Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397259.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_147.0, whole genome shotgun sequence
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: 10737078
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 75620 characters in sequence are not A, C, G, or T
File 19 of 22
Found at i:8316782 original size:4 final size:4
Alignment explanation
Indices: 8316766--8316794 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
8316756 GGGATAATGA
8316766 AAAG AAA- AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
8316795 TAAACAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:8319593 original size:2 final size:2
Alignment explanation
Indices: 8319586--8319615 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8319576 NNNNNNNNAA
8319586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8319616 GTAAATTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8338091 original size:21 final size:21
Alignment explanation
Indices: 8338065--8338110 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8338055 ATTTTTTTAT
* *
8338065 TATTTGTACTATTAT-ATATTA
1 TATTTG-ACTATAATGATATGA
8338086 TATTTGACTATAATGATATGA
1 TATTTGACTATAATGATATGA
8338107 TATT
1 TATT
8338111 GAATTCGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (21 bp):
TATTTGACTATAATGATATGA
Found at i:8343085 original size:24 final size:24
Alignment explanation
Indices: 8343034--8343085 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
8343024 AATATTATTG
*
8343034 TTATACGCCATGTACAAAAACATG
1 TTATACGCCATGTACAAAAACATA
* *
8343058 TTATACGTCATGTTGCAAAAA-ATA
1 TTATACGCCATG-TACAAAAACATA
8343082 TTAT
1 TTAT
8343086 TGTTACACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (24 bp):
TTATACGCCATGTACAAAAACATA
Found at i:8343086 original size:82 final size:82
Alignment explanation
Indices: 8342853--8343086 Score: 256
Period size: 82 Copynumber: 2.8 Consensus size: 82
8342843 GTCCTGTTGA
* * * ** * **
8342853 AAAAAAAAATATTGTTGTTATACGGCATGTATAAAAACATGTTACACACCATGGTTAAATGATGT
1 AAAAAAAAATATTATTGTTATACGCCATGTACAAAAACATGTTACACGTCATAGTTAAAAAATGT
*
8342918 TGTTACACGCCATATTG
66 TATTACACGCCATATTG
* **** *
8342935 AAAAAAAAATATTATTATTATATTTTATGTACAAAAACATGTTACACGTCATAGTTAAAAAAAGG
1 AAAAAAAAATATTATTGTTATACGCCATGTACAAAAACATGTTACACGTCATAGTT-AAAAAATG
* *
8343000 TTATTACATGCTATATTG
65 TTATTACACGCCATATTG
*
8343018 -AAAAAAAATATTATTGTTATACGCCATGTACAAAAACATGTTATACGTCAT-GTTGCAAAAAAT
1 AAAAAAAAATATTATTGTTATACGCCATGTACAAAAACATGTTACACGTCATAGTT--AAAAAAT
*
8343081 ATTATT
64 GTTATT
8343087 GTTACACACC
Statistics
Matches: 125, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
81 3 0.02
82 102 0.82
83 20 0.16
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (82 bp):
AAAAAAAAATATTATTGTTATACGCCATGTACAAAAACATGTTACACGTCATAGTTAAAAAATGT
TATTACACGCCATATTG
Found at i:8343088 original size:54 final size:53
Alignment explanation
Indices: 8343019--8343189 Score: 182
Period size: 54 Copynumber: 3.1 Consensus size: 53
8343009 GCTATATTGA
8343019 AAAAAAATATTATTGTTATACGCCATGTACAAAAACATGTTATACGTCATGTTG
1 AAAAAAATATTATTGTTATAC-CCATGTACAAAAACATGTTATACGTCATGTTG
* * * ** *** *
8343073 CAAAAAATATTATTGTTACACACCATGGTTATATGATGTTGTTATACGTCATATTG
1 AAAAAAATATTATTGTTATAC-CCAT-G-TACAAAAACATGTTATACGTCATGTTG
* *
8343129 AAAAAAATATTATTATTATACCTCATGTACAAAAACATGTTATACGCCATGGTT-
1 AAAAAAATATTATTGTTATACC-CATGTACAAAAACATGTTATACGTCAT-GTTG
8343183 AAAAAAA
1 AAAAAAA
8343190 GGTTATTACA
Statistics
Matches: 92, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
54 46 0.50
55 5 0.05
56 41 0.45
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.34
Consensus pattern (53 bp):
AAAAAAATATTATTGTTATACCCATGTACAAAAACATGTTATACGTCATGTTG
Found at i:8343189 original size:56 final size:54
Alignment explanation
Indices: 8343018--8343189 Score: 175
Period size: 56 Copynumber: 3.1 Consensus size: 54
8343008 TGCTATATTG
*
8343018 AAAAAAAATATTATTGTTATACGCCATGTACAAAAACATGTTATACGTCATGTT
1 AAAAAAAATATTATTGTTATACACCATGTACAAAAACATGTTATACGTCATGTT
** * * ** *** *
8343072 GCAAAAAATATTATTGTTACACACCATGGTTATATGATGTTGTTATACGTCATATT
1 AAAAAAAATATTATTGTTATACACCAT-G-TACAAAAACATGTTATACGTCATGTT
* * *
8343128 GAAAAAAATATTATTATTATAC-CTCATGTACAAAAACATGTTATACGCCATGGTT
1 AAAAAAAATATTATTGTTATACAC-CATGTACAAAAACATGTTATACGTCAT-GTT
8343183 AAAAAAA
1 AAAAAAA
8343190 GGTTATTACA
Statistics
Matches: 91, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
54 39 0.43
55 11 0.12
56 41 0.45
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.34
Consensus pattern (54 bp):
AAAAAAAATATTATTGTTATACACCATGTACAAAAACATGTTATACGTCATGTT
Found at i:8343221 original size:192 final size:193
Alignment explanation
Indices: 8342892--8343251 Score: 587
Period size: 192 Copynumber: 1.9 Consensus size: 193
8342882 TATAAAAACA
8342892 TGTTACACACCATGGTTAAATGATGTTGTTACACGCCATATTGAAAAAAAAATATTATTATTATA
1 TGTTACACACCATGGTTAAATGATGTTGTTACACGCCATATTG-AAAAAAAATATTATTATTATA
** * * *
8342957 TTTTATGTACAAAAACATGTTACACGTCATAGTTAAAAAAAGGTTATTACATGCTATATTGAAAA
65 CCTCATGTACAAAAACATGTTACACGCCATAGTTAAAAAAAGGTTATTACATGCCATATTGAAAA
*
8343022 AAAATATTATTGTTATACGCCATGTACAAAAACATGTTATACGTCATGTTGCAAAAAATATTAT
130 AAAATATTATTATTATACGCCATGTACAAAAACATGTTATACGTCATGTTGCAAAAAATATTAT
* * *
8343086 TGTTACACACCATGGTTATATGATGTTGTTATACGTCATATTG-AAAAAAATATTATTATTATAC
1 TGTTACACACCATGGTTAAATGATGTTGTTACACGCCATATTGAAAAAAAATATTATTATTATAC
* *
8343150 CTCATGTACAAAAACATGTTATACGCCATGGTTAAAAAAAGGTTATTACATGCCATATTGAAAAA
66 CTCATGTACAAAAACATGTTACACGCCATAGTTAAAAAAAGGTTATTACATGCCATATTGAAAAA
* *
8343215 AAATATTATTATTATACGTCATGTATAAAAACATGTT
131 AAATATTATTATTATACGCCATGTACAAAAACATGTT
8343252 NNNNNNNNNN
Statistics
Matches: 153, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
192 113 0.74
194 40 0.26
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (193 bp):
TGTTACACACCATGGTTAAATGATGTTGTTACACGCCATATTGAAAAAAAATATTATTATTATAC
CTCATGTACAAAAACATGTTACACGCCATAGTTAAAAAAAGGTTATTACATGCCATATTGAAAAA
AAATATTATTATTATACGCCATGTACAAAAACATGTTATACGTCATGTTGCAAAAAATATTAT
Found at i:8348684 original size:6 final size:6
Alignment explanation
Indices: 8348673--8348701 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8348663 AATTGAACTA
8348673 AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
8348702 AATAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:8348877 original size:16 final size:16
Alignment explanation
Indices: 8348856--8348891 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
8348846 TAGTTATTCT
*
8348856 ATAAGAATATAATAAG
1 ATAAGAATATAATAAA
8348872 ATAAGAATATAATAAA
1 ATAAGAATATAATAAA
8348888 ATAA
1 ATAA
8348892 TTATTACGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (16 bp):
ATAAGAATATAATAAA
Found at i:8349094 original size:27 final size:23
Alignment explanation
Indices: 8349046--8349096 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 23
8349036 TTATTTATTT
8349046 TTATTTTATTTTTTAAAAATTAA
1 TTATTTTATTTTTTAAAAATTAA
8349069 TTATTTATAATTTATTTAAAATATTAA
1 TTATTT-T-ATTT-TTTAAAA-ATTAA
8349096 T
1 T
8349097 AATTGATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.25
24 1 0.04
25 4 0.17
26 7 0.29
27 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATTTTATTTTTTAAAAATTAA
Found at i:8349108 original size:27 final size:26
Alignment explanation
Indices: 8349053--8349109 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
8349043 TTTTTATTTT
* *
8349053 ATTT-TTTAAAAATTAATTATTTATA
1 ATTTATTTAAAAATTAATAATTGATA
*
8349078 ATTTATTTAAAATATTAATAATTGATC
1 ATTTATTTAAAA-ATTAATAATTGATA
8349105 ATTTA
1 ATTTA
8349110 AATGTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 4 0.15
26 7 0.26
27 16 0.59
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTTATTTAAAAATTAATAATTGATA
Found at i:8349135 original size:18 final size:18
Alignment explanation
Indices: 8349105--8349177 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 18
8349095 ATAATTGATC
8349105 ATTTA-AATGTTAATATTT
1 ATTTATAAT-TTAATATTT
8349123 ATTTATAATTTAATCATTAGT
1 ATTTATAATTTAAT-ATT--T
* *
8349144 ATTATAAAAAATTAATATTT
1 ATT-T-ATAATTTAATATTT
8349164 -TATTATAATTTAAT
1 AT-TTATAATTTAAT
8349178 TGTTATTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
18 18 0.41
19 8 0.18
20 2 0.05
21 4 0.09
22 4 0.09
23 8 0.18
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (18 bp):
ATTTATAATTTAATATTT
Found at i:8349212 original size:156 final size:157
Alignment explanation
Indices: 8349021--8349354 Score: 451
Period size: 156 Copynumber: 2.1 Consensus size: 157
8349011 AAAATATCTT
* * *
8349021 TTATTA-TATATATGATTATTTATTTTTATTTTATTTTTTAAAAATTAATTATTTATAATTTATT
1 TTATTAGTATA-ATTATTATTTATTTTTATTTTATTTTTTAAAAATTAATAATTTATAAATTATT
* * ** ** *
8349085 TAAAATATTAATAATTGATCATTTAAATGTTAATA-TTTATTTATAATTTAATCATTAGTATTAT
65 TAAAATATAAATAATTGATAATTTAAATAATAATATTTTATTTATAATTTAATCATTAACATGAT
8349149 AAAAAATTAATATTT-TATTATAATTTAA
130 AAAAAATTAATATTTAT-TTATAATTTAA
* * * ** *
8349177 TTGTTATTATGATTATTTATTTA-TTTTATTTTATTTTTTAAATCTTTATAATTTATAAATTATT
1 TTATTAGTATAATTA-TTATTTATTTTTATTTTATTTTTTAAAAATTAATAATTTATAAATTATT
*
8349241 TAAAATATAAATAATTGATAATTTAAATAATAATATTTTATTTATACTTTAATCATTAACATGAT
65 TAAAATATAAATAATTGATAATTTAAATAATAATATTTTATTTATAATTTAATCATTAACATGAT
*
8349306 AAAATATTAATATTTATTTATAATTTAA
130 AAAAAATTAATATTTATTTATAATTTAA
8349334 TTATTAGTATAATTATTATTT
1 TTATTAGTATAATTATTATTT
8349355 TTAAATTATT
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
156 81 0.53
157 72 0.47
158 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (157 bp):
TTATTAGTATAATTATTATTTATTTTTATTTTATTTTTTAAAAATTAATAATTTATAAATTATTT
AAAATATAAATAATTGATAATTTAAATAATAATATTTTATTTATAATTTAATCATTAACATGATA
AAAAATTAATATTTATTTATAATTTAA
Found at i:8349382 original size:156 final size:156
Alignment explanation
Indices: 8349071--8349374 Score: 398
Period size: 157 Copynumber: 1.9 Consensus size: 156
8349061 AAAATTAATT
* * * **
8349071 ATTTATAATTTATTTAAAATATTAATAATTGATCATTTAAATGTTAATATTTATTTATAATTTAA
1 ATTTATAAATTATTTAAAATATAAATAATTGATAATTTAAATAATAATATTTATTTATAATTTAA
** * * * *
8349136 TCATTAGTATTATAAAAAATTAATATTTTATTATAATTTAATTGTTATTATGATTATTTATTTAT
66 TCATTAACATGATAAAAAATTAATATTTTATTATAATTTAATTATTAGTATAATTATTTATTTAT
** **
8349201 TTTATTTTATTTTTTAAATCTTTATA
131 TAAATTTTATAATTTAAATCTTTATA
*
8349227 ATTTATAAATTATTTAAAATATAAATAATTGATAATTTAAATAATAATATTTTATTTATACTTTA
1 ATTTATAAATTATTTAAAATATAAATAATTGATAATTTAAATAATAATA-TTTATTTATAATTTA
*
8349292 ATCATTAACATGATAAAATATTAATA-TTTATTTATAATTTAATTATTAGTATAATTA-TTATTT
65 ATCATTAACATGATAAAAAATTAATATTTTA-TTATAATTTAATTATTAGTATAATTATTTATTT
8349355 -TTAAATTATTAATAATTTAA
129 ATTAAATT-TT-ATAATTTAA
8349375 TTATTATATT
Statistics
Matches: 127, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
155 5 0.04
156 56 0.44
157 66 0.52
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (156 bp):
ATTTATAAATTATTTAAAATATAAATAATTGATAATTTAAATAATAATATTTATTTATAATTTAA
TCATTAACATGATAAAAAATTAATATTTTATTATAATTTAATTATTAGTATAATTATTTATTTAT
TAAATTTTATAATTTAAATCTTTATA
Found at i:8349404 original size:157 final size:157
Alignment explanation
Indices: 8349077--8349410 Score: 371
Period size: 157 Copynumber: 2.1 Consensus size: 157
8349067 AATTATTTAT
* **
8349077 AATT-TATTTAAAATATTAATAATTGATCATTTAAATGTTAATATTTATTTATAATTTAATCATT
1 AATTATATTT-AAATATTAATAATTGATAATTTAAATAATAATATTTATTTATAATTTAATCATT
** * * * * **
8349141 AGTATTATAAAAAATTAATATTTTATTATAATTTAATTGTTATTATGATTATTTATTTATTTTAT
65 AACATGATAAAAAATTAATATTTTATTATAATTTAATTATTAGTATAATTATTTATTTATTAAAT
** *
8349206 TTTATTTTTTAAATCTTTATAATTTATA
130 TTTATAATTTAAATCTTTATAATTAATA
* * *
8349234 AATTAT-TTAAAATATAAATAATTGATAATTTAAATAATAATATTTTATTTATACTTTAATCATT
1 AATTATATTTAAATATTAATAATTGATAATTTAAATAATAATA-TTTATTTATAATTTAATCATT
*
8349298 AACATGATAAAATATTAATA-TTTATTTATAATTTAATTATTAGTATAATTA-TTATTT-TTAAA
65 AACATGATAAAAAATTAATATTTTA-TTATAATTTAATTATTAGTATAATTATTTATTTATTAAA
8349360 TTATTAATAATTT-AAT-TATTAT-ATTAAT-
129 TT-TT-ATAATTTAAATCT-TTATAATTAATA
8349388 AATTGATAATTTAAATATTAATA
1 AATT-AT-ATTTAAATATTAATA
8349411 CTTTATTATA
Statistics
Matches: 148, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
154 4 0.03
155 13 0.09
156 48 0.32
157 82 0.55
158 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.53
Consensus pattern (157 bp):
AATTATATTTAAATATTAATAATTGATAATTTAAATAATAATATTTATTTATAATTTAATCATTA
ACATGATAAAAAATTAATATTTTATTATAATTTAATTATTAGTATAATTATTTATTTATTAAATT
TTATAATTTAAATCTTTATAATTAATA
Found at i:8349415 original size:15 final size:15
Alignment explanation
Indices: 8349354--8349415 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
8349344 AATTATTATT
8349354 TTTAAATTATTAATAA
1 TTTAAA-TATTAATAA
*
8349370 TTTAATTATT-AT-A
1 TTTAAATATTAATAA
*
8349383 -TT-AATAATTGATAA
1 TTTAAAT-ATTAATAA
*
8349397 TTTAAATATTAATAC
1 TTTAAATATTAATAA
8349412 TTTA
1 TTTA
8349416 TTATAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
11 2 0.05
12 5 0.14
13 3 0.08
14 3 0.08
15 16 0.43
16 8 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TTTAAATATTAATAA
Found at i:8349432 original size:25 final size:24
Alignment explanation
Indices: 8349360--8349439 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 24
8349350 TATTTTTAAA
*
8349360 TTATTAATAATTTAATTATT-ATAT
1 TTATT-ATAATTTAAATATTAATAT
8349384 TAATAATTGATAATTTAAATATTAATACT
1 T--T-ATT-ATAATTTAAATATTAATA-T
8349413 TTATTATAATTT-AATCATTAATAT
1 TTATTATAATTTAAAT-ATTAATAT
8349437 TTA
1 TTA
8349440 AAAATATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
24 8 0.17
25 14 0.29
26 4 0.08
27 17 0.35
28 3 0.06
29 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.53
Consensus pattern (24 bp):
TTATTATAATTTAAATATTAATAT
Found at i:8349529 original size:27 final size:28
Alignment explanation
Indices: 8349476--8349538 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
8349466 AATATTAGTA
* * *
8349476 TGATTATTTATTTTTAAATATTTATAACT
1 TGATAATTTATTTTAAAATATTAATAA-T
8349505 T-ATAATTTA-TTTAAAATATTAATAAT
1 TGATAATTTATTTTAAAATATTAATAAT
8349531 TGATAATT
1 TGATAATT
8349539 AAAATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.07
27 20 0.67
28 7 0.23
29 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (28 bp):
TGATAATTTATTTTAAAATATTAATAAT
Found at i:8349565 original size:38 final size:39
Alignment explanation
Indices: 8349520--8349594 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
8349510 TTTATTTAAA
*
8349520 ATATTAAT-AATTGATAATT-AAAATATTAATACTTTATT
1 ATATTAATCAA-TAATAATTAAAAATATTAATACTTTATT
* *
8349558 ATATTAATCAATAATATTTAAAAATATTAATATTTTA
1 ATATTAATCAATAATAATTAAAAATATTAATACTTTA
8349595 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 14 0.44
39 18 0.56
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (39 bp):
ATATTAATCAATAATAATTAAAAATATTAATACTTTATT
Found at i:8349623 original size:140 final size:139
Alignment explanation
Indices: 8349206--8349594 Score: 512
Period size: 140 Copynumber: 2.8 Consensus size: 139
8349196 TTTATTTTAT
* * *
8349206 TTTATTTTTTAAATCTTTATAATTTATAAATTATTTAAAATATAAATAATTGATAATTTAAATAA
1 TTTA-TTTTTAAATATTTATAA-TTAT-AATTATTTAAAATATTAATAATTGATAATTTAAATAT
* * *
8349271 TAATATTTTATTTATACTTTAATCATTAACA-TGATAAAATATTAATA-TTTATTTATAATTTAA
63 TAATACTTTA-TTATA-TTTAATCATTAATATTTA-AAAATATTAATATTTTATTTATAATTTAA
*
8349334 TTATTAGTATAATTA
125 ATATTAGTATAATTA
*
8349349 -TTATTTTTAAATTATTAATAATT-TAATTA-TT---ATATTAATAATTGATAATTTAAATATTA
1 TTTATTTTTAAA-TATTTATAATTATAATTATTTAAAATATTAATAATTGATAATTTAAATATTA
8349408 ATACTTTATTATAATTTAATCATTAATATTTAAAAATATT-AT-TTTTATTTATAATTTAAATAT
65 ATACTTTATTAT-ATTTAATCATTAATATTTAAAAATATTAATATTTTATTTATAATTTAAATAT
*
8349471 TAGTATGATTA
129 TAGTATAATTA
*
8349482 TTTATTTTTAAATATTTATAACTTATAATTTATTTAAAATATTAATAATTGATAATTAAAATATT
1 TTTATTTTTAAATATTTATAA-TTATAA-TTATTTAAAATATTAATAATTGATAATTTAAATATT
*
8349547 AATACTTTATTATA-TTAATCAATAATATTTAAAAATATTAATATTTTA
64 AATACTTTATTATATTTAATCATTAATATTTAAAAATATTAATATTTTA
8349595 NNNNNNNNNN
Statistics
Matches: 220, Mismatches: 12, Indels: 31
0.84 0.05 0.12
Matches are distributed among these distances:
133 39 0.18
134 38 0.17
135 39 0.18
136 3 0.01
137 2 0.01
138 26 0.12
139 8 0.04
140 45 0.20
141 10 0.05
142 10 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (139 bp):
TTTATTTTTAAATATTTATAATTATAATTATTTAAAATATTAATAATTGATAATTTAAATATTAA
TACTTTATTATATTTAATCATTAATATTTAAAAATATTAATATTTTATTTATAATTTAAATATTA
GTATAATTA
Found at i:8352222 original size:14 final size:14
Alignment explanation
Indices: 8352203--8352234 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
8352193 CAGACAAAGC
8352203 TAATTGCCTTGAAG
1 TAATTGCCTTGAAG
8352217 TAATTGCCTTGAAG
1 TAATTGCCTTGAAG
8352231 TAAT
1 TAAT
8352235 GCATAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (14 bp):
TAATTGCCTTGAAG
Found at i:8360990 original size:14 final size:15
Alignment explanation
Indices: 8360953--8360996 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
8360943 TTGGCTGTTT
8360953 TAATTTATTTACTGA
1 TAATTTATTTACTGA
*
8360968 T-ATTT-TTTA-TGG
1 TAATTTATTTACTGA
8360980 TAATTTATTTACTGA
1 TAATTTATTTACTGA
8360995 TA
1 TA
8360997 TTGTAAAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 3 0.12
13 8 0.33
14 8 0.33
15 5 0.21
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.57
Consensus pattern (15 bp):
TAATTTATTTACTGA
Found at i:8361009 original size:27 final size:27
Alignment explanation
Indices: 8360953--8361009 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
8360943 TTGGCTGTTT
* * *
8360953 TAATTTATTTACTGATATTTTTTATGG
1 TAATTTATTTACTGATATTTGTAAAGG
8360980 TAATTTATTTACTGATA-TTGTAAAGCG
1 TAATTTATTTACTGATATTTGTAAAG-G
8361007 TAA
1 TAA
8361010 AGGAAACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (27 bp):
TAATTTATTTACTGATATTTGTAAAGG
Found at i:8370794 original size:34 final size:34
Alignment explanation
Indices: 8370739--8370805 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
8370729 ACTCCAGTCG
* * *
8370739 TAAACTACTTTTGGAATGCGATAACTCTAATGTA
1 TAAACTACTCTTAGAAAGCGATAACTCTAATGTA
8370773 TAAACTACTCTTAGAAAGCGATAACTCTAATGT
1 TAAACTACTCTTAGAAAGCGATAACTCTAATGT
8370806 TGTTAAATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (34 bp):
TAAACTACTCTTAGAAAGCGATAACTCTAATGTA
Found at i:8373570 original size:21 final size:21
Alignment explanation
Indices: 8373530--8373592 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
8373520 TTGGCATGGA
* * *
8373530 GAAGAAGACTCAATTTCCTTG
1 GAAGAAGACCCACTTCCCTTG
8373551 GAAGAAGACCCACTTCCCTT-
1 GAAGAAGACCCACTTCCCTTG
8373571 GAGAGAAGACCCACTTCCCTTG
1 GA-AGAAGACCCACTTCCCTTG
8373593 AGAGGTGCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.05
21 35 0.95
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (21 bp):
GAAGAAGACCCACTTCCCTTG
Found at i:8373593 original size:21 final size:21
Alignment explanation
Indices: 8373553--8373596 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
8373543 TTTCCTTGGA
8373553 AGAAGACCCACTTCCCTTGAG
1 AGAAGACCCACTTCCCTTGAG
8373574 AGAAGACCCACTTCCCTTGAG
1 AGAAGACCCACTTCCCTTGAG
8373595 AG
1 AG
8373597 GTGCCTGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (21 bp):
AGAAGACCCACTTCCCTTGAG
Found at i:8383123 original size:19 final size:19
Alignment explanation
Indices: 8383101--8383147 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
8383091 GAAAATCACA
8383101 ATTAATTTTACATTGATAT
1 ATTAATTTTACATTGATAT
*
8383120 ATTAATTTTACATTGATGT
1 ATTAATTTTACATTGATAT
*
8383139 ATTGATTTT
1 ATTAATTTT
8383148 TAGTGATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (19 bp):
ATTAATTTTACATTGATAT
Found at i:8398945 original size:21 final size:21
Alignment explanation
Indices: 8398921--8398960 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8398911 ACAATCCTAT
*
8398921 ATCCTTTCCCATACCTCCTTA
1 ATCCTCTCCCATACCTCCTTA
*
8398942 ATCCTCTCCCATATCTCCT
1 ATCCTCTCCCATACCTCCT
8398961 CAAATTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.45, G:0.00, T:0.38
Consensus pattern (21 bp):
ATCCTCTCCCATACCTCCTTA
Found at i:8409052 original size:18 final size:18
Alignment explanation
Indices: 8409029--8409124 Score: 138
Period size: 18 Copynumber: 5.3 Consensus size: 18
8409019 CCTCCAAGTT
8409029 CAAGTTCAAGTTCGGCTC
1 CAAGTTCAAGTTCGGCTC
8409047 CAAGTTCAAGTTCGGCTC
1 CAAGTTCAAGTTCGGCTC
* *
8409065 AAAGTTCAAGTTTGGCTC
1 CAAGTTCAAGTTCGGCTC
*
8409083 CAAGTTCAAGTTCTGCTC
1 CAAGTTCAAGTTCGGCTC
* * *
8409101 CAAGCTCAAATTCTGCTC
1 CAAGTTCAAGTTCGGCTC
8409119 CAAGTT
1 CAAGTT
8409125 TGGATTCTCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (18 bp):
CAAGTTCAAGTTCGGCTC
Found at i:8414547 original size:21 final size:21
Alignment explanation
Indices: 8414534--8414583 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
8414524 CCCCGGAGGG
*
8414534 CCCGCCCGGCCCCCCCGCCGC
1 CCCGCCCGGCCCCCCCGACGC
*
8414555 CCCGCCCGGCCCGTCCCCG-CCC
1 CCCGCCCGGCCC--CCCCGACGC
8414577 CCCGCCC
1 CCCGCCC
8414584 CCGCCGCGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.00, C:0.76, G:0.22, T:0.02
Consensus pattern (21 bp):
CCCGCCCGGCCCCCCCGACGC
Found at i:8414559 original size:5 final size:5
Alignment explanation
Indices: 8414534--8414788 Score: 106
Period size: 5 Copynumber: 50.6 Consensus size: 5
8414524 CCCCGGAGGG
* * * *
8414534 CCCGC CCGGC CCCCC CGCCGC CCCG- CCCGG CCCGTC CCCGC CCC-C CGC-C
1 CCCGC CCCGC CCCGC C-CCGC CCCGC CCCGC CCCG-C CCCGC CCCGC CCCGC
* * * *
8414583 CCCGC CGCGC CCCTC CCCGGC CCCCC CCCGC CCC-C CCCGTC GACTCGC
1 CCCGC CCCGC CCCGC CCC-GC CCCGC CCCGC CCCGC CCCG-C --CCCGC
* *
8414631 CCC-C CGGCC-C CGCGC CCCGGC CCC-C CCGCGC CCC-C CCCCC CCGGCGC
1 CCCGC C--CCGC CCCGC CCC-GC CCCGC CC-CGC CCCGC CCCGC CC--CGC
* * *
8414678 CCCCC CCCG- CCCGC CCC-T CCCGC CCC-C CCCCC CCCGC CCCGC CCC-C
1 CCCGC CCCGC CCCGC CCCGC CCCGC CCCGC CCCGC CCCGC CCCGC CCCGC
* * * * *
8414724 CCC-C CCCCC CCCCC CCCGC CGCC-C GCCCGG CCCTC CCCGC CCAGC TCCCGCC
1 CCCGC CCCGC CCCGC CCCGC C-CCGC -CCCGC CCCGC CCCGC CCCGC -CCCG-C
8414776 CCCGC CCCGC CCC
1 CCCGC CCCGC CCC
8414789 CCGCCCGACC
Statistics
Matches: 193, Mismatches: 30, Indels: 54
0.70 0.11 0.19
Matches are distributed among these distances:
4 43 0.22
5 106 0.55
6 35 0.18
7 6 0.03
8 3 0.02
ACGTcount: A:0.01, C:0.78, G:0.18, T:0.03
Consensus pattern (5 bp):
CCCGC
Found at i:8414587 original size:49 final size:49
Alignment explanation
Indices: 8414534--8414794 Score: 172
Period size: 54 Copynumber: 5.0 Consensus size: 49
8414524 CCCCGGAGGG
** *
8414534 CCCGCCCGGCCCCCCCGCCGCCCCGCCCGGCCCGTCCCCGCCCCCCGCC
1 CCCGCCCGGCCCCCCCGCCGCCCCGCCCCCCCCGCCCCCGCCCCCCGCC
* * * *
8414583 CCCGCCGCGCCCCTCCCCGGCCCCCCCCCGCCCCCCCCGTCGACTCGCCCCCCGGCC
1 CCCGCC-CGGCCC-CCCC-G--CCGCCCCGCCCCCCCCG-C-CCCCGCCCCCC-GCC
* *
8414640 CCGCGCCCCGGCCCCCCCG-CGCCCCCCCCCCCCGGCGCCCCCCCCCGCCCGCCCC
1 CC-CG-CCCGGCCCCCCCGCCGCCCCGCCCCCCC--CGCCCCCGCCC-CCCG--CC
* * *
8414695 TCCCGCCC--CCCCCCCCCCGCCCCGCCCCCCCCCCCCCCCCCCCCCCGCC
1 -CCCGCCCGGCCCCCCCGCCGCCCCG-CCCCCCCCGCCCCCGCCCCCCGCC
** *
8414744 GCCCGCCCGGCCCTCCCCGCC-CAGCTCCCGCCCCCG-CCCCGCCCCCCGCC
1 -CCCGCCCGGCCC-CCCCGCCGCCCCGCCC-CCCCCGCCCCCGCCCCCCGCC
8414794 C
1 C
8414795 GACCATAATG
Statistics
Matches: 167, Mismatches: 23, Indels: 44
0.71 0.10 0.19
Matches are distributed among these distances:
49 16 0.10
50 21 0.13
51 18 0.11
52 24 0.14
53 24 0.14
54 28 0.17
55 6 0.04
56 12 0.07
57 9 0.05
58 7 0.04
59 2 0.01
ACGTcount: A:0.01, C:0.79, G:0.18, T:0.03
Consensus pattern (49 bp):
CCCGCCCGGCCCCCCCGCCGCCCCGCCCCCCCCGCCCCCGCCCCCCGCC
Found at i:8414606 original size:21 final size:20
Alignment explanation
Indices: 8414542--8414790 Score: 125
Period size: 21 Copynumber: 11.9 Consensus size: 20
8414532 GGCCCGCCCG
* *
8414542 GCCCCCCCGCCGCCCCGCCC
1 GCCCCCCCCCCGCCCCCCCC
* **
8414562 GGCCCGTCCCCG--CCCCCC
1 GCCCCCCCCCCGCCCCCCCC
* *
8414580 GCCCCCGCCGCGCCCCTCCCC
1 GCCCCCCCCCCGCCCC-CCCC
*
8414601 GGCCCCCCCCCGCCCCCCCC
1 GCCCCCCCCCCGCCCCCCCC
* * *
8414621 GTCGACTCGCCCCCCG-GCCCCGC
1 G-C--C-CCCCCCCCGCCCCCCCC
*
8414644 GCCCCGGCCCCCC-CGCGCCCCC
1 GCCCC--CCCCCCGC-CCCCCCC
**
8414666 -CCCCCCCGGCGCCCCCCCCC
1 GCCCCCCCCCCG-CCCCCCCC
8414686 GCCCGCCCCTCCCGCCCCCCCC
1 GCCC-CCCC-CCCGCCCCCCCC
*
8414708 -CCCCCGCCCCGCCCCCCCC
1 GCCCCCCCCCCGCCCCCCCC
*
8414727 -CCCCCCCCCCCCCCGCCGCCC
1 GCCCCCCCCCCGCCC-CC-CCC
*
8414748 GCCCGGCCCTCCCCGCCCAGCTCCC
1 GCCC--CCC-CCCCGCCC--CCCCC
*
8414773 GCCCCCGCCCCGCCCCCC
1 GCCCCCCCCCCGCCCCCC
8414791 GCCCGACCAT
Statistics
Matches: 174, Mismatches: 32, Indels: 46
0.69 0.13 0.18
Matches are distributed among these distances:
18 13 0.07
19 29 0.17
20 29 0.17
21 37 0.21
22 28 0.16
23 11 0.06
24 11 0.06
25 14 0.08
26 2 0.01
ACGTcount: A:0.01, C:0.79, G:0.18, T:0.03
Consensus pattern (20 bp):
GCCCCCCCCCCGCCCCCCCC
Found at i:8414622 original size:54 final size:52
Alignment explanation
Indices: 8414554--8414794 Score: 162
Period size: 50 Copynumber: 4.6 Consensus size: 52
8414544 CCCCCCGCCG
**
8414554 CCCCGCCCGGCCCGTCCCCGCCCCCCGCCCCCGCCGCGCCCCTCCCCGGCCCCC
1 CCCCGCCCCCCCCG-CCCCGCCCCCCGCCCCCGCC-CGCCCCTCCCCGGCCCCC
* *
8414608 CCCCGCCCCCCCCGTCGACTCGCCCCCCGGCCCCGCGCCCCGGCCC-CCCCGCGCCCCC
1 CCCCGCCCCCCCCG-C--CCCGCCCCCC-GCCCC-CG-CCCGCCCCTCCCCG-GCCCCC
* * * * *
8414666 CCCC-CCCGGCGCCCCCCCCCGCCCGCCC-CTCCCGCCC-CCCCCCCCCCGCCCCG
1 CCCCGCCC--C-CCCCGCCCCGCCC-CCCGCCCCCGCCCGCCCCTCCCCGGCCCCC
* *
8414719 CCCC-CCCCCCCC-CCCC-CCCCCCGCCGCCCGCCCGGCCCTCCCC-GCCCAGC
1 CCCCGCCCCCCCCGCCCCGCCCCCCGCC-CCCGCCCGCCCCTCCCCGGCCC-CC
*
8414769 TCCCG---CCCCCGCCCCGCCCCCCGCCC
1 CCCCGCCCCCCCCGCCCCGCCCCCCGCCC
8414795 GACCATAATG
Statistics
Matches: 153, Mismatches: 16, Indels: 41
0.73 0.08 0.20
Matches are distributed among these distances:
47 3 0.02
48 9 0.06
49 20 0.13
50 23 0.15
51 1 0.01
53 15 0.10
54 21 0.14
55 2 0.01
56 12 0.08
57 19 0.12
58 20 0.13
59 4 0.03
60 4 0.03
ACGTcount: A:0.01, C:0.79, G:0.17, T:0.03
Consensus pattern (52 bp):
CCCCGCCCCCCCCGCCCCGCCCCCCGCCCCCGCCCGCCCCTCCCCGGCCCCC
Found at i:8414649 original size:69 final size:67
Alignment explanation
Indices: 8414555--8414790 Score: 182
Period size: 69 Copynumber: 3.4 Consensus size: 67
8414545 CCCCCGCCGC
* * *
8414555 CCCGCCCGGCCCGTCCCCGCCCCCCGCCCCCGCCGCG-CCCCTCCCC-G-GCCCCCCCCCGCCCC
1 CCCGCCC--CCCGCCCCCGCGCCCCGCCCCC-CCGCGCCCCCCCCCCGGCGCCCCCCCCCGCCCC
8414617 CCCCGT
63 CCCC-T
*
8414623 CGACTCGCCCCCCGGCCCCGCGCCCCGGCCCCCCCGCGCCCCCCCCCCCCGGCGCCCCCCCCCGC
1 C--C-CGCCCCCCGCCCCCGCGCCCC-GCCCCCCCGCG--CCCCCCCCCCGGCGCCCCCCCCCGC
*
8414688 CCGCCCCT
60 CCCCCCCT
* * ** * *
8414696 CCCGCCCCCC-CCCCCCCGCCCCGCCCCCCC-CCCCCCCCCCCCCCCGCCGCCCGCCCGGCCCTC
1 CCCGCCCCCCGCCCCCGCGCCCCGCCCCCCCGCGCCCCCCCCCCGGCGCC-CCC-CCCCGCCCCC
*
8414759 CCCG
64 CCCT
*
8414763 CCCAG-CTCCCG-CCCC-CGCCCCGCCCCCC
1 CCC-GCCCCCCGCCCCCGCGCCCCGCCCCCC
8414791 GCCCGACCAT
Statistics
Matches: 142, Mismatches: 13, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
65 14 0.10
66 16 0.11
67 23 0.16
68 10 0.07
69 29 0.20
70 15 0.11
71 6 0.04
72 8 0.06
73 3 0.02
74 18 0.13
ACGTcount: A:0.01, C:0.79, G:0.17, T:0.03
Consensus pattern (67 bp):
CCCGCCCCCCGCCCCCGCGCCCCGCCCCCCCGCGCCCCCCCCCCGGCGCCCCCCCCCGCCCCCCC
CT
Found at i:8414657 original size:1 final size:1
Alignment explanation
Indices: 8414651--8414740 Score: 81
Period size: 1 Copynumber: 90.0 Consensus size: 1
8414641 CGCGCCCCGG
* * ** * * * * * *
8414651 CCCCCCCGCGCCCCCCCCCCCCGGCGCCCCCCCCCGCCCGCCCCTCCCGCCCCCCCCCCCCCGCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
*
8414716 CCGCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
8414741 GCCGCCCGCC
Statistics
Matches: 69, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.00, C:0.88, G:0.11, T:0.01
Consensus pattern (1 bp):
C
Found at i:8414663 original size:87 final size:87
Alignment explanation
Indices: 8414542--8414707 Score: 214
Period size: 87 Copynumber: 1.9 Consensus size: 87
8414532 GGCCCGCCCG
* * *
8414542 GCCCCCCCGCCGCCCCGCCCGGCCCGTCCCCGCCCCCCGCCCCCGCCGCGCCCCTCCCCGGCC-C
1 GCCCCCCCGCCGCCCCGCCCGGCCCGCCCCCGCCCCCC-CCCCC-CCGCGCCCCCCCCCGCCCGC
8414606 CCC-CCCGCCCCCCCCGTCGACTC
64 CCCTCCCGCCCCCCCCGTCGACTC
* * *
8414629 GCCCCCCGGCC-CCGCGCCCCGGCCC-CCCCGCGCCCCCCCCCCCCGGCGCCCCCCCCCGCCCGC
1 GCCCCCCCGCCGCCCCG-CCCGGCCCGCCCC-CGCCCCCCCCCCCCCGCGCCCCCCCCCGCCCGC
8414692 CCCTCCCGCCCCCCCC
64 CCCTCCCGCCCCCCCC
8414708 CCCCCGCCCC
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
85 15 0.22
86 16 0.23
87 38 0.55
ACGTcount: A:0.01, C:0.77, G:0.19, T:0.03
Consensus pattern (87 bp):
GCCCCCCCGCCGCCCCGCCCGGCCCGCCCCCGCCCCCCCCCCCCCGCGCCCCCCCCCGCCCGCCC
CTCCCGCCCCCCCCGTCGACTC
Found at i:8414749 original size:62 final size:63
Alignment explanation
Indices: 8414543--8414790 Score: 197
Period size: 66 Copynumber: 3.9 Consensus size: 63
8414533 GCCCGCCCGG
* * *
8414543 CCCCCCCGCCGCCCCGCCCGGCCCGTCCC-CGCCC-CCCGCCCCCGCCGCGCCCCTCCCCGGCCC
1 CCCCCCCGCCG-CCCGCCC-GCCCCTCCCGC-CCCGCCCCCCCCCGCCCCGCCCC-CCCC--CCC
8414606 CCCC
60 CCCC
* * * * * *
8414610 CCGCCCCCCCCG-TCGACTCGCCCC-CCGGCCCCGCGCCCCGGCCC-CCCCGCGCCCCCCCCCCC
1 CC-CCCCCGCCGCCCG-CCCGCCCCTCCCGCCCCGC-CCCC-CCCCGCCCCGCCCCCCCCCCCCC
*
8414672 CG
62 CC
* *
8414674 GCGCCCC-CC-CCCGCCCGCCCCTCCCGCCCC-CCCCCCCCCGCCCCGCCCCCCCCCCCCCCC
1 CCCCCCCGCCGCCCGCCCGCCCCTCCCGCCCCGCCCCCCCCCGCCCCGCCCCCCCCCCCCCCC
* *
8414734 CCCCCCCGCCGCCCGCCCGGCCCTCCCCGCCCAGCTCCCGCCCCCGCCCCGCCCCCC
1 CCCCCCCGCCGCCCGCCCGCCCCT-CCCGCCCCGC-CCC-CCCCCGCCCCGCCCCCC
8414791 GCCCGACCAT
Statistics
Matches: 144, Mismatches: 22, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
59 3 0.02
60 27 0.19
61 10 0.07
62 23 0.16
63 11 0.08
64 8 0.06
65 8 0.06
66 29 0.20
67 14 0.10
68 11 0.08
ACGTcount: A:0.01, C:0.79, G:0.17, T:0.03
Consensus pattern (63 bp):
CCCCCCCGCCGCCCGCCCGCCCCTCCCGCCCCGCCCCCCCCCGCCCCGCCCCCCCCCCCCCCC
Found at i:8422676 original size:3 final size:3
Alignment explanation
Indices: 8422668--8422698 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8422658 GATGCTCTTG
8422668 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8422699 ATACCATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8426465 original size:2 final size:2
Alignment explanation
Indices: 8426409--8426450 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
8426399 CTAAAATAGA
* * *
8426409 AG AG AT AG AG AG AG AG AG AG AG GG AG GG AG AG -G AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8426450 A
1 A
8426451 AACTGTAGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.45, C:0.00, G:0.52, T:0.02
Consensus pattern (2 bp):
AG
Found at i:8428250 original size:18 final size:18
Alignment explanation
Indices: 8428227--8428270 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
8428217 GACAATAAGC
8428227 CAAATGGTGTAGTGAATT
1 CAAATGGTGTAGTGAATT
*
8428245 CAAATGGTGTGGTGAATT
1 CAAATGGTGTAGTGAATT
8428263 CAAATGGT
1 CAAATGGT
8428271 AATCCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (18 bp):
CAAATGGTGTAGTGAATT
Found at i:8437193 original size:15 final size:16
Alignment explanation
Indices: 8437168--8437197 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8437158 TTATACAAAT
8437168 ATTATCTAATTATCAA
1 ATTATCTAATTATCAA
8437184 ATTA-CTAATTATCA
1 ATTATCTAATTATCA
8437198 TTATTTTATA
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:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTATCTAATTATCAA
Found at i:8439913 original size:21 final size:21
Alignment explanation
Indices: 8439841--8439913 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
8439831 GTAATGTTAT
* *
8439841 AATTAAAATAAAAAT-TATTAA
1 AATTAAAATTAAAATATAAT-A
*
8439862 AATT-AAATATAAAATATAA-G
1 AATTAAAAT-TAAAATATAATA
8439882 AATTAGAAATTAAAATATAATA
1 AATTA-AAATTAAAATATAATA
8439904 AATTAAAATT
1 AATTAAAATT
8439914 TACATACTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 8 0.19
21 24 0.56
22 11 0.26
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
AATTAAAATTAAAATATAATA
Found at i:8439998 original size:34 final size:33
Alignment explanation
Indices: 8439938--8440024 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 33
8439928 AAAAGAAATT
* *
8439938 AAAATAAAATATATAATATA-ATAAATTATATTAA
1 AAAATAAAA-ATAAAATATATATAAATTATAAT-A
8439972 AGAAATAAAAATAAAATATATA-AAATTATAATA
1 A-AAATAAAAATAAAATATATATAAATTATAATA
*
8440005 AAAATGAAAATAAAATATAT
1 AAAATAAAAATAAAATATAT
8440025 GATATTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
32 18 0.38
33 2 0.04
34 19 0.40
35 9 0.19
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (33 bp):
AAAATAAAAATAAAATATATATAAATTATAATA
Found at i:8440024 original size:32 final size:33
Alignment explanation
Indices: 8439938--8440024 Score: 99
Period size: 32 Copynumber: 2.6 Consensus size: 33
8439928 AAAAGAAATT
*
8439938 AAAATAAAATATATAATATA-ATAAATTATATTAA
1 AAAATAAAATA-A-AATATATATAAATTATAATAA
8439972 AGAAATAAAAATAAAATATATA-AAATTATAAT-A
1 A-AAAT-AAAATAAAATATATATAAATTATAATAA
8440005 AAAATGAAAATAAAATATAT
1 AAAAT-AAAATAAAATATAT
8440025 GATATTAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
32 18 0.38
33 2 0.04
34 16 0.33
35 6 0.12
36 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (33 bp):
AAAATAAAATAAAATATATATAAATTATAATAA
Found at i:8440262 original size:15 final size:15
Alignment explanation
Indices: 8440242--8440283 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
8440232 ATTTTCCCTA
* *
8440242 CAATCACATTGCTTG
1 CAATCACATTACCTG
8440257 CAATCACATTACCTG
1 CAATCACATTACCTG
*
8440272 TAATCACATTAC
1 CAATCACATTAC
8440284 ATTGTAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.31
Consensus pattern (15 bp):
CAATCACATTACCTG
Found at i:8441127 original size:30 final size:31
Alignment explanation
Indices: 8441080--8441181 Score: 85
Period size: 30 Copynumber: 3.5 Consensus size: 31
8441070 TAAGAAAATT
8441080 TAAATAAG--CTT-TATTTTTTATTATG-T-
1 TAAATAAGCTCTTATATTTTTTATTATGATG
* * *
8441106 TCAATCAAGTTCTTATA-TTTTTATTTTGATG
1 TAAAT-AAGCTCTTATATTTTTTATTATGATG
*
8441137 TAAATAAGCTCTTATA-TTTTTATTTTGA-G
1 TAAATAAGCTCTTATATTTTTTATTATGATG
*
8441166 CCAAATAAGCTCTTAT
1 -TAAATAAGCTCTTAT
8441182 GACTAATGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
26 4 0.06
27 3 0.05
29 14 0.22
30 39 0.61
31 4 0.06
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (31 bp):
TAAATAAGCTCTTATATTTTTTATTATGATG
Found at i:8444759 original size:2 final size:2
Alignment explanation
Indices: 8444752--8444782 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8444742 AAAGAAAGAA
8444752 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8444783 AAGAAGTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8446440 original size:20 final size:21
Alignment explanation
Indices: 8446411--8446449 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8446401 GATATGTAAT
*
8446411 AATTTTTAATAT-GAAAAATA
1 AATTTATAATATAGAAAAATA
8446431 AATTTATAATATAGAAAAA
1 AATTTATAATATAGAAAAA
8446450 ATAAGAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AATTTATAATATAGAAAAATA
Found at i:8448858 original size:54 final size:54
Alignment explanation
Indices: 8448773--8448875 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
8448763 ATAGTCTACG
** * * * *
8448773 AATCAATGAGAAAAGTACTTTTTATTGGCATAAAATGTCTTACACTCTTTATCA
1 AATCAATGAGAAAAACACTTATTACTCGCATAAAATATCTTACACTCTTTATCA
8448827 AATCAATGAGAAAAACACTTATTACTCGCATAAAATATCTTACACTCTT
1 AATCAATGAGAAAAACACTTATTACTCGCATAAAATATCTTACACTCTT
8448876 CACAATGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (54 bp):
AATCAATGAGAAAAACACTTATTACTCGCATAAAATATCTTACACTCTTTATCA
Found at i:8449531 original size:186 final size:185
Alignment explanation
Indices: 8449298--8449667 Score: 564
Period size: 186 Copynumber: 2.0 Consensus size: 185
8449288 TTAGAAAGCT
*
8449298 ATAAAATTATTTTTAAAAATGAGAAAACATCCACTTTTCACATAAAATGTCTTACACTTTTCACT
1 ATAAAATTATTTTTAAAAATGAAAAAACATCCACTTTTCACATAAAATGTCTTACACTTTTCACT
* *
8449363 AGAAATTAAAAAA-CTATGAAATTATTAAAAAAAGAGAGTAAAACACTGATTCTTCACATAAAAT
66 AGAAATAAAAAAAGCTATGAAATTATTAAAAAAA-AGAGCAAAACACTGATTCTTCACATAAAAT
* *
8449427 ATCTTACACTCTTTATAGAATCAATGAGAAAAACACCTAAATTATAAAAAAGAAAC
130 AACTTACACTCTTTACAGAATCAATGAGAAAAACACCTAAATTATAAAAAAGAAAC
* **
8449483 ATAAAATTA-TTTTAAAAACTGAAAACAACATTCACTTTTCGTATAAAATGTCTTACACTTTTCA
1 ATAAAATTATTTTTAAAAA-TGAAAA-AACATCCACTTTTCACATAAAATGTCTTACACTTTTCA
* * * * *
8449547 CTAGAGATAAAAAAAGCTATGAAATTATTAAAAAAATGAGCAAAACACTTATTGTTCACATTAAA
64 CTAGAAATAAAAAAAGCTATGAAATTATTAAAAAAAAGAGCAAAACACTGATTCTTCACATAAAA
* *
8449612 TAACTTACACTCTTTACCGAATCAATGAGAAAAACACCTAAATTATAGAAAAGAAA
129 TAACTTACACTCTTTACAGAATCAATGAGAAAAACACCTAAATTATAAAAAAGAAA
8449668 AAAAAAAAGA
Statistics
Matches: 167, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
184 9 0.05
185 14 0.08
186 124 0.74
187 20 0.12
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (185 bp):
ATAAAATTATTTTTAAAAATGAAAAAACATCCACTTTTCACATAAAATGTCTTACACTTTTCACT
AGAAATAAAAAAAGCTATGAAATTATTAAAAAAAAGAGCAAAACACTGATTCTTCACATAAAATA
ACTTACACTCTTTACAGAATCAATGAGAAAAACACCTAAATTATAAAAAAGAAAC
Found at i:8458413 original size:12 final size:12
Alignment explanation
Indices: 8458396--8458421 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8458386 TCTTTGATAC
8458396 ATATACATATAT
1 ATATACATATAT
8458408 ATATACATATAT
1 ATATACATATAT
8458420 AT
1 AT
8458422 TCTCCTGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATACATATAT
Found at i:8474239 original size:14 final size:15
Alignment explanation
Indices: 8474214--8474242 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8474204 GAAGAGATAG
8474214 AGACAAAGAGGAGAA
1 AGACAAAGAGGAGAA
8474229 AGACAAA-AGGAGAA
1 AGACAAAGAGGAGAA
8474243 GAAAGGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.07, G:0.31, T:0.00
Consensus pattern (15 bp):
AGACAAAGAGGAGAA
Found at i:8488872 original size:3 final size:3
Alignment explanation
Indices: 8488864--8488893 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8488854 GCAATGAGAA
*
8488864 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8488894 TGTTGTGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8490491 original size:47 final size:47
Alignment explanation
Indices: 8490437--8490531 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
8490427 CTAGACCAAG
*
8490437 CAATCCTGTCAGCAAGTGATAAATCTCAATAAATTGCAATAAGTTTA
1 CAATCCTGTCAACAAGTGATAAATCTCAATAAATTGCAATAAGTTTA
*
8490484 CAATCCTGTCAACAAGTGATAAATCTTAATAAATTGCAATAAGTTTA
1 CAATCCTGTCAACAAGTGATAAATCTCAATAAATTGCAATAAGTTTA
8490531 C
1 C
8490532 GTTAAAATGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (47 bp):
CAATCCTGTCAACAAGTGATAAATCTCAATAAATTGCAATAAGTTTA
Found at i:8492464 original size:17 final size:18
Alignment explanation
Indices: 8492432--8492467 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
8492422 TCATGTATTT
*
8492432 TATTTACTATTCTAAATA
1 TATTTACTATTATAAATA
8492450 TATTTA-TATTATAAATA
1 TATTTACTATTATAAATA
8492467 T
1 T
8492468 TTCTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTACTATTATAAATA
Found at i:8493405 original size:9 final size:9
Alignment explanation
Indices: 8493391--8493428 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
8493381 CAATAGCATT
8493391 TTTTTTTTA
1 TTTTTTTTA
*
8493400 TTTTTTTGGA
1 TTTTTTT-TA
8493410 -TTTTTTTA
1 TTTTTTTTA
8493418 TTTTTTTTA
1 TTTTTTTTA
8493427 TT
1 TT
8493429 GTGGATTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 1 0.04
9 23 0.92
10 1 0.04
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:8493421 original size:24 final size:23
Alignment explanation
Indices: 8493388--8493435 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
8493378 CACCAATAGC
*
8493388 ATTTTTTTTTTATTTT-TT-TGG
1 ATTTTTTTTTTTTTTTATTGTGG
8493409 ATTTTTTTATTTTTTTTATTGTGG
1 ATTTTTTT-TTTTTTTTATTGTGG
8493433 ATT
1 ATT
8493436 GTAAGTGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 7 0.30
23 2 0.09
24 6 0.26
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.77
Consensus pattern (23 bp):
ATTTTTTTTTTTTTTTATTGTGG
Found at i:8494722 original size:15 final size:15
Alignment explanation
Indices: 8494699--8494736 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8494689 CTGCATTATT
*
8494699 GTCCGCAAATTCACA
1 GTCCACAAATTCACA
*
8494714 GTCCACAAATTCATA
1 GTCCACAAATTCACA
8494729 GTCCACAA
1 GTCCACAA
8494737 TAAGGTGGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.11, T:0.21
Consensus pattern (15 bp):
GTCCACAAATTCACA
Found at i:8498548 original size:3 final size:3
Alignment explanation
Indices: 8498540--8498591 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
8498530 TTGTAATTTT
8498540 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8498587 ATA AT
1 ATA AT
8498592 TATTATATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:8510902 original size:29 final size:30
Alignment explanation
Indices: 8510864--8510922 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
8510854 ATGACACCCA
8510864 AACCTCCCATGTCTTAGTAAAGACAGATGC
1 AACCTCCCATGTCTTAGTAAAGACAGATGC
* *
8510894 AACC-CCCATGTCTTTGTAAAGGCAGATGC
1 AACCTCCCATGTCTTAGTAAAGACAGATGC
8510923 TTGACATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (30 bp):
AACCTCCCATGTCTTAGTAAAGACAGATGC
Found at i:8513235 original size:27 final size:28
Alignment explanation
Indices: 8513146--8513221 Score: 138
Period size: 27 Copynumber: 2.8 Consensus size: 28
8513136 GAAAAAATAT
8513146 ATTA-TAAATAAAAAATTATTTATATTA
1 ATTATTAAATAAAAAATTATTTATATTA
8513173 ATTATTAAATAAAAAA-TATTTATATTA
1 ATTATTAAATAAAAAATTATTTATATTA
8513200 ATTATTAAATAAAAAATTATTT
1 ATTATTAAATAAAAAATTATTT
8513222 TGAAAAGTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
27 31 0.66
28 16 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTATTAAATAAAAAATTATTTATATTA
Found at i:8513266 original size:31 final size:31
Alignment explanation
Indices: 8513208--8513269 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
8513198 TAATTATTAA
* *
8513208 ATAAAAAATTATTTTGAAAAGTATTAAAAAT
1 ATAAAAAATAATTTTGAAAAATATTAAAAAT
*
8513239 ATAAATAAATAATTTT-AAAAATTTTAAAAAT
1 ATAAA-AAATAATTTTGAAAAATATTAAAAAT
8513270 TTTGGAAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (31 bp):
ATAAAAAATAATTTTGAAAAATATTAAAAAT
Found at i:8514004 original size:36 final size:36
Alignment explanation
Indices: 8513947--8514018 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
8513937 ATCCTAAGCT
* *
8513947 CGTGGAATGTTAGTGTGCAAAAATGATTTACAAAAG
1 CGTGGAATGTCAATGTGCAAAAATGATTTACAAAAG
*
8513983 CGTGGAATGTCAATGTTCAAAAATGATTTACAAAAG
1 CGTGGAATGTCAATGTGCAAAAATGATTTACAAAAG
8514019 AGTAGAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (36 bp):
CGTGGAATGTCAATGTGCAAAAATGATTTACAAAAG
Found at i:8514317 original size:29 final size:30
Alignment explanation
Indices: 8514260--8514326 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
8514250 TTACTTGTGA
* * *
8514260 TAATTTTATTTTATAGAATTATTTTAGT-C
1 TAATTTTATTTTATAAAATTAGTTAAGTCC
8514289 TAATTTTATTTTA-AAATATTAGTTAAGTCC
1 TAATTTTATTTTATAAA-ATTAGTTAAGTCC
8514319 TCAATTTT
1 T-AATTTT
8514327 TAATTATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.06
29 22 0.69
30 2 0.06
31 6 0.19
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (30 bp):
TAATTTTATTTTATAAAATTAGTTAAGTCC
Found at i:8529358 original size:21 final size:21
Alignment explanation
Indices: 8529334--8529385 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
8529324 AAAGTTACTA
8529334 ATGAAAAGTTAGTTTTTTCAT
1 ATGAAAAGTTAGTTTTTTCAT
8529355 ATGAAAAGTTAGTTTTTTCAT
1 ATGAAAAGTTAGTTTTTTCAT
8529376 ATGAAAAGTT
1 ATGAAAAGTT
8529386 GTGATCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGAAAAGTTAGTTTTTTCAT
Found at i:8529362 original size:35 final size:36
Alignment explanation
Indices: 8529297--8529365 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 36
8529287 GTATTTTCAA
8529297 AATGAAAAGTTATATCTCTTCATATAAAAAGTTACT
1 AATGAAAAGTTATATCTCTTCATATAAAAAGTTACT
* *
8529333 AATGAAAAGTTAGT-T-TTTTCATATGAAAAGTTA
1 AATGAAAAGTTA-TATCTCTTCATATAAAAAGTTA
8529366 GTTTTTTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 16 0.53
36 13 0.43
37 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (36 bp):
AATGAAAAGTTATATCTCTTCATATAAAAAGTTACT
Found at i:8537863 original size:5 final size:5
Alignment explanation
Indices: 8537849--8537885 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
8537839 TTTCCCAAAG
8537849 TTTT- TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
8537886 CACCAAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:8541686 original size:66 final size:66
Alignment explanation
Indices: 8541614--8541748 Score: 270
Period size: 66 Copynumber: 2.0 Consensus size: 66
8541604 GATTCTGTCT
8541614 TTTGATGGCCCCTTTTCTTGTTGGGTTTATGTTAAGGAATTCCATATTAAGTAATGACATTAATA
1 TTTGATGGCCCCTTTTCTTGTTGGGTTTATGTTAAGGAATTCCATATTAAGTAATGACATTAATA
8541679 A
66 A
8541680 TTTGATGGCCCCTTTTCTTGTTGGGTTTATGTTAAGGAATTCCATATTAAGTAATGACATTAATA
1 TTTGATGGCCCCTTTTCTTGTTGGGTTTATGTTAAGGAATTCCATATTAAGTAATGACATTAATA
8541745 A
66 A
8541746 TTT
1 TTT
8541749 AACATCTATA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.44
Consensus pattern (66 bp):
TTTGATGGCCCCTTTTCTTGTTGGGTTTATGTTAAGGAATTCCATATTAAGTAATGACATTAATA
A
Found at i:8544487 original size:21 final size:21
Alignment explanation
Indices: 8544463--8544506 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8544453 AATATCTCTC
* *
8544463 TTTGATTTTTTTTTTTTTCCT
1 TTTGATTCTTTCTTTTTTCCT
*
8544484 TTTGCTTCTTTCTTTTTTCCT
1 TTTGATTCTTTCTTTTTTCCT
8544505 TT
1 TT
8544507 GTGTTCTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTGATTCTTTCTTTTTTCCT
Found at i:8544513 original size:21 final size:21
Alignment explanation
Indices: 8544475--8544518 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8544465 TGATTTTTTT
*
8544475 TTTTTTCCTTTTGCTTCTTTC
1 TTTTTTCCTTTTGCTTCTCTC
8544496 TTTTTTCCTTTGTG-TTCTCTC
1 TTTTTTCCTTT-TGCTTCTCTC
8544517 TT
1 TT
8544519 GATAGTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.00, C:0.23, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTTTCCTTTTGCTTCTCTC
Found at i:8545393 original size:25 final size:23
Alignment explanation
Indices: 8545365--8545419 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
8545355 TTTAAGCAAA
8545365 TCGAATTGAATGAAGTAAATTCAAT
1 TCGAATTG-ATGAA-TAAATTCAAT
* *
8545390 TCGATTTTGATGAATTAATTCAAT
1 TCGA-ATTGATGAATAAATTCAAT
*
8545414 TGGAAT
1 TCGAAT
8545420 ATATTAATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 12 0.48
25 9 0.36
26 3 0.12
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (23 bp):
TCGAATTGATGAATAAATTCAAT
Found at i:8556721 original size:16 final size:17
Alignment explanation
Indices: 8556700--8556731 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8556690 ATTTGGCTTC
8556700 TTTTCTTT-CTTTTTTT
1 TTTTCTTTCCTTTTTTT
8556716 TTTTCTTTCCTTTTTT
1 TTTTCTTTCCTTTTTT
8556732 GGTTTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCTTTCCTTTTTTT
Found at i:8572569 original size:15 final size:15
Alignment explanation
Indices: 8572549--8572583 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8572539 AGAAGCATTA
8572549 TTGTTATTATTGTTG
1 TTGTTATTATTGTTG
*
8572564 TTGTTATTGTTGTTG
1 TTGTTATTATTGTTG
*
8572579 CTGTT
1 TTGTT
8572584 GCTGTTGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.03, G:0.23, T:0.66
Consensus pattern (15 bp):
TTGTTATTATTGTTG
Found at i:8585783 original size:16 final size:16
Alignment explanation
Indices: 8585762--8585796 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8585752 TTATATTTAA
*
8585762 AAAATTAAATAAATTT
1 AAAATTAAATAAATAT
*
8585778 AAAATTAATTAAATAT
1 AAAATTAAATAAATAT
8585794 AAA
1 AAA
8585797 GAAAAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTAAATAAATAT
Found at i:8585789 original size:20 final size:18
Alignment explanation
Indices: 8585756--8585792 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
8585746 GATTGGTTAT
8585756 ATTTAAAAAATTAAATAA
1 ATTTAAAAAATTAAATAA
8585774 ATTTAAAATTAATTAAATA
1 ATTTAAAA--AATTAAATA
8585793 TAAAGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTAAAAAATTAAATAA
Found at i:8586165 original size:211 final size:211
Alignment explanation
Indices: 8585915--8586378 Score: 523
Period size: 215 Copynumber: 2.2 Consensus size: 211
8585905 TCATTTATAA
* * * * *
8585915 TTATAAAATATATATTATGCATAAATTATATATTATATTACTTTATTATATATATGAAATTAATG
1 TTATAAATTAAATA-TATGCATATA-TATATAATATATTACTTTATTATATATAT--AATTAATA
* * * * *
8585980 ATAAAATTTATATGTTATAA-T-ATTTTAAA-TTT-TATTACAGATAATAATTAATTATAAAAAA
62 ACAAAACTAATATGTTAGAATTCATCTTAAAGTTTGTA-TA-A-ATAATAATTAATTATAAAAAA
*
8586041 TATATTATAAAAA-TTAAA-TAATAACTAATAAAATTATTAAATGTAATCATATAAATAAAGTCT
124 TATATTA-AAAAATTTAAAGTAATAACTAATAAAATTATTAAATATAATCATATAAATAAAGTCT
*
8586104 ATTATAAGTTACAAG-AATACTTAT
188 ATTATAAATTA-AAGTAATACTTAT
*
8586128 TTATAAATTAAATATATGCATATATATATAATATATTACTTTATTATATATATAATTAATAACAT
1 TTATAAATTAAATATATGCATATATATATAATATATTACTTTATTATATATATAATTAATAACAA
*
8586193 AACTAATATGTTAGAATGTTTTCATCTTAAAGTTTGTATAAATAATAATTAATTATAAATAATAT
66 AACTAATATGTTAGAA----TTCATCTTAAAGTTTGTATAAATAATAATTAATTATAAAAAATAT
* * * * ** *
8586258 GTTAAAAAATTTAAAGTAATAATTAATAAAGTTATTAAGTATCTTCATATAAATAAAGTTTATTA
127 ATTAAAAAATTTAAAGTAATAACTAATAAAATTATTAAATATAATCATATAAATAAAGTCTATTA
*
8586323 TAAATTATAGTAATACTTAT
192 TAAATTAAAGTAATACTTAT
*
8586343 GTATAAATTAAATATAT--ATAATATATATAATTATAT
1 TTATAAATTAAATATATGCAT-ATATATATAA-TATAT
8586379 ATATATTTTA
Statistics
Matches: 215, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
209 22 0.10
211 28 0.13
212 9 0.04
213 19 0.09
214 44 0.20
215 86 0.40
216 5 0.02
217 2 0.01
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.43
Consensus pattern (211 bp):
TTATAAATTAAATATATGCATATATATATAATATATTACTTTATTATATATATAATTAATAACAA
AACTAATATGTTAGAATTCATCTTAAAGTTTGTATAAATAATAATTAATTATAAAAAATATATTA
AAAAATTTAAAGTAATAACTAATAAAATTATTAAATATAATCATATAAATAAAGTCTATTATAAA
TTAAAGTAATACTTAT
Found at i:8586367 original size:9 final size:9
Alignment explanation
Indices: 8586353--8586384 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
8586343 GTATAAATTA
8586353 AATATATAT
1 AATATATAT
8586362 AATATATAT
1 AATATATAT
8586371 AAT-TATAT
1 AATATATAT
8586379 -ATATAT
1 AATATAT
8586385 TTTATATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.09
8 8 0.36
9 12 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AATATATAT
Found at i:8613266 original size:84 final size:80
Alignment explanation
Indices: 8613121--8613341 Score: 261
Period size: 84 Copynumber: 2.8 Consensus size: 80
8613111 GGCGCGTGAG
* * * * * * *
8613121 AAGCTCGAACAACCACAACTTCTGAAAGACACAGCTTCTACCGTCCTCAGCTATTTCAAAACGGC
1 AAGCTCGAACAGCCACAACTTCTGAAAAACACAGCGTCTGCCGTCGTTAGGTATTTCAAAA---C
*
8613186 GGGCGTCCTTTGCTATGAC
63 -GGCGTCATTTGCTATGAC
* *
8613205 AAGCTCGAACAGCCACAACTTCTGAAAAACACAGCGTCTGCCGTCGTTAGGTATTTTAAAACGGT
1 AAGCTCGAACAGCCACAACTTCTGAAAAACACAGCGTCTGCCGTCGTTAGGTATTTCAAAACGGC
* *
8613270 GTCATTTGCTGTGAG
66 GTCATTTGCTATGAC
*
8613285 ACGCTCGAACAGCCACAACTTCTG---AA-ACAGCGTCTGCCGTCGTTAGGTATTTCAAAA
1 AAGCTCGAACAGCCACAACTTCTGAAAAACACAGCGTCTGCCGTCGTTAGGTATTTCAAAA
8613342 TGGAAGCTCG
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
76 30 0.24
77 2 0.02
80 37 0.30
81 1 0.01
84 53 0.43
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
AAGCTCGAACAGCCACAACTTCTGAAAAACACAGCGTCTGCCGTCGTTAGGTATTTCAAAACGGC
GTCATTTGCTATGAC
Found at i:8620384 original size:42 final size:42
Alignment explanation
Indices: 8620337--8620453 Score: 198
Period size: 42 Copynumber: 2.8 Consensus size: 42
8620327 ACGCAGAAGG
*
8620337 CTTTGATGCAGAAAAAGGAAAAAAAGTTGTGGGACATACTGA
1 CTTTGATGCAGAAAAAGGAAAAAAAGTTTTGGGACATACTGA
* *
8620379 CTTTGACGCAGAAAAAGAAAAAAAAGTTTTGGGACATACTGA
1 CTTTGATGCAGAAAAAGGAAAAAAAGTTTTGGGACATACTGA
*
8620421 CTTTGATGCAGAAAAAGGAAAACAAGTTTTGGG
1 CTTTGATGCAGAAAAAGGAAAAAAAGTTTTGGG
8620454 TCCAGTATGT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.43, C:0.10, G:0.25, T:0.22
Consensus pattern (42 bp):
CTTTGATGCAGAAAAAGGAAAAAAAGTTTTGGGACATACTGA
Found at i:8621687 original size:11 final size:11
Alignment explanation
Indices: 8621671--8621710 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
8621661 CAAGTCAAAT
8621671 AAAAAAAATAA
1 AAAAAAAATAA
8621682 AAAAAAAATAA
1 AAAAAAAATAA
* *
8621693 AAAATACAACAA
1 AAAA-AAAATAA
8621705 AAAAAA
1 AAAAAA
8621711 TCGATATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:8621692 original size:20 final size:21
Alignment explanation
Indices: 8621667--8621711 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
8621657 GATCCAAGTC
*
8621667 AAATAAAAAAAATAA-AAAAA
1 AAATAAAAAAAACAACAAAAA
*
8621687 AAATAAAAAATACAACAAAAA
1 AAATAAAAAAAACAACAAAAA
8621708 AAAT
1 AAAT
8621712 CGATATCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.11
Consensus pattern (21 bp):
AAATAAAAAAAACAACAAAAA
Found at i:8621696 original size:18 final size:20
Alignment explanation
Indices: 8621673--8621709 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
8621663 AGTCAAATAA
8621673 AAAAAATA-AA-AAAAAAAT
1 AAAAAATACAACAAAAAAAT
8621691 AAAAAATACAACAAAAAAA
1 AAAAAATACAACAAAAAAA
8621710 ATCGATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.08
Consensus pattern (20 bp):
AAAAAATACAACAAAAAAAT
Found at i:8630394 original size:2 final size:2
Alignment explanation
Indices: 8630387--8630433 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
8630377 CGAGAATGGG
8630387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8630429 AT AT A
1 AT AT A
8630434 AATTTTGCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8640298 original size:21 final size:21
Alignment explanation
Indices: 8640268--8640308 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8640258 ACCGTTCTGG
8640268 ACATGATTTTCGAATCCATGC
1 ACATGATTTTCGAATCCATGC
* *
8640289 ACATGGTTTTGGAATCCATG
1 ACATGATTTTCGAATCCATG
8640309 GCCATCGTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (21 bp):
ACATGATTTTCGAATCCATGC
Found at i:8650874 original size:9 final size:9
Alignment explanation
Indices: 8650829--8650879 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
8650819 ATGTTACAAA
8650829 TAAATAAAT
1 TAAATAAAT
*
8650838 TATACTAAAT
1 TA-AATAAAT
8650848 ATAAATAAA-
1 -TAAATAAAT
8650857 TAAATAAAT
1 TAAATAAAT
*
8650866 TACATAAAT
1 TAAATAAAT
*
8650875 AAAAT
1 TAAAT
8650880 TTAAATCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 8 0.24
9 13 0.38
10 11 0.32
11 2 0.06
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAATAAAT
Found at i:8650880 original size:14 final size:13
Alignment explanation
Indices: 8650826--8650877 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
8650816 AACATGTTAC
8650826 AAATAAATAAATT
1 AAATAAATAAATT
* *
8650839 ATACTAAATATAAAT
1 A-AATAAATA-AATT
8650854 AAATAAATAAATT
1 AAATAAATAAATT
*
8650867 ACATAAATAAA
1 AAATAAATAAA
8650878 ATTTAAATCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 14 0.44
14 14 0.44
15 4 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAAATAAATT
Found at i:8650885 original size:28 final size:28
Alignment explanation
Indices: 8650826--8650879 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
8650816 AACATGTTAC
*
8650826 AAATAAATAAATTATACTAAATATAAAT
1 AAATAAATAAATTACACTAAATATAAAT
8650854 AAATAAATAAATTACA-TAAATA-AAAT
1 AAATAAATAAATTACACTAAATATAAAT
8650880 TTAAATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.16
27 6 0.24
28 15 0.60
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (28 bp):
AAATAAATAAATTACACTAAATATAAAT
Found at i:8654165 original size:2 final size:2
Alignment explanation
Indices: 8654158--8654190 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8654148 ATAAATGGAA
*
8654158 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8654191 CTTTCCCCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8656154 original size:2 final size:2
Alignment explanation
Indices: 8656147--8656177 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8656137 TCGAACCCAC
8656147 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8656178 AACAAACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8658898 original size:19 final size:19
Alignment explanation
Indices: 8658861--8658898 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8658851 AGTCATCACT
*
8658861 CATACAAAATCTTGGATCC
1 CATACAAAATCTTGAATCC
*
8658880 CATACAAAATTTTGAATCC
1 CATACAAAATCTTGAATCC
8658899 ATCACTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (19 bp):
CATACAAAATCTTGAATCC
Found at i:8659202 original size:2 final size:2
Alignment explanation
Indices: 8659195--8659248 Score: 83
Period size: 2 Copynumber: 27.0 Consensus size: 2
8659185 ATTGTGGTCT
*
8659195 TA TA TA TA TA TA TA TA TA TA TA GA GT- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
8659237 TA TA TA TA TA TA
1 TA TA TA TA TA TA
8659249 GAGAGAGAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8659253 original size:2 final size:2
Alignment explanation
Indices: 8659248--8659281 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8659238 ATATATATAT
8659248 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8659282 CAAACATATC
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):
AG
Found at i:8662862 original size:21 final size:21
Alignment explanation
Indices: 8662816--8662875 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
8662806 TTTATATTTT
*
8662816 ATAATA-AAAA-TATAAAATA
1 ATAATATAAAATTATAACATA
*
8662835 TTAATATAAAATTATAACATA
1 ATAATATAAAATTATAACATA
* * *
8662856 ATCATATAATATTCTAACAT
1 ATAATATAAAATTATAACAT
8662876 TCACATCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 5 0.15
20 4 0.12
21 24 0.73
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATATAAAATTATAACATA
Found at i:8662975 original size:9 final size:9
Alignment explanation
Indices: 8662951--8662992 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
8662941 TTTTACATAA
8662951 AATAAAA-T
1 AATAAAATT
8662959 AA-AAAATT
1 AATAAAATT
8662967 AATAAAATT
1 AATAAAATT
*
8662976 AATAAAAAT
1 AATAAAATT
8662985 AATTAAAA
1 AA-TAAAA
8662993 AAAATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 4 0.13
8 5 0.17
9 16 0.53
10 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AATAAAATT
Found at i:8675258 original size:2 final size:2
Alignment explanation
Indices: 8675251--8675279 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8675241 TTAATGATTG
8675251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8675280 GTTTTCTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8680411 original size:18 final size:18
Alignment explanation
Indices: 8680388--8680431 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8680378 TTTTTTAAAG
8680388 AAAAAAATAAAAGAAATC
1 AAAAAAATAAAAGAAATC
* *
8680406 AAAAAACTAGAAGAAATC
1 AAAAAAATAAAAGAAATC
*
8680424 AAGAAAAT
1 AAAAAAAT
8680432 TAAACACACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.73, C:0.07, G:0.09, T:0.11
Consensus pattern (18 bp):
AAAAAAATAAAAGAAATC
Found at i:8687629 original size:26 final size:25
Alignment explanation
Indices: 8687593--8687648 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
8687583 CACTCCTTCC
*
8687593 TCCTCACAAAAAGATCTCACC-AAGAG
1 TCCTCAC-AAAA-ACCTCACCAAAGAG
*
8687619 TCCTCATAAAAACCTCACCAAAGAG
1 TCCTCACAAAAACCTCACCAAAGAG
8687644 TCCTC
1 TCCTC
8687649 CCTCACCGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 7 0.26
25 14 0.52
26 6 0.22
ACGTcount: A:0.39, C:0.34, G:0.09, T:0.18
Consensus pattern (25 bp):
TCCTCACAAAAACCTCACCAAAGAG
Found at i:8693048 original size:20 final size:20
Alignment explanation
Indices: 8693023--8693062 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8693013 GTACAACGTT
8693023 TCGACAAAGTAGTCAAAAGG
1 TCGACAAAGTAGTCAAAAGG
8693043 TCGACAAAGTAGTCAAAAGG
1 TCGACAAAGTAGTCAAAAGG
8693063 AATGACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.15
Consensus pattern (20 bp):
TCGACAAAGTAGTCAAAAGG
Found at i:8723848 original size:26 final size:26
Alignment explanation
Indices: 8723819--8723873 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
8723809 TTCTATTTTC
8723819 ATTA-AAAATT-TAAATATTAATAATTT
1 ATTATAAAATTATAAATA-TAA-AATTT
* *
8723845 ATTATTAAATTATTAATATAAAATTT
1 ATTATAAAATTATAAATATAAAATTT
8723871 ATT
1 ATT
8723874 TTAATTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 12 0.48
27 8 0.32
28 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTATAAAATTATAAATATAAAATTT
Found at i:8724292 original size:18 final size:19
Alignment explanation
Indices: 8724255--8724295 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
8724245 TAAAGTTTTT
8724255 ATAAATTAATATTTAATAA
1 ATAAATTAATATTTAATAA
8724274 ATAAA-TAAT-TTTAATTAA
1 ATAAATTAATATTTAA-TAA
8724292 ATAA
1 ATAA
8724296 TATTTTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAATTAATATTTAATAA
Found at i:8725881 original size:65 final size:63
Alignment explanation
Indices: 8725730--8725906 Score: 227
Period size: 65 Copynumber: 2.8 Consensus size: 63
8725720 AAAAAAATCT
*
8725730 CATTAAAAAATGAAATTAACTTTAAATTCAA-ATCTAATTAT---AAAAAAAAATGAAAATGAC
1 CATTAGAAAATGAAATTAACTTTAAATTCAACA-CTAATTATAAAAAAAAAAAATGAAAATGAC
* *
8725790 CTATTAGAAAATGAAATTAACTTTAAATTGAACACTAATTATAAAAAAAAAAAATTGAAGATGAT
1 C-ATTAGAAAATGAAATTAACTTTAAATTCAACACTAATTATAAAAAAAAAAAA-TGAAAATGA-
8725855 C
63 C
* * * *
8725856 CATTAGAAAATGAAATTTACGTTAAATTCAACCCTAATTATAAAATAAAAA
1 CATTAGAAAATGAAATTAACTTTAAATTCAACACTAATTATAAAAAAAAAA
8725907 TGTGAAGGTG
Statistics
Matches: 102, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
60 1 0.01
61 36 0.35
62 1 0.01
64 9 0.09
65 53 0.52
66 2 0.02
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (63 bp):
CATTAGAAAATGAAATTAACTTTAAATTCAACACTAATTATAAAAAAAAAAAATGAAAATGAC
Found at i:8730582 original size:2 final size:2
Alignment explanation
Indices: 8730575--8730608 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8730565 TTGTTGGAGA
8730575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8730609 GTTATAAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8730714 original size:20 final size:19
Alignment explanation
Indices: 8730676--8730715 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
8730666 AGGTCAGGAC
*
8730676 TGCTTTCTATGCTTATAAT
1 TGCTTTCTATGCTCATAAT
*
8730695 TGCTATTCTATGCTCCTAAT
1 TGCT-TTCTATGCTCATAAT
8730715 T
1 T
8730716 TTTCTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (19 bp):
TGCTTTCTATGCTCATAAT
Found at i:8735233 original size:38 final size:38
Alignment explanation
Indices: 8735182--8735257 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
8735172 GTTAAAGCCC
8735182 TTGATTATGGATTTAGCATGTATGTATTCAATAACCAA
1 TTGATTATGGATTTAGCATGTATGTATTCAATAACCAA
* *
8735220 TTGATTGTGGATTTAGCATGTATGTATTCAATAGCCAA
1 TTGATTATGGATTTAGCATGTATGTATTCAATAACCAA
8735258 AGCAAGAAGA
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:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (38 bp):
TTGATTATGGATTTAGCATGTATGTATTCAATAACCAA
Found at i:8752286 original size:8 final size:8
Alignment explanation
Indices: 8752273--8752299 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8752263 CAAATCAGGA
8752273 AGAAGGGG
1 AGAAGGGG
8752281 AGAAGGGG
1 AGAAGGGG
8752289 AGAAGGGG
1 AGAAGGGG
8752297 AGA
1 AGA
8752300 GAGAGCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (8 bp):
AGAAGGGG
Found at i:8776948 original size:2 final size:2
Alignment explanation
Indices: 8776935--8776964 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8776925 TGAAATTCTC
*
8776935 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8776965 CGCATATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8781843 original size:191 final size:191
Alignment explanation
Indices: 8781475--8781832 Score: 429
Period size: 191 Copynumber: 1.9 Consensus size: 191
8781465 GTTCTGGATG
* * *
8781475 TGTAACATCTTCTACTTCAGCTTTGATGCGTGTAACATTTGATATTGAAGCTTTAACTTTGACAT
1 TGTAACATCTTCTACTTCAGCTTTGATGCGTGAAACATTAGATATTGAAGCTTTAACCTTGACAT
* ** * * *
8781540 GTAATATTTGCTGTTAAAGTTTTGGTATGTAACATCTTTTGTTTTGACTTTAGTATGTAACATCT
66 GTAATATTTGCTATTAAAGTTTTAATATGCAACATATTTTGTTTTGACTTTAGGATGTAACATCT
* * * *** *
8781605 GATGTTGAAGTTTTGATCTTGGTATGTAACATTTGGTATCGAAGCTTTGACGTCCTTGACA
131 GATGATGAAGTTTCGACCTCAATATGTAACATTTCGTATCGAAGCTTTGACGTCCTTGACA
* *
8781666 TGTAACATCTTCTACTTTAGCTTTGATGCGTGAAACATCTAG-TGTTGAAGCTTTAACCTT-ATC
1 TGTAACATCTTCTACTTCAGCTTTGATGCGTGAAACAT-TAGATATTGAAGCTTTAACCTTGA-C
* * *
8781729 ATGTAATATTTGCTATTAAAGTTTTAATGTGCAACATATTTTGTTTT-AGCTTTGGGGTGTAACA
64 ATGTAATATTTGCTATTAAAGTTTTAATATGCAACATATTTTGTTTTGA-CTTTAGGATGTAACA
* *
8781793 TCT-AGTGATGAAGCTTTCG-CCTCAATGTGTAATATTTCGT
128 TCTGA-TGATGAAG-TTTCGACCTCAATATGTAACATTTCGT
8781833 GCTGAAGCTT
Statistics
Matches: 139, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
190 3 0.02
191 130 0.94
192 6 0.04
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (191 bp):
TGTAACATCTTCTACTTCAGCTTTGATGCGTGAAACATTAGATATTGAAGCTTTAACCTTGACAT
GTAATATTTGCTATTAAAGTTTTAATATGCAACATATTTTGTTTTGACTTTAGGATGTAACATCT
GATGATGAAGTTTCGACCTCAATATGTAACATTTCGTATCGAAGCTTTGACGTCCTTGACA
Found at i:8783030 original size:2 final size:2
Alignment explanation
Indices: 8783023--8783054 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8783013 GTCAATAGAC
8783023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8783055 AAATCGGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8791312 original size:7 final size:7
Alignment explanation
Indices: 8791300--8791331 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
8791290 TTCAGCTTGC
8791300 TCCTTCT
1 TCCTTCT
8791307 TCCTTCT
1 TCCTTCT
*
8791314 TCCTCCT
1 TCCTTCT
8791321 TCCTTCT
1 TCCTTCT
8791328 TCCT
1 TCCT
8791332 CCTTTGGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (7 bp):
TCCTTCT
Found at i:8791322 original size:14 final size:14
Alignment explanation
Indices: 8791300--8791335 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
8791290 TTCAGCTTGC
*
8791300 TCCTTCTTCCTTCT
1 TCCTCCTTCCTTCT
8791314 TCCTCCTTCCTTCT
1 TCCTCCTTCCTTCT
8791328 TCCTCCTT
1 TCCTCCTT
8791336 TGGCTGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (14 bp):
TCCTCCTTCCTTCT
Found at i:8792920 original size:19 final size:20
Alignment explanation
Indices: 8792884--8792924 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
8792874 GTCTATAAAA
*
8792884 AAATTTTAAATAATTTTTTT
1 AAATTATAAATAATTTTTTT
8792904 AAATTATAAAT-ATTTTTTT
1 AAATTATAAATAATTTTTTT
8792923 AA
1 AA
8792925 TTCTCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATTATAAATAATTTTTTT
Found at i:8798646 original size:14 final size:15
Alignment explanation
Indices: 8798621--8798649 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8798611 AATATCTGTA
8798621 ATTTTAAAAATATTT
1 ATTTTAAAAATATTT
8798636 ATTTT-AAAATATTT
1 ATTTTAAAAATATTT
8798650 TTTAATTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTAAAAATATTT
Found at i:8799851 original size:4 final size:4
Alignment explanation
Indices: 8799842--8799867 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8799832 AAAACCCGAA
8799842 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
8799868 TGAGGGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:8812515 original size:3 final size:3
Alignment explanation
Indices: 8812507--8812537 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8812497 ACTAATTTTG
8812507 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
8812538 TTTCCAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:8821605 original size:2 final size:2
Alignment explanation
Indices: 8821598--8821629 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8821588 GAAAAGGAGG
8821598 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
8821630 CTCAACCACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8829372 original size:19 final size:20
Alignment explanation
Indices: 8829344--8829383 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8829334 TACGTTAAGT
*
8829344 TTTAACTAT-AATTTATTAA
1 TTTAACTATAAATTAATTAA
*
8829363 TTTAATTATAAATTAATTAA
1 TTTAACTATAAATTAATTAA
8829383 T
1 T
8829384 CTTGCATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAACTATAAATTAATTAA
Found at i:8830445 original size:26 final size:24
Alignment explanation
Indices: 8830404--8830452 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8830394 CTGTTAATTT
*
8830404 AAAAATAGAAAAGAAATTAAAATA
1 AAAAAAAGAAAAGAAATTAAAATA
8830428 AAAAAAAGAAAAGTGAAATTAAAAT
1 AAAAAAAGAAAA--GAAATTAAAAT
8830453 TTTCAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
26 11 0.50
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.16
Consensus pattern (24 bp):
AAAAAAAGAAAAGAAATTAAAATA
Found at i:8831849 original size:2 final size:2
Alignment explanation
Indices: 8831842--8831867 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8831832 GAATTGTGAT
8831842 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
8831868 GAAATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.