Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold283
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: 2945114
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 15
Found at i:304251 original size:57 final size:59
Alignment explanation
Indices: 304142--304307 Score: 171
Period size: 57 Copynumber: 2.8 Consensus size: 59
304132 GAATTTATGT
* * * *
304142 ATTAATAT-TATAATTATATTTAAAATATTATATTTATATAAATTTTAATATATTAA-TA
1 ATTAATTTATATAATAAT-TTTAAAATATTATATTTATATATATTATAATATATTAATTA
*
304200 ATTAATGTTATAT-A-AATTTTAAAATA-TATATTTATATGATATTATATTATATTAATTA
1 ATTAAT-TTATATAATAATTTTAAAATATTATATTTATAT-ATATTATAATATATTAATTA
* * *
304258 TTTTATTTATATAATAATATTAAATATAATTATATTTATATATATATATA
1 ATTAATTTATATAATAATTTTAAA-AT-ATTATATTTATATATAT-TATA
304308 CGTTGTTTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
56 11 0.12
57 29 0.32
58 15 0.17
59 10 0.11
60 5 0.06
61 5 0.06
62 15 0.17
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (59 bp):
ATTAATTTATATAATAATTTTAAAATATTATATTTATATATATTATAATATATTAATTA
Found at i:304262 original size:29 final size:30
Alignment explanation
Indices: 304150--304307 Score: 88
Period size: 31 Copynumber: 5.4 Consensus size: 30
304140 GTATTAATAT
304150 TATA-ATTATATTTAAA-AT-ATTATATTTA
1 TATATATTATA-TTAAATATAATTATATTTA
* * * *
304178 TATAAATTTTAATATATTAATAATTA-ATGTTA
1 TATATATTATATTA-AAT-ATAATTATAT-TTA
*
304210 TATA-A--ATTTTAAA-AT-A-TATATTTA
1 TATATATTATATTAAATATAATTATATTTA
*
304234 TATGATATTATATTATAT-TAATTAT-TTTA
1 TAT-ATATTATATTAAATATAATTATATTTA
*
304263 TTTATATAATAATATTAAATATAATTATATTTA
1 --TATAT-ATTATATTAAATATAATTATATTTA
304296 TATATATATATA
1 TATATAT-TATA
304308 CGTTGTTTAA
Statistics
Matches: 98, Mismatches: 12, Indels: 37
0.67 0.08 0.25
Matches are distributed among these distances:
24 8 0.08
25 4 0.04
26 3 0.03
28 14 0.14
29 14 0.14
30 7 0.07
31 26 0.27
32 18 0.18
33 4 0.04
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (30 bp):
TATATATTATATTAAATATAATTATATTTA
Found at i:304269 original size:33 final size:34
Alignment explanation
Indices: 304223--304307 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 34
304213 AAATTTTAAA
* * *
304223 ATATATATTTATATGATATTATATTATAT-TAATT
1 ATATTTATTTATAT-ATATAATATTAAATATAATT
304257 AT-TTTATTTATATA-ATAATATTAAATATAATT
1 ATATTTATTTATATATATAATATTAAATATAATT
*
304289 ATATTTATATATATATATA
1 ATATTTATTTATATATATA
304308 CGTTGTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
31 10 0.23
32 8 0.18
33 21 0.48
34 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (34 bp):
ATATTTATTTATATATATAATATTAAATATAATT
Found at i:305289 original size:30 final size:30
Alignment explanation
Indices: 305253--305315 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
305243 TTATTTTTAT
*
305253 TAAAAAATTTTAATAATT-TAATATAATAAA
1 TAAAAAATTTTAAT-ATTATAATAAAATAAA
* *
305283 TAAAAAATTTTTATTTTATAATAAAATAAA
1 TAAAAAATTTTAATATTATAATAAAATAAA
305313 TAA
1 TAA
305316 TAAGATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
TAAAAAATTTTAATATTATAATAAAATAAA
Found at i:310552 original size:2 final size:2
Alignment explanation
Indices: 310547--310583 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
310537 GTGTGTGTGT
*
310547 TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
310584 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:318621 original size:31 final size:31
Alignment explanation
Indices: 318570--318655 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
318560 AATCATAAAC
* * *
318570 TTAAATAAACTATTAA-TTTTTAATTTTTAA
1 TTAAATAAAATCTTAATTTTTTAATTTATAA
* *
318600 TTAAAT-GAATACTTAATTTTTTAATTTATAT
1 TTAAATAAAAT-CTTAATTTTTTAATTTATAA
318631 TTAAATAAAATCTTAATTTGTTTAA
1 TTAAATAAAATCTTAATTT-TTTAA
318656 AATAAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
29 2 0.04
30 10 0.22
31 26 0.57
32 8 0.17
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (31 bp):
TTAAATAAAATCTTAATTTTTTAATTTATAA
Found at i:320168 original size:2 final size:2
Alignment explanation
Indices: 320163--320190 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
320153 CCCCCCCCCC
320163 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
320191 TCTTCTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:321611 original size:20 final size:20
Alignment explanation
Indices: 321586--321627 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
321576 AGTGATCTTA
321586 TATTTATT-TAAATTATATTT
1 TATTTATTATAAATTA-ATTT
*
321606 TATTTATTATCAATTAATTT
1 TATTTATTATAAATTAATTT
321626 TA
1 TA
321628 AATTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTATTATAAATTAATTT
Found at i:321673 original size:18 final size:18
Alignment explanation
Indices: 321649--321699 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 18
321639 TAATATAATA
321649 ATTAATTTATATTTATAT
1 ATTAATTTATATTTATAT
*
321667 TTTAA-TTAT-TTTATAT
1 ATTAATTTATATTTATAT
321683 ATT-ATTTATATTT-TAT
1 ATTAATTTATATTTATAT
321699 A
1 A
321700 AAATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 1 0.03
16 17 0.59
17 7 0.24
18 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTAATTTATATTTATAT
Found at i:321708 original size:18 final size:18
Alignment explanation
Indices: 321673--321711 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
321663 ATATTTTAAT
*
321673 TATTTTATATATTATTTA
1 TATTTTATAAATTATTTA
321691 TATTTTATAAAATT-TTTA
1 TATTTTAT-AAATTATTTA
321709 TAT
1 TAT
321712 GATAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTTTATAAATTATTTA
Found at i:321710 original size:27 final size:27
Alignment explanation
Indices: 321658--321711 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
321648 AATTAATTTA
**
321658 TATTTATATTTTAATTATTTTATATAT
1 TATTTATATTTTAAAAATTTTATATAT
321685 TATTTATATTTTATAAAATTTT-TATAT
1 TATTTATATTTTA-AAAATTTTATATAT
321712 GATAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TATTTATATTTTAAAAATTTTATATAT
Found at i:322843 original size:2 final size:2
Alignment explanation
Indices: 322836--322860 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
322826 AGCGCTCTAC
322836 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 A
322861 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:322865 original size:2 final size:2
Alignment explanation
Indices: 322860--322885 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
322850 ATATATATAT
322860 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
322886 GGAGGGAGAA
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
Found at i:323170 original size:14 final size:15
Alignment explanation
Indices: 323153--323182 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
323143 TAATTCAAAT
323153 TAAA-TTTAAATTAA
1 TAAATTTTAAATTAA
323167 TAAATTTTAAATTAA
1 TAAATTTTAAATTAA
323182 T
1 T
323183 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAATTTTAAATTAA
Found at i:328396 original size:25 final size:26
Alignment explanation
Indices: 328348--328396 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
328338 TAAAAATAAT
* *
328348 AAAATTTTATTTTAATTTTTTTTAAA
1 AAAATTATATTTTAATTTATTTTAAA
*
328374 AAAATTATATTTTTA-TTATTTTA
1 AAAATTATATTTTAATTTATTTTA
328397 CTCTAATTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
AAAATTATATTTTAATTTATTTTAAA
Found at i:328458 original size:16 final size:17
Alignment explanation
Indices: 328437--328469 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
328427 TCTACATCTA
328437 AAATTT-TATGTATTTT
1 AAATTTATATGTATTTT
*
328453 AAATTTATATTTATTTT
1 AAATTTATATGTATTTT
328470 TGAGTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
AAATTTATATGTATTTT
Found at i:329845 original size:32 final size:31
Alignment explanation
Indices: 329766--329862 Score: 78
Period size: 36 Copynumber: 3.0 Consensus size: 31
329756 TATTTTAGTT
*
329766 TATTTTAAAA-TTATATAATAT-ATTTTTTA
1 TATTTTAAAATTTATATAATATAATTATTTA
329795 TATTTAATTTAAGTAATTTATATAATATAAATTATTTA
1 TA--T--TTTAA--AATTTATATAATAT-AATTATTTA
329833 TATTTTAAAATTTA-ATAA-AT-ATTAATTTA
1 TATTTTAAAATTTATATAATATAATT-ATTTA
329862 T
1 T
329863 TAAAAATTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 20
0.73 0.01 0.26
Matches are distributed among these distances:
28 3 0.05
29 8 0.14
30 2 0.04
31 5 0.09
32 6 0.11
33 5 0.09
34 5 0.09
35 2 0.04
36 12 0.21
38 9 0.16
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTTTAAAATTTATATAATATAATTATTTA
Found at i:329855 original size:25 final size:26
Alignment explanation
Indices: 329821--329872 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
329811 TTTATATAAT
* *
329821 ATAAATTATTTATATT-TTAAAATTTA
1 ATAAATTATTAAT-TTATTAAAAATTA
329847 ATAAA-TATTAATTTATTAAAAATTA
1 ATAAATTATTAATTTATTAAAAATTA
329872 A
1 A
329873 ATTAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 16 0.70
26 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAAATTATTAATTTATTAAAAATTA
Found at i:329861 original size:15 final size:15
Alignment explanation
Indices: 329841--329894 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
329831 TATATTTTAA
*
329841 AATTTAATAAATATT
1 AATTTAATAAAAATT
*
329856 AATTTATTAAAAATT
1 AATTTAATAAAAATT
* *
329871 AAATTAA-AATAATT
1 AATTTAATAAAAATT
329885 -ATTTAA-AAAA
1 AATTTAATAAAA
329895 TAAAAAAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
13 8 0.25
14 6 0.19
15 18 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTAATAAAAATT
Found at i:329883 original size:25 final size:25
Alignment explanation
Indices: 329855--329907 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
329845 TAATAAATAT
* *
329855 TAATTTA-TTAAAAATTAAATTAAAA
1 TAATTTATTTAAAAAATAAA-AAAAA
329880 TAA-TTATTTAAAAAATAAAAAAAA
1 TAATTTATTTAAAAAATAAAAAAAA
329904 TAAT
1 TAAT
329908 ATGAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
TAATTTATTTAAAAAATAAAAAAAA
Found at i:331625 original size:3 final size:3
Alignment explanation
Indices: 331617--331643 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
331607 GTTGTCGTTG
331617 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
331644 ACGAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:332055 original size:14 final size:14
Alignment explanation
Indices: 332009--332065 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
331999 TTTCAAAATA
332009 AAATTTATTATATT
1 AAATTTATTATATT
*
332023 ATA-TTATT-T-TT
1 AAATTTATTATATT
*
332034 AAA-ATATT-TATAT
1 AAATTTATTATAT-T
332047 AAATTTATTATATT
1 AAATTTATTATATT
332061 AAATT
1 AAATT
332066 ATAATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 9 0.26
12 2 0.06
13 9 0.26
14 12 0.34
15 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AAATTTATTATATT
Found at i:332059 original size:19 final size:20
Alignment explanation
Indices: 332009--332081 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 20
331999 TTTCAAAATA
332009 AAATTTATTATA-TTATATT
1 AAATTTATTATATTTATATT
** **
332028 ATTTTTAAAATATTTATA-T
1 AAATTTATTATATTTATATT
*
332047 AAATTTATTATA-TTAAATT
1 AAATTTATTATATTTATATT
*
332066 ATAATTT-TTTTATTTA
1 A-AATTTATTATATTTA
332082 AAGTTGGAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
18 4 0.10
19 23 0.57
20 13 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AAATTTATTATATTTATATT
Found at i:332082 original size:20 final size:21
Alignment explanation
Indices: 332044--332083 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
332034 AAAATATTTA
332044 TATAAATTTATTATATTAAAT
1 TATAAATTTATTATATTAAAT
* *
332065 TATAATTTTTTTAT-TTAAA
1 TATAAATTTATTATATTAAA
332084 GTTGGAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATAAATTTATTATATTAAAT
Found at i:332640 original size:19 final size:18
Alignment explanation
Indices: 332618--332654 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
332608 AAATATAATA
*
332618 TTAATATTTTATAATTTAT
1 TTAATATATTA-AATTTAT
332637 TTAATATATTAAATTTAT
1 TTAATATATTAAATTTAT
332655 ATAAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATATATTAAATTTAT
Found at i:332728 original size:12 final size:11
Alignment explanation
Indices: 332713--332776 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 11
332703 AAGTTTAATA
332713 AATTATTTATTT
1 AATTATTT-TTT
332725 AATT-TTTTTT
1 AATTATTTTTT
332735 AA-TA-TTTTT
1 AATTATTTTTT
* *
332744 AATT-TATTAT
1 AATTATTTTTT
332754 AA-TA-TTTTT
1 AATTATTTTTT
*
332763 AATTATTATTT
1 AATTATTTTTT
332774 AAT
1 AAT
332777 AAATCCAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
9 14 0.34
10 13 0.32
11 10 0.24
12 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
AATTATTTTTT
Found at i:332746 original size:19 final size:19
Alignment explanation
Indices: 332722--332777 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
332712 AAATTATTTA
332722 TTTAATTTTTTTTAATATT
1 TTTAATTTTTTTTAATATT
* *
332741 TTTAATTTATTATAATATT
1 TTTAATTTTTTTTAATATT
*
332760 TTTAATTATTATTTAATA
1 TTTAATT-TTTTTTAATA
332778 AATCCAGTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 24 0.77
20 7 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTAATTTTTTTTAATATT
Found at i:333064 original size:3 final size:3
Alignment explanation
Indices: 333056--333080 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
333046 GTACTCTTAG
333056 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
333081 CAATAACCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:333674 original size:8 final size:7
Alignment explanation
Indices: 333657--333701 Score: 51
Period size: 6 Copynumber: 6.6 Consensus size: 7
333647 AGATATGGAA
333657 ATATAAT
1 ATATAAT
333664 ATATAATT
1 ATATAA-T
333672 ATATAA-
1 ATATAAT
333678 ATATAAT
1 ATATAAT
333685 A-ATAAT
1 ATATAAT
333691 -TATTAAT
1 ATA-TAAT
333698 ATAT
1 ATAT
333702 TAAAATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
6 12 0.36
7 12 0.36
8 9 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATAAT
Found at i:333691 original size:20 final size:19
Alignment explanation
Indices: 333655--333738 Score: 88
Period size: 18 Copynumber: 4.5 Consensus size: 19
333645 ACAGATATGG
333655 AAATATAATATATAATTATAT
1 AAATATAATA-ATAATTAT-T
333676 AAATATAATAATAATTATT
1 AAATATAATAATAATTATT
*
333695 -AATATATTAA-AATTTATAT
1 AAATATAATAATAA-TTAT-T
333714 AAATATAA-AAT-ATT-TT
1 AAATATAATAATAATTATT
333730 AAATATAAT
1 AAATATAAT
333739 CTTATGATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
16 9 0.16
17 3 0.05
18 15 0.27
19 5 0.09
20 14 0.25
21 10 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATATAATAATAATTATT
Found at i:333699 original size:24 final size:21
Alignment explanation
Indices: 333655--333726 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 21
333645 ACAGATATGG
333655 AAATATAATATATAATTATAT
1 AAATATAATATATAATTATAT
333676 AAATATAATA-ATAATTAT-T
1 AAATATAATATATAATTATAT
*
333695 -AATAT-AT-TAAAATTTATAT
1 AAATATAATATATAA-TTATAT
*
333714 AAATATAAAATAT
1 AAATATAATATAT
333727 TTTAAATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.12
18 9 0.21
19 2 0.05
20 13 0.31
21 11 0.26
22 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATATAATATATAATTATAT
Found at i:333725 original size:27 final size:28
Alignment explanation
Indices: 333695--333762 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
333685 AATAATTATT
333695 AATATATTAAAATTTATAT-AAAT-ATAA
1 AATATATTAAAATTTA-ATCAAATGATAA
* * **
333722 AATAT-TTTAAATATAATCTTATGATAA
1 AATATATTAAAATTTAATCAAATGATAA
333749 AATATATTAAAATT
1 AATATATTAAAATT
333763 ATTACATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 2 0.06
26 10 0.31
27 14 0.44
28 6 0.19
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (28 bp):
AATATATTAAAATTTAATCAAATGATAA
Found at i:335204 original size:47 final size:47
Alignment explanation
Indices: 335150--335252 Score: 188
Period size: 47 Copynumber: 2.2 Consensus size: 47
335140 GCTTTACCAT
*
335150 CTTTGAAACCTTCAACATCTTTTAATGCATTAGGCCAAAGGTCGAAC
1 CTTTGAAACCTTCAACATCTTGTAATGCATTAGGCCAAAGGTCGAAC
*
335197 CTTTGAAACCTTCAACATCTTGTAATGCATTAGGCCACAGGTCGAAC
1 CTTTGAAACCTTCAACATCTTGTAATGCATTAGGCCAAAGGTCGAAC
335244 CTTTGAAAC
1 CTTTGAAAC
335253 GTCTTTGAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (47 bp):
CTTTGAAACCTTCAACATCTTGTAATGCATTAGGCCAAAGGTCGAAC
Found at i:338555 original size:19 final size:19
Alignment explanation
Indices: 338533--338572 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
338523 GTTTAACAAA
*
338533 CAGAAATAAGTCCATTAAT
1 CAGAAATAAGTCCATAAAT
*
338552 CAGAAATAATTCCATAAAT
1 CAGAAATAAGTCCATAAAT
338571 CA
1 CA
338573 TTAAACTGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.25
Consensus pattern (19 bp):
CAGAAATAAGTCCATAAAT
Found at i:342631 original size:15 final size:15
Alignment explanation
Indices: 342611--342642 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
342601 TTTTTTCAAA
342611 AATACAAAAAAAAAG
1 AATACAAAAAAAAAG
*
342626 AATACAAAAAAAGAG
1 AATACAAAAAAAAAG
342641 AA
1 AA
342643 AAAAAGCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.06, G:0.09, T:0.06
Consensus pattern (15 bp):
AATACAAAAAAAAAG
Found at i:356478 original size:19 final size:22
Alignment explanation
Indices: 356439--356478 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
356429 CAAATAATAA
356439 TAATAATAATGATTTATATTAT
1 TAATAATAATGATTTATATTAT
356461 TAATAA-AAT-ATTTA-ATTA
1 TAATAATAATGATTTATATTA
356479 AATTTAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 3 0.17
22 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (22 bp):
TAATAATAATGATTTATATTAT
Found at i:356493 original size:15 final size:15
Alignment explanation
Indices: 356473--356516 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
356463 ATAAAATATT
356473 TAATTAAATTTAATG
1 TAATTAAATTTAATG
*
356488 TAATTAAGTTTAATG
1 TAATTAAATTTAATG
356503 TAATTAAATTTAAT
1 TAATTAAATTTAAT
356517 AATATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (15 bp):
TAATTAAATTTAATG
Found at i:357609 original size:6 final size:6
Alignment explanation
Indices: 357552--357617 Score: 78
Period size: 6 Copynumber: 11.0 Consensus size: 6
357542 TCCATTAACA
* * * *
357552 TCCAAT GCCAAT GCCAAT GCCAAT GCCAAT TCCAAT TCCAAT TCCAAT
1 TCCAAT TCCAAT TCCAAT TCCAAT TCCAAT TCCAAT TCCAAT TCCAAT
* *
357600 TCCAAA TCCAAA TCCAAT
1 TCCAAT TCCAAT TCCAAT
357618 CTACTCATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.36, C:0.33, G:0.06, T:0.24
Consensus pattern (6 bp):
TCCAAT
Found at i:368051 original size:18 final size:19
Alignment explanation
Indices: 368005--368055 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
367995 TTAATGAAGT
368005 TTTTAATTTTATAAATAAA
1 TTTTAATTTTATAAATAAA
** * *
368024 TTAAAATTTTAT-TATATA
1 TTTTAATTTTATAAATAAA
368042 TTTTAATTTT-TAAA
1 TTTTAATTTTATAAA
368056 AATTAAAATA
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
17 1 0.04
18 13 0.54
19 10 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAATTTTATAAATAAA
Found at i:368113 original size:10 final size:10
Alignment explanation
Indices: 368057--368119 Score: 55
Period size: 10 Copynumber: 6.8 Consensus size: 10
368047 ATTTTTAAAA
368057 ATTAAAATAT
1 ATTAAAATAT
* *
368067 AATATAATAT
1 ATTAAAATAT
368077 A--AAAATA-
1 ATTAAAATAT
*
368084 ATAAAAATAT
1 ATTAAAATAT
*
368094 ATT-TAA-AT
1 ATTAAAATAT
368102 ATTAAAATAT
1 ATTAAAATAT
368112 ATTAAAAT
1 ATTAAAAT
368120 TTATATATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
7 1 0.02
8 10 0.24
9 10 0.24
10 21 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:373048 original size:16 final size:17
Alignment explanation
Indices: 373027--373073 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
373017 ACCTCAGCTT
373027 ATTTAATTCATTTA-TA
1 ATTTAATTCATTTATTA
* *
373043 ATTTAATT-TTTTATTT
1 ATTTAATTCATTTATTA
373059 ATTTAATCTCATTTA
1 ATTTAAT-TCATTTA
373074 AAAATATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 4 0.16
16 16 0.64
17 1 0.04
18 4 0.16
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTAATTCATTTATTA
Found at i:373085 original size:32 final size:33
Alignment explanation
Indices: 373025--373098 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
373015 TGACCTCAGC
** *
373025 TTATTTAATTCATTTATAATTTAATTTTTTA-T
1 TTATTTAATTCATTTATAAAATAATTTTTAAGT
*
373057 TTATTTAATCTCATTTA-AAAATATTTTTTAAGT
1 TTATTTAAT-TCATTTATAAAATAATTTTTAAGT
373090 TTA-TTAATT
1 TTATTTAATT
373099 TAATATTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 1 0.03
32 24 0.67
33 11 0.31
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (33 bp):
TTATTTAATTCATTTATAAAATAATTTTTAAGT
Found at i:373094 original size:33 final size:32
Alignment explanation
Indices: 373025--373086 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
373015 TGACCTCAGC
**
373025 TTATTTAATTCATTTATAATTTAATTTTTTAT
1 TTATTTAATTCATTTATAAAATAATTTTTTAT
373057 TTATTTAATCTCATTTA-AAAAT-ATTTTTTA
1 TTATTTAAT-TCATTTATAAAATAATTTTTTA
373087 AGTTTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 8 0.30
32 12 0.44
33 7 0.26
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (32 bp):
TTATTTAATTCATTTATAAAATAATTTTTTAT
Found at i:373212 original size:17 final size:17
Alignment explanation
Indices: 373190--373222 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
373180 AAATAAAATT
373190 ATAATTTTA-TAAATAAA
1 ATAA-TTTACTAAATAAA
373207 ATAATTTACTAAATAA
1 ATAATTTACTAAATAA
373223 TAGTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAATTTACTAAATAAA
Found at i:391816 original size:6 final size:6
Alignment explanation
Indices: 391807--391840 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
391797 GGAAAGAGAA
*
391807 GAAGGC GAAGGC GAAGGC GAAGGC GAAGAC GAAG
1 GAAGGC GAAGGC GAAGGC GAAGGC GAAGGC GAAG
391841 AAGAAGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.47, T:0.00
Consensus pattern (6 bp):
GAAGGC
Found at i:391846 original size:18 final size:18
Alignment explanation
Indices: 391803--391846 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
391793 AAAAGGAAAG
*
391803 AGAAGAAGGCGAAGGCGA
1 AGAAGAAGGCGAAGACGA
**
391821 AGGCGAAGGCGAAGACGA
1 AGAAGAAGGCGAAGACGA
391839 AGAAGAAG
1 AGAAGAAG
391847 AAGAAGAAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.11, G:0.43, T:0.00
Consensus pattern (18 bp):
AGAAGAAGGCGAAGACGA
Found at i:395955 original size:22 final size:22
Alignment explanation
Indices: 395901--395958 Score: 98
Period size: 23 Copynumber: 2.6 Consensus size: 22
395891 TATTCACATT
395901 TTTTTATCATCTACATAGTAAA
1 TTTTTATCATCTACATAGTAAA
*
395923 TATGTTATCATCTACATAGTAAA
1 T-TTTTATCATCTACATAGTAAA
395946 TTTTTATCATCTA
1 TTTTTATCATCTA
395959 TTTAAATAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTTTATCATCTACATAGTAAA
Found at i:396966 original size:22 final size:22
Alignment explanation
Indices: 396918--396974 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
396908 TTATTTTGGG
* *
396918 ATTGATATATATTAATATTAGTGT
1 ATTGATATAT-TT-TTATAAGTGT
*
396942 ATTGATATATTTTTATAAGTTT
1 ATTGATATATTTTTATAAGTGT
396964 ATT--TATATTTT
1 ATTGATATATTTT
396975 AAAATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 8 0.27
22 10 0.33
23 2 0.07
24 10 0.33
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (22 bp):
ATTGATATATTTTTATAAGTGT
Found at i:396990 original size:9 final size:10
Alignment explanation
Indices: 396968--397018 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
396958 AAGTTTATTT
396968 ATATTTTAAA
1 ATATTTTAAA
396978 ATATTTTAAA
1 ATATTTTAAA
*
396988 TATATATTTATA
1 -ATAT-TTTAAA
*
397000 ATATATTTATA
1 ATAT-TTTAAA
397011 AT-TTTTAA
1 ATATTTTAA
397019 TAAAATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 4 0.11
10 11 0.30
11 17 0.46
12 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATATTTTAAA
Found at i:396992 original size:11 final size:11
Alignment explanation
Indices: 396967--397007 Score: 57
Period size: 10 Copynumber: 3.6 Consensus size: 11
396957 TAAGTTTATT
396967 TATATTTTAAA
1 TATATTTTAAA
396978 -ATATTTTAAA
1 TATATTTTAAA
396988 TATATATTTATAA
1 TATAT-TTTA-AA
397001 TATATTT
1 TATATTT
397008 ATAATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 10 0.37
11 4 0.15
12 6 0.22
13 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATTTTAAA
Found at i:397007 original size:34 final size:38
Alignment explanation
Indices: 396967--397048 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 38
396957 TAAGTTTATT
*
396967 TATATTTTAAAATATTT-T-AAATATA-TATTTATAA-
1 TATATTTTAAAATATTTATAAAATATATTATATATAAG
* *
397001 TATA-TTTATAATTTTTAATAAAATATATTATATATAAG
1 TATATTTTAAAATATTT-ATAAAATATATTATATATAAG
397039 TATATTTTAA
1 TATATTTTAA
397049 TTACATCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
33 10 0.26
34 4 0.11
35 1 0.03
36 7 0.18
37 8 0.21
38 4 0.11
39 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (38 bp):
TATATTTTAAAATATTTATAAAATATATTATATATAAG
Found at i:397008 original size:23 final size:21
Alignment explanation
Indices: 396967--397008 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
396957 TAAGTTTATT
396967 TATATTTTAAAATATTTTAAA
1 TATATTTTAAAATATTTTAAA
*
396988 TATATATTTATAATATATTTA
1 TATAT-TTTAAAATAT-TTTA
397009 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 9 0.50
23 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATATTTTAAAATATTTTAAA
Found at i:397186 original size:21 final size:23
Alignment explanation
Indices: 397149--397212 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 23
397139 ATTTATTTTT
397149 AAATATAATTATAAAAAATAAAA
1 AAATATAATTATAAAAAATAAAA
* *
397172 AAAT-TAATT-TAAAAATTAAAT
1 AAATATAATTATAAAAAATAAAA
*
397193 AAATAAAATTTATAATAAAA
1 AAATATAA-TTATAA-AAAA
397213 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 14 0.42
22 7 0.21
23 6 0.18
24 3 0.09
25 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATATAATTATAAAAAATAAAA
Found at i:397211 original size:27 final size:25
Alignment explanation
Indices: 397164--397218 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
397154 TAATTATAAA
*
397164 AAATAAAAAAATTAATTTAAAAATT
1 AAATAAAAAAATTAATATAAAAATT
*
397189 AAATAAATAAAATTTATAATAAAAATT
1 AAATAAA-AAAATTAAT-ATAAAAATT
397216 AAA
1 AAA
397219 ATTTTGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 8 0.31
27 11 0.42
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATAAAAAAATTAATATAAAAATT
Found at i:398216 original size:24 final size:24
Alignment explanation
Indices: 398172--398242 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
398162 TTAAAATATT
*
398172 TTTATTTTTTTCCTTTGAAAAAACTA
1 TTTATTTTTTT-ATTT-AAAAAACTA
*
398198 TTTATTTTTTTATTTAAAAAATTA
1 TTTATTTTTTTATTTAAAAAACTA
** * *
398222 TCCATCTTTTTATGTAAAAAA
1 TTTATTTTTTTATTTAAAAAA
398243 ATTCACTCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 25 0.64
25 3 0.08
26 11 0.28
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (24 bp):
TTTATTTTTTTATTTAAAAAACTA
Found at i:400225 original size:23 final size:22
Alignment explanation
Indices: 400183--400226 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
400173 TATTATAAAT
400183 TATTATTTATTTATTTAATTAA
1 TATTATTTATTTATTTAATTAA
400205 TATT-TTTATTTAAATTTAATTA
1 TATTATTTATTT--ATTTAATTA
400227 TAAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATTTATTTATTTAATTAA
Found at i:400613 original size:4 final size:4
Alignment explanation
Indices: 400604--400668 Score: 103
Period size: 4 Copynumber: 16.2 Consensus size: 4
400594 AATCCTTGTA
* * *
400604 ATAC ATAC ATAC ATGC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
400652 ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC A
400669 CACACAAAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.46, C:0.25, G:0.05, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:403355 original size:32 final size:28
Alignment explanation
Indices: 403319--403396 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 28
403309 TATCAATTAA
*
403319 TTTAACAATTTTTTAAATTAAAATAATTATAT
1 TTTAATAATTTTTTAAATT--AAT-ATTAT-T
403351 TTTAATAATTTATTTTAAATTAATATTATT
1 TTTAATAA-TT-TTTTAAATTAATATTATT
403381 TTT-ATAATTTTTTAAA
1 TTTAATAATTTTTTAAA
403397 AAATAATAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
27 7 0.16
28 2 0.05
29 4 0.09
30 4 0.09
31 5 0.12
32 10 0.23
33 2 0.05
34 9 0.21
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTAATAATTTTTTAAATTAATATTATT
Found at i:403359 original size:14 final size:13
Alignment explanation
Indices: 403340--403390 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 13
403330 TTTAAATTAA
403340 AATAATTATATTTT
1 AATAATT-TATTTT
403354 AATAATTTATTTT
1 AATAATTTATTTT
403367 AAATTAATATTATTTT
1 -AA-TAAT-TTATTTT
*
403383 TATAATTT
1 AATAATTT
403391 TTTAAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 8 0.24
14 13 0.39
15 5 0.15
16 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATAATTTATTTT
Found at i:403371 original size:11 final size:14
Alignment explanation
Indices: 403340--403368 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
403330 TTTAAATTAA
403340 AATAATTATATTTT
1 AATAATTATATTTT
403354 AATAATT-TATTTT
1 AATAATTATATTTT
403367 AA
1 AA
403369 ATTAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATAATTATATTTT
Found at i:403403 original size:29 final size:29
Alignment explanation
Indices: 403338--403414 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
403328 TTTTTAAATT
*
403338 AAAATAAT-TATATTTTAATAATTTATTTT
1 AAAATAATAT-TATTTTAATAATTTATTTA
* *
403367 AAATTAATATTATTTTTATAATTT-TTTAA
1 AAAATAATATTATTTTAATAATTTATTT-A
*
403396 AAAATAATAGTATTTTAAT
1 AAAATAATATTATTTTAAT
403415 TTATGTGCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.08
29 36 0.90
30 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (29 bp):
AAAATAATATTATTTTAATAATTTATTTA
Found at i:404516 original size:27 final size:24
Alignment explanation
Indices: 404476--404532 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
404466 TAAAATTATT
*
404476 TATATTTATTTTTAAATTTTTTAATAA
1 TATA-TTATTTTT-AA-TTATTAATAA
404503 TATATTATTATTTAATTATTAATAA
1 TATATTATT-TTTAATTATTAATAA
404528 TATAT
1 TATAT
404533 AAATATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 14 0.50
26 7 0.25
27 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTATTTTTAATTATTAATAA
Found at i:407099 original size:59 final size:59
Alignment explanation
Indices: 407007--407125 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
406997 CACTGTATTA
* *
407007 AGAGCTGCGGATAGTTGAAGGATACCATGGTGCCTATAAGCAATCCTGATTCATCACCT
1 AGAGCTGCAGATAGTTGAAGGATACCACGGTGCCTATAAGCAATCCTGATTCATCACCT
407066 AGAGCTGCAGATAGTTGAAGGATACCACGGTGCCTATAAGCAATCCTGATTCATCACCT
1 AGAGCTGCAGATAGTTGAAGGATACCACGGTGCCTATAAGCAATCCTGATTCATCACCT
407125 A
1 A
407126 AACCTTGTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (59 bp):
AGAGCTGCAGATAGTTGAAGGATACCACGGTGCCTATAAGCAATCCTGATTCATCACCT
Found at i:412520 original size:16 final size:15
Alignment explanation
Indices: 412499--412532 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
412489 AAAAAGATTT
*
412499 TTTTTAAATTAATTAA
1 TTTTTAAAGTAA-TAA
412515 TTTTTAAAGTAATAA
1 TTTTTAAAGTAATAA
412530 TTT
1 TTT
412533 AATTATACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TTTTTAAAGTAATAA
Found at i:413600 original size:25 final size:25
Alignment explanation
Indices: 413572--413623 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
413562 ATCTTGATTT
413572 AATAATTTTAAATATAATATATAAAA
1 AATAATTTTAAATA-AATATATAAAA
*
413598 ATATAAATTTTTAATAAATATATAAA
1 A-AT-AATTTTAAATAAATATATAAA
413624 TATAAACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 1 0.04
27 12 0.52
28 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATAATTTTAAATAAATATATAAAA
Found at i:415900 original size:38 final size:38
Alignment explanation
Indices: 415849--415925 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
415839 AAGCTCCCAA
415849 TCCTAATAAGTTTAATAAAGACATGGATAAATAAATAC
1 TCCTAATAAGTTTAATAAAGACATGGATAAATAAATAC
415887 TCCTAATAAGTTTAATAAAGACATGGATAAATAAATAC
1 TCCTAATAAGTTTAATAAAGACATGGATAAATAAATAC
415925 T
1 T
415926 GATACCATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (38 bp):
TCCTAATAAGTTTAATAAAGACATGGATAAATAAATAC
Found at i:426722 original size:3 final size:3
Alignment explanation
Indices: 426714--426748 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
426704 GTATGATTTC
*
426714 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
426749 AACTGATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:426974 original size:5 final size:5
Alignment explanation
Indices: 426964--426996 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
426954 GCATATGCCC
*
426964 AAATT AAATT AAATT AAATT TAATT AAA-T AAAT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAAT
426997 AATTGATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:428184 original size:2 final size:2
Alignment explanation
Indices: 428179--428209 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
428169 TTTTTTCAGC
*
428179 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
428210 TGCTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:429491 original size:11 final size:11
Alignment explanation
Indices: 429475--429531 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
429465 TATGTATTTT
429475 ATTATATTATA
1 ATTATATTATA
429486 ATTATATT-TAA
1 ATTATATTAT-A
* *
429497 AATATTTTATA
1 ATTATATTATA
429508 ATTATATTAATA
1 ATTATATT-ATA
429520 ATTTATATTATA
1 A-TTATATTATA
429532 TATAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 1 0.03
11 22 0.58
12 8 0.21
13 7 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTATATTATA
Found at i:429535 original size:22 final size:23
Alignment explanation
Indices: 429474--429567 Score: 68
Period size: 25 Copynumber: 3.8 Consensus size: 23
429464 TTATGTATTT
429474 TATTATATTATAATTATATTTAAAA
1 TATTATATTAT-A-TATATTTAAAA
* *
429499 TATTTTATAAT-TATA-TTAATAA
1 TATTATATTATATATATTTAA-AA
429521 T-TTATATTATATATAAATTTTAAAA
1 TATTATATTATATAT--A-TTTAAAA
429546 TATATATATATATATCATATTT
1 TAT-TATAT-TATAT-ATATTT
429568 TAATTATTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
21 11 0.20
22 10 0.18
24 1 0.02
25 12 0.22
26 8 0.15
27 6 0.11
28 5 0.09
29 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTATATTATATATATTTAAAA
Found at i:429542 original size:18 final size:19
Alignment explanation
Indices: 429497--429558 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
429487 TTATATTTAA
429497 AATATTTTATAATTATAT-T
1 AATATTTTAT-ATTATATAT
*
429516 AATAATTTATATTATATAT
1 AATATTTTATATTATATAT
* *
429535 AA-ATTTTAAAATATATAT
1 AATATTTTATATTATATAT
429553 ATATAT
1 A-ATAT
429559 ATCATATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 21 0.58
19 13 0.36
20 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATTTTATATTATATAT
Found at i:429543 original size:26 final size:28
Alignment explanation
Indices: 429514--429576 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 28
429504 TATAATTATA
429514 TTAATAATTTATAT-TATATAT-AAATT
1 TTAATAATTTATATATATATATCAAATT
* *
429540 TTAA-AATATATATATATATATCATATT
1 TTAATAATTTATATATATATATCAAATT
*
429567 TTAATTATTT
1 TTAATAATTT
429577 CATTCATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.27
26 11 0.37
27 8 0.27
28 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
TTAATAATTTATATATATATATCAAATT
Found at i:431942 original size:20 final size:21
Alignment explanation
Indices: 431910--431949 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
431900 GTTTAAATTT
431910 AAATTATTATTTAT-TTTATC
1 AAATTATTATTTATATTTATC
431930 AAATT-TTATTTTATATTTAT
1 AAATTATTA-TTTATATTTAT
431950 AATTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 10 0.56
21 5 0.28
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
AAATTATTATTTATATTTATC
Found at i:432005 original size:19 final size:19
Alignment explanation
Indices: 431901--432005 Score: 74
Period size: 19 Copynumber: 5.5 Consensus size: 19
431891 GATTTGTTTG
*
431901 TTTAAATTTAAATTATTA-
1 TTTAAATTAAAATTATTAT
**
431919 TTTATTTTATCAAATT-TTAT
1 TTTAAATTA--AAATTATTAT
* * *
431939 TTTATATTTATAATTA--AA
1 TTTA-AATTAAAATTATTAT
*
431957 TTTAAATAAAAATATATTAT
1 TTTAAATTAAAAT-TATTAT
*
431977 TTTAATTTAAAATTATTAT
1 TTTAAATTAAAATTATTAT
431996 TTTAAATTAA
1 TTTAAATTAA
432006 TAAAAAATAT
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
17 6 0.09
18 13 0.20
19 22 0.33
20 21 0.32
21 4 0.06
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAATTAAAATTATTAT
Found at i:432207 original size:27 final size:28
Alignment explanation
Indices: 432154--432207 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
432144 CAAATCTAAA
*
432154 TTAAATTTTGAATAATAAATTTAATAAT
1 TTAAATTTTGAATAATAAAATTAATAAT
*
432182 TTAAA-TTT-AATTATAAAATTATATAA
1 TTAAATTTTGAATAATAAAATTA-ATAA
432208 ATATTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 7 0.30
28 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
TTAAATTTTGAATAATAAAATTAATAAT
Found at i:432226 original size:19 final size:19
Alignment explanation
Indices: 432191--432227 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
432181 TTTAAATTTA
* *
432191 ATTATAAAATTATATAAAT
1 ATTATAAAAATAAATAAAT
432210 ATTATAAAAATAAATAAA
1 ATTATAAAAATAAATAAA
432228 CTATCAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTATAAAAATAAATAAAT
Found at i:432708 original size:22 final size:23
Alignment explanation
Indices: 432665--432708 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
432655 CTTATGGAAA
* * *
432665 TAAATAAAATAAAAACATTGAGG
1 TAAATAAAAAAAAAAAAGTGAGG
432688 TAAA-AAAAAAAAAAAAGTGAG
1 TAAATAAAAAAAAAAAAGTGAG
432709 ATGGGTCTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.68, C:0.02, G:0.14, T:0.16
Consensus pattern (23 bp):
TAAATAAAAAAAAAAAAGTGAGG
Found at i:433881 original size:5 final size:5
Alignment explanation
Indices: 433859--433960 Score: 68
Period size: 5 Copynumber: 20.0 Consensus size: 5
433849 AAATTTTTAA
* * *
433859 TATAT TA-AT AAT-T TATAT TATAT ATATTT TATAT T-TA- TAAATT TATAT
1 TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATA-T TATAT
* * *
433907 CATATT TATAT TATAT TATAT TTTAAT TATTT TCATAT TATATT TATAT
1 TATA-T TATAT TATAT TATAT TAT-AT TATAT T-ATAT TATA-T TATAT
433956 TATAT
1 TATAT
433961 ATAAAATTAT
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
3 1 0.01
4 9 0.12
5 41 0.55
6 24 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:433886 original size:48 final size:46
Alignment explanation
Indices: 433834--433927 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 46
433824 TACGTTTAAA
* *
433834 ATATTATATATTTTTAAATTTTTAAT-ATATTAATAATTTATATTATAT
1 ATATTATATATTTATAAATTTAT-ATCATATTAAT-A-TTATATTATAT
* *
433882 ATATTTTATATTTATAAATTTATATCATATTTATATTATATTATAT
1 ATATTATATATTTATAAATTTATATCATATTAATATTATATTATAT
433928 TTTAATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
46 11 0.27
47 3 0.07
48 27 0.66
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (46 bp):
ATATTATATATTTATAAATTTATATCATATTAATATTATATTATAT
Found at i:433889 original size:16 final size:16
Alignment explanation
Indices: 433859--433963 Score: 73
Period size: 16 Copynumber: 6.8 Consensus size: 16
433849 AAATTTTTAA
433859 TATATTA-ATA-A-TT
1 TATATTATATATATTT
433872 TATATTATATATATTT
1 TATATTATATATATTT
*
433888 TATATT-TATA-AATT
1 TATATTATATATATTT
* * *
433902 TATATCATATTTATAT
1 TATATTATATATATTT
433918 TATATTATAT-T-TTAAT
1 TATATTATATATATT--T
*
433934 TATTTTCATAT-TATATT
1 TATATT-ATATATAT-TT
433951 TATATTATATATA
1 TATATTATATATA
433964 AAATTATCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
13 7 0.10
14 12 0.17
15 9 0.12
16 29 0.40
17 13 0.18
18 1 0.01
19 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATTATATATATTT
Found at i:433904 original size:30 final size:29
Alignment explanation
Indices: 433859--433924 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
433849 AAATTTTTAA
* *
433859 TATATTAATAATTTATATTATATATATTT
1 TATATTAATAATTTATATCATATATATAT
* *
433888 TATATTTATAAATTTATATCATATTTATAT
1 TATATTAAT-AATTTATATCATATATATAT
433918 TATATTA
1 TATATTA
433925 TATTTTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (29 bp):
TATATTAATAATTTATATCATATATATAT
Found at i:433914 original size:41 final size:39
Alignment explanation
Indices: 433834--433963 Score: 130
Period size: 38 Copynumber: 3.3 Consensus size: 39
433824 TACGTTTAAA
*
433834 ATATTATATAT-TTTTAAATTTTTAATATATTA-ATA-ATTT
1 ATATTATATATATTTT-AATTTATAA-AT-TTATATATATTT
433873 ATATTATATATATTTTATATTTATAAATTTATATCATATTT
1 ATATTATATATATTTTA-ATTTATAAATTTATAT-ATATTT
433914 ATATTATATTATATTTTAA-TTAT---TTTCATATTATATTT
1 ATATTATA-TATATTTTAATTTATAAATTT-ATA-TATATTT
433952 ATATTATATATA
1 ATATTATATATA
433964 AAATTATCAT
Statistics
Matches: 82, Mismatches: 1, Indels: 18
0.81 0.01 0.18
Matches are distributed among these distances:
37 7 0.09
38 20 0.24
39 17 0.21
40 16 0.20
41 13 0.16
42 9 0.11
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (39 bp):
ATATTATATATATTTTAATTTATAAATTTATATATATTT
Found at i:434020 original size:5 final size:5
Alignment explanation
Indices: 434000--434085 Score: 54
Period size: 5 Copynumber: 17.2 Consensus size: 5
433990 GTTGCACTTG
* *
434000 TTATA TTTTT TTATA TTATA -TATA CTT-TA TATATA TTTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA -TTATA T-TATA -TTATA TTATA
* * * *
434046 TTATA TTTTA AT-TA TT-TA TCATA TTATA TTTATG TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA -TTATA TTATA T
434086 ATGAAATTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
4 11 0.17
5 40 0.63
6 11 0.17
7 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:434031 original size:11 final size:10
Alignment explanation
Indices: 434001--434087 Score: 55
Period size: 9 Copynumber: 9.3 Consensus size: 10
433991 TTGCACTTGT
* *
434001 TATATTTTTT
1 TATATTTATA
434011 TATA-TTATA
1 TATATTTATA
434020 TATACTTTATA
1 TATA-TTTATA
434031 TATATTTATA
1 TATATTTATA
*
434041 T-TATAT-TA
1 TATATTTATA
434049 TAT-TTTA-A
1 TATATTTATA
434057 T-TATTTAT-
1 TATATTTATA
*
434065 CATA-TTATA
1 TATATTTATA
*
434074 TTTATGTTATA
1 TATAT-TTATA
434085 TAT
1 TAT
434088 GAAATTATCA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
7 1 0.02
8 15 0.25
9 16 0.27
10 11 0.19
11 16 0.27
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (10 bp):
TATATTTATA
Found at i:434038 original size:26 final size:26
Alignment explanation
Indices: 434000--434064 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
433990 GTTGCACTTG
*
434000 TTATATTTTTTTATATTATA-TATACT
1 TTATA-TTATTTATATTATATTATACT
*
434026 TTATATATATTTATATTATATTATATT
1 TTATAT-TATTTATATTATATTATACT
434053 TTA-ATTATTTAT
1 TTATATTATTTAT
434065 CATATTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 8 0.23
26 19 0.54
27 8 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TTATATTATTTATATTATATTATACT
Found at i:434050 original size:18 final size:17
Alignment explanation
Indices: 434029--434087 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
434019 ATATACTTTA
434029 TATATATTTATATTATAT
1 TATATATTTATATTAT-T
434047 TATAT-TTTA-ATTATT
1 TATATATTTATATTATT
434062 TATCATA-TTATATTTATGT
1 TAT-ATATTTATA-TTAT-T
434081 TATATAT
1 TATATAT
434088 GAAATTATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
15 4 0.11
16 10 0.29
17 5 0.14
18 12 0.34
19 4 0.11
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TATATATTTATATTATT
Found at i:435862 original size:2 final size:2
Alignment explanation
Indices: 435855--435888 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
435845 TGAGTATTGA
435855 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
435889 TTGGAGTCAG
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:440963 original size:17 final size:17
Alignment explanation
Indices: 440943--440987 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
440933 TTTTTATTAT
440943 TATAAAATTTATATTTA
1 TATAAAATTTATATTTA
440960 TATAAAATTTA-ATTTA
1 TATAAAATTTATATTTA
*
440976 -AT-TAATTTATAT
1 TATAAAATTTATAT
440988 AATTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 6 0.23
15 4 0.15
16 5 0.19
17 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAAAATTTATATTTA
Found at i:448018 original size:19 final size:19
Alignment explanation
Indices: 447961--448018 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
447951 TTTTATATTT
*
447961 TAATATTAAATTAAAATAAA
1 TAAT-TTAAATTATAATAAA
* *
447981 -AATTTTAATTATAAAAAA
1 TAATTTAAATTATAATAAA
*
447999 TAATTTAAATTATATTAAA
1 TAATTTAAATTATAATAAA
448018 T
1 T
448019 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATTTAAATTATAATAAA
Found at i:451336 original size:2 final size:2
Alignment explanation
Indices: 451329--451370 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
451319 ATTTTAACTT
451329 TA TA TA TA TA 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 TA TA TA TA TA
451371 AAGATTCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:454311 original size:25 final size:23
Alignment explanation
Indices: 454260--454312 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
454250 ATGTAACAAT
* *
454260 AATATAAATTTGATAAAAAAATT
1 AATATAAATATGATAAAAAAATA
*
454283 AATATAAATATGATATAAATATATA
1 AATATAAATATGATA-AAA-AAATA
454308 AATAT
1 AATAT
454313 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.56
24 3 0.12
25 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
AATATAAATATGATAAAAAAATA
Found at i:454666 original size:11 final size:11
Alignment explanation
Indices: 454638--454675 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
454628 AAAAAAAAAT
454638 TATAATAT-AA
1 TATAATATAAA
454648 TATAATATAAA
1 TATAATATAAA
*
454659 TATGATATAAA
1 TATAATATAAA
454670 TA-AATA
1 TATAATA
454676 AATAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 11 0.44
11 14 0.56
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TATAATATAAA
Found at i:454666 original size:16 final size:15
Alignment explanation
Indices: 454641--454679 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
454631 AAAAAATTAT
454641 AATATAATATAATATA
1 AATATAATATAA-ATA
*
454657 AATATGATATAAATA
1 AATATAATATAAATA
454672 AATA-AATA
1 AATATAATA
454680 AATAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 3 0.14
15 7 0.33
16 11 0.52
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATAATATAAATA
Found at i:455659 original size:16 final size:17
Alignment explanation
Indices: 455638--455670 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
455628 CTGGTTTAAT
455638 CAGAAG-AGGCTAAATG
1 CAGAAGTAGGCTAAATG
*
455654 CAGAAGTATGCTAAATG
1 CAGAAGTAGGCTAAATG
455671 AAACGCAGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.18
Consensus pattern (17 bp):
CAGAAGTAGGCTAAATG
Found at i:456907 original size:2 final size:2
Alignment explanation
Indices: 456900--456928 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
456890 TCCCTGGAAA
456900 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
456929 GAGAGAGAGA
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:456933 original size:2 final size:2
Alignment explanation
Indices: 456928--456960 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
456918 ATATATATAT
456928 AG 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 AG A
456961 ATATAATTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:457454 original size:4 final size:4
Alignment explanation
Indices: 457445--457477 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
457435 AAGAATGAAC
457445 AAAG AAAG AAAG AAAG -AAG -AAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
457478 CTAATCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 6 0.21
4 22 0.79
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:457469 original size:14 final size:14
Alignment explanation
Indices: 457450--457476 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
457440 TGAACAAAGA
457450 AAGAAAGAAAGAAG
1 AAGAAAGAAAGAAG
457464 AAGAAAGAAAGAA
1 AAGAAAGAAAGAA
457477 ACTAATCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAAGAAG
Found at i:457475 original size:11 final size:11
Alignment explanation
Indices: 457434--457476 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
457424 TAGTTGAGGT
* *
457434 AAAGAATGAAC
1 AAAGAAAGAAG
457445 AAAGAAAGAAAG
1 AAAGAAAG-AAG
457457 AAAG-AAGAAG
1 AAAGAAAGAAG
457467 AAAGAAAGAA
1 AAAGAAAGAA
457477 ACTAATCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.25
11 15 0.54
12 6 0.21
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.02
Consensus pattern (11 bp):
AAAGAAAGAAG
Found at i:460606 original size:21 final size:20
Alignment explanation
Indices: 460581--460619 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
460571 ATTTGTTCAC
*
460581 AATAATATAAAATATTATGTT
1 AATAAAATAAAA-ATTATGTT
*
460602 AATAAAATTAAAATTATG
1 AATAAAATAAAAATTATG
460620 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AATAAAATAAAAATTATGTT
Found at i:460859 original size:2 final size:2
Alignment explanation
Indices: 460852--460887 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
460842 TTAAAGTGCA
*
460852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
460888 TGCTTTTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:462091 original size:15 final size:15
Alignment explanation
Indices: 462050--462093 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
462040 GTTATTAAGT
*
462050 TTAAATTTTAAATTTA
1 TTAAATTTT-AATTAA
**
462066 TTAAAAATTAATTAA
1 TTAAATTTTAATTAA
462081 TTAAATTTTAATT
1 TTAAATTTTAATT
462094 TTATTATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAATTTTAATTAA
Found at i:468200 original size:32 final size:31
Alignment explanation
Indices: 468155--468231 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 31
468145 CATATAAAAA
* *
468155 AATATAATTAATAT-ATTATTTTAAAATTTAAT
1 AATATACTAAATATAATTATTTTAAAA--TAAT
468187 AATATACTAAATATAAAATTATTTTAAAATAAT
1 AATATACTAAATAT--AATTATTTTAAAATAAT
*
468220 TATA-ACTAAATA
1 AATATACTAAATA
468232 ACCCTTTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
32 20 0.51
33 7 0.18
35 12 0.31
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (31 bp):
AATATACTAAATATAATTATTTTAAAATAAT
Found at i:468216 original size:18 final size:19
Alignment explanation
Indices: 468163--468217 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 19
468153 AAAATATAAT
*
468163 TAATATATTATTTTAAAATT
1 TAATA-ATTATTTTAAAATA
**
468183 TAATAA-TATACT-AAATA
1 TAATAATTATTTTAAAATA
468200 TAA-AATTATTTTAAAATA
1 TAATAATTATTTTAAAATA
468218 ATTATAACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
16 2 0.07
17 11 0.39
18 9 0.32
19 1 0.04
20 5 0.18
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATAATTATTTTAAAATA
Found at i:470284 original size:1 final size:1
Alignment explanation
Indices: 470278--470302 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
470268 CATCTTTGCG
470278 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
470303 GGCGCGCGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:476262 original size:18 final size:19
Alignment explanation
Indices: 476229--476265 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
476219 AACTGCTATA
*
476229 TATCTTTTGATTCTTGATG
1 TATCTTGTGATTCTTGATG
476248 TATCTTGTG-TTCTTGATG
1 TATCTTGTGATTCTTGATG
476266 CATTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.14, C:0.11, G:0.19, T:0.57
Consensus pattern (19 bp):
TATCTTGTGATTCTTGATG
Found at i:477250 original size:29 final size:30
Alignment explanation
Indices: 477211--477270 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 30
477201 GATTATGACA
477211 TAAAAACTATAAAATAAT-ATTATATAATTT
1 TAAAAACTATAAAAT-ATGATTATATAATTT
477241 TAAAAA-TATAAAATATGATTATATAATTT
1 TAAAAACTATAAAATATGATTATATAATTT
477270 T
1 T
477271 TTAGATATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 2 0.07
29 21 0.72
30 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
TAAAAACTATAAAATATGATTATATAATTT
Found at i:481797 original size:22 final size:21
Alignment explanation
Indices: 481757--481805 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
481747 TATTGTGTTT
*
481757 TTATATTTTATTATATTATAA
1 TTATATTTAATTATATTATAA
* *
481778 TTATATTTAAATTATTTTATAT
1 TTATATTT-AATTATATTATAA
481800 TTATAT
1 TTATAT
481806 AAAATTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATATTTAATTATATTATAA
Found at i:481835 original size:14 final size:15
Alignment explanation
Indices: 481805--481834 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
481795 TATATTTATA
481805 TAAAATTTAATATTT
1 TAAAATTTAATATTT
*
481820 TAAATTTTAATATTT
1 TAAAATTTAATATTT
481835 ATATATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAAATTTAATATTT
Found at i:481860 original size:19 final size:18
Alignment explanation
Indices: 481758--481874 Score: 64
Period size: 18 Copynumber: 6.2 Consensus size: 18
481748 ATTGTGTTTT
*
481758 TATATTTTATTATA-TTA
1 TATATTTTATAATATTTA
481775 TAATTATATTTA-AATTATTT-
1 T-A-TAT-TTTATAA-TATTTA
*
481795 TATATTTATATAAAATTTA
1 TATATTT-TATAATATTTA
481814 -ATATTTTAAATTTTAATATTTA
1 TATATTTT--A---TAATATTTA
*
481836 TATATTTTATAATTTTTA
1 TATATTTTATAATATTTA
*
481854 TTATATTTTA-ATTATTTA
1 -TATATTTTATAATATTTA
481872 TAT
1 TAT
481875 CCATCGTTTA
Statistics
Matches: 79, Mismatches: 6, Indels: 30
0.69 0.05 0.26
Matches are distributed among these distances:
17 7 0.09
18 30 0.38
19 17 0.22
20 7 0.09
21 3 0.04
22 8 0.10
23 7 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATTTTATAATATTTA
Found at i:484735 original size:18 final size:18
Alignment explanation
Indices: 484714--484773 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
484704 CTACATATAA
484714 ATATAATATATATTAAAT
1 ATATAATATATATTAAAT
*
484732 ATATTATAT-TAATTAAAT
1 ATATAATATAT-ATTAAAT
*
484750 -T-TATTATAT-TTAAAT
1 ATATAATATATATTAAAT
*
484765 ATATCATAT
1 ATATAATAT
484774 CATAATTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
15 6 0.18
16 5 0.15
17 7 0.21
18 15 0.45
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATAATATATATTAAAT
Found at i:485803 original size:22 final size:22
Alignment explanation
Indices: 485779--485821 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
485769 CTTTTTTAAA
485779 AAAAAAATTTT-CTTTTTTTTC
1 AAAAAAATTTTGCTTTTTTTTC
**
485800 AAAAATTTTTTGCTTTTTTTTC
1 AAAAAAATTTTGCTTTTTTTTC
485822 GTCCATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (22 bp):
AAAAAAATTTTGCTTTTTTTTC
Found at i:486993 original size:22 final size:22
Alignment explanation
Indices: 486967--487008 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
486957 TATATTTAAA
486967 TTTTAATATTAT-AATTTTTTAT
1 TTTTAA-ATTATGAATTTTTTAT
*
486989 TTTTAAATTATGAGTTTTTT
1 TTTTAAATTATGAATTTTTT
487009 TTATGTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTAAATTATGAATTTTTTAT
Found at i:487406 original size:20 final size:20
Alignment explanation
Indices: 487381--487439 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
487371 AAAAAAGTCA
* *
487381 AATTATTTTATTATTTTTTT
1 AATTATTTTATTATTTATGT
*
487401 AATTATATTTGATAATTTATGT
1 AATTAT-TTT-ATTATTTATGT
*
487423 ATTTATTTTA-TATTTAT
1 AATTATTTTATTATTTAT
487440 ATATTTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 6 0.19
20 7 0.22
21 6 0.19
22 13 0.41
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
AATTATTTTATTATTTATGT
Found at i:487447 original size:20 final size:20
Alignment explanation
Indices: 487383--487449 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
487373 AAAAGTCAAA
* *
487383 TTATTTTATTATTTTTTTAATT
1 TTATTTTA-TATTTATAT-ATT
* * *
487405 ATATTTGATAATTTATGTA-T
1 TTATTTTAT-ATTTATATATT
487425 TTATTTTATATTTATATATT
1 TTATTTTATATTTATATATT
487445 TTATT
1 TTATT
487450 ATATTATTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
19 8 0.22
20 14 0.39
21 2 0.06
22 12 0.33
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TTATTTTATATTTATATATT
Found at i:487499 original size:17 final size:16
Alignment explanation
Indices: 487479--487549 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
487469 AATATTATTT
487479 TTATATAAATTTTGATA
1 TTATATAAATTTT-ATA
487496 TTATA-ATAA-TTTATA
1 TTATATA-AATTTTATA
* *
487511 TTTTATAAATTTTAAA
1 TTATATAAATTTTATA
* * *
487527 ATATTTATATATTTATA
1 TTATATAAAT-TTTATA
487544 TTATAT
1 TTATAT
487550 TATATTATAT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
15 9 0.22
16 16 0.39
17 16 0.39
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
TTATATAAATTTTATA
Found at i:487538 original size:8 final size:8
Alignment explanation
Indices: 487504--487574 Score: 51
Period size: 8 Copynumber: 9.0 Consensus size: 8
487494 TATTATAATA
487504 ATTTATAT
1 ATTTATAT
*
487512 -TTTATAA
1 ATTTATAT
*
487519 ATTTTAAAAT
1 A-TTT-ATAT
487529 ATTTATAT
1 ATTTATAT
487537 ATTTATAT
1 ATTTATAT
*
487545 -TATAT-T
1 ATTTATAT
487551 ATATTATAT
1 AT-TTATAT
*
487560 -TTTTTAT
1 ATTTATAT
487567 ATTTATAT
1 ATTTATAT
487575 TTATACAACC
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
6 1 0.02
7 16 0.33
8 21 0.44
9 7 0.15
10 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTATAT
Found at i:487549 original size:5 final size:5
Alignment explanation
Indices: 487531--487575 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
487521 TTTAAAATAT
*
487531 TTATA -TAT- TTATA TTATA TTATA TTATA TT-TT TTATA TTTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA -TTATA TT
487576 TATACAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
4 9 0.26
5 20 0.59
6 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (5 bp):
TTATA
Found at i:488471 original size:16 final size:16
Alignment explanation
Indices: 488424--488495 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 16
488414 TATGGGTTAA
*
488424 AAATATAATTAAAAAAT
1 AAATAT-ATTAAAATAT
* *
488441 -AATATGAATAGAATAT
1 AAATAT-ATTAAAATAT
488457 AAATATATTAAAATAT
1 AAATATATTAAAATAT
*
488473 CAAA-ATA-TATAATAT
1 -AAATATATTAAAATAT
488488 AAAT-TATT
1 AAATATATT
488496 TATATATTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
14 5 0.11
15 8 0.18
16 23 0.52
17 8 0.18
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (16 bp):
AAATATATTAAAATAT
Done.