TRAP (Tandem Repeats Analysis Program) TRF Version 4.00 Sequence: 97739981 P. falciparum 3D7 GENOMIC chr7 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: 1350452 ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41 Found at i: i:677791 original size:2 final size:2 Alignment explanation
Indices: 677774--677835 Score: 110 Period size: 2 Copynumber: 31.0 Consensus size: 2 677764 TCCTAAAAAA * * 677774 AT AT AA AT AT AA 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 677816 AT AT AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT AT AT 677836 TTTTTCATAT Statistics Matches: 56, Mismatches: 4, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 2 56 1.00 ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47 Consensus pattern (2 bp): AT Left flanking sequence: Indices 677274 -- 677773 ATAATAAACAAAATTAATTTCATGCATGTTTATAAAAAAAAAAAAAAAAAAAAAAAAGTACATAT ATATATATATATATATATATATATGTATATATTATTTTTTGTTTATATTACCATTGCTGCTACAA AACAACCCTTTTCGGCTTCTTTGATTTTTTCTTTACTATAATCCAAGCTCTCTTCAATTAAATCG TTTCTATGTATGTCTTCCTCAATAAGAGATGTTAATATATCATTATAAATATTTTCATCATCGGA TTTCTTCGAAAATATAAAAAATAAAGATATATGTTAATATATAGGCTATCGATTGGTCTCATAAA ACGTGGATTATATATATATATATATATATATATGTGTATGTATATGTGTGTATGTATATATGTAT GTGTTTTATTTATTTATTTATTCTTCAAACAATACCTTTGGTGATAAATCCTTAATGTGTCTTTT TATAAGCATATTTTCAATCATTTTTGATTCAGTCATCCTAAAAAA Right flanking sequence: Indices 677836 -- 678335 TTTTTCATATGTAAATCATTATTTTATTGAATATCATATCATACCACATTGTTAAATAACCAAAT AGGTGCATCCTTTCATGTATCAATTCTACCTTCTCCAACATTTGCTCCTTCATATTTTTTGGAGA TTCAATAATCTATATGAAAAAATTAATTATTTTTAAAATGAATAACAAAGAAAAAACAATATATA TATAATATATATATAATATATATATATAATAACTCGTTTTGTATTTACCTCATCTATTTTGTTAA TAATGTCGTTGGGTTTATATTCCGCTAACTTATTTCCTTTTCCACTAAAAATTAAAAATGCAAAA ATATATATATAAGGAAAAATATATTTAATATATATTCATAATTTTTTTATGTTATATAAAAATTA CATGATATATATTTTAAAATATATTACTTGTGATATAATAAAAAGGTTGGTGTTCCTCTAGAAAC AATCATATTTGGTGCATAATCGTTTTTCTCTATGTTATATTTTTT Found at i:677874 original size:5 final size:5 Alignment explanation
Indices: 677866--677878 Score: 26 Period size: 5 Copynumber: 2.6 Consensus size: 5 677856 ATTTTATTGA 677866 ATATC ATATC ATA 1 ATATC ATATC ATA 677879 CCACATTGTT Statistics Matches: 8, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 5 8 1.00 ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38 Consensus pattern (5 bp): ATATC Left flanking sequence: Indices 677366 -- 677865 TATATTATTTTTTGTTTATATTACCATTGCTGCTACAAAACAACCCTTTTCGGCTTCTTTGATTT TTTCTTTACTATAATCCAAGCTCTCTTCAATTAAATCGTTTCTATGTATGTCTTCCTCAATAAGA GATGTTAATATATCATTATAAATATTTTCATCATCGGATTTCTTCGAAAATATAAAAAATAAAGA TATATGTTAATATATAGGCTATCGATTGGTCTCATAAAACGTGGATTATATATATATATATATAT ATATATGTGTATGTATATGTGTGTATGTATATATGTATGTGTTTTATTTATTTATTTATTCTTCA AACAATACCTTTGGTGATAAATCCTTAATGTGTCTTTTTATAAGCATATTTTCAATCATTTTTGA TTCAGTCATCCTAAAAAAATATAAATATAAATATATATATATATATATATATATATATATATATA TATATATATATATATTTTTTCATATGTAAATCATTATTTTATTGA Right flanking sequence: Indices 677879 -- 678378 CCACATTGTTAAATAACCAAATAGGTGCATCCTTTCATGTATCAATTCTACCTTCTCCAACATTT GCTCCTTCATATTTTTTGGAGATTCAATAATCTATATGAAAAAATTAATTATTTTTAAAATGAAT AACAAAGAAAAAACAATATATATATAATATATATATAATATATATATATAATAACTCGTTTTGTA TTTACCTCATCTATTTTGTTAATAATGTCGTTGGGTTTATATTCCGCTAACTTATTTCCTTTTCC ACTAAAAATTAAAAATGCAAAAATATATATATAAGGAAAAATATATTTAATATATATTCATAATT TTTTTATGTTATATAAAAATTACATGATATATATTTTAAAATATATTACTTGTGATATAATAAAA AGGTTGGTGTTCCTCTAGAAACAATCATATTTGGTGCATAATCGTTTTTCTCTATGTTATATTTT TTTATTTTTAACTTAATCTATACAAAAAAAATAAAATAAAATAAT Found at i:678029 original size:2 final size:2 Alignment explanation
Indices: 678024--678058 Score: 56 Period size: 2 Copynumber: 18.5 Consensus size: 2 678014 AGAAAAAACA 678024 AT AT AT AT AT A- AT AT AT AT AT A- AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 678059 ATAACTCGTT Statistics Matches: 31, Mismatches: 0, Indels: 4 0.89 0.00 0.11 Matches are distributed among these distances: 1 2 0.06 2 29 0.94 ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46 Consensus pattern (2 bp): AT Left flanking sequence: Indices 677524 -- 678023 CATCATCGGATTTCTTCGAAAATATAAAAAATAAAGATATATGTTAATATATAGGCTATCGATTG GTCTCATAAAACGTGGATTATATATATATATATATATATATATGTGTATGTATATGTGTGTATGT ATATATGTATGTGTTTTATTTATTTATTTATTCTTCAAACAATACCTTTGGTGATAAATCCTTAA TGTGTCTTTTTATAAGCATATTTTCAATCATTTTTGATTCAGTCATCCTAAAAAAATATAAATAT AAATATATATATATATATATATATATATATATATATATATATATATATATATTTTTTCATATGTA AATCATTATTTTATTGAATATCATATCATACCACATTGTTAAATAACCAAATAGGTGCATCCTTT CATGTATCAATTCTACCTTCTCCAACATTTGCTCCTTCATATTTTTTGGAGATTCAATAATCTAT ATGAAAAAATTAATTATTTTTAAAATGAATAACAAAGAAAAAACA Right flanking sequence: Indices 678059 -- 678558 ATAACTCGTTTTGTATTTACCTCATCTATTTTGTTAATAATGTCGTTGGGTTTATATTCCGCTAA CTTATTTCCTTTTCCACTAAAAATTAAAAATGCAAAAATATATATATAAGGAAAAATATATTTAA TATATATTCATAATTTTTTTATGTTATATAAAAATTACATGATATATATTTTAAAATATATTACT TGTGATATAATAAAAAGGTTGGTGTTCCTCTAGAAACAATCATATTTGGTGCATAATCGTTTTTC TCTATGTTATATTTTTTTATTTTTAACTTAATCTATACAAAAAAAATAAAATAAAATAATATATA TATATATATATATATATATATATATATATATATTTATTTATTTATTTATTTATTTATATGTTATA ATAAAAATGGGTTTCCTTTTATTTCTTACATTATTCTCCTTAAATAACTTGTGTAAAGTATTTAT AAATGGTTTATATAAAAAGCACAAAAAACAAGTGTCTTCAAATAA Found at i:678371 original size:5 final size:5 Alignment explanation
Indices: 678357--678381 Score: 36 Period size: 5 Copynumber: 5.0 Consensus size: 5 678347 TAATCTATAC * * 678357 AAAAA AAATA AAATA AAATA ATATA 1 AAATA AAATA AAATA AAATA AAATA 678382 TATATATATA Statistics Matches: 18, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 5 18 1.00 ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20 Consensus pattern (5 bp): AAATA Left flanking sequence: Indices 677857 -- 678356 TTTTATTGAATATCATATCATACCACATTGTTAAATAACCAAATAGGTGCATCCTTTCATGTATC AATTCTACCTTCTCCAACATTTGCTCCTTCATATTTTTTGGAGATTCAATAATCTATATGAAAAA ATTAATTATTTTTAAAATGAATAACAAAGAAAAAACAATATATATATAATATATATATAATATAT ATATATAATAACTCGTTTTGTATTTACCTCATCTATTTTGTTAATAATGTCGTTGGGTTTATATT CCGCTAACTTATTTCCTTTTCCACTAAAAATTAAAAATGCAAAAATATATATATAAGGAAAAATA TATTTAATATATATTCATAATTTTTTTATGTTATATAAAAATTACATGATATATATTTTAAAATA TATTACTTGTGATATAATAAAAAGGTTGGTGTTCCTCTAGAAACAATCATATTTGGTGCATAATC GTTTTTCTCTATGTTATATTTTTTTATTTTTAACTTAATCTATAC Right flanking sequence: Indices 678382 -- 678881 TATATATATATATATATATATATATATATATATATTTATTTATTTATTTATTTATTTATATGTTA TAATAAAAATGGGTTTCCTTTTATTTCTTACATTATTCTCCTTAAATAACTTGTGTAAAGTATTT ATAAATGGTTTATATAAAAAGCACAAAAAACAAGTGTCTTCAAATAACACGACCAATATTTTATT ATTTTTTGAATCTTCAATAATCTAAATCAAAATAATAATGTACAAAATTTAAGAGAGTATATAAG AACATGTACATATATATATATATATTGATATTTTTTTTTTTTTTTTTTTTTTTTTGTATACCTCC TTTTCAAATGTATCATGTGTTACATATATAGGATATTTATCAGTATTATTTCCTTGATTTATTTG TTCATAATTTTCACTAACAGGTGTAAAAAAAGGCTGGACAATATCTTTAATAGGTTCGTTTACTA ATTCATCTTCAGTTATATTTCTTCTTCTTCTTCCTTTATATAGAA Found at i:678386 original size:4 final size:4 Alignment explanation
Indices: 678377--678442 Score: 90 Period size: 4 Copynumber: 16.5 Consensus size: 4 678367 AAATAAAATA * * 678377 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT TTAT TTAT 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT * * * * 678425 TTAT TTAT TTAT TTAT AT 1 ATAT ATAT ATAT ATAT AT 678443 GTTATAATAA Statistics Matches: 60, Mismatches: 2, Indels: 0 0.97 0.03 0.00 Matches are distributed among these distances: 4 60 1.00 ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59 Consensus pattern (4 bp): ATAT Left flanking sequence: Indices 677877 -- 678376 TACCACATTGTTAAATAACCAAATAGGTGCATCCTTTCATGTATCAATTCTACCTTCTCCAACAT TTGCTCCTTCATATTTTTTGGAGATTCAATAATCTATATGAAAAAATTAATTATTTTTAAAATGA ATAACAAAGAAAAAACAATATATATATAATATATATATAATATATATATATAATAACTCGTTTTG TATTTACCTCATCTATTTTGTTAATAATGTCGTTGGGTTTATATTCCGCTAACTTATTTCCTTTT CCACTAAAAATTAAAAATGCAAAAATATATATATAAGGAAAAATATATTTAATATATATTCATAA TTTTTTTATGTTATATAAAAATTACATGATATATATTTTAAAATATATTACTTGTGATATAATAA AAAGGTTGGTGTTCCTCTAGAAACAATCATATTTGGTGCATAATCGTTTTTCTCTATGTTATATT TTTTTATTTTTAACTTAATCTATACAAAAAAAATAAAATAAAATA Right flanking sequence: Indices 678443 -- 678942 GTTATAATAAAAATGGGTTTCCTTTTATTTCTTACATTATTCTCCTTAAATAACTTGTGTAAAGT ATTTATAAATGGTTTATATAAAAAGCACAAAAAACAAGTGTCTTCAAATAACACGACCAATATTT TATTATTTTTTGAATCTTCAATAATCTAAATCAAAATAATAATGTACAAAATTTAAGAGAGTATA TAAGAACATGTACATATATATATATATATTGATATTTTTTTTTTTTTTTTTTTTTTTTTGTATAC CTCCTTTTCAAATGTATCATGTGTTACATATATAGGATATTTATCAGTATTATTTCCTTGATTTA TTTGTTCATAATTTTCACTAACAGGTGTAAAAAAAGGCTGGACAATATCTTTAATAGGTTCGTTT ACTAATTCATCTTCAGTTATATTTCTTCTTCTTCTTCCTTTATATAGAAAACATGAATAATCTTT AGTATGTTCATTATATGTATATAGATAATTTAAATTTTTAATATT Found at i:678656 original size:2 final size:2 Alignment explanation
Indices: 678651--678666 Score: 32 Period size: 2 Copynumber: 8.0 Consensus size: 2 678641 GAACATGTAC 678651 AT AT AT AT AT AT AT AT 1 AT AT AT AT AT AT AT AT 678667 TGATATTTTT Statistics Matches: 14, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 14 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Left flanking sequence: Indices 678151 -- 678650 AAATGCAAAAATATATATATAAGGAAAAATATATTTAATATATATTCATAATTTTTTTATGTTAT ATAAAAATTACATGATATATATTTTAAAATATATTACTTGTGATATAATAAAAAGGTTGGTGTTC CTCTAGAAACAATCATATTTGGTGCATAATCGTTTTTCTCTATGTTATATTTTTTTATTTTTAAC TTAATCTATACAAAAAAAATAAAATAAAATAATATATATATATATATATATATATATATATATAT ATATATTTATTTATTTATTTATTTATTTATATGTTATAATAAAAATGGGTTTCCTTTTATTTCTT ACATTATTCTCCTTAAATAACTTGTGTAAAGTATTTATAAATGGTTTATATAAAAAGCACAAAAA ACAAGTGTCTTCAAATAACACGACCAATATTTTATTATTTTTTGAATCTTCAATAATCTAAATCA AAATAATAATGTACAAAATTTAAGAGAGTATATAAGAACATGTAC Right flanking sequence: Indices 678667 -- 679166 TGATATTTTTTTTTTTTTTTTTTTTTTTTTGTATACCTCCTTTTCAAATGTATCATGTGTTACAT ATATAGGATATTTATCAGTATTATTTCCTTGATTTATTTGTTCATAATTTTCACTAACAGGTGTA AAAAAAGGCTGGACAATATCTTTAATAGGTTCGTTTACTAATTCATCTTCAGTTATATTTCTTCT TCTTCTTCCTTTATATAGAAAACATGAATAATCTTTAGTATGTTCATTATATGTATATAGATAAT TTAAATTTTTAATATTAAGTTTTTGTATTTCATTTTTAATATGTTCAATTTTTTTTTTTTCTTCA TTTAATTTATTTTTATCTAACACAAATAATACAATATTATCTAAGTTATCAAAAAGTTCATCTGA TATTTCTTTCATTTCTTTTAAAAAACCTGTTACCTTTTTTTTTTTTTCGTACCAATTAAAATATA TATACCCAACTAAACCAATACTTAATAAAGAACACAAATATAATT Found at i:678678 original size:1 final size:1 Alignment explanation
Indices: 678672--678696 Score: 50 Period size: 1 Copynumber: 25.0 Consensus size: 1 678662 TATATTGATA 678672 TTTTTTTTTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTT 678697 GTATACCTCC 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 678172 -- 678671 AGGAAAAATATATTTAATATATATTCATAATTTTTTTATGTTATATAAAAATTACATGATATATA TTTTAAAATATATTACTTGTGATATAATAAAAAGGTTGGTGTTCCTCTAGAAACAATCATATTTG GTGCATAATCGTTTTTCTCTATGTTATATTTTTTTATTTTTAACTTAATCTATACAAAAAAAATA AAATAAAATAATATATATATATATATATATATATATATATATATATATATTTATTTATTTATTTA TTTATTTATATGTTATAATAAAAATGGGTTTCCTTTTATTTCTTACATTATTCTCCTTAAATAAC TTGTGTAAAGTATTTATAAATGGTTTATATAAAAAGCACAAAAAACAAGTGTCTTCAAATAACAC GACCAATATTTTATTATTTTTTGAATCTTCAATAATCTAAATCAAAATAATAATGTACAAAATTT AAGAGAGTATATAAGAACATGTACATATATATATATATATTGATA Right flanking sequence: Indices 678697 -- 679196 GTATACCTCCTTTTCAAATGTATCATGTGTTACATATATAGGATATTTATCAGTATTATTTCCTT GATTTATTTGTTCATAATTTTCACTAACAGGTGTAAAAAAAGGCTGGACAATATCTTTAATAGGT TCGTTTACTAATTCATCTTCAGTTATATTTCTTCTTCTTCTTCCTTTATATAGAAAACATGAATA ATCTTTAGTATGTTCATTATATGTATATAGATAATTTAAATTTTTAATATTAAGTTTTTGTATTT CATTTTTAATATGTTCAATTTTTTTTTTTTCTTCATTTAATTTATTTTTATCTAACACAAATAAT ACAATATTATCTAAGTTATCAAAAAGTTCATCTGATATTTCTTTCATTTCTTTTAAAAAACCTGT TACCTTTTTTTTTTTTTCGTACCAATTAAAATATATATACCCAACTAAACCAATACTTAATAAAG AACACAAATATAATTTCTTATTACTACTTTTATTATTTCCATTCT Found at i:678863 original size:3 final size:3 Alignment explanation
Indices: 678855--678869 Score: 30 Period size: 3 Copynumber: 5.0 Consensus size: 3 678845 TCAGTTATAT 678855 TTC TTC TTC TTC TTC 1 TTC TTC TTC TTC TTC 678870 CTTTATATAG Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 3 12 1.00 ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67 Consensus pattern (3 bp): TTC Left flanking sequence: Indices 678355 -- 678854 ACAAAAAAAATAAAATAAAATAATATATATATATATATATATATATATATATATATATATATTTA TTTATTTATTTATTTATTTATATGTTATAATAAAAATGGGTTTCCTTTTATTTCTTACATTATTC TCCTTAAATAACTTGTGTAAAGTATTTATAAATGGTTTATATAAAAAGCACAAAAAACAAGTGTC TTCAAATAACACGACCAATATTTTATTATTTTTTGAATCTTCAATAATCTAAATCAAAATAATAA TGTACAAAATTTAAGAGAGTATATAAGAACATGTACATATATATATATATATTGATATTTTTTTT TTTTTTTTTTTTTTTTTGTATACCTCCTTTTCAAATGTATCATGTGTTACATATATAGGATATTT ATCAGTATTATTTCCTTGATTTATTTGTTCATAATTTTCACTAACAGGTGTAAAAAAAGGCTGGA CAATATCTTTAATAGGTTCGTTTACTAATTCATCTTCAGTTATAT Right flanking sequence: Indices 678870 -- 679369 CTTTATATAGAAAACATGAATAATCTTTAGTATGTTCATTATATGTATATAGATAATTTAAATTT TTAATATTAAGTTTTTGTATTTCATTTTTAATATGTTCAATTTTTTTTTTTTCTTCATTTAATTT ATTTTTATCTAACACAAATAATACAATATTATCTAAGTTATCAAAAAGTTCATCTGATATTTCTT TCATTTCTTTTAAAAAACCTGTTACCTTTTTTTTTTTTTCGTACCAATTAAAATATATATACCCA ACTAAACCAATACTTAATAAAGAACACAAATATAATTTCTTATTACTACTTTTATTATTTCCATT CTTATTATTTGTGTTAGTGTTAGTGTTAGTGTTAGTAGTTATATATTTATTATATAATGTATTGC CTTCAAAGGGCTGTCGTTTTTTATGTGGGTATTTTATCATTACACATTTTTCTAACTTACTGTAG ATACCATCAAAATTATAAAAACATCTTTTACTATTTAAAAATATA Found at i:679095 original size:1 final size:1 Alignment explanation
Indices: 679091--679103 Score: 26 Period size: 1 Copynumber: 13.0 Consensus size: 1 679081 ACCTGTTACC 679091 TTTTTTTTTTTTT 1 TTTTTTTTTTTTT 679104 CGTACCAATT Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 12 1.00 ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00 Consensus pattern (1 bp): T Left flanking sequence: Indices 678591 -- 679090 CAATAATCTAAATCAAAATAATAATGTACAAAATTTAAGAGAGTATATAAGAACATGTACATATA TATATATATATTGATATTTTTTTTTTTTTTTTTTTTTTTTTGTATACCTCCTTTTCAAATGTATC ATGTGTTACATATATAGGATATTTATCAGTATTATTTCCTTGATTTATTTGTTCATAATTTTCAC TAACAGGTGTAAAAAAAGGCTGGACAATATCTTTAATAGGTTCGTTTACTAATTCATCTTCAGTT ATATTTCTTCTTCTTCTTCCTTTATATAGAAAACATGAATAATCTTTAGTATGTTCATTATATGT ATATAGATAATTTAAATTTTTAATATTAAGTTTTTGTATTTCATTTTTAATATGTTCAATTTTTT TTTTTTCTTCATTTAATTTATTTTTATCTAACACAAATAATACAATATTATCTAAGTTATCAAAA AGTTCATCTGATATTTCTTTCATTTCTTTTAAAAAACCTGTTACC Right flanking sequence: Indices 679104 -- 679603 CGTACCAATTAAAATATATATACCCAACTAAACCAATACTTAATAAAGAACACAAATATAATTTC TTATTACTACTTTTATTATTTCCATTCTTATTATTTGTGTTAGTGTTAGTGTTAGTGTTAGTAGT TATATATTTATTATATAATGTATTGCCTTCAAAGGGCTGTCGTTTTTTATGTGGGTATTTTATCA TTACACATTTTTCTAACTTACTGTAGATACCATCAAAATTATAAAAACATCTTTTACTATTTAAA AATATAATATTATTTCCTTTACTCAACTTATTTATTTTATTCATTTCTTTATTTATAATAATTTT TTATTAAAAATAGAAACGAACAAAAATGTATACATACGATATATAAATAAATAAATATATATATA TTATATATATATTATATGTATTTTCTTATAACATTTATGAAAACATTATTTTATAATATTTGTTG CAACATAAATATTGGGAGTTTATATTATAATTTACTTAAAAAAAA Found at i:679216 original size:6 final size:6 Alignment explanation
Indices: 679205--679235 Score: 53 Period size: 6 Copynumber: 5.0 Consensus size: 6 679195 CTTATTATTT 679205 GTGTTA GTGTTA GTGTTA GTGTTA GTAGTTA 1 GTGTTA GTGTTA GTGTTA GTGTTA GT-GTTA 679236 TATATTTATT Statistics Matches: 24, Mismatches: 0, Indels: 1 0.96 0.00 0.04 Matches are distributed among these distances: 6 20 0.83 7 4 0.17 ACGTcount: A:0.19, C:0.00, G:0.32, T:0.48 Consensus pattern (6 bp): GTGTTA Left flanking sequence: Indices 678705 -- 679204 CCTTTTCAAATGTATCATGTGTTACATATATAGGATATTTATCAGTATTATTTCCTTGATTTATT TGTTCATAATTTTCACTAACAGGTGTAAAAAAAGGCTGGACAATATCTTTAATAGGTTCGTTTAC TAATTCATCTTCAGTTATATTTCTTCTTCTTCTTCCTTTATATAGAAAACATGAATAATCTTTAG TATGTTCATTATATGTATATAGATAATTTAAATTTTTAATATTAAGTTTTTGTATTTCATTTTTA ATATGTTCAATTTTTTTTTTTTCTTCATTTAATTTATTTTTATCTAACACAAATAATACAATATT ATCTAAGTTATCAAAAAGTTCATCTGATATTTCTTTCATTTCTTTTAAAAAACCTGTTACCTTTT TTTTTTTTTCGTACCAATTAAAATATATATACCCAACTAAACCAATACTTAATAAAGAACACAAA TATAATTTCTTATTACTACTTTTATTATTTCCATTCTTATTATTT Right flanking sequence: Indices 679236 -- 679735 TATATTTATTATATAATGTATTGCCTTCAAAGGGCTGTCGTTTTTTATGTGGGTATTTTATCATT ACACATTTTTCTAACTTACTGTAGATACCATCAAAATTATAAAAACATCTTTTACTATTTAAAAA TATAATATTATTTCCTTTACTCAACTTATTTATTTTATTCATTTCTTTATTTATAATAATTTTTT ATTAAAAATAGAAACGAACAAAAATGTATACATACGATATATAAATAAATAAATATATATATATT ATATATATATTATATGTATTTTCTTATAACATTTATGAAAACATTATTTTATAATATTTGTTGCA ACATAAATATTGGGAGTTTATATTATAATTTACTTAAAAAAAAAAAAAAAAAAATTTTGTTTTGT TTATTCAATTTTGACGATTATTACAAGATTTACATAAAAATAAGGAGGCATATATATATATATAT ATATATATATATATATATTTATATTTATATTTATTGGTAAAAGTA Found at i:679400 original size:4 final size:4 Alignment explanation
Indices: 679391--679419 Score: 35 Period size: 4 Copynumber: 7.0 Consensus size: 4 679381 TTTACTCAAC * * 679391 TTAT TTATT TTAT TCAT TTCT TTAT TTAT 1 TTAT TTA-T TTAT TTAT TTAT TTAT TTAT 679420 AATAATTTTT Statistics Matches: 20, Mismatches: 4, Indels: 2 0.77 0.15 0.08 Matches are distributed among these distances: 4 16 0.80 5 4 0.20 ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72 Consensus pattern (4 bp): TTAT Left flanking sequence: Indices 678891 -- 679390 AATCTTTAGTATGTTCATTATATGTATATAGATAATTTAAATTTTTAATATTAAGTTTTTGTATT TCATTTTTAATATGTTCAATTTTTTTTTTTTCTTCATTTAATTTATTTTTATCTAACACAAATAA TACAATATTATCTAAGTTATCAAAAAGTTCATCTGATATTTCTTTCATTTCTTTTAAAAAACCTG TTACCTTTTTTTTTTTTTCGTACCAATTAAAATATATATACCCAACTAAACCAATACTTAATAAA GAACACAAATATAATTTCTTATTACTACTTTTATTATTTCCATTCTTATTATTTGTGTTAGTGTT AGTGTTAGTGTTAGTAGTTATATATTTATTATATAATGTATTGCCTTCAAAGGGCTGTCGTTTTT TATGTGGGTATTTTATCATTACACATTTTTCTAACTTACTGTAGATACCATCAAAATTATAAAAA CATCTTTTACTATTTAAAAATATAATATTATTTCCTTTACTCAAC Right flanking sequence: Indices 679420 -- 679919 AATAATTTTTTATTAAAAATAGAAACGAACAAAAATGTATACATACGATATATAAATAAATAAAT ATATATATATTATATATATATTATATGTATTTTCTTATAACATTTATGAAAACATTATTTTATAA TATTTGTTGCAACATAAATATTGGGAGTTTATATTATAATTTACTTAAAAAAAAAAAAAAAAAAA TTTTGTTTTGTTTATTCAATTTTGACGATTATTACAAGATTTACATAAAAATAAGGAGGCATATA TATATATATATATATATATATATATATATTTATATTTATATTTATTGGTAAAAGTAATGAATCTA TGGAAAAAAAAAAAAAAAAAAAAGTGTACCTTCAAAATAATATTGCAAACTATCATCGAATGTAG AAATGTAAAAGGTATATATATTATTATATATATGTAATATAATACAATACAGGTATAAATTTATA TATATATATGTTGATTTTTTTTTTTTTTTTTTTTTTTTTTTTCCT Found at i:679488 original size:2 final size:2 Alignment explanation
Indices: 679467--679514 Score: 54 Period size: 2 Copynumber: 25.0 Consensus size: 2 679457 TATACATACG * * * 679467 AT AT AT AA AT AA AT AA AT AT AT AT AT AT -T AT AT AT AT AT -T 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT * 679507 AT AT GT AT 1 AT AT AT AT 679515 TTTCTTATAA Statistics Matches: 36, Mismatches: 8, Indels: 4 0.75 0.17 0.08 Matches are distributed among these distances: 1 2 0.06 2 34 0.94 ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46 Consensus pattern (2 bp): AT Left flanking sequence: Indices 678967 -- 679466 ATGTTCAATTTTTTTTTTTTCTTCATTTAATTTATTTTTATCTAACACAAATAATACAATATTAT CTAAGTTATCAAAAAGTTCATCTGATATTTCTTTCATTTCTTTTAAAAAACCTGTTACCTTTTTT TTTTTTTCGTACCAATTAAAATATATATACCCAACTAAACCAATACTTAATAAAGAACACAAATA TAATTTCTTATTACTACTTTTATTATTTCCATTCTTATTATTTGTGTTAGTGTTAGTGTTAGTGT TAGTAGTTATATATTTATTATATAATGTATTGCCTTCAAAGGGCTGTCGTTTTTTATGTGGGTAT TTTATCATTACACATTTTTCTAACTTACTGTAGATACCATCAAAATTATAAAAACATCTTTTACT ATTTAAAAATATAATATTATTTCCTTTACTCAACTTATTTATTTTATTCATTTCTTTATTTATAA TAATTTTTTATTAAAAATAGAAACGAACAAAAATGTATACATACG Right flanking sequence: Indices 679515 -- 680014 TTTCTTATAACATTTATGAAAACATTATTTTATAATATTTGTTGCAACATAAATATTGGGAGTTT ATATTATAATTTACTTAAAAAAAAAAAAAAAAAAATTTTGTTTTGTTTATTCAATTTTGACGATT ATTACAAGATTTACATAAAAATAAGGAGGCATATATATATATATATATATATATATATATATATT TATATTTATATTTATTGGTAAAAGTAATGAATCTATGGAAAAAAAAAAAAAAAAAAAAGTGTACC TTCAAAATAATATTGCAAACTATCATCGAATGTAGAAATGTAAAAGGTATATATATTATTATATA TATGTAATATAATACAATACAGGTATAAATTTATATATATATATGTTGATTTTTTTTTTTTTTTT TTTTTTTTTTTTCCTCCTCATTACGTTTATTCATCCTAATACATAAAAATTAATAAAGATAAAAA TGCTTATATAAACGATTATTTTTTTGTATTATTTTTTAAAAAAAA Found at i:679602 original size:1 final size:1 Alignment explanation
Indices: 679596--679614 Score: 38 Period size: 1 Copynumber: 19.0 Consensus size: 1 679586 TAATTTACTT 679596 AAAAAAAAAAAAAAAAAAA 1 AAAAAAAAAAAAAAAAAAA 679615 TTTTGTTTTG Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 18 1.00 ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00 Consensus pattern (1 bp): A Left flanking sequence: Indices 679096 -- 679595 TTTTTTTTCGTACCAATTAAAATATATATACCCAACTAAACCAATACTTAATAAAGAACACAAAT ATAATTTCTTATTACTACTTTTATTATTTCCATTCTTATTATTTGTGTTAGTGTTAGTGTTAGTG TTAGTAGTTATATATTTATTATATAATGTATTGCCTTCAAAGGGCTGTCGTTTTTTATGTGGGTA TTTTATCATTACACATTTTTCTAACTTACTGTAGATACCATCAAAATTATAAAAACATCTTTTAC TATTTAAAAATATAATATTATTTCCTTTACTCAACTTATTTATTTTATTCATTTCTTTATTTATA ATAATTTTTTATTAAAAATAGAAACGAACAAAAATGTATACATACGATATATAAATAAATAAATA TATATATATTATATATATATTATATGTATTTTCTTATAACATTTATGAAAACATTATTTTATAAT ATTTGTTGCAACATAAATATTGGGAGTTTATATTATAATTTACTT Right flanking sequence: Indices 679615 -- 680114 TTTTGTTTTGTTTATTCAATTTTGACGATTATTACAAGATTTACATAAAAATAAGGAGGCATATA TATATATATATATATATATATATATATATTTATATTTATATTTATTGGTAAAAGTAATGAATCTA TGGAAAAAAAAAAAAAAAAAAAAGTGTACCTTCAAAATAATATTGCAAACTATCATCGAATGTAG AAATGTAAAAGGTATATATATTATTATATATATGTAATATAATACAATACAGGTATAAATTTATA TATATATATGTTGATTTTTTTTTTTTTTTTTTTTTTTTTTTTCCTCCTCATTACGTTTATTCATC CTAATACATAAAAATTAATAAAGATAAAAATGCTTATATAAACGATTATTTTTTTGTATTATTTT TTAAAAAAAAATAAAAATAAATTTATAAAGCTAAAATTATACCATTTATAAGAAGCAATATTATA TATATATATATATATATTTTATATGTATAACGTGCTTCAGTAATA Found at i:679623 original size:5 final size:5 Alignment explanation
Indices: 679615--679627 Score: 26 Period size: 5 Copynumber: 2.6 Consensus size: 5 679605 AAAAAAAAAA 679615 TTTTG TTTTG TTT 1 TTTTG TTTTG TTT 679628 ATTCAATTTT Statistics Matches: 8, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 5 8 1.00 ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85 Consensus pattern (5 bp): TTTTG Left flanking sequence: Indices 679115 -- 679614 AAATATATATACCCAACTAAACCAATACTTAATAAAGAACACAAATATAATTTCTTATTACTACT TTTATTATTTCCATTCTTATTATTTGTGTTAGTGTTAGTGTTAGTGTTAGTAGTTATATATTTAT TATATAATGTATTGCCTTCAAAGGGCTGTCGTTTTTTATGTGGGTATTTTATCATTACACATTTT TCTAACTTACTGTAGATACCATCAAAATTATAAAAACATCTTTTACTATTTAAAAATATAATATT ATTTCCTTTACTCAACTTATTTATTTTATTCATTTCTTTATTTATAATAATTTTTTATTAAAAAT AGAAACGAACAAAAATGTATACATACGATATATAAATAAATAAATATATATATATTATATATATA TTATATGTATTTTCTTATAACATTTATGAAAACATTATTTTATAATATTTGTTGCAACATAAATA TTGGGAGTTTATATTATAATTTACTTAAAAAAAAAAAAAAAAAAA Right flanking sequence: Indices 679628 -- 680127 ATTCAATTTTGACGATTATTACAAGATTTACATAAAAATAAGGAGGCATATATATATATATATAT ATATATATATATATATTTATATTTATATTTATTGGTAAAAGTAATGAATCTATGGAAAAAAAAAA AAAAAAAAAAGTGTACCTTCAAAATAATATTGCAAACTATCATCGAATGTAGAAATGTAAAAGGT ATATATATTATTATATATATGTAATATAATACAATACAGGTATAAATTTATATATATATATGTTG ATTTTTTTTTTTTTTTTTTTTTTTTTTTTCCTCCTCATTACGTTTATTCATCCTAATACATAAAA ATTAATAAAGATAAAAATGCTTATATAAACGATTATTTTTTTGTATTATTTTTTAAAAAAAAATA AAAATAAATTTATAAAGCTAAAATTATACCATTTATAAGAAGCAATATTATATATATATATATAT ATATTTTATATGTATAACGTGCTTCAGTAATATACTTTATTTTAT Found at i:679684 original size:6 final size:6 Alignment explanation
Indices: 679675--679724 Score: 79 Period size: 6 Copynumber: 8.3 Consensus size: 6 679665 ATAAGGAGGC * * * 679675 ATATAT ATATAT ATATAT ATATAT ATATAT ATATTT ATATTT ATATTT 1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT 679723 AT 1 AT 679725 TGGTAAAAGT Statistics Matches: 43, Mismatches: 1, Indels: 0 0.98 0.02 0.00 Matches are distributed among these distances: 6 43 1.00 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (6 bp): ATATAT Left flanking sequence: Indices 679175 -- 679674 CTACTTTTATTATTTCCATTCTTATTATTTGTGTTAGTGTTAGTGTTAGTGTTAGTAGTTATATA TTTATTATATAATGTATTGCCTTCAAAGGGCTGTCGTTTTTTATGTGGGTATTTTATCATTACAC ATTTTTCTAACTTACTGTAGATACCATCAAAATTATAAAAACATCTTTTACTATTTAAAAATATA ATATTATTTCCTTTACTCAACTTATTTATTTTATTCATTTCTTTATTTATAATAATTTTTTATTA AAAATAGAAACGAACAAAAATGTATACATACGATATATAAATAAATAAATATATATATATTATAT ATATATTATATGTATTTTCTTATAACATTTATGAAAACATTATTTTATAATATTTGTTGCAACAT AAATATTGGGAGTTTATATTATAATTTACTTAAAAAAAAAAAAAAAAAAATTTTGTTTTGTTTAT TCAATTTTGACGATTATTACAAGATTTACATAAAAATAAGGAGGC Right flanking sequence: Indices 679725 -- 680224 TGGTAAAAGTAATGAATCTATGGAAAAAAAAAAAAAAAAAAAAGTGTACCTTCAAAATAATATTG CAAACTATCATCGAATGTAGAAATGTAAAAGGTATATATATTATTATATATATGTAATATAATAC AATACAGGTATAAATTTATATATATATATGTTGATTTTTTTTTTTTTTTTTTTTTTTTTTTTCCT CCTCATTACGTTTATTCATCCTAATACATAAAAATTAATAAAGATAAAAATGCTTATATAAACGA TTATTTTTTTGTATTATTTTTTAAAAAAAAATAAAAATAAATTTATAAAGCTAAAATTATACCAT TTATAAGAAGCAATATTATATATATATATATATATATTTTATATGTATAACGTGCTTCAGTAATA TACTTTATTTTATTCCTATTTTTTTACTCAATATATATTTTTATTGACCAGAAAAAAAGACGAAT ATAAGTATATATATATATATATATATATATGTATGTATAATATTT Found at i:679725 original size:4 final size:4 Alignment explanation
Indices: 679675--679724 Score: 79 Period size: 4 Copynumber: 12.5 Consensus size: 4 679665 ATAAGGAGGC * * * 679675 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATTT ATAT TTAT ATTT 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT 679723 AT 1 AT 679725 TGGTAAAAGT Statistics Matches: 41, Mismatches: 5, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 4 41 1.00 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (4 bp): ATAT Left flanking sequence: Indices 679175 -- 679674 CTACTTTTATTATTTCCATTCTTATTATTTGTGTTAGTGTTAGTGTTAGTGTTAGTAGTTATATA TTTATTATATAATGTATTGCCTTCAAAGGGCTGTCGTTTTTTATGTGGGTATTTTATCATTACAC ATTTTTCTAACTTACTGTAGATACCATCAAAATTATAAAAACATCTTTTACTATTTAAAAATATA ATATTATTTCCTTTACTCAACTTATTTATTTTATTCATTTCTTTATTTATAATAATTTTTTATTA AAAATAGAAACGAACAAAAATGTATACATACGATATATAAATAAATAAATATATATATATTATAT ATATATTATATGTATTTTCTTATAACATTTATGAAAACATTATTTTATAATATTTGTTGCAACAT AAATATTGGGAGTTTATATTATAATTTACTTAAAAAAAAAAAAAAAAAAATTTTGTTTTGTTTAT TCAATTTTGACGATTATTACAAGATTTACATAAAAATAAGGAGGC Right flanking sequence: Indices 679725 -- 680224 TGGTAAAAGTAATGAATCTATGGAAAAAAAAAAAAAAAAAAAAGTGTACCTTCAAAATAATATTG CAAACTATCATCGAATGTAGAAATGTAAAAGGTATATATATTATTATATATATGTAATATAATAC AATACAGGTATAAATTTATATATATATATGTTGATTTTTTTTTTTTTTTTTTTTTTTTTTTTCCT CCTCATTACGTTTATTCATCCTAATACATAAAAATTAATAAAGATAAAAATGCTTATATAAACGA TTATTTTTTTGTATTATTTTTTAAAAAAAAATAAAAATAAATTTATAAAGCTAAAATTATACCAT TTATAAGAAGCAATATTATATATATATATATATATATTTTATATGTATAACGTGCTTCAGTAATA TACTTTATTTTATTCCTATTTTTTTACTCAATATATATTTTTATTGACCAGAAAAAAAGACGAAT ATAAGTATATATATATATATATATATATATGTATGTATAATATTT Found at i:679754 original size:1 final size:1 Alignment explanation
Indices: 679748--679767 Score: 40 Period size: 1 Copynumber: 20.0 Consensus size: 1 679738 GAATCTATGG 679748 AAAAAAAAAAAAAAAAAAAA 1 AAAAAAAAAAAAAAAAAAAA 679768 GTGTACCTTC 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 679248 -- 679747 ATAATGTATTGCCTTCAAAGGGCTGTCGTTTTTTATGTGGGTATTTTATCATTACACATTTTTCT AACTTACTGTAGATACCATCAAAATTATAAAAACATCTTTTACTATTTAAAAATATAATATTATT TCCTTTACTCAACTTATTTATTTTATTCATTTCTTTATTTATAATAATTTTTTATTAAAAATAGA AACGAACAAAAATGTATACATACGATATATAAATAAATAAATATATATATATTATATATATATTA TATGTATTTTCTTATAACATTTATGAAAACATTATTTTATAATATTTGTTGCAACATAAATATTG GGAGTTTATATTATAATTTACTTAAAAAAAAAAAAAAAAAAATTTTGTTTTGTTTATTCAATTTT GACGATTATTACAAGATTTACATAAAAATAAGGAGGCATATATATATATATATATATATATATAT ATATATTTATATTTATATTTATTGGTAAAAGTAATGAATCTATGG Right flanking sequence: Indices 679768 -- 680267 GTGTACCTTCAAAATAATATTGCAAACTATCATCGAATGTAGAAATGTAAAAGGTATATATATTA TTATATATATGTAATATAATACAATACAGGTATAAATTTATATATATATATGTTGATTTTTTTTT TTTTTTTTTTTTTTTTTTTCCTCCTCATTACGTTTATTCATCCTAATACATAAAAATTAATAAAG ATAAAAATGCTTATATAAACGATTATTTTTTTGTATTATTTTTTAAAAAAAAATAAAAATAAATT TATAAAGCTAAAATTATACCATTTATAAGAAGCAATATTATATATATATATATATATATTTTATA TGTATAACGTGCTTCAGTAATATACTTTATTTTATTCCTATTTTTTTACTCAATATATATTTTTA TTGACCAGAAAAAAAGACGAATATAAGTATATATATATATATATATATATATGTATGTATAATAT TTAATTATTTATGTAGTAAATGTAATGGTGATTTATAAAAAAAAA Found at i:679858 original size:5 final size:5 Alignment explanation
Indices: 679845--679860 Score: 25 Period size: 5 Copynumber: 3.2 Consensus size: 5 679835 ATATATATGT * 679845 AATAT AATAC AATAC A 1 AATAC AATAC AATAC A 679861 GGTATAAATT Statistics Matches: 10, Mismatches: 1, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 5 10 1.00 ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25 Consensus pattern (5 bp): AATAC Left flanking sequence: Indices 679345 -- 679844 ACATCTTTTACTATTTAAAAATATAATATTATTTCCTTTACTCAACTTATTTATTTTATTCATTT CTTTATTTATAATAATTTTTTATTAAAAATAGAAACGAACAAAAATGTATACATACGATATATAA ATAAATAAATATATATATATTATATATATATTATATGTATTTTCTTATAACATTTATGAAAACAT TATTTTATAATATTTGTTGCAACATAAATATTGGGAGTTTATATTATAATTTACTTAAAAAAAAA AAAAAAAAAATTTTGTTTTGTTTATTCAATTTTGACGATTATTACAAGATTTACATAAAAATAAG GAGGCATATATATATATATATATATATATATATATATATTTATATTTATATTTATTGGTAAAAGT AATGAATCTATGGAAAAAAAAAAAAAAAAAAAAGTGTACCTTCAAAATAATATTGCAAACTATCA TCGAATGTAGAAATGTAAAAGGTATATATATTATTATATATATGT Right flanking sequence: Indices 679861 -- 680360 GGTATAAATTTATATATATATATGTTGATTTTTTTTTTTTTTTTTTTTTTTTTTTTCCTCCTCAT TACGTTTATTCATCCTAATACATAAAAATTAATAAAGATAAAAATGCTTATATAAACGATTATTT TTTTGTATTATTTTTTAAAAAAAAATAAAAATAAATTTATAAAGCTAAAATTATACCATTTATAA GAAGCAATATTATATATATATATATATATATTTTATATGTATAACGTGCTTCAGTAATATACTTT ATTTTATTCCTATTTTTTTACTCAATATATATTTTTATTGACCAGAAAAAAAGACGAATATAAGT ATATATATATATATATATATATATGTATGTATAATATTTAATTATTTATGTAGTAAATGTAATGG TGATTTATAAAAAAAAAAAAAAAAACATCAAGTTTATTCATATTTCATCATTAAAACTCCAGATA TGTTTCGCTCAATCCATTTTTCTTTTCGTTCTTTTGAATTTAACT Found at i:679895 original size:1 final size:1 Alignment explanation
Indices: 679889--679916 Score: 56 Period size: 1 Copynumber: 28.0 Consensus size: 1 679879 TATATGTTGA 679889 TTTTTTTTTTTTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT 679917 CCTCCTCATT Statistics Matches: 27, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 27 1.00 ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00 Consensus pattern (1 bp): T Left flanking sequence: Indices 679389 -- 679888 ACTTATTTATTTTATTCATTTCTTTATTTATAATAATTTTTTATTAAAAATAGAAACGAACAAAA ATGTATACATACGATATATAAATAAATAAATATATATATATTATATATATATTATATGTATTTTC TTATAACATTTATGAAAACATTATTTTATAATATTTGTTGCAACATAAATATTGGGAGTTTATAT TATAATTTACTTAAAAAAAAAAAAAAAAAAATTTTGTTTTGTTTATTCAATTTTGACGATTATTA CAAGATTTACATAAAAATAAGGAGGCATATATATATATATATATATATATATATATATATTTATA TTTATATTTATTGGTAAAAGTAATGAATCTATGGAAAAAAAAAAAAAAAAAAAAGTGTACCTTCA AAATAATATTGCAAACTATCATCGAATGTAGAAATGTAAAAGGTATATATATTATTATATATATG TAATATAATACAATACAGGTATAAATTTATATATATATATGTTGA Right flanking sequence: Indices 679917 -- 680416 CCTCCTCATTACGTTTATTCATCCTAATACATAAAAATTAATAAAGATAAAAATGCTTATATAAA CGATTATTTTTTTGTATTATTTTTTAAAAAAAAATAAAAATAAATTTATAAAGCTAAAATTATAC CATTTATAAGAAGCAATATTATATATATATATATATATATTTTATATGTATAACGTGCTTCAGTA ATATACTTTATTTTATTCCTATTTTTTTACTCAATATATATTTTTATTGACCAGAAAAAAAGACG AATATAAGTATATATATATATATATATATATATGTATGTATAATATTTAATTATTTATGTAGTAA ATGTAATGGTGATTTATAAAAAAAAAAAAAAAAACATCAAGTTTATTCATATTTCATCATTAAAA CTCCAGATATGTTTCGCTCAATCCATTTTTCTTTTCGTTCTTTTGAATTTAACTTTAAGTAGAAT ATTGGTTCATTATTAGTTAAGGTATATCCTAAGGAGCACTAAAAA Found at i:680022 original size:6 final size:6 Alignment explanation
Indices: 680007--680025 Score: 31 Period size: 6 Copynumber: 3.2 Consensus size: 6 679997 ATTATTTTTT * 680007 AAAAAA AAATAA AAATAA A 1 AAATAA AAATAA AAATAA A 680026 TTTATAAAGC Statistics Matches: 12, Mismatches: 1, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 6 12 1.00 ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11 Consensus pattern (6 bp): AAATAA Left flanking sequence: Indices 679507 -- 680006 ATATGTATTTTCTTATAACATTTATGAAAACATTATTTTATAATATTTGTTGCAACATAAATATT GGGAGTTTATATTATAATTTACTTAAAAAAAAAAAAAAAAAAATTTTGTTTTGTTTATTCAATTT TGACGATTATTACAAGATTTACATAAAAATAAGGAGGCATATATATATATATATATATATATATA TATATATTTATATTTATATTTATTGGTAAAAGTAATGAATCTATGGAAAAAAAAAAAAAAAAAAA AGTGTACCTTCAAAATAATATTGCAAACTATCATCGAATGTAGAAATGTAAAAGGTATATATATT ATTATATATATGTAATATAATACAATACAGGTATAAATTTATATATATATATGTTGATTTTTTTT TTTTTTTTTTTTTTTTTTTTCCTCCTCATTACGTTTATTCATCCTAATACATAAAAATTAATAAA GATAAAAATGCTTATATAAACGATTATTTTTTTGTATTATTTTTT Right flanking sequence: Indices 680026 -- 680525 TTTATAAAGCTAAAATTATACCATTTATAAGAAGCAATATTATATATATATATATATATATTTTA TATGTATAACGTGCTTCAGTAATATACTTTATTTTATTCCTATTTTTTTACTCAATATATATTTT TATTGACCAGAAAAAAAGACGAATATAAGTATATATATATATATATATATATATGTATGTATAAT ATTTAATTATTTATGTAGTAAATGTAATGGTGATTTATAAAAAAAAAAAAAAAAACATCAAGTTT ATTCATATTTCATCATTAAAACTCCAGATATGTTTCGCTCAATCCATTTTTCTTTTCGTTCTTTT GAATTTAACTTTAAGTAGAATATTGGTTCATTATTAGTTAAGGTATATCCTAAGGAGCACTAAAA AAAAAAAAAAAAAAAAAAAAAAAAAATATATATATATGTATATATATAAAATATAATATACACTA TGTATATATGTTTTTATATCTGTATTTATTTTATTCAATCAATAA Found at i:680073 original size:2 final size:2 Alignment explanation
Indices: 680062--680098 Score: 46 Period size: 2 Copynumber: 19.5 Consensus size: 2 680052 ATAAGAAGCA * * 680062 AT AT -T AT AT AT AT AT AT AT AT AT AT -T TT AT AT GT AT A 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A 680099 ACGTGCTTCA Statistics Matches: 30, Mismatches: 3, Indels: 4 0.81 0.08 0.11 Matches are distributed among these distances: 1 2 0.07 2 28 0.93 ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54 Consensus pattern (2 bp): AT Left flanking sequence: Indices 679562 -- 680061 CATAAATATTGGGAGTTTATATTATAATTTACTTAAAAAAAAAAAAAAAAAAATTTTGTTTTGTT TATTCAATTTTGACGATTATTACAAGATTTACATAAAAATAAGGAGGCATATATATATATATATA TATATATATATATATATTTATATTTATATTTATTGGTAAAAGTAATGAATCTATGGAAAAAAAAA AAAAAAAAAAAGTGTACCTTCAAAATAATATTGCAAACTATCATCGAATGTAGAAATGTAAAAGG TATATATATTATTATATATATGTAATATAATACAATACAGGTATAAATTTATATATATATATGTT GATTTTTTTTTTTTTTTTTTTTTTTTTTTTCCTCCTCATTACGTTTATTCATCCTAATACATAAA AATTAATAAAGATAAAAATGCTTATATAAACGATTATTTTTTTGTATTATTTTTTAAAAAAAAAT AAAAATAAATTTATAAAGCTAAAATTATACCATTTATAAGAAGCA Right flanking sequence: Indices 680099 -- 680598 ACGTGCTTCAGTAATATACTTTATTTTATTCCTATTTTTTTACTCAATATATATTTTTATTGACC AGAAAAAAAGACGAATATAAGTATATATATATATATATATATATATGTATGTATAATATTTAATT ATTTATGTAGTAAATGTAATGGTGATTTATAAAAAAAAAAAAAAAAACATCAAGTTTATTCATAT TTCATCATTAAAACTCCAGATATGTTTCGCTCAATCCATTTTTCTTTTCGTTCTTTTGAATTTAA CTTTAAGTAGAATATTGGTTCATTATTAGTTAAGGTATATCCTAAGGAGCACTAAAAAAAAAAAA AAAAAAAAAAAAAAAAAATATATATATATGTATATATATAAAATATAATATACACTATGTATATA TGTTTTTATATCTGTATTTATTTTATTCAATCAATAAATTATATATATATATATTTATTTATTTA TTTATTTATTTATTTATATATTTATGTGTGTGTATAATTTTTGAT Found at i:680190 original size:2 final size:2 Alignment explanation
Indices: 680185--680222 Score: 55 Period size: 2 Copynumber: 19.5 Consensus size: 2 680175 CGAATATAAG * * 680185 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA -A TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 680223 TTAATTATTT Statistics Matches: 31, Mismatches: 4, Indels: 2 0.84 0.11 0.05 Matches are distributed among these distances: 1 1 0.03 2 30 0.97 ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50 Consensus pattern (2 bp): TA Left flanking sequence: Indices 679685 -- 680184 ATATATATATATATATATATATATTTATATTTATATTTATTGGTAAAAGTAATGAATCTATGGAA AAAAAAAAAAAAAAAAAAGTGTACCTTCAAAATAATATTGCAAACTATCATCGAATGTAGAAATG TAAAAGGTATATATATTATTATATATATGTAATATAATACAATACAGGTATAAATTTATATATAT ATATGTTGATTTTTTTTTTTTTTTTTTTTTTTTTTTTCCTCCTCATTACGTTTATTCATCCTAAT ACATAAAAATTAATAAAGATAAAAATGCTTATATAAACGATTATTTTTTTGTATTATTTTTTAAA AAAAAATAAAAATAAATTTATAAAGCTAAAATTATACCATTTATAAGAAGCAATATTATATATAT ATATATATATATTTTATATGTATAACGTGCTTCAGTAATATACTTTATTTTATTCCTATTTTTTT ACTCAATATATATTTTTATTGACCAGAAAAAAAGACGAATATAAG Right flanking sequence: Indices 680223 -- 680722 TTAATTATTTATGTAGTAAATGTAATGGTGATTTATAAAAAAAAAAAAAAAAACATCAAGTTTAT TCATATTTCATCATTAAAACTCCAGATATGTTTCGCTCAATCCATTTTTCTTTTCGTTCTTTTGA ATTTAACTTTAAGTAGAATATTGGTTCATTATTAGTTAAGGTATATCCTAAGGAGCACTAAAAAA AAAAAAAAAAAAAAAAAAAAAAAATATATATATATGTATATATATAAAATATAATATACACTATG TATATATGTTTTTATATCTGTATTTATTTTATTCAATCAATAAATTATATATATATATATTTATT TATTTATTTATTTATTTATTTATATATTTATGTGTGTGTATAATTTTTGATATGTACCCGATTTG TGAATATTTTTATATATGGGACACTTGAATACGTACGAATTTCTCCTTGTATATTTTTGATGGGA AATATTTTTAGTAAGAAAATATATTTTGATGTAAGGCATAGGAGA Found at i:680265 original size:1 final size:1 Alignment explanation
Indices: 680259--680275 Score: 34 Period size: 1 Copynumber: 17.0 Consensus size: 1 680249 GGTGATTTAT 680259 AAAAAAAAAAAAAAAAA 1 AAAAAAAAAAAAAAAAA 680276 CATCAAGTTT Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 16 1.00 ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00 Consensus pattern (1 bp): A Left flanking sequence: Indices 679759 -- 680258 AAAAAAAAAGTGTACCTTCAAAATAATATTGCAAACTATCATCGAATGTAGAAATGTAAAAGGTA TATATATTATTATATATATGTAATATAATACAATACAGGTATAAATTTATATATATATATGTTGA TTTTTTTTTTTTTTTTTTTTTTTTTTTTCCTCCTCATTACGTTTATTCATCCTAATACATAAAAA TTAATAAAGATAAAAATGCTTATATAAACGATTATTTTTTTGTATTATTTTTTAAAAAAAAATAA AAATAAATTTATAAAGCTAAAATTATACCATTTATAAGAAGCAATATTATATATATATATATATA TATTTTATATGTATAACGTGCTTCAGTAATATACTTTATTTTATTCCTATTTTTTTACTCAATAT ATATTTTTATTGACCAGAAAAAAAGACGAATATAAGTATATATATATATATATATATATATGTAT GTATAATATTTAATTATTTATGTAGTAAATGTAATGGTGATTTAT Right flanking sequence: Indices 680276 -- 680775 CATCAAGTTTATTCATATTTCATCATTAAAACTCCAGATATGTTTCGCTCAATCCATTTTTCTTT TCGTTCTTTTGAATTTAACTTTAAGTAGAATATTGGTTCATTATTAGTTAAGGTATATCCTAAGG AGCACTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATATATATATATGTATATATATAAAATATA ATATACACTATGTATATATGTTTTTATATCTGTATTTATTTTATTCAATCAATAAATTATATATA TATATATTTATTTATTTATTTATTTATTTATTTATATATTTATGTGTGTGTATAATTTTTGATAT GTACCCGATTTGTGAATATTTTTATATATGGGACACTTGAATACGTACGAATTTCTCCTTGTATA TTTTTGATGGGAAATATTTTTAGTAAGAAAATATATTTTGATGTAAGGCATAGGAGAATATAATT GTATAGATGTAGATTGTTTTATTATCATATTAGTAATATCGAATG Found at i:680418 original size:1 final size:1 Alignment explanation
Indices: 680412--680441 Score: 60 Period size: 1 Copynumber: 30.0 Consensus size: 1 680402 AAGGAGCACT 680412 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 680442 TATATATATA Statistics Matches: 29, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 29 1.00 ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00 Consensus pattern (1 bp): A Left flanking sequence: Indices 679912 -- 680411 TTTTTCCTCCTCATTACGTTTATTCATCCTAATACATAAAAATTAATAAAGATAAAAATGCTTAT ATAAACGATTATTTTTTTGTATTATTTTTTAAAAAAAAATAAAAATAAATTTATAAAGCTAAAAT TATACCATTTATAAGAAGCAATATTATATATATATATATATATATTTTATATGTATAACGTGCTT CAGTAATATACTTTATTTTATTCCTATTTTTTTACTCAATATATATTTTTATTGACCAGAAAAAA AGACGAATATAAGTATATATATATATATATATATATATGTATGTATAATATTTAATTATTTATGT AGTAAATGTAATGGTGATTTATAAAAAAAAAAAAAAAAACATCAAGTTTATTCATATTTCATCAT TAAAACTCCAGATATGTTTCGCTCAATCCATTTTTCTTTTCGTTCTTTTGAATTTAACTTTAAGT AGAATATTGGTTCATTATTAGTTAAGGTATATCCTAAGGAGCACT Right flanking sequence: Indices 680442 -- 680941 TATATATATATGTATATATATAAAATATAATATACACTATGTATATATGTTTTTATATCTGTATT TATTTTATTCAATCAATAAATTATATATATATATATTTATTTATTTATTTATTTATTTATTTATA TATTTATGTGTGTGTATAATTTTTGATATGTACCCGATTTGTGAATATTTTTATATATGGGACAC TTGAATACGTACGAATTTCTCCTTGTATATTTTTGATGGGAAATATTTTTAGTAAGAAAATATAT TTTGATGTAAGGCATAGGAGAATATAATTGTATAGATGTAGATTGTTTTATTATCATATTAGTAA TATCGAATGTAGCTCCTTCAAGAAAAAAACCACCAATATAATAATGATCTTTATCGTTTATATCG TCTTCATTAAAATATTTTGTTATTTCATATTTTAATTTTATTTTATTAGCATCTACTTTTAATTC TTGGCTAAACTTTTGCCGAATGGCTAACAGCAAACTCTAAAAAAT Found at i:680448 original size:4 final size:4 Alignment explanation
Indices: 680441--680578 Score: 64 Period size: 4 Copynumber: 35.5 Consensus size: 4 680431 AAAAAAAAAA * * * * 680441 ATAT ATAT ATAT GTAT ATAT ATA- AAAT ATA- ATAT ACACT ATGT ATAT 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA-T ATAT ATAT * * * * * * * ** ** * 680488 ATGT TTTT ATAT CTGT ATTT AT-T TTAT -TCA ATCA ATAA AT-T ATAT 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT * * * * * * * * 680533 ATAT ATAT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATAT ATTT AT 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT 680579 GTGTGTGTAT Statistics Matches: 103, Mismatches: 25, Indels: 12 0.74 0.18 0.09 Matches are distributed among these distances: 3 10 0.10 4 91 0.88 5 2 0.02 ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55 Consensus pattern (4 bp): ATAT Left flanking sequence: Indices 679941 -- 680440 TAATACATAAAAATTAATAAAGATAAAAATGCTTATATAAACGATTATTTTTTTGTATTATTTTT TAAAAAAAAATAAAAATAAATTTATAAAGCTAAAATTATACCATTTATAAGAAGCAATATTATAT ATATATATATATATATTTTATATGTATAACGTGCTTCAGTAATATACTTTATTTTATTCCTATTT TTTTACTCAATATATATTTTTATTGACCAGAAAAAAAGACGAATATAAGTATATATATATATATA TATATATATGTATGTATAATATTTAATTATTTATGTAGTAAATGTAATGGTGATTTATAAAAAAA AAAAAAAAAACATCAAGTTTATTCATATTTCATCATTAAAACTCCAGATATGTTTCGCTCAATCC ATTTTTCTTTTCGTTCTTTTGAATTTAACTTTAAGTAGAATATTGGTTCATTATTAGTTAAGGTA TATCCTAAGGAGCACTAAAAAAAAAAAAAAAAAAAAAAAAAAAAA Right flanking sequence: Indices 680579 -- 681078 GTGTGTGTATAATTTTTGATATGTACCCGATTTGTGAATATTTTTATATATGGGACACTTGAATA CGTACGAATTTCTCCTTGTATATTTTTGATGGGAAATATTTTTAGTAAGAAAATATATTTTGATG TAAGGCATAGGAGAATATAATTGTATAGATGTAGATTGTTTTATTATCATATTAGTAATATCGAA TGTAGCTCCTTCAAGAAAAAAACCACCAATATAATAATGATCTTTATCGTTTATATCGTCTTCAT TAAAATATTTTGTTATTTCATATTTTAATTTTATTTTATTAGCATCTACTTTTAATTCTTGGCTA AACTTTTGCCGAATGGCTAACAGCAAACTCTAAAAAATATAAAAAATATAAACAATATAAAAAAT ATAAACAATATAAAAAATATAAACAATATAAAAAATATAAACAATATAAAAAATATTAACAATAT ATAAAATATTAACAATATATAAAATATAAACAATATATAAAATAT Found at