Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold498
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: 1804022
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 1 of 17
Found at i:3276 original size:2 final size:2
Alignment explanation
Indices: 3269--3300 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3259 TTCAAATGCG
3269 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
3301 TATATATCTA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:5087 original size:2 final size:2
Alignment explanation
Indices: 5080--5107 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5070 AAAACTAATA
5080 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
5108 TTGCAAAAGC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6510 original size:21 final size:20
Alignment explanation
Indices: 6486--6525 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6476 ATATATATAT
6486 ATATATATATATTTTATAAAA
1 ATATATATA-ATTTTATAAAA
* *
6507 ATATATTTAATTTTTTAAA
1 ATATATATAATTTTATAAA
6526 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATATAATTTTATAAAA
Found at i:6597 original size:17 final size:16
Alignment explanation
Indices: 6566--6601 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
6556 CTTATGTATT
*
6566 TATATTTATATATAAA
1 TATATTTAAATATAAA
6582 TATATGTTAAATATAAA
1 TATAT-TTAAATATAAA
6599 TAT
1 TAT
6602 TAAATATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TATATTTAAATATAAA
Found at i:12131 original size:2 final size:2
Alignment explanation
Indices: 12124--12161 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
12114 TAAAGATGAA
*
12124 AT AT AT AT AT AT AT AT AT AT AT AT GT 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
12162 CATTTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12440 original size:32 final size:29
Alignment explanation
Indices: 12384--12446 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 29
12374 TCATTATATG
12384 TTTAATATATATTTTATTTATATTTAAAT
1 TTTAATATATATTTTATTTATATTTAAAT
* *
12413 TTTAATATAATTTTTATAATTTATATTTATAT
1 TTTAATAT-ATATTT-T-ATTTATATTTAAAT
12445 TT
1 TT
12447 ACATTATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 5 0.17
31 1 0.03
32 15 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTAATATATATTTTATTTATATTTAAAT
Found at i:12883 original size:27 final size:28
Alignment explanation
Indices: 12851--12914 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
12841 TTTAAATTAA
*
12851 ATTAAATTAAAATTATTAAA-AT-ATTT
1 ATTAAATTAAAATTATAAAATATAATTT
*
12877 ATTTAAATT-TAATTATAAAATATAATTT
1 A-TTAAATTAAAATTATAAAATATAATTT
12905 ATTAAATTAA
1 ATTAAATTAA
12915 GTAAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 10 0.32
27 16 0.52
28 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTAAATTAAAATTATAAAATATAATTT
Found at i:14587 original size:16 final size:16
Alignment explanation
Indices: 14568--14613 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
14558 TTATAAATAT
14568 ATATAATTAATATTTA
1 ATATAATTAATATTTA
*
14584 ATATAATTAAT-TATA
1 ATATAATTAATATTTA
* *
14599 ATAAAATTAAAATTT
1 ATATAATTAATATTT
14614 TTATAAATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAATTAATATTTA
Found at i:14644 original size:56 final size:57
Alignment explanation
Indices: 14512--14653 Score: 155
Period size: 57 Copynumber: 2.5 Consensus size: 57
14502 TTTTAATTTT
* * * * **
14512 TATAATTAATATTTAATATACTTAATTATAAAAATTTTAATTTTTATTATAAATATA
1 TATAATGAACATTTAATATAATTAATTATAAAAATATTAAAATTTATTATAAATATA
* * *
14569 TATAATTAATATTTAATATAATTAATTATAATAAA-ATTAAAATTT-TTATAAATGTGA
1 TATAATGAACATTTAATATAATTAATTATAA-AAATATTAAAATTTATTATAAATAT-A
*
14626 T-TTATGAACATTTAATATAATTAATTAT
1 TATAATGAACATTTAATATAATTAATTAT
14654 GATATCATGG
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
56 33 0.44
57 39 0.52
58 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (57 bp):
TATAATGAACATTTAATATAATTAATTATAAAAATATTAAAATTTATTATAAATATA
Found at i:15261 original size:26 final size:30
Alignment explanation
Indices: 15225--15288 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 30
15215 CTATGAGTAT
*
15225 TATTTTATTATA-T-TAGTTA-ATTT-AAA
1 TATTTTATTATATTATAATTATATTTAAAA
15251 TATTTTATTATATTATAATTATATTTAAAA
1 TATTTTATTATATTATAATTATATTTAAAA
15281 TATTTTAT
1 TATTTTAT
15289 ATTTTTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 12 0.36
27 1 0.03
28 5 0.15
29 4 0.12
30 11 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
TATTTTATTATATTATAATTATATTTAAAA
Found at i:15308 original size:18 final size:19
Alignment explanation
Indices: 15260--15316 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
15250 ATATTTTATT
*
15260 ATATTATAATTATATTTA-AA
1 ATATT-TAA-TATTTTTATAA
*
15280 ATATTTTATATTTTTATAA
1 ATATTTAATATTTTTATAA
*
15299 ATA-TTAATATTTTAATAA
1 ATATTTAATATTTTTATAA
15317 TTTATATGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 20 0.62
19 7 0.22
20 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTAATATTTTTATAA
Found at i:15320 original size:25 final size:25
Alignment explanation
Indices: 15279--15349 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
15269 TTATATTTAA
*
15279 AATATTTT-AT-ATTTTTATAAATATT
1 AATATTTTAATAATTTATAT-AATA-T
*
15304 AATATTTTAATAATTTATATGATAT
1 AATATTTTAATAATTTATATAATAT
*
15329 -ATATTTTAAAAAATTTATATA
1 AATATTTT-AATAATTTATATA
15350 TTTATATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 7 0.18
25 20 0.51
26 5 0.13
27 7 0.18
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
AATATTTTAATAATTTATATAATAT
Found at i:15337 original size:24 final size:24
Alignment explanation
Indices: 15305--15356 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
15295 ATAAATATTA
*
15305 ATATTTT-AATAATTTATATGATAT
1 ATATTTTAAAAAATTTATAT-ATAT
*
15329 ATATTTTAAAAAATTTATATATTT
1 ATATTTTAAAAAATTTATATATAT
15353 ATAT
1 ATAT
15357 ATTACTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATATTTTAAAAAATTTATATATAT
Found at i:15353 original size:33 final size:32
Alignment explanation
Indices: 15316--15427 Score: 84
Period size: 33 Copynumber: 3.3 Consensus size: 32
15306 TATTTTAATA
15316 ATTTATATGATATATATTTTAAAAAATTTATAT
1 ATTTATAT-ATATATATTTTAAAAAATTTATAT
* ** *
15349 ATTTATATATTACTATTTTTTAATTATTTTAATTAT
1 ATTTATATA-TA-TATATTTTAAAAAATTT-A-TAT
* *
15385 ATTTATATA-AT-TATATTTAAAATAATTAAATTT
1 ATTTATATATATATAT-TTTAAAA-AATT-TATAT
15418 ATTTATATAT
1 ATTTATATAT
15428 TTATGAGTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
32 3 0.05
33 27 0.44
34 18 0.30
35 1 0.02
36 12 0.20
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (32 bp):
ATTTATATATATATATTTTAAAAAATTTATAT
Found at i:15409 original size:15 final size:15
Alignment explanation
Indices: 15378--15418 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
15368 TTAATTATTT
*
15378 TAATTATATTT-ATA
1 TAATTATATTTAAAA
15392 TAATTATATTTAAAA
1 TAATTATATTTAAAA
*
15407 TAATTAAATTTA
1 TAATTATATTTA
15419 TTTATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATTATATTTAAAA
Found at i:18211 original size:12 final size:12
Alignment explanation
Indices: 18194--18268 Score: 51
Period size: 12 Copynumber: 6.0 Consensus size: 12
18184 ATAAATTTAA
*
18194 AATTTTAATTTT
1 AATTTTAAATTT
18206 AATTTTAAATTT
1 AATTTTAAATTT
**
18218 AATTCAAAATTT
1 AATTTTAAATTT
***
18230 AAAAATAAATTAAGT
1 AATTTTAAATT---T
* *
18245 AAATTTAAATTA
1 AATTTTAAATTT
18257 AATTTTAAATTT
1 AATTTTAAATTT
18269 TGAGTCAAAC
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
12 38 0.79
15 10 0.21
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (12 bp):
AATTTTAAATTT
Found at i:21986 original size:11 final size:11
Alignment explanation
Indices: 21940--21984 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
21930 ATTAAATTTA
21940 ATAATATTAAAT
1 ATAATA-TAAAT
21952 ATAATATAAAT
1 ATAATATAAAT
*
21963 ATACTATAAAAT
1 ATAATAT-AAAT
21975 ATAAATATAA
1 AT-AATATAA
21985 TACTATGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 11 0.38
12 14 0.48
13 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:21998 original size:24 final size:22
Alignment explanation
Indices: 21946--22002 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
21936 TTTAATAATA
21946 TTAAATAT-AATATAAATATAC
1 TTAAATATAAATATAAATATAC
*
21967 TATAAAATATAAATATAATACTATGC
1 T-T-AAATATAAATATAA-A-TATAC
21993 TTAAATATAA
1 TTAAATATAA
22003 TGTCTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 6 0.20
24 15 0.50
25 2 0.07
26 5 0.17
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAATATAAATATAAATATAC
Found at i:22086 original size:19 final size:19
Alignment explanation
Indices: 22047--22094 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
22037 TATCATATTT
**
22047 ATATATATATAATATTTTAA
1 ATATA-ATATAATATAATAA
22067 ATATAATATAATATAATAA
1 ATATAATATAATATAATAA
22086 A-AT-ATATAA
1 ATATAATATAA
22095 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 6 0.23
18 2 0.08
19 13 0.50
20 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATAATATAATATAATAA
Found at i:22434 original size:21 final size:21
Alignment explanation
Indices: 22395--22434 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22385 TCATATATTT
*
22395 ATATCATATTTATTATTTTTA
1 ATATCATATATATTATTTTTA
22416 ATATCATATAATATT-TTTT
1 ATATCATAT-ATATTATTTT
22435 ATTGTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATCATATATATTATTTTTA
Found at i:24666 original size:17 final size:17
Alignment explanation
Indices: 24618--24667 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
24608 GTAAATTTAA
24618 TAAAATTTATATAATA-
1 TAAAATTTATATAATAT
*
24634 TAAATTATTA-AT-ATAT
1 TAAAAT-TTATATAATAT
24650 TAAAATTTATATAATAT
1 TAAAATTTATATAATAT
24667 T
1 T
24668 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 6 0.21
16 14 0.50
17 8 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAAATTTATATAATAT
Found at i:24682 original size:20 final size:20
Alignment explanation
Indices: 24636--24696 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
24626 ATATAATATA
*
24636 AATTATTAATATATTAAAATT
1 AATTA-TAATATATTAAAAAT
* *
24657 TA-TATAATATTTTAAAAAT
1 AATTATAATATATTAAAAAT
*
24676 AATTATAATACATTAAAAAT
1 AATTATAATATATTAAAAAT
24696 A
1 A
24697 TATGAAAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 14 0.42
20 18 0.55
21 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTATAATATATTAAAAAT
Found at i:30727 original size:28 final size:30
Alignment explanation
Indices: 30696--30751 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
30686 GTGTTTGATT
*
30696 TAATTTTTTATTTATA-AAT-TAAAAATTA
1 TAATTATTTATTTATATAATATAAAAATTA
*
30724 TAATTATTTATTTTTATAATATAAAAAT
1 TAATTATTTATTTATATAATATAAAAAT
30752 AAGTATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.58
29 3 0.12
30 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TAATTATTTATTTATATAATATAAAAATTA
Found at i:30778 original size:29 final size:30
Alignment explanation
Indices: 30704--30779 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 30
30694 TTTAATTTTT
*
30704 TATTTATAA-ATTAAAAATTATAATTATTTA
1 TATTTATAATATTAAAAA-TATAAGTATTTA
*
30734 TTTTTATAATA-T-AAAA-ATAAGTATTTA
1 TATTTATAATATTAAAAATATAAGTATTTA
30761 TATTTA-AATTATTAAAAAT
1 TATTTATAA-TATTAAAAAT
30780 TATTGAACTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
26 2 0.05
27 17 0.45
28 1 0.03
29 8 0.21
30 9 0.24
31 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (30 bp):
TATTTATAATATTAAAAATATAAGTATTTA
Found at i:31150 original size:20 final size:19
Alignment explanation
Indices: 31125--31171 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
31115 TTAATAAGTG
31125 ATATTTTAAATATTATAAAA-
1 ATATTTTAAATA--ATAAAAT
31145 ATATTTTTAAATAATAAAAT
1 ATA-TTTTAAATAATAAAAT
31165 ATATTTT
1 ATATTTT
31172 TTAAATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.40
20 6 0.24
21 9 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTTAAATAATAAAAT
Found at i:31172 original size:20 final size:21
Alignment explanation
Indices: 31128--31177 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
31118 ATAAGTGATA
31128 TTTTAAATATTATAAAAATA-T
1 TTTTAAATA-TATAAAAATATT
31149 TTTTAAATA-ATAAAATATATT
1 TTTTAAATATATAAAA-ATATT
31170 TTTTAAAT
1 TTTTAAAT
31178 TTGATATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.22
20 3 0.11
21 18 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTAAATATATAAAAATATT
Found at i:32541 original size:4 final size:4
Alignment explanation
Indices: 32532--32566 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
32522 TCCATTAAAA
*
32532 TAAT TAAT TAAG TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
32567 AAATGCAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (4 bp):
TAAT
Found at i:33084 original size:27 final size:27
Alignment explanation
Indices: 33048--33131 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 27
33038 TTTAATTATC
33048 ATTTTAAAATATTATATATTTATATAA
1 ATTTTAAAATATTATATATTTATATAA
*
33075 ATTTTAAAATATTAATCATTTATATTTTATAA
1 ATTTTAAAATATT-AT-A--TAT-TTATATAA
33107 ATTTTAAAATATTTATATATTTATA
1 ATTTTAAAATA-TTATATATTTATA
33132 CTGTAATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
27 13 0.27
28 6 0.12
29 4 0.08
31 4 0.08
32 20 0.41
33 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTTTAAAATATTATATATTTATATAA
Found at i:33129 original size:33 final size:32
Alignment explanation
Indices: 33055--33131 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 32
33045 ATCATTTTAA
33055 AATATTATATATTTATATAAATTTTAAAATATT
1 AATATT-TATATTTATATAAATTTTAAAATATT
33088 AATCATTTATATTT-TATAAATTTTAAAATATTT
1 AAT-ATTTATATTTATATAAATTTTAAAATA-TT
33121 ATATATTTATA
1 A-ATATTTATA
33132 CTGTAATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
32 16 0.39
33 20 0.49
34 5 0.12
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (32 bp):
AATATTTATATTTATATAAATTTTAAAATATT
Found at i:33185 original size:20 final size:19
Alignment explanation
Indices: 33055--33181 Score: 66
Period size: 19 Copynumber: 6.4 Consensus size: 19
33045 ATCATTTTAA
*
33055 AATATTATAT-ATTTATAT
1 AATATTTTATAATTTATAT
*
33073 AA-ATTTTAAAATATTAATCATT
1 AATATTTTATAAT-TT-AT-A-T
* *
33095 TATATTTTATAAATTT-TAA
1 AATATTTTAT-AATTTATAT
33114 AATA-TTTATATATTTATACTGT
1 AATATTTTATA-ATTTATA---T
* *
33136 AATTATATTAT-TTTTATAT
1 AA-TATTTTATAATTTATAT
33155 AATATTTTATAATTTATAT
1 AATATTTTATAATTTATAT
*
33174 TATATTTT
1 AATATTTT
33182 TATATTTTAG
Statistics
Matches: 82, Mismatches: 12, Indels: 29
0.67 0.10 0.24
Matches are distributed among these distances:
17 6 0.07
18 20 0.24
19 24 0.29
20 3 0.04
21 2 0.02
22 10 0.12
23 10 0.12
24 7 0.09
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.57
Consensus pattern (19 bp):
AATATTTTATAATTTATAT
Found at i:33442 original size:19 final size:19
Alignment explanation
Indices: 33397--33436 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
33387 AGTTTAGTTC
*
33397 AAAACAATATTTTTATATT
1 AAAATAATATTTTTATATT
33416 AAAATAATATTTTTAT-TT
1 AAAATAATATTTTTATATT
33434 AAA
1 AAA
33437 TTTAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATAATATTTTTATATT
Found at i:34295 original size:4 final size:4
Alignment explanation
Indices: 34288--34373 Score: 109
Period size: 4 Copynumber: 21.5 Consensus size: 4
34278 ATACACACAC
* * * *
34288 ATAT ATAT ATAC ATAC ATAT ATAT ATAT ATAT ACAT ACAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * *
34336 ATAT ACAT ACAT ATAT ATAT ATAT ACAT ATAT ATAT AT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT
34374 GTTCTAGATT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 74 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (4 bp):
ATAT
Found at i:34313 original size:20 final size:20
Alignment explanation
Indices: 34288--34373 Score: 145
Period size: 20 Copynumber: 4.2 Consensus size: 20
34278 ATACACACAC
34288 ATATATATATACATACATATAT
1 ATATATATATACATAC--ATAT
34310 ATATATATATACATACATAT
1 ATATATATATACATACATAT
34330 ATATATATATACATACATAT
1 ATATATATATACATACATAT
*
34350 ATATATATATACATATATAT
1 ATATATATATACATACATAT
34370 ATAT
1 ATAT
34374 GTTCTAGATT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
20 47 0.75
22 16 0.25
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATATATATACATACATAT
Found at i:34984 original size:6 final size:6
Alignment explanation
Indices: 34977--35007 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
34967 TCAGCATCAT
*
34977 ATATAT ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA ATATAA A
35008 AATATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:35077 original size:7 final size:7
Alignment explanation
Indices: 35067--35108 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
35057 TATTTACTCG
35067 TATTCAA
1 TATTCAA
35074 TATTCAACA
1 TATTC-A-A
35083 TATTC-A
1 TATTCAA
35089 TATTC-A
1 TATTCAA
35095 TATTCAA
1 TATTCAA
35102 TATTCAA
1 TATTCAA
35109 ACGACGCTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.38
7 13 0.41
8 1 0.03
9 6 0.19
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (7 bp):
TATTCAA
Found at i:45021 original size:18 final size:18
Alignment explanation
Indices: 44980--45028 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
44970 TTAGATATAT
*
44980 TAAAAATATAAAAAATAA
1 TAAAAATATAATAAATAA
* * *
44998 TTAAAATATAATATATTA
1 TAAAAATATAATAAATAA
45016 TAAAAA-ATAATAA
1 TAAAAATATAATAA
45029 CATGATATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATATAATAAATAA
Found at i:45036 original size:23 final size:24
Alignment explanation
Indices: 45010--45067 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
45000 AAAATATAAT
45010 ATATTATAAAAAATA-ATAACATG
1 ATATTATAAAAAATATATAACATG
* * *
45033 ATATAAATCAAAATATATATAATATG
1 ATAT-TAT-AAAAAATATATAACATG
45059 -TATTATAAA
1 ATATTATAAA
45068 TATATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
23 7 0.25
24 4 0.14
25 10 0.36
26 7 0.25
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (24 bp):
ATATTATAAAAAATATATAACATG
Found at i:45072 original size:20 final size:19
Alignment explanation
Indices: 45047--45096 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
45037 AAATCAAAAT
45047 ATATATAATATGTATTATAA
1 ATATATAATATGTA-TATAA
* *
45067 ATATATTAAAATTTATATAA
1 ATATA-TAATATGTATATAA
*
45087 ATATAAAATA
1 ATATATAATA
45097 AATATTAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 3 0.12
20 15 0.60
21 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATAATATGTATATAA
Found at i:45452 original size:22 final size:22
Alignment explanation
Indices: 45425--45503 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
45415 ATCATAATAT
45425 AATTTTATTATTATTATTTTAA
1 AATTTTATTATTATTATTTTAA
*
45447 AATTTTATT-TTTTTATTATTAA
1 AATTTTATTATTATTATT-TTAA
* * *
45469 TA-TTTATTATAATTAATTATAA
1 AATTTTATTATTATT-ATTTTAA
45491 TAATATTTATTAT
1 -AAT-TTTATTAT
45504 ATTTATAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 13 0.29
22 20 0.44
23 4 0.09
25 8 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATTTTATTATTATTATTTTAA
Found at i:45474 original size:13 final size:13
Alignment explanation
Indices: 45458--45503 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
45448 ATTTTATTTT
45458 TTTATTATTAATA
1 TTTATTATTAATA
45471 TTTATTA-TAATTA
1 TTTATTATTAA-TA
* *
45484 ATTA-TAATAATA
1 TTTATTATTAATA
45496 TTTATTAT
1 TTTATTAT
45504 ATTTATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTATTATTAATA
Found at i:45478 original size:16 final size:15
Alignment explanation
Indices: 45424--45486 Score: 60
Period size: 16 Copynumber: 4.3 Consensus size: 15
45414 AATCATAATA
45424 TAATTTTATTATTAT
1 TAATTTTATTATTAT
**
45439 T-ATTTTAAAATT-T
1 TAATTTTATTATTAT
*
45452 T-ATTTTTTTATTAT
1 TAATTTTATTATTAT
*
45466 TAATATTTATTATAAT
1 TAAT-TTTATTATTAT
45482 TAATT
1 TAATT
45487 ATAATAATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 10 0.26
14 11 0.29
15 4 0.11
16 13 0.34
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TAATTTTATTATTAT
Found at i:45495 original size:25 final size:27
Alignment explanation
Indices: 45466--45520 Score: 87
Period size: 25 Copynumber: 2.1 Consensus size: 27
45456 TTTTTATTAT
45466 TAATATTTATTATA-AT-TAATTATAA
1 TAATATTTATTATATATATAATTATAA
*
45491 TAATATTTATTATATTTATAATTATAA
1 TAATATTTATTATATATATAATTATAA
45518 TAA
1 TAA
45521 ATATGATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 14 0.52
26 1 0.04
27 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TAATATTTATTATATATATAATTATAA
Found at i:46793 original size:13 final size:13
Alignment explanation
Indices: 46775--46807 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
46765 ATTAAAATTG
*
46775 TTAATTTTATATT
1 TTAATTTTATAAT
46788 TTAA-TTTATAAT
1 TTAATTTTATAAT
46800 TTAATTTT
1 TTAATTTT
46808 TTACATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTAATTTTATAAT
Found at i:47088 original size:2 final size:2
Alignment explanation
Indices: 47081--47110 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47071 CATTACCGTC
47081 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
47111 TACGTTTCTT
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:48286 original size:2 final size:2
Alignment explanation
Indices: 48279--48313 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48269 ATGATCTTTG
48279 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48314 GGGAAGGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:49665 original size:18 final size:18
Alignment explanation
Indices: 49631--49742 Score: 80
Period size: 17 Copynumber: 6.5 Consensus size: 18
49621 TATTTAAAAT
49631 ATTTTATAT-TTATATAA
1 ATTTTATATATTATATAA
49648 ATTTTAATATATTA-AT-A
1 ATTTT-ATATATTATATAA
*
49665 ATTTT-TATTTTATATAA
1 ATTTTATATATTATATAA
*
49682 ATTTTAAAATATT-TATATA
1 ATTTT-ATATATTATATA-A
*
49701 TTTTTATCATATT-TAT--
1 ATTTTAT-ATATTATATAA
* *
49717 ATTATATA-ATTATATAT
1 ATTTTATATATTATATAA
49734 ATTTTATAT
1 ATTTTATAT
49743 TATTCAATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 23
0.71 0.08 0.22
Matches are distributed among these distances:
14 3 0.04
15 10 0.13
16 7 0.09
17 24 0.32
18 11 0.15
19 20 0.27
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTATATATTATATAA
Found at i:49677 original size:34 final size:34
Alignment explanation
Indices: 49600--49707 Score: 121
Period size: 34 Copynumber: 3.1 Consensus size: 34
49590 ATGTATAATA
* *
49600 TATTTTAT-TATATTATAATTATATTTAA-AATATTT
1 TATTTTATATAAATTTTAA-TATA-TTAATAAT-TTT
49635 TATATTTATATAAATTTTAATATATTAATAATTTT
1 TAT-TTTATATAAATTTTAATATATTAATAATTTT
* *
49670 TATTTTATATAAATTTTAAAATATTTATATATTTT
1 TATTTTATATAAATTTTAATATATTAATA-ATTTT
49705 TAT
1 TAT
49708 CATATTTATA
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
34 24 0.37
35 21 0.32
36 12 0.18
37 8 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TATTTTATATAAATTTTAATATATTAATAATTTT
Found at i:49696 original size:20 final size:19
Alignment explanation
Indices: 49635--49718 Score: 81
Period size: 19 Copynumber: 4.6 Consensus size: 19
49625 TAAAATATTT
49635 TATATTTATATAAATTTTAA
1 TATATTTATAT-AATTTTAA
49655 TATA-TTA-ATAATTTT--
1 TATATTTATATAATTTTAA
49670 TAT-TTTATATAAATTTTAA
1 TATATTTATAT-AATTTTAA
* *
49689 AATATTTATAT-ATTTTTA
1 TATATTTATATAATTTTAA
49707 TCATATTTATAT
1 T-ATATTTATAT
49719 TATATAATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
15 6 0.11
16 2 0.04
17 12 0.22
18 8 0.15
19 15 0.28
20 11 0.20
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTTATATAATTTTAA
Found at i:49723 original size:24 final size:24
Alignment explanation
Indices: 49694--49745 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
49684 TTTAAAATAT
* *
49694 TTATATATTTTTATCATA-TTTATA
1 TTATATAATTATAT-ATATTTTATA
49718 TTATATAATTATATATATTTTATA
1 TTATATAATTATATATATTTTATA
49742 TTAT
1 TTAT
49746 TCAATTTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATATAATTATATATATTTTATA
Found at i:50046 original size:21 final size:20
Alignment explanation
Indices: 50001--50040 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
49991 AGTCATTCAG
50001 ACTT-AAATCAATATTTTTT
1 ACTTAAAATCAATATTTTTT
50020 ACTTAAAAT-AATATATTTTT
1 ACTTAAAATCAATAT-TTTTT
50040 A
1 A
50041 TTTTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
ACTTAAAATCAATATTTTTT
Found at i:50159 original size:7 final size:7
Alignment explanation
Indices: 50130--50158 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
50120 TTTAAGTTTT
50130 AATTTAA
1 AATTTAA
50137 AATTTAA
1 AATTTAA
50144 AATTTAA
1 AATTTAA
50151 AA-TTAA
1 AATTTAA
50157 AA
1 AA
50159 AATTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATTTAA
Found at i:51498 original size:25 final size:21
Alignment explanation
Indices: 51444--51496 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
51434 TTTTTTATAA
51444 TATTTAAATTTATTTATTATT
1 TATTTAAATTTATTTATTATT
*
51465 TATATTAAAGTTATATT-TTATT
1 TAT-TTAAATTTAT-TTATTATT
51487 T-TTT-AATTTA
1 TATTTAAATTTA
51497 AAATAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 5 0.18
20 2 0.07
21 4 0.14
22 15 0.54
23 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAAATTTATTTATTATT
Found at i:51652 original size:40 final size:40
Alignment explanation
Indices: 51608--51705 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
51598 GGTGGATTCC
* * *
51608 AATTTAAATACCTAAATTTATTATTTGTAAAAATAATATG
1 AATTTAAATACCTAAATATATTATCTGTAAAAATAATATA
* ** *
51648 AATTTATATATTTGAATATATTATCTGTAAAAATAATATA
1 AATTTAAATACCTAAATATATTATCTGTAAAAATAATATA
*
51688 AATTTAAATA-ATAAATAT
1 AATTTAAATACCTAAATAT
51706 CTAATTATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 6 0.12
40 42 0.88
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (40 bp):
AATTTAAATACCTAAATATATTATCTGTAAAAATAATATA
Found at i:53825 original size:22 final size:21
Alignment explanation
Indices: 53794--53835 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
53784 TTAATTTTTT
53794 AAAATTTTTTTATATATTTAA
1 AAAATTTTTTTATATATTTAA
*
53815 AAAATTATTTTTTTATATTTA
1 AAAATT-TTTTTATATATTTA
53836 TATCTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AAAATTTTTTTATATATTTAA
Found at i:55055 original size:20 final size:21
Alignment explanation
Indices: 55025--55084 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
55015 TTTTATTGAT
*
55025 ATATATTTAAATATAAATATA
1 ATATTTTTAAATATAAATATA
55046 AT-TTTTTAAATATATAA-A-A
1 ATATTTTTAAATATA-AATATA
*
55065 ATATTTTTAAATTTAAATAT
1 ATATTTTTAAATATAAATAT
55085 TTTTGCATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 5 0.15
20 24 0.73
21 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTTTTAAATATAAATATA
Found at i:55282 original size:15 final size:15
Alignment explanation
Indices: 55263--55314 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
55253 AAATATTTTA
55263 TAAATAAATTTAAAT
1 TAAATAAATTTAAAT
* * *
55278 AAAAT-ATTTTTAAT
1 TAAATAAATTTAAAT
*
55292 TAAATTAATTTAAAT
1 TAAATAAATTTAAAT
55307 TAAATAAA
1 TAAATAAA
55315 AAATATATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATAAATTTAAAT
Found at i:55302 original size:29 final size:26
Alignment explanation
Indices: 55252--55312 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 26
55242 AAAAAGTTTA
55252 AAAATATTTTATAAATAAATTTAAAT
1 AAAATATTTTATAAATAAATTTAAAT
*
55278 AAAATATTTTTAATTAAATTAATTTAAAT
1 AAAATA-TTTT-A-TAAATAAATTTAAAT
*
55307 TAAATA
1 AAAATA
55313 AAAAATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 6 0.20
27 4 0.13
28 1 0.03
29 19 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AAAATATTTTATAAATAAATTTAAAT
Found at i:55305 original size:25 final size:25
Alignment explanation
Indices: 55231--55305 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
55221 TTTATAAATT
*
55231 TATTTTTTATTAAA--AAGTTTAAAAA
1 TATTTTTAATTAAATTAA-TTT-AAAA
* *
55256 TATTTTATAAATAAATTTAA-ATAAAA
1 TATTTT-TAATTAAA-TTAATTTAAAA
55282 TATTTTTAATTAAATTAATTTAAA
1 TATTTTTAATTAAATTAATTTAAA
55306 TTAAATAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
24 4 0.10
25 17 0.43
26 16 0.40
27 1 0.03
29 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (25 bp):
TATTTTTAATTAAATTAATTTAAAA
Found at i:55329 original size:34 final size:36
Alignment explanation
Indices: 55267--55337 Score: 92
Period size: 34 Copynumber: 2.0 Consensus size: 36
55257 ATTTTATAAA
* * *
55267 TAAATTTAAATAAAATATTTTTAATTAAA-TTAATT
1 TAAATTTAAATAAAAAATATATAATTAAATTTAATT
*
55302 TAAA-TTAAATAAAAAATATATATTTAAATTTAATT
1 TAAATTTAAATAAAAAATATATAATTAAATTTAATT
55337 T
1 T
55338 GATTCGATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 20 0.65
35 11 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (36 bp):
TAAATTTAAATAAAAAATATATAATTAAATTTAATT
Found at i:56136 original size:14 final size:13
Alignment explanation
Indices: 56096--56144 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
56086 TATCTCATAA
56096 TTTCTTA-TTTAT
1 TTTCTTATTTTAT
*
56108 TTTTTTATTTTAT
1 TTTCTTATTTTAT
56121 TTTCTTATTATTAT
1 TTTCTTATT-TTAT
56135 TTTCTT-TTTT
1 TTTCTTATTTT
56145 TGCATTTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 8 0.24
13 15 0.45
14 10 0.30
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTTATTTTAT
Found at i:56143 original size:25 final size:25
Alignment explanation
Indices: 56096--56142 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
56086 TATCTCATAA
56096 TTTCTTATTTATTTTTTTATTTTAT
1 TTTCTTATTTATTTTTTTATTTTAT
* *
56121 TTTCTTA-TTATTATTTTCTTTT
1 TTTCTTATTTATTTTTTTATTTT
56143 TTTGCATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTCTTATTTATTTTTTTATTTTAT
Found at i:58399 original size:23 final size:22
Alignment explanation
Indices: 58339--58436 Score: 63
Period size: 24 Copynumber: 4.2 Consensus size: 22
58329 AATTATAATG
58339 TAATATTATAGTTATTAT-TTTA
1 TAAT-TTATAGTTATTATATTTA
*
58361 TAATTTTTTAAGTTATTGATATTTA
1 TAA-TTTAT-AGTTATT-ATATTTA
* * *
58386 TAATTTATATTTATTGTAGTTAA
1 TAATTTATAGTTATTATA-TTTA
* * * *
58409 TTATTTTAAATTTATTTTATTTA
1 -TAATTTATAGTTATTATATTTA
58432 TAATT
1 TAATT
58437 ATAATAAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
22 12 0.20
23 20 0.33
24 21 0.35
25 7 0.12
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (22 bp):
TAATTTATAGTTATTATATTTA
Found at i:59352 original size:2 final size:2
Alignment explanation
Indices: 59345--59378 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
59335 AATATCTTTC
59345 CT CT CT 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 CT CT CT
59379 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:59383 original size:2 final size:2
Alignment explanation
Indices: 59378--59418 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
59368 TCTCTCTCTC
59378 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59419 TGCATTTAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59880 original size:18 final size:18
Alignment explanation
Indices: 59857--59891 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
59847 TTTGAAAAGA
59857 TTAAAAA-AAAAACATAAT
1 TTAAAAATAAAAA-ATAAT
59875 TTAAAAATAAAAAATAA
1 TTAAAAATAAAAAATAA
59892 AATCACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
TTAAAAATAAAAAATAAT
Found at i:60559 original size:25 final size:24
Alignment explanation
Indices: 60504--60557 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
60494 TTTTAAAAAT
*
60504 ATTTTTATTATTTATAATCTATAA
1 ATTTTTATTATTTATAATATATAA
*
60528 ATTTTTATTATTT-TAAATATATAT
1 ATTTTTATTATTTAT-AATATATAA
60552 ATTTTT
1 ATTTTT
60558 TAACATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTTTATTATTTATAATATATAA
Found at i:60883 original size:2 final size:2
Alignment explanation
Indices: 60878--60911 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
60868 AATTTTTTAC
60878 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
60912 ATGTAATGGC
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):
TA
Found at i:61352 original size:20 final size:20
Alignment explanation
Indices: 61322--61375 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
61312 ACGGATCGAA
*
61322 TTATAATTTAAAAATTATTTT
1 TTAT-ATTTAAAAATTATATT
61343 TTATATTTAAATAAATTATATT
1 TTATATTT-AA-AAATTATATT
*
61365 AT-TATTTAAAA
1 TTATATTTAAAA
61376 TAATATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 6 0.21
21 11 0.38
22 10 0.34
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATATTTAAAAATTATATT
Found at i:61372 original size:21 final size:21
Alignment explanation
Indices: 61321--61383 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
61311 CACGGATCGA
*
61321 ATTATAATTT-AA-AAATTAT
1 ATTATTATTTAAATAAATTAT
* *
61340 TTTTTATATTTAAATAAATTAT
1 ATTAT-TATTTAAATAAATTAT
61362 ATTATTATTTAAAATAATATTA
1 ATTATTATTT-AAATAA-ATTA
61384 AAATTTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.21
22 16 0.47
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTATTATTTAAATAAATTAT
Found at i:61410 original size:23 final size:23
Alignment explanation
Indices: 61371--61415 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
61361 TATTATTATT
*
61371 TAAAATAATATTAAAATTTTAAA
1 TAAAATAATATTAAAATATTAAA
* *
61394 TAAAATAATTTTTAAATATTAA
1 TAAAATAATATTAAAATATTAA
61416 TAATAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAAATAATATTAAAATATTAAA
Found at i:61419 original size:17 final size:17
Alignment explanation
Indices: 61377--61419 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
61367 TATTTAAAAT
61377 AATATTAA-AA-TTTTA
1 AATATTAATAATTTTTA
*
61392 AATA-AAATAATTTTTA
1 AATATTAATAATTTTTA
61408 AATATTAATAAT
1 AATATTAATAAT
61420 AATTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 6 0.26
16 9 0.39
17 6 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTAATAATTTTTA
Found at i:61448 original size:21 final size:20
Alignment explanation
Indices: 61347--61466 Score: 62
Period size: 21 Copynumber: 6.2 Consensus size: 20
61337 TATTTTTTAT
*
61347 ATTT-AAATAAATTATATTATT
1 ATTTAAAATAAATTA-ATTA-A
61368 ATTTAAAAT-AA-T-ATTAAA
1 ATTTAAAATAAATTAATT-AA
* *
61386 ATTTTAAATAAAATAATT--
1 ATTTAAAATAAATTAATTAA
*
61404 -TTT-AAAT--ATTAATAATA
1 ATTTAAAATAAATTAATTA-A
*
61421 ATTTAAATTAAATTAATTAA
1 ATTTAAAATAAATTAATTAA
* *
61441 ATTATAAAATATATTATTTAA
1 ATT-TAAAATAAATTAATTAA
61462 ATTTA
1 ATTTA
61467 TCTTAATATA
Statistics
Matches: 77, Mismatches: 9, Indels: 27
0.68 0.08 0.24
Matches are distributed among these distances:
14 5 0.06
16 4 0.05
17 3 0.04
18 14 0.18
19 6 0.08
20 8 0.10
21 33 0.43
22 4 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAAAATAAATTAATTAA
Found at i:63501 original size:14 final size:15
Alignment explanation
Indices: 63482--63545 Score: 69
Period size: 14 Copynumber: 4.3 Consensus size: 15
63472 GTTCTATTCG
63482 AATTTAATT-AAATT
1 AATTTAATTAAAATT
63496 AATTTATTATTAAAATT
1 AATTTA--ATTAAAATT
*
63513 AAATT-ATTAAAATT
1 AATTTAATTAAAATT
* *
63527 TATTTAATTAAATTT
1 AATTTAATTAAAATT
63542 AATT
1 AATT
63546 ATTTAATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
14 18 0.44
15 11 0.27
16 3 0.07
17 9 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTTAATTAAAATT
Found at i:65683 original size:25 final size:25
Alignment explanation
Indices: 65629--65707 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 25
65619 TATATGATTG
* *
65629 ATATTATTATATTTAATTTTTAAA-AA
1 ATATT-TTATATTTAA-ATTTAAATAT
65655 ATATTTTATATTTAAATTTAAATAT
1 ATATTTTATATTTAAATTTAAATAT
* * *
65680 ATATATCAGTATATAAATTTTAAATAT
1 ATATTTTA-TATTTAAA-TTTAAATAT
65707 A
1 A
65708 AATACTTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 6 0.13
25 17 0.38
26 12 0.27
27 10 0.22
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (25 bp):
ATATTTTATATTTAAATTTAAATAT
Found at i:67664 original size:19 final size:18
Alignment explanation
Indices: 67642--67694 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
67632 AAATCTGATA
*
67642 ATTTATTTATTTATATTAT
1 ATTTATTTATTT-TATCAT
**
67661 ATTTATAAATTTTATCAT
1 ATTTATTTATTTTATCAT
67679 ATTCTATTTATATTTA
1 ATT-TATTTAT-TTTA
67695 AAATATTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 8 0.30
19 15 0.56
20 4 0.15
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATTTATTTTATCAT
Found at i:67690 original size:29 final size:30
Alignment explanation
Indices: 67649--67705 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
67639 ATAATTTATT
*
67649 TATTTATATTATATTTATAA-ATTTTATCA
1 TATTTATATTATATTTAAAATATTTTATCA
67678 TATTCTAT-TTATATTTAAAATATTTTAT
1 TATT-TATATTATATTTAAAATATTTTAT
67706 ATTTATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (30 bp):
TATTTATATTATATTTAAAATATTTTATCA
Found at i:67947 original size:1 final size:1
Alignment explanation
Indices: 67941--67968 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
67931 GCTGTTGTTG
67941 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
67969 GTGTTCCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:68527 original size:18 final size:18
Alignment explanation
Indices: 68493--68527 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68483 TCATCAACAA
* *
68493 ATTTTGTTAATATATATG
1 ATTTTGTTAACAAATATG
68511 ATTTTGTTAACAAATAT
1 ATTTTGTTAACAAATAT
68528 TTTAAGATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (18 bp):
ATTTTGTTAACAAATATG
Found at i:68926 original size:11 final size:11
Alignment explanation
Indices: 68912--68959 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
68902 TATTAATTTA
68912 TATATTTATAT
1 TATATTTATAT
68923 TATA-TT-TA-
1 TATATTTATAT
68931 TATATTT-TAT
1 TATATTTATAT
68941 TATA-TTATAAT
1 TATATTTAT-AT
68952 TATATTTA
1 TATATTTA
68960 AAAAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 4 0.12
9 8 0.25
10 7 0.22
11 10 0.31
12 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTTATAT
Found at i:68941 original size:18 final size:18
Alignment explanation
Indices: 68900--68946 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
68890 CAAGTAATAA
68900 TTTATTA-ATTTATATAT
1 TTTATTATATTTATATAT
68917 TTATATTATATTTATATAT
1 TT-TATTATATTTATATAT
68936 TTTATTATATT
1 TTTATTATATT
68947 ATAATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.07
18 14 0.50
19 12 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTATTATATTTATATAT
Found at i:68984 original size:17 final size:16
Alignment explanation
Indices: 68951--69017 Score: 84
Period size: 17 Copynumber: 4.2 Consensus size: 16
68941 TATATTATAA
*
68951 TTATATTTAAAAAATT
1 TTATATTTAATAAATT
68967 TTATATTTATATAAATT
1 TTATATTTA-ATAAATT
68984 TTATATATTAATAAA--
1 TTATAT-TTAATAAATT
*
68999 TTATATTTTATAAATT
1 TTATATTTAATAAATT
69015 TTA
1 TTA
69018 AAATATATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
14 7 0.16
15 6 0.13
16 12 0.27
17 17 0.38
18 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATATTTAATAAATT
Found at i:69004 original size:48 final size:45
Alignment explanation
Indices: 68922--69042 Score: 131
Period size: 47 Copynumber: 2.6 Consensus size: 45
68912 TATATTTATA
68922 TTATATTTATATATTTTATTATATTATAATTATATTTAAAAAATT
1 TTATATTTATATATTTTATTATATTATAATTATATTTAAAAAATT
* *
68967 TTATATTTATATAAATTTTA-TATATTAATAAATTATATTTTATAAATT
1 TTATATTTATAT--ATTTTATTATATT-AT-AATTATATTTAAAAAATT
**
69015 TTA-AAATATATACTTATT-TTATATTATA
1 TTATATTTATATA-TT-TTATTATATTATA
69043 TTTTAATTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
45 14 0.22
46 10 0.15
47 22 0.34
48 19 0.29
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (45 bp):
TTATATTTATATATTTTATTATATTATAATTATATTTAAAAAATT
Found at i:69290 original size:22 final size:21
Alignment explanation
Indices: 69213--69325 Score: 85
Period size: 20 Copynumber: 5.5 Consensus size: 21
69203 TTACAATAAG
*
69213 TATAATATAA-AAATATTAAAA
1 TATAATATAATAAATA-TAATA
* * *
69234 T-TTATATAATAAAAATTAT-
1 TATAATATAATAAATATAATA
* *
69253 TATCATACTAATATATAT-ATA
1 TATAATA-TAATAAATATAATA
*
69274 TTTAATATAATAAATATAAT-
1 TATAATATAATAAATATAATA
69294 TATAATATTAAATAAATATAA-A
1 TATAATA-T-AATAAATATAATA
69316 TATAATATAA
1 TATAATATAA
69326 AATAAATACG
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
19 1 0.01
20 32 0.44
21 22 0.30
22 18 0.25
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAATATAATAAATATAATA
Found at i:69300 original size:11 final size:11
Alignment explanation
Indices: 69262--69330 Score: 67
Period size: 11 Copynumber: 6.6 Consensus size: 11
69252 TTATCATACT
69262 AATAT-ATATA
1 AATATAATATA
* *
69272 TATTTAATAT-
1 AATATAATATA
69282 AATA-AATATA
1 AATATAATATA
*
69292 ATTATAATATTA
1 AATATAATA-TA
69304 AATA-AATATA
1 AATATAATATA
69314 AATATAATATA
1 AATATAATATA
69325 AA-ATAA
1 AATATAA
69331 ATACGGATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
9 5 0.10
10 18 0.38
11 20 0.42
12 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATATAATATA
Found at i:69328 original size:22 final size:22
Alignment explanation
Indices: 69282--69333 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
69272 TATTTAATAT
* *
69282 AATAAATATAATTATAATATTA
1 AATAAATATAAATATAATATAA
69304 AATAAATATAAATATAATATAA
1 AATAAATATAAATATAATATAA
69326 AATAAATA
1 AATAAATA
69334 CGGATTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAATATAAATATAATATAA
Found at i:70210 original size:20 final size:20
Alignment explanation
Indices: 70187--70228 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
70177 ATTTAATGTA
**
70187 ATATTATTATTATAAATAAT
1 ATATTATTACCATAAATAAT
*
70207 ATATTTTTACCATAAATAAT
1 ATATTATTACCATAAATAAT
70227 AT
1 AT
70229 GTTAAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
ATATTATTACCATAAATAAT
Found at i:72636 original size:21 final size:20
Alignment explanation
Indices: 72576--72632 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
72566 AAATTTATCA
72576 ATTTTTTA--AAATTTTAAT
1 ATTTTTTATTAAATTTTAAT
* *
72594 -TTTTTAATTTAATATTTAAT
1 ATTTTTTATTAAAT-TTTAAT
72614 ATTTTTTATTAAATTTTAA
1 ATTTTTTATTAAATTTTAA
72633 ATATAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 6 0.19
19 3 0.10
20 11 0.35
21 11 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTTATTAAATTTTAAT
Found at i:72666 original size:15 final size:15
Alignment explanation
Indices: 72647--72684 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
72637 AAATAATTTA
72647 ATATATTTTAAATATT
1 ATATATTTT-AATATT
*
72663 -TATATTATAATATT
1 ATATATTTTAATATT
72677 ATATATTT
1 ATATATTT
72685 ATTTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATATTTTAATATT
Found at i:76193 original size:29 final size:30
Alignment explanation
Indices: 76151--76211 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
76141 ATGAAGGATC
*
76151 TGATTATCGCAT-GAAAGGAAGAGGCTTTA
1 TGATTATCGCATAGAAAGAAAGAGGCTTTA
* *
76180 TGATTATGGCATGAGAAAGAAAGCGGCTTTA
1 TGATTATCGCAT-AGAAAGAAAGAGGCTTTA
76211 T
1 T
76212 TGGGCTGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 11 0.41
31 16 0.59
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (30 bp):
TGATTATCGCATAGAAAGAAAGAGGCTTTA
Found at i:76453 original size:27 final size:27
Alignment explanation
Indices: 76423--76487 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
76413 ATAATTTTTT
* *
76423 TATTTTTTAAATTAT-GTTTTTTATAAA
1 TATTTTTTAAAATATAATTTTTT-TAAA
* *
76450 TATTTTGTAAAATATAATTTTTTTATA
1 TATTTTTTAAAATATAATTTTTTTAAA
76477 -ATTTTTTAAAA
1 TATTTTTTAAAA
76488 AAATTGTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 10 0.31
27 16 0.50
28 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (27 bp):
TATTTTTTAAAATATAATTTTTTTAAA
Found at i:76601 original size:12 final size:12
Alignment explanation
Indices: 76575--76613 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
76565 AATAAATAAT
76575 AATTATTTTAAAA
1 AATTA-TTTAAAA
*
76588 AATTATTTATAA
1 AATTATTTAAAA
76600 AA-TATTTAAAA
1 AATTATTTAAAA
76611 AAT
1 AAT
76614 AAAAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 10 0.43
12 8 0.35
13 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AATTATTTAAAA
Found at i:77197 original size:57 final size:58
Alignment explanation
Indices: 77104--77218 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 58
77094 TACAAATTCT
77104 ATAACCTTTGAAATCAACTTTTAAAAGGTAGGTAAATAAATAGGTTTTAACTTTATGA
1 ATAACCTTTGAAATCAACTTTTAAAAGGTAGGTAAATAAATAGGTTTTAACTTTATGA
* *
77162 ATAACCTTTGAAATCAAC-TTTATAAGGTAGGTAAATAAATAGGTTTTAGCTTTATGA
1 ATAACCTTTGAAATCAACTTTTAAAAGGTAGGTAAATAAATAGGTTTTAACTTTATGA
77219 GAAACAAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 37 0.67
58 18 0.33
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (58 bp):
ATAACCTTTGAAATCAACTTTTAAAAGGTAGGTAAATAAATAGGTTTTAACTTTATGA
Found at i:78036 original size:6 final size:6
Alignment explanation
Indices: 78025--78097 Score: 62
Period size: 6 Copynumber: 12.0 Consensus size: 6
78015 AAGATCACTT
**
78025 TATTTA TATTTA TATTTA GTAGATA -ATTTA TGTATTTA TA-TTA TATTTA
1 TATTTA TATTTA TATTTA -TATTTA TATTTA --TATTTA TATTTA TATTTA
*
78074 TATTT- TATATTA TAATTA TATTTA
1 TATTTA TAT-TTA TATTTA TATTTA
78098 AAATATTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
5 11 0.20
6 32 0.59
7 6 0.11
8 5 0.09
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (6 bp):
TATTTA
Found at i:78073 original size:11 final size:11
Alignment explanation
Indices: 78057--78097 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
78047 ATAATTTATG
78057 TATTTATATTA
1 TATTTATATTA
*
78068 TATTTATATTT
1 TATTTATATTA
78079 TATATTATAATTA
1 TAT-TTAT-ATTA
78092 TATTTA
1 TATTTA
78098 AAATATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 13 0.50
12 7 0.27
13 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTTATATTA
Found at i:78082 original size:18 final size:18
Alignment explanation
Indices: 78023--78096 Score: 73
Period size: 18 Copynumber: 4.1 Consensus size: 18
78013 ATAAGATCAC
78023 TTTAT-TTATATTTATA-
1 TTTATATTATATTTATAT
* *
78039 TTTAGTA-GATAATTTATGT
1 TTTA-TATTAT-ATTTATAT
78058 ATTTATATTATATTTATAT
1 -TTTATATTATATTTATAT
*
78077 TTTATATTATAATTATAT
1 TTTATATTATATTTATAT
78095 TT
1 TT
78097 AAAATATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
16 4 0.09
17 3 0.06
18 25 0.53
19 9 0.19
20 6 0.13
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTATATTATATTTATAT
Found at i:78124 original size:17 final size:17
Alignment explanation
Indices: 78102--78158 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
78092 TATTTAAAAT
78102 ATTTTAAATTTATATAA
1 ATTTTAAATTTATATAA
78119 ATTTTAATATATTA-AT-A
1 ATTTTAA-AT-TTATATAA
78136 A-TTT-AATTTATATAA
1 ATTTTAAATTTATATAA
78151 ATTTTAAA
1 ATTTTAAA
78159 ATATATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.09
14 4 0.12
15 3 0.09
16 6 0.18
17 11 0.32
18 4 0.12
19 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAAATTTATATAA
Found at i:78147 original size:18 final size:18
Alignment explanation
Indices: 78058--78148 Score: 51
Period size: 18 Copynumber: 5.4 Consensus size: 18
78048 TAATTTATGT
78058 ATTTATATT-AT-ATTTA
1 ATTTATATTAATAATTTA
78074 TATTTTATATT-ATAA-TTA
1 -A-TTTATATTAATAATTTA
*
78092 TATTTA-A--AATATTTTAA
1 -ATTTATATTAATAATTT-A
*
78109 ATTTATA-TAA-ATTTTA
1 ATTTATATTAATAATTTA
78125 A--TATATTAATAATTTA
1 ATTTATATTAATAATTTA
78141 ATTTATAT
1 ATTTATAT
78149 AAATTTTAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 21
0.73 0.02 0.25
Matches are distributed among these distances:
14 4 0.07
15 6 0.10
16 16 0.26
17 12 0.20
18 22 0.36
19 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAATAATTTA
Found at i:78149 original size:32 final size:33
Alignment explanation
Indices: 78099--78162 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
78089 TTATATTTAA
* *
78099 AATATTTTAAATTTATATAAATTTTAATATATT
1 AATAATTTAAATTTATATAAATTTTAAAATATT
78132 AATAATTT-AATTTATATAAATTTTAAAATAT
1 AATAATTTAAATTTATATAAATTTTAAAATAT
78163 ATTTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 22 0.76
33 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
AATAATTTAAATTTATATAAATTTTAAAATATT
Found at i:78162 original size:14 final size:14
Alignment explanation
Indices: 78112--78172 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 14
78102 ATTTTAAATT
78112 TATATAAATTTTAA
1 TATATAAATTTTAA
*
78126 TATATTAATAATTTAA
1 TATA-TAA-ATTTTAA
78142 TTTATATAAATTTTAA
1 --TATATAAATTTTAA
*
78158 -A-ATATATTTTAA
1 TATATAAATTTTAA
78170 TAT
1 TAT
78173 TATTTTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
12 10 0.26
13 2 0.05
14 4 0.11
15 3 0.08
16 12 0.32
17 3 0.08
18 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:78183 original size:18 final size:17
Alignment explanation
Indices: 78100--78241 Score: 77
Period size: 18 Copynumber: 8.5 Consensus size: 17
78090 TATATTTAAA
*
78100 ATATTTTAA-ATTTATAT
1 ATATTTTAATA-TTATTT
* *
78117 AAATTTTAATA-TATTA
1 ATATTTTAATATTATTT
* *
78133 ATAATTTAAT-TTATAT
1 ATATTTTAATATTATTT
*
78149 AAATTTTAA-A--A--T
1 ATATTTTAATATTATTT
78161 ATATTTTAATATTATTTT
1 ATATTTTAATATTA-TTT
*
78179 ATATTTTAATAATTATAT
1 ATATTTTAAT-ATTATTT
* * *
78197 ATATTATATTTATATAATT
1 ATATTTTA-ATAT-TATTT
78216 ATA-TTTAATATTATTT
1 ATATTTTAATATTATTT
78232 ATACTTTTAA
1 ATA-TTTTAA
78242 GATTTAGACC
Statistics
Matches: 93, Mismatches: 18, Indels: 27
0.67 0.13 0.20
Matches are distributed among these distances:
12 9 0.10
13 1 0.01
14 1 0.01
15 1 0.01
16 28 0.30
17 11 0.12
18 31 0.33
19 11 0.12
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTTTAATATTATTT
Found at i:78188 original size:54 final size:54
Alignment explanation
Indices: 78119--78241 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 54
78109 ATTTATATAA
* *
78119 ATTTTAATATATTAATAATT-TAATTTATATAAATTT-TAAAA-TATATTTTAATATT
1 ATTTT-ATATTTTAATAATTAT-ATATAT-TAAATTTATAAAATTATA-TTTAATATT
* *
78174 ATTTTATATTTTAATAATTATATATATTATATTTATATAATTATATTTAATATT
1 ATTTTATATTTTAATAATTATATATATTAAATTTATAAAATTATATTTAATATT
78228 A-TTTATACTTTTAA
1 ATTTTATA-TTTTAA
78242 GATTTAGACC
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
53 12 0.20
54 38 0.63
55 10 0.17
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (54 bp):
ATTTTATATTTTAATAATTATATATATTAAATTTATAAAATTATATTTAATATT
Found at i:78226 original size:21 final size:21
Alignment explanation
Indices: 78160--78227 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 21
78150 AATTTTAAAA
78160 TATATTTTAAT-A-T-TATTT
1 TATATTTTAATAATTATATTT
78178 TATATTTTAATAATTATATATAT
1 TATATTTTAATAATTATAT-T-T
78201 TATA-TTTATATAATTATATTT
1 TATATTTTA-ATAATTATATTT
*
78222 AATATT
1 TATATT
78228 ATTTATACTT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
18 11 0.26
19 1 0.02
20 1 0.02
21 7 0.17
22 7 0.17
23 15 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATTTTAATAATTATATTT
Found at i:78507 original size:22 final size:22
Alignment explanation
Indices: 78482--78524 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
78472 TTTTTATATA
*
78482 TAAAAAAGTCATAATTTAAAAG
1 TAAAAAAATCATAATTTAAAAG
* *
78504 TAAAAAAATGATTATTTAAAA
1 TAAAAAAATCATAATTTAAAA
78525 TTTATATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAAATCATAATTTAAAAG
Found at i:78667 original size:19 final size:19
Alignment explanation
Indices: 78643--78679 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78633 ATATATTTAC
78643 ATTTATTTACTTAAAAAAT
1 ATTTATTTACTTAAAAAAT
**
78662 ATTTATTTTTTTAAAAAA
1 ATTTATTTACTTAAAAAA
78680 ATCTTACATT
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:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTATTTACTTAAAAAAT
Found at i:81044 original size:21 final size:23
Alignment explanation
Indices: 81004--81046 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
80994 AGTTTAAAAA
*
81004 TAAATATAAATAATTTTTATTTT
1 TAAATATAAATAATTATTATTTT
81027 TAAATA-AAATAA-TATTATTT
1 TAAATATAAATAATTATTATTT
81047 AATTTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATATAAATAATTATTATTTT
Found at i:81849 original size:22 final size:22
Alignment explanation
Indices: 81822--81879 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
81812 TACCGCCTTT
* * *
81822 AAAAATAATTAATTGATTAACA
1 AAAAATAATTAACTAATCAACA
* *
81844 AAAAATTATTTACTAATCAACA
1 AAAAATAATTAACTAATCAACA
81866 AAAAATAA-TAACTA
1 AAAAATAATTAACTA
81880 TTTTCTAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAATAATTAACTAATCAACA
Found at i:84502 original size:12 final size:12
Alignment explanation
Indices: 84475--84516 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
84465 AAAATATCAA
*
84475 TATATTA-ATAT
1 TATATTATATTT
84486 TATATTATATTT
1 TATATTATATTT
*
84498 TATATTACATTT
1 TATATTATATTT
84510 TA-ATTAT
1 TATATTAT
84517 CATCTAGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTATATTT
Found at i:84997 original size:20 final size:22
Alignment explanation
Indices: 84948--84998 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
84938 GAAAAACATA
84948 AATATTTTTATAATAATATTATT
1 AATA-TTTTATAATAATATTATT
*
84971 --TAATTTATAA-AATATT-TT
1 AATATTTTATAATAATATTATT
84989 AATATTTTAT
1 AATATTTTAT
84999 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
18 2 0.08
19 6 0.25
20 14 0.58
21 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATATTTTATAATAATATTATT
Found at i:85506 original size:16 final size:16
Alignment explanation
Indices: 85487--85558 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
85477 ATTAATAAAT
*
85487 AATTTTAATAATTTTA
1 AATTTTAATAATTATA
85503 AATTATT--T-ATT--A
1 AATT-TTAATAATTATA
85515 AATTTTCAATATATTATA
1 AATTTT-AATA-ATTATA
* *
85533 AATTTTATTACTTATA
1 AATTTTAATAATTATA
85549 AATTTTAATA
1 AATTTTAATA
85559 TAATTTTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
11 2 0.04
12 5 0.11
14 4 0.09
15 1 0.02
16 21 0.47
17 5 0.11
18 7 0.16
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTTAATAATTATA
Found at i:85607 original size:3 final size:3
Alignment explanation
Indices: 85599--85630 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
85589 ATAATTTAAG
85599 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85631 AAAGTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:87441 original size:23 final size:23
Alignment explanation
Indices: 87397--87438 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
87387 TTTTTATAGA
87397 TATT-AATATTTAATTTTAAATT
1 TATTAAATATTTAATTTTAAATT
*
87419 TATTAAATA-TTATTTTTAAA
1 TATTAAATATTTAATTTTAAA
87439 ATTAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTAAATATTTAATTTTAAATT
Found at i:87446 original size:23 final size:23
Alignment explanation
Indices: 87401--87446 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
87391 TATAGATATT
*
87401 AATATTTAATTTTAAATTTATTA
1 AATATTTAATTTTAAATTAATTA
*
87424 AATA-TTATTTTTAAAATTAATTA
1 AATATTTAATTTT-AAATTAATTA
87447 TATAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTTAATTTTAAATTAATTA
Found at i:89350 original size:20 final size:19
Alignment explanation
Indices: 89319--89363 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
89309 TATAAAATTA
*
89319 TAAAATTAT-TTTTAT-AT
1 TAAATTTATATTTTATAAT
89336 TAATATTTATATTTTATAAT
1 TAA-ATTTATATTTTATAAT
89356 TAAATTTA
1 TAAATTTA
89364 AGTAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 3 0.12
18 5 0.21
19 11 0.46
20 5 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TAAATTTATATTTTATAAT
Found at i:90010 original size:24 final size:24
Alignment explanation
Indices: 89974--90069 Score: 65
Period size: 24 Copynumber: 4.0 Consensus size: 24
89964 TTAATTAAAA
89974 AATA-TTAATATTATAATGTATTTT
1 AATATTTAATATTATAAT-TATTTT
* **
89998 AATATTTAA-ATTAATAA-AATTAA
1 AATATTTAATATT-ATAATTATTTT
*
90021 AAAATATTAATATTATAATATATTTT
1 AATAT-TTAATATTATAAT-TATTTT
* *
90047 GATATTTAA-ATTAATAAATATTT
1 AATATTTAATATT-ATAATTATTT
90070 AAATTGTAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 14
0.70 0.13 0.18
Matches are distributed among these distances:
23 7 0.13
24 23 0.42
25 19 0.35
26 6 0.11
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
AATATTTAATATTATAATTATTTT
Found at i:90027 original size:49 final size:49
Alignment explanation
Indices: 89966--90064 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
89956 AAGTAAATTT
*
89966 AATTAAAAAATATTAATATTATAATGTATTTTAATATTTAAATTAATAA
1 AATTAAAAAATATTAATATTATAATATATTTTAATATTTAAATTAATAA
*
90015 AATTAAAAAATATTAATATTATAATATATTTTGATATTTAAATTAATAA
1 AATTAAAAAATATTAATATTATAATATATTTTAATATTTAAATTAATAA
90064 A
1 A
90065 TATTTAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (49 bp):
AATTAAAAAATATTAATATTATAATATATTTTAATATTTAAATTAATAA
Found at i:91263 original size:19 final size:18
Alignment explanation
Indices: 91231--91290 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
91221 GACATTTTCA
91231 AAAATATATTTATATAATT
1 AAAAT-TATTTATATAATT
*
91250 AAAATTATTATATAATAATA
1 AAAATTATT-TAT-ATAATT
* *
91270 AAAATAATTTTTTATAATT
1 AAAATTA-TTTATATAATT
91289 AA
1 AA
91291 TTAGAAGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.12
19 15 0.44
20 13 0.38
21 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATTATTTATATAATT
Found at i:91267 original size:20 final size:19
Alignment explanation
Indices: 91230--91279 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
91220 AGACATTTTC
91230 AAAAATATATTTATATAAT
1 AAAAATATATTTATATAAT
*
91249 TAAAAT-TATTATATAATAAT
1 AAAAATATATT-TAT-ATAAT
91269 AAAAATA-ATTT
1 AAAAATATATTT
91280 TTTATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 4 0.15
19 9 0.35
20 13 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATATATTTATATAAT
Found at i:92619 original size:5 final size:5
Alignment explanation
Indices: 92585--92742 Score: 59
Period size: 5 Copynumber: 32.4 Consensus size: 5
92575 TGATTATTTA
* * *
92585 AATAT AATATT AATA- AA-AT AATTAA AATAT TATAT AATAT AA-AT ATTATT
1 AATAT AATA-T AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AATA-T
* * * * * * *
92635 AAAATT TATAT ATTAT AA-AT TAT-T AATAT ATTAA AAT-T TATAT AAATAT
1 AATA-T AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT -AATAT
* * *
92684 AAAAT AATTT ACAAAT AATTAT AATAT AATA- AATAT -ATA- AATAT AATAT
1 AATAT AATAT A-ATAT AA-TAT AATAT AATAT AATAT AATAT AATAT AATAT
92733 AA-AT -ATAT AA
1 AATAT AATAT AA
92743 ATTATTAAAC
Statistics
Matches: 110, Mismatches: 26, Indels: 34
0.65 0.15 0.20
Matches are distributed among these distances:
3 2 0.02
4 29 0.26
5 53 0.48
6 26 0.24
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:92637 original size:51 final size:51
Alignment explanation
Indices: 92565--92667 Score: 115
Period size: 51 Copynumber: 2.0 Consensus size: 51
92555 AGATCAAATA
92565 ATATAAAAAATGATTATTT-AAATATA-ATATTAATAAAATAATTAAAATATT
1 ATATAAAAAATGATTATTTAAAATATATATATT-AT-AAATAATTAAAATATT
* * *
92616 ATATAATATAAAT-ATTA-TTAAAATTTATATATTATAAATTATTAATATATT
1 ATATAA-A-AAATGATTATTTAAAATATATATATTATAAATAATTAAAATATT
92667 A
1 A
92668 AAATTTATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
51 23 0.51
52 13 0.29
53 9 0.20
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (51 bp):
ATATAAAAAATGATTATTTAAAATATATATATTATAAATAATTAAAATATT
Found at i:92649 original size:17 final size:17
Alignment explanation
Indices: 92627--92678 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
92617 TATAATATAA
92627 ATATTATTAAAATTTAT
1 ATATTATTAAAATTTAT
*
92644 ATATTA-TAAATTATTA-
1 ATATTATTAAAAT-TTAT
92660 ATA-TATTAAAATTTAT
1 ATATTATTAAAATTTAT
92676 ATA
1 ATA
92679 AATATAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 5 0.17
16 16 0.53
17 9 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTATTAAAATTTAT
Done.