Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 60 of 189
Found at i:16998544 original size:25 final size:24
Alignment explanation
Indices: 16998494--16998551 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
16998484 TATAATTAAA
* *
16998494 AATATAATTTAGTAATATATATTAT
1 AATAT-ATTTAATAATATATAGTAT
*
16998519 AATATATTTAATAGTATAATAGTAT
1 AATATATTTAATAATAT-ATAGTAT
16998544 AATATATT
1 AATATATT
16998552 ATTTATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (24 bp):
AATATATTTAATAATATATAGTAT
Found at i:17004299 original size:24 final size:25
Alignment explanation
Indices: 17004264--17004311 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
17004254 TTATGAAATT
17004264 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
17004288 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
17004312 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:17004308 original size:92 final size:89
Alignment explanation
Indices: 17004130--17004336 Score: 263
Period size: 92 Copynumber: 2.3 Consensus size: 89
17004120 TTGATTTTAG
* * *
17004130 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAAATATATCACTATTAAATTATAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAAATATATAACTATTAAATTATAT
* *
17004195 TTAATATTAATTATTTTAAATTGTA
65 GTAATATTAATTATTTTAAATTATA
* *
17004220 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAATTATTAAATTAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAA-AT-ATA-TAACTATTAAATTAT
17004285 ATGTAATAATT-ATTATTTTAAATTATA
63 ATGTAAT-ATTAATTATTTTAAATTATA
* * * *
17004312 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
17004337 GTTATAATTA
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
89 24 0.24
90 17 0.17
91 3 0.03
92 55 0.54
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (89 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAAATATATAACTATTAAATTATATG
TAATATTAATTATTTTAAATTATA
Found at i:17004452 original size:66 final size:62
Alignment explanation
Indices: 17004382--17004835 Score: 242
Period size: 66 Copynumber: 7.5 Consensus size: 62
17004372 TTTAAATAAA
17004382 ATATATATATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATT
1 ATATA-ATATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATT
17004447 C
62 C
* * * *
17004448 ATATAATAATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AATAT-
1 ATATAAT-ATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAAT-TC
*
17004505 ATTTAATA-A-TAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
1 ATATAATATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATT
17004567 C
62 C
* * * * *
17004568 ATATAAGAATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AATAT-
1 ATATAA-TATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAAT-TC
*
17004625 ATTTAATA-A-TAATTATGTT-AATTTATATTTTACAG--T-ATATATTATGATTTGAGTAAATT
1 ATATAATATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATT
17004684 C
62 C
* * * * *
17004685 ATATAAGAATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-
1 ATATAA-TATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTC
* *
17004740 ATAT-TTATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
1 ATATAATATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATT
17004803 C
62 C
* *
17004804 ATATAAGAATATTAATTATTAAGAATTTTATT
1 ATATAA-TATATTAATTATTTA-AATTTTATT
17004836 AAATTATATA
Statistics
Matches: 296, Mismatches: 36, Indels: 113
0.67 0.08 0.25
Matches are distributed among these distances:
52 5 0.02
53 22 0.07
54 19 0.06
55 11 0.04
56 17 0.06
57 26 0.09
58 15 0.05
59 18 0.06
60 27 0.09
61 31 0.10
62 6 0.02
63 20 0.07
64 16 0.05
65 9 0.03
66 44 0.15
67 10 0.03
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (62 bp):
ATATAATATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTC
Found at i:17004511 original size:15 final size:15
Alignment explanation
Indices: 17004476--17004527 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
17004466 TTAAGAATTT
*
17004476 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17004490 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17004504 TATTTAATAATAAT-
1 TATTTAATTATAATA
17004518 TATGTTAATT
1 TAT-TTAATT
17004528 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:17004579 original size:120 final size:120
Alignment explanation
Indices: 17004352--17004879 Score: 910
Period size: 120 Copynumber: 4.4 Consensus size: 120
17004342 AATTATTTTA
* * * * *
17004352 AATTTTATTAAATCATATATTTTAAATAAAATATATAT-ATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
* *
17004413 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17004471 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
17004536 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17004591 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
17004656 ACAG--T-ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17004708 AATTTTATTAAATTATATATTTTAATTATAATATATTT-ATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
17004772 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17004827 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
17004880 TAAATATGAT
Statistics
Matches: 394, Mismatches: 7, Indels: 15
0.95 0.02 0.04
Matches are distributed among these distances:
116 30 0.08
117 85 0.22
118 2 0.01
119 125 0.32
120 150 0.38
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:17004631 original size:15 final size:15
Alignment explanation
Indices: 17004596--17004647 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
17004586 TTAAGAATTT
*
17004596 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17004610 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17004624 TATTTAATAATAAT-
1 TATTTAATTATAATA
17004638 TATGTTAATT
1 TAT-TTAATT
17004648 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:17004830 original size:236 final size:239
Alignment explanation
Indices: 17004352--17004884 Score: 909
Period size: 236 Copynumber: 2.2 Consensus size: 239
17004342 AATTATTTTA
* * * * *
17004352 AATTTTATTAAATCATATATTTTAAATAAAATATATAT-ATATTAATTAT-TTCAAATTTTCATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTCATT
* *
17004415 TATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAGAATTTTATT
65 TACAG-ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
17004480 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
129 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
17004545 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
194 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17004591 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTAT-ATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TCA-T
17004654 TTACAG-T-ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
64 TTACAGATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
17004717 AAATTATATATTTTAATTATAATATATTT-ATAATAATTATGTTAATTTATATTTTACAGTATCA
129 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
17004781 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
194 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17004827 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
17004885 ATGATTAATT
Statistics
Matches: 281, Mismatches: 7, Indels: 13
0.93 0.02 0.04
Matches are distributed among these distances:
236 132 0.47
237 86 0.31
238 4 0.01
239 40 0.14
240 17 0.06
241 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (239 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTCATTT
ACAGATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATA
TATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:17004862 original size:16 final size:16
Alignment explanation
Indices: 17004841--17004882 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17004831 TTATTAAATT
*
17004841 ATATATTTTAATTATA
1 ATATATTTTAATAATA
17004857 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
17004872 AT-TATGTTTAA
1 ATATAT-TTTAA
17004883 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:17004867 original size:15 final size:15
Alignment explanation
Indices: 17004832--17004873 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17004822 TTAAGAATTT
*
17004832 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17004846 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17004860 TATTTAATAATAAT
1 TATTTAATTATAAT
17004874 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:17004991 original size:156 final size:157
Alignment explanation
Indices: 17004816--17005131 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
17004806 ATAAGAATAT
* *
17004816 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT-TATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT-ATGAATGTT
* *
17004880 TAAATATGATT-AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
17004944 ATAATAATTTACCAAAACAAATTTATGC
130 ATAATAATTTACCAAAACAAATTTATGC
*
17004972 TAATTATTAAGAATTTTATTGAATTATATATTTTAATTAAAATATATTTAATAATATGAATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATATGAATGTTT
17005037 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
17005102 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
17005129 TAA
1 TAA
17005132 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
155 2 0.01
156 69 0.45
157 81 0.53
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATATGAATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:17005276 original size:16 final size:16
Alignment explanation
Indices: 17005255--17005285 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17005245 ATTTGCTATT
17005255 ACACCTCTAATCCAAC
1 ACACCTCTAATCCAAC
17005271 ACACCTCTAATCCAA
1 ACACCTCTAATCCAA
17005286 TACAGCGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (16 bp):
ACACCTCTAATCCAAC
Found at i:17005335 original size:16 final size:16
Alignment explanation
Indices: 17005311--17005354 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
17005301 GCACCAAGAT
*
17005311 TAGAGGTGTAATGGAA
1 TAGAAGTGTAATGGAA
17005327 TAGAAGTGTAATGGAA
1 TAGAAGTGTAATGGAA
17005343 TAGAAGTGTAAT
1 TAGAAGTGTAAT
17005355 AGCAAATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (16 bp):
TAGAAGTGTAATGGAA
Found at i:17005399 original size:45 final size:44
Alignment explanation
Indices: 17005333--17005423 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
17005323 GGAATAGAAG
*
17005333 TGTAATGGAATAGAAGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
17005378 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
17005422 TG
1 TG
17005424 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:17005710 original size:26 final size:28
Alignment explanation
Indices: 17005677--17005859 Score: 86
Period size: 28 Copynumber: 6.3 Consensus size: 28
17005667 AATACTATAA
* *
17005677 AATATAATTTAA-AATAAT-TATTATTT
1 AATATAATTTAATAAAAATATATAATTT
17005703 AATATAATTTAATAAAAATATATAATTT
1 AATATAATTTAATAAAAATATATAATTT
* * * * *
17005731 AATAAAATTCTTAATATTTAAATATTCTTAAATG
1 AATATAA-T-TTAATA--AAAATA-T-ATAATTT
* * ** * *
17005765 AATTTACTAAAATCATAATATATAATACTAT
1 AATATAATTTAATAAAAATATATAAT--T-T
* * * *
17005796 AAAATAAATTTAA-AATAATA-ATTATTA
1 AATAT-AATTTAATAAAAATATATAATTT
17005823 AATATAATTTAATAAAAATATATAATTT
1 AATATAATTTAATAAAAATATATAATTT
*
17005851 AATAAAATT
1 AATATAATT
17005860 CTTAATATTA
Statistics
Matches: 112, Mismatches: 31, Indels: 26
0.66 0.18 0.15
Matches are distributed among these distances:
26 19 0.17
27 15 0.13
28 30 0.27
29 2 0.02
30 15 0.13
31 9 0.08
32 12 0.11
33 2 0.02
34 8 0.07
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (28 bp):
AATATAATTTAATAAAAATATATAATTT
Found at i:17006004 original size:122 final size:120
Alignment explanation
Indices: 17005577--17006179 Score: 1057
Period size: 122 Copynumber: 5.0 Consensus size: 120
17005567 TTTTAACATA
* *
17005577 ATTATTAAATATAATTTAATAAAAATATATAATTGAATAAAATTCTTAATATTAAATATTCTTAT
1 ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAA
*
17005642 ATGAATTTAAT-AAATCATAATATATAATACTATAAAATATAATTTAAAATAATT
66 ATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATT
*
17005696 ATTATTTAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTTAAATATTCTTA
1 ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-TTAAATATTCTTA
*
17005761 AATGAATTTACTAAAATCATAATATATAATACTATAAAATA-AATTTAAAATAATA
65 AATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATT
17005816 ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAA
1 ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAA
17005881 ATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATT
66 ATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATT
* *
17005936 ATTATTAAAAATGAAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 ATTATTAAATAT--AATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
17006001 AAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATT
64 AAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATT
*
17006058 ATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTTAATATTAAATATTCT
1 ATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATTC-TTAATATTAAATATTCT
*
17006123 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAAT
63 TAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAAT
17006180 AAAATTTGAA
Statistics
Matches: 465, Mismatches: 11, Indels: 12
0.95 0.02 0.02
Matches are distributed among these distances:
119 103 0.22
120 110 0.24
121 28 0.06
122 146 0.31
123 73 0.16
124 5 0.01
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (120 bp):
ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAA
ATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATT
Found at i:17006083 original size:15 final size:16
Alignment explanation
Indices: 17006037--17006101 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
17006027 ATAATACTAT
17006037 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
17006052 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
17006065 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
17006082 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
17006099 AAA
1 AAA
17006102 TTCTTTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:17006089 original size:18 final size:17
Alignment explanation
Indices: 17006064--17006101 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
17006054 AATTATTATT
*
17006064 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
17006081 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
17006099 AAA
1 AAA
17006102 TTCTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:17006490 original size:17 final size:17
Alignment explanation
Indices: 17006468--17006535 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
17006458 CTTATATGCT
17006468 TTAATTTATTGCATGTA
1 TTAATTTATTGCATGTA
*
17006485 TTAATTTATTTTTCA--TA
1 TTAATTTA--TTGCATGTA
*
17006502 TTATTTTTATAT-CATGTA
1 TTA-ATTTAT-TGCATGTA
17006520 TTAATTTATTGCATGT
1 TTAATTTATTGCATGT
17006536 TTGTATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
16 4 0.10
17 24 0.59
18 9 0.22
19 4 0.10
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (17 bp):
TTAATTTATTGCATGTA
Found at i:17010347 original size:24 final size:24
Alignment explanation
Indices: 17010320--17010369 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17010310 ACCCATTAAA
*
17010320 AACATAACTCTCGACCTTT-CATTT
1 AACATAACTATCGA-CTTTCCATTT
*
17010344 AACATAACTATTGACTTTCCATTT
1 AACATAACTATCGACTTTCCATTT
17010368 AA
1 AA
17010370 GTTTATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (24 bp):
AACATAACTATCGACTTTCCATTT
Found at i:17012793 original size:33 final size:35
Alignment explanation
Indices: 17012730--17012808 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
17012720 CGATCAAAAT
* * * *
17012730 ACGAGAATTTTTTTTTACACGAAGAATTTTGAAGC
1 ACGAAAATTTTTTTTAAAACGAAGAATTTTGAAAC
*
17012765 AC-AAAATTTTTTTTAAAACGAA-ATTTTTGAAAC
1 ACGAAAATTTTTTTTAAAACGAAGAATTTTGAAAC
17012798 ACGAAAATTTT
1 ACGAAAATTTT
17012809 AGAAACACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 11 0.29
34 25 0.66
35 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (35 bp):
ACGAAAATTTTTTTTAAAACGAAGAATTTTGAAAC
Found at i:17012805 original size:17 final size:17
Alignment explanation
Indices: 17012746--17012826 Score: 62
Period size: 17 Copynumber: 4.8 Consensus size: 17
17012736 ATTTTTTTTT
17012746 ACACGAAGAA-TTTTGAA
1 ACACGAA-AATTTTTGAA
* *
17012763 GCAC-AAAATTTTTTTTAA
1 ACACGAAAA--TTTTTGAA
17012781 A-ACG-AAATTTTTGAA
1 ACACGAAAATTTTTGAA
*
17012796 ACACGAAAATTTTAGAA
1 ACACGAAAATTTTTGAA
*
17012813 ACACAAGAAATTTT
1 ACACGA-AAATTTT
17012827 ATTATTATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
15 10 0.20
16 5 0.10
17 23 0.45
18 13 0.25
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (17 bp):
ACACGAAAATTTTTGAA
Found at i:17012825 original size:18 final size:18
Alignment explanation
Indices: 17012784--17012827 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
17012774 TTTTTAAAAC
* *
17012784 GAAATTTTTGAAACACGA
1 GAAATTTTAGAAACACAA
17012802 -AAATTTTAGAAACACAA
1 GAAATTTTAGAAACACAA
17012819 GAAATTTTA
1 GAAATTTTA
17012828 TTATTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (18 bp):
GAAATTTTAGAAACACAA
Found at i:17013359 original size:20 final size:20
Alignment explanation
Indices: 17013334--17013376 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
17013324 GTTATGGGCC
17013334 TTTTTCTTTT-TTCCCTTTTT
1 TTTTTCTTTTCTT-CCTTTTT
*
17013354 TTTTTCTTTTCTTTCTTTTT
1 TTTTTCTTTTCTTCCTTTTT
17013374 TTT
1 TTT
17013377 GCTGGATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTCTTTTCTTCCTTTTT
Found at i:17013565 original size:16 final size:17
Alignment explanation
Indices: 17013527--17013571 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
17013517 TTCCTTCCTT
*
17013527 CTGCTGCTTGGGCCGTCA
1 CTGCTG-TTGGGCCGTAA
17013545 CTGCTGTTGGGCCG-AA
1 CTGCTGTTGGGCCGTAA
*
17013561 CTGCTGCTGGG
1 CTGCTGTTGGG
17013572 GGACGCTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.44
17 8 0.32
18 6 0.24
ACGTcount: A:0.07, C:0.29, G:0.38, T:0.27
Consensus pattern (17 bp):
CTGCTGTTGGGCCGTAA
Found at i:17013656 original size:6 final size:6
Alignment explanation
Indices: 17013641--17013707 Score: 61
Period size: 6 Copynumber: 11.5 Consensus size: 6
17013631 CGACTGTTGA
*
17013641 TTTTTGC TTTTTC TTTTT- TTTTTC TTTTT- TTCTTTC -CTTT- TTTTTC
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC
**
17013687 TTTTTC TCCTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTT
17013708 CTTTATCTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
5 13 0.27
6 31 0.63
7 5 0.10
ACGTcount: A:0.00, C:0.18, G:0.01, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:17013669 original size:18 final size:19
Alignment explanation
Indices: 17013648--17013711 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 19
17013638 TGATTTTTGC
17013648 TTTTTCTT-TTTTTTTTCTT
1 TTTTTCTTCTTTTTTTTC-T
17013667 TTTTTCTTTCCTTTTTTTTCT
1 TTTTTC-TT-CTTTTTTTTCT
17013688 TTTTCTCCTTCTTTTTCTTTCT
1 TTTT-T-CTTCTTTTT-TTTCT
17013710 TT
1 TT
17013712 ATCTTCCTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 11 0.28
22 19 0.49
23 1 0.03
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTCTTCTTTTTTTTCT
Found at i:17013684 original size:22 final size:21
Alignment explanation
Indices: 17013656--17013723 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
17013646 GCTTTTTCTT
* *
17013656 TTTTTTTTCTTTTTTTCTTTCC
1 TTTTTTTTCTTTTTCTCCTT-C
17013678 TTTTTTTTCTTTTTCTCCTTC
1 TTTTTTTTCTTTTTCTCCTTC
*
17013699 TTTTTCTTTCTTTATCTTCCTTC
1 TTTTT-TTTCTTTTTC-TCCTTC
17013722 TT
1 TT
17013724 CTTCGGGTCG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
21 6 0.15
22 27 0.66
23 8 0.20
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTTTCTTTTTCTCCTTC
Found at i:17014346 original size:30 final size:30
Alignment explanation
Indices: 17014273--17014346 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 30
17014263 TAGAGTGTGT
* * *
17014273 AAAGTTTTTGGGGCAAAAATGCAATTTTAGG
1 AAAG-TTTAGGGGCCAAAATGAAATTTTAGG
* *
17014304 AAAATATA-GGGCCAAAATGAAATTTCTA-G
1 AAAGTTTAGGGGCCAAAATGAAATTT-TAGG
17014333 AAAGTTTAGGGGCC
1 AAAGTTTAGGGGCC
17014347 CAACTGTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
29 22 0.65
30 9 0.26
31 3 0.09
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (30 bp):
AAAGTTTAGGGGCCAAAATGAAATTTTAGG
Found at i:17014464 original size:16 final size:16
Alignment explanation
Indices: 17014440--17014472 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17014430 GGGGGCAAAA
17014440 TGTAATTTTTATTTTT
1 TGTAATTTTTATTTTT
*
17014456 TGTATTTTTTATTTTT
1 TGTAATTTTTATTTTT
17014472 T
1 T
17014473 TCAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (16 bp):
TGTAATTTTTATTTTT
Found at i:17014837 original size:16 final size:16
Alignment explanation
Indices: 17014807--17014836 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17014797 TTGAAAAGAA
17014807 AAAGAAAAGAAAAAAG
1 AAAGAAAAGAAAAAAG
17014823 AAAG-AAAGAAAAAA
1 AAAGAAAAGAAAAAA
17014837 AATTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAAAAAAG
Found at i:17015690 original size:78 final size:77
Alignment explanation
Indices: 17014923--17015689 Score: 827
Period size: 76 Copynumber: 9.8 Consensus size: 77
17014913 CATAAATTGA
* * ** * * *
17014923 AAATACCTCAGCGTGACTTGAGGCTTAACTCTCCTCTCGCATTATGAGTTGATTTTTGAAAAACA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACG
* *
17014988 GAAAATT-GAA-
66 GAAATTTAAAAG
* *
17014998 AAATACCTCGGCATGTGACCCGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTG
1 AAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-----TTTTTG
****
17015063 AAAAGTAAAAATTTAAAAG
59 AAAAACGGAAATTTAAAAG
* * * * * * **
17015082 AAATACCACGACATGTGACTCGAAGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTTAAA
1 AAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAA
* *
17015147 A-GTAGTAA-TT-GAA-
63 ACG--GAAATTTAAAAG
* *
17015160 AAATATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAA
1 AAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA---TTTTTGAA
*
17015225 AAACAGAAATTTAAAAG
61 AAACGGAAATTTAAAAG
* * * * * *
17015242 AAAAACCACGACATGTGACTCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
1 AAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAA
17015307 ACGGAAATTTAAAAG
63 ACGGAAATTTAAAAG
* * *
17015322 AAATACCTCGGCATGAACCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAATG
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACG
17015386 GAAATTTAAAAG
66 GAAATTTAAAAG
* *
17015398 AAATACCTCAGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACG
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACG
17015462 GAAATTTAAAAG
66 GAAATTTAAAAG
** *
17015474 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-ATATTATGAGTTGATTTTTGAAAAATG
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACG
*
17015538 GAAATTTGAAAG
66 GAAATTTAAAAG
* *
17015550 AAACACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAAAA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG--AAAAA
*
17015614 CGGAAATTTGAAAG
64 CGGAAATTTAAAAG
* *
17015628 AAACACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAA
1 AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAA
17015690 AGCAGAGATT
Statistics
Matches: 610, Mismatches: 63, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
75 11 0.02
76 229 0.38
77 45 0.07
78 144 0.24
79 5 0.01
80 58 0.10
81 4 0.01
82 64 0.10
83 2 0.00
84 48 0.08
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (77 bp):
AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACG
GAAATTTAAAAG
Found at i:17016611 original size:19 final size:19
Alignment explanation
Indices: 17016575--17016628 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
17016565 TTCATCTTGA
*
17016575 TTTTTCTTTT-TCTTTTCT
1 TTTTTCTTTTCTTTTTTCT
17016593 TTGTTT-TTTTCTTTTTTCT
1 TT-TTTCTTTTCTTTTTTCT
*
17016612 TTTTTCTTTTGTTTTTT
1 TTTTTCTTTTCTTTTTT
17016629 ATTCCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 9 0.29
19 22 0.71
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (19 bp):
TTTTTCTTTTCTTTTTTCT
Found at i:17016649 original size:23 final size:22
Alignment explanation
Indices: 17016575--17016661 Score: 79
Period size: 23 Copynumber: 3.9 Consensus size: 22
17016565 TTCATCTTGA
*
17016575 TTTTTCTTTTTCTTTTCTTTGTT
1 TTTTTCTTTTTCCTTT-TTTGTT
* *
17016598 TTTTTCTTTTTTCTTTTTTCTT
1 TTTTTCTTTTTCCTTTTTTGTT
17016620 TTGTTT-TTTATTCCTTTTTTGTT
1 TT-TTTCTTT-TTCCTTTTTTGTT
* *
17016643 GTTTT-TTTGTCTCTTTTTT
1 TTTTTCTTTTTC-CTTTTTT
17016662 TTTCAAGCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.04
22 23 0.43
23 29 0.54
ACGTcount: A:0.01, C:0.11, G:0.06, T:0.82
Consensus pattern (22 bp):
TTTTTCTTTTTCCTTTTTTGTT
Found at i:17024136 original size:16 final size:17
Alignment explanation
Indices: 17024108--17024152 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
17024098 AGCACAAATT
*
17024108 TTTTTTAAA-ACG-AAA
1 TTTTTGAAACACGAAAA
17024123 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
*
17024140 TTTTAGAAACACG
1 TTTTTGAAACACG
17024153 GGAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 8 0.31
16 3 0.12
17 15 0.58
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:17024160 original size:18 final size:17
Alignment explanation
Indices: 17024119--17024162 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
17024109 TTTTTAAAAC
*
17024119 GAAATTTTTGAAACACG
1 GAAATTTTAGAAACACG
*
17024136 AAAATTTTAGAAACACGG
1 GAAATTTTAGAAACAC-G
17024154 GAAATTTTA
1 GAAATTTTA
17024163 TTATTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (17 bp):
GAAATTTTAGAAACACG
Found at i:17024687 original size:15 final size:14
Alignment explanation
Indices: 17024667--17024710 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
17024657 AAGTTATGGG
17024667 CCTTTTTCTTTTTTC
1 CCTTTTT-TTTTTTC
17024682 CCTTTTTTTTTCTTC
1 CCTTTTTTTTT-TTC
*
17024697 TCTTTCTTTTTTTT
1 CCTTT-TTTTTTTT
17024711 TTGCTGGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 4 0.15
15 16 0.62
16 6 0.23
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
CCTTTTTTTTTTTC
Found at i:17024901 original size:16 final size:17
Alignment explanation
Indices: 17024863--17024907 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
17024853 TTCCTTCCTT
*
17024863 CTGCTGCTTGGGCCGTTA
1 CTGCTG-TTGGGCCGTAA
17024881 CTGCTGTTGGGCCG-AA
1 CTGCTGTTGGGCCGTAA
*
17024897 CTGCTGCTGGG
1 CTGCTGTTGGG
17024908 GGCCGCTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.44
17 8 0.32
18 6 0.24
ACGTcount: A:0.07, C:0.27, G:0.38, T:0.29
Consensus pattern (17 bp):
CTGCTGTTGGGCCGTAA
Found at i:17025004 original size:12 final size:12
Alignment explanation
Indices: 17024984--17025023 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
17024974 TGATTTTTGC
*
17024984 TTTTCTCTTTCT
1 TTTTTTCTTTCT
*
17024996 TTTTTTCTTTCC
1 TTTTTTCTTTCT
17025008 TTTTTTCTTTCT
1 TTTTTTCTTTCT
17025020 TTTT
1 TTTT
17025024 CTCCATCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTCTTTCT
Found at i:17025022 original size:10 final size:10
Alignment explanation
Indices: 17024983--17025058 Score: 53
Period size: 12 Copynumber: 6.9 Consensus size: 10
17024973 TTGATTTTTG
17024983 CTTTTCTCTTT
1 CTTTT-TCTTT
17024994 CTTTTTTTCTTT
1 C--TTTTTCTTT
17025006 CCTTTTTTCTTT
1 -C-TTTTTCTTT
*
17025018 CTTTTTCTCCAT
1 CTTTTTCT--TT
17025030 CTTTTTCTTT
1 CTTTTTCTTT
* *
17025040 CTTTATCTTC
1 CTTTTTCTTT
*
17025050 CTTCTTCTT
1 CTTTTTCTT
17025059 CGGGTCGTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
10 23 0.43
11 2 0.04
12 24 0.44
13 5 0.09
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:17025025 original size:22 final size:21
Alignment explanation
Indices: 17024983--17025052 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 21
17024973 TTGATTTTTG
*
17024983 CTTTTCTCTTTCTTTTTTTCTTTC
1 CTTTTTTCTTTC--TTTTTC-TTC
17025007 CTTTTTTCTTTCTTTTTC-TC
1 CTTTTTTCTTTCTTTTTCTTC
*
17025027 CATCTTTTTCTTTCTTTATCTTC
1 C-T-TTTTTCTTTCTTTTTCTTC
17025050 CTT
1 CTT
17025053 CTTCTTCGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
20 3 0.07
21 2 0.05
22 22 0.54
23 3 0.07
24 11 0.27
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (21 bp):
CTTTTTTCTTTCTTTTTCTTC
Found at i:17025035 original size:24 final size:23
Alignment explanation
Indices: 17024983--17025043 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 23
17024973 TTGATTTTTG
* * **
17024983 CTTTTCTCTTTCTTTTTTTCTTT
1 CTTTTTTCTTTCTTTTTCTCCAT
17025006 CCTTTTTTCTTTCTTTTTCTCCAT
1 -CTTTTTTCTTTCTTTTTCTCCAT
17025030 C-TTTTTCTTTCTTT
1 CTTTTTTCTTTCTTT
17025044 ATCTTCCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 13 0.39
23 1 0.03
24 19 0.58
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (23 bp):
CTTTTTTCTTTCTTTTTCTCCAT
Found at i:17025784 original size:29 final size:29
Alignment explanation
Indices: 17025609--17025784 Score: 90
Period size: 30 Copynumber: 5.9 Consensus size: 29
17025599 TAGAGTGTGT
* * *
17025609 AAAGTTTTTGGGGCAAAAATGTGATTTTAGGA
1 AAAG-TTTAGGGGCCAAAATGTAATTTT--GA
* * *
17025641 AAA-TATA-GGGCCAAAATGAAATTTATGG
1 AAAGTTTAGGGGCCAAAATGTAATTT-TGA
* * ***
17025669 AAAGTTTAGGGGCCCAACTGTAATTTACC
1 AAAGTTTAGGGGCCAAAATGTAATTTTGA
* * *
17025698 AAA-TATTAGGGGTCAAGATGTAAATTTAGAA
1 AAAGT-TTAGGGGCCAAAATGT-AATTTTG-A
* **
17025729 AAAG-TTAGGGGTCAAAACATAATTTTTGA
1 AAAGTTTAGGGGCCAAAATGTAA-TTTTGA
*
17025758 AAAGTTTGGGGGCCAAAATGTAATTTT
1 AAAGTTTAGGGGCCAAAATGTAATTTT
17025785 TATTTTTTTA
Statistics
Matches: 108, Mismatches: 27, Indels: 21
0.69 0.17 0.13
Matches are distributed among these distances:
28 5 0.05
29 43 0.40
30 54 0.50
31 3 0.03
32 3 0.03
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (29 bp):
AAAGTTTAGGGGCCAAAATGTAATTTTGA
Found at i:17026821 original size:18 final size:18
Alignment explanation
Indices: 17026798--17026833 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17026788 AATATGGTTT
*
17026798 ATATTCGATTTATTCAAA
1 ATATTCGAGTTATTCAAA
17026816 ATATTCGAGTTATTCAAA
1 ATATTCGAGTTATTCAAA
17026834 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (18 bp):
ATATTCGAGTTATTCAAA
Found at i:17028217 original size:16 final size:17
Alignment explanation
Indices: 17028192--17028226 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17028182 ATTTTAATTG
*
17028192 ATTAATTAATTTT-TCA
1 ATTAAATAATTTTCTCA
17028208 ATTAAATAATTTTCTCA
1 ATTAAATAATTTTCTCA
17028225 AT
1 AT
17028227 CCAATTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAAATAATTTTCTCA
Found at i:17039234 original size:62 final size:62
Alignment explanation
Indices: 17039164--17039287 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
17039154 GAAAACAGAA
17039164 GCAAAATCCAGATGTTGGATGATGAAGAAAAAATTAACTTCATTACTTGAATAAGCAAAAAG
1 GCAAAATCCAGATGTTGGATGATGAAGAAAAAATTAACTTCATTACTTGAATAAGCAAAAAG
17039226 GCAAAATCCAGATGTTGGATGATGAAGAAAAAATTAACTTCATTACTTGAATAAGCAAAAAG
1 GCAAAATCCAGATGTTGGATGATGAAGAAAAAATTAACTTCATTACTTGAATAAGCAAAAAG
17039288 CCATATACAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (62 bp):
GCAAAATCCAGATGTTGGATGATGAAGAAAAAATTAACTTCATTACTTGAATAAGCAAAAAG
Found at i:17045796 original size:29 final size:30
Alignment explanation
Indices: 17045764--17045822 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17045754 TAAAATAATC
17045764 ATTTAATATT-ATC-ACTTAATTAAATTAAA
1 ATTTAATATTAATCTA-TTAATTAAATTAAA
* *
17045793 ATTTATTATTAATCTATTAATTAATTTAAA
1 ATTTAATATTAATCTATTAATTAAATTAAA
17045823 TTAACGTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 9 0.35
30 16 0.62
31 1 0.04
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTTAATATTAATCTATTAATTAAATTAAA
Found at i:17049175 original size:47 final size:47
Alignment explanation
Indices: 17049101--17049204 Score: 172
Period size: 47 Copynumber: 2.2 Consensus size: 47
17049091 ACTAGCATTA
* *
17049101 ACTTTAAGTAATCTCCCTTTGACATTTTACAACAAAAACTCATCACC
1 ACTTCAAGTAATCTCCCCTTGACATTTTACAACAAAAACTCATCACC
*
17049148 ACTTCAAGTAATCTCCCCTTGACATTTTACAACAAAAACTTATCACC
1 ACTTCAAGTAATCTCCCCTTGACATTTTACAACAAAAACTCATCACC
*
17049195 ACGTCAAGTA
1 ACTTCAAGTA
17049205 GGAGTAAGCA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.30
Consensus pattern (47 bp):
ACTTCAAGTAATCTCCCCTTGACATTTTACAACAAAAACTCATCACC
Found at i:17050727 original size:20 final size:20
Alignment explanation
Indices: 17050702--17050741 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17050692 CGTAAAATGA
*
17050702 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
17050722 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
17050742 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:17050736 original size:34 final size:35
Alignment explanation
Indices: 17050688--17050753 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
17050678 AGTAAAATAA
*
17050688 TTTCCGTAAAATGATTT-CTGGAAAATGTTTTACT
1 TTTCCGTAAAATGATTTACTGGAAAATATTTTACT
*
17050722 TTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTCCGTAAAATGATTTACTGGAAAATATTTT
17050754 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (35 bp):
TTTCCGTAAAATGATTTACTGGAAAATATTTTACT
Found at i:17050856 original size:20 final size:20
Alignment explanation
Indices: 17050831--17050882 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
17050821 GGAAAATTTG
17050831 TTTTTACATATATT-AATAAA
1 TTTTTACATATATTAAAT-AA
* *
17050851 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATAA
17050869 TTTTTACATATATT
1 TTTTTACATATATT
17050883 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATAA
Found at i:17062319 original size:5 final size:5
Alignment explanation
Indices: 17062283--17062317 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
17062273 GACTTGTACA
17062283 TTCTT TTCTT TTCTT TTCTT TTCTT TT-TT TT-TT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
17062318 TTGAAGAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.27
5 22 0.73
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (5 bp):
TTCTT
Found at i:17063747 original size:9 final size:9
Alignment explanation
Indices: 17063728--17063764 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
17063718 TGAGTTTTCA
17063728 AATTCGAAT
1 AATTCGAAT
17063737 AACTT-GAAT
1 AA-TTCGAAT
17063746 AATTCGAAT
1 AATTCGAAT
17063755 AATTCGAAT
1 AATTCGAAT
17063764 A
1 A
17063765 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:17064306 original size:9 final size:9
Alignment explanation
Indices: 17064292--17064320 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
17064282 AATTTCACAT
17064292 TTTATATTA
1 TTTATATTA
17064301 TTTATATTA
1 TTTATATTA
17064310 TTTATATTA
1 TTTATATTA
17064319 TT
1 TT
17064321 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:17068649 original size:34 final size:34
Alignment explanation
Indices: 17068606--17068671 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
17068596 TTATAAATTT
17068606 TAAATTATTTATTAATGTGACATATGAGATAAAA
1 TAAATTATTTATTAATGTGACATATGAGATAAAA
17068640 TAAATTATTTATTAATGTGACATATGAGATAA
1 TAAATTATTTATTAATGTGACATATGAGATAA
17068672 GATATTGCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.39
Consensus pattern (34 bp):
TAAATTATTTATTAATGTGACATATGAGATAAAA
Found at i:17070084 original size:3 final size:3
Alignment explanation
Indices: 17070078--17070128 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
17070068 GCTATTTTTT
*
17070078 TTA TTA -TA TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
17070123 TCA TTA
1 TTA TTA
17070129 CATTTCCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:17070284 original size:33 final size:34
Alignment explanation
Indices: 17070218--17070290 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
17070208 TTTATACTTT
* * *
17070218 ATAATTTATATGCATATATACGTACATACATTTTG
1 ATAATATATATACATATACACGTACATA-ATTTTG
* *
17070253 ATAATATATATACATATGCACGTACAT-ATTTTT
1 ATAATATATATACATATACACGTACATAATTTTG
17070286 ATAAT
1 ATAAT
17070291 TTATTTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 10 0.30
35 23 0.70
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (34 bp):
ATAATATATATACATATACACGTACATAATTTTG
Found at i:17070325 original size:43 final size:43
Alignment explanation
Indices: 17070256--17070338 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
17070246 CATTTTGATA
17070256 ATATATATACATATGCACGTACATATTTT-TATAATTTATTTTT
1 ATATATATACATATGCAC-TACATATTTTATATAATTTATTTTT
* *
17070299 ATATATGTACATATGCA-TACTTATATTTTATATATTTTAT
1 ATATATATACATATGCACTAC--ATATTTTATATAATTTAT
17070339 AATTTGTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 3 0.09
43 23 0.66
44 9 0.26
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (43 bp):
ATATATATACATATGCACTACATATTTTATATAATTTATTTTT
Found at i:17070481 original size:8 final size:8
Alignment explanation
Indices: 17070464--17070492 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
17070454 TTATATATCT
17070464 TTTTAT-A
1 TTTTATAA
17070471 TTTTATAA
1 TTTTATAA
17070479 TTTTATAA
1 TTTTATAA
17070487 TTTTAT
1 TTTTAT
17070493 TTATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTTATAA
Found at i:17075801 original size:33 final size:33
Alignment explanation
Indices: 17075759--17075827 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
17075749 CACATTATTC
17075759 CTTTTTTCTTTTTCAAAGTACAGTGATAAATTA
1 CTTTTTTCTTTTTCAAAGTACAGTGATAAATTA
17075792 CTTTTTTCTTTTTCAAAGTACAGTGATAAATTA
1 CTTTTTTCTTTTTCAAAGTACAGTGATAAATTA
17075825 CTT
1 CTT
17075828 GTTTAGGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (33 bp):
CTTTTTTCTTTTTCAAAGTACAGTGATAAATTA
Found at i:17075920 original size:38 final size:38
Alignment explanation
Indices: 17075878--17075953 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
17075868 TCTTGTATTG
*
17075878 GGATCCATTTTGGTAAAGTAGTTGCTCTTTTTTCCCTT
1 GGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCCTT
*
17075916 GGATCCATTTTGGTAAAGTAATTGCTTTTTTTTCCCTT
1 GGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCCTT
17075954 TCCTCAACCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (38 bp):
GGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCCTT
Found at i:17077587 original size:39 final size:39
Alignment explanation
Indices: 17077490--17077575 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
17077480 TTTCCTTATG
*
17077490 CTATTACAACATCATTCCATCCAACCAAACACAAGAATA
1 CTATTACAACATTATTCCATCCAACCAAACACAAGAATA
17077529 CTATTACAACATTATTCCATCCAACCAAACACAAGAATA
1 CTATTACAACATTATTCCATCCAACCAAACACAAGAATA
17077568 CTATTACA
1 CTATTACA
17077576 GTTCTATTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.23
Consensus pattern (39 bp):
CTATTACAACATTATTCCATCCAACCAAACACAAGAATA
Found at i:17077591 original size:16 final size:16
Alignment explanation
Indices: 17077570--17077625 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
17077560 CAAGAATACT
*
17077570 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
* *
17077586 ATTACAGCTCTACTCA
1 ATTACAGCTCTATTCC
17077602 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
17077618 ATTACAGC
1 ATTACAGC
17077626 GAACCAAACG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:17077908 original size:21 final size:22
Alignment explanation
Indices: 17077866--17077914 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
17077856 AATTTAAAAT
17077866 AAATAACATATAAGACAATTTA
1 AAATAACATATAAGACAATTTA
*
17077888 AAATAATATATAA-A-AAGTTTA
1 AAATAACATATAAGACAA-TTTA
17077909 AAATAA
1 AAATAA
17077915 ATAATATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 12 0.48
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (22 bp):
AAATAACATATAAGACAATTTA
Found at i:17077916 original size:25 final size:25
Alignment explanation
Indices: 17077764--17078151 Score: 182
Period size: 26 Copynumber: 15.2 Consensus size: 25
17077754 AAGCGAACCA
* *
17077764 AAATAATATATAGAACAA-TTTGAAGT
1 AAATAATATATA-AA-AAGTTTAAAAT
* *
17077790 AAATAGTATA-AAACAA-TTTAAAGT
1 AAATAATATATAAA-AAGTTTAAAAT
* **
17077814 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATATAAAA-AGTTTAAAAT
* * * *
17077840 AAACAACATACAAAAAAATTTAAAAT
1 AAATAATATA-TAAAAAGTTTAAAAT
*
17077866 AAATAACATATAAGACAA-TTT---A-
1 AAATAATATATAA-A-AAGTTTAAAAT
17077888 AAATAATATATAAAAAGTTTAAAAT
1 AAATAATATATAAAAAGTTTAAAAT
* *
17077913 AAATAATATGTAAAAAGAAGTTTCAAAT
1 AAATAATA--TATAAA-AAGTTTAAAAT
*
17077941 AAATAATATACAAAACAGTTTAAAAAT
1 AAATAATATATAAAA-AGTTT-AAAAT
* *
17077968 AAATGATATGTATAAAAACAATTTAAAAT
1 AAAT-A-ATATAT-AAAA-AGTTTAAAAT
*
17077997 AAAT-ATATATATAACAGTTTAAAAAT
1 AAATAATATATA-AAAAGTTT-AAAAT
*
17078023 AAATAATATATAAAAA---T-GAAT
1 AAATAATATATAAAAAGTTTAAAAT
* *
17078044 -AATAGT-T-TGAAATAGTTTAAAAT
1 AAATAATATAT-AAAAAGTTTAAAAT
* * * * *
17078067 ACATTATATGTGAAAAA-CTTGAAAT
1 AAATAATATAT-AAAAAGTTTAAAAT
*
17078092 AAATAATA-ATAAAACAATTTAAAAT
1 AAATAATATATAAAA-AGTTTAAAAT
17078117 AAATAATATATGAGAAAAAGGTTTAAAAT
1 AAATAATATAT---AAAAA-GTTTAAAAT
17078146 AAATAA
1 AAATAA
17078152 ATGAATAACA
Statistics
Matches: 284, Mismatches: 41, Indels: 71
0.72 0.10 0.18
Matches are distributed among these distances:
18 1 0.00
19 5 0.02
20 7 0.02
21 7 0.02
22 13 0.05
23 9 0.03
24 27 0.10
25 48 0.17
26 81 0.29
27 26 0.09
28 20 0.07
29 31 0.11
30 9 0.03
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (25 bp):
AAATAATATATAAAAAGTTTAAAAT
Found at i:17077977 original size:55 final size:55
Alignment explanation
Indices: 17077791--17078038 Score: 218
Period size: 55 Copynumber: 4.7 Consensus size: 55
17077781 ATTTGAAGTA
* * * *
17077791 AATAGTATAAAACAATTT-AAAGTAAATAATATGT--AAAACAAATTAAAATAAAC
1 AATA-TATAAAACAGTTTAAAAATAAATAATATGTAAAAAACAATTTAAAATAAAT
* * * * * * *
17077844 AACATACAAAAAAATTT-AAAATAAATAACA--TATAAGACAATTT---A-AAAT
1 AATATATAAAACAGTTTAAAAATAAATAATATGTAAAAAACAATTTAAAATAAAT
* *
17077892 AATATATAAAA-AGTTT-AAAATAAATAATATGTAAAAAGA-AGTTTCAAATAAAT
1 AATATATAAAACAGTTTAAAAATAAATAATATGTAAAAA-ACAATTTAAAATAAAT
* *
17077945 AATATACAAAACAGTTTAAAAATAAATGATATGTATAAAAACAATTTAAAATAAAT
1 AATATATAAAACAGTTTAAAAATAAATAATATGTA-AAAAACAATTTAAAATAAAT
* *
17078001 -ATATATATAACAGTTTAAAAATAAATAATATATAAAAA
1 AATATATAAAACAGTTTAAAAATAAATAATATGTAAAAA
17078039 TGAATAATAG
Statistics
Matches: 159, Mismatches: 23, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
47 16 0.10
48 12 0.08
49 9 0.06
50 2 0.01
52 31 0.19
53 17 0.11
54 9 0.06
55 47 0.30
56 16 0.10
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (55 bp):
AATATATAAAACAGTTTAAAAATAAATAATATGTAAAAAACAATTTAAAATAAAT
Found at i:17078022 original size:110 final size:100
Alignment explanation
Indices: 17077764--17078038 Score: 293
Period size: 102 Copynumber: 2.6 Consensus size: 100
17077754 AAGCGAACCA
* * * * * *
17077764 AAATAATATATAGAACAATTTGAAGTAAATAGTATAAAACAATTTAAAGTAAATAATATGTAAAA
1 AAATAACATATAAAACAATTTAAAATAAATA-TATAAAACAGTTTAAAATAAATAATATGTAAAA
17077829 CAAATTAAAATAAACAACATACAAAAAAATTTAAAAT
65 -AAATTAAAATAAACAACATACAAAAAAATTTAAAAT
*
17077866 AAATAACATATAAGACAATTTAAAAT-AATATATAAAA-AGTTTAAAATAAATAATATGTAAAAA
1 AAATAACATATAAAACAATTTAAAATAAATATATAAAACAGTTTAAAATAAATAATATGTAAAAA
* * * * *
17077929 GAAGTTTCAAATAAATAATATACAAAACAGTTTAAAAAT
66 -AA--TTAAAATAAACAACATACAAAAAAATTT-AAAAT
** *
17077968 AAATGATATGTATAAAAACAATTTAAAATAAATATATATATAACAGTTTAAAAATAAATAATATA
1 AAAT-A-ACATAT-AAAACAATTTAAAATAAATATATA-A-AACAGTTT-AAAATAAATAATATG
17078033 TAAAAA
60 TAAAAA
17078039 TGAATAATAG
Statistics
Matches: 145, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
98 1 0.01
99 25 0.17
100 7 0.05
101 27 0.19
102 30 0.21
103 1 0.01
104 4 0.03
105 14 0.10
106 8 0.06
107 1 0.01
108 2 0.01
109 5 0.03
110 20 0.14
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.28
Consensus pattern (100 bp):
AAATAACATATAAAACAATTTAAAATAAATATATAAAACAGTTTAAAATAAATAATATGTAAAAA
AATTAAAATAAACAACATACAAAAAAATTTAAAAT
Found at i:17078120 original size:29 final size:29
Alignment explanation
Indices: 17078088--17078159 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
17078078 GAAAAACTTG
*
17078088 AAATAAATAATAATAAAACA-ATTTAAAAT
1 AAATAAATAATAAGAAAA-AGATTTAAAAT
* *
17078117 AAAT-AATATATGAGAAAAAGGTTTAAAAT
1 AAATAAATA-ATAAGAAAAAGATTTAAAAT
17078146 AAATAAATGAATAA
1 AAATAAAT-AATAA
17078160 CAAATTCGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
28 5 0.14
29 23 0.66
30 6 0.17
31 1 0.03
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.26
Consensus pattern (29 bp):
AAATAAATAATAAGAAAAAGATTTAAAAT
Found at i:17081160 original size:12 final size:12
Alignment explanation
Indices: 17081133--17081176 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
17081123 TTTGTTTGAG
*
17081133 ATAATAATTA-A
1 ATAAAAATTATA
17081144 ATAAAAATTATA
1 ATAAAAATTATA
17081156 ATAAAAATTAT-
1 ATAAAAATTATA
*
17081167 ATCAAAATTA
1 ATAAAAATTA
17081177 AAATTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 18 0.60
12 12 0.40
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAAAAATTATA
Found at i:17081164 original size:23 final size:23
Alignment explanation
Indices: 17081133--17081176 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17081123 TTTGTTTGAG
*
17081133 ATAATAATTAAATAAAAATTATA
1 ATAAAAATTAAATAAAAATTATA
* *
17081156 ATAAAAATTATATCAAAATTA
1 ATAAAAATTAAATAAAAATTA
17081177 AAATTATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAAAAATTAAATAAAAATTATA
Found at i:17081191 original size:16 final size:17
Alignment explanation
Indices: 17081159--17081196 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17081149 AATTATAATA
17081159 AAAATTATATCAAAATT
1 AAAATTATATCAAAATT
*
17081176 AAAATTAT-TTAAAATT
1 AAAATTATATCAAAATT
*
17081192 TAAAT
1 AAAAT
17081197 AAATAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTATATCAAAATT
Found at i:17088335 original size:20 final size:21
Alignment explanation
Indices: 17088312--17088427 Score: 57
Period size: 19 Copynumber: 5.8 Consensus size: 21
17088302 AAATTACAAA
17088312 AAAAAATTC-AAAATATTTAT
1 AAAAAATTCTAAAATATTTAT
* * *
17088332 -AAAAATTCTTATATATTTTT
1 AAAAAATTCTAAAATATTTAT
* * *
17088352 AAAAAA-TATATAAT-TTTTT
1 AAAAAATTCTAAAATATTTAT
* **
17088371 AAAAAGATTCTAAAAAAAATAT
1 AAAAA-ATTCTAAAATATTTAT
* *
17088393 AAAGAAAGT-TAAAA-AATTA-
1 AAA-AAATTCTAAAATATTTAT
*
17088412 AAAATATTCTAAAATA
1 AAAAAATTCTAAAATA
17088428 ATAACTTTGG
Statistics
Matches: 71, Mismatches: 17, Indels: 16
0.68 0.16 0.15
Matches are distributed among these distances:
18 3 0.04
19 26 0.37
20 18 0.25
21 15 0.21
22 7 0.10
23 2 0.03
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAATTCTAAAATATTTAT
Found at i:17099982 original size:24 final size:23
Alignment explanation
Indices: 17099940--17099984 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
17099930 AAATAATTAT
17099940 AAATATAATAATAAAATTTTTAA
1 AAATATAATAATAAAATTTTTAA
* *
17099963 AAATATTAATAATTATATTTTT
1 AAATA-TAATAATAAAATTTTT
17099985 TTAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATATAATAATAAAATTTTTAA
Found at i:17102011 original size:17 final size:19
Alignment explanation
Indices: 17101982--17102029 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
17101972 TATAATTTCT
*
17101982 TTTTGAATT-TTTTAT-AC
1 TTTTAAATTATTTTATAAC
*
17101999 TTTTAAA-TATTTTATAAT
1 TTTTAAATTATTTTATAAC
17102017 TTTTAAATTATTT
1 TTTTAAATTATTT
17102030 GTTGACGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 1 0.04
17 12 0.46
18 8 0.31
19 5 0.19
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTAAATTATTTTATAAC
Found at i:17102011 original size:18 final size:20
Alignment explanation
Indices: 17101990--17102029 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
17101980 CTTTTTGAAT
17101990 TTTTTAT-ACTTTTAAA-TA
1 TTTTTATAACTTTTAAATTA
*
17102008 -TTTTATAATTTTTAAATTA
1 TTTTTATAACTTTTAAATTA
17102027 TTT
1 TTT
17102030 GTTGACGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
17 6 0.33
18 8 0.44
19 2 0.11
20 2 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTATAACTTTTAAATTA
Found at i:17118284 original size:124 final size:122
Alignment explanation
Indices: 17118037--17118378 Score: 528
Period size: 124 Copynumber: 2.8 Consensus size: 122
17118027 TTTCGAGTTA
* *
17118037 ACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGTAGGATGCTATTTGAGAAGAATTTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
* *
17118102 T---CCTCGTGGACACGCTTTTGCTACAGTAGGTCATGGATGAAATAATTTTTTTTG
66 TCCGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTTTTG
* * *
17118156 ACGTTTCTGAGCAAATAGTATAAAATCGATTCTAGCAGGATGCTATTTGAGACGAATTAGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
*
17118221 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATATTTTTTTTTG
66 TC-CG-CCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTTTTG
*
17118280 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAGTTTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
* *
17118345 TCACGGCTTCGTGGACGCGTTTTTGCTACAGTAG
66 TC-C-GCCTCGTGGACGCGCTTTTGCTACAGTAG
17118379 CATGTTTGGG
Statistics
Matches: 202, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
119 61 0.30
124 140 0.69
125 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (122 bp):
ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
TCCGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTTTTG
Found at i:17120954 original size:12 final size:12
Alignment explanation
Indices: 17120931--17120966 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
17120921 ATTTTTATGG
17120931 TTTAAAAA-ATT
1 TTTAAAAATATT
17120942 TTTAAAAATATT
1 TTTAAAAATATT
*
17120954 TTTAAAATTATT
1 TTTAAAAATATT
17120966 T
1 T
17120967 AAAAAAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTAAAAATATT
Found at i:17120972 original size:12 final size:11
Alignment explanation
Indices: 17120931--17120972 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
17120921 ATTTTTATGG
17120931 TTTAAAAAATT
1 TTTAAAAAATT
17120942 TTTAAAAATATT
1 TTTAAAAA-ATT
17120954 TTT--AAAATT
1 TTTAAAAAATT
17120963 ATTTAAAAAA
1 -TTTAAAAAA
17120973 GGGAGTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.11
10 6 0.22
11 8 0.30
12 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAAAATT
Found at i:17121059 original size:11 final size:11
Alignment explanation
Indices: 17121043--17121078 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
17121033 GAGAATTTTT
17121043 GAGGAAATTGA
1 GAGGAAATTGA
17121054 GAGGAAATTGA
1 GAGGAAATTGA
*
17121065 AAGGAAATTTGA
1 GAGGAAA-TTGA
17121077 GA
1 GA
17121079 AAGGATTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.19
Consensus pattern (11 bp):
GAGGAAATTGA
Found at i:17124842 original size:24 final size:24
Alignment explanation
Indices: 17124770--17124899 Score: 97
Period size: 24 Copynumber: 5.3 Consensus size: 24
17124760 GTATACTGTA
*
17124770 AAAAAAAGCATATATATATTATAT
1 AAAAAATGCATATATATATTATAT
* * *
17124794 AAAAAA-CCA-ATGCGTGCATACTATAT
1 AAAAAATGCATAT--AT--ATATTATAT
17124820 AAAAAATGCATATATATATTATAT
1 AAAAAATGCATATATATATTATAT
* * **
17124844 AAAAAACGCGTGCATACTA-TATAT
1 AAAAAATGCATATATA-TATTATAT
*
17124868 -AAAAATGCGTATATATATTATTAT
1 AAAAAATGCATATATATATTA-TAT
17124892 AAAAAATG
1 AAAAAATG
17124900 TGTATGTATA
Statistics
Matches: 83, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
22 4 0.05
23 16 0.19
24 35 0.42
25 9 0.11
26 15 0.18
27 2 0.02
28 2 0.02
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.31
Consensus pattern (24 bp):
AAAAAATGCATATATATATTATAT
Found at i:17124896 original size:47 final size:46
Alignment explanation
Indices: 17124762--17124897 Score: 184
Period size: 50 Copynumber: 2.8 Consensus size: 46
17124752 AGGTAGACGT
* *
17124762 ATACTGTA-AAAAAAAGCATATATATATTATATAAAAAACCAATGCGTGC
1 ATACTATATAAAAAATGCATATATATATTATATAAAAAA-C---GCGTGC
17124811 ATACTATATAAAAAATGCATATATATATTATATAAAAAACGCGTGC
1 ATACTATATAAAAAATGCATATATATATTATATAAAAAACGCGTGC
*
17124857 ATACTATATATAAAAATGCGTATATATATTATTATAAAAAA
1 ATACTATATA-AAAAATGCATATATATATTA-TATAAAAAA
17124898 TGTGTATGTA
Statistics
Matches: 81, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
46 16 0.20
47 19 0.23
48 9 0.11
49 8 0.10
50 29 0.36
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (46 bp):
ATACTATATAAAAAATGCATATATATATTATATAAAAAACGCGTGC
Found at i:17124904 original size:25 final size:24
Alignment explanation
Indices: 17124815--17124915 Score: 109
Period size: 24 Copynumber: 4.2 Consensus size: 24
17124805 GCGTGCATAC
*
17124815 TATATAAAAAATGCATATATATAT
1 TATATAAAAAATGCGTATATATAT
* **
17124839 TATATAAAAAACGCGTGCATACTA-
1 TATATAAAAAATGCGTATATA-TAT
17124863 TATAT-AAAAATGCGTATATATAT
1 TATATAAAAAATGCGTATATATAT
* *
17124886 TATTATAAAAAATGTGTATGTATA-
1 TA-TATAAAAAATGCGTATATATAT
17124910 TATATA
1 TATATA
17124916 GTAATAATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
22 2 0.03
23 18 0.28
24 27 0.42
25 17 0.27
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (24 bp):
TATATAAAAAATGCGTATATATAT
Found at i:17124925 original size:3 final size:3
Alignment explanation
Indices: 17124917--17124976 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
17124907 ATATATATAG
* *
17124917 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
17124965 AAA TAA TAA TAA
1 TAA TAA TAA TAA
17124977 CAATGTTAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:17126111 original size:14 final size:14
Alignment explanation
Indices: 17126084--17126122 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
17126074 TCTTCATTTG
17126084 TTTTGGGGCACTTGTA
1 TTTT-GGGC-CTTGTA
17126100 TTTTGGGCCTTGTA
1 TTTTGGGCCTTGTA
*
17126114 TTCTGGGCC
1 TTTTGGGCC
17126123 AGCTTGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.64
15 4 0.18
16 4 0.18
ACGTcount: A:0.08, C:0.18, G:0.31, T:0.44
Consensus pattern (14 bp):
TTTTGGGCCTTGTA
Found at i:17135284 original size:20 final size:20
Alignment explanation
Indices: 17135255--17135294 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17135245 TCTTTAACAA
*
17135255 AAAAAATATAAAACTATTTT
1 AAAAAATATAAAAATATTTT
*
17135275 AAAAACTATAAAAATATTTT
1 AAAAAATATAAAAATATTTT
17135295 TTTAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATATAAAAATATTTT
Found at i:17143554 original size:9 final size:9
Alignment explanation
Indices: 17143499--17143537 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
17143489 TTTTAATAAA
17143499 TTTATATTTT
1 TTTA-ATTTT
*
17143509 TCT-ATTTT
1 TTTAATTTT
17143517 TTTAATTTT
1 TTTAATTTT
17143526 TTTAATTTT
1 TTTAATTTT
17143535 TTT
1 TTT
17143538 TGTATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 7 0.27
9 17 0.65
10 2 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTAATTTT
Found at i:17144658 original size:46 final size:46
Alignment explanation
Indices: 17144600--17144695 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
17144590 TGTAGATTTA
17144600 AAATTTTAAAAACTCTTCATGAAGATTAAAATTTT-TAAGGCACAAC
1 AAATTTTAAAAACTCTTCATGAAGATT-AAATTTTATAAGGCACAAC
* * *
17144646 AAATTTTGAAAACTCTTGATGAAGATTAAATTTTATAAGGCACAGC
1 AAATTTTAAAAACTCTTCATGAAGATTAAATTTTATAAGGCACAAC
17144692 AAAT
1 AAAT
17144696 GTAAATGTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 7 0.15
46 39 0.85
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (46 bp):
AAATTTTAAAAACTCTTCATGAAGATTAAATTTTATAAGGCACAAC
Found at i:17146637 original size:24 final size:23
Alignment explanation
Indices: 17146609--17146662 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
17146599 AATATATAAT
*
17146609 ATTAATTTTAAATATTTTTAAATA
1 ATTAATTTTAAATATTTATAAA-A
* *
17146633 ATTAATATTAATTATTTATAAAA
1 ATTAATTTTAAATATTTATAAAA
*
17146656 TTTAATT
1 ATTAATT
17146663 AGAATATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTAATTTTAAATATTTATAAAA
Found at i:17146701 original size:14 final size:13
Alignment explanation
Indices: 17146659--17146709 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
17146649 TATAAAATTT
*
17146659 AATTAGAATATATA
1 AATTA-AATATAAA
* *
17146673 AATTATATTTAAA
1 AATTAAATATAAA
17146686 AATTTAAATATAAA
1 AA-TTAAATATAAA
17146700 AATTAAATAT
1 AATTAAATAT
17146710 TTGTAATTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 15 0.48
14 16 0.52
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
AATTAAATATAAA
Found at i:17149610 original size:30 final size:29
Alignment explanation
Indices: 17149553--17149610 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
17149543 CTCCAATTTC
17149553 ACCAGCAGAGGGGAAAGAAAATTTGGGGA
1 ACCAGCAGAGGGGAAAGAAAATTTGGGGA
17149582 ACCAGCAGAGGGGAAA-AAAACGTTTGGGG
1 ACCAGCAGAGGGGAAAGAAAA--TTTGGGG
17149611 GAGAATTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 4 0.15
29 16 0.59
30 7 0.26
ACGTcount: A:0.40, C:0.12, G:0.38, T:0.10
Consensus pattern (29 bp):
ACCAGCAGAGGGGAAAGAAAATTTGGGGA
Found at i:17167440 original size:5 final size:5
Alignment explanation
Indices: 17167432--17167460 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
17167422 TAAATATGAT
17167432 ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
1 ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
17167461 TAATATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATTAG
Found at i:17167467 original size:5 final size:5
Alignment explanation
Indices: 17167425--17167482 Score: 53
Period size: 5 Copynumber: 11.6 Consensus size: 5
17167415 TGAAGTATAA
* * * * * * *
17167425 ATATG ATATT AGATT AGATT AGATT AGATT AGATT ATAAT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
17167475 ATATT ATA
1 ATATT ATA
17167483 AAAGAAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (5 bp):
ATATT
Found at i:17167470 original size:15 final size:15
Alignment explanation
Indices: 17167430--17167482 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
17167420 TATAAATATG
*
17167430 ATATTAGATTAGATT
1 ATATTATATTAGATT
* *
17167445 AGATTAGATTAGATT
1 ATATTATATTAGATT
* *
17167460 ATAATATATTATATT
1 ATATTATATTAGATT
17167475 ATATTATA
1 ATATTATA
17167483 AAAGAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.47
Consensus pattern (15 bp):
ATATTATATTAGATT
Found at i:17168465 original size:25 final size:25
Alignment explanation
Indices: 17168437--17168490 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
17168427 TCTTTGATAT
17168437 TTAGCACGTCAGTGCTATCTGATT-A
1 TTAGCACGTCAGTGCTATCTG-TTCA
*
17168462 TTAGCACGTCAGTGCTCTCTGTTCA
1 TTAGCACGTCAGTGCTATCTGTTCA
17168487 TTAG
1 TTAG
17168491 TGCATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (25 bp):
TTAGCACGTCAGTGCTATCTGTTCA
Found at i:17173446 original size:37 final size:37
Alignment explanation
Indices: 17173396--17173474 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17173386 TTATTACGAA
* * *
17173396 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17173433 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17173470 GTCTT
1 GTCTT
17173475 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:17173687 original size:47 final size:47
Alignment explanation
Indices: 17173649--17174116 Score: 801
Period size: 47 Copynumber: 9.9 Consensus size: 47
17173639 CTTGTCACGT
* * *
17173649 ATATACACTTTCACATTCATCACATCTGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
17173696 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
*
17173743 ATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
*
17173790 ATATACACTTTCACATTCATCACCTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
*
17173837 ATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
*
17173884 ATATACACTTTCACATTCATCACCTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
*
17173931 ATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
17173978 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
* *
17174025 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATAT
1 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA-T-CACAC
*
17174074 ATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 AT--ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
17174117 CTATCATTTC
Statistics
Matches: 405, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 361 0.89
48 1 0.00
49 5 0.01
51 38 0.09
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
Found at i:17173846 original size:141 final size:141
Alignment explanation
Indices: 17173592--17174116 Score: 807
Period size: 141 Copynumber: 3.7 Consensus size: 141
17173582 CCTTTCGGGA
** * * * * * * * * **
17173592 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGCCTTGTCACGTATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
* *
17173657 TTTCACATTCATCACATCTGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
17173722 GGCTATTAGGC
131 GGCTATTAGGC
17173733 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
* * *
17173798 TTTCACATTCATCACCTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACGTC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
17173863 GGCTATTAGGC
131 GGCTATTAGGC
*
17173874 CTTATCACACATATACACTTTCACATTCATCACCTCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
* *
17173939 TTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
17174004 GGCTATTAGGC
131 GGCTATTAGGC
* * *
17174015 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATTACATATATACAT
1 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTA-T-CACACAT--AT
17174080 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
17174117 CTATCATTTC
Statistics
Matches: 355, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
141 312 0.88
142 1 0.00
143 5 0.01
145 37 0.10
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (141 bp):
CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCTATTAGGC
Found at i:17177168 original size:41 final size:41
Alignment explanation
Indices: 17177111--17177267 Score: 206
Period size: 41 Copynumber: 3.8 Consensus size: 41
17177101 TTATATAAAA
* * *
17177111 CACCGGCATAAAGCCTGCTAGGGACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCCGATACATTT
* *
17177152 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCCGATACATTT
* * * * *
17177193 CACCAGCACAGAGCCTGCTAGGCATAGAGGCTGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCCGATACATTT
* *
17177234 CACCGACACAGAGCCTGCTAGGCATAAAGCCCGA
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCCGA
17177268 ACTTACAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.17
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCCGATACATTT
Found at i:17177488 original size:47 final size:47
Alignment explanation
Indices: 17177372--17177511 Score: 145
Period size: 47 Copynumber: 2.9 Consensus size: 47
17177362 TAACTTCAAA
* * * *
17177372 TAATTTATTTCAATGCATAACAAATATATATATGCATTCGGCCATAGTT
1 TAATTCATTTCAATGCATAAC-AAT-TATATATACATTCAGCCATAGAT
* ** * * *
17177421 TAAGTCATTTCTCTGCATAACAGTTACATATACATTCAGCTATAGAT
1 TAATTCATTTCAATGCATAACAATTATATATACATTCAGCCATAGAT
* * *
17177468 TAATTCATTTCAATGTATAACAAATATATATACATTCGGCCATA
1 TAATTCATTTCAATGCATAACAATTATATATACATTCAGCCATA
17177512 ACCTATGTAA
Statistics
Matches: 72, Mismatches: 19, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
47 53 0.74
48 2 0.03
49 17 0.24
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (47 bp):
TAATTCATTTCAATGCATAACAATTATATATACATTCAGCCATAGAT
Found at i:17177598 original size:47 final size:47
Alignment explanation
Indices: 17177542--17177654 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
17177532 TTTATTTCAA
* * * *
17177542 TGCATAACAAATATATATGCATTCGGCCATAGTTTAATTCATTTCTC
1 TGCATAACAAATACATATACATTCAGCCATAGATTAATTCATTTCTC
* * **
17177589 TGCATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAA
1 TGCATAACAAATACATATACATTCAGCCATAGATTAATTCATTTCTC
**
17177636 TATATAACAAATACATATA
1 TGCATAACAAATACATATA
17177655 TATACATTCG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (47 bp):
TGCATAACAAATACATATACATTCAGCCATAGATTAATTCATTTCTC
Found at i:17177625 original size:155 final size:157
Alignment explanation
Indices: 17177336--17177654 Score: 545
Period size: 155 Copynumber: 2.1 Consensus size: 157
17177326 AACAATTCAC
* *
17177336 TATAT-TACATTCAGCCATAGCTTATGTAACTTCAAATAATTTATTTCAATGCATAACAAATATA
1 TATATATACATTCAGCCATAACCTATGTAACTTCAAATAATTTATTTCAATGCATAACAAATATA
*
17177400 TATATGCATTCGGCCATAGTTTAAGTCATTTCTCTGCATAACAGTTACATATACATTCAGCTATA
66 TATATGCATTCGGCCATAGTTTAAGTCATTTCTCTGCATAACAATTACATATACATTCAGCTATA
*
17177465 GATTAATTCATTTCAATGTATAACAAA
131 GATTAATTCATTTCAATATATAACAAA
* *
17177492 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAAC-AA-ATA
1 TATATATACATTCAGCCATAACCTATGTAACTTCAAATAATTTATTTCAATGCATAACAAATATA
*
17177555 TATATGCATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTACATATACATTCAGCTATA
66 TATATGCATTCGGCCATAGTTTAAGTCATTTCTCTGCATAACAATTACATATACATTCAGCTATA
17177620 GATTAATTCATTTCAATATATAACAAA
131 GATTAATTCATTTCAATATATAACAAA
*
17177647 TACATATA
1 TATATATA
17177655 TATACATTCG
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
155 99 0.64
156 7 0.05
157 48 0.31
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (157 bp):
TATATATACATTCAGCCATAACCTATGTAACTTCAAATAATTTATTTCAATGCATAACAAATATA
TATATGCATTCGGCCATAGTTTAAGTCATTTCTCTGCATAACAATTACATATACATTCAGCTATA
GATTAATTCATTTCAATATATAACAAA
Found at i:17179597 original size:85 final size:85
Alignment explanation
Indices: 17179454--17179609 Score: 312
Period size: 85 Copynumber: 1.8 Consensus size: 85
17179444 TAGTTTAGGC
17179454 TCCAACAACCCTTTTTAGTACTCTCAACATTTCTTAGGATACAATGTTATTACCTAACTCCTAAC
1 TCCAACAACCCTTTTTAGTACTCTCAACATTTCTTAGGATACAATGTTATTACCTAACTCCTAAC
17179519 TGCCATCTGAAATAGGTGTA
66 TGCCATCTGAAATAGGTGTA
17179539 TCCAACAACCCTTTTTAGTACTCTCAACATTTCTTAGGATACAATGTTATTACCTAACTCCTAAC
1 TCCAACAACCCTTTTTAGTACTCTCAACATTTCTTAGGATACAATGTTATTACCTAACTCCTAAC
17179604 TGCCAT
66 TGCCAT
17179610 TTGAGAATTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (85 bp):
TCCAACAACCCTTTTTAGTACTCTCAACATTTCTTAGGATACAATGTTATTACCTAACTCCTAAC
TGCCATCTGAAATAGGTGTA
Found at i:17181449 original size:438 final size:438
Alignment explanation
Indices: 17180583--17182337 Score: 2631
Period size: 438 Copynumber: 4.0 Consensus size: 438
17180573 CTGTATGACA
** * * * *
17180583 CATTGTACTGGAACCGGGCTTGTTTGTTGGCAATCAATATTGAGACAATAATGGTTGGCATGTCT
1 CATTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTGAGACAAGAATGGTTGGCGTGTCT
* * * * *
17180648 TTTACCAATGGCCACAATTGCATATCATTTTTGCATCTAGCTTCTTATGATCTTACATTATACGT
66 TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGTTATACAT
** * * *
17180713 TCTGCAGTGTATGTATGGGGCTTTTCCAATTTGCTGAATGTCTACA-TTGAGTCATTTGTATAAG
131 TCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCATTTGTATAAG
* * * *
17180777 TGCAACACTAACCCACCATTTACACTATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTCA
196 TGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTCG
*
17180842 ATGTTGACTTGGTGACTTT-TAGTCCACAGACACCTACATGCTATACATTTTTATTGCAATAACA
261 ATGTTGACTTGGTGACTTTGTAATCCACAGACACCTACATGCTATACATTTTTATTGCAATAACA
* *
17180906 CAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAGCAACTCATCAAAATTTGTATCTTCCATCGA
326 CAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCGA
*
17180971 ACGGTGAGCACGCATTATATCTAGCTACTCAAGGAACTCTGGTACATG
391 ACGGTGAGCACGCATTATATCTAGGTACTCAAGGAACTCTGGTACATG
* *
17181019 CGTTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTAAGACAAGAATGGTTGGCGTGTCT
1 CATTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTGAGACAAGAATGGTTGGCGTGTCT
* *
17181084 TTCACCAATGGTCACAATTACAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGTTATACAT
66 TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGTTATACAT
* *
17181149 TCTGCAGTGTATGTATGAGGCCCTTCCAATTTGTTGATTGTCCACATTTAAGTCATTTGTATAAG
131 TCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCATTTGTATAAG
* *
17181214 TGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACATTCCCTAACGTATAATGTCG
196 TGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTCG
* * * * *
17181279 GTGCTGAGTTGGTGACTTTGTAATCCATC-GACACGTACATGCTATACCTTTTTATTGCAATAAC
261 ATGTTGACTTGGTGACTTTGTAATCCA-CAGACACCTACATGCTATACATTTTTATTGCAATAAC
*
17181343 ACAATCCTCCTTGTTCACGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCG
325 ACAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCG
* *
17181408 AACGGTGAGTACGCATTATATCTAGGTACTCAGGGAACTCTGGTACATG
390 AACGGTGAGCACGCATTATATCTAGGTACTCAAGGAACTCTGGTACATG
* *
17181457 CATTGTACTGGAACCGGGCTTGCTTGTCGGCAATCAATACTGAGACAATAATGGTTGGCGTGTCT
1 CATTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTGAGACAAGAATGGTTGGCGTGTCT
* *
17181522 TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTATGTCATA-AG
66 TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGTTATACA-
*
17181586 TTCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCCTTTGTATAA
130 TTCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCATTTGTATAA
* * * *
17181651 GCGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCTAACATTCCCTAACGTATAATGTC
195 GTGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTC
* * * *
17181716 GGTGTTGAGTTAGTGACTTTGTAATCCACAGACACCTACATGCTATACCTTTTTATTGCAATAAC
260 GATGTTGACTTGGTGACTTTGTAATCCACAGACACCTACATGCTATACATTTTTATTGCAATAAC
* * * *
17181781 ACAATTCTACTTGTTCGCGAATTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCTGTCG
325 ACAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCG
* *
17181846 AACGGTGAGCACGCATTATATCTAGGTACTCAAAGAACTCTGGTGCATG
390 AACGGTGAGCACGCATTATATCTAGGTACTCAAGGAACTCTGGTACATG
* * * *
17181895 CATTGTACTGAAATCGGGCTTGCATGTCGGCAATCAATACTGAGACACGAATTGTTGGCGTGTCT
1 CATTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTGAGACAAGAATGGTTGGCGTGTCT
* * * * *
17181960 TTCACCAATGGCCATAGTTGCAGATCATTTTTTCATCTACCTTCCTATGATCTTACGTCT-TACG
66 TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGT-TATACA
* * * * *
17182024 TTCTGCAGTGTATGTATTGGGCCCTTCCAATTTGCTGATTGTCTATATTTGAGTCCTTTGTATAA
130 TTCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCATTTGTATAA
*
17182089 GTGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCAAACACTCCCCAACGTATAATGTC
195 GTGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTC
* * * *
17182154 GATGTTGACTTGGTGACTTTGTAGTCCACAGACGCCTACACGCTATACATTTTTATTGTAATAAC
260 GATGTTGACTTGGTGACTTTGTAATCCACAGACACCTACATGCTATACATTTTTATTGCAATAAC
* * * *
17182219 ACAATCCTCCTTGTTCGTGAACTGTTGCCCTATGAACAAGTCATCAAAATCTGTATCTTCTGTCG
325 ACAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCG
* * * * * * *
17182284 AACGATAAGCATGCATTATATATAAGTACTC-AGGAAACTCTGGTGCATA
390 AACGGTGAGCACGCATTATATCTAGGTACTCAAGG-AACTCTGGTACATG
17182333 CATTG
1 CATTG
17182338 CATCAAGGTC
Statistics
Matches: 1204, Mismatches: 107, Indels: 14
0.91 0.08 0.01
Matches are distributed among these distances:
436 155 0.13
437 96 0.08
438 952 0.79
439 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (438 bp):
CATTGTACTGGAACCGGGCTTGCATGTCGGCAATCAATACTGAGACAAGAATGGTTGGCGTGTCT
TTCACCAATGGCCACAATTGCAGATCATTTTTGCATCTAGCTTCCTATGATCTTACGTTATACAT
TCTGCAGTGTATGTATGGGGCCCTTCCAATTTGCTGATTGTCCACATTTAAGTCATTTGTATAAG
TGCAGCACGAACCCACCATTTACACCATTCTTAAGCTCTCCAACACTCCCCAACGTATAATGTCG
ATGTTGACTTGGTGACTTTGTAATCCACAGACACCTACATGCTATACATTTTTATTGCAATAACA
CAATCCTCCTTGTTCGCGAACTGTTGCCCTATGAACAACTCATCAAAATTTGTATCTTCCGTCGA
ACGGTGAGCACGCATTATATCTAGGTACTCAAGGAACTCTGGTACATG
Found at i:17185541 original size:17 final size:19
Alignment explanation
Indices: 17185504--17185541 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17185494 TAAAATATTA
*
17185504 ATATTAATTTATTTAAATT
1 ATATTAATTTATATAAATT
17185523 ATATTAATTT-TAT-AATT
1 ATATTAATTTATATAAATT
17185540 AT
1 AT
17185542 GTCAAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTAATTTATATAAATT
Found at i:17187080 original size:259 final size:259
Alignment explanation
Indices: 17186621--17187142 Score: 1044
Period size: 259 Copynumber: 2.0 Consensus size: 259
17186611 GATCATAGAT
17186621 GTTGAAATGAAGTATAAACCCTATCAACTCTTAAAACATGACTGAATAAATTAACAGCTAAGCTT
1 GTTGAAATGAAGTATAAACCCTATCAACTCTTAAAACATGACTGAATAAATTAACAGCTAAGCTT
17186686 CCAAATCAATTACATGCTTTTGTTGCAGGTTCCTCAACCGAGCATCATTAAAAGCTGAAGGAGAC
66 CCAAATCAATTACATGCTTTTGTTGCAGGTTCCTCAACCGAGCATCATTAAAAGCTGAAGGAGAC
17186751 ATTAAAACCGATGGCAGTGGCACAATAGCAAAGCCATGGAGACTTTGCAGTGTGCAACAAGTAGA
131 ATTAAAACCGATGGCAGTGGCACAATAGCAAAGCCATGGAGACTTTGCAGTGTGCAACAAGTAGA
17186816 AGATCTGAAAACCTTGGTCAGGATTCTCCCATTGTGGTCTTCAAGTATATTTCTATCCACCCCA
196 AGATCTGAAAACCTTGGTCAGGATTCTCCCATTGTGGTCTTCAAGTATATTTCTATCCACCCCA
17186880 GTTGAAATGAAGTATAAACCCTATCAACTCTTAAAACATGACTGAATAAATTAACAGCTAAGCTT
1 GTTGAAATGAAGTATAAACCCTATCAACTCTTAAAACATGACTGAATAAATTAACAGCTAAGCTT
17186945 CCAAATCAATTACATGCTTTTGTTGCAGGTTCCTCAACCGAGCATCATTAAAAGCTGAAGGAGAC
66 CCAAATCAATTACATGCTTTTGTTGCAGGTTCCTCAACCGAGCATCATTAAAAGCTGAAGGAGAC
17187010 ATTAAAACCGATGGCAGTGGCACAATAGCAAAGCCATGGAGACTTTGCAGTGTGCAACAAGTAGA
131 ATTAAAACCGATGGCAGTGGCACAATAGCAAAGCCATGGAGACTTTGCAGTGTGCAACAAGTAGA
17187075 AGATCTGAAAACCTTGGTCAGGATTCTCCCATTGTGGTCTTCAAGTATATTTCTATCCACCCCA
196 AGATCTGAAAACCTTGGTCAGGATTCTCCCATTGTGGTCTTCAAGTATATTTCTATCCACCCCA
17187139 GTTG
1 GTTG
17187143 CAATCCACAG
Statistics
Matches: 263, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
259 263 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (259 bp):
GTTGAAATGAAGTATAAACCCTATCAACTCTTAAAACATGACTGAATAAATTAACAGCTAAGCTT
CCAAATCAATTACATGCTTTTGTTGCAGGTTCCTCAACCGAGCATCATTAAAAGCTGAAGGAGAC
ATTAAAACCGATGGCAGTGGCACAATAGCAAAGCCATGGAGACTTTGCAGTGTGCAACAAGTAGA
AGATCTGAAAACCTTGGTCAGGATTCTCCCATTGTGGTCTTCAAGTATATTTCTATCCACCCCA
Found at i:17192985 original size:2 final size:2
Alignment explanation
Indices: 17192978--17193011 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17192968 AATGTTGCAT
17192978 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
17193012 AGAAGAAGAA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17207377 original size:17 final size:16
Alignment explanation
Indices: 17207344--17207401 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
17207334 AGTTTAATAG
*
17207344 TTTAATATTAAATTTAA
1 TTTAATATTATA-TTAA
17207361 TTTAATACTTATATTAA
1 TTTAATA-TTATATTAA
*
17207378 --TAATATTTTATTAA
1 TTTAATATTATATTAA
*
17207392 TTTAAAATTA
1 TTTAATATTA
17207402 AAGTGATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
16 6 0.18
17 11 0.32
18 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAATATTATATTAA
Found at i:17214287 original size:17 final size:18
Alignment explanation
Indices: 17214265--17214298 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17214255 AGCTAATCAA
17214265 ACTAA-TTAAAACAAGGT
1 ACTAATTTAAAACAAGGT
*
17214282 ACTAATTTAAAATAAGG
1 ACTAATTTAAAACAAGG
17214299 GATTAAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (18 bp):
ACTAATTTAAAACAAGGT
Found at i:17224340 original size:40 final size:39
Alignment explanation
Indices: 17224275--17224410 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 39
17224265 ACTATGTTTA
* * * * *
17224275 GCACTTAGTATGTGATTCGAGATAGCTTCAGCTATTTATG
1 GCACTTAGTGTGCGACT-GAGATAGCTTCGGCTATATATG
* *
17224315 GCACTTAGTGTGCGATTGGGAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGACTGAG-ATAGCTTCGGCTATATATG
* * * *
17224355 ACACTTAGTGTGTGAAACTGAGATAGCTTCGGCTATGTAAG
1 GCACTTAGTGTGCG--ACTGAGATAGCTTCGGCTATATATG
17224396 GCACTTAGTGTGCGA
1 GCACTTAGTGTGCGA
17224411 GATTATAATA
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.04
40 44 0.55
41 29 0.36
42 4 0.05
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (39 bp):
GCACTTAGTGTGCGACTGAGATAGCTTCGGCTATATATG
Found at i:17225184 original size:24 final size:24
Alignment explanation
Indices: 17225155--17225237 Score: 125
Period size: 23 Copynumber: 3.5 Consensus size: 24
17225145 TTTACATGAT
*
17225155 AAATGCTGTCCAATTTGATGCATA
1 AAATGCTGTCCAATTTGATGTATA
* *
17225179 AAATGCTGTCCAGTTTGGTGTAT-
1 AAATGCTGTCCAATTTGATGTATA
17225202 AAATGCTGTCCAATTTGATGTATA
1 AAATGCTGTCCAATTTGATGTATA
17225226 AAA-GCTGTCCAA
1 AAATGCTGTCCAA
17225238 AACAGGGTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
23 30 0.57
24 23 0.43
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (24 bp):
AAATGCTGTCCAATTTGATGTATA
Found at i:17230829 original size:16 final size:16
Alignment explanation
Indices: 17230808--17230838 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17230798 AAATATAATA
*
17230808 AAATATTTTAAAAAAT
1 AAATATTTGAAAAAAT
17230824 AAATATTTGAAAAAA
1 AAATATTTGAAAAAA
17230839 AATTAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATATTTGAAAAAAT
Found at i:17231219 original size:15 final size:15
Alignment explanation
Indices: 17231170--17231220 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
17231160 GTGCCTCAAG
*
17231170 TTATATTTTAGTCAT
1 TTATGTTTTAGTCAT
**
17231185 TTATG-TTT-GAAAT
1 TTATGTTTTAGTCAT
17231198 ATTATGTTTTAGTCAT
1 -TTATGTTTTAGTCAT
17231214 TTATGTT
1 TTATGTT
17231221 ATCATGTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 3 0.11
14 8 0.29
15 14 0.50
16 3 0.11
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.59
Consensus pattern (15 bp):
TTATGTTTTAGTCAT
Found at i:17234619 original size:25 final size:25
Alignment explanation
Indices: 17234574--17234696 Score: 117
Period size: 25 Copynumber: 5.0 Consensus size: 25
17234564 GTCATTAGGG
* *
17234574 TTACCGAT-TTCAGCTCTTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* *
17234598 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* * * *
17234623 TTACCGTTATTCGGCTCGAAGGAAC
1 TTACCGTTATTCAGCTCGTATGAGC
* * *
17234648 TTACCGTTATTCAACTCGGAAGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
17234673 TTACCGTT-TAT-AGCTCGTATGAGC
1 TTACCGTTAT-TCAGCTCGTATGAGC
17234697 ATACATGTAT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
24 19 0.23
25 62 0.77
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGTATGAGC
Found at i:17238316 original size:50 final size:50
Alignment explanation
Indices: 17238254--17238350 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
17238244 AAGAAGAAAC
* *
17238254 ATCTCTTTCTAAAATAATCAAGAATTATTAACACAATAAGCTATGATCGA
1 ATCTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGATCGA
* * * *
17238304 ATCTCTTACTAAAATGATCCATAATTATTAACACAATTAGCCATGAT
1 ATCTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGAT
17238351 TCGACAGGCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (50 bp):
ATCTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGATCGA
Found at i:17239172 original size:25 final size:27
Alignment explanation
Indices: 17239129--17239178 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
17239119 ACTCAACCGA
* *
17239129 ATTTTTTTATCCCAGTTAAATTCTGCT
1 ATTTTTTTATCCCAATTAAACTCTGCT
17239156 ATTTTTTT-T-CCAATTAAACTCTG
1 ATTTTTTTATCCCAATTAAACTCTG
17239179 GTTAGTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 1 0.05
27 8 0.38
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (27 bp):
ATTTTTTTATCCCAATTAAACTCTGCT
Found at i:17241781 original size:18 final size:18
Alignment explanation
Indices: 17241754--17241796 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
17241744 ATTTTTTTAA
17241754 ATTA-TTTTTGAATATAT
1 ATTATTTTTTGAATATAT
*
17241771 ATTATTTTTTGAATTTAT
1 ATTATTTTTTGAATATAT
17241789 A-TATTTTT
1 ATTATTTTT
17241797 AATTTCAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATTATTTTTTGAATATAT
Found at i:17242029 original size:23 final size:24
Alignment explanation
Indices: 17241990--17242040 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
17241980 ATAAAATTTT
*
17241990 TAAA-TATTTTTAGAAAATTAATA
1 TAAATTATTTGTAGAAAATTAATA
*
17242013 TAAATTATTTGTA-AAAATTAATT
1 TAAATTATTTGTAGAAAATTAATA
17242036 TAAAT
1 TAAAT
17242041 ACACAAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
TAAATTATTTGTAGAAAATTAATA
Found at i:17242143 original size:21 final size:21
Alignment explanation
Indices: 17242119--17242160 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17242109 CACAAGTAAA
17242119 GTTAGGGGGTTGACTAGTATT
1 GTTAGGGGGTTGACTAGTATT
17242140 GTTAGGGGGTTGACTAGTATT
1 GTTAGGGGGTTGACTAGTATT
17242161 CTATAAGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.38, T:0.38
Consensus pattern (21 bp):
GTTAGGGGGTTGACTAGTATT
Found at i:17247913 original size:12 final size:12
Alignment explanation
Indices: 17247896--17247943 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
17247886 ATAAATACCA
17247896 AAAAATTATTTT
1 AAAAATTATTTT
*
17247908 AAAAATTA---A
1 AAAAATTATTTT
*
17247917 AAAAAGTATTTT
1 AAAAATTATTTT
17247929 AAAAA-TATTTT
1 AAAAATTATTTT
17247940 AAAA
1 AAAA
17247944 TTAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
9 7 0.23
11 10 0.33
12 13 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:17247921 original size:21 final size:21
Alignment explanation
Indices: 17247895--17247934 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17247885 AATAAATACC
*
17247895 AAAAAATTATTTTAAAAATTA
1 AAAAAAGTATTTTAAAAATTA
17247916 AAAAAAGTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
17247935 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAAAGTATTTTAAAAATTA
Done.