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:627322 original size:5 final size:5 Alignment explanation
Indices: 627297--627335 Score: 43 Period size: 5 Copynumber: 7.8 Consensus size: 5 627287 ATAAAAGCAT * * * * * 627297 TTTTA CTTTT TTTTT TATTA TTTTA TTTTA TTTAA TTTT 1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT 627336 TTATTTGTTA Statistics Matches: 26, Mismatches: 8, Indels: 0 0.76 0.24 0.00 Matches are distributed among these distances: 5 26 1.00 ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79 Consensus pattern (5 bp): TTTTA Left flanking sequence: Indices 626797 -- 627296 TTCCTTATTTTTCTTATTTTTATTCTTATTTTTTCTTGTCAGTGGTTGAACGTAATAGATATTCA AACAATGTTTCCTTTTTGGATGTGAAAGAAAGAAAGTACAAGATTAATAAATATTTATTTAGAAT AATTTATAATTTGTTGAAGGATTATTTTTCCAATAAGTCTATAAATATTGGCAAGGTAATAATAG AAGTATATTATATGAGTACATGATGTATGTGTATAGTAAGAAATATATTTATAATATTTCATGTA TTTATTTTATTTTGTTTTGGTTTATTTTTATTATTAATTTTTTTGAAGAATGAAACTTTGAATAA TTTTATACTTCAACATTTTGATAAGAAAATATGTGACAATTTAATCGCTCCGTACTGTTACCATT ATTTTAATTACTCCCCCGAAAATGTGTTGATGAGGTATACATAAAAAAAAAAAAATGTGAAGACA AGAAAGTGTGTATATAGTACATACATAACATACTGATAAAAGCAT Right flanking sequence: Indices 627336 -- 627835 TTATTTGTTAGATCTTTCTTTCCTCAATTTGTTGAAAAGATCGAAGGTAAGAAATCTTTAATAAA GTTCCTGTTTTCAAAAAAGGCTTCGTTATCATCTATTTCGAAGAAGCAAAAAATATTTCGATTTA TGGGAGGAAACAATGTATTAACAAGGTATGGACAAGAAAGAAAGAAAGAAAGAAAAAAAAAGAAA AAAGATGAAAAAGACATTTTATTTATACAAACATATATATATATATATATATATATATATATATA TATATATATATGAACGTTATTTTATTTTTTACTTTACTTTCATTTTTTCAGTACGTTAGTAGAAC ATTTAAAATTAAAAGATAACATGAGAATAATAAACAATATTAATAATATTCAAATGAAAGTGAAA CAAAATAGGACAAGGGTAAAAAAATATAATACGAAAAAAGGAATAACATGTAATTGGTTCTATAT ATATATATATATATATATATTTATATATATATATGTTCTTATTTA Found at i:627508 original size:4 final size:4 Alignment explanation
Indices: 627499--627535 Score: 53 Period size: 4 Copynumber: 10.0 Consensus size: 4 627489 AGGTATGGAC 627499 AAGA AAGA AAGA AAGA AAGA AA-A AA-A AAGA AA-A AAGA 1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA 627536 TGAAAAAGAC Statistics Matches: 31, Mismatches: 0, Indels: 4 0.89 0.00 0.11 Matches are distributed among these distances: 3 9 0.29 4 22 0.71 ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00 Consensus pattern (4 bp): AAGA Left flanking sequence: Indices 626999 -- 627498 TTATATGAGTACATGATGTATGTGTATAGTAAGAAATATATTTATAATATTTCATGTATTTATTT TATTTTGTTTTGGTTTATTTTTATTATTAATTTTTTTGAAGAATGAAACTTTGAATAATTTTATA CTTCAACATTTTGATAAGAAAATATGTGACAATTTAATCGCTCCGTACTGTTACCATTATTTTAA TTACTCCCCCGAAAATGTGTTGATGAGGTATACATAAAAAAAAAAAAATGTGAAGACAAGAAAGT GTGTATATAGTACATACATAACATACTGATAAAAGCATTTTTACTTTTTTTTTTATTATTTTATT TTATTTAATTTTTTATTTGTTAGATCTTTCTTTCCTCAATTTGTTGAAAAGATCGAAGGTAAGAA ATCTTTAATAAAGTTCCTGTTTTCAAAAAAGGCTTCGTTATCATCTATTTCGAAGAAGCAAAAAA TATTTCGATTTATGGGAGGAAACAATGTATTAACAAGGTATGGAC Right flanking sequence: Indices 627536 -- 628035 TGAAAAAGACATTTTATTTATACAAACATATATATATATATATATATATATATATATATATATAT ATATATGAACGTTATTTTATTTTTTACTTTACTTTCATTTTTTCAGTACGTTAGTAGAACATTTA AAATTAAAAGATAACATGAGAATAATAAACAATATTAATAATATTCAAATGAAAGTGAAACAAAA TAGGACAAGGGTAAAAAAATATAATACGAAAAAAGGAATAACATGTAATTGGTTCTATATATATA TATATATATATATATTTATATATATATATGTTCTTATTTATTATTTTTTTTTTTTTTTTTTTTGG TTAGTTGTTGCTAGGTAGAGAAGTTATAAAATGCAATGAAATCATTTTATGCCTCAATCCATCGG AATTAAAATATTTTTTAAAAAAGTCAAAATTGGAAAAAAAAAAAAAAAATATTTTGCTTCAATAT TTATCAAAATATGATACTAGCAAAATAAGGATAACAAATGTGTGT Found at i:627570 original size:2 final size:2 Alignment explanation
Indices: 627563--627606 Score: 88 Period size: 2 Copynumber: 22.0 Consensus size: 2 627553 TTATACAAAC 627563 AT AT AT AT AT 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 627605 AT 1 AT 627607 GAACGTTATT Statistics Matches: 42, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 42 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Left flanking sequence: Indices 627063 -- 627562 TTATTTTGTTTTGGTTTATTTTTATTATTAATTTTTTTGAAGAATGAAACTTTGAATAATTTTAT ACTTCAACATTTTGATAAGAAAATATGTGACAATTTAATCGCTCCGTACTGTTACCATTATTTTA ATTACTCCCCCGAAAATGTGTTGATGAGGTATACATAAAAAAAAAAAAATGTGAAGACAAGAAAG TGTGTATATAGTACATACATAACATACTGATAAAAGCATTTTTACTTTTTTTTTTATTATTTTAT TTTATTTAATTTTTTATTTGTTAGATCTTTCTTTCCTCAATTTGTTGAAAAGATCGAAGGTAAGA AATCTTTAATAAAGTTCCTGTTTTCAAAAAAGGCTTCGTTATCATCTATTTCGAAGAAGCAAAAA ATATTTCGATTTATGGGAGGAAACAATGTATTAACAAGGTATGGACAAGAAAGAAAGAAAGAAAG AAAAAAAAAGAAAAAAGATGAAAAAGACATTTTATTTATACAAAC Right flanking sequence: Indices 627607 -- 628106 GAACGTTATTTTATTTTTTACTTTACTTTCATTTTTTCAGTACGTTAGTAGAACATTTAAAATTA AAAGATAACATGAGAATAATAAACAATATTAATAATATTCAAATGAAAGTGAAACAAAATAGGAC AAGGGTAAAAAAATATAATACGAAAAAAGGAATAACATGTAATTGGTTCTATATATATATATATA TATATATATTTATATATATATATGTTCTTATTTATTATTTTTTTTTTTTTTTTTTTTGGTTAGTT GTTGCTAGGTAGAGAAGTTATAAAATGCAATGAAATCATTTTATGCCTCAATCCATCGGAATTAA AATATTTTTTAAAAAAGTCAAAATTGGAAAAAAAAAAAAAAAATATTTTGCTTCAATATTTATCA AAATATGATACTAGCAAAATAAGGATAACAAATGTGTGTTTTAAAAAAAATGTATTGCCTTTATC TCATTCATTGGTAATATAAATAGGGATAGTATATACAAGTGTATA Found at i:627631 original size:5 final size:5 Alignment explanation
Indices: 627623--627635 Score: 26 Period size: 5 Copynumber: 2.6 Consensus size: 5 627613 TATTTTATTT 627623 TTTAC TTTAC TTT 1 TTTAC TTTAC TTT 627636 CATTTTTTCA 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:0.15, C:0.15, G:0.00, T:0.69 Consensus pattern (5 bp): TTTAC Left flanking sequence: Indices 627123 -- 627622 TTTATACTTCAACATTTTGATAAGAAAATATGTGACAATTTAATCGCTCCGTACTGTTACCATTA TTTTAATTACTCCCCCGAAAATGTGTTGATGAGGTATACATAAAAAAAAAAAAATGTGAAGACAA GAAAGTGTGTATATAGTACATACATAACATACTGATAAAAGCATTTTTACTTTTTTTTTTATTAT TTTATTTTATTTAATTTTTTATTTGTTAGATCTTTCTTTCCTCAATTTGTTGAAAAGATCGAAGG TAAGAAATCTTTAATAAAGTTCCTGTTTTCAAAAAAGGCTTCGTTATCATCTATTTCGAAGAAGC AAAAAATATTTCGATTTATGGGAGGAAACAATGTATTAACAAGGTATGGACAAGAAAGAAAGAAA GAAAGAAAAAAAAAGAAAAAAGATGAAAAAGACATTTTATTTATACAAACATATATATATATATA TATATATATATATATATATATATATATATGAACGTTATTTTATTT Right flanking sequence: Indices 627636 -- 628135 CATTTTTTCAGTACGTTAGTAGAACATTTAAAATTAAAAGATAACATGAGAATAATAAACAATAT TAATAATATTCAAATGAAAGTGAAACAAAATAGGACAAGGGTAAAAAAATATAATACGAAAAAAG GAATAACATGTAATTGGTTCTATATATATATATATATATATATATTTATATATATATATGTTCTT ATTTATTATTTTTTTTTTTTTTTTTTTTGGTTAGTTGTTGCTAGGTAGAGAAGTTATAAAATGCA ATGAAATCATTTTATGCCTCAATCCATCGGAATTAAAATATTTTTTAAAAAAGTCAAAATTGGAA AAAAAAAAAAAAAATATTTTGCTTCAATATTTATCAAAATATGATACTAGCAAAATAAGGATAAC AAATGTGTGTTTTAAAAAAAATGTATTGCCTTTATCTCATTCATTGGTAATATAAATAGGGATAG TATATACAAGTGTATATATATATATATATATATATATATATATAT Found at i:627793 original size:2 final size:2 Alignment explanation
Indices: 627786--627824 Score: 71 Period size: 2 Copynumber: 19.5 Consensus size: 2 627776 TAATTGGTTC * 627786 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 627825 GTTCTTATTT Statistics Matches: 35, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 2 35 1.00 ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54 Consensus pattern (2 bp): TA Left flanking sequence: Indices 627286 -- 627785 GATAAAAGCATTTTTACTTTTTTTTTTATTATTTTATTTTATTTAATTTTTTATTTGTTAGATCT TTCTTTCCTCAATTTGTTGAAAAGATCGAAGGTAAGAAATCTTTAATAAAGTTCCTGTTTTCAAA AAAGGCTTCGTTATCATCTATTTCGAAGAAGCAAAAAATATTTCGATTTATGGGAGGAAACAATG TATTAACAAGGTATGGACAAGAAAGAAAGAAAGAAAGAAAAAAAAAGAAAAAAGATGAAAAAGAC ATTTTATTTATACAAACATATATATATATATATATATATATATATATATATATATATATATGAAC GTTATTTTATTTTTTACTTTACTTTCATTTTTTCAGTACGTTAGTAGAACATTTAAAATTAAAAG ATAACATGAGAATAATAAACAATATTAATAATATTCAAATGAAAGTGAAACAAAATAGGACAAGG GTAAAAAAATATAATACGAAAAAAGGAATAACATGTAATTGGTTC Right flanking sequence: Indices 627825 -- 628324 GTTCTTATTTATTATTTTTTTTTTTTTTTTTTTTGGTTAGTTGTTGCTAGGTAGAGAAGTTATAA AATGCAATGAAATCATTTTATGCCTCAATCCATCGGAATTAAAATATTTTTTAAAAAAGTCAAAA TTGGAAAAAAAAAAAAAAAATATTTTGCTTCAATATTTATCAAAATATGATACTAGCAAAATAAG GATAACAAATGTGTGTTTTAAAAAAAATGTATTGCCTTTATCTCATTCATTGGTAATATAAATAG GGATAGTATATACAAGTGTATATATATATATATATATATATATATATATATTTTATTTATATGTG TGTATTTATTAATTTCTTTTTTGTAGGAATCACTACTATTAATTAAAAAAAATGAAAAACACAAA ATAATTTCGCTATTATATGATAGTAATATATTCCCAAATTGTATTCCAATAGAGGAAGAGGATGA TAAGGATATTTTTCAAACGCGGTAAAAATAAAATAATAAAATTAT Found at i:627845 original size:1 final size:1 Alignment explanation
Indices: 627839--627858 Score: 40 Period size: 1 Copynumber: 20.0 Consensus size: 1 627829 TTATTTATTA 627839 TTTTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTT 627859 GGTTAGTTGT 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:0.00, C:0.00, G:0.00, T:1.00 Consensus pattern (1 bp): T Left flanking sequence: Indices 627339 -- 627838 TTTGTTAGATCTTTCTTTCCTCAATTTGTTGAAAAGATCGAAGGTAAGAAATCTTTAATAAAGTT CCTGTTTTCAAAAAAGGCTTCGTTATCATCTATTTCGAAGAAGCAAAAAATATTTCGATTTATGG GAGGAAACAATGTATTAACAAGGTATGGACAAGAAAGAAAGAAAGAAAGAAAAAAAAAGAAAAAA GATGAAAAAGACATTTTATTTATACAAACATATATATATATATATATATATATATATATATATAT ATATATATGAACGTTATTTTATTTTTTACTTTACTTTCATTTTTTCAGTACGTTAGTAGAACATT TAAAATTAAAAGATAACATGAGAATAATAAACAATATTAATAATATTCAAATGAAAGTGAAACAA AATAGGACAAGGGTAAAAAAATATAATACGAAAAAAGGAATAACATGTAATTGGTTCTATATATA TATATATATATATATATTTATATATATATATGTTCTTATTTATTA Right flanking sequence: Indices 627859 -- 628358 GGTTAGTTGTTGCTAGGTAGAGAAGTTATAAAATGCAATGAAATCATTTTATGCCTCAATCCATC GGAATTAAAATATTTTTTAAAAAAGTCAAAATTGGAAAAAAAAAAAAAAAATATTTTGCTTCAAT ATTTATCAAAATATGATACTAGCAAAATAAGGATAACAAATGTGTGTTTTAAAAAAAATGTATTG CCTTTATCTCATTCATTGGTAATATAAATAGGGATAGTATATACAAGTGTATATATATATATATA TATATATATATATATATTTTATTTATATGTGTGTATTTATTAATTTCTTTTTTGTAGGAATCACT ACTATTAATTAAAAAAAATGAAAAACACAAAATAATTTCGCTATTATATGATAGTAATATATTCC CAAATTGTATTCCAATAGAGGAAGAGGATGATAAGGATATTTTTCAAACGCGGTAAAAATAAAAT AATAAAATTATAAAGAATTATATAAAATTATATAAAATTATATAT Found at i:627963 original size:1 final size:1 Alignment explanation
Indices: 627959--627974 Score: 32 Period size: 1 Copynumber: 16.0 Consensus size: 1 627949 TCAAAATTGG 627959 AAAAAAAAAAAAAAAA 1 AAAAAAAAAAAAAAAA 627975 TATTTTGCTT Statistics Matches: 15, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 15 1.00 ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00 Consensus pattern (1 bp): A Left flanking sequence: Indices 627459 -- 627958 CGATTTATGGGAGGAAACAATGTATTAACAAGGTATGGACAAGAAAGAAAGAAAGAAAGAAAAAA AAAGAAAAAAGATGAAAAAGACATTTTATTTATACAAACATATATATATATATATATATATATAT ATATATATATATATATATGAACGTTATTTTATTTTTTACTTTACTTTCATTTTTTCAGTACGTTA GTAGAACATTTAAAATTAAAAGATAACATGAGAATAATAAACAATATTAATAATATTCAAATGAA AGTGAAACAAAATAGGACAAGGGTAAAAAAATATAATACGAAAAAAGGAATAACATGTAATTGGT TCTATATATATATATATATATATATATTTATATATATATATGTTCTTATTTATTATTTTTTTTTT TTTTTTTTTTGGTTAGTTGTTGCTAGGTAGAGAAGTTATAAAATGCAATGAAATCATTTTATGCC TCAATCCATCGGAATTAAAATATTTTTTAAAAAAGTCAAAATTGG Right flanking sequence: Indices 627975 -- 628474 TATTTTGCTTCAATATTTATCAAAATATGATACTAGCAAAATAAGGATAACAAATGTGTGTTTTA AAAAAAATGTATTGCCTTTATCTCATTCATTGGTAATATAAATAGGGATAGTATATACAAGTGTA TATATATATATATATATATATATATATATATTTTATTTATATGTGTGTATTTATTAATTTCTTTT TTGTAGGAATCACTACTATTAATTAAAAAAAATGAAAAACACAAAATAATTTCGCTATTATATGA TAGTAATATATTCCCAAATTGTATTCCAATAGAGGAAGAGGATGATAAGGATATTTTTCAAACGC GGTAAAAATAAAATAATAAAATTATAAAGAATTATATAAAATTATATAAAATTATATATATATAC ATATTTACATCACAGACATGCATAAATATATATGATATATATATATATATATAATATATGTATGT ATTATGCTTAAAAAATAATCCTTTTTACAGCTTAAGATTTTTAAG Found at i:628108 original size:2 final size:2 Alignment explanation
Indices: 628103--628146 Score: 67 Period size: 2 Copynumber: 22.5 Consensus size: 2 628093 TATACAAGTG * * 628103 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TT TA TT TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 628144 TA T 1 TA T 628147 GTGTGTATTT Statistics Matches: 38, Mismatches: 3, Indels: 2 0.88 0.07 0.05 Matches are distributed among these distances: 1 1 0.03 2 37 0.97 ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57 Consensus pattern (2 bp): TA Left flanking sequence: Indices 627603 -- 628102 ATATGAACGTTATTTTATTTTTTACTTTACTTTCATTTTTTCAGTACGTTAGTAGAACATTTAAA ATTAAAAGATAACATGAGAATAATAAACAATATTAATAATATTCAAATGAAAGTGAAACAAAATA GGACAAGGGTAAAAAAATATAATACGAAAAAAGGAATAACATGTAATTGGTTCTATATATATATA TATATATATATATTTATATATATATATGTTCTTATTTATTATTTTTTTTTTTTTTTTTTTTGGTT AGTTGTTGCTAGGTAGAGAAGTTATAAAATGCAATGAAATCATTTTATGCCTCAATCCATCGGAA TTAAAATATTTTTTAAAAAAGTCAAAATTGGAAAAAAAAAAAAAAAATATTTTGCTTCAATATTT ATCAAAATATGATACTAGCAAAATAAGGATAACAAATGTGTGTTTTAAAAAAAATGTATTGCCTT TATCTCATTCATTGGTAATATAAATAGGGATAGTATATACAAGTG Right flanking sequence: Indices 628147 -- 628646 GTGTGTATTTATTAATTTCTTTTTTGTAGGAATCACTACTATTAATTAAAAAAAATGAAAAACAC AAAATAATTTCGCTATTATATGATAGTAATATATTCCCAAATTGTATTCCAATAGAGGAAGAGGA TGATAAGGATATTTTTCAAACGCGGTAAAAATAAAATAATAAAATTATAAAGAATTATATAAAAT TATATAAAATTATATATATATACATATTTACATCACAGACATGCATAAATATATATGATATATAT ATATATATATAATATATGTATGTATTATGCTTAAAAAATAATCCTTTTTACAGCTTAAGATTTTT AAGCAGAGAATGTGACCACACCTTATCAAATATTGAAATAAATTACTTCCTTGAAAATGTTTTAA AAATAAAAGAAAAACCAGATCTGGTAAAAATAAAATAAATAAATAAATAAATAGTATATAATATG AAAAAAATAATATACATAAATATATATATATATATATATATATAT Found at i:628578 original size:4 final size:4 Alignment explanation
Indices: 628564--628663 Score: 59 Period size: 4 Copynumber: 24.2 Consensus size: 4 628554 GATCTGGTAA * * * 628564 AAAT AAAAT AAAT AAAT AAAT AAAT -AGT ATAT AATAT GAAAA AAAT AATAT 1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT -AAAT AAAT AA-AT * * * * * * * * * * * 628615 ACAT AAAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT 1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT 628663 A 1 A 628664 TCCATTTGTA Statistics Matches: 82, Mismatches: 9, Indels: 9 0.82 0.09 0.09 Matches are distributed among these distances: 3 2 0.02 4 68 0.83 5 10 0.12 6 2 0.02 ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36 Consensus pattern (4 bp): AAAT Left flanking sequence: Indices 628064 -- 628563 ATTCATTGGTAATATAAATAGGGATAGTATATACAAGTGTATATATATATATATATATATATATA TATATATTTTATTTATATGTGTGTATTTATTAATTTCTTTTTTGTAGGAATCACTACTATTAATT AAAAAAAATGAAAAACACAAAATAATTTCGCTATTATATGATAGTAATATATTCCCAAATTGTAT TCCAATAGAGGAAGAGGATGATAAGGATATTTTTCAAACGCGGTAAAAATAAAATAATAAAATTA TAAAGAATTATATAAAATTATATAAAATTATATATATATACATATTTACATCACAGACATGCATA AATATATATGATATATATATATATATATAATATATGTATGTATTATGCTTAAAAAATAATCCTTT TTACAGCTTAAGATTTTTAAGCAGAGAATGTGACCACACCTTATCAAATATTGAAATAAATTACT TCCTTGAAAATGTTTTAAAAATAAAAGAAAAACCAGATCTGGTAA Right flanking sequence: Indices 628664 -- 629163 TCCATTTGTATATGTTTTTTTTTTTAGGTTGTTGGAAATACACATCACGTCTTTGCATTTAATAA AAATGTCGACGTGATATTCAAAAAACTAATTCACAAATATTTAAAGAGGATAAAAATATTCTGGT CGTTTTGCTTTTTTAAAAATCTGGAATATTGTTTGCGACAAGCAAAGGAATTTAGCAAGTTATAA AAAAAATTAAACATGAAGAATAAGGAACAAAAAAATAAAGAATCACCATCAAATTTTATGTGAAC AGTTTTTTTAAAAACATACACATATAAATAAATAAATAAATAAATATATATATATATATATATAT ATATATATATATATATATATATATATATATATATAATATTTATATAGTATTATTGTTATGTGTAT ATATTATATTTTTATAATTTTTTTCAAGTGAAAATAAAAATTCTCACTTTGTTATAATATATATA TAATACCTTTTTCTTTTTTTTAATGTTTGTTCTTTTTTTTTTTTT Found at i:628626 original size:2 final size:2 Alignment explanation
Indices: 628611--628664 Score: 94 Period size: 2 Copynumber: 27.0 Consensus size: 2 628601 GAAAAAAATA * * 628611 AT AT AC AT AA 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 628653 AT AT AT AT AT AT 1 AT AT AT AT AT AT 628665 CCATTTGTAT Statistics Matches: 48, Mismatches: 4, Indels: 0 0.92 0.08 0.00 Matches are distributed among these distances: 2 48 1.00 ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46 Consensus pattern (2 bp): AT Left flanking sequence: Indices 628111 -- 628610 TATATATATATATATATATATATATTTTATTTATATGTGTGTATTTATTAATTTCTTTTTTGTAG GAATCACTACTATTAATTAAAAAAAATGAAAAACACAAAATAATTTCGCTATTATATGATAGTAA TATATTCCCAAATTGTATTCCAATAGAGGAAGAGGATGATAAGGATATTTTTCAAACGCGGTAAA AATAAAATAATAAAATTATAAAGAATTATATAAAATTATATAAAATTATATATATATACATATTT ACATCACAGACATGCATAAATATATATGATATATATATATATATATAATATATGTATGTATTATG CTTAAAAAATAATCCTTTTTACAGCTTAAGATTTTTAAGCAGAGAATGTGACCACACCTTATCAA ATATTGAAATAAATTACTTCCTTGAAAATGTTTTAAAAATAAAAGAAAAACCAGATCTGGTAAAA ATAAAATAAATAAATAAATAAATAGTATATAATATGAAAAAAATA Right flanking sequence: Indices 628665 -- 629164 CCATTTGTATATGTTTTTTTTTTTAGGTTGTTGGAAATACACATCACGTCTTTGCATTTAATAAA AATGTCGACGTGATATTCAAAAAACTAATTCACAAATATTTAAAGAGGATAAAAATATTCTGGTC GTTTTGCTTTTTTAAAAATCTGGAATATTGTTTGCGACAAGCAAAGGAATTTAGCAAGTTATAAA AAAAATTAAACATGAAGAATAAGGAACAAAAAAATAAAGAATCACCATCAAATTTTATGTGAACA GTTTTTTTAAAAACATACACATATAAATAAATAAATAAATAAATATATATATATATATATATATA TATATATATATATATATATATATATATATATATAATATTTATATAGTATTATTGTTATGTGTATA TATTATATTTTTATAATTTTTTTCAAGTGAAAATAAAAATTCTCACTTTGTTATAATATATATAT AATACCTTTTTCTTTTTTTTAATGTTTGTTCTTTTTTTTTTTTTT Found at i:628956 original size:4 final size:4 Alignment explanation
Indices: 628945--629034 Score: 131 Period size: 4 Copynumber: 22.8 Consensus size: 4 628935 AAACATACAC * * * * * 628945 ATAT AAAT AAAT AAAT AAAT AAAT ATAT ATAT ATAT ATAT ATAT ATAT 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT * 628993 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA- ATAT TTAT ATA 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA 629035 GTATTATTGT Statistics Matches: 81, Mismatches: 4, Indels: 2 0.93 0.05 0.02 Matches are distributed among these distances: 3 3 0.04 4 78 0.96 ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44 Consensus pattern (4 bp): ATAT Left flanking sequence: Indices 628445 -- 628944 TAATCCTTTTTACAGCTTAAGATTTTTAAGCAGAGAATGTGACCACACCTTATCAAATATTGAAA TAAATTACTTCCTTGAAAATGTTTTAAAAATAAAAGAAAAACCAGATCTGGTAAAAATAAAATAA ATAAATAAATAAATAGTATATAATATGAAAAAAATAATATACATAAATATATATATATATATATA TATATATATATATATATATATATATCCATTTGTATATGTTTTTTTTTTTAGGTTGTTGGAAATAC ACATCACGTCTTTGCATTTAATAAAAATGTCGACGTGATATTCAAAAAACTAATTCACAAATATT TAAAGAGGATAAAAATATTCTGGTCGTTTTGCTTTTTTAAAAATCTGGAATATTGTTTGCGACAA GCAAAGGAATTTAGCAAGTTATAAAAAAAATTAAACATGAAGAATAAGGAACAAAAAAATAAAGA ATCACCATCAAATTTTATGTGAACAGTTTTTTTAAAAACATACAC Right flanking sequence: Indices 629035 -- 629534 GTATTATTGTTATGTGTATATATTATATTTTTATAATTTTTTTCAAGTGAAAATAAAAATTCTCA CTTTGTTATAATATATATATAATACCTTTTTCTTTTTTTTAATGTTTGTTCTTTTTTTTTTTTTT TTATATGTTTTAATTTGTCCCTGCTTTGTGTTTATTTATATATTTTAAAATACTCAAAAAAAAAA AAAAAAAAAAAAAAAAAAAAAAAAGCCTATTTATATATATATATTATATATATATATATATATTT TATTTTATTTTATTTTCTAATTCTTAATATATTTTTTCCTTTTTACGCTTAATAAATATTTTCTA TTATGTCATCCCCAAATAGTTAAAAAAAATAATAATAAAATAATAATATAGTAATTATATATATA TAATATATATAACTATGTTAAGAGGCCCTAGATGTCTCTACATATATTTATTTTTTGTATTTCTT CCTTTTTCTTTTTGCTATATAAGAAATAATGATAATCGTTTTGTG Found at i:629136 original size:1 final size:1 Alignment explanation
Indices: 629126--629166 Score: 40 Period size: 1 Copynumber: 41.0 Consensus size: 1 629116 ATATAATACC * ** * * * 629126 TTTTTCTTTTTTTTAATGTTTGTTCTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 629167 ATATGTTTTA Statistics Matches: 30, Mismatches: 10, Indels: 0 0.75 0.25 0.00 Matches are distributed among these distances: 1 30 1.00 ACGTcount: A:0.05, C:0.05, G:0.05, T:0.85 Consensus pattern (1 bp): T Left flanking sequence: Indices 628626 -- 629125 TATATATATATATATATATATATATATATATATATATATCCATTTGTATATGTTTTTTTTTTTAG GTTGTTGGAAATACACATCACGTCTTTGCATTTAATAAAAATGTCGACGTGATATTCAAAAAACT AATTCACAAATATTTAAAGAGGATAAAAATATTCTGGTCGTTTTGCTTTTTTAAAAATCTGGAAT ATTGTTTGCGACAAGCAAAGGAATTTAGCAAGTTATAAAAAAAATTAAACATGAAGAATAAGGAA CAAAAAAATAAAGAATCACCATCAAATTTTATGTGAACAGTTTTTTTAAAAACATACACATATAA ATAAATAAATAAATAAATATATATATATATATATATATATATATATATATATATATATATATATA TATATATAATATTTATATAGTATTATTGTTATGTGTATATATTATATTTTTATAATTTTTTTCAA GTGAAAATAAAAATTCTCACTTTGTTATAATATATATATAATACC Right flanking sequence: Indices 629167 -- 629666 ATATGTTTTAATTTGTCCCTGCTTTGTGTTTATTTATATATTTTAAAATACTCAAAAAAAAAAAA AAAAAAAAAAAAAAAAAAAAAAGCCTATTTATATATATATATTATATATATATATATATATTTTA TTTTATTTTATTTTCTAATTCTTAATATATTTTTTCCTTTTTACGCTTAATAAATATTTTCTATT ATGTCATCCCCAAATAGTTAAAAAAAATAATAATAAAATAATAATATAGTAATTATATATATATA ATATATATAACTATGTTAAGAGGCCCTAGATGTCTCTACATATATTTATTTTTTGTATTTCTTCC TTTTTCTTTTTGCTATATAAGAAATAATGATAATCGTTTTGTGTATATTGTGAAATCGATAAGAA AGGGTCCTAATATAAAATTAAGATTGACAAAAGATGAAAAGCCTAATATAGATAATCATATAATA GATTATTTTAAAAATGTAAGAGAACATTTTCCTTTCTTTAAAGAA Found at i:629226 original size:1 final size:1 Alignment explanation
Indices: 629220--629253 Score: 68 Period size: 1 Copynumber: 34.0 Consensus size: 1 629210 TAAAATACTC 629220 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 629254 GCCTATTTAT Statistics Matches: 33, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 33 1.00 ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00 Consensus pattern (1 bp): A Left flanking sequence: Indices 628720 -- 629219 ATTTAATAAAAATGTCGACGTGATATTCAAAAAACTAATTCACAAATATTTAAAGAGGATAAAAA TATTCTGGTCGTTTTGCTTTTTTAAAAATCTGGAATATTGTTTGCGACAAGCAAAGGAATTTAGC AAGTTATAAAAAAAATTAAACATGAAGAATAAGGAACAAAAAAATAAAGAATCACCATCAAATTT TATGTGAACAGTTTTTTTAAAAACATACACATATAAATAAATAAATAAATAAATATATATATATA TATATATATATATATATATATATATATATATATATATATATATAATATTTATATAGTATTATTGT TATGTGTATATATTATATTTTTATAATTTTTTTCAAGTGAAAATAAAAATTCTCACTTTGTTATA ATATATATATAATACCTTTTTCTTTTTTTTAATGTTTGTTCTTTTTTTTTTTTTTTTATATGTTT TAATTTGTCCCTGCTTTGTGTTTATTTATATATTTTAAAATACTC Right flanking sequence: Indices 629254 -- 629753 GCCTATTTATATATATATATTATATATATATATATATATTTTATTTTATTTTATTTTCTAATTCT TAATATATTTTTTCCTTTTTACGCTTAATAAATATTTTCTATTATGTCATCCCCAAATAGTTAAA AAAAATAATAATAAAATAATAATATAGTAATTATATATATATAATATATATAACTATGTTAAGAG GCCCTAGATGTCTCTACATATATTTATTTTTTGTATTTCTTCCTTTTTCTTTTTGCTATATAAGA AATAATGATAATCGTTTTGTGTATATTGTGAAATCGATAAGAAAGGGTCCTAATATAAAATTAAG ATTGACAAAAGATGAAAAGCCTAATATAGATAATCATATAATAGATTATTTTAAAAATGTAAGAG AACATTTTCCTTTCTTTAAAGAAAATAAATCGTTGATATATTTTGATAGTGCAGCTACAACACAC AAACCTAGTTGTGTGATAGAGGTAATAAAATGAAGAAATAATATA Found at i:629266 original size:2 final size:2 Alignment explanation
Indices: 629257--629292 Score: 58 Period size: 2 Copynumber: 18.5 Consensus size: 2 629247 AAAAAAAGCC * 629257 TA TT TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T 629293 TTTATTTTAT Statistics Matches: 31, Mismatches: 2, Indels: 2 0.89 0.06 0.06 Matches are distributed among these distances: 1 1 0.03 2 30 0.97 ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56 Consensus pattern (2 bp): TA Left flanking sequence: Indices 628757 -- 629256 ATTCACAAATATTTAAAGAGGATAAAAATATTCTGGTCGTTTTGCTTTTTTAAAAATCTGGAATA TTGTTTGCGACAAGCAAAGGAATTTAGCAAGTTATAAAAAAAATTAAACATGAAGAATAAGGAAC AAAAAAATAAAGAATCACCATCAAATTTTATGTGAACAGTTTTTTTAAAAACATACACATATAAA TAAATAAATAAATAAATATATATATATATATATATATATATATATATATATATATATATATATAT ATATATAATATTTATATAGTATTATTGTTATGTGTATATATTATATTTTTATAATTTTTTTCAAG TGAAAATAAAAATTCTCACTTTGTTATAATATATATATAATACCTTTTTCTTTTTTTTAATGTTT GTTCTTTTTTTTTTTTTTTTATATGTTTTAATTTGTCCCTGCTTTGTGTTTATTTATATATTTTA AAATACTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGCC Right flanking sequence: Indices 629293 -- 629792 TTTATTTTATTTTATTTTCTAATTCTTAATATATTTTTTCCTTTTTACGCTTAATAAATATTTTC TATTATGTCATCCCCAAATAGTTAAAAAAAATAATAATAAAATAATAATATAGTAATTATATATA TATAATATATATAACTATGTTAAGAGGCCCTAGATGTCTCTACATATATTTATTTTTTGTATTTC TTCCTTTTTCTTTTTGCTATATAAGAAATAATGATAATCGTTTTGTGTATATTGTGAAATCGATA AGAAAGGGTCCTAATATAAAATTAAGATTGACAAAAGATGAAAAGCCTAATATAGATAATCATAT AATAGATTATTTTAAAAATGTAAGAGAACATTTTCCTTTCTTTAAAGAAAATAAATCGTTGATAT ATTTTGATAGTGCAGCTACAACACACAAACCTAGTTGTGTGATAGAGGTAATAAAATGAAGAAAT AATATAATGAACATATATATATATATATATATATATATATATATA Found at i:629300 original size:5 final size:5 Alignment explanation
Indices: 629290--629310 Score: 42 Period size: 5 Copynumber: 4.2 Consensus size: 5 629280 TATATATATA 629290 TATTT TATTT TATTT TATTT T 1 TATTT TATTT TATTT TATTT T 629311 CTAATTCTTA Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 5 16 1.00 ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81 Consensus pattern (5 bp): TATTT Left flanking sequence: Indices 628790 -- 629289 TGGTCGTTTTGCTTTTTTAAAAATCTGGAATATTGTTTGCGACAAGCAAAGGAATTTAGCAAGTT ATAAAAAAAATTAAACATGAAGAATAAGGAACAAAAAAATAAAGAATCACCATCAAATTTTATGT GAACAGTTTTTTTAAAAACATACACATATAAATAAATAAATAAATAAATATATATATATATATAT ATATATATATATATATATATATATATATATATATATATAATATTTATATAGTATTATTGTTATGT GTATATATTATATTTTTATAATTTTTTTCAAGTGAAAATAAAAATTCTCACTTTGTTATAATATA TATATAATACCTTTTTCTTTTTTTTAATGTTTGTTCTTTTTTTTTTTTTTTTATATGTTTTAATT TGTCCCTGCTTTGTGTTTATTTATATATTTTAAAATACTCAAAAAAAAAAAAAAAAAAAAAAAAA AAAAAAAAAGCCTATTTATATATATATATTATATATATATATATA Right flanking sequence: Indices 629311 -- 629810 CTAATTCTTAATATATTTTTTCCTTTTTACGCTTAATAAATATTTTCTATTATGTCATCCCCAAA TAGTTAAAAAAAATAATAATAAAATAATAATATAGTAATTATATATATATAATATATATAACTAT GTTAAGAGGCCCTAGATGTCTCTACATATATTTATTTTTTGTATTTCTTCCTTTTTCTTTTTGCT ATATAAGAAATAATGATAATCGTTTTGTGTATATTGTGAAATCGATAAGAAAGGGTCCTAATATA AAATTAAGATTGACAAAAGATGAAAAGCCTAATATAGATAATCATATAATAGATTATTTTAAAAA TGTAAGAGAACATTTTCCTTTCTTTAAAGAAAATAAATCGTTGATATATTTTGATAGTGCAGCTA CAACACACAAACCTAGTTGTGTGATAGAGGTAATAAAATGAAGAAATAATATAATGAACATATAT ATATATATATATATATATATATATATATATGAGATATATTTTATT Found at i:629393 original size:3 final size:3 Alignment explanation
Indices: 629387--629429 Score: 40 Period size: 3 Copynumber: 14.3 Consensus size: 3 629377 AGTTAAAAAA * * 629387 AAT AAT AAT AA- AAT AAT AAT -AT AGT AAT TAT ATAT ATAT AAT A 1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT A 629430 TATATAACTA Statistics Matches: 33, Mismatches: 4, Indels: 6 0.77 0.09 0.14 Matches are distributed among these distances: 2 4 0.12 3 22 0.67 4 7 0.21 ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37 Consensus pattern (3 bp): AAT Left flanking sequence: Indices 628887 -- 629386 AAAAAAATAAAGAATCACCATCAAATTTTATGTGAACAGTTTTTTTAAAAACATACACATATAAA TAAATAAATAAATAAATATATATATATATATATATATATATATATATATATATATATATATATAT ATATATAATATTTATATAGTATTATTGTTATGTGTATATATTATATTTTTATAATTTTTTTCAAG TGAAAATAAAAATTCTCACTTTGTTATAATATATATATAATACCTTTTTCTTTTTTTTAATGTTT GTTCTTTTTTTTTTTTTTTTATATGTTTTAATTTGTCCCTGCTTTGTGTTTATTTATATATTTTA AAATACTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGCCTATTTATATATATATATTAT ATATATATATATATATTTTATTTTATTTTATTTTCTAATTCTTAATATATTTTTTCCTTTTTACG CTTAATAAATATTTTCTATTATGTCATCCCCAAATAGTTAAAAAA Right flanking sequence: Indices 629430 -- 629929 TATATAACTATGTTAAGAGGCCCTAGATGTCTCTACATATATTTATTTTTTGTATTTCTTCCTTT TTCTTTTTGCTATATAAGAAATAATGATAATCGTTTTGTGTATATTGTGAAATCGATAAGAAAGG GTCCTAATATAAAATTAAGATTGACAAAAGATGAAAAGCCTAATATAGATAATCATATAATAGAT TATTTTAAAAATGTAAGAGAACATTTTCCTTTCTTTAAAGAAAATAAATCGTTGATATATTTTGA TAGTGCAGCTACAACACACAAACCTAGTTGTGTGATAGAGGTAATAAAATGAAGAAATAATATAA TGAACATATATATATATATATATATATATATATATATATATGAGATATATTTTATTTATCAATAT ATAATTTTTAATATGTTAATTGAATGTGTATATTTTATTTTGTCTTTATAAAAGAAAGGAAAGTT GATATGTTTGTCCTCTATGGACTCCTTTATCATAACATATATGAA Found at i:629422 original size:2 final size:2 Alignment explanation
Indices: 629415--629435 Score: 35 Period size: 2 Copynumber: 11.0 Consensus size: 2 629405 ATATAGTAAT 629415 TA TA TA TA TA TA -A TA TA TA TA 1 TA TA TA TA TA TA TA TA TA TA TA 629436 ACTATGTTAA Statistics Matches: 18, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 1 1 0.06 2 17 0.94 ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48 Consensus pattern (2 bp): TA Left flanking sequence: Indices 628915 -- 629414 TATGTGAACAGTTTTTTTAAAAACATACACATATAAATAAATAAATAAATAAATATATATATATA TATATATATATATATATATATATATATATATATATATATATATAATATTTATATAGTATTATTGT TATGTGTATATATTATATTTTTATAATTTTTTTCAAGTGAAAATAAAAATTCTCACTTTGTTATA ATATATATATAATACCTTTTTCTTTTTTTTAATGTTTGTTCTTTTTTTTTTTTTTTTATATGTTT TAATTTGTCCCTGCTTTGTGTTTATTTATATATTTTAAAATACTCAAAAAAAAAAAAAAAAAAAA AAAAAAAAAAAAAAGCCTATTTATATATATATATTATATATATATATATATATTTTATTTTATTT TATTTTCTAATTCTTAATATATTTTTTCCTTTTTACGCTTAATAAATATTTTCTATTATGTCATC CCCAAATAGTTAAAAAAAATAATAATAAAATAATAATATAGTAAT Right flanking sequence: Indices 629436 -- 629935 ACTATGTTAAGAGGCCCTAGATGTCTCTACATATATTTATTTTTTGTATTTCTTCCTTTTTCTTT TTGCTATATAAGAAATAATGATAATCGTTTTGTGTATATTGTGAAATCGATAAGAAAGGGTCCTA ATATAAAATTAAGATTGACAAAAGATGAAAAGCCTAATATAGATAATCATATAATAGATTATTTT AAAAATGTAAGAGAACATTTTCCTTTCTTTAAAGAAAATAAATCGTTGATATATTTTGATAGTGC AGCTACAACACACAAACCTAGTTGTGTGATAGAGGTAATAAAATGAAGAAATAATATAATGAACA TATATATATATATATATATATATATATATATATATGAGATATATTTTATTTATCAATATATAATT TTTAATATGTTAATTGAATGTGTATATTTTATTTTGTCTTTATAAAAGAAAGGAAAGTTGATATG TTTGTCCTCTATGGACTCCTTTATCATAACATATATGAATATATA Found at i:629767 original size:2 final size:2 Alignment explanation
Indices: 629760--629822 Score: 75 Period size: 2 Copynumber: 31.5 Consensus size: 2 629750 TATAATGAAC * 629760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAG AT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT * * ** 629803 AT -T TT AT TT AT CA AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT A 629823 ATTTTTAATA Statistics Matches: 50, Mismatches: 9, Indels: 4 0.79 0.14 0.06 Matches are distributed among these distances: 1 1 0.02 2 48 0.96 3 1 0.02 ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49 Consensus pattern (2 bp): AT Left flanking sequence: Indices 629260 -- 629759 TTATATATATATATTATATATATATATATATATTTTATTTTATTTTATTTTCTAATTCTTAATAT ATTTTTTCCTTTTTACGCTTAATAAATATTTTCTATTATGTCATCCCCAAATAGTTAAAAAAAAT AATAATAAAATAATAATATAGTAATTATATATATATAATATATATAACTATGTTAAGAGGCCCTA GATGTCTCTACATATATTTATTTTTTGTATTTCTTCCTTTTTCTTTTTGCTATATAAGAAATAAT GATAATCGTTTTGTGTATATTGTGAAATCGATAAGAAAGGGTCCTAATATAAAATTAAGATTGAC AAAAGATGAAAAGCCTAATATAGATAATCATATAATAGATTATTTTAAAAATGTAAGAGAACATT TTCCTTTCTTTAAAGAAAATAAATCGTTGATATATTTTGATAGTGCAGCTACAACACACAAACCT AGTTGTGTGATAGAGGTAATAAAATGAAGAAATAATATAATGAAC Right flanking sequence: Indices 629823 -- 630322 ATTTTTAATATGTTAATTGAATGTGTATATTTTATTTTGTCTTTATAAAAGAAAGGAAAGTTGAT ATGTTTGTCCTCTATGGACTCCTTTATCATAACATATATGAATATATATAATATATATATATAAT ATATATATATATATATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCAGAAAAT GAGTGAGTTTTATAAAAAGGAAAACTCGAATATTCATCGAGGAATTTACAAACTAAGCCACAATG CCACAAATAATTATGAAAAGGTAAGAGAAACAATAAAAGAATATATAAATTGTGAAAAGAATGAC AATATAATATTTACGAATGGAAGTACATATGGTTTAAATGTCGTATGTAAAATGATGATAGAGGA GATTATTAAAAAAGAAGAAGATGAAATATATTTATCCTACATGGAACATCATTCAAATATTATTC CCTGGCAAGAATATATAAATAAAGAAAAGAAAGGTAGAATAAAAT Found at i:629934 original size:2 final size:2 Alignment explanation
Indices: 629921--629968 Score: 68 Period size: 2 Copynumber: 25.0 Consensus size: 2 629911 TTATCATAAC ** 629921 AT AT AT GA AT AT AT AT A- AT AT AT AT AT AT A- 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 629961 AT AT AT AT 1 AT AT AT AT 629969 TTTTTTTTTT Statistics Matches: 40, Mismatches: 4, Indels: 4 0.83 0.08 0.08 Matches are distributed among these distances: 1 2 0.05 2 38 0.95 ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46 Consensus pattern (2 bp): AT Left flanking sequence: Indices 629421 -- 629920 TATATAATATATATAACTATGTTAAGAGGCCCTAGATGTCTCTACATATATTTATTTTTTGTATT TCTTCCTTTTTCTTTTTGCTATATAAGAAATAATGATAATCGTTTTGTGTATATTGTGAAATCGA TAAGAAAGGGTCCTAATATAAAATTAAGATTGACAAAAGATGAAAAGCCTAATATAGATAATCAT ATAATAGATTATTTTAAAAATGTAAGAGAACATTTTCCTTTCTTTAAAGAAAATAAATCGTTGAT ATATTTTGATAGTGCAGCTACAACACACAAACCTAGTTGTGTGATAGAGGTAATAAAATGAAGAA ATAATATAATGAACATATATATATATATATATATATATATATATATATATGAGATATATTTTATT TATCAATATATAATTTTTAATATGTTAATTGAATGTGTATATTTTATTTTGTCTTTATAAAAGAA AGGAAAGTTGATATGTTTGTCCTCTATGGACTCCTTTATCATAAC Right flanking sequence: Indices 629969 -- 630468 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCAGAAAATGAGTGAGTTTTATAAA AAGGAAAACTCGAATATTCATCGAGGAATTTACAAACTAAGCCACAATGCCACAAATAATTATGA AAAGGTAAGAGAAACAATAAAAGAATATATAAATTGTGAAAAGAATGACAATATAATATTTACGA ATGGAAGTACATATGGTTTAAATGTCGTATGTAAAATGATGATAGAGGAGATTATTAAAAAAGAA GAAGATGAAATATATTTATCCTACATGGAACATCATTCAAATATTATTCCCTGGCAAGAATATAT AAATAAAGAAAAGAAAGGTAGAATAAAATATGTTCCTTTAAATAAGAGTGGATATATAAATATAA AAAAATTAATTAGTAATATGAATATAAATACAAAAGTAATATCTATATGTCATGCATCTAATGTT ATTGGTAATATACAAAATATTGAAAAAATTATAAAAAAAATAAAA Found at i:629974 original size:1 final size:1 Alignment explanation
Indices: 629968--630009 Score: 84 Period size: 1 Copynumber: 42.0 Consensus size: 1 629958 TATATATATA 629968 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 630010 CAGAAAATGA Statistics Matches: 41, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 41 1.00 ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00 Consensus pattern (1 bp): T Left flanking sequence: Indices 629468 -- 629967 ATATTTATTTTTTGTATTTCTTCCTTTTTCTTTTTGCTATATAAGAAATAATGATAATCGTTTTG TGTATATTGTGAAATCGATAAGAAAGGGTCCTAATATAAAATTAAGATTGACAAAAGATGAAAAG CCTAATATAGATAATCATATAATAGATTATTTTAAAAATGTAAGAGAACATTTTCCTTTCTTTAA AGAAAATAAATCGTTGATATATTTTGATAGTGCAGCTACAACACACAAACCTAGTTGTGTGATAG AGGTAATAAAATGAAGAAATAATATAATGAACATATATATATATATATATATATATATATATATA TATGAGATATATTTTATTTATCAATATATAATTTTTAATATGTTAATTGAATGTGTATATTTTAT TTTGTCTTTATAAAAGAAAGGAAAGTTGATATGTTTGTCCTCTATGGACTCCTTTATCATAACAT ATATGAATATATATAATATATATATATAATATATATATATATATA Right flanking sequence: Indices 630010 -- 630509 CAGAAAATGAGTGAGTTTTATAAAAAGGAAAACTCGAATATTCATCGAGGAATTTACAAACTAAG CCACAATGCCACAAATAATTATGAAAAGGTAAGAGAAACAATAAAAGAATATATAAATTGTGAAA AGAATGACAATATAATATTTACGAATGGAAGTACATATGGTTTAAATGTCGTATGTAAAATGATG ATAGAGGAGATTATTAAAAAAGAAGAAGATGAAATATATTTATCCTACATGGAACATCATTCAAA TATTATTCCCTGGCAAGAATATATAAATAAAGAAAAGAAAGGTAGAATAAAATATGTTCCTTTAA ATAAGAGTGGATATATAAATATAAAAAAATTAATTAGTAATATGAATATAAATACAAAAGTAATA TCTATATGTCATGCATCTAATGTTATTGGTAATATACAAAATATTGAAAAAATTATAAAAAAAAT AAAAAATGTATATCCTCATATAATCATAATAATTGATGCATCTCA Found at i:631348 original size:5 final size:5 Alignment explanation
Indices: 631338--631350 Score: 26 Period size: 5 Copynumber: 2.6 Consensus size: 5 631328 CTTTTATGTT 631338 AAATG AAATG AAA 1 AAATG AAATG AAA 631351 AATGAAAAAT 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:0.69, C:0.00, G:0.15, T:0.15 Consensus pattern (5 bp): AAATG Left flanking sequence: Indices 630838 -- 631337 GAAATGTATTTATATGATTTGTTCATATATTATATGAACAAATATATGAAAAATCATTTTGTTCA ACTCCCTAATCTAAACTTATCTTACAAAAAAGAAAATATTAATTACAAATCACATATGCAAACAC ACCCTCCAGTACACAAATATAACGATGAACAAAATTTTACAAATGATCATAATATAACACAATCT AAACAAACAAAATCTATTCATTCACAACATGATACCTTTAAAATATATACACATGATACAAGAAA ATATGGTTTAAAAAAAATAGGTATATTACCATTATGGTCAAATACATTTTCTTCTTTTGATCTAG TTACTTTTTTAGATTTCAAAAATATATGTATTAGAGCAGGTCATCATTGTGCTTCCTTACTACAT AAGTATTATTTAAAAGTTCCAGATACCTCAAGGATATCCATATATTTTTATAACACACCACAGGA AATCAAATATTTGGCACAGCAAATTGCCTCAACATCTTTTATGTT Right flanking sequence: Indices 631351 -- 631850 AATGAAAAATGAAAAATGAAAAATGAAAAATGAAAAATGAAAAATAAACTGGAATAAAAATATAT ATATATATATATATATATATATATATATATATATATATATATATTATACATATTAAATTAAATAG TTTATAATTGTTTTGTTTCTTTTTATATAAATATCTTTCTATTTTTTTCTTCAAGTATTTTATTT GTTTAACATATGTTAAGTAATTTGTTACGTTATTCATATTTATTCATCACACCTTTATATAATAT TTTCATTCATTTATGTATTTTTTTTTTTTTTTTTTTTTTTTATATTAAATTATATTATATTATAT TATATTGTATTATATTATATTGTATTAAATTCTATTTTTTTATTTTTTAGTTCTTTATCTAAGTA TTATATATACATATATATATTATTTCTGTTGAATAATACTTAATGAGCACATATATATATATATA TATATATATATATGTATGTATGTATATGTATGTGCATTTTTAATT Found at i:631417 original size:2 final size:2 Alignment explanation
Indices: 631410--631468 Score: 104 Period size: 2 Copynumber: 30.0 Consensus size: 2 631400 TGGAATAAAA 631410 AT AT AT AT AT 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 * 631452 AT AT AT AT -T AT AC AT AT 1 AT AT AT AT AT AT AT AT AT 631469 TAAATTAAAT Statistics Matches: 54, Mismatches: 2, Indels: 2 0.93 0.03 0.03 Matches are distributed among these distances: 1 1 0.02 2 53 0.98 ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49 Consensus pattern (2 bp): AT Left flanking sequence: Indices 630910 -- 631409 AATCTAAACTTATCTTACAAAAAAGAAAATATTAATTACAAATCACATATGCAAACACACCCTCC AGTACACAAATATAACGATGAACAAAATTTTACAAATGATCATAATATAACACAATCTAAACAAA CAAAATCTATTCATTCACAACATGATACCTTTAAAATATATACACATGATACAAGAAAATATGGT TTAAAAAAAATAGGTATATTACCATTATGGTCAAATACATTTTCTTCTTTTGATCTAGTTACTTT TTTAGATTTCAAAAATATATGTATTAGAGCAGGTCATCATTGTGCTTCCTTACTACATAAGTATT ATTTAAAAGTTCCAGATACCTCAAGGATATCCATATATTTTTATAACACACCACAGGAAATCAAA TATTTGGCACAGCAAATTGCCTCAACATCTTTTATGTTAAATGAAATGAAAAATGAAAAATGAAA AATGAAAAATGAAAAATGAAAAATGAAAAATAAACTGGAATAAAA Right flanking sequence: Indices 631469 -- 631968 TAAATTAAATAGTTTATAATTGTTTTGTTTCTTTTTATATAAATATCTTTCTATTTTTTTCTTCA AGTATTTTATTTGTTTAACATATGTTAAGTAATTTGTTACGTTATTCATATTTATTCATCACACC TTTATATAATATTTTCATTCATTTATGTATTTTTTTTTTTTTTTTTTTTTTTTATATTAAATTAT ATTATATTATATTATATTGTATTATATTATATTGTATTAAATTCTATTTTTTTATTTTTTAGTTC TTTATCTAAGTATTATATATACATATATATATTATTTCTGTTGAATAATACTTAATGAGCACATA TATATATATATATATATATATATATGTATGTATGTATATGTATGTGCATTTTTAATTTTATATTT TTTTTTTTCTATCATATCTCATTTTTTGGTTAATAACTTTTGTTTGAATTGTATCATATATAAAA TAATTATTTATATGTAATATTCCTTTTGTGCCGATTTATTTAAAT Found at i:631634 original size:1 final size:1 Alignment explanation
Indices: 631628--631651 Score: 48 Period size: 1 Copynumber: 24.0 Consensus size: 1 631618 CATTTATGTA 631628 TTTTTTTTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTT 631652 ATATTAAATT Statistics Matches: 23, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 1 23 1.00 ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00 Consensus pattern (1 bp): T Left flanking sequence: Indices 631128 -- 631627 ATTATGGTCAAATACATTTTCTTCTTTTGATCTAGTTACTTTTTTAGATTTCAAAAATATATGTA TTAGAGCAGGTCATCATTGTGCTTCCTTACTACATAAGTATTATTTAAAAGTTCCAGATACCTCA AGGATATCCATATATTTTTATAACACACCACAGGAAATCAAATATTTGGCACAGCAAATTGCCTC AACATCTTTTATGTTAAATGAAATGAAAAATGAAAAATGAAAAATGAAAAATGAAAAATGAAAAA TGAAAAATAAACTGGAATAAAAATATATATATATATATATATATATATATATATATATATATATA TATATATTATACATATTAAATTAAATAGTTTATAATTGTTTTGTTTCTTTTTATATAAATATCTT TCTATTTTTTTCTTCAAGTATTTTATTTGTTTAACATATGTTAAGTAATTTGTTACGTTATTCAT ATTTATTCATCACACCTTTATATAATATTTTCATTCATTTATGTA Right flanking sequence: Indices 631652 -- 632151 ATATTAAATTATATTATATTATATTATATTGTATTATATTATATTGTATTAAATTCTATTTTTTT ATTTTTTAGTTCTTTATCTAAGTATTATATATACATATATATATTATTTCTGTTGAATAATACTT AATGAGCACATATATATATATATATATATATATATATGTATGTATGTATATGTATGTGCATTTTT AATTTTATATTTTTTTTTTTCTATCATATCTCATTTTTTGGTTAATAACTTTTGTTTGAATTGTA TCATATATAAAATAATTATTTATATGTAATATTCCTTTTGTGCCGATTTATTTAAATCATTTTAA TGAATGTATATAAATATTAATATATGTAGATAATAAAATAATACCTTATTCTATAAATCAACAAA TTGTTTCTAATTAAATTTTTTCTTTGTAATATTTGTGATATATTATATAATATAATTCTCTGCTT ATTTCTAATAATTCATTATTTAATAATATATTTATTTTATTATAT Found at i:631662 original size:5 final size:5 Alignment explanation
Indices: 631650--631711 Score: 89 Period size: 5 Copynumber: 12.4 Consensus size: 5 631640 TTTTTTTTTT * * * 631650 TTATA TTAAA TTATA TTATA TTATA TTATA TTGTA TTATA TTATA TTGTA 1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA * * 631700 TTAAA TTCTA TT 1 TTATA TTATA TT 631712 TTTTTATTTT Statistics Matches: 48, Mismatches: 9, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 5 48 1.00 ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58 Consensus pattern (5 bp): TTATA Left flanking sequence: Indices 631150 -- 631649 TCTTTTGATCTAGTTACTTTTTTAGATTTCAAAAATATATGTATTAGAGCAGGTCATCATTGTGC TTCCTTACTACATAAGTATTATTTAAAAGTTCCAGATACCTCAAGGATATCCATATATTTTTATA ACACACCACAGGAAATCAAATATTTGGCACAGCAAATTGCCTCAACATCTTTTATGTTAAATGAA ATGAAAAATGAAAAATGAAAAATGAAAAATGAAAAATGAAAAATGAAAAATAAACTGGAATAAAA ATATATATATATATATATATATATATATATATATATATATATATATATATTATACATATTAAATT AAATAGTTTATAATTGTTTTGTTTCTTTTTATATAAATATCTTTCTATTTTTTTCTTCAAGTATT TTATTTGTTTAACATATGTTAAGTAATTTGTTACGTTATTCATATTTATTCATCACACCTTTATA TAATATTTTCATTCATTTATGTATTTTTTTTTTTTTTTTTTTTTT Right flanking sequence: Indices 631712 -- 632211 TTTTTATTTTTTAGTTCTTTATCTAAGTATTATATATACATATATATATTATTTCTGTTGAATAA TACTTAATGAGCACATATATATATATATATATATATATATATGTATGTATGTATATGTATGTGCA TTTTTAATTTTATATTTTTTTTTTTCTATCATATCTCATTTTTTGGTTAATAACTTTTGTTTGAA TTGTATCATATATAAAATAATTATTTATATGTAATATTCCTTTTGTGCCGATTTATTTAAATCAT TTTAATGAATGTATATAAATATTAATATATGTAGATAATAAAATAATACCTTATTCTATAAATCA ACAAATTGTTTCTAATTAAATTTTTTCTTTGTAATATTTGTGATATATTATATAATATAATTCTC TGCTTATTTCTAATAATTCATTATTTAATAATATATTTATTTTATTATATTTATATATATATATA TATATATATATATATATATATTTTTTTTTTTTTTTTTTTTTTTTT Found at i:631749 original size:2 final size:2 Alignment explanation
Indices: 631742--631760 Score: 31 Period size: 2 Copynumber: 9.5 Consensus size: 2 631732 ATCTAAGTAT * 631742 TA TA TA TA CA TA TA TA TA T 1 TA TA TA TA TA TA TA TA TA T 631761 TATTTCTGTT Statistics Matches: 15, Mismatches: 2, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 2 15 1.00 ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47 Consensus pattern (2 bp): TA Left flanking sequence: Indices 631242 -- 631741 AGTTCCAGATACCTCAAGGATATCCATATATTTTTATAACACACCACAGGAAATCAAATATTTGG CACAGCAAATTGCCTCAACATCTTTTATGTTAAATGAAATGAAAAATGAAAAATGAAAAATGAAA AATGAAAAATGAAAAATGAAAAATAAACTGGAATAAAAATATATATATATATATATATATATATA TATATATATATATATATATATATTATACATATTAAATTAAATAGTTTATAATTGTTTTGTTTCTT TTTATATAAATATCTTTCTATTTTTTTCTTCAAGTATTTTATTTGTTTAACATATGTTAAGTAAT TTGTTACGTTATTCATATTTATTCATCACACCTTTATATAATATTTTCATTCATTTATGTATTTT TTTTTTTTTTTTTTTTTTTTATATTAAATTATATTATATTATATTATATTGTATTATATTATATT GTATTAAATTCTATTTTTTTATTTTTTAGTTCTTTATCTAAGTAT Right flanking sequence: Indices 631761 -- 632260 TATTTCTGTTGAATAATACTTAATGAGCACATATATATATATATATATATATATATATGTATGTA TGTATATGTATGTGCATTTTTAATTTTATATTTTTTTTTTTCTATCATATCTCATTTTTTGGTTA ATAACTTTTGTTTGAATTGTATCATATATAAAATAATTATTTATATGTAATATTCCTTTTGTGCC GATTTATTTAAATCATTTTAATGAATGTATATAAATATTAATATATGTAGATAATAAAATAATAC CTTATTCTATAAATCAACAAATTGTTTCTAATTAAATTTTTTCTTTGTAATATTTGTGATATATT ATATAATATAATTCTCTGCTTATTTCTAATAATTCATTATTTAATAATATATTTATTTTATTATA TTTATATATATATATATATATATATATATATATATATTTTTTTTTTTTTTTTTTTTTTTTTTTTT TTTTTTTTTGGGTGGGTCAACACTAATATATATATTATGACAAAA Found at