Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold285
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: 926752
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 1 of 6
Found at i:253 original size:15 final size:16
Alignment explanation
Indices: 235--264 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
225 TTTTATAAAA
235 AAAGAAAAAG-GAAAG
1 AAAGAAAAAGAGAAAG
250 AAAGAAAAAGAGAAA
1 AAAGAAAAAGAGAAA
265 AATTTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGAGAAAG
Found at i:801 original size:16 final size:17
Alignment explanation
Indices: 774--814 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
764 ATTTTTAAAT
774 AAATTTTA-TTAATT-A
1 AAATTTTATTTAATTAA
*
789 TAATTTTATTTAATTAA
1 AAATTTTATTTAATTAA
806 AAATTTTAT
1 AAATTTTAT
815 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATTTTATTTAATTAA
Found at i:1135 original size:27 final size:29
Alignment explanation
Indices: 1082--1136 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
1072 AATCATATTA
1082 ATTATATAATAAAAAAATATATCTTAATCT
1 ATTATATAATAAAAAAATATA-CTTAATCT
*
1112 ATTATATAAT-AATAAATATA-TTAAT
1 ATTATATAATAAAAAAATATACTTAAT
1137 TATATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
29 9 0.38
30 10 0.42
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (29 bp):
ATTATATAATAAAAAAATATACTTAATCT
Found at i:2302 original size:19 final size:18
Alignment explanation
Indices: 2273--2309 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
2263 CTTCCAAGAC
2273 ATCATTTTGATCTTCTAA
1 ATCATTTTGATCTTCTAA
2291 ATCATATTTGATCTTCTAA
1 ATCAT-TTTGATCTTCTAA
2310 GCATGTACGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (18 bp):
ATCATTTTGATCTTCTAA
Found at i:3928 original size:16 final size:18
Alignment explanation
Indices: 3889--3928 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
3879 TAAGTAAATT
3889 TTTATT-ATAATATGTTA
1 TTTATTAATAATATGTTA
3906 TTT-TTAAT-ATAT-TTA
1 TTTATTAATAATATGTTA
3921 TTTATTAA
1 TTTATTAA
3929 AATCTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATTAATAATATGTTA
Found at i:5580 original size:6 final size:6
Alignment explanation
Indices: 5571--5616 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
5561 TTATTTTTAT
* * *
5571 TATAAA TATAAA TATAAA AAAAAA TTTAAA TA-AAA -ATAAA TATAAA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
5617 AAATTTATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
4 1 0.03
5 6 0.19
6 25 0.78
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
TATAAA
Found at i:5605 original size:16 final size:16
Alignment explanation
Indices: 5574--5616 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
5564 TTTTTATTAT
5574 AAATATAAATATAAAAAA
1 AAATAT-AA-ATAAAAAA
* *
5592 AAATTTAAATAAAAAT
1 AAATATAAATAAAAAA
5608 AAATATAAA
1 AAATATAAA
5617 AAATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 15 0.68
17 2 0.09
18 5 0.23
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATATAAATAAAAAA
Found at i:5617 original size:12 final size:12
Alignment explanation
Indices: 5572--5649 Score: 54
Period size: 12 Copynumber: 6.4 Consensus size: 12
5562 TATTTTTATT
*
5572 ATAAATATAAAT
1 ATAAATATAAAA
5584 ATAAA-A-AAAA
1 ATAAATATAAAA
*
5594 ATTTAA-ATAAAA
1 A-TAAATATAAAA
5606 ATAAATATAAAAA
1 ATAAATAT-AAAA
**
5619 ATTTATATTAAATA
1 ATAAATA-TAAA-A
*
5633 ATAAAAATAAAA
1 ATAAATATAAAA
5645 ATAAA
1 ATAAA
5650 CAAACATATT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
10 4 0.08
11 8 0.15
12 18 0.35
13 16 0.31
14 6 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAAATATAAAA
Found at i:5635 original size:27 final size:25
Alignment explanation
Indices: 5573--5645 Score: 85
Period size: 24 Copynumber: 2.9 Consensus size: 25
5563 ATTTTTATTA
* *
5573 TAAATATAAATATAAA-AAAAAATT
1 TAAATAAAAATAAAAATAAAAAATT
*
5597 TAAATAAAAATAAATATAAAAAATT
1 TAAATAAAAATAAAAATAAAAAATT
*
5622 TATATTAAATAATAAAAATAAAAA
1 TA-AATAAA-AATAAAAATAAAAA
5646 TAAACAAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 13 0.32
25 10 0.24
26 5 0.12
27 13 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAATAAAAATAAAAAATT
Found at i:6509 original size:12 final size:13
Alignment explanation
Indices: 6492--6521 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6482 GCAATGTATC
6492 AAAAAT-GGAAAA
1 AAAAATGGGAAAA
6504 AAAAATGGGAAAA
1 AAAAATGGGAAAA
6517 AAAAA
1 AAAAA
6522 CTATTTGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (13 bp):
AAAAATGGGAAAA
Found at i:8428 original size:31 final size:30
Alignment explanation
Indices: 8374--8450 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
8364 TTATCATACA
8374 ATATTATATTTATATAAAATTT-AATATATT
1 ATATTATA-TTATATAAAATTTAAATATATT
**
8404 ACTAGTTATATTATATAATTTTTAAAATATATT
1 A-TA-TTATATTATATAAAATTT-AAATATATT
*
8437 ATATTATTTTATAT
1 ATATTATATTATAT
8451 TGTATTTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 1 0.03
31 23 0.57
32 7 0.17
33 9 0.22
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (30 bp):
ATATTATATTATATAAAATTTAAATATATT
Found at i:8469 original size:18 final size:18
Alignment explanation
Indices: 8430--8484 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
8420 AATTTTTAAA
8430 ATATATTATA-TT-ATTTT
1 ATAT-TTATATTTAATTTT
8447 ATATTGTAT-TTTAATTTT
1 ATATT-TATATTTAATTTT
* *
8465 TTATTTATATTTAATGTT
1 ATATTTATATTTAATTTT
8483 AT
1 AT
8485 TAAATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 1 0.03
17 12 0.39
18 18 0.58
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (18 bp):
ATATTTATATTTAATTTT
Found at i:9388 original size:14 final size:14
Alignment explanation
Indices: 9365--9395 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9355 AATTTTTTTA
*
9365 ATTTTTTTAAATTT
1 ATTTTATTAAATTT
9379 ATTTTATTAAATTT
1 ATTTTATTAAATTT
9393 ATT
1 ATT
9396 ATAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTATTAAATTT
Found at i:9425 original size:13 final size:13
Alignment explanation
Indices: 9403--9440 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
9393 ATTATAATAT
9403 TTTTA-ATTTTTA
1 TTTTATATTTTTA
9415 -TTTATATTTTTA
1 TTTTATATTTTTA
*
9427 TTTTATATTATTA
1 TTTTATATTTTTA
9440 T
1 T
9441 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 4 0.17
12 7 0.30
13 12 0.52
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTATATTTTTA
Found at i:9438 original size:43 final size:45
Alignment explanation
Indices: 9353--9464 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 45
9343 TGACGTGGAC
* *
9353 ATAATTTTTTTAA-TTTT-TTTAAATTTATTTTATTAAATTTATT
1 ATAATATTTTTAATTTTTATTTATATTTATTTTATTAAATTTATT
*
9396 ATAATATTTTTAATTTTTATTTATATTT-TTATT-TTATA-TTATT
1 ATAATATTTTTAATTTTTATTTATATTTATT-TTATTAAATTTATT
** *
9439 ATAATATTAAT-ATGTTTATTTATATT
1 ATAATATTTTTAATTTTTATTTATATT
9465 AATATTGTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
42 14 0.23
43 26 0.43
44 10 0.17
45 10 0.17
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (45 bp):
ATAATATTTTTAATTTTTATTTATATTTATTTTATTAAATTTATT
Found at i:9465 original size:18 final size:20
Alignment explanation
Indices: 9442--9485 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
9432 TATTATTATA
*
9442 ATATTAATA-TGTTTA-TTT
1 ATATTAATATTGTTAATTTT
9460 ATATTAATATTGTTAATTTT
1 ATATTAATATTGTTAATTTT
9480 ATATTA
1 ATATTA
9486 CTATCAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
19 5 0.22
20 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATATTAATATTGTTAATTTT
Found at i:10258 original size:19 final size:18
Alignment explanation
Indices: 10229--10265 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
10219 CTTCCAAGAC
10229 ATCATTTTGATCTTCTAA
1 ATCATTTTGATCTTCTAA
10247 ATCATATTTGATCTTCTAA
1 ATCAT-TTTGATCTTCTAA
10266 GCATGTACGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (18 bp):
ATCATTTTGATCTTCTAA
Found at i:12002 original size:14 final size:14
Alignment explanation
Indices: 11979--12009 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11969 GATTTTTTTA
*
11979 ATTTTTTTAAATTT
1 ATTTTATTAAATTT
11993 ATTTTATTAAATTT
1 ATTTTATTAAATTT
12007 ATT
1 ATT
12010 ATAATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTATTAAATTT
Found at i:12035 original size:19 final size:19
Alignment explanation
Indices: 11989--12143 Score: 73
Period size: 20 Copynumber: 7.5 Consensus size: 19
11979 ATTTTTTTAA
*
11989 ATTTATTTTATTAAATTTATT
1 ATTTATATTATT-AATTT-TT
* *
12010 A-TAATATTATTCATTTTT
1 ATTTATATTATTAATTTTT
*
12028 ATTTATATTCTTAATTTTAT
1 ATTTATATTATTAATTTT-T
*
12048 ATTATTATAATATTAATATGTTT
1 A-T-TTATATTATTAAT-T-TTT
* *
12071 ATTTATATTAGT-ATTGTTA
1 ATTTATATTATTAATT-TTT
*
12090 ATTTTATATTACTACTGGTATTTTT
1 A-TTTATATTA-T--T--AATTTTT
12115 ATTTATATTATTAGATTTATT
1 ATTTATATTATTA-ATTT-TT
12136 A-TTATATT
1 ATTTATATT
12144 TGTTTTAAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 31
0.70 0.09 0.21
Matches are distributed among these distances:
18 3 0.03
19 22 0.21
20 32 0.30
21 14 0.13
22 12 0.11
23 5 0.05
24 11 0.10
25 3 0.03
26 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (19 bp):
ATTTATATTATTAATTTTT
Found at i:12047 original size:39 final size:43
Alignment explanation
Indices: 11989--12080 Score: 102
Period size: 41 Copynumber: 2.2 Consensus size: 43
11979 ATTTTTTTAA
* * *
11989 ATTTATTTTATTAA-ATT-TATTATAATATTATTCAT-T-TTT
1 ATTTATATTATTAATATTATATTATAATAATATTAATATGTTT
* * *
12028 ATTTATATTCTTAATTTTATATTATTATAATATTAATATGTTT
1 ATTTATATTATTAATATTATATTATAATAATATTAATATGTTT
12071 ATTTATATTA
1 ATTTATATTA
12081 GTATTGTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
39 12 0.29
40 2 0.05
41 15 0.36
42 1 0.02
43 12 0.29
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (43 bp):
ATTTATATTATTAATATTATATTATAATAATATTAATATGTTT
Found at i:12876 original size:24 final size:22
Alignment explanation
Indices: 12844--12888 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
12834 TTTTTATTTT
12844 TATTATAAATATAAATATAAATAA
1 TATTATAAATA-AAA-ATAAATAA
*
12868 TATTTTAAATAAAAATAAATA
1 TATTATAAATAAAAATAAATA
12889 TAAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTATAAATAAAAATAAATAA
Found at i:12906 original size:24 final size:27
Alignment explanation
Indices: 12841--12909 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
12831 AATTTTTTAT
12841 TTTTATTATAAATATAAATATAAATAATA
1 TTTTA-TATAAA-ATAAATATAAATAATA
*
12870 TTTTAAATAAAAATAAATATAAA-AA-A
1 TTTTATAT-AAAATAAATATAAATAATA
12896 -TTTATATAAAATAA
1 TTTTATATAAAATAA
12910 TGTGCACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
24 7 0.19
25 6 0.16
26 1 0.03
27 2 0.05
28 13 0.35
29 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
TTTTATATAAAATAAATATAAATAATA
Found at i:13841 original size:12 final size:13
Alignment explanation
Indices: 13824--13852 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13814 GCAATGTATC
13824 AAAAAT-GGAAAA
1 AAAAATGGGAAAA
13836 AAAAATGGGAAAA
1 AAAAATGGGAAAA
13849 AAAA
1 AAAA
13853 CTATTTGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (13 bp):
AAAAATGGGAAAA
Found at i:16448 original size:24 final size:24
Alignment explanation
Indices: 16404--16449 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16394 TTTTATATTA
*
16404 TATTTTAATTATTTTTTTATTTCG
1 TATTTTAATTATTTTTATATTTCG
*
16428 TATTTTTATT-TTTTGTATATTT
1 TATTTTAATTATTTT-TATATTT
16450 AAAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (24 bp):
TATTTTAATTATTTTTATATTTCG
Found at i:16833 original size:15 final size:16
Alignment explanation
Indices: 16815--16844 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16805 TTTTATAAAA
16815 AAAGAAAAAG-GAAAG
1 AAAGAAAAAGAGAAAG
16830 AAAGAAAAAGAGAAA
1 AAAGAAAAAGAGAAA
16845 AATTTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGAGAAAG
Found at i:17382 original size:16 final size:17
Alignment explanation
Indices: 17355--17395 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
17345 ATTTTTAAAT
17355 AAATTTTA-TTAATT-A
1 AAATTTTATTTAATTAA
*
17370 TAATTTTATTTAATTAA
1 AAATTTTATTTAATTAA
17387 AAATTTTAT
1 AAATTTTAT
17396 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATTTTATTTAATTAA
Found at i:19773 original size:19 final size:20
Alignment explanation
Indices: 19741--19779 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
19731 TTTTTTTTCT
**
19741 TTTCTCTCTTTCAT-TCTTG
1 TTTCTCTCCATCATCTCTTG
19760 TTTCTCTCCATCATCTCTTG
1 TTTCTCTCCATCATCTCTTG
19780 CACTGCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.08, C:0.31, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTCTCTCCATCATCTCTTG
Found at i:20066 original size:16 final size:16
Alignment explanation
Indices: 20047--20089 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
20037 TTCGAGTTTG
* *
20047 AGCCTATTCGGGTTCA
1 AGCCTATTCAGATTCA
*
20063 AGCCTTTTCAGATTCA
1 AGCCTATTCAGATTCA
*
20079 AGCCTTTTCAG
1 AGCCTATTCAG
20090 GTTTGGGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (16 bp):
AGCCTATTCAGATTCA
Found at i:20299 original size:16 final size:18
Alignment explanation
Indices: 20260--20299 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
20250 TAAGTAAATT
20260 TTTATT-ATAATATGTTA
1 TTTATTAATAATATGTTA
20277 TTT-TTAAT-ATAT-TTA
1 TTTATTAATAATATGTTA
20292 TTTATTAA
1 TTTATTAA
20300 AATCTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATTAATAATATGTTA
Found at i:21984 original size:18 final size:17
Alignment explanation
Indices: 21958--21991 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21948 TTTTTATTTT
21958 TATTATAAATACAAAAAA
1 TATTATAAATA-AAAAAA
*
21976 TATTTTAAATAAAAAA
1 TATTATAAATAAAAAA
21992 TAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
TATTATAAATAAAAAAA
Found at i:22023 original size:29 final size:29
Alignment explanation
Indices: 21961--22026 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
21951 TTATTTTTAT
21961 TATAAATACAAAAAATATTTTAAATAAAA
1 TATAAATACAAAAAATATTTTAAATAAAA
* * *
21990 AATAAATATAAAAAA-ATTATATAAA-ATAA
1 TATAAATACAAAAAATATT-T-TAAATAAAA
22019 TATAAATA
1 TATAAATA
22027 AAAGTAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 3 0.10
29 24 0.77
30 4 0.13
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (29 bp):
TATAAATACAAAAAATATTTTAAATAAAA
Found at i:27390 original size:21 final size:21
Alignment explanation
Indices: 27351--27390 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27341 AAATATATAT
** *
27351 TTGGATGAATTAATGCATTGG
1 TTGGATGAAAGAATACATTGG
27372 TTGGATGAAAGAATACATT
1 TTGGATGAAAGAATACATT
27391 TTTTACATGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (21 bp):
TTGGATGAAAGAATACATTGG
Found at i:28273 original size:2 final size:2
Alignment explanation
Indices: 28268--28300 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
28258 ATTATGTGTG
28268 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 T
28301 TTTATAAAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:28917 original size:22 final size:21
Alignment explanation
Indices: 28874--28917 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
28864 CCTCTCTTCG
*
28874 CTTCAACCCCAACCTTGAGTT
1 CTTCAACCCCAACCTGGAGTT
* *
28895 CTTCAACCATCAACCTGGTGTT
1 CTTCAACC-CCAACCTGGAGTT
28917 C
1 C
28918 AAAATTTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.23, C:0.36, G:0.11, T:0.30
Consensus pattern (21 bp):
CTTCAACCCCAACCTGGAGTT
Found at i:30227 original size:3 final size:3
Alignment explanation
Indices: 30219--30259 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
30209 AATTCAGTCG
*
30219 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA T
30260 TAAAAATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:30279 original size:23 final size:21
Alignment explanation
Indices: 30253--30309 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 21
30243 TAATAATAAT
30253 AAATAATTAAAAAT-ATTAAATTA
1 AAAT-ATTAAAAATAATT--ATTA
30276 AAATATATAATAAATAATTATTA
1 AAATAT-TAA-AAATAATTATTA
30299 AAATATTAAAA
1 AAATATTAAAA
30310 TTATATTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 2 0.06
22 5 0.16
23 17 0.55
24 4 0.13
25 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATATTAAAAATAATTATTA
Found at i:30513 original size:23 final size:24
Alignment explanation
Indices: 30474--30520 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30464 TCTATTAATC
30474 AATTATATAATAAT-AAATTTATT
1 AATTATATAATAATAAAATTTATT
*
30497 AATTATATTAA-ATTAAAATTTATT
1 AATTATA-TAATAATAAAATTTATT
30521 TTATTGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AATTATATAATAATAAAATTTATT
Found at i:31718 original size:19 final size:19
Alignment explanation
Indices: 31691--31727 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31681 TTATCCTCTT
*
31691 CCTGGAAAATCAATTTATA
1 CCTGGAAAACCAATTTATA
*
31710 CCTGTAAAACCAATTTAT
1 CCTGGAAAACCAATTTAT
31728 TTTGCCATTG
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:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (19 bp):
CCTGGAAAACCAATTTATA
Found at i:33473 original size:47 final size:47
Alignment explanation
Indices: 33404--33495 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
33394 CTCAACACAC
*
33404 AGTTTAATTAGTTTGAAAAGCACTAGGTCTGTCAATATAGCAAATAT
1 AGTTTAATTAGTTTGAAAAGCACTAGGTCTGTCAATATAGAAAATAT
*
33451 AGTTTAATTAGTTTGAAAAGCACTGGGTCTGTCAATATAGAAAAT
1 AGTTTAATTAGTTTGAAAAGCACTAGGTCTGTCAATATAGAAAAT
33496 GAAGTATATC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (47 bp):
AGTTTAATTAGTTTGAAAAGCACTAGGTCTGTCAATATAGAAAATAT
Found at i:35179 original size:32 final size:32
Alignment explanation
Indices: 35137--35207 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
35127 CAGGAGCTCG
*
35137 GATTTGGTGATTGGGCCCAATTTTATAAACCC
1 GATTTAGTGATTGGGCCCAATTTTATAAACCC
*
35169 GATTTAGTGATTGGGCCCAATTTTATTAACCC
1 GATTTAGTGATTGGGCCCAATTTTATAAACCC
35201 GATTTAG
1 GATTTAG
35208 GGGAAAGGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (32 bp):
GATTTAGTGATTGGGCCCAATTTTATAAACCC
Found at i:35792 original size:27 final size:27
Alignment explanation
Indices: 35754--35808 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
35744 AATTTATATG
35754 TTTTATAATTAA-ATTTAAATAA-AATT
1 TTTTATAATTAAGATTT-AATAATAATT
*
35780 TTTTATTATTTAAGATTTAATAATAATT
1 TTTTA-TAATTAAGATTTAATAATAATT
35808 T
1 T
35809 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 5 0.20
27 11 0.44
28 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TTTTATAATTAAGATTTAATAATAATT
Found at i:36833 original size:21 final size:22
Alignment explanation
Indices: 36787--36833 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
36777 TATTAAATTT
36787 TAAATATTTTTAATATATATAA
1 TAAATATTTTTAATATATATAA
36809 -AAATATTTTTAA-ATAT-TAAA
1 TAAATATTTTTAATATATAT-AA
36829 TAAAT
1 TAAAT
36834 TTTATATGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 6 0.26
21 16 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATATTTTTAATATATATAA
Found at i:37108 original size:19 final size:21
Alignment explanation
Indices: 37076--37119 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
37066 CAACACTCAC
**
37076 TAATACAACTAATAT-AA-AT
1 TAATACAAAAAATATCAACAT
37095 TAATACAAAAAATATCAACAT
1 TAATACAAAAAATATCAACAT
37116 TAAT
1 TAAT
37120 TTAATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 2 0.10
21 6 0.29
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
TAATACAAAAAATATCAACAT
Found at i:44425 original size:21 final size:22
Alignment explanation
Indices: 44379--44426 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
44369 ATTATAAATT
* * *
44379 TTTTATTAATAATATTTATTAA
1 TTTTATAAATAAAAATTATTAA
44401 -TTTATAAATAAAAATT-TTAA
1 TTTTATAAATAAAAATTATTAA
44421 TTTTAT
1 TTTTAT
44427 TAAAAGCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTATAAATAAAAATTATTAA
Found at i:45286 original size:16 final size:17
Alignment explanation
Indices: 45265--45306 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
45255 TATATTAATT
45265 TTATAAATTT-TATATG
1 TTATAAATTTATATATG
*
45281 TTAT-AATTTATATATT
1 TTATAAATTTATATATG
45297 TTAATAAATT
1 TT-ATAAATT
45307 AATAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.23
16 11 0.50
17 2 0.09
18 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTATAAATTTATATATG
Found at i:45317 original size:32 final size:32
Alignment explanation
Indices: 45238--45334 Score: 85
Period size: 32 Copynumber: 2.9 Consensus size: 32
45228 TAGCTTAGAT
45238 TTAATAATTCTA-ATATTTATATTAATTTT-ATAAA
1 TTAATAATT-TATA-ATTTATA-T-ATTTTAATAAA
*
45272 TT-TTATATGTTATAATTTATATATTTTAATAAA
1 TTAATA-AT-TTATAATTTATATATTTTAATAAA
*
45305 TTAATAATTTAT-ATTATATAAATTTTAATA
1 TTAATAATTTATAATT-TATATATTTTAATA
45335 TATTTATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
31 3 0.06
32 22 0.41
33 12 0.22
34 15 0.28
35 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (32 bp):
TTAATAATTTATAATTTATATATTTTAATAAA
Found at i:45319 original size:23 final size:25
Alignment explanation
Indices: 45291--45347 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
45281 TTATAATTTA
45291 TATATTTTAATAAA-TTAATA-ATT
1 TATATTTTAATAAATTTAATATATT
*
45314 TATATTAT-ATAAATTTTAATATATT
1 TATATTTTAATAAA-TTTAATATATT
*
45339 TATTTTTTA
1 TATATTTTA
45348 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 5 0.19
23 7 0.26
24 6 0.22
25 9 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TATATTTTAATAAATTTAATATATT
Found at i:45341 original size:64 final size:67
Alignment explanation
Indices: 45238--45364 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 67
45228 TAGCTTAGAT
* *
45238 TTAATAATTCTAATATTTATATTAATTTTATAAATTTTATATGTTATAATTTATATATTTTAATA
1 TTAATAATTCTAATATTTATATAAATTTTATAAATTTTATATGTTATAATTTATATATATTAATA
45303 AA
66 AA
* * * * *
45305 TTAATAATT-T-ATA-TTATATAAATTTTA-ATATATTTATTTTTTATATTTTTTATATATTAA
1 TTAATAATTCTAATATTTATATAAATTTTATAAAT-TTTATATGTTATAATTTATATATATTAA
45365 ATTATATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
63 3 0.06
64 36 0.69
65 3 0.06
66 1 0.02
67 9 0.17
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (67 bp):
TTAATAATTCTAATATTTATATAAATTTTATAAATTTTATATGTTATAATTTATATATATTAATA
AA
Found at i:45348 original size:32 final size:32
Alignment explanation
Indices: 45254--45351 Score: 101
Period size: 32 Copynumber: 3.1 Consensus size: 32
45244 ATTCTAATAT
* *
45254 TTATATTAATTTT-ATAAATTTTATATGTTATAA
1 TTATATAAATTTTAATAAA-TTTATATTTTAT-A
* * *
45287 TT-TATATATTTTAATAAATTAATAATTTATA
1 TTATATAAATTTTAATAAATTTATATTTTATA
* *
45318 TTATATAAATTTTAATATATTTATTTTTTATA
1 TTATATAAATTTTAATAAATTTATATTTTATA
45350 TT
1 TT
45352 TTTTATATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
31 3 0.06
32 43 0.81
33 7 0.13
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (32 bp):
TTATATAAATTTTAATAAATTTATATTTTATA
Found at i:45354 original size:24 final size:25
Alignment explanation
Indices: 45305--45371 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
45295 TTTTAATAAA
45305 TTAATA-ATTTATATTATATAAATT
1 TTAATATATTTATATTATATAAATT
* * *
45329 TTAATATATTTATTTTTTAT-ATTT
1 TTAATATATTTATATTATATAAATT
* *
45353 TTTATATA-TTAAATTATAT
1 TTAATATATTTATATTATAT
45372 TTTTATATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
23 8 0.23
24 16 0.46
25 11 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTAATATATTTATATTATATAAATT
Found at i:46650 original size:2 final size:2
Alignment explanation
Indices: 46639--46672 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
46629 CAAGAAACTT
46639 GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
46673 GAAAGAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:47029 original size:17 final size:18
Alignment explanation
Indices: 46990--47029 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
46980 GTTTGAATAA
46990 ATTAAAAATATTTAACTC
1 ATTAAAAATATTTAACTC
47008 A-TAAAGAAT-TTTAA-TC
1 ATTAAA-AATATTTAACTC
47024 ATTAAA
1 ATTAAA
47030 TAAAATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.15
17 13 0.65
18 4 0.20
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTAAAAATATTTAACTC
Found at i:51076 original size:2 final size:2
Alignment explanation
Indices: 51071--51099 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
51061 CTTTTGTGTG
51071 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 T
51100 TTAATAAGTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51541 original size:11 final size:11
Alignment explanation
Indices: 51450--51544 Score: 75
Period size: 11 Copynumber: 9.5 Consensus size: 11
51440 ATGAAAAATT
51450 ATATAATATAA
1 ATATAATATAA
51461 AT-T-AT-T-A
1 ATATAATATAA
*
51468 ATATATTA-AA
1 ATATAATATAA
*
51478 AT-TAATTTAA
1 ATATAATATAA
51488 ATA-AA-A-AA
1 ATATAATATAA
*
51496 ATTTAA-ATAA
1 ATATAATATAA
51506 ATTATAATATAA
1 A-TATAATATAA
*
51518 AAATAATATAA
1 ATATAATATAA
51529 ATATAATATAA
1 ATATAATATAA
51540 ATATA
1 ATATA
51545 TAAATAGTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
7 3 0.05
8 6 0.09
9 9 0.14
10 13 0.20
11 30 0.45
12 5 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATAATATAA
Found at i:51746 original size:20 final size:20
Alignment explanation
Indices: 51721--51759 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
51711 TAATAAATTG
*
51721 ATAAAAAATTAATTTAATAA
1 ATAAAAAAATAATTTAATAA
51741 ATAAAAAAATAATTTAATA
1 ATAAAAAAATAATTTAATA
51760 TATATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAAAATAATTTAATAA
Found at i:52576 original size:28 final size:28
Alignment explanation
Indices: 52532--52595 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
52522 ACGTGAAAAT
*
52532 ATAATATAATATAATTAT-TTTATATATTA
1 ATAATATAATAAAATTATATTT-TATA-TA
52561 ATAATA-AATAAAATTATATTTTATATA
1 ATAATATAATAAAATTATATTTTATATA
52588 ATATATAT
1 ATA-ATAT
52596 TATTTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 5 0.16
28 17 0.55
29 9 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATAATATAATAAAATTATATTTTATATA
Found at i:52604 original size:24 final size:25
Alignment explanation
Indices: 52535--52605 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
52525 TGAAAATATA
52535 ATATAATATA-ATTATTTTATATATT
1 ATATAATATATATTATTTTAT-TATT
* ** *
52560 A-ATAATAAATAAAATTATATT-TT
1 ATATAATATATATTATTTTATTATT
52583 ATATAATATATATTATTTTATTA
1 ATATAATATATATTATTTTATTA
52606 ATTTTATTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
23 3 0.09
24 24 0.69
25 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATATAATATATATTATTTTATTATT
Found at i:52837 original size:45 final size:45
Alignment explanation
Indices: 52773--52865 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
52763 GAAAAACCCC
52773 ATTCGTTCTAATTTCTTTGTTTTCAATTTCCATGGTTTCTCATCG
1 ATTCGTTCTAATTTCTTTGTTTTCAATTTCCATGGTTTCTCATCG
52818 ATTCGTTCTAATTTCTTTGTTTTCAATTTCCATGGTTTCTCATCG
1 ATTCGTTCTAATTTCTTTGTTTTCAATTTCCATGGTTTCTCATCG
52863 ATT
1 ATT
52866 TTTAGTGCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.16, C:0.19, G:0.11, T:0.54
Consensus pattern (45 bp):
ATTCGTTCTAATTTCTTTGTTTTCAATTTCCATGGTTTCTCATCG
Found at i:57151 original size:16 final size:16
Alignment explanation
Indices: 57099--57155 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
57089 AAAATTAAAA
57099 TATTAAAAAATTAATTT
1 TATTAAAAAATT-ATTT
* * *
57116 TATATTAATATTTATATT
1 TAT-TAAAAAATTAT-TT
57134 TATTAAAAAATTATTT
1 TATTAAAAAATTATTT
57150 TATTAA
1 TATTAA
57156 TTAAATATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 8 0.25
17 13 0.41
18 11 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTAAAAAATTATTT
Found at i:57890 original size:15 final size:15
Alignment explanation
Indices: 57870--57903 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
57860 AATTTTTTTA
*
57870 TATTTTAAGTTAATT
1 TATTTTAAGTTAAAT
*
57885 TATTTTAATTTAAAT
1 TATTTTAAGTTAAAT
57900 TATT
1 TATT
57904 ATTTATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTTTAAGTTAAAT
Found at i:59398 original size:13 final size:14
Alignment explanation
Indices: 59374--59402 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
59364 AAAATTTTAA
59374 ATTAAAATTAAATT
1 ATTAAAATTAAATT
59388 ATTAAAA-TAAATT
1 ATTAAAATTAAATT
59401 AT
1 AT
59403 ATATAATATA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAAAATTAAATT
Found at i:59399 original size:18 final size:18
Alignment explanation
Indices: 59365--59419 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
59355 AAGTAAATAA
*
59365 AAATTTTAAATTAAAATT
1 AAATTTTAAAATAAAATT
59383 AAATTATTAAAAT-AAATT
1 AAATT-TTAAAATAAAATT
* * *
59401 ATA-TATAATATAAAATT
1 AAATTTTAAAATAAAATT
59418 AA
1 AA
59420 TATAAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 5 0.17
17 7 0.23
18 12 0.40
19 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTTAAAATAAAATT
Found at i:59418 original size:27 final size:26
Alignment explanation
Indices: 59388--59438 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
59378 AAATTAAATT
*
59388 ATTAAAATAAATTATATATAATATAAA
1 ATTAAAATAAATAATATA-AATATAAA
*
59415 ATTAATATAAATAATATAAATATA
1 ATTAAAATAAATAATATAAATATA
59439 TAATAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
ATTAAAATAAATAATATAAATATAAA
Found at i:59427 original size:31 final size:32
Alignment explanation
Indices: 59383--59443 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
59373 AATTAAAATT
* *
59383 AAATTATTAAAATAA-AT-TATATATAATATA
1 AAATTAATAAAATAATATAAATATATAATATA
59413 AAATTAATATAAATAATATAAATATATAATA
1 AAATTAATA-AAATAATATAAATATATAATA
59444 AATACATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 6 0.23
32 2 0.08
33 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
AAATTAATAAAATAATATAAATATATAATATA
Found at i:59428 original size:20 final size:20
Alignment explanation
Indices: 59372--59434 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
59362 TAAAAATTTT
* *
59372 AAATTAAAATTAAATTAT-TA
1 AAATTAATA-TAAATAATATA
* *
59392 AAATAAATTATATATAATATA
1 AAATTAA-TATAAATAATATA
59413 AAATTAATATAAATAATATA
1 AAATTAATATAAATAATATA
59433 AA
1 AA
59435 TATATAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 26 0.74
21 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATTAATATAAATAATATA
Found at i:61443 original size:21 final size:22
Alignment explanation
Indices: 61419--61464 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
61409 AATAAATATA
61419 AAAATAAT-TCAAATA-AAAAAT
1 AAAATAATAT-AAATATAAAAAT
*
61440 AAAATAATATAAATATATAAAT
1 AAAATAATATAAATATAAAAAT
61462 AAA
1 AAA
61465 TTAAAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATAATATAAATATAAAAAT
Found at i:61479 original size:40 final size:39
Alignment explanation
Indices: 61410--61514 Score: 106
Period size: 40 Copynumber: 2.7 Consensus size: 39
61400 TATGATATTA
* *
61410 ATAAATATAAAAAT-AATTCAAATAAAAAATAAA-ATAAT
1 ATAAATATATAAATAAATTAAAATAAAAAATAAATAT-AT
* *
61448 ATAAATATATAAATAAATTAAAATATCAAAATTAATATAT
1 ATAAATATATAAATAAATTAAAATA-AAAAATAAATATAT
* * *
61488 ATAAAAATATATATAAATATACAATAA
1 ATAAATATATAAATAAAT-TAAAATAA
61515 TGAAAATTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
38 13 0.24
39 9 0.16
40 25 0.45
41 8 0.15
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (39 bp):
ATAAATATATAAATAAATTAAAATAAAAAATAAATATAT
Found at i:61521 original size:42 final size:39
Alignment explanation
Indices: 61442--61523 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 39
61432 TAAAAAATAA
*
61442 AATAATATAAATATATAAATAAATTAAAATATCAAAATT
1 AATAATATAAAAATATAAATAAATTAAAATATCAAAATT
* * *
61481 AATATATATAAAAATATATATAAATATACAATAATGAAAATT
1 AATA-ATATAAAAATATAAATAAAT-TAAAAT-ATCAAAATT
61523 A
1 A
61524 TCATAGTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.11
40 18 0.50
41 5 0.14
42 9 0.25
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (39 bp):
AATAATATAAAAATATAAATAAATTAAAATATCAAAATT
Found at i:61986 original size:17 final size:17
Alignment explanation
Indices: 61964--62004 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
61954 ATATTAACTT
*
61964 ATTTTTTAAAATATAATA
1 ATTTTTTAAAA-ATAACA
*
61982 ATTTTTTTAAAATAACA
1 ATTTTTTAAAAATAACA
61999 ATTTTT
1 ATTTTT
62005 ATATGGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTTTAAAAATAACA
Found at i:62469 original size:7 final size:7
Alignment explanation
Indices: 62459--62631 Score: 62
Period size: 7 Copynumber: 22.6 Consensus size: 7
62449 TCAAATCCAT
*
62459 AATATTA
1 AATATAA
*
62466 AATAAAA
1 AATATAA
62473 AATATAA
1 AATATAA
62480 AATATAA
1 AATATAA
* *
62487 AAAATTA
1 AATATAA
62494 AATATAA
1 AATATAA
* *
62501 TATAAAA
1 AATATAA
62508 TAATATATA
1 -AATATA-A
*
62517 TGATATAA
1 -AATATAA
62525 ATATATTTAA
1 A-ATA--TAA
*
62535 AATATATTT
1 AATATA--A
62544 AATATAA
1 AATATAA
*
62551 ATTATTAA
1 AATA-TAA
*
62559 TATATTAA
1 AATA-TAA
62567 AACT-TATA
1 AA-TATA-A
62575 AATATAA
1 AATATAA
*
62582 AATATTTTA
1 AATA--TAA
62591 AATAT-A
1 AATATAA
*
62597 ATTATAA
1 AATATAA
*
62604 TATCATAA
1 AAT-ATAA
62612 AATATAAA
1 AATAT-AA
62620 AATATAA
1 AATATAA
62627 TAATA
1 -AATA
62632 CATTAATTTA
Statistics
Matches: 125, Mismatches: 24, Indels: 33
0.69 0.13 0.18
Matches are distributed among these distances:
6 5 0.04
7 53 0.42
8 40 0.32
9 23 0.18
10 4 0.03
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (7 bp):
AATATAA
Found at i:62504 original size:19 final size:19
Alignment explanation
Indices: 62457--62525 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
62447 TATCAAATCC
* *
62457 ATAATATTAAATAAAAAAT
1 ATAATATAAAATAATAAAT
62476 ATAAAATATAAAA-AATTAAAT
1 AT--AATATAAAATAA-TAAAT
*
62497 ATAATATAAAATAATATAT
1 ATAATATAAAATAATAAAT
*
62516 ATGATATAAA
1 ATAATATAAA
62526 TATATTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 24 0.57
20 4 0.10
21 14 0.33
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (19 bp):
ATAATATAAAATAATAAAT
Found at i:62558 original size:24 final size:26
Alignment explanation
Indices: 62477--62556 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 26
62467 ATAAAAAATA
* * *
62477 TAAAATATAAAAAAT-TAAATATAATA
1 TAAAATATATATAATATAAATAT-ATT
62503 TAAAATAATATATATGATATAAATATATT
1 TAAAAT-ATATATA--ATATAAATATATT
*
62532 TAAAATATATTTAATATAAAT-TATT
1 TAAAATATATATAATATAAATATATT
62557 AATATATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
25 4 0.09
26 14 0.30
27 5 0.11
28 6 0.13
29 10 0.22
30 7 0.15
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (26 bp):
TAAAATATATATAATATAAATATATT
Found at i:62587 original size:45 final size:46
Alignment explanation
Indices: 62535--62631 Score: 112
Period size: 45 Copynumber: 2.1 Consensus size: 46
62525 ATATATTTAA
*
62535 AATATATTT-AATATAAATTATTAATAT-ATTAAAACT-TATAAATATAA-
1 AATAT-TTTAAATAT-AATTA-TAATATCA-TAAAA-TATAAAAATATAAT
62582 AATATTTTAAATATAATTATAATATCATAAAATATAAAAATATAAT
1 AATATTTTAAATATAATTATAATATCATAAAATATAAAAATATAAT
62628 AATA
1 AATA
62632 CATTAATTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
44 1 0.02
45 21 0.47
46 13 0.29
47 10 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (46 bp):
AATATTTTAAATATAATTATAATATCATAAAATATAAAAATATAAT
Found at i:63086 original size:32 final size:33
Alignment explanation
Indices: 63045--63115 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
63035 TTAGTATATA
*
63045 ATTA-ATAAATTTTAATATATTAATA-ATTTAT
1 ATTATATAAATTTTAATATATTAATATATTAAT
*
63076 ATTATATAAATTTTAATATATTTATATATTAAT
1 ATTATATAAATTTTAATATATTAATATATTAAT
*
63109 TTTATAT
1 ATTATAT
63116 TTATATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 4 0.11
32 20 0.57
33 11 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
ATTATATAAATTTTAATATATTAATATATTAAT
Found at i:63095 original size:14 final size:14
Alignment explanation
Indices: 63049--63096 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
63039 TATATAATTA
63049 ATAAATTTTAATAT
1 ATAAATTTTAATAT
*
63063 ATTAATAATTTATATTAT
1 A-T-A-AATTT-TAATAT
63081 ATAAATTTTAATAT
1 ATAAATTTTAATAT
63095 AT
1 AT
63097 TTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 2 0.07
17 6 0.21
18 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATTTTAATAT
Found at i:63126 original size:16 final size:16
Alignment explanation
Indices: 63100--63160 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 16
63090 AATATATTTA
63100 TATATTAATTTTATATT
1 TATATT-ATTTTATATT
*
63117 TATATTATTTT-TA-A
1 TATATTATTTTATATT
63131 TATA-T-TTTTAT-TT
1 TATATTATTTTATATT
*
63144 TA-ATTATTTTTTATT
1 TATATTATTTTATATT
63159 TA
1 TA
63161 ACGTTTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
12 5 0.14
13 5 0.14
14 9 0.25
15 6 0.17
16 5 0.14
17 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATATTATTTTATATT
Found at i:63131 original size:39 final size:38
Alignment explanation
Indices: 63059--63148 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 38
63049 ATAAATTTTA
63059 ATATATTAATAATTTATATTATATAAATTTTAATATATTT
1 ATATATTAAT--TTTATATTATATAAATTTTAATATATTT
* *
63099 ATATATTAATTTTATATTTATATTATTTTTAATATATTT
1 ATATATTAATTTTATA-TTATATAAATTTTAATATATTT
* *
63138 TTATTTTAATT
1 ATATATTAATT
63149 ATTTTTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 6 0.13
39 29 0.64
40 10 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (38 bp):
ATATATTAATTTTATATTATATAAATTTTAATATATTT
Found at i:63153 original size:15 final size:17
Alignment explanation
Indices: 63111--63159 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
63101 ATATTAATTT
63111 TATATTTATATTATTTTTAA
1 TATATTT-T-TTA-TTTTAA
63131 TATA-TTTTTATTTTAA
1 TATATTTTTTATTTTAA
63147 T-TATTTTTTATTT
1 TATATTTTTTATTT
63160 AACGTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.07
16 16 0.57
17 3 0.11
18 1 0.04
19 2 0.07
20 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATATTTTTTATTTTAA
Found at i:63986 original size:21 final size:19
Alignment explanation
Indices: 63940--63989 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 19
63930 AATAATAAAA
63940 TAATAAAA-TTTTTATTTT
1 TAATAAAATTTTTTATTTT
63958 TAATTAAAATTTATTTATATTT
1 TAA-TAAAATTT-TTTAT-TTT
63980 TAATAAAATT
1 TAATAAAATT
63990 AAATAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.11
19 5 0.18
20 2 0.07
21 12 0.43
22 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATAAAATTTTTTATTTT
Found at i:65765 original size:18 final size:18
Alignment explanation
Indices: 65731--65765 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65721 AGATTTTATT
* *
65731 TTTAAAATTTAAGTTAAG
1 TTTAAAATTAAAATTAAG
65749 TTTAAAATTAAAATTAA
1 TTTAAAATTAAAATTAA
65766 ATTTTTTAAG
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:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
TTTAAAATTAAAATTAAG
Found at i:65830 original size:12 final size:12
Alignment explanation
Indices: 65815--65868 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
65805 AAATTTTTTT
65815 ATTTAATTTTAA
1 ATTTAATTTTAA
65827 ATTTAATTATTAA
1 ATTTAATT-TTAA
65840 TATTTAAGTTTT-A
1 -ATTTAA-TTTTAA
* *
65853 ATTTAAATTAAA
1 ATTTAATTTTAA
65865 ATTT
1 ATTT
65869 TTAATACAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 2 0.06
12 19 0.53
13 5 0.14
14 8 0.22
15 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
ATTTAATTTTAA
Found at i:65836 original size:20 final size:20
Alignment explanation
Indices: 65803--65846 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
65793 TAAAAATAAG
**
65803 TTAAATTTTTTTATTTAAT-T
1 TTAAATTTAATTA-TTAATAT
65823 TTAAATTTAATTATTAATAT
1 TTAAATTTAATTATTAATAT
65843 TTAA
1 TTAA
65847 GTTTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAAATTTAATTATTAATAT
Found at i:65871 original size:26 final size:26
Alignment explanation
Indices: 65814--65873 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
65804 TAAATTTTTT
*
65814 TATTTAATTTTAAATTTAATTATTAA
1 TATTTAATTTTAAATTTAATTATAAA
65840 TATTTAAGTTTT-AATTTAAATTA-AAA
1 TATTTAA-TTTTAAATTT-AATTATAAA
*
65866 TTTTTAAT
1 TATTTAAT
65874 ACAAGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 20 0.67
27 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TATTTAATTTTAAATTTAATTATAAA
Found at i:71894 original size:2 final size:2
Alignment explanation
Indices: 71887--71911 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
71877 CTGGCCAATT
71887 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 T
71912 GTAAATGTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:73883 original size:24 final size:27
Alignment explanation
Indices: 73855--73912 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 27
73845 GGCCGAGTGA
73855 ATTTAAAATTT-A-AATTTAAATT-TT
1 ATTTAAAATTTAATAATTTAAATTATT
73879 ATTT--AATTTAATAATTTAAATTATT
1 ATTTAAAATTTAATAATTTAAATTATT
73904 ATTTAAAAT
1 ATTTAAAAT
73913 ATATTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 5 0.17
23 1 0.03
24 14 0.48
25 6 0.21
27 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTTAAAATTTAATAATTTAAATTATT
Found at i:73918 original size:14 final size:12
Alignment explanation
Indices: 73868--73910 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
73858 TAAAATTTAA
73868 ATTTAAATT-TT
1 ATTTAAATTATT
* *
73879 ATTTAATTTAATA
1 ATTTAAATT-ATT
73892 ATTTAAATTATT
1 ATTTAAATTATT
73904 ATTTAAA
1 ATTTAAA
73911 ATATATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 8 0.31
12 9 0.35
13 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTAAATTATT
Found at i:78479 original size:16 final size:17
Alignment explanation
Indices: 78460--78496 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
78450 AATTAATTTG
78460 AATTTAAAA-AAATTAA
1 AATTTAAAATAAATTAA
*
78476 AA-TTAAAATAATTTAA
1 AATTTAAAATAAATTAA
78492 AATTT
1 AATTT
78497 TTATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.33
16 10 0.56
17 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTTAAAATAAATTAA
Found at i:78544 original size:16 final size:17
Alignment explanation
Indices: 78523--78564 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
78513 TTTATAAATA
*
78523 TAAACTTAAAATTAA-T
1 TAAACTTAAAAATAACT
*
78539 TAAACTGAAAAATAACT
1 TAAACTTAAAAATAACT
*
78556 TAAATTTAA
1 TAAACTTAA
78565 TTCAATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAACTTAAAAATAACT
Found at i:78808 original size:3 final size:3
Alignment explanation
Indices: 78800--78834 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
78790 TGAGTATTTA
78800 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
78835 AAGGTTCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:79312 original size:20 final size:21
Alignment explanation
Indices: 79217--79329 Score: 71
Period size: 20 Copynumber: 5.4 Consensus size: 21
79207 AAATATGATA
79217 ATTTATATATTT-AT-ATTTAT
1 ATTTATAT-TTTAATAATTTAT
*
79237 A--TATATTTT-ATAATATCAT
1 ATTTATATTTTAATAAT-TTAT
* *
79256 AATTA-ATTTATTAATCATTTAT
1 ATTTATA-TT-TTAATAATTTAT
79278 ATTATATAAATTTTAA-AATTTAT
1 ATT-TAT--ATTTTAATAATTTAT
*
79301 ATTTATATTTTAATTATTT-T
1 ATTTATATTTTAATAATTTAT
79321 ATTTATATT
1 ATTTATATT
79330 ATATTTATAT
Statistics
Matches: 75, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
17 5 0.07
18 7 0.09
19 4 0.05
20 19 0.25
21 8 0.11
22 10 0.13
23 15 0.20
24 4 0.05
25 2 0.03
26 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTATATTTTAATAATTTAT
Found at i:79327 original size:44 final size:46
Alignment explanation
Indices: 79224--79328 Score: 110
Period size: 46 Copynumber: 2.3 Consensus size: 46
79214 ATAATTTATA
* *
79224 TATTTATATTTATATATATTTTATAATATCATAATTAATTTATTAAT
1 TATTT-TATTTATATAAATTTTAAAATATCATAATTAATTTATTAAT
* * *
79271 CA-TTTATATTATATAAATTTTAAAAT-TTAT-ATTTATATT-TTAAT
1 TATTTTAT-TTATATAAATTTTAAAATATCATAATTAAT-TTATTAAT
79315 TATTTTATTTATAT
1 TATTTTATTTATAT
79329 TATATTTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
44 17 0.35
45 13 0.27
46 18 0.37
47 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (46 bp):
TATTTTATTTATATAAATTTTAAAATATCATAATTAATTTATTAAT
Found at i:79413 original size:2 final size:2
Alignment explanation
Indices: 79402--79432 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
79392 TGGATATGCA
79402 AT AT -T 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
79433 TAACGAGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:84244 original size:35 final size:36
Alignment explanation
Indices: 84155--84264 Score: 100
Period size: 35 Copynumber: 3.0 Consensus size: 36
84145 AAATTAATTA
* **
84155 AAAAAATTAT-TTTATTATTTAAAATAATATAAAAAATT
1 AAAAAATTATATTTATTATAT-AAATAATAT-TTAAA-T
* *
84193 AAAAAAATTATATTTATATTTATAATTAA-ATTTAAAT
1 -AAAAAATTATATTTAT-TATATAAATAATATTTAAAT
*
84230 AAAAAA-TATTTTTATTATATAAATAATATTTAAAT
1 AAAAAATTATATTTATTATATAAATAATATTTAAAT
84265 TTATCCAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
34 9 0.15
35 16 0.27
36 6 0.10
37 1 0.02
38 3 0.05
39 12 0.20
40 10 0.17
41 3 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (36 bp):
AAAAAATTATATTTATTATATAAATAATATTTAAAT
Found at i:84910 original size:21 final size:22
Alignment explanation
Indices: 84864--84910 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 22
84854 AAAGTAATTT
84864 TTAATTAACTATAAATACAAAA
1 TTAATTAACTATAAATACAAAA
84886 -TAATT-ACTATAAATA-ATAAA
1 TTAATTAACTATAAATACA-AAA
84906 TTAAT
1 TTAAT
84911 CAAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 13 0.57
21 9 0.39
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
TTAATTAACTATAAATACAAAA
Found at i:86048 original size:13 final size:13
Alignment explanation
Indices: 86030--86055 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86020 AAATTTAATT
86030 CAATTAATTTATA
1 CAATTAATTTATA
86043 CAATTAATTTATA
1 CAATTAATTTATA
86056 AAAATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
CAATTAATTTATA
Found at i:91463 original size:4 final size:4
Alignment explanation
Indices: 91449--91486 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
91439 TCTTTTATCC
*
91449 TTCT CTCT TTCT TTC- -TCT TTCT TTCT TTCT TTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
91487 CTCTCTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 2 0.07
4 28 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTCT
Found at i:92359 original size:20 final size:20
Alignment explanation
Indices: 92331--92386 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
92321 CCATTCACAG
92331 CTTTTTTTCTTTATTTTTAT
1 CTTTTTTTCTTTATTTTTAT
92351 -TTCTTTTTCTTTATTTTTAT
1 CTT-TTTTTCTTTATTTTTAT
92371 CTTTTTTCTCTTTATT
1 CTTTTTT-TCTTTATT
92387 GCTTCACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.06
20 21 0.64
21 10 0.30
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (20 bp):
CTTTTTTTCTTTATTTTTAT
Found at i:93297 original size:20 final size:20
Alignment explanation
Indices: 93272--93318 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
93262 TGTTAAAGTA
*
93272 TTATATATTTAT-ATAAATT
1 TTATATATTAATAATAAATT
*
93291 TTGATATATTAATAATATATT
1 TT-ATATATTAATAATAAATT
93312 TTATATA
1 TTATATA
93319 AATTTAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 14 0.58
21 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTATATATTAATAATAAATT
Found at i:94288 original size:3 final size:3
Alignment explanation
Indices: 94280--94304 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
94270 CAATTAGCTT
94280 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
94305 CTTTTGATTA
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):
TTA
Found at i:94668 original size:2 final size:2
Alignment explanation
Indices: 94661--94694 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
94651 AATATAATGC
94661 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
94695 TTGTAGGTAC
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:95158 original size:19 final size:17
Alignment explanation
Indices: 95122--95160 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
95112 TCTAGAGGGG
*
95122 AAATAAAAAATTAGTTT
1 AAATAAAAAATTACTTT
95139 AAATAACAAAATTTACTTT
1 AAATAA-AAAA-TTACTTT
95158 AAA
1 AAA
95161 AAATTAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (17 bp):
AAATAAAAAATTACTTT
Found at i:95212 original size:2 final size:2
Alignment explanation
Indices: 95199--95234 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
95189 GACTAGCTAA
*
95199 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95235 TTATTTATTT
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:96142 original size:21 final size:22
Alignment explanation
Indices: 96103--96160 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
96093 AATTAGAACA
* *
96103 ATTTAAAAGTTTAATTTAAAATT
1 ATTTAAAA-CTTAAATTAAAATT
**
96126 ATTTAAAA-TTAAATTAATTTT
1 ATTTAAAACTTAAATTAAAATT
96147 ATTTTAAAACTTAA
1 A-TTTAAAACTTAA
96161 CAATTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.37
22 7 0.23
23 12 0.40
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTAAAACTTAAATTAAAATT
Found at i:96439 original size:2 final size:2
Alignment explanation
Indices: 96432--96461 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
96422 ATGGGGACTC
96432 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
96462 TGCATCATTT
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:96821 original size:12 final size:12
Alignment explanation
Indices: 96804--96833 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
96794 AAAACCGATG
96804 TATAAATAAATA
1 TATAAATAAATA
96816 TATAAATAAATA
1 TATAAATAAATA
*
96828 AATAAA
1 TATAAA
96834 GAAGAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TATAAATAAATA
Found at i:97080 original size:18 final size:19
Alignment explanation
Indices: 97043--97081 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
97033 AATATAATAT
* *
97043 AATATAAATTATTATTTTA
1 AATATAAATTATCATATTA
97062 AATAT-AATTATCATATTA
1 AATATAAATTATCATATTA
97080 AA
1 AA
97082 GATATGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATAAATTATCATATTA
Found at i:97451 original size:27 final size:27
Alignment explanation
Indices: 97421--97472 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
97411 TAAAGTAATT
97421 TTATTTGT-TTAATCATTTTTATTTTAA
1 TTATTTGTATT-ATCATTTTTATTTTAA
* *
97448 TTATTTGTATTATCTTTTTTCTTTT
1 TTATTTGTATTATCATTTTTATTTT
97473 TTTTGACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (27 bp):
TTATTTGTATTATCATTTTTATTTTAA
Found at i:98087 original size:20 final size:21
Alignment explanation
Indices: 98048--98087 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
98038 TTGAATATCC
*
98048 TTGAAAATTAATTTTGTATTA
1 TTGAAAATTAATTTTATATTA
*
98069 TTGAATATT-ATTTTATATT
1 TTGAAAATTAATTTTATATT
98088 GGTGCAAAAA
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:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTGAAAATTAATTTTATATTA
Found at i:98332 original size:18 final size:18
Alignment explanation
Indices: 98311--98408 Score: 58
Period size: 18 Copynumber: 5.1 Consensus size: 18
98301 GAATATATAT
98311 AAATATATAAAATTATTAA
1 AAATATATAAAATTATT-A
98330 AATTTATATAATATAAATTATTA
1 AA---ATAT-ATA-AAATTATTA
*
98353 ATATAT-TAAAA-TA-TA
1 AAATATATAAAATTATTA
*
98368 ATAATATTTTAAATATTATTA
1 A-AATA-TATAAA-ATTATTA
* *
98389 TAATATATAAAATCATTA
1 AAATATATAAAATTATTA
98407 AA
1 AA
98409 TTCAATTGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 23
0.68 0.07 0.25
Matches are distributed among these distances:
15 3 0.05
16 5 0.08
17 4 0.06
18 13 0.21
19 8 0.13
20 10 0.16
21 2 0.03
22 4 0.06
23 5 0.08
24 8 0.13
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATATAAAATTATTA
Found at i:98346 original size:25 final size:26
Alignment explanation
Indices: 98315--98395 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 26
98305 ATATATAAAT
98315 ATATAAAATTATTAAAAT-TTATATA
1 ATATAAAATTATTAAAATATTATATA
*
98340 ATAT-AAATTATTAATATATTA-A-A
1 ATATAAAATTATTAAAATATTATATA
*
98363 ATATAATAA-TATTTTAAATATTATTATA
1 ATATAA-AATTA-TTAAAATATTA-TATA
98391 ATATA
1 ATATA
98396 TAAAATCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 5 0.11
24 16 0.35
25 18 0.39
27 1 0.02
28 6 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATATAAAATTATTAAAATATTATATA
Found at i:98383 original size:40 final size:38
Alignment explanation
Indices: 98312--98401 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 38
98302 AATATATATA
*
98312 AATATATAAAATTATTAAAATTTATATAATATAAATTATT
1 AATATATAAAATTAATAAAATTTATATAATAT-AATTA-T
* *
98352 AATATATTAAAATATAATAATATTT-TA-AATATTATTAT
1 AATATA-TAAAAT-TAATAAAATTTATATAATATAATTAT
98390 AATATATAAAAT
1 AATATATAAAAT
98402 CATTAAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
37 6 0.13
38 7 0.16
39 4 0.09
40 11 0.24
41 8 0.18
42 9 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (38 bp):
AATATATAAAATTAATAAAATTTATATAATATAATTAT
Found at i:98739 original size:21 final size:24
Alignment explanation
Indices: 98715--98761 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 24
98705 ATAATAAAAA
98715 TAATTTT-AT-TTAATAT-AATTT
1 TAATTTTAATATTAATATAAATTT
98736 TAATTTTAAATATTAATATAAATTT
1 TAATTTT-AATATTAATATAAATTT
98761 T
1 T
98762 TTGTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.32
23 2 0.09
24 7 0.32
25 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TAATTTTAATATTAATATAAATTT
Found at i:99074 original size:3 final size:3
Alignment explanation
Indices: 99068--99093 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
99058 GTTGTTTTGC
99068 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
99094 TAAATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:99912 original size:20 final size:19
Alignment explanation
Indices: 99885--99951 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 19
99875 TATTTAAAAT
99885 ATTTT-ATAT-TTATATAA
1 ATTTTAATATATTATATAA
99902 ATTTTAATATATTA-AT--
1 ATTTTAATATATTATATAA
99918 A--TT-A-ATATTATATAA
1 ATTTTAATATATTATATAA
99933 ATTTTAATATATTTATATA
1 ATTTTAATATA-TTATATA
99952 TTTATCATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 17
0.70 0.00 0.30
Matches are distributed among these distances:
12 6 0.15
13 3 0.08
14 2 0.05
15 1 0.03
16 1 0.03
17 7 0.17
18 7 0.17
19 6 0.15
20 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTAATATATTATATAA
Found at i:99929 original size:31 final size:28
Alignment explanation
Indices: 99889--99965 Score: 109
Period size: 31 Copynumber: 2.6 Consensus size: 28
99879 TAAAATATTT
99889 TATATTTATATAAATTTTAATATATTAA
1 TATATTTATATAAATTTTAATATATTAA
*
99917 TATTAATATTATATAAATTTTAATATATTTA
1 TA-T-AT-TTATATAAATTTTAATATATTAA
99948 TATATTTATCATAAATTT
1 TATATTTAT-ATAAATTT
99966 ATATTTATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
28 6 0.14
29 11 0.25
30 3 0.07
31 24 0.55
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (28 bp):
TATATTTATATAAATTTTAATATATTAA
Found at i:99941 original size:17 final size:17
Alignment explanation
Indices: 99885--99942 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
99875 TATTTAAAAT
99885 ATTTT-ATATTTATATAA
1 ATTTTAATA-TTATATAA
99902 ATTTTAATA-TAT-T-A
1 ATTTTAATATTATATAA
*
99916 ATATTAATATTATATAA
1 ATTTTAATATTATATAA
99933 ATTTTAATAT
1 ATTTTAATAT
99943 ATTTATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 9 0.26
15 4 0.11
16 4 0.11
17 15 0.43
18 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAATATTATATAA
Found at i:99950 original size:25 final size:26
Alignment explanation
Indices: 99876--99950 Score: 73
Period size: 31 Copynumber: 2.7 Consensus size: 26
99866 TTATAATTTT
*
99876 ATTTAAAATAT-TTTATATTTATATAA
1 ATTTTAAATATATTTATA-TTATATAA
99902 ATTTTAATATATTAATATTAATATTATATAA
1 ATTTTAA-ATA-T-AT-TT-ATATTATATAA
99933 ATTTT-AATATATTTATAT
1 ATTTTAAATATATTTATAT
99951 ATTTATCATA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
25 4 0.10
26 8 0.19
27 5 0.12
28 2 0.05
29 3 0.07
30 2 0.05
31 15 0.36
32 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
ATTTTAAATATATTTATATTATATAA
Found at i:99955 original size:17 final size:17
Alignment explanation
Indices: 99889--99989 Score: 54
Period size: 17 Copynumber: 5.9 Consensus size: 17
99879 TAAAATATTT
99889 TATATTTATATAAATTTTAA
1 TATATTTATAT--A-TTTAA
99909 TATA-TTA-ATA-TTAA
1 TATATTTATATATTTAA
* *
99923 TAT-TATATAAATTTTAA
1 TATATTTATATA-TTTAA
99940 TATATTTATATATTT-A
1 TATATTTATATATTTAA
*
99956 TCATAAATT-TATATTT-A
1 T-AT-ATTTATATATTTAA
*
99973 TATTATTTATTTATTTA
1 TA-TATTTATATATTTA
99990 TTTTAATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 22
0.69 0.08 0.24
Matches are distributed among these distances:
14 9 0.14
15 2 0.03
16 7 0.11
17 28 0.44
18 11 0.17
19 3 0.05
20 4 0.06
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTTATATATTTAA
Found at i:99975 original size:31 final size:30
Alignment explanation
Indices: 99883--99986 Score: 96
Period size: 30 Copynumber: 3.5 Consensus size: 30
99873 TTTATTTAAA
99883 ATATTT-TATATTTATATAAATTTTAATATATT
1 ATATTTATATATTTATATAAA-TTT-ATAT-TT
*
99915 A-ATATTA-ATA-TTATATAAATTT-TA-AT
1 ATAT-TTATATATTTATATAAATTTATATTT
99941 ATATTTATATATTTATCATAAATTTATATTT
1 ATATTTATATATTTAT-ATAAATTTATATTT
*
99972 ATA-TTATTTATTTAT
1 ATATTTATATATTTAT
99987 TTATTTTAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
26 5 0.08
27 5 0.08
28 6 0.10
29 8 0.13
30 16 0.26
31 15 0.25
32 6 0.10
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (30 bp):
ATATTTATATATTTATATAAATTTATATTT
Found at i:100098 original size:30 final size:29
Alignment explanation
Indices: 100062--100119 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
100052 TTAAGACAAG
100062 GAAAAG-AAAAGAAAGAATTAAGTGAAAAAC
1 GAAAAGAAAAAGAAAGAA--AAGTGAAAAAC
100092 GAAAAGAAAAAGAAAGAAAAGTGAAAAA
1 GAAAAGAAAAAGAAAGAAAAGTGAAAAA
100120 GGAGGCAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 10 0.37
30 6 0.22
31 11 0.41
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.07
Consensus pattern (29 bp):
GAAAAGAAAAAGAAAGAAAAGTGAAAAAC
Done.