TRAP (Tandem Repeats Analysis Program) TRF Version 4.00 Sequence: 97739982 P. falciparum 3D7 GENOMIC chr8 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: 1323195 ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40 Found at i: i:275083 original size:16 final size:16 Alignment explanation
Indices: 275058--275130 Score: 83 Period size: 16 Copynumber: 4.6 Consensus size: 16 275048 TAAACTAAAT * * 275058 ATAGAAATATACATAA 1 ATATAAATATATATAA * * 275074 ATATAAATATAAATAT 1 ATATAAATATATATAA * * 275090 ATATATATATATATAT 1 ATATAAATATATATAA * * 275106 ATATATATATATATGA 1 ATATAAATATATATAA 275122 ATA-AAATAT 1 ATATAAATAT 275131 TGTTATCTTA Statistics Matches: 49, Mismatches: 8, Indels: 1 0.84 0.14 0.02 Matches are distributed among these distances: 15 5 0.10 16 44 0.90 ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38 Consensus pattern (16 bp): ATATAAATATATATAA Left flanking sequence: Indices 274558 -- 275057 TGTTCATTTATTATAAACATTTTCTTACAAACAAAGATTCCAAAAAAGAATAATCTTAAACGTGA TGCACAAAATACAAGCCAGGAAAATATTATCTACAAATATATAAATATATATATATATATATATA TATGTATAATATAATGAATAGATTATATTATAATATGATCGACTATTTTCATACCTCAGATACTA TTATACAAAAACAAATTAGTTTCTTATCAAATTTACAATTTGCAATATCTAAAAAATAAAATTTA AATAAGTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAATATATGTTAATATAACCT TTTTAATATTTAAATAAGTTACAAAATATATACAATTTATGTCATATAACATTAATATTATGAAC CTCATATAATATACAAAAATTACATGATAAAAGAGATGGGACAGGTTGAGAGAAAAAGAAATTTT CAAAACAGTCGAAATTTACCCATGCTTTCCTATCATAAACTAAAT Right flanking sequence: Indices 275131 -- 275630 TGTTATCTTATAAATGTATAATTTATTTTCCTTTTTATATATATTATTGTACTTTTGTAATTTTC CTTTTTTTTACATACCTAACTTTCGAACTGCCGAGTTAAACAATATTTTAAAAGAGAGTAGTCTT AAGATGCATATTATAAGTGTGTTAGAATATTTTAAATAATAAGAATCACTTAAATTTAAAAATAT TAAAAGAAATCCAAATTCGTTCATTAATAAATCGCTACAAAAATAAAAAATATAATAAAACAAAG GAATTATCTAATCTGTCTATATATATATATATATATATATATATATATATATGTATTTATTTATT TATTTTATTTTTTTTTCAAAATCCATATAATTTGTCAAAATGGTACATTATTCACATACATATAT TTTTTACCATTGAAATATCATAAAGTCCCTCATAATAATTTTAAAACAAATATGAAGGAAAAATA AAAAGACAAAAAAAAACGAAGACGTTAATATTCGAAAAAAATCAT Found at i:275087 original size:12 final size:12 Alignment explanation
Indices: 275056--275124 Score: 89 Period size: 12 Copynumber: 5.8 Consensus size: 12 275046 CATAAACTAA * * 275056 ATATAGAAATAT 1 ATATAAATATAT * * 275068 ACATAAATATAA 1 ATATAAATATAT 275080 ATATAAATATAT 1 ATATAAATATAT * 275092 ATATATATATAT 1 ATATAAATATAT * 275104 ATATATATATAT 1 ATATAAATATAT * 275116 ATATGAATA 1 ATATAAATA 275125 AAATATTGTT Statistics Matches: 48, Mismatches: 9, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 12 48 1.00 ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39 Consensus pattern (12 bp): ATATAAATATAT Left flanking sequence: Indices 274556 -- 275055 TATGTTCATTTATTATAAACATTTTCTTACAAACAAAGATTCCAAAAAAGAATAATCTTAAACGT GATGCACAAAATACAAGCCAGGAAAATATTATCTACAAATATATAAATATATATATATATATATA TATATGTATAATATAATGAATAGATTATATTATAATATGATCGACTATTTTCATACCTCAGATAC TATTATACAAAAACAAATTAGTTTCTTATCAAATTTACAATTTGCAATATCTAAAAAATAAAATT TAAATAAGTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAATATATGTTAATATAAC CTTTTTAATATTTAAATAAGTTACAAAATATATACAATTTATGTCATATAACATTAATATTATGA ACCTCATATAATATACAAAAATTACATGATAAAAGAGATGGGACAGGTTGAGAGAAAAAGAAATT TTCAAAACAGTCGAAATTTACCCATGCTTTCCTATCATAAACTAA Right flanking sequence: Indices 275125 -- 275624 AAATATTGTTATCTTATAAATGTATAATTTATTTTCCTTTTTATATATATTATTGTACTTTTGTA ATTTTCCTTTTTTTTACATACCTAACTTTCGAACTGCCGAGTTAAACAATATTTTAAAAGAGAGT AGTCTTAAGATGCATATTATAAGTGTGTTAGAATATTTTAAATAATAAGAATCACTTAAATTTAA AAATATTAAAAGAAATCCAAATTCGTTCATTAATAAATCGCTACAAAAATAAAAAATATAATAAA ACAAAGGAATTATCTAATCTGTCTATATATATATATATATATATATATATATATATATGTATTTA TTTATTTATTTTATTTTTTTTTCAAAATCCATATAATTTGTCAAAATGGTACATTATTCACATAC ATATATTTTTTACCATTGAAATATCATAAAGTCCCTCATAATAATTTTAAAACAAATATGAAGGA AAAATAAAAAGACAAAAAAAAACGAAGACGTTAATATTCGAAAAA Found at i:276196 original size:11 final size:11 Alignment explanation
Indices: 276180--276202 Score: 46 Period size: 11 Copynumber: 2.1 Consensus size: 11 276170 TTTATTGTTG 276180 ATAAAAAAAAT 1 ATAAAAAAAAT 276191 ATAAAAAAAAT 1 ATAAAAAAAAT 276202 A 1 A 276203 AAACTTGTTA Statistics Matches: 12, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 11 12 1.00 ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17 Consensus pattern (11 bp): ATAAAAAAAAT Left flanking sequence: Indices 275680 -- 276179 CAATTTACAAAAGGTTTTAATCTATCACAAAAAAAAAAAAAAAAAAAAAAAAAAAACCCAAATAT ATCTATATATATATATATATATATATATATATAAACTTATAATTTATCATAAATTTATATATATT ATCTATATTTTACTTTTATCCTTTTCCTTATGACATATTCCCAAAACGAATATACAAAATAAATG ACATTTTTTACAACAACCAAATTGATACACTCAATCTTTTCTTTAATCTCTGCTAAATATTTATT AACTGGTAATAATCCTTTATCTAATCCTACAAGAAACTCGACCTAAAAATATATACATATATACA TATATATATATATATATATATATAAGTGTATGTGTTCCATATAAAATAATAATACTTTAATTTAT TACTTGAATATGCAAAGAACAAAAAGAAATTAAATACAACAGATTGGAATACCTTAATATATATC TAGTTGTTTTTATATGTATATATTTGTCTAAATTATTTATTGTTG Right flanking sequence: Indices 276203 -- 276702 AAACTTGTTATTAAATAACATTGGTTTCTCTCAAGCTTTGTATCATATTTTTTATCTATTTCGTA GCTTGCTAAATTTTCTCCTTTTTCATGTACTTCCATTATTTTCATAACAAAAAAAAAACAAAACA AAACAAAACAAAAAGAAAAAGAAAAAGAAGAGAAAATATAAACACAAAAAAAAAAAATAAAAATA AAAATAAAAATATATATTAGTATTCCATTCTTAATATATGTACTAATAAACATGAAAAATTATCT GTATATTCCTTTTTTTTTTAATTTTATCTAAATATAACAGATGCTTTAAATTATGTATCAATTAT ATTCTTCATTTTTAAGTTAATGTAAAAATGAACTTTCATATTTTATTCATTAAAAAAATTATTAG TTAAAAAAAATATTAAAAAAAAAAAAAAAAAAAAAAAAGGAAGATGTATTATTAATAGTCATAAC AAGGATAATGTGTAAATCTTTATTATGTATTATACATTTATAGAG Found at i:276596 original size:16 final size:16 Alignment explanation
Indices: 276577--276618 Score: 56 Period size: 16 Copynumber: 2.6 Consensus size: 16 276567 ATTTTATTCA * 276577 TTAAAAAAATTATTAG 1 TTAAAAAAAATATTAG * 276593 TTAAAAAAAATATTAA 1 TTAAAAAAAATATTAG ** 276609 AAAAAAAAAA 1 TTAAAAAAAA 276619 AAAAAAAAAA Statistics Matches: 22, Mismatches: 4, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 16 22 1.00 ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26 Consensus pattern (16 bp): TTAAAAAAAATATTAG Left flanking sequence: Indices 276077 -- 276576 ATATGCAAAGAACAAAAAGAAATTAAATACAACAGATTGGAATACCTTAATATATATCTAGTTGT TTTTATATGTATATATTTGTCTAAATTATTTATTGTTGATAAAAAAAATATAAAAAAAATAAAAC TTGTTATTAAATAACATTGGTTTCTCTCAAGCTTTGTATCATATTTTTTATCTATTTCGTAGCTT GCTAAATTTTCTCCTTTTTCATGTACTTCCATTATTTTCATAACAAAAAAAAAACAAAACAAAAC AAAACAAAAAGAAAAAGAAAAAGAAGAGAAAATATAAACACAAAAAAAAAAAATAAAAATAAAAA TAAAAATATATATTAGTATTCCATTCTTAATATATGTACTAATAAACATGAAAAATTATCTGTAT ATTCCTTTTTTTTTTAATTTTATCTAAATATAACAGATGCTTTAAATTATGTATCAATTATATTC TTCATTTTTAAGTTAATGTAAAAATGAACTTTCATATTTTATTCA Right flanking sequence: Indices 276619 -- 277118 AAAAAAAAAAAAGGAAGATGTATTATTAATAGTCATAACAAGGATAATGTGTAAATCTTTATTAT GTATTATACATTTATAGAGAAATATAATAAGTAGTTCTTTATTCCACCTCTTTTAAGCAAAAATA TATACACATATATATACATATATATATATATATATATTTATATGATGGGACAAAATATTATATAC AGTTTAATAAAAATTGTATTTCTTTTTTTTTTTTTAAATGCTAATATATATATTTTACCAATGTA ACTATTCTTATAATATTGCTAAAAAAAAAAAAAAAACTTTTAGACTCCCAAATTTAAAAGGTTAA TTATTATTTTTAAAATATTAAAATAATAATAAATAAAAAATTATTATTATTATTATTATAAAAAG TTAATGATATTTTAATAATATAATATTTCAAAAAAAAATACAAATAAAATAAAATGAAATTAAGG TAGTAACATAGTAATTCATATTAACAAACAAGGAGAAAATTTTAA Found at i:277068 original size:10 final size:11 Alignment explanation
Indices: 277039--277068 Score: 39 Period size: 11 Copynumber: 2.8 Consensus size: 11 277029 TAATATTTCA * 277039 AAAAAAAATAC 1 AAATAAAATAC 277050 AAATAAAATA- 1 AAATAAAATAC * 277060 AAATGAAAT 1 AAATAAAAT 277069 TAAGGTAGTA Statistics Matches: 17, Mismatches: 2, Indels: 1 0.85 0.10 0.05 Matches are distributed among these distances: 10 8 0.47 11 9 0.53 ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17 Consensus pattern (11 bp): AAATAAAATAC Left flanking sequence: Indices 276539 -- 277038 TTAAGTTAATGTAAAAATGAACTTTCATATTTTATTCATTAAAAAAATTATTAGTTAAAAAAAAT ATTAAAAAAAAAAAAAAAAAAAAAAAAGGAAGATGTATTATTAATAGTCATAACAAGGATAATGT GTAAATCTTTATTATGTATTATACATTTATAGAGAAATATAATAAGTAGTTCTTTATTCCACCTC TTTTAAGCAAAAATATATACACATATATATACATATATATATATATATATATTTATATGATGGGA CAAAATATTATATACAGTTTAATAAAAATTGTATTTCTTTTTTTTTTTTTAAATGCTAATATATA TATTTTACCAATGTAACTATTCTTATAATATTGCTAAAAAAAAAAAAAAAACTTTTAGACTCCCA AATTTAAAAGGTTAATTATTATTTTTAAAATATTAAAATAATAATAAATAAAAAATTATTATTAT TATTATTATAAAAAGTTAATGATATTTTAATAATATAATATTTCA Right flanking sequence: Indices 277069 -- 277568 TAAGGTAGTAACATAGTAATTCATATTAACAAACAAGGAGAAAATTTTAATTTTTAAAATTTAAT TCCTTTTAAAAAAAGGTGTATACAAAAATAGTTACACAAAAAAGTTGTATATAAAAAAAAAAGAA AAGAAAAGAAAATTATTAAAAGTAAATTTATTATTATATACATATTATACGGAAAAACATATATA AAAAATTATAGCTTAAAAAAAAAATTAAATTAAAAACAAAAAGAAATGAAAACGTTTTTAATATA AAAAAAAAAATTAATTTTTTTTTTAGAATTTTGGATTACATTTATTAAAAGGATATATAATATAT CATCTCAATTAGATTCATTCTAATAAAAAAAAAAAAAAAATAAAATAAAATAAATAAATAATATA TTTAAACATTTAAAAATAAAAATACATATATATGTGTATATATTTATTTATCTATTTTAATTTTT GCCTACATTCAAATTGAGCTTAACATTCTCTCCAGGTTGAAAAGC Found at i:277174 original size:13 final size:12 Alignment explanation
Indices: 277154--277179 Score: 36 Period size: 13 Copynumber: 2.1 Consensus size: 12 277144 AAAAGGTGTA * 277154 TACAAAAATAGT 1 TACAAAAAAAGT 277166 TACACAAAAAAGT 1 TACA-AAAAAAGT 277179 T 1 T 277180 GTATATAAAA Statistics Matches: 12, Mismatches: 1, Indels: 1 0.86 0.07 0.07 Matches are distributed among these distances: 12 4 0.33 13 8 0.67 ACGTcount: A:0.58, C:0.12, G:0.08, T:0.23 Consensus pattern (12 bp): TACAAAAAAAGT Left flanking sequence: Indices 276654 -- 277153 TAACAAGGATAATGTGTAAATCTTTATTATGTATTATACATTTATAGAGAAATATAATAAGTAGT TCTTTATTCCACCTCTTTTAAGCAAAAATATATACACATATATATACATATATATATATATATAT ATTTATATGATGGGACAAAATATTATATACAGTTTAATAAAAATTGTATTTCTTTTTTTTTTTTT AAATGCTAATATATATATTTTACCAATGTAACTATTCTTATAATATTGCTAAAAAAAAAAAAAAA ACTTTTAGACTCCCAAATTTAAAAGGTTAATTATTATTTTTAAAATATTAAAATAATAATAAATA AAAAATTATTATTATTATTATTATAAAAAGTTAATGATATTTTAATAATATAATATTTCAAAAAA AAATACAAATAAAATAAAATGAAATTAAGGTAGTAACATAGTAATTCATATTAACAAACAAGGAG AAAATTTTAATTTTTAAAATTTAATTCCTTTTAAAAAAAGGTGTA Right flanking sequence: Indices 277180 -- 277679 GTATATAAAAAAAAAAGAAAAGAAAAGAAAATTATTAAAAGTAAATTTATTATTATATACATATT ATACGGAAAAACATATATAAAAAATTATAGCTTAAAAAAAAAATTAAATTAAAAACAAAAAGAAA TGAAAACGTTTTTAATATAAAAAAAAAAATTAATTTTTTTTTTAGAATTTTGGATTACATTTATT AAAAGGATATATAATATATCATCTCAATTAGATTCATTCTAATAAAAAAAAAAAAAAAATAAAAT AAAATAAATAAATAATATATTTAAACATTTAAAAATAAAAATACATATATATGTGTATATATTTA TTTATCTATTTTAATTTTTGCCTACATTCAAATTGAGCTTAACATTCTCTCCAGGTTGAAAAGCA GGAAGACCTAATATACCAAAAAAAAAAAAAAAAAAATATATATCATATATGTATACATAAATATA TAATACTTTAATATAACTAATATTTACATATATATTAAACAAACT Found at i:277189 original size:15 final size:14 Alignment explanation
Indices: 277143--277191 Score: 52 Period size: 14 Copynumber: 3.4 Consensus size: 14 277133 TTCCTTTTAA * 277143 AAAAAGGTGTATAC 1 AAAAAAGTGTATAC * 277157 AAAAATAGT-TACAC 1 AAAAA-AGTGTATAC * 277171 AAAAAAGTTGTATAT 1 AAAAAAG-TGTATAC 277186 AAAAAA 1 AAAAAA 277192 AAAAGAAAAG Statistics Matches: 28, Mismatches: 4, Indels: 5 0.76 0.11 0.14 Matches are distributed among these distances: 13 2 0.07 14 15 0.54 15 11 0.39 ACGTcount: A:0.59, C:0.06, G:0.12, T:0.22 Consensus pattern (14 bp): AAAAAAGTGTATAC Left flanking sequence: Indices 276643 -- 277142 ATTAATAGTCATAACAAGGATAATGTGTAAATCTTTATTATGTATTATACATTTATAGAGAAATA TAATAAGTAGTTCTTTATTCCACCTCTTTTAAGCAAAAATATATACACATATATATACATATATA TATATATATATATTTATATGATGGGACAAAATATTATATACAGTTTAATAAAAATTGTATTTCTT TTTTTTTTTTTAAATGCTAATATATATATTTTACCAATGTAACTATTCTTATAATATTGCTAAAA AAAAAAAAAAAACTTTTAGACTCCCAAATTTAAAAGGTTAATTATTATTTTTAAAATATTAAAAT AATAATAAATAAAAAATTATTATTATTATTATTATAAAAAGTTAATGATATTTTAATAATATAAT ATTTCAAAAAAAAATACAAATAAAATAAAATGAAATTAAGGTAGTAACATAGTAATTCATATTAA CAAACAAGGAGAAAATTTTAATTTTTAAAATTTAATTCCTTTTAA Right flanking sequence: Indices 277192 -- 277691 AAAAGAAAAGAAAAGAAAATTATTAAAAGTAAATTTATTATTATATACATATTATACGGAAAAAC ATATATAAAAAATTATAGCTTAAAAAAAAAATTAAATTAAAAACAAAAAGAAATGAAAACGTTTT TAATATAAAAAAAAAAATTAATTTTTTTTTTAGAATTTTGGATTACATTTATTAAAAGGATATAT AATATATCATCTCAATTAGATTCATTCTAATAAAAAAAAAAAAAAAATAAAATAAAATAAATAAA TAATATATTTAAACATTTAAAAATAAAAATACATATATATGTGTATATATTTATTTATCTATTTT AATTTTTGCCTACATTCAAATTGAGCTTAACATTCTCTCCAGGTTGAAAAGCAGGAAGACCTAAT ATACCAAAAAAAAAAAAAAAAAAATATATATCATATATGTATACATAAATATATAATACTTTAAT ATAACTAATATTTACATATATATTAAACAAACTAACCTTTATAAG Found at i:277219 original size:14 final size:15 Alignment explanation
Indices: 277202--277231 Score: 46 Period size: 15 Copynumber: 2.1 Consensus size: 15 277192 AAAAGAAAAG 277202 AAAAG-AAAATTATT 1 AAAAGTAAAATTATT * 277216 AAAAGTAAATTTATT 1 AAAAGTAAAATTATT 277231 A 1 A 277232 TTATATACAT Statistics Matches: 14, Mismatches: 1, Indels: 1 0.88 0.06 0.06 Matches are distributed among these distances: 14 5 0.36 15 9 0.64 ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33 Consensus pattern (15 bp): AAAAGTAAAATTATT Left flanking sequence: Indices 276702 -- 277201 GAAATATAATAAGTAGTTCTTTATTCCACCTCTTTTAAGCAAAAATATATACACATATATATACA TATATATATATATATATATTTATATGATGGGACAAAATATTATATACAGTTTAATAAAAATTGTA TTTCTTTTTTTTTTTTTAAATGCTAATATATATATTTTACCAATGTAACTATTCTTATAATATTG CTAAAAAAAAAAAAAAAACTTTTAGACTCCCAAATTTAAAAGGTTAATTATTATTTTTAAAATAT TAAAATAATAATAAATAAAAAATTATTATTATTATTATTATAAAAAGTTAATGATATTTTAATAA TATAATATTTCAAAAAAAAATACAAATAAAATAAAATGAAATTAAGGTAGTAACATAGTAATTCA TATTAACAAACAAGGAGAAAATTTTAATTTTTAAAATTTAATTCCTTTTAAAAAAAGGTGTATAC AAAAATAGTTACACAAAAAAGTTGTATATAAAAAAAAAAGAAAAG Right flanking sequence: Indices 277232 -- 277731 TTATATACATATTATACGGAAAAACATATATAAAAAATTATAGCTTAAAAAAAAAATTAAATTAA AAACAAAAAGAAATGAAAACGTTTTTAATATAAAAAAAAAAATTAATTTTTTTTTTAGAATTTTG GATTACATTTATTAAAAGGATATATAATATATCATCTCAATTAGATTCATTCTAATAAAAAAAAA AAAAAAATAAAATAAAATAAATAAATAATATATTTAAACATTTAAAAATAAAAATACATATATAT GTGTATATATTTATTTATCTATTTTAATTTTTGCCTACATTCAAATTGAGCTTAACATTCTCTCC AGGTTGAAAAGCAGGAAGACCTAATATACCAAAAAAAAAAAAAAAAAAATATATATCATATATGT ATACATAAATATATAATACTTTAATATAACTAATATTTACATATATATTAAACAAACTAACCTTT ATAAGGACAAGAGGCACAACGGAATGCATCACCCAAATAACACTA Found at i:277296 original size:17 final size:17 Alignment explanation
Indices: 277263--277315 Score: 53 Period size: 17 Copynumber: 3.0 Consensus size: 17 277253 AAACATATAT * 277263 AAAAAATTATAGCTTAAAA 1 AAAAAATTA-A-ATTAAAA 277282 AAAAAATTAAATTAAAA 1 AAAAAATTAAATTAAAA * ** * 277299 ACAAAAAGAAATGAAAA 1 AAAAAATTAAATTAAAA 277316 CGTTTTTAAT Statistics Matches: 29, Mismatches: 5, Indels: 2 0.81 0.14 0.06 Matches are distributed among these distances: 17 19 0.66 18 1 0.03 19 9 0.31 ACGTcount: A:0.72, C:0.04, G:0.06, T:0.19 Consensus pattern (17 bp): AAAAAATTAAATTAAAA Left flanking sequence: Indices 276763 -- 277262 TACATATATATATATATATATATTTATATGATGGGACAAAATATTATATACAGTTTAATAAAAAT TGTATTTCTTTTTTTTTTTTTAAATGCTAATATATATATTTTACCAATGTAACTATTCTTATAAT ATTGCTAAAAAAAAAAAAAAAACTTTTAGACTCCCAAATTTAAAAGGTTAATTATTATTTTTAAA ATATTAAAATAATAATAAATAAAAAATTATTATTATTATTATTATAAAAAGTTAATGATATTTTA ATAATATAATATTTCAAAAAAAAATACAAATAAAATAAAATGAAATTAAGGTAGTAACATAGTAA TTCATATTAACAAACAAGGAGAAAATTTTAATTTTTAAAATTTAATTCCTTTTAAAAAAAGGTGT ATACAAAAATAGTTACACAAAAAAGTTGTATATAAAAAAAAAAGAAAAGAAAAGAAAATTATTAA AAGTAAATTTATTATTATATACATATTATACGGAAAAACATATAT Right flanking sequence: Indices 277316 -- 277815 CGTTTTTAATATAAAAAAAAAAATTAATTTTTTTTTTAGAATTTTGGATTACATTTATTAAAAGG ATATATAATATATCATCTCAATTAGATTCATTCTAATAAAAAAAAAAAAAAAATAAAATAAAATA AATAAATAATATATTTAAACATTTAAAAATAAAAATACATATATATGTGTATATATTTATTTATC TATTTTAATTTTTGCCTACATTCAAATTGAGCTTAACATTCTCTCCAGGTTGAAAAGCAGGAAGA CCTAATATACCAAAAAAAAAAAAAAAAAAATATATATCATATATGTATACATAAATATATAATAC TTTAATATAACTAATATTTACATATATATTAAACAAACTAACCTTTATAAGGACAAGAGGCACAA CGGAATGCATCACCCAAATAACACTAAAAATATTAAATAAATAAATATATATATATATATTATGA ATAATTATAAAGTGGAATACACAGATAAAATAACAGTTCTTTTTT Found at i:277443 original size:14 final size:14 Alignment explanation
Indices: 277421--277451 Score: 48 Period size: 14 Copynumber: 2.2 Consensus size: 14 277411 TTCTAATAAA 277421 AAAAAAAAAAAAAT 1 AAAAAAAAAAAAAT * * 277435 AAAATAAAATAAAT 1 AAAAAAAAAAAAAT 277449 AAA 1 AAA 277452 TAATATATTT Statistics Matches: 15, Mismatches: 2, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 14 15 1.00 ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13 Consensus pattern (14 bp): AAAAAAAAAAAAAT Left flanking sequence: Indices 276921 -- 277420 GACTCCCAAATTTAAAAGGTTAATTATTATTTTTAAAATATTAAAATAATAATAAATAAAAAATT ATTATTATTATTATTATAAAAAGTTAATGATATTTTAATAATATAATATTTCAAAAAAAAATACA AATAAAATAAAATGAAATTAAGGTAGTAACATAGTAATTCATATTAACAAACAAGGAGAAAATTT TAATTTTTAAAATTTAATTCCTTTTAAAAAAAGGTGTATACAAAAATAGTTACACAAAAAAGTTG TATATAAAAAAAAAAGAAAAGAAAAGAAAATTATTAAAAGTAAATTTATTATTATATACATATTA TACGGAAAAACATATATAAAAAATTATAGCTTAAAAAAAAAATTAAATTAAAAACAAAAAGAAAT GAAAACGTTTTTAATATAAAAAAAAAAATTAATTTTTTTTTTAGAATTTTGGATTACATTTATTA AAAGGATATATAATATATCATCTCAATTAGATTCATTCTAATAAA Right flanking sequence: Indices 277452 -- 277951 TAATATATTTAAACATTTAAAAATAAAAATACATATATATGTGTATATATTTATTTATCTATTTT AATTTTTGCCTACATTCAAATTGAGCTTAACATTCTCTCCAGGTTGAAAAGCAGGAAGACCTAAT ATACCAAAAAAAAAAAAAAAAAAATATATATCATATATGTATACATAAATATATAATACTTTAAT ATAACTAATATTTACATATATATTAAACAAACTAACCTTTATAAGGACAAGAGGCACAACGGAAT GCATCACCCAAATAACACTAAAAATATTAAATAAATAAATATATATATATATATTATGAATAATT ATAAAGTGGAATACACAGATAAAATAACAGTTCTTTTTTTTTTTTTTTTTTTTGGAATAATATAT AAATAAATGAAAATATATCTATATACACAGATGATATATATATATTACATTTCCACATGAGGATA CTACATTTTCTGTAATGTATTCTCCATCTTTTTCATTTATTAAAA i:277464 original size:13 final size:13 Alignment explanation
Indices: 277415--277458 Score: 51 Period size: 13 Copynumber: 3.3 Consensus size: 13 277405 GATTCATTCT * * 277415 AATAAAAAAAAAA 1 AATAAATAAATAA * 277428 AAAAAATAAAATAA 1 AATAAAT-AAATAA 277442 AATAAATAAATAA 1 AATAAATAAATAA * 277455 TATA 1 AATA 277459 TTTAAACATT Statistics Matches: 25, Mismatches: 5, Indels: 2 0.78 0.16 0.06 Matches are distributed among these distances: 13 14 0.56 14 11 0.44 ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18 Consensus pattern (13 bp): AATAAATAAATAA Left flanking sequence: Indices 276915 -- 277414 CTTTTAGACTCCCAAATTTAAAAGGTTAATTATTATTTTTAAAATATTAAAATAATAATAAATAA AAAATTATTATTATTATTATTATAAAAAGTTAATGATATTTTAATAATATAATATTTCAAAAAAA AATACAAATAAAATAAAATGAAATTAAGGTAGTAACATAGTAATTCATATTAACAAACAAGGAGA AAATTTTAATTTTTAAAATTTAATTCCTTTTAAAAAAAGGTGTATACAAAAATAGTTACACAAAA AAGTTGTATATAAAAAAAAAAGAAAAGAAAAGAAAATTATTAAAAGTAAATTTATTATTATATAC ATATTATACGGAAAAACATATATAAAAAATTATAGCTTAAAAAAAAAATTAAATTAAAAACAAAA AGAAATGAAAACGTTTTTAATATAAAAAAAAAAATTAATTTTTTTTTTAGAATTTTGGATTACAT TTATTAAAAGGATATATAATATATCATCTCAATTAGATTCATTCT Right flanking sequence: Indices 277459 -- 277958 TTTAAACATTTAAAAATAAAAATACATATATATGTGTATATATTTATTTATCTATTTTAATTTTT GCCTACATTCAAATTGAGCTTAACATTCTCTCCAGGTTGAAAAGCAGGAAGACCTAATATACCAA AAAAAAAAAAAAAAAAATATATATCATATATGTATACATAAATATATAATACTTTAATATAACTA ATATTTACATATATATTAAACAAACTAACCTTTATAAGGACAAGAGGCACAACGGAATGCATCAC CCAAATAACACTAAAAATATTAAATAAATAAATATATATATATATATTATGAATAATTATAAAGT GGAATACACAGATAAAATAACAGTTCTTTTTTTTTTTTTTTTTTTTGGAATAATATATAAATAAA TGAAAATATATCTATATACACAGATGATATATATATATTACATTTCCACATGAGGATACTACATT TTCTGTAATGTATTCTCCATCTTTTTCATTTATTAAAACTTTATT Found at i:278919 original size:21 final size:21 Alignment explanation
Indices: 278887--278938 Score: 67 Period size: 21 Copynumber: 2.4 Consensus size: 21 278877 TTCAAATGAA * 278887 AAAAAAAAAAAAAAAAAAATT 1 AAATAAAAAAAAAAAAAAATT * * 278908 AAATAAATAAAAATAAAAATT 1 AAATAAAAAAAAAAAAAAATT * 278929 ATAATATAAA 1 A-AATAAAAA 278939 TATATTTATT Statistics Matches: 25, Mismatches: 5, Indels: 1 0.81 0.16 0.03 Matches are distributed among these distances: 21 19 0.76 22 6 0.24 ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19 Consensus pattern (21 bp): AAATAAAAAAAAAAAAAAATT Left flanking sequence: Indices 278387 -- 278886 ATAATCTTTTTGATCTATATTGACTTTTATGTCGTTATTATTTTTATTTTCATGTTTATCCGGTG TTATAACGTCATTTTTATTTAAATAAATTATTAATTTTAATATACCATTTTTATTTAAACATTTC TGTACCTTATGAAGAATATTATTTTCTAATTCCCACAAAAAAGAGTAATTCTTATAAGTATATAA AAAGATGTTGTTGTATTTTCGGTATAATCTTTTTTTTTTAAAATCTAATACACTTATAGTTGGTA CAAATAACTCCTTATACTTCTTTCTTAACAAATCACACGGAATATCTTCATTAAATATTATTAAT GTATTCCCTACAAAGTTAATTATCATTTTTTCAAGTTCTTTTACTTTTTAATATTTAGCAGCATA AATATATATATATATATATAATATATATTTTTTTGTTTTTAATTTTTAAAACTTAGAAGGTACAT ATAACTTCAAATTATTACAATTTTATTCATATTTTTTCAAATGAA Right flanking sequence: Indices 278939 -- 279438 TATATTTATTCAAAAACGAATATATATTTATACATATATATATAATATATATATATATATCTTCA TCGAACCGTTATAATTTAATTTATAATATTTATTTTTAATCTTTCATATGATCATCAAAAATTTA TAATATCAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAATCCATATAATATTTATATTTCCAA AGATATATATTTATGTATACTTATATAATGTATTTTACAATATATATAATATATATATATATATA TATATATAATTATATTTATACGTGGTATATATAATATATGGATAAAAGAAAAGCAGGGGTATTCA TACCATTATATTTTATATTAAATATTTAAATGAGCCGGAAAAAAATATTGAAGTTTTATATAATT ATAAAGTGTAATCATAAAGTATCATATTTATTATTATTTCTTTCAATTTTTTTTTTAAATGAATT CTTCAAAGTATTATTTTATTAATTTTTTTCTTTTTCATTTATTTA Found at i:279043 original size:13 final size:14 Alignment explanation
Indices: 279017--279047 Score: 41 Period size: 13 Copynumber: 2.3 Consensus size: 14 279007 AACCGTTATA 279017 ATTTAATTTATAAT 1 ATTTAATTTATAAT * 279031 ATTT-ATTTTTAAT 1 ATTTAATTTATAAT * 279044 CTTT 1 ATTT 279048 CATATGATCA Statistics Matches: 15, Mismatches: 2, Indels: 1 0.83 0.11 0.06 Matches are distributed among these distances: 13 11 0.73 14 4 0.27 ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65 Consensus pattern (14 bp): ATTTAATTTATAAT Left flanking sequence: Indices 278517 -- 279016 TGTACCTTATGAAGAATATTATTTTCTAATTCCCACAAAAAAGAGTAATTCTTATAAGTATATAA AAAGATGTTGTTGTATTTTCGGTATAATCTTTTTTTTTTAAAATCTAATACACTTATAGTTGGTA CAAATAACTCCTTATACTTCTTTCTTAACAAATCACACGGAATATCTTCATTAAATATTATTAAT GTATTCCCTACAAAGTTAATTATCATTTTTTCAAGTTCTTTTACTTTTTAATATTTAGCAGCATA AATATATATATATATATATAATATATATTTTTTTGTTTTTAATTTTTAAAACTTAGAAGGTACAT ATAACTTCAAATTATTACAATTTTATTCATATTTTTTCAAATGAAAAAAAAAAAAAAAAAAAAAT TAAATAAATAAAAATAAAAATTATAATATAAATATATTTATTCAAAAACGAATATATATTTATAC ATATATATATAATATATATATATATATCTTCATCGAACCGTTATA Right flanking sequence: Indices 279048 -- 279547 CATATGATCATCAAAAATTTATAATATCAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAATCC ATATAATATTTATATTTCCAAAGATATATATTTATGTATACTTATATAATGTATTTTACAATATA TATAATATATATATATATATATATATATAATTATATTTATACGTGGTATATATAATATATGGATA AAAGAAAAGCAGGGGTATTCATACCATTATATTTTATATTAAATATTTAAATGAGCCGGAAAAAA ATATTGAAGTTTTATATAATTATAAAGTGTAATCATAAAGTATCATATTTATTATTATTTCTTTC AATTTTTTTTTTAAATGAATTCTTCAAAGTATTATTTTATTAATTTTTTTCTTTTTCATTTATTT ATTTTTTTTTTATAAATAAGAATTTCATTCTTTATGAATATTTTATTATAAACATAACAAATAAA TTAAGTTTAAAAAAAAGGAAAAAGAAAAAAATATTACATATATAT Found at i:279181 original size:21 final size:23 Alignment explanation
Indices: 279155--279237 Score: 76 Period size: 23 Copynumber: 3.5 Consensus size: 23 279145 TATGTATACT * * 279155 TATATAATGTAT-TTTACAATATA 1 TATATAATATATATATAC-ATATA ** * 279178 TATAATATATATATATATATATA 1 TATATAATATATATATACATATA * * * 279201 TATATAATTATATTTATACGTGGTA 1 TATATAA-TATATATATACAT-ATA 279226 TATATAATATAT 1 TATATAATATAT 279238 GGATAAAAGA Statistics Matches: 46, Mismatches: 11, Indels: 5 0.74 0.18 0.08 Matches are distributed among these distances: 23 19 0.41 24 18 0.39 25 9 0.20 ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48 Consensus pattern (23 bp): TATATAATATATATATACATATA Left flanking sequence: Indices 278655 -- 279154 TCCTTATACTTCTTTCTTAACAAATCACACGGAATATCTTCATTAAATATTATTAATGTATTCCC TACAAAGTTAATTATCATTTTTTCAAGTTCTTTTACTTTTTAATATTTAGCAGCATAAATATATA TATATATATATAATATATATTTTTTTGTTTTTAATTTTTAAAACTTAGAAGGTACATATAACTTC AAATTATTACAATTTTATTCATATTTTTTCAAATGAAAAAAAAAAAAAAAAAAAAATTAAATAAA TAAAAATAAAAATTATAATATAAATATATTTATTCAAAAACGAATATATATTTATACATATATAT ATAATATATATATATATATCTTCATCGAACCGTTATAATTTAATTTATAATATTTATTTTTAATC TTTCATATGATCATCAAAAATTTATAATATCAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAA TCCATATAATATTTATATTTCCAAAGATATATATTTATGTATACT Right flanking sequence: Indices 279238 -- 279737 GGATAAAAGAAAAGCAGGGGTATTCATACCATTATATTTTATATTAAATATTTAAATGAGCCGGA AAAAAATATTGAAGTTTTATATAATTATAAAGTGTAATCATAAAGTATCATATTTATTATTATTT CTTTCAATTTTTTTTTTAAATGAATTCTTCAAAGTATTATTTTATTAATTTTTTTCTTTTTCATT TATTTATTTTTTTTTTATAAATAAGAATTTCATTCTTTATGAATATTTTATTATAAACATAACAA ATAAATTAAGTTTAAAAAAAAGGAAAAAGAAAAAAATATTACATATATATATATATATATATATA TATAATATAATATACATATATTACATAAATTTTTTTAAAATATAAAAAATAAAATATTGAAAATA TAACAAATAATGAATGAACAAATAATTAAATAACAAATAATAAATTAACACAAATAATAAAATAA CAAATAAAAAATTAACAAAAAATTAAAAAATAGACAAAAAAAAAA Found at i:279188 original size:46 final size:49 Alignment explanation
Indices: 279136--279237 Score: 125 Period size: 46 Copynumber: 2.1 Consensus size: 49 279126 ATTTCCAAAG * * * * 279136 ATATATATTTATGTATACTTATATAA-TGTATTT-TAC-AATATATATA 1 ATATATATATATATATACATATATAATTATATTTATACGAATATATATA * ** 279182 ATATATATATATATATATATATATAATTATATTTATACGTGGTATATATA 1 ATATATATATATATATACATATATAATTATATTTATACG-AATATATATA 279232 ATATAT 1 ATATAT 279238 GGATAAAAGA Statistics Matches: 45, Mismatches: 7, Indels: 4 0.80 0.12 0.07 Matches are distributed among these distances: 46 22 0.49 47 6 0.13 48 3 0.07 50 14 0.31 ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49 Consensus pattern (49 bp): ATATATATATATATATACATATATAATTATATTTATACGAATATATATA Left flanking sequence: Indices 278636 -- 279135 TATAGTTGGTACAAATAACTCCTTATACTTCTTTCTTAACAAATCACACGGAATATCTTCATTAA ATATTATTAATGTATTCCCTACAAAGTTAATTATCATTTTTTCAAGTTCTTTTACTTTTTAATAT TTAGCAGCATAAATATATATATATATATATAATATATATTTTTTTGTTTTTAATTTTTAAAACTT AGAAGGTACATATAACTTCAAATTATTACAATTTTATTCATATTTTTTCAAATGAAAAAAAAAAA AAAAAAAAAATTAAATAAATAAAAATAAAAATTATAATATAAATATATTTATTCAAAAACGAATA TATATTTATACATATATATATAATATATATATATATATCTTCATCGAACCGTTATAATTTAATTT ATAATATTTATTTTTAATCTTTCATATGATCATCAAAAATTTATAATATCAAATTAAAAAAAAAA AAAAAAAAAAAAAAAAAAATCCATATAATATTTATATTTCCAAAG Right flanking sequence: Indices 279238 -- 279737 GGATAAAAGAAAAGCAGGGGTATTCATACCATTATATTTTATATTAAATATTTAAATGAGCCGGA AAAAAATATTGAAGTTTTATATAATTATAAAGTGTAATCATAAAGTATCATATTTATTATTATTT CTTTCAATTTTTTTTTTAAATGAATTCTTCAAAGTATTATTTTATTAATTTTTTTCTTTTTCATT TATTTATTTTTTTTTTATAAATAAGAATTTCATTCTTTATGAATATTTTATTATAAACATAACAA ATAAATTAAGTTTAAAAAAAAGGAAAAAGAAAAAAATATTACATATATATATATATATATATATA TATAATATAATATACATATATTACATAAATTTTTTTAAAATATAAAAAATAAAATATTGAAAATA TAACAAATAATGAATGAACAAATAATTAAATAACAAATAATAAATTAACACAAATAATAAAATAA CAAATAAAAAATTAACAAAAAATTAAAAAATAGACAAAAAAAAAA Found at i:279446 original size:19 final size:19 Alignment explanation
Indices: 279407--279447 Score: 54 Period size: 19 Copynumber: 2.2 Consensus size: 19 279397 CAAAGTATTA * * 279407 TTTTATTAATTTTTTTCTT 1 TTTCATTAATTTATTTCTT * * 279426 TTTCATTTATTTATTTTTT 1 TTTCATTAATTTATTTCTT 279445 TTT 1 TTT 279448 TATAAATAAG Statistics Matches: 18, Mismatches: 4, Indels: 0 0.82 0.18 0.00 Matches are distributed among these distances: 19 18 1.00 ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80 Consensus pattern (19 bp): TTTCATTAATTTATTTCTT Left flanking sequence: Indices 278907 -- 279406 TAAATAAATAAAAATAAAAATTATAATATAAATATATTTATTCAAAAACGAATATATATTTATAC ATATATATATAATATATATATATATATCTTCATCGAACCGTTATAATTTAATTTATAATATTTAT TTTTAATCTTTCATATGATCATCAAAAATTTATAATATCAAATTAAAAAAAAAAAAAAAAAAAAA AAAAAAAATCCATATAATATTTATATTTCCAAAGATATATATTTATGTATACTTATATAATGTAT TTTACAATATATATAATATATATATATATATATATATATAATTATATTTATACGTGGTATATATA ATATATGGATAAAAGAAAAGCAGGGGTATTCATACCATTATATTTTATATTAAATATTTAAATGA GCCGGAAAAAAATATTGAAGTTTTATATAATTATAAAGTGTAATCATAAAGTATCATATTTATTA TTATTTCTTTCAATTTTTTTTTTAAATGAATTCTTCAAAGTATTA Right flanking sequence: Indices 279448 -- 279947 TATAAATAAGAATTTCATTCTTTATGAATATTTTATTATAAACATAACAAATAAATTAAGTTTAA AAAAAAGGAAAAAGAAAAAAATATTACATATATATATATATATATATATATATAATATAATATAC ATATATTACATAAATTTTTTTAAAATATAAAAAATAAAATATTGAAAATATAACAAATAATGAAT GAACAAATAATTAAATAACAAATAATAAATTAACACAAATAATAAAATAACAAATAAAAAATTAA CAAAAAATTAAAAAATAGACAAAAAAAAAAAAATAAAATAAAATAAAATTATAACTTTATATGAA CATAATTATCCTTTTCGTATTTAATAAAAAAAAAAAAAAAAATTATATTTTAATTTTATTTCAAA TTATAATATTTTTTTAATAGTTGAATATCAAAATCTTCTGCATCGTCAAAGGATTCATAATGTTC ATCTTTTTCGTCTGTTTCATACATATGTTCATTTTCCATATTCAT Found at i:279590 original size:18 final size:18 Alignment explanation
Indices: 279532--279590 Score: 70 Period size: 18 Copynumber: 3.1 Consensus size: 18 279522 AAAAGAAAAA 279532 AATATTACATATATATATAT 1 AATA-TACATATAT-TATAT * * 279552 ATATATATATATATAATAT 1 A-ATATACATATATTATAT * 279571 AATATACATATATTACAT 1 AATATACATATATTATAT 279589 AA 1 AA 279591 ATTTTTTTAA Statistics Matches: 33, Mismatches: 5, Indels: 4 0.79 0.12 0.10 Matches are distributed among these distances: 18 16 0.48 19 5 0.15 20 9 0.27 21 3 0.09 ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42 Consensus pattern (18 bp): AATATACATATATTATAT Left flanking sequence: Indices 279032 -- 279531 TTTATTTTTAATCTTTCATATGATCATCAAAAATTTATAATATCAAATTAAAAAAAAAAAAAAAA AAAAAAAAAAAAATCCATATAATATTTATATTTCCAAAGATATATATTTATGTATACTTATATAA TGTATTTTACAATATATATAATATATATATATATATATATATATAATTATATTTATACGTGGTAT ATATAATATATGGATAAAAGAAAAGCAGGGGTATTCATACCATTATATTTTATATTAAATATTTA AATGAGCCGGAAAAAAATATTGAAGTTTTATATAATTATAAAGTGTAATCATAAAGTATCATATT TATTATTATTTCTTTCAATTTTTTTTTTAAATGAATTCTTCAAAGTATTATTTTATTAATTTTTT TCTTTTTCATTTATTTATTTTTTTTTTATAAATAAGAATTTCATTCTTTATGAATATTTTATTAT AAACATAACAAATAAATTAAGTTTAAAAAAAAGGAAAAAGAAAAA Right flanking sequence: Indices 279591 -- 280090 ATTTTTTTAAAATATAAAAAATAAAATATTGAAAATATAACAAATAATGAATGAACAAATAATTA AATAACAAATAATAAATTAACACAAATAATAAAATAACAAATAAAAAATTAACAAAAAATTAAAA AATAGACAAAAAAAAAAAAATAAAATAAAATAAAATTATAACTTTATATGAACATAATTATCCTT TTCGTATTTAATAAAAAAAAAAAAAAAAATTATATTTTAATTTTATTTCAAATTATAATATTTTT TTAATAGTTGAATATCAAAATCTTCTGCATCGTCAAAGGATTCATAATGTTCATCTTTTTCGTCT GTTTCATACATATGTTCATTTTCCATATTCATCATTATATTATTATCACTATTTATATTCGTTAT TTTAGTCATATAATCATTGTTATTTAAATTGTAGTCGTCTTGATAATTTATTTCTTGTTCAGTTG TCTTATTTTTTCCTTCATTAAGTATAGAAAACATAAAACTGTTCA Found at i:279649 original size:15 final size:15 Alignment explanation
Indices: 279623--279715 Score: 110 Period size: 15 Copynumber: 6.0 Consensus size: 15 279613 AAAATATTGA 279623 AAATATAACAAATAAT 1 AAAT-TAACAAATAAT * * 279639 GAATGAACAAATAAT 1 AAATTAACAAATAAT * * 279654 TAAATAACAAATAAT 1 AAATTAACAAATAAT 279669 AAATTAACACAAATAAT 1 AAATT-A-ACAAATAAT * * 279686 AAAATAACAAATAAA 1 AAATTAACAAATAAT * 279701 AAATTAACAAAAAAT 1 AAATTAACAAATAAT 279716 TAAAAAATAG Statistics Matches: 63, Mismatches: 12, Indels: 5 0.79 0.15 0.06 Matches are distributed among these distances: 15 45 0.71 16 5 0.08 17 13 0.21 ACGTcount: A:0.69, C:0.08, G:0.02, T:0.22 Consensus pattern (15 bp): AAATTAACAAATAAT Left flanking sequence: Indices 279123 -- 279622 TATATTTCCAAAGATATATATTTATGTATACTTATATAATGTATTTTACAATATATATAATATAT ATATATATATATATATATAATTATATTTATACGTGGTATATATAATATATGGATAAAAGAAAAGC AGGGGTATTCATACCATTATATTTTATATTAAATATTTAAATGAGCCGGAAAAAAATATTGAAGT TTTATATAATTATAAAGTGTAATCATAAAGTATCATATTTATTATTATTTCTTTCAATTTTTTTT TTAAATGAATTCTTCAAAGTATTATTTTATTAATTTTTTTCTTTTTCATTTATTTATTTTTTTTT TATAAATAAGAATTTCATTCTTTATGAATATTTTATTATAAACATAACAAATAAATTAAGTTTAA AAAAAAGGAAAAAGAAAAAAATATTACATATATATATATATATATATATATATAATATAATATAC ATATATTACATAAATTTTTTTAAAATATAAAAAATAAAATATTGA Right flanking sequence: Indices 279716 -- 280215 TAAAAAATAGACAAAAAAAAAAAAATAAAATAAAATAAAATTATAACTTTATATGAACATAATTA TCCTTTTCGTATTTAATAAAAAAAAAAAAAAAAATTATATTTTAATTTTATTTCAAATTATAATA TTTTTTTAATAGTTGAATATCAAAATCTTCTGCATCGTCAAAGGATTCATAATGTTCATCTTTTT CGTCTGTTTCATACATATGTTCATTTTCCATATTCATCATTATATTATTATCACTATTTATATTC GTTATTTTAGTCATATAATCATTGTTATTTAAATTGTAGTCGTCTTGATAATTTATTTCTTGTTC AGTTGTCTTATTTTTTCCTTCATTAAGTATAGAAAACATAAAACTGTTCACATTTTCTGAAGTAT CATTTTCTATGTTTCCTTTTAAATAATTTATATGATCATTATATATATGATTATTATTAAGGCAT GTTAGTTCATTACCATTAGAAGGAAAGAAATTTCCGTCCTTCTGA Found at i:279659 original size:32 final size:31 Alignment explanation
Indices: 279627--279753 Score: 122 Period size: 30 Copynumber: 4.1 Consensus size: 31 279617 TATTGAAAAT * * 279627 ATAACAAATAATGAATGAACAAATAATT-AA 1 ATAACAAATAATAAATAAACAAATAATTAAA 279657 ATAACAAATAATAAATTAACACAAATAA-TAAA 1 ATAACAAATAATAAA-TAA-ACAAATAATTAAA * * * 279689 ATAACAAATAAAAAATTAACAAAAAATTAAA 1 ATAACAAATAATAAATAAACAAATAATTAAA * * * * * * 279720 A-AATAGACAA-AAAAAAAAAAATAAAATAAA 1 ATAACAAATAATAAATAAACAAAT-AATTAAA 279750 ATAA 1 ATAA 279754 AATTATAACT Statistics Matches: 78, Mismatches: 13, Indels: 11 0.76 0.13 0.11 Matches are distributed among these distances: 29 8 0.10 30 34 0.44 31 12 0.15 32 24 0.31 ACGTcount: A:0.72, C:0.06, G:0.02, T:0.19 Consensus pattern (31 bp): ATAACAAATAATAAATAAACAAATAATTAAA Left flanking sequence: Indices 279127 -- 279626 TTTCCAAAGATATATATTTATGTATACTTATATAATGTATTTTACAATATATATAATATATATAT ATATATATATATATAATTATATTTATACGTGGTATATATAATATATGGATAAAAGAAAAGCAGGG GTATTCATACCATTATATTTTATATTAAATATTTAAATGAGCCGGAAAAAAATATTGAAGTTTTA TATAATTATAAAGTGTAATCATAAAGTATCATATTTATTATTATTTCTTTCAATTTTTTTTTTAA ATGAATTCTTCAAAGTATTATTTTATTAATTTTTTTCTTTTTCATTTATTTATTTTTTTTTTATA AATAAGAATTTCATTCTTTATGAATATTTTATTATAAACATAACAAATAAATTAAGTTTAAAAAA AAGGAAAAAGAAAAAAATATTACATATATATATATATATATATATATATAATATAATATACATAT ATTACATAAATTTTTTTAAAATATAAAAAATAAAATATTGAAAAT Right flanking sequence: Indices 279754 -- 280253 AATTATAACTTTATATGAACATAATTATCCTTTTCGTATTTAATAAAAAAAAAAAAAAAAATTAT ATTTTAATTTTATTTCAAATTATAATATTTTTTTAATAGTTGAATATCAAAATCTTCTGCATCGT CAAAGGATTCATAATGTTCATCTTTTTCGTCTGTTTCATACATATGTTCATTTTCCATATTCATC ATTATATTATTATCACTATTTATATTCGTTATTTTAGTCATATAATCATTGTTATTTAAATTGTA GTCGTCTTGATAATTTATTTCTTGTTCAGTTGTCTTATTTTTTCCTTCATTAAGTATAGAAAACA TAAAACTGTTCACATTTTCTGAAGTATCATTTTCTATGTTTCCTTTTAAATAATTTATATGATCA TTATATATATGATTATTATTAAGGCATGTTAGTTCATTACCATTAGAAGGAAAGAAATTTCCGTC CTTCTGATTTTCAATTTTCATATAATTTTCTTTCCTGTCAATTAA Found at i:279714 original size:11 final size:11 Alignment explanation
Indices: 279698--279758 Score: 52 Period size: 11 Copynumber: 5.8 Consensus size: 11 279688 AATAACAAAT * 279698 AAAAAATTAAC 1 AAAAAATTAAA 279709 AAAAAATTAAA 1 AAAAAATTAAA * *** 279720 AAATAGACAAA 1 AAAAAATTAAA 279731 AAAAAA--AAA 1 AAAAAATTAAA * 279740 ATAAAA-TAAA 1 AAAAAATTAAA * 279750 ATAAAATTA 1 AAAAAATTA 279759 TAACTTTATA Statistics Matches: 40, Mismatches: 8, Indels: 4 0.77 0.15 0.08 Matches are distributed among these distances: 9 8 0.20 10 9 0.23 11 23 0.57 ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16 Consensus pattern (11 bp): AAAAAATTAAA Left flanking sequence: Indices 279198 -- 279697 ATATATATAATTATATTTATACGTGGTATATATAATATATGGATAAAAGAAAAGCAGGGGTATTC ATACCATTATATTTTATATTAAATATTTAAATGAGCCGGAAAAAAATATTGAAGTTTTATATAAT TATAAAGTGTAATCATAAAGTATCATATTTATTATTATTTCTTTCAATTTTTTTTTTAAATGAAT TCTTCAAAGTATTATTTTATTAATTTTTTTCTTTTTCATTTATTTATTTTTTTTTTATAAATAAG AATTTCATTCTTTATGAATATTTTATTATAAACATAACAAATAAATTAAGTTTAAAAAAAAGGAA AAAGAAAAAAATATTACATATATATATATATATATATATATATAATATAATATACATATATTACA TAAATTTTTTTAAAATATAAAAAATAAAATATTGAAAATATAACAAATAATGAATGAACAAATAA TTAAATAACAAATAATAAATTAACACAAATAATAAAATAACAAAT Right flanking sequence: Indices 279759 -- 280258 TAACTTTATATGAACATAATTATCCTTTTCGTATTTAATAAAAAAAAAAAAAAAAATTATATTTT AATTTTATTTCAAATTATAATATTTTTTTAATAGTTGAATATCAAAATCTTCTGCATCGTCAAAG GATTCATAATGTTCATCTTTTTCGTCTGTTTCATACATATGTTCATTTTCCATATTCATCATTAT ATTATTATCACTATTTATATTCGTTATTTTAGTCATATAATCATTGTTATTTAAATTGTAGTCGT CTTGATAATTTATTTCTTGTTCAGTTGTCTTATTTTTTCCTTCATTAAGTATAGAAAACATAAAA CTGTTCACATTTTCTGAAGTATCATTTTCTATGTTTCCTTTTAAATAATTTATATGATCATTATA TATATGATTATTATTAAGGCATGTTAGTTCATTACCATTAGAAGGAAAGAAATTTCCGTCCTTCT GATTTTCAATTTTCATATAATTTTCTTTCCTGTCAATTAATATAT Found at i:279721 original size:19 final size:18 Alignment explanation
Indices: 279654--279755 Score: 81 Period size: 17 Copynumber: 5.9 Consensus size: 18 279644 AACAAATAAT * * * 279654 TAAATAACAAATAATAAA 1 TAAACAAAAAATAAAAAA * * 279672 TTAAC-ACAAATAATAAAA 1 TAAACAAAAAATAA-AAAA 279690 T-AAC---AAATAAAAAA 1 TAAACAAAAAATAAAAAA * 279704 TTAACAAAAAATTAAAAAA 1 TAAACAAAAAA-TAAAAAA * * 279723 TAGACAAAAAAAAAAAAA 1 TAAACAAAAAATAAAAAA * 279741 TAAA-ATAAAATAAAA 1 TAAACAAAAAATAAAA 279756 TTATAACTTT Statistics Matches: 69, Mismatches: 9, Indels: 13 0.76 0.10 0.14 Matches are distributed among these distances: 14 5 0.07 15 9 0.13 17 20 0.29 18 19 0.28 19 16 0.23 ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18 Consensus pattern (18 bp): TAAACAAAAAATAAAAAA Left flanking sequence: Indices 279154 -- 279653 TTATATAATGTATTTTACAATATATATAATATATATATATATATATATATATAATTATATTTATA CGTGGTATATATAATATATGGATAAAAGAAAAGCAGGGGTATTCATACCATTATATTTTATATTA AATATTTAAATGAGCCGGAAAAAAATATTGAAGTTTTATATAATTATAAAGTGTAATCATAAAGT ATCATATTTATTATTATTTCTTTCAATTTTTTTTTTAAATGAATTCTTCAAAGTATTATTTTATT AATTTTTTTCTTTTTCATTTATTTATTTTTTTTTTATAAATAAGAATTTCATTCTTTATGAATAT TTTATTATAAACATAACAAATAAATTAAGTTTAAAAAAAAGGAAAAAGAAAAAAATATTACATAT ATATATATATATATATATATATAATATAATATACATATATTACATAAATTTTTTTAAAATATAAA AAATAAAATATTGAAAATATAACAAATAATGAATGAACAAATAAT Right flanking sequence: Indices 279756 -- 280255 TTATAACTTTATATGAACATAATTATCCTTTTCGTATTTAATAAAAAAAAAAAAAAAAATTATAT TTTAATTTTATTTCAAATTATAATATTTTTTTAATAGTTGAATATCAAAATCTTCTGCATCGTCA AAGGATTCATAATGTTCATCTTTTTCGTCTGTTTCATACATATGTTCATTTTCCATATTCATCAT TATATTATTATCACTATTTATATTCGTTATTTTAGTCATATAATCATTGTTATTTAAATTGTAGT CGTCTTGATAATTTATTTCTTGTTCAGTTGTCTTATTTTTTCCTTCATTAAGTATAGAAAACATA AAACTGTTCACATTTTCTGAAGTATCATTTTCTATGTTTCCTTTTAAATAATTTATATGATCATT ATATATATGATTATTATTAAGGCATGTTAGTTCATTACCATTAGAAGGAAAGAAATTTCCGTCCT TCTGATTTTCAATTTTCATATAATTTTCTTTCCTGTCAATTAATA Found at i:279827 original size:11 final size:12 Alignment explanation
Indices: 279812--279842 Score: 41 Period size: 11 Copynumber: 2.7 Consensus size: 12 279802 AAAAAAAAAA 279812 AAATTATATTT- 1 AAATTATATTTC * * 279823 TAATTTTATTTC 1 AAATTATATTTC 279835 AAATTATA 1 AAATTATA 279843 ATATTTTTTT Statistics Matches: 15, Mismatches: 4, Indels: 1 0.75 0.20 0.05 Matches are distributed among these distances: 11 9 0.60 12 6 0.40 ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55 Consensus pattern (12 bp): AAATTATATTTC Left flanking sequence: Indices 279312 -- 279811 TGAAGTTTTATATAATTATAAAGTGTAATCATAAAGTATCATATTTATTATTATTTCTTTCAATT TTTTTTTTAAATGAATTCTTCAAAGTATTATTTTATTAATTTTTTTCTTTTTCATTTATTTATTT TTTTTTTATAAATAAGAATTTCATTCTTTATGAATATTTTATTATAAACATAACAAATAAATTAA GTTTAAAAAAAAGGAAAAAGAAAAAAATATTACATATATATATATATATATATATATATAATATA ATATACATATATTACATAAATTTTTTTAAAATATAAAAAATAAAATATTGAAAATATAACAAATA ATGAATGAACAAATAATTAAATAACAAATAATAAATTAACACAAATAATAAAATAACAAATAAAA AATTAACAAAAAATTAAAAAATAGACAAAAAAAAAAAAATAAAATAAAATAAAATTATAACTTTA TATGAACATAATTATCCTTTTCGTATTTAATAAAAAAAAAAAAAA Right flanking sequence: Indices 279843 -- 280342 ATATTTTTTTAATAGTTGAATATCAAAATCTTCTGCATCGTCAAAGGATTCATAATGTTCATCTT TTTCGTCTGTTTCATACATATGTTCATTTTCCATATTCATCATTATATTATTATCACTATTTATA TTCGTTATTTTAGTCATATAATCATTGTTATTTAAATTGTAGTCGTCTTGATAATTTATTTCTTG TTCAGTTGTCTTATTTTTTCCTTCATTAAGTATAGAAAACATAAAACTGTTCACATTTTCTGAAG TATCATTTTCTATGTTTCCTTTTAAATAATTTATATGATCATTATATATATGATTATTATTAAGG CATGTTAGTTCATTACCATTAGAAGGAAAGAAATTTCCGTCCTTCTGATTTTCAATTTTCATATA ATTTTCTTTCCTGTCAATTAATATATGATCATATGGGTCTTCACCATCCAAAGATAATGTATCCA TCATACTTAATAATGTTTCTTCGTATTCCTTTTTAACAAGTTTTT Found at i:281367 original size:11 final size:11 Alignment explanation
Indices: 281344--281367 Score: 34 Period size: 11 Copynumber: 2.2 Consensus size: 11 281334 ACAGATTAAT 281344 AAAAAATAAAA 1 AAAAAATAAAA * * 281355 AAAATATAGAA 1 AAAAAATAAAA 281366 AA 1 AA 281368 GTACAACCAT Statistics Matches: 11, Mismatches: 2, Indels: 0 0.85 0.15 0.00 Matches are distributed among these distances: 11 11 1.00 ACGTcount: A:0.83, C:0.00, G:0.04, T:0.12 Consensus pattern (11 bp): AAAAAATAAAA Left flanking sequence: Indices 280844 -- 281343 AGAATATATGACCTCGTCATATTTATATCCTTCATTTAGATATTGCTGAATAATATTTTCAAACA AAGTAAAGTTATGCTCAACCATAGCGTTCCATAATTTAAAATAATATATTCTTTTTATTTCATTT TCACAATTTCCTTTCTTTAATTTATTATTTAAGAATATTTCCTTTTTATTTACGTATTGATTAAA TACATAATCCTTTTTTAACAAATCCTTACTACCATCTATTTCTGGTGCAGTATACACATGCTTGG TGAAATATATGGATGGATATATTTTCAAATATCTTTTAATCATTTCAATCAAACACAAAAAAAAA AAAAAATATACATATATATATATATTTTAATCAAGAGGCAAAAATATATATGGTTAAATTAATTA TTCCATTTTTACCATAATATGTAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAATATACGCATAC ATATATAAATGTGAACATATATACCTATATATATTACAGATTAAT Right flanking sequence: Indices 281368 -- 281867 GTACAACCATCGCAATCTTTATACATGTAATAAAAATTATCTTATAAGATACATAAAAAAAATAT AATTAAAGCTATATATAATCATGTCGCTATTCCTATATATTTTTATATTCCTCAACTTATAAAAA AGGAATAAATTATATACACATCAAAAAAAAAAATAAATAAATAAAAATAAAATATAAAAAAGGTT ATGATAAAATTTCATATAAAATAGCATACCTTATAAAAAAATAATAATATTTTATCCCTTTTATT TTAATATGGAAAGAGAAAAATATTACATATATATATATATATATATATATATGTATGTATTATAA TATAATAAACGTGTACACAATTAAATTATTATATATATATATTATATATATATAATATTTTATTA TAAATCAGTTATATTTTTGAATATATAAAATTTAAATATATATAATATATATATATACATATATT TTTATGTAAATACCCTTTTCCTTTCATCATATATTACATTTAGTA Found at i:281545 original size:14 final size:13 Alignment explanation
Indices: 281520--281557 Score: 53 Period size: 14 Copynumber: 2.8 Consensus size: 13 281510 TATACACATC * 281520 AAAAAAAAAAATA 1 AAAAATAAAAATA 281533 AATAAATAAAAATA 1 AA-AAATAAAAATA * 281547 AAATATAAAAA 1 AAAAATAAAAA 281558 AGGTTATGAT Statistics Matches: 22, Mismatches: 2, Indels: 2 0.85 0.08 0.08 Matches are distributed among these distances: 13 10 0.45 14 12 0.55 ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16 Consensus pattern (13 bp): AAAAATAAAAATA Left flanking sequence: Indices 281020 -- 281519 TATTTACGTATTGATTAAATACATAATCCTTTTTTAACAAATCCTTACTACCATCTATTTCTGGT GCAGTATACACATGCTTGGTGAAATATATGGATGGATATATTTTCAAATATCTTTTAATCATTTC AATCAAACACAAAAAAAAAAAAAAATATACATATATATATATATTTTAATCAAGAGGCAAAAATA TATATGGTTAAATTAATTATTCCATTTTTACCATAATATGTAAATAAAAAAAAAAAAAAAAAAAA AAAAAAAATATACGCATACATATATAAATGTGAACATATATACCTATATATATTACAGATTAATA AAAAATAAAAAAAATATAGAAAAGTACAACCATCGCAATCTTTATACATGTAATAAAAATTATCT TATAAGATACATAAAAAAAATATAATTAAAGCTATATATAATCATGTCGCTATTCCTATATATTT TTATATTCCTCAACTTATAAAAAAGGAATAAATTATATACACATC Right flanking sequence: Indices 281558 -- 282057 AGGTTATGATAAAATTTCATATAAAATAGCATACCTTATAAAAAAATAATAATATTTTATCCCTT TTATTTTAATATGGAAAGAGAAAAATATTACATATATATATATATATATATATATATGTATGTAT TATAATATAATAAACGTGTACACAATTAAATTATTATATATATATATTATATATATATAATATTT TATTATAAATCAGTTATATTTTTGAATATATAAAATTTAAATATATATAATATATATATATACAT ATATTTTTATGTAAATACCCTTTTCCTTTCATCATATATTACATTTAGTAATAATTAAAACGATG CCATACTATTATTACATATATTATAAAAAAAAGTATATTATGATCAATATAAACTATGTGTATAT AGTTTAATTTATTTAGGTTCCATTGTATAAGGTTATATTATATATATAATATATATTTACATATT GATATATATATATATATATAATATATATTAAGAATTATACATATA Found at i:281554 original size:17 final size:17 Alignment explanation
Indices: 281520--281558 Score: 50 Period size: 17 Copynumber: 2.3 Consensus size: 17 281510 TATACACATC 281520 AAAAAAAAAAATAAATA 1 AAAAAAAAAAATAAATA * * * * 281537 AATAAAAATAAAATATA 1 AAAAAAAAAAATAAATA 281554 AAAAA 1 AAAAA 281559 GGTTATGATA Statistics Matches: 17, Mismatches: 5, Indels: 0 0.77 0.23 0.00 Matches are distributed among these distances: 17 17 1.00 ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15 Consensus pattern (17 bp): AAAAAAAAAAATAAATA Left flanking sequence: Indices 281020 -- 281519 TATTTACGTATTGATTAAATACATAATCCTTTTTTAACAAATCCTTACTACCATCTATTTCTGGT GCAGTATACACATGCTTGGTGAAATATATGGATGGATATATTTTCAAATATCTTTTAATCATTTC AATCAAACACAAAAAAAAAAAAAAATATACATATATATATATATTTTAATCAAGAGGCAAAAATA TATATGGTTAAATTAATTATTCCATTTTTACCATAATATGTAAATAAAAAAAAAAAAAAAAAAAA AAAAAAAATATACGCATACATATATAAATGTGAACATATATACCTATATATATTACAGATTAATA AAAAATAAAAAAAATATAGAAAAGTACAACCATCGCAATCTTTATACATGTAATAAAAATTATCT TATAAGATACATAAAAAAAATATAATTAAAGCTATATATAATCATGTCGCTATTCCTATATATTT TTATATTCCTCAACTTATAAAAAAGGAATAAATTATATACACATC Right flanking sequence: Indices 281559 -- 282058 GGTTATGATAAAATTTCATATAAAATAGCATACCTTATAAAAAAATAATAATATTTTATCCCTTT TATTTTAATATGGAAAGAGAAAAATATTACATATATATATATATATATATATATATGTATGTATT ATAATATAATAAACGTGTACACAATTAAATTATTATATATATATATTATATATATATAATATTTT ATTATAAATCAGTTATATTTTTGAATATATAAAATTTAAATATATATAATATATATATATACATA TATTTTTATGTAAATACCCTTTTCCTTTCATCATATATTACATTTAGTAATAATTAAAACGATGC CATACTATTATTACATATATTATAAAAAAAAGTATATTATGATCAATATAAACTATGTGTATATA GTTTAATTTATTTAGGTTCCATTGTATAAGGTTATATTATATATATAATATATATTTACATATTG ATATATATATATATATATAATATATATTAAGAATTATACATATAT Found at