TRAP (Tandem Repeats Analysis Program) TRF Version 4.00 Sequence: 97739983 P. falciparum 3D7 GENOMIC pfal_chr9 Parameters: 2 5 7 80 10 25 1000 Pmatch=0.80,Pindel=0.10 tuple sizes 0,4,5,7 tuple distances 0, 29, 159, 1000 Length: 1541723 ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40 Found at i: i:461147 original size:4 final size:4 Alignment explanation
Indices: 461128--461184 Score: 58 Period size: 4 Copynumber: 14.2 Consensus size: 4 461118 AACATGAATG * * * * * * 461128 TATA TAAA TGTA AATA AATA AATA AATA TATA TATA TATA TATA TATA 1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA ** 461176 TGAA TATA T 1 TATA TATA T 461185 GAACCAATGA Statistics Matches: 43, Mismatches: 10, Indels: 0 0.81 0.19 0.00 Matches are distributed among these distances: 4 43 1.00 ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40 Consensus pattern (4 bp): TATA Left flanking sequence: Indices 460628 -- 461127 CAATGGCTAGTTACAGAATTTAAAAAATATTCTACTTGTTTTGTTATAAGGGAATAATTCGTATT CTCTAGCCAAGATAATTTAACTATACGAACATATAAACGTACAAAATTTCCTAAGATATTTGTTG ATAAATTTAATAAGTCTACACCTTTATTATATAAATAGGATATCACAAATTCTTTTAACTCATCC TTTTCTTTCTGATCTATTTTATTCCATTCGTTTGTAATTAATTGAAGTAACCCTGAAGTAGTAAA TATAAGAGTATGTACATGATTAGTACTTCCTAAAATGTTCTTCAATTTACTAACATTCATTACAT TGTTTACAAGTGGAAGTAATATGGTATGTGCTTGATTTTGTTCTTCCTTGTTTCCGCTAAAAATA TATAGAAAGCAGGAAAAATAAAAAAAAAATGAAAAAAATAAAAAATAAAACATAAAAAATAAAAA ATAAAACATAAAACATAAAAAATAAAAAAGAAAACAACATGAATG Right flanking sequence: Indices 461185 -- 461684 GAACCAATGATGATATAAAATATCTTTTTTCATTTTCCATAATATATATATTTTATTTATGTTAG GACTTACCAATACATAGCTTCACAAAGAACTTGAAGCTGTTGTAATTCTGATTCACTCATTTTTA ATTCAAGGGATTAATATTATATTTTATAAAATATATATATATATATATATATATATATATATATT CTTTTTATTTTATTCTTGTATTTTTAAAAATAAAAATGATAATCGAAAAAGAAAAGTGAAAAGAA AAGATAATTATACATACATAAATTTACTTATTTGTTTTAAACATATATATGATTTTATCTTTTTC TTTTCTTTTCTTTTACTTTATCTTTTTTTTTTTTTTTTATAAAAAAAAGGGGGGAAAAAATTCAG TTCAACAATATATTATTATGTGTTTTATATAAGTATATATACATAAACTTATACACTCTTACACA TACATTATGAAATAACTCACAATAAATTAATTTTGGGTACATATA Found at i:461352 original size:2 final size:2 Alignment explanation
Indices: 461345--461378 Score: 68 Period size: 2 Copynumber: 17.0 Consensus size: 2 461335 ATTTTATAAA 461345 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 461379 TCTTTTTATT Statistics Matches: 32, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 2 32 1.00 ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50 Consensus pattern (2 bp): AT Left flanking sequence: Indices 460845 -- 461344 TCCATTCGTTTGTAATTAATTGAAGTAACCCTGAAGTAGTAAATATAAGAGTATGTACATGATTA GTACTTCCTAAAATGTTCTTCAATTTACTAACATTCATTACATTGTTTACAAGTGGAAGTAATAT GGTATGTGCTTGATTTTGTTCTTCCTTGTTTCCGCTAAAAATATATAGAAAGCAGGAAAAATAAA AAAAAAATGAAAAAAATAAAAAATAAAACATAAAAAATAAAAAATAAAACATAAAACATAAAAAA TAAAAAAGAAAACAACATGAATGTATATAAATGTAAATAAATAAATAAATATATATATATATATA TATATATGAATATATGAACCAATGATGATATAAAATATCTTTTTTCATTTTCCATAATATATATA TTTTATTTATGTTAGGACTTACCAATACATAGCTTCACAAAGAACTTGAAGCTGTTGTAATTCTG ATTCACTCATTTTTAATTCAAGGGATTAATATTATATTTTATAAA Right flanking sequence: Indices 461379 -- 461878 TCTTTTTATTTTATTCTTGTATTTTTAAAAATAAAAATGATAATCGAAAAAGAAAAGTGAAAAGA AAAGATAATTATACATACATAAATTTACTTATTTGTTTTAAACATATATATGATTTTATCTTTTT CTTTTCTTTTCTTTTACTTTATCTTTTTTTTTTTTTTTTATAAAAAAAAGGGGGGAAAAAATTCA GTTCAACAATATATTATTATGTGTTTTATATAAGTATATATACATAAACTTATACACTCTTACAC ATACATTATGAAATAACTCACAATAAATTAATTTTGGGTACATATATATATATATATATATATAT ATATATATAAATAAACATAATATCTATATATTAATATTTTCTAATGGATTCATATATATATATAT ATATATATATATAATAAATAGATCATTTCAAATTTTTATTATATATATGAATAAATAAACATGAA AATAAAATTATAATTTATTATATATAGTTTGTAAATTCAGCATAT Found at i:461445 original size:5 final size:5 Alignment explanation
Indices: 461426--461448 Score: 28 Period size: 5 Copynumber: 4.2 Consensus size: 5 461416 TGATAATCGA 461426 AAAAG AAAAGTG AAAAG AAAAG A 1 AAAAG AAAA--G AAAAG AAAAG A 461449 TAATTATACA Statistics Matches: 16, Mismatches: 0, Indels: 4 0.80 0.00 0.20 Matches are distributed among these distances: 5 11 0.69 7 5 0.31 ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04 Consensus pattern (5 bp): AAAAG Left flanking sequence: Indices 460926 -- 461425 TCTTCAATTTACTAACATTCATTACATTGTTTACAAGTGGAAGTAATATGGTATGTGCTTGATTT TGTTCTTCCTTGTTTCCGCTAAAAATATATAGAAAGCAGGAAAAATAAAAAAAAAATGAAAAAAA TAAAAAATAAAACATAAAAAATAAAAAATAAAACATAAAACATAAAAAATAAAAAAGAAAACAAC ATGAATGTATATAAATGTAAATAAATAAATAAATATATATATATATATATATATATGAATATATG AACCAATGATGATATAAAATATCTTTTTTCATTTTCCATAATATATATATTTTATTTATGTTAGG ACTTACCAATACATAGCTTCACAAAGAACTTGAAGCTGTTGTAATTCTGATTCACTCATTTTTAA TTCAAGGGATTAATATTATATTTTATAAAATATATATATATATATATATATATATATATATATTC TTTTTATTTTATTCTTGTATTTTTAAAAATAAAAATGATAATCGA Right flanking sequence: Indices 461449 -- 461948 TAATTATACATACATAAATTTACTTATTTGTTTTAAACATATATATGATTTTATCTTTTTCTTTT CTTTTCTTTTACTTTATCTTTTTTTTTTTTTTTTATAAAAAAAAGGGGGGAAAAAATTCAGTTCA ACAATATATTATTATGTGTTTTATATAAGTATATATACATAAACTTATACACTCTTACACATACA TTATGAAATAACTCACAATAAATTAATTTTGGGTACATATATATATATATATATATATATATATA TATAAATAAACATAATATCTATATATTAATATTTTCTAATGGATTCATATATATATATATATATA TATATATAATAAATAGATCATTTCAAATTTTTATTATATATATGAATAAATAAACATGAAAATAA AATTATAATTTATTATATATAGTTTGTAAATTCAGCATATATATTATTTTTCCCTTCTATTTGGT ATTTTCATTTCTTCTTTGTTTCTTCTTTTATTCATACAAAAGGTA Found at i:461513 original size:6 final size:6 Alignment explanation
Indices: 461498--461547 Score: 51 Period size: 6 Copynumber: 8.8 Consensus size: 6 461488 TATATATGAT * * * * 461498 TTTATC TTTTTC -TTTTC -TTTTC TTTTAC TTTATC TTTTT- TTTTTT 1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC 461543 TTTTT 1 TTTTT 461548 ATAAAAAAAA Statistics Matches: 37, Mismatches: 5, Indels: 4 0.80 0.11 0.09 Matches are distributed among these distances: 5 15 0.41 6 22 0.59 ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82 Consensus pattern (6 bp): TTTTTC Left flanking sequence: Indices 460998 -- 461497 CCTTGTTTCCGCTAAAAATATATAGAAAGCAGGAAAAATAAAAAAAAAATGAAAAAAATAAAAAA TAAAACATAAAAAATAAAAAATAAAACATAAAACATAAAAAATAAAAAAGAAAACAACATGAATG TATATAAATGTAAATAAATAAATAAATATATATATATATATATATATATGAATATATGAACCAAT GATGATATAAAATATCTTTTTTCATTTTCCATAATATATATATTTTATTTATGTTAGGACTTACC AATACATAGCTTCACAAAGAACTTGAAGCTGTTGTAATTCTGATTCACTCATTTTTAATTCAAGG GATTAATATTATATTTTATAAAATATATATATATATATATATATATATATATATATTCTTTTTAT TTTATTCTTGTATTTTTAAAAATAAAAATGATAATCGAAAAAGAAAAGTGAAAAGAAAAGATAAT TATACATACATAAATTTACTTATTTGTTTTAAACATATATATGAT Right flanking sequence: Indices 461548 -- 462047 ATAAAAAAAAGGGGGGAAAAAATTCAGTTCAACAATATATTATTATGTGTTTTATATAAGTATAT ATACATAAACTTATACACTCTTACACATACATTATGAAATAACTCACAATAAATTAATTTTGGGT ACATATATATATATATATATATATATATATATATAAATAAACATAATATCTATATATTAATATTT TCTAATGGATTCATATATATATATATATATATATATATAATAAATAGATCATTTCAAATTTTTAT TATATATATGAATAAATAAACATGAAAATAAAATTATAATTTATTATATATAGTTTGTAAATTCA GCATATATATTATTTTTCCCTTCTATTTGGTATTTTCATTTCTTCTTTGTTTCTTCTTTTATTCA TACAAAAGGTATGAAATACTTAAGTGAATTCAAAATGCATTCAATAAATTTAATAAAAATTTAAT ATTTTTATTAATATACAAAATAAAGCATTTCAATTGGAAGAAAAT Found at i:461515 original size:5 final size:5 Alignment explanation
Indices: 461505--461545 Score: 50 Period size: 5 Copynumber: 7.8 Consensus size: 5 461495 GATTTTATCT * * 461505 TTTTC TTTTC TTTTC TTTTAC TTTATC TTTTT TTTTT TTTT 1 TTTTC TTTTC TTTTC TTTT-C TTT-TC TTTTC TTTTC TTTT 461546 TTATAAAAAA Statistics Matches: 33, Mismatches: 1, Indels: 4 0.87 0.03 0.11 Matches are distributed among these distances: 5 24 0.73 6 8 0.24 7 1 0.03 ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83 Consensus pattern (5 bp): TTTTC Left flanking sequence: Indices 461005 -- 461504 TCCGCTAAAAATATATAGAAAGCAGGAAAAATAAAAAAAAAATGAAAAAAATAAAAAATAAAACA TAAAAAATAAAAAATAAAACATAAAACATAAAAAATAAAAAAGAAAACAACATGAATGTATATAA ATGTAAATAAATAAATAAATATATATATATATATATATATATGAATATATGAACCAATGATGATA TAAAATATCTTTTTTCATTTTCCATAATATATATATTTTATTTATGTTAGGACTTACCAATACAT AGCTTCACAAAGAACTTGAAGCTGTTGTAATTCTGATTCACTCATTTTTAATTCAAGGGATTAAT ATTATATTTTATAAAATATATATATATATATATATATATATATATATATTCTTTTTATTTTATTC TTGTATTTTTAAAAATAAAAATGATAATCGAAAAAGAAAAGTGAAAAGAAAAGATAATTATACAT ACATAAATTTACTTATTTGTTTTAAACATATATATGATTTTATCT Right flanking sequence: Indices 461546 -- 462045 TTATAAAAAAAAGGGGGGAAAAAATTCAGTTCAACAATATATTATTATGTGTTTTATATAAGTAT ATATACATAAACTTATACACTCTTACACATACATTATGAAATAACTCACAATAAATTAATTTTGG GTACATATATATATATATATATATATATATATATATAAATAAACATAATATCTATATATTAATAT TTTCTAATGGATTCATATATATATATATATATATATATATAATAAATAGATCATTTCAAATTTTT ATTATATATATGAATAAATAAACATGAAAATAAAATTATAATTTATTATATATAGTTTGTAAATT CAGCATATATATTATTTTTCCCTTCTATTTGGTATTTTCATTTCTTCTTTGTTTCTTCTTTTATT CATACAAAAGGTATGAAATACTTAAGTGAATTCAAAATGCATTCAATAAATTTAATAAAAATTTA ATATTTTTATTAATATACAAAATAAAGCATTTCAATTGGAAGAAA Found at i:461538 original size:1 final size:1 Alignment explanation
Indices: 461504--461547 Score: 39 Period size: 1 Copynumber: 44.0 Consensus size: 1 461494 TGATTTTATC * * * ** * * 461504 TTTTTCTTTTCTTTTCTTTTACTTTATCTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 461548 ATAAAAAAAA Statistics Matches: 30, Mismatches: 13, Indels: 0 0.70 0.30 0.00 Matches are distributed among these distances: 1 30 1.00 ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84 Consensus pattern (1 bp): T Left flanking sequence: Indices 461004 -- 461503 TTCCGCTAAAAATATATAGAAAGCAGGAAAAATAAAAAAAAAATGAAAAAAATAAAAAATAAAAC ATAAAAAATAAAAAATAAAACATAAAACATAAAAAATAAAAAAGAAAACAACATGAATGTATATA AATGTAAATAAATAAATAAATATATATATATATATATATATATGAATATATGAACCAATGATGAT ATAAAATATCTTTTTTCATTTTCCATAATATATATATTTTATTTATGTTAGGACTTACCAATACA TAGCTTCACAAAGAACTTGAAGCTGTTGTAATTCTGATTCACTCATTTTTAATTCAAGGGATTAA TATTATATTTTATAAAATATATATATATATATATATATATATATATATATTCTTTTTATTTTATT CTTGTATTTTTAAAAATAAAAATGATAATCGAAAAAGAAAAGTGAAAAGAAAAGATAATTATACA TACATAAATTTACTTATTTGTTTTAAACATATATATGATTTTATC Right flanking sequence: Indices 461548 -- 462047 ATAAAAAAAAGGGGGGAAAAAATTCAGTTCAACAATATATTATTATGTGTTTTATATAAGTATAT ATACATAAACTTATACACTCTTACACATACATTATGAAATAACTCACAATAAATTAATTTTGGGT ACATATATATATATATATATATATATATATATATAAATAAACATAATATCTATATATTAATATTT TCTAATGGATTCATATATATATATATATATATATATATAATAAATAGATCATTTCAAATTTTTAT TATATATATGAATAAATAAACATGAAAATAAAATTATAATTTATTATATATAGTTTGTAAATTCA GCATATATATTATTTTTCCCTTCTATTTGGTATTTTCATTTCTTCTTTGTTTCTTCTTTTATTCA TACAAAAGGTATGAAATACTTAAGTGAATTCAAAATGCATTCAATAAATTTAATAAAAATTTAAT ATTTTTATTAATATACAAAATAAAGCATTTCAATTGGAAGAAAAT Found at i:461687 original size:2 final size:2 Alignment explanation
Indices: 461680--461781 Score: 99 Period size: 2 Copynumber: 52.5 Consensus size: 2 461670 TTTTGGGTAC * * * 461680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AA AC AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT * ** * * ** ** 461722 A- AT AT CT AT AT AT TA AT AT -T TT CT A- AT GG AT TC 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 461761 AT AT AT AT AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT A 461782 ATAAATAGAT Statistics Matches: 76, Mismatches: 21, Indels: 6 0.74 0.20 0.06 Matches are distributed among these distances: 1 3 0.04 2 73 0.96 ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46 Consensus pattern (2 bp): AT Left flanking sequence: Indices 461180 -- 461679 TATATGAACCAATGATGATATAAAATATCTTTTTTCATTTTCCATAATATATATATTTTATTTAT GTTAGGACTTACCAATACATAGCTTCACAAAGAACTTGAAGCTGTTGTAATTCTGATTCACTCAT TTTTAATTCAAGGGATTAATATTATATTTTATAAAATATATATATATATATATATATATATATAT ATATTCTTTTTATTTTATTCTTGTATTTTTAAAAATAAAAATGATAATCGAAAAAGAAAAGTGAA AAGAAAAGATAATTATACATACATAAATTTACTTATTTGTTTTAAACATATATATGATTTTATCT TTTTCTTTTCTTTTCTTTTACTTTATCTTTTTTTTTTTTTTTTATAAAAAAAAGGGGGGAAAAAA TTCAGTTCAACAATATATTATTATGTGTTTTATATAAGTATATATACATAAACTTATACACTCTT ACACATACATTATGAAATAACTCACAATAAATTAATTTTGGGTAC Right flanking sequence: Indices 461782 -- 462281 ATAAATAGATCATTTCAAATTTTTATTATATATATGAATAAATAAACATGAAAATAAAATTATAA TTTATTATATATAGTTTGTAAATTCAGCATATATATTATTTTTCCCTTCTATTTGGTATTTTCAT TTCTTCTTTGTTTCTTCTTTTATTCATACAAAAGGTATGAAATACTTAAGTGAATTCAAAATGCA TTCAATAAATTTAATAAAAATTTAATATTTTTATTAATATACAAAATAAAGCATTTCAATTGGAA GAAAATAATATAATATAATATAAAATAAAATAAATAAATATATATATATATATATATATATTAAT ATTTATTTATATATAACATATAAAATTATAAAAATATCAATCATTAAAAATACATATTTTATTTA TTCATATATTTTATTTCTTCTTATTTTAAGAAATAAATAAATAAATAAATAAGAATAAACAATAT AAATATTATATTAACTCAAAAAAAAAAGTTATAAATAAAAAAATA Found at i:462102 original size:4 final size:4 Alignment explanation
Indices: 462049--462121 Score: 62 Period size: 4 Copynumber: 19.2 Consensus size: 4 462039 GAAGAAAATA * * * * 462049 ATAT A-AT ATA- ATAT A-AA ATA- AAAT AAAT AAAT ATAT ATAT ATAT 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ** * * 462093 ATAT ATAT ATTA ATAT TTAT TTAT ATAT A 1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT A 462122 ACATATAAAA Statistics Matches: 56, Mismatches: 9, Indels: 8 0.77 0.12 0.11 Matches are distributed among these distances: 3 10 0.18 4 46 0.82 ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44 Consensus pattern (4 bp): ATAT Left flanking sequence: Indices 461549 -- 462048 TAAAAAAAAGGGGGGAAAAAATTCAGTTCAACAATATATTATTATGTGTTTTATATAAGTATATA TACATAAACTTATACACTCTTACACATACATTATGAAATAACTCACAATAAATTAATTTTGGGTA CATATATATATATATATATATATATATATATATAAATAAACATAATATCTATATATTAATATTTT CTAATGGATTCATATATATATATATATATATATATATAATAAATAGATCATTTCAAATTTTTATT ATATATATGAATAAATAAACATGAAAATAAAATTATAATTTATTATATATAGTTTGTAAATTCAG CATATATATTATTTTTCCCTTCTATTTGGTATTTTCATTTCTTCTTTGTTTCTTCTTTTATTCAT ACAAAAGGTATGAAATACTTAAGTGAATTCAAAATGCATTCAATAAATTTAATAAAAATTTAATA TTTTTATTAATATACAAAATAAAGCATTTCAATTGGAAGAAAATA Right flanking sequence: Indices 462122 -- 462621 ACATATAAAATTATAAAAATATCAATCATTAAAAATACATATTTTATTTATTCATATATTTTATT TCTTCTTATTTTAAGAAATAAATAAATAAATAAATAAGAATAAACAATATAAATATTATATTAAC TCAAAAAAAAAAGTTATAAATAAAAAAATATAAATTAATCATCGTGTGCGTATTCCTATTTTTAT TACTTTCAATAATTTTTATTTTTTACTTTCTTTTTGAGAATTCCGAAATTATATTAGAAAAATAA AAAAAAAAAAGAAAAAGAAAAAATAAGGAAAAATTTTTCAATTATTATCCTAGGACGCTTTATTT TGTTTATATATATATTATAATATATTATATATTATGTTATGTTATTATATATATATGTAAAATAT TATAAATGAATTATTTTAAATACTAATTAAGATACAATATTTATAATATATAATAATAATATATA TGAAATATTAAAAACATATATTATTATATGCGAAATATTATATAT Found at i:462102 original size:10 final size:10 Alignment explanation
Indices: 462049--462121 Score: 62 Period size: 10 Copynumber: 7.7 Consensus size: 10 462039 GAAGAAAATA 462049 ATATA-ATAT 1 ATATATATAT * 462058 A-ATATA-AA 1 ATATATATAT * * 462066 ATA-AAATAA 1 ATATATATAT * 462075 ATAAATATAT 1 ATATATATAT 462085 ATATATATAT 1 ATATATATAT ** 462095 ATATATATTA 1 ATATATATAT * * 462105 ATATTTATTT 1 ATATATATAT 462115 ATATATA 1 ATATATA 462122 ACATATAAAA Statistics Matches: 50, Mismatches: 10, Indels: 7 0.75 0.15 0.10 Matches are distributed among these distances: 8 7 0.14 9 8 0.16 10 35 0.70 ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44 Consensus pattern (10 bp): ATATATATAT Left flanking sequence: Indices 461549 -- 462048 TAAAAAAAAGGGGGGAAAAAATTCAGTTCAACAATATATTATTATGTGTTTTATATAAGTATATA TACATAAACTTATACACTCTTACACATACATTATGAAATAACTCACAATAAATTAATTTTGGGTA CATATATATATATATATATATATATATATATATAAATAAACATAATATCTATATATTAATATTTT CTAATGGATTCATATATATATATATATATATATATATAATAAATAGATCATTTCAAATTTTTATT ATATATATGAATAAATAAACATGAAAATAAAATTATAATTTATTATATATAGTTTGTAAATTCAG CATATATATTATTTTTCCCTTCTATTTGGTATTTTCATTTCTTCTTTGTTTCTTCTTTTATTCAT ACAAAAGGTATGAAATACTTAAGTGAATTCAAAATGCATTCAATAAATTTAATAAAAATTTAATA TTTTTATTAATATACAAAATAAAGCATTTCAATTGGAAGAAAATA Right flanking sequence: Indices 462122 -- 462621 ACATATAAAATTATAAAAATATCAATCATTAAAAATACATATTTTATTTATTCATATATTTTATT TCTTCTTATTTTAAGAAATAAATAAATAAATAAATAAGAATAAACAATATAAATATTATATTAAC TCAAAAAAAAAAGTTATAAATAAAAAAATATAAATTAATCATCGTGTGCGTATTCCTATTTTTAT TACTTTCAATAATTTTTATTTTTTACTTTCTTTTTGAGAATTCCGAAATTATATTAGAAAAATAA AAAAAAAAAAGAAAAAGAAAAAATAAGGAAAAATTTTTCAATTATTATCCTAGGACGCTTTATTT TGTTTATATATATATTATAATATATTATATATTATGTTATGTTATTATATATATATGTAAAATAT TATAAATGAATTATTTTAAATACTAATTAAGATACAATATTTATAATATATAATAATAATATATA TGAAATATTAAAAACATATATTATTATATGCGAAATATTATATAT Found at i:462173 original size:4 final size:4 Alignment explanation
Indices: 462164--462187 Score: 25 Period size: 4 Copynumber: 5.8 Consensus size: 4 462154 AAATACATAT * * 462164 TTTA TTTA TTCA TATA TTTTA TTT 1 TTTA TTTA TTTA TTTA -TTTA TTT 462188 CTTCTTATTT Statistics Matches: 15, Mismatches: 4, Indels: 2 0.71 0.19 0.10 Matches are distributed among these distances: 4 12 0.80 5 3 0.20 ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71 Consensus pattern (4 bp): TTTA Left flanking sequence: Indices 461664 -- 462163 AATTAATTTTGGGTACATATATATATATATATATATATATATATATATAAATAAACATAATATCT ATATATTAATATTTTCTAATGGATTCATATATATATATATATATATATATATAATAAATAGATCA TTTCAAATTTTTATTATATATATGAATAAATAAACATGAAAATAAAATTATAATTTATTATATAT AGTTTGTAAATTCAGCATATATATTATTTTTCCCTTCTATTTGGTATTTTCATTTCTTCTTTGTT TCTTCTTTTATTCATACAAAAGGTATGAAATACTTAAGTGAATTCAAAATGCATTCAATAAATTT AATAAAAATTTAATATTTTTATTAATATACAAAATAAAGCATTTCAATTGGAAGAAAATAATATA ATATAATATAAAATAAAATAAATAAATATATATATATATATATATATATTAATATTTATTTATAT ATAACATATAAAATTATAAAAATATCAATCATTAAAAATACATAT Right flanking sequence: Indices 462188 -- 462687 CTTCTTATTTTAAGAAATAAATAAATAAATAAATAAGAATAAACAATATAAATATTATATTAACT CAAAAAAAAAAGTTATAAATAAAAAAATATAAATTAATCATCGTGTGCGTATTCCTATTTTTATT ACTTTCAATAATTTTTATTTTTTACTTTCTTTTTGAGAATTCCGAAATTATATTAGAAAAATAAA AAAAAAAAAGAAAAAGAAAAAATAAGGAAAAATTTTTCAATTATTATCCTAGGACGCTTTATTTT GTTTATATATATATTATAATATATTATATATTATGTTATGTTATTATATATATATGTAAAATATT ATAAATGAATTATTTTAAATACTAATTAAGATACAATATTTATAATATATAATAATAATATATAT GAAATATTAAAAACATATATTATTATATGCGAAATATTATATATATATATATATATATATATATA TATATATATATTATTATAAAAAATATTATCATATTTAAATTATAA Found at i:462211 original size:4 final size:4 Alignment explanation
Indices: 462202--462241 Score: 46 Period size: 4 Copynumber: 9.2 Consensus size: 4 462192 TTATTTTAAG * 462202 AAAT AAAT AAAT AAAT AAAT AAGAAT AAAC AATAT AAAT A 1 AAAT AAAT AAAT AAAT AAAT -A-AAT AAAT AA-AT AAAT A 462242 TTATATTAAC Statistics Matches: 31, Mismatches: 2, Indels: 6 0.79 0.05 0.15 Matches are distributed among these distances: 4 23 0.74 5 5 0.16 6 3 0.10 ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23 Consensus pattern (4 bp): AAAT Left flanking sequence: Indices 461702 -- 462201 ATATATATATAAATAAACATAATATCTATATATTAATATTTTCTAATGGATTCATATATATATAT ATATATATATATATAATAAATAGATCATTTCAAATTTTTATTATATATATGAATAAATAAACATG AAAATAAAATTATAATTTATTATATATAGTTTGTAAATTCAGCATATATATTATTTTTCCCTTCT ATTTGGTATTTTCATTTCTTCTTTGTTTCTTCTTTTATTCATACAAAAGGTATGAAATACTTAAG TGAATTCAAAATGCATTCAATAAATTTAATAAAAATTTAATATTTTTATTAATATACAAAATAAA GCATTTCAATTGGAAGAAAATAATATAATATAATATAAAATAAAATAAATAAATATATATATATA TATATATATATTAATATTTATTTATATATAACATATAAAATTATAAAAATATCAATCATTAAAAA TACATATTTTATTTATTCATATATTTTATTTCTTCTTATTTTAAG Right flanking sequence: Indices 462242 -- 462741 TTATATTAACTCAAAAAAAAAAGTTATAAATAAAAAAATATAAATTAATCATCGTGTGCGTATTC CTATTTTTATTACTTTCAATAATTTTTATTTTTTACTTTCTTTTTGAGAATTCCGAAATTATATT AGAAAAATAAAAAAAAAAAAGAAAAAGAAAAAATAAGGAAAAATTTTTCAATTATTATCCTAGGA CGCTTTATTTTGTTTATATATATATTATAATATATTATATATTATGTTATGTTATTATATATATA TGTAAAATATTATAAATGAATTATTTTAAATACTAATTAAGATACAATATTTATAATATATAATA ATAATATATATGAAATATTAAAAACATATATTATTATATGCGAAATATTATATATATATATATAT ATATATATATATATATATATATTATTATAAAAAATATTATCATATTTAAATTATAATATAAATAA TTTTTTTGTTATGTTTAACCATATATAAAAATTTTATATATATAT Found at i:462414 original size:1 final size:1 Alignment explanation
Indices: 462374--462404 Score: 41 Period size: 1 Copynumber: 31.0 Consensus size: 1 462364 ATTATATTAG * * * 462374 AAAAATAAAAAAAAAAAAGAAAAAGAAAAAA 1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 462405 TAAGGAAAAA Statistics Matches: 24, Mismatches: 6, Indels: 0 0.80 0.20 0.00 Matches are distributed among these distances: 1 24 1.00 ACGTcount: A:0.90, C:0.00, G:0.06, T:0.03 Consensus pattern (1 bp): A Left flanking sequence: Indices 461874 -- 462373 CATATATATTATTTTTCCCTTCTATTTGGTATTTTCATTTCTTCTTTGTTTCTTCTTTTATTCAT ACAAAAGGTATGAAATACTTAAGTGAATTCAAAATGCATTCAATAAATTTAATAAAAATTTAATA TTTTTATTAATATACAAAATAAAGCATTTCAATTGGAAGAAAATAATATAATATAATATAAAATA AAATAAATAAATATATATATATATATATATATATTAATATTTATTTATATATAACATATAAAATT ATAAAAATATCAATCATTAAAAATACATATTTTATTTATTCATATATTTTATTTCTTCTTATTTT AAGAAATAAATAAATAAATAAATAAGAATAAACAATATAAATATTATATTAACTCAAAAAAAAAA GTTATAAATAAAAAAATATAAATTAATCATCGTGTGCGTATTCCTATTTTTATTACTTTCAATAA TTTTTATTTTTTACTTTCTTTTTGAGAATTCCGAAATTATATTAG Right flanking sequence: Indices 462405 -- 462904 TAAGGAAAAATTTTTCAATTATTATCCTAGGACGCTTTATTTTGTTTATATATATATTATAATAT ATTATATATTATGTTATGTTATTATATATATATGTAAAATATTATAAATGAATTATTTTAAATAC TAATTAAGATACAATATTTATAATATATAATAATAATATATATGAAATATTAAAAACATATATTA TTATATGCGAAATATTATATATATATATATATATATATATATATATATATATATTATTATAAAAA ATATTATCATATTTAAATTATAATATAAATAATTTTTTTGTTATGTTTAACCATATATAAAAATT TTATATATATATAAAAAGTATTATACTATTTTGTTATATATAAACAGAACAAACAATTATACATA TATATATATATATATAATATAATAATTTGGAAAAAGATATATTTCTCTTATTTGTATATAAATAA TAAACATGTAACTTTTGTGTGACTTAATATAATATATATATATAT Found at i:462476 original size:5 final size:5 Alignment explanation
Indices: 462450--462502 Score: 39 Period size: 5 Copynumber: 10.2 Consensus size: 5 462440 TTTATTTTGT * ** ** ** 462450 TTATA TATATA TTATA ATATA TTATA TATTA TGTTA TGTTA TTATA TATATA 1 TTATA T-TATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T-TATA 462502 T 1 T 462503 GTAAAATATT Statistics Matches: 39, Mismatches: 7, Indels: 3 0.80 0.14 0.06 Matches are distributed among these distances: 5 29 0.74 6 10 0.26 ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57 Consensus pattern (5 bp): TTATA Left flanking sequence: Indices 461950 -- 462449 GAAATACTTAAGTGAATTCAAAATGCATTCAATAAATTTAATAAAAATTTAATATTTTTATTAAT ATACAAAATAAAGCATTTCAATTGGAAGAAAATAATATAATATAATATAAAATAAAATAAATAAA TATATATATATATATATATATATTAATATTTATTTATATATAACATATAAAATTATAAAAATATC AATCATTAAAAATACATATTTTATTTATTCATATATTTTATTTCTTCTTATTTTAAGAAATAAAT AAATAAATAAATAAGAATAAACAATATAAATATTATATTAACTCAAAAAAAAAAGTTATAAATAA AAAAATATAAATTAATCATCGTGTGCGTATTCCTATTTTTATTACTTTCAATAATTTTTATTTTT TACTTTCTTTTTGAGAATTCCGAAATTATATTAGAAAAATAAAAAAAAAAAAGAAAAAGAAAAAA TAAGGAAAAATTTTTCAATTATTATCCTAGGACGCTTTATTTTGT Right flanking sequence: Indices 462503 -- 463002 GTAAAATATTATAAATGAATTATTTTAAATACTAATTAAGATACAATATTTATAATATATAATAA TAATATATATGAAATATTAAAAACATATATTATTATATGCGAAATATTATATATATATATATATA TATATATATATATATATATATTATTATAAAAAATATTATCATATTTAAATTATAATATAAATAAT TTTTTTGTTATGTTTAACCATATATAAAAATTTTATATATATATAAAAAGTATTATACTATTTTG TTATATATAAACAGAACAAACAATTATACATATATATATATATATATAATATAATAATTTGGAAA AAGATATATTTCTCTTATTTGTATATAAATAATAAACATGTAACTTTTGTGTGACTTAATATAAT ATATATATATATATATATATATATATAGTATCATATGTATTCGCGAGGGAATCTAATATTTAACT TTTATTTTAGTATTTTTTTTTTGTTTTTTTTTATTTTTTTTTATT Found at i:462569 original size:3 final size:3 Alignment explanation
Indices: 462554--462572 Score: 29 Period size: 3 Copynumber: 6.0 Consensus size: 3 462544 TACAATATTT 462554 ATA ATA TATA ATA ATA ATA 1 ATA ATA -ATA ATA ATA ATA 462573 TATATGAAAT Statistics Matches: 15, Mismatches: 0, Indels: 2 0.88 0.00 0.12 Matches are distributed among these distances: 3 12 0.80 4 3 0.20 ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37 Consensus pattern (3 bp): ATA Left flanking sequence: Indices 462054 -- 462553 ATATAATATAAAATAAAATAAATAAATATATATATATATATATATATATTAATATTTATTTATAT ATAACATATAAAATTATAAAAATATCAATCATTAAAAATACATATTTTATTTATTCATATATTTT ATTTCTTCTTATTTTAAGAAATAAATAAATAAATAAATAAGAATAAACAATATAAATATTATATT AACTCAAAAAAAAAAGTTATAAATAAAAAAATATAAATTAATCATCGTGTGCGTATTCCTATTTT TATTACTTTCAATAATTTTTATTTTTTACTTTCTTTTTGAGAATTCCGAAATTATATTAGAAAAA TAAAAAAAAAAAAGAAAAAGAAAAAATAAGGAAAAATTTTTCAATTATTATCCTAGGACGCTTTA TTTTGTTTATATATATATTATAATATATTATATATTATGTTATGTTATTATATATATATGTAAAA TATTATAAATGAATTATTTTAAATACTAATTAAGATACAATATTT Right flanking sequence: Indices 462573 -- 463072 TATATGAAATATTAAAAACATATATTATTATATGCGAAATATTATATATATATATATATATATAT ATATATATATATATATTATTATAAAAAATATTATCATATTTAAATTATAATATAAATAATTTTTT TGTTATGTTTAACCATATATAAAAATTTTATATATATATAAAAAGTATTATACTATTTTGTTATA TATAAACAGAACAAACAATTATACATATATATATATATATATAATATAATAATTTGGAAAAAGAT ATATTTCTCTTATTTGTATATAAATAATAAACATGTAACTTTTGTGTGACTTAATATAATATATA TATATATATATATATATATATAGTATCATATGTATTCGCGAGGGAATCTAATATTTAACTTTTAT TTTAGTATTTTTTTTTTGTTTTTTTTTATTTTTTTTTATTCTTTTTTTAATCTTTGGTAACATAA TATCAGGAAAAGCATTTTTTTTTTTCTTTTTTTTATCAACAAAAG Found at i:462799 original size:2 final size:2 Alignment explanation
Indices: 462787--462815 Score: 44 Period size: 2 Copynumber: 15.0 Consensus size: 2 462777 AACAAACAAT * 462787 TA TA CA TA TA TA TA TA TA TA TA TA -A TA TA 1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 462816 ATAATTTGGA Statistics Matches: 24, Mismatches: 2, Indels: 2 0.86 0.07 0.07 Matches are distributed among these distances: 1 1 0.04 2 23 0.96 ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45 Consensus pattern (2 bp): TA Left flanking sequence: Indices 462287 -- 462786 TAATCATCGTGTGCGTATTCCTATTTTTATTACTTTCAATAATTTTTATTTTTTACTTTCTTTTT GAGAATTCCGAAATTATATTAGAAAAATAAAAAAAAAAAAGAAAAAGAAAAAATAAGGAAAAATT TTTCAATTATTATCCTAGGACGCTTTATTTTGTTTATATATATATTATAATATATTATATATTAT GTTATGTTATTATATATATATGTAAAATATTATAAATGAATTATTTTAAATACTAATTAAGATAC AATATTTATAATATATAATAATAATATATATGAAATATTAAAAACATATATTATTATATGCGAAA TATTATATATATATATATATATATATATATATATATATATATTATTATAAAAAATATTATCATAT TTAAATTATAATATAAATAATTTTTTTGTTATGTTTAACCATATATAAAAATTTTATATATATAT AAAAAGTATTATACTATTTTGTTATATATAAACAGAACAAACAAT Right flanking sequence: Indices 462816 -- 463315 ATAATTTGGAAAAAGATATATTTCTCTTATTTGTATATAAATAATAAACATGTAACTTTTGTGTG ACTTAATATAATATATATATATATATATATATATATATAGTATCATATGTATTCGCGAGGGAATC TAATATTTAACTTTTATTTTAGTATTTTTTTTTTGTTTTTTTTTATTTTTTTTTATTCTTTTTTT AATCTTTGGTAACATAATATCAGGAAAAGCATTTTTTTTTTTCTTTTTTTTATCAACAAAAGTGA ATGATATATTTATATATTATATATACATTTTACTTTTTTCATACTGTTTTTTCTTTTTTTTTTTA TAAAGTATTCTTTTTTTGTATTATTTATATTTTTATAGAATTTTCTTTTATTTTTTTTTCATAAA TTGGTATTAATAATATAAATATATATATATAAAATATACGAATCATACAAAAAAATATATATTAT ATTAATTATATATGTACTCTACAAATTTTCGTGAATTTGTAATTC Found at i:462896 original size:2 final size:2 Alignment explanation
Indices: 462886--462932 Score: 62 Period size: 2 Copynumber: 23.0 Consensus size: 2 462876 GTGTGACTTA 462886 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT CAT AT 1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT -AT AT * 462929 GT AT 1 AT AT 462933 TCGCGAGGGA Statistics Matches: 40, Mismatches: 2, Indels: 6 0.83 0.04 0.12 Matches are distributed among these distances: 1 1 0.03 2 35 0.88 3 4 0.10 ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47 Consensus pattern (2 bp): AT Left flanking sequence: Indices 462386 -- 462885 AAAAAAGAAAAAGAAAAAATAAGGAAAAATTTTTCAATTATTATCCTAGGACGCTTTATTTTGTT TATATATATATTATAATATATTATATATTATGTTATGTTATTATATATATATGTAAAATATTATA AATGAATTATTTTAAATACTAATTAAGATACAATATTTATAATATATAATAATAATATATATGAA ATATTAAAAACATATATTATTATATGCGAAATATTATATATATATATATATATATATATATATAT ATATATATTATTATAAAAAATATTATCATATTTAAATTATAATATAAATAATTTTTTTGTTATGT TTAACCATATATAAAAATTTTATATATATATAAAAAGTATTATACTATTTTGTTATATATAAACA GAACAAACAATTATACATATATATATATATATATAATATAATAATTTGGAAAAAGATATATTTCT CTTATTTGTATATAAATAATAAACATGTAACTTTTGTGTGACTTA Right flanking sequence: Indices 462933 -- 463432 TCGCGAGGGAATCTAATATTTAACTTTTATTTTAGTATTTTTTTTTTGTTTTTTTTTATTTTTTT TTATTCTTTTTTTAATCTTTGGTAACATAATATCAGGAAAAGCATTTTTTTTTTTCTTTTTTTTA TCAACAAAAGTGAATGATATATTTATATATTATATATACATTTTACTTTTTTCATACTGTTTTTT CTTTTTTTTTTTATAAAGTATTCTTTTTTTGTATTATTTATATTTTTATAGAATTTTCTTTTATT TTTTTTTCATAAATTGGTATTAATAATATAAATATATATATATAAAATATACGAATCATACAAAA AAATATATATTATATTAATTATATATGTACTCTACAAATTTTCGTGAATTTGTAATTCTTTTCTT TTCTTTTTTTTTTTTTTTTTTGCCATAAATATATTAAGGAATATATTCTTTGCAAATTATATGTT CAAATGAATATATTTTTTATATATATATTAAAATAAAAAAAAAAA Found at i:462976 original size:1 final size:1 Alignment explanation
Indices: 462970--463010 Score: 54 Period size: 1 Copynumber: 41.0 Consensus size: 1 462960 TATTTTAGTA * * * * 462970 TTTTTTTTTTGTTTTTTTTTATTTTTTTTTATTCTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 463011 AATCTTTGGT Statistics Matches: 32, Mismatches: 8, Indels: 0 0.80 0.20 0.00 Matches are distributed among these distances: 1 32 1.00 ACGTcount: A:0.05, C:0.02, G:0.02, T:0.90 Consensus pattern (1 bp): T Left flanking sequence: Indices 462470 -- 462969 ATTATATATTATGTTATGTTATTATATATATATGTAAAATATTATAAATGAATTATTTTAAATAC TAATTAAGATACAATATTTATAATATATAATAATAATATATATGAAATATTAAAAACATATATTA TTATATGCGAAATATTATATATATATATATATATATATATATATATATATATATTATTATAAAAA ATATTATCATATTTAAATTATAATATAAATAATTTTTTTGTTATGTTTAACCATATATAAAAATT TTATATATATATAAAAAGTATTATACTATTTTGTTATATATAAACAGAACAAACAATTATACATA TATATATATATATATAATATAATAATTTGGAAAAAGATATATTTCTCTTATTTGTATATAAATAA TAAACATGTAACTTTTGTGTGACTTAATATAATATATATATATATATATATATATATATAGTATC ATATGTATTCGCGAGGGAATCTAATATTTAACTTTTATTTTAGTA Right flanking sequence: Indices 463011 -- 463510 AATCTTTGGTAACATAATATCAGGAAAAGCATTTTTTTTTTTCTTTTTTTTATCAACAAAAGTGA ATGATATATTTATATATTATATATACATTTTACTTTTTTCATACTGTTTTTTCTTTTTTTTTTTA TAAAGTATTCTTTTTTTGTATTATTTATATTTTTATAGAATTTTCTTTTATTTTTTTTTCATAAA TTGGTATTAATAATATAAATATATATATATAAAATATACGAATCATACAAAAAAATATATATTAT ATTAATTATATATGTACTCTACAAATTTTCGTGAATTTGTAATTCTTTTCTTTTCTTTTTTTTTT TTTTTTTTGCCATAAATATATTAAGGAATATATTCTTTGCAAATTATATGTTCAAATGAATATAT TTTTTATATATATATTAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACACATTAGTAT ATTATATATATTATTTATTTATTTATTTATTTATTTATTTAATTT Found at i:463048 original size:1 final size:1 Alignment explanation
Indices: 463042--463061 Score: 33 Period size: 1 Copynumber: 20.0 Consensus size: 1 463032 AGGAAAAGCA * 463042 TTTTTTTTTTTCTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTT 463062 ATCAACAAAA Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 1 17 1.00 ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95 Consensus pattern (1 bp): T Left flanking sequence: Indices 462542 -- 463041 GATACAATATTTATAATATATAATAATAATATATATGAAATATTAAAAACATATATTATTATATG CGAAATATTATATATATATATATATATATATATATATATATATATATTATTATAAAAAATATTAT CATATTTAAATTATAATATAAATAATTTTTTTGTTATGTTTAACCATATATAAAAATTTTATATA TATATAAAAAGTATTATACTATTTTGTTATATATAAACAGAACAAACAATTATACATATATATAT ATATATATAATATAATAATTTGGAAAAAGATATATTTCTCTTATTTGTATATAAATAATAAACAT GTAACTTTTGTGTGACTTAATATAATATATATATATATATATATATATATATAGTATCATATGTA TTCGCGAGGGAATCTAATATTTAACTTTTATTTTAGTATTTTTTTTTTGTTTTTTTTTATTTTTT TTTATTCTTTTTTTAATCTTTGGTAACATAATATCAGGAAAAGCA Right flanking sequence: Indices 463062 -- 463561 ATCAACAAAAGTGAATGATATATTTATATATTATATATACATTTTACTTTTTTCATACTGTTTTT TCTTTTTTTTTTTATAAAGTATTCTTTTTTTGTATTATTTATATTTTTATAGAATTTTCTTTTAT TTTTTTTTCATAAATTGGTATTAATAATATAAATATATATATATAAAATATACGAATCATACAAA AAAATATATATTATATTAATTATATATGTACTCTACAAATTTTCGTGAATTTGTAATTCTTTTCT TTTCTTTTTTTTTTTTTTTTTTGCCATAAATATATTAAGGAATATATTCTTTGCAAATTATATGT TCAAATGAATATATTTTTTATATATATATTAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA AAACACATTAGTATATTATATATATTATTTATTTATTTATTTATTTATTTATTTAATTTTTTTAT ATTGTATATATATTTTATAAAATGTATCCATAAATGAATTCGGAT Found at i:463091 original size:2 final size:2 Alignment explanation
Indices: 463079--463100 Score: 30 Period size: 2 Copynumber: 11.5 Consensus size: 2 463069 AAAGTGAATG * 463079 AT AT AT TT AT AT AT -T AT AT AT A 1 AT AT AT AT AT AT AT AT AT AT AT A 463101 CATTTTACTT Statistics Matches: 17, Mismatches: 2, Indels: 2 0.81 0.10 0.10 Matches are distributed among these distances: 1 1 0.06 2 16 0.94 ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55 Consensus pattern (2 bp): AT Left flanking sequence: Indices 462579 -- 463078 AAATATTAAAAACATATATTATTATATGCGAAATATTATATATATATATATATATATATATATAT ATATATATATTATTATAAAAAATATTATCATATTTAAATTATAATATAAATAATTTTTTTGTTAT GTTTAACCATATATAAAAATTTTATATATATATAAAAAGTATTATACTATTTTGTTATATATAAA CAGAACAAACAATTATACATATATATATATATATATAATATAATAATTTGGAAAAAGATATATTT CTCTTATTTGTATATAAATAATAAACATGTAACTTTTGTGTGACTTAATATAATATATATATATA TATATATATATATATAGTATCATATGTATTCGCGAGGGAATCTAATATTTAACTTTTATTTTAGT ATTTTTTTTTTGTTTTTTTTTATTTTTTTTTATTCTTTTTTTAATCTTTGGTAACATAATATCAG GAAAAGCATTTTTTTTTTTCTTTTTTTTATCAACAAAAGTGAATG Right flanking sequence: Indices 463101 -- 463600 CATTTTACTTTTTTCATACTGTTTTTTCTTTTTTTTTTTATAAAGTATTCTTTTTTTGTATTATT TATATTTTTATAGAATTTTCTTTTATTTTTTTTTCATAAATTGGTATTAATAATATAAATATATA TATATAAAATATACGAATCATACAAAAAAATATATATTATATTAATTATATATGTACTCTACAAA TTTTCGTGAATTTGTAATTCTTTTCTTTTCTTTTTTTTTTTTTTTTTTGCCATAAATATATTAAG GAATATATTCTTTGCAAATTATATGTTCAAATGAATATATTTTTTATATATATATTAAAATAAAA AAAAAAAAAAAAAAAAAAAAAAAAAAAAACACATTAGTATATTATATATATTATTTATTTATTTA TTTATTTATTTATTTAATTTTTTTATATTGTATATATATTTTATAAAATGTATCCATAAATGAAT TCGGATAATAAACCAATTTATTTATTAGGCACATTTATATGTCAA Found at i:463157 original size:1 final size:1 Alignment explanation
Indices: 463122--463139 Score: 29 Period size: 1 Copynumber: 18.0 Consensus size: 1 463112 TTTCATACTG * 463122 TTTTTTCTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTT 463140 ATAAAGTATT Statistics Matches: 15, Mismatches: 2, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 1 15 1.00 ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94 Consensus pattern (1 bp): T Left flanking sequence: Indices 462622 -- 463121 ATATATATATATATATATATATATATATATATTATTATAAAAAATATTATCATATTTAAATTATA ATATAAATAATTTTTTTGTTATGTTTAACCATATATAAAAATTTTATATATATATAAAAAGTATT ATACTATTTTGTTATATATAAACAGAACAAACAATTATACATATATATATATATATATAATATAA TAATTTGGAAAAAGATATATTTCTCTTATTTGTATATAAATAATAAACATGTAACTTTTGTGTGA CTTAATATAATATATATATATATATATATATATATATAGTATCATATGTATTCGCGAGGGAATCT AATATTTAACTTTTATTTTAGTATTTTTTTTTTGTTTTTTTTTATTTTTTTTTATTCTTTTTTTA ATCTTTGGTAACATAATATCAGGAAAAGCATTTTTTTTTTTCTTTTTTTTATCAACAAAAGTGAA TGATATATTTATATATTATATATACATTTTACTTTTTTCATACTG Right flanking sequence: Indices 463140 -- 463639 ATAAAGTATTCTTTTTTTGTATTATTTATATTTTTATAGAATTTTCTTTTATTTTTTTTTCATAA ATTGGTATTAATAATATAAATATATATATATAAAATATACGAATCATACAAAAAAATATATATTA TATTAATTATATATGTACTCTACAAATTTTCGTGAATTTGTAATTCTTTTCTTTTCTTTTTTTTT TTTTTTTTTGCCATAAATATATTAAGGAATATATTCTTTGCAAATTATATGTTCAAATGAATATA TTTTTTATATATATATTAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACACATTAGTA TATTATATATATTATTTATTTATTTATTTATTTATTTATTTAATTTTTTTATATTGTATATATAT TTTATAAAATGTATCCATAAATGAATTCGGATAATAAACCAATTTATTTATTAGGCACATTTATA TGTCAATTGACACATTTTTTTTTTTTTTTTTTTTTTTTTTTGAAC Found at i:463194 original size:5 final size:5 Alignment explanation
Indices: 463180--463199 Score: 26 Period size: 5 Copynumber: 4.0 Consensus size: 5 463170 TTTTTATAGA * * 463180 ATTTT CTTTT ATTTT TTTTT 1 ATTTT ATTTT ATTTT ATTTT 463200 CATAAATTGG Statistics Matches: 12, Mismatches: 3, Indels: 0 0.80 0.20 0.00 Matches are distributed among these distances: 5 12 1.00 ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85 Consensus pattern (5 bp): ATTTT Left flanking sequence: Indices 462680 -- 463179 AATTATAATATAAATAATTTTTTTGTTATGTTTAACCATATATAAAAATTTTATATATATATAAA AAGTATTATACTATTTTGTTATATATAAACAGAACAAACAATTATACATATATATATATATATAT AATATAATAATTTGGAAAAAGATATATTTCTCTTATTTGTATATAAATAATAAACATGTAACTTT TGTGTGACTTAATATAATATATATATATATATATATATATATATAGTATCATATGTATTCGCGAG GGAATCTAATATTTAACTTTTATTTTAGTATTTTTTTTTTGTTTTTTTTTATTTTTTTTTATTCT TTTTTTAATCTTTGGTAACATAATATCAGGAAAAGCATTTTTTTTTTTCTTTTTTTTATCAACAA AAGTGAATGATATATTTATATATTATATATACATTTTACTTTTTTCATACTGTTTTTTCTTTTTT TTTTTATAAAGTATTCTTTTTTTGTATTATTTATATTTTTATAGA Right flanking sequence: Indices 463200 -- 463699 CATAAATTGGTATTAATAATATAAATATATATATATAAAATATACGAATCATACAAAAAAATATA TATTATATTAATTATATATGTACTCTACAAATTTTCGTGAATTTGTAATTCTTTTCTTTTCTTTT TTTTTTTTTTTTTTGCCATAAATATATTAAGGAATATATTCTTTGCAAATTATATGTTCAAATGA ATATATTTTTTATATATATATTAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACACAT TAGTATATTATATATATTATTTATTTATTTATTTATTTATTTATTTAATTTTTTTATATTGTATA TATATTTTATAAAATGTATCCATAAATGAATTCGGATAATAAACCAATTTATTTATTAGGCACAT TTATATGTCAATTGACACATTTTTTTTTTTTTTTTTTTTTTTTTTTGAACCTTTTTATATTTTAT AATAGATTCAAGCTTAATATATATTAATATAATTATAACTTTTTA Found at i:463231 original size:2 final size:2 Alignment explanation
Indices: 463218--463236 Score: 31 Period size: 2 Copynumber: 9.5 Consensus size: 2 463208 GGTATTAATA * 463218 AT AT AA AT AT AT AT AT AT A 1 AT AT AT AT AT AT AT AT AT A 463237 AAATATACGA 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:0.58, C:0.00, G:0.00, T:0.42 Consensus pattern (2 bp): AT Left flanking sequence: Indices 462718 -- 463217 TATATAAAAATTTTATATATATATAAAAAGTATTATACTATTTTGTTATATATAAACAGAACAAA CAATTATACATATATATATATATATATAATATAATAATTTGGAAAAAGATATATTTCTCTTATTT GTATATAAATAATAAACATGTAACTTTTGTGTGACTTAATATAATATATATATATATATATATAT ATATATAGTATCATATGTATTCGCGAGGGAATCTAATATTTAACTTTTATTTTAGTATTTTTTTT TTGTTTTTTTTTATTTTTTTTTATTCTTTTTTTAATCTTTGGTAACATAATATCAGGAAAAGCAT TTTTTTTTTTCTTTTTTTTATCAACAAAAGTGAATGATATATTTATATATTATATATACATTTTA CTTTTTTCATACTGTTTTTTCTTTTTTTTTTTATAAAGTATTCTTTTTTTGTATTATTTATATTT TTATAGAATTTTCTTTTATTTTTTTTTCATAAATTGGTATTAATA Right flanking sequence: Indices 463237 -- 463736 AAATATACGAATCATACAAAAAAATATATATTATATTAATTATATATGTACTCTACAAATTTTCG TGAATTTGTAATTCTTTTCTTTTCTTTTTTTTTTTTTTTTTTGCCATAAATATATTAAGGAATAT ATTCTTTGCAAATTATATGTTCAAATGAATATATTTTTTATATATATATTAAAATAAAAAAAAAA AAAAAAAAAAAAAAAAAAAAAAACACATTAGTATATTATATATATTATTTATTTATTTATTTATT TATTTATTTAATTTTTTTATATTGTATATATATTTTATAAAATGTATCCATAAATGAATTCGGAT AATAAACCAATTTATTTATTAGGCACATTTATATGTCAATTGACACATTTTTTTTTTTTTTTTTT TTTTTTTTTGAACCTTTTTATATTTTATAATAGATTCAAGCTTAATATATATTAATATAATTATA ACTTTTTATATTAAGAGACTTATAAAAAAAAAAAATAATAATAAA Found at i:463278 original size:4 final size:5 Alignment explanation
Indices: 463263--463281 Score: 31 Period size: 5 Copynumber: 4.0 Consensus size: 5 463253 CAAAAAAATA 463263 TATAT TATAT TA-AT TATAT 1 TATAT TATAT TATAT TATAT 463282 ATGTACTCTA Statistics Matches: 13, Mismatches: 0, Indels: 2 0.87 0.00 0.13 Matches are distributed among these distances: 4 4 0.31 5 9 0.69 ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58 Consensus pattern (5 bp): TATAT Left flanking sequence: Indices 462763 -- 463262 TTATATATAAACAGAACAAACAATTATACATATATATATATATATATAATATAATAATTTGGAAA AAGATATATTTCTCTTATTTGTATATAAATAATAAACATGTAACTTTTGTGTGACTTAATATAAT ATATATATATATATATATATATATATAGTATCATATGTATTCGCGAGGGAATCTAATATTTAACT TTTATTTTAGTATTTTTTTTTTGTTTTTTTTTATTTTTTTTTATTCTTTTTTTAATCTTTGGTAA CATAATATCAGGAAAAGCATTTTTTTTTTTCTTTTTTTTATCAACAAAAGTGAATGATATATTTA TATATTATATATACATTTTACTTTTTTCATACTGTTTTTTCTTTTTTTTTTTATAAAGTATTCTT TTTTTGTATTATTTATATTTTTATAGAATTTTCTTTTATTTTTTTTTCATAAATTGGTATTAATA ATATAAATATATATATATAAAATATACGAATCATACAAAAAAATA Right flanking sequence: Indices 463282 -- 463781 ATGTACTCTACAAATTTTCGTGAATTTGTAATTCTTTTCTTTTCTTTTTTTTTTTTTTTTTTGCC ATAAATATATTAAGGAATATATTCTTTGCAAATTATATGTTCAAATGAATATATTTTTTATATAT ATATTAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACACATTAGTATATTATATATAT TATTTATTTATTTATTTATTTATTTATTTAATTTTTTTATATTGTATATATATTTTATAAAATGT ATCCATAAATGAATTCGGATAATAAACCAATTTATTTATTAGGCACATTTATATGTCAATTGACA CATTTTTTTTTTTTTTTTTTTTTTTTTTTGAACCTTTTTATATTTTATAATAGATTCAAGCTTAA TATATATTAATATAATTATAACTTTTTATATTAAGAGACTTATAAAAAAAAAAAATAATAATAAA ATAATAAAAAATAATGTGTAATATCAAAATGCACTAACAAATATG Found at i:463332 original size:1 final size:1 Alignment explanation
Indices: 463316--463343 Score: 42 Period size: 1 Copynumber: 28.0 Consensus size: 1 463306 TTTGTAATTC * * 463316 TTTTCTTTTCTTTTTTTTTTTTTTTTTT 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT 463344 GCCATAAATA Statistics Matches: 23, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 1 23 1.00 ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93 Consensus pattern (1 bp): T Left flanking sequence: Indices 462816 -- 463315 ATAATTTGGAAAAAGATATATTTCTCTTATTTGTATATAAATAATAAACATGTAACTTTTGTGTG ACTTAATATAATATATATATATATATATATATATATATAGTATCATATGTATTCGCGAGGGAATC TAATATTTAACTTTTATTTTAGTATTTTTTTTTTGTTTTTTTTTATTTTTTTTTATTCTTTTTTT AATCTTTGGTAACATAATATCAGGAAAAGCATTTTTTTTTTTCTTTTTTTTATCAACAAAAGTGA ATGATATATTTATATATTATATATACATTTTACTTTTTTCATACTGTTTTTTCTTTTTTTTTTTA TAAAGTATTCTTTTTTTGTATTATTTATATTTTTATAGAATTTTCTTTTATTTTTTTTTCATAAA TTGGTATTAATAATATAAATATATATATATAAAATATACGAATCATACAAAAAAATATATATTAT ATTAATTATATATGTACTCTACAAATTTTCGTGAATTTGTAATTC Right flanking sequence: Indices 463344 -- 463843 GCCATAAATATATTAAGGAATATATTCTTTGCAAATTATATGTTCAAATGAATATATTTTTTATA TATATATTAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACACATTAGTATATTATATA TATTATTTATTTATTTATTTATTTATTTATTTAATTTTTTTATATTGTATATATATTTTATAAAA TGTATCCATAAATGAATTCGGATAATAAACCAATTTATTTATTAGGCACATTTATATGTCAATTG ACACATTTTTTTTTTTTTTTTTTTTTTTTTTTGAACCTTTTTATATTTTATAATAGATTCAAGCT TAATATATATTAATATAATTATAACTTTTTATATTAAGAGACTTATAAAAAAAAAAAATAATAAT AAAATAATAAAAAATAATGTGTAATATCAAAATGCACTAACAAATATGTTAATTTATATTTATTA TTTATTTATTTATTTTATTTTTCTTTTTTCTTTTTTCTTTAATAT Found at i:463428 original size:1 final size:1 Alignment explanation
Indices: 463417--463454 Score: 69 Period size: 1 Copynumber: 38.0 Consensus size: 1 463407 TATATATATT * 463417 AAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 463455 CACATTAGTA Statistics Matches: 35, Mismatches: 2, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 1 35 1.00 ACGTcount: A:0.97, C:0.00, G:0.00, T:0.03 Consensus pattern (1 bp): A Left flanking sequence: Indices 462917 -- 463416 ATAGTATCATATGTATTCGCGAGGGAATCTAATATTTAACTTTTATTTTAGTATTTTTTTTTTGT TTTTTTTTATTTTTTTTTATTCTTTTTTTAATCTTTGGTAACATAATATCAGGAAAAGCATTTTT TTTTTTCTTTTTTTTATCAACAAAAGTGAATGATATATTTATATATTATATATACATTTTACTTT TTTCATACTGTTTTTTCTTTTTTTTTTTATAAAGTATTCTTTTTTTGTATTATTTATATTTTTAT AGAATTTTCTTTTATTTTTTTTTCATAAATTGGTATTAATAATATAAATATATATATATAAAATA TACGAATCATACAAAAAAATATATATTATATTAATTATATATGTACTCTACAAATTTTCGTGAAT TTGTAATTCTTTTCTTTTCTTTTTTTTTTTTTTTTTTGCCATAAATATATTAAGGAATATATTCT TTGCAAATTATATGTTCAAATGAATATATTTTTTATATATATATT Right flanking sequence: Indices 463455 -- 463954 CACATTAGTATATTATATATATTATTTATTTATTTATTTATTTATTTATTTAATTTTTTTATATT GTATATATATTTTATAAAATGTATCCATAAATGAATTCGGATAATAAACCAATTTATTTATTAGG CACATTTATATGTCAATTGACACATTTTTTTTTTTTTTTTTTTTTTTTTTTGAACCTTTTTATAT TTTATAATAGATTCAAGCTTAATATATATTAATATAATTATAACTTTTTATATTAAGAGACTTAT AAAAAAAAAAAATAATAATAAAATAATAAAAAATAATGTGTAATATCAAAATGCACTAACAAATA TGTTAATTTATATTTATTATTTATTTATTTATTTTATTTTTCTTTTTTCTTTTTTCTTTAATATA AAAAAAATATATATATTAAGATTAAATTCTTATTATTTAATATATTTATTATATTATTTCTTAAT GATTTTATATACATTTATATTTATACTATTATTTATGTGGAATAA Found at