATAAAAAAGAATTA AAAATGAAAAATATAACAACTCAAAATGATAAAGAATATAACAACACCGGCACGACGGCAACGAC CAGGATGATCATCATAAATAATAATAAAAACAACAACAATAATAATAATAATAATAATAATAATA AATGTGAAAGTGCCGTAAATAGTCACAATAACCTTTACCATAATT Found at i:324193 original size:6 final size:6 Alignment explanation
Indices: 324182--324198 Score: 27 Period size: 6 Copynumber: 2.8 Consensus size: 6 324172 ATTTATTAAA * 324182 AAATAT AAATAT CAATA 1 AAATAT AAATAT AAATA 324199 ATCCCTTTGA Statistics Matches: 10, Mismatches: 1, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 6 10 1.00 ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29 Consensus pattern (6 bp): AAATAT Left flanking sequence: Indices 323682 -- 324181 ATAAATAAAATTATTCTAATCAATTTATTATATGATATTATTGTTAACAATAGTTATGATAATAG ACGTTTATCAATCAATAATGAGTCCATAATATTTATATATTTTAGTCATATTAATGATATATCTA AAATACTTCATATTGTAACAAATAAATTAAAAAGAGATGAACAATGTGAATATAATATAACAGAG GATGATATCCTACAACGTTTTTATATGTTACGAATTAAAAATATTTCAGAAATTATATCTTTTTT ATCTTATATTAAAGAGCATTCATTAAAAAATAAATGGAATGTATATTGTGATAATAAAAATTATA ATAATAAAGAGGAAAACTACATAAAAAGTGATCATTACAATAATAATGTATATGTAAAGATGGAA CATGGAAATAAATATAATACTCATCAATATAATAATTATATACATAATAAAAATGATAGACTAAA AAACATTTCTTGTATAACTATATATAATTTTACTAATTTATTAAA Right flanking sequence: Indices 324199 -- 324698 ATCCCTTTGATTATTTTTATCTCATAAGAGAATTAAAAATTGTAGCAAGTATGTTAAATATAGCT ATCCTCATTTTTGATGTTGCAAAACATGAAGGGGTGGATAGTAACCACAATAATAAAAATAATAA AAAAGAATTAAAAATGAAAAATATAACAACTCAAAATGATAAAGAATATAACAACACCGGCACGA CGGCAACGACCAGGATGATCATCATAAATAATAATAAAAACAACAACAATAATAATAATAATAAT AATAATAATAAATGTGAAAGTGCCGTAAATAGTCACAATAACCTTTACCATAATTTTATTAATCA ATCTCATCAAGACATAAACCAGGAACCTTATACTCATATTATAGATAATAAAGATATTATATCAA CACAAAAAAAAAAAATATATATGACCAACATGAAACAAAATAATATTAATATGGAAAATTATTCT AGTGATACTACAAGTAATGATACCATTATCTATGAAGAAAATTCA Found at