Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold95
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: 582947
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:200 original size:26 final size:27
Alignment explanation
Indices: 160--222 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
150 TTAGTGTAAA
* * *
160 TAATAAAAATAATTTATT-TATTTATT
1 TAATTAAAATAATTTATTCGATTAATT
*
186 TAATTAAAATGATTTATTCGATTAATT
1 TAATTAAAATAATTTATTCGATTAATT
213 TAATTTAAAA
1 TAA-TTAAAA
223 AATAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 16 0.52
27 9 0.29
28 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
TAATTAAAATAATTTATTCGATTAATT
Found at i:1053 original size:25 final size:25
Alignment explanation
Indices: 1008--1059 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
998 ATCAATAGTA
* *
1008 TAAATATAATTAAAATATAAATTAT
1 TAAATATAATCAAAATATAAATAAT
*
1033 TAAATAT-ATCAAAATTCTAAATAAT
1 TAAATATAATCAAAA-TATAAATAAT
1058 TA
1 TA
1060 TGATCCGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAATATAATCAAAATATAAATAAT
Found at i:2365 original size:24 final size:25
Alignment explanation
Indices: 2338--2400 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
2328 TTTAACTAAA
*
2338 TATATATTTTTATTAAT-TATTTAC
1 TATATATTTATATTAATATATTTAC
* *
2362 TATAT-TTAATATTTATATATTTAC
1 TATATATTTATATTAATATATTTAC
2386 T-TAATATTTATATTA
1 TAT-ATATTTATATTA
2401 TTTTTTAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 9 0.29
24 15 0.48
25 7 0.23
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TATATATTTATATTAATATATTTAC
Found at i:2373 original size:7 final size:8
Alignment explanation
Indices: 2338--2403 Score: 50
Period size: 7 Copynumber: 8.1 Consensus size: 8
2328 TTTAACTAAA
2338 TATATATT
1 TATATATT
2346 T-T-TATT
1 TATATATT
*
2352 AAT-TATT
1 TATATATT
2359 TACTATATT
1 TA-TATATT
2368 TA-ATATT
1 TATATATT
2375 TATATATT
1 TATATATT
2383 TACTTAATATT
1 TA--T-ATATT
2394 TATATTATT
1 TATA-TATT
2403 T
1 T
2404 TTTAATGCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
6 4 0.08
7 14 0.29
8 10 0.21
9 12 0.25
10 1 0.02
11 7 0.15
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATATT
Found at i:2408 original size:19 final size:19
Alignment explanation
Indices: 2364--2409 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
2354 TTATTTACTA
2364 TATTTAATATTTATATATT
1 TATTTAATATTTATATATT
*
2383 TACTTAATATTTATATTATT
1 TATTTAATATTTATA-TATT
2403 T-TTTAAT
1 TATTTAAT
2410 GCAACTTGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTAATATTTATATATT
Found at i:3403 original size:19 final size:20
Alignment explanation
Indices: 3360--3403 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
3350 ATTGGTATAC
3360 TTTTAATACTCAAATATTTG
1 TTTTAATACTCAAATATTTG
* * *
3380 ATTTAATA-TTAAATATTTT
1 TTTTAATACTCAAATATTTG
3399 TTTTA
1 TTTTA
3404 CTTTAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTAATACTCAAATATTTG
Found at i:3606 original size:8 final size:8
Alignment explanation
Indices: 3593--3618 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
3583 TTATTATTTA
3593 AAAATATT
1 AAAATATT
3601 AAAATATT
1 AAAATATT
3609 AAAATATT
1 AAAATATT
3617 AA
1 AA
3619 TTTATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATATT
Found at i:4029 original size:20 final size:21
Alignment explanation
Indices: 3991--4041 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
3981 AAATTATAAA
3991 AATATTAAATAATTTTATTTT
1 AATATTAAATAATTTTATTTT
4012 AATATT-AAT-ATTTATATTTT
1 AATATTAAATAATTT-TATTTT
*
4032 TATAATTAAA
1 AAT-ATTAAA
4042 ATTAAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 11 0.42
21 9 0.35
22 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATATTAAATAATTTTATTTT
Found at i:5579 original size:10 final size:9
Alignment explanation
Indices: 5547--5588 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
5537 GTTATATAAT
5547 ATTTA-TAA
1 ATTTATTAA
*
5555 TTTTATTAA
1 ATTTATTAA
5564 ATTTATTAA
1 ATTTATTAA
5573 ATATTATTAA
1 AT-TTATTAA
*
5583 ACTTAT
1 ATTTAT
5589 GTTCATCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 4 0.14
9 17 0.59
10 8 0.28
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTTATTAA
Found at i:6185 original size:22 final size:22
Alignment explanation
Indices: 6143--6185 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6133 TCACGTTTAA
* *
6143 AAATATATTAAATATTAAATAT
1 AAATATATTAAAAATAAAATAT
6165 AAATAT-TTAAAAATAATAATA
1 AAATATATTAAAAATAA-AATA
6186 ATGAGAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATATATTAAAAATAAAATAT
Found at i:10634 original size:55 final size:55
Alignment explanation
Indices: 10568--10678 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
10558 TTCCTTACAT
*
10568 AACTTATGAAATTAGTCGAGTTTTCATTTTAAATAAAATATTGATTTGAAGATAA
1 AACTTATGAAATTAGTCGAGTTTTCATTTTAAATAAAATATTGATTTAAAGATAA
10623 AACTTATGAAATTAGTCGAGTTTTCATTTTAAATAAAATATTGATTTAAAGATAA
1 AACTTATGAAATTAGTCGAGTTTTCATTTTAAATAAAATATTGATTTAAAGATAA
10678 A
1 A
10679 GAAAGATATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (55 bp):
AACTTATGAAATTAGTCGAGTTTTCATTTTAAATAAAATATTGATTTAAAGATAA
Found at i:12036 original size:13 final size:12
Alignment explanation
Indices: 11987--12037 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
11977 ACCTTCACTG
11987 TTTCAAATTGAA
1 TTTCAAATTGAA
*
11999 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
12014 TTTCAAATTGAA
1 TTTCAAATTGAA
12026 TTTCAAAATTGA
1 TTTC-AAATTGA
12038 CGGCACAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:16786 original size:13 final size:12
Alignment explanation
Indices: 16737--16787 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
16727 ACCTTCACTG
16737 TTTCAAATTGAA
1 TTTCAAATTGAA
*
16749 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
16764 TTTCAAATTGAA
1 TTTCAAATTGAA
16776 TTTCAAAATTGA
1 TTTC-AAATTGA
16788 CGGCACAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:18645 original size:140 final size:140
Alignment explanation
Indices: 18477--18862 Score: 476
Period size: 140 Copynumber: 2.7 Consensus size: 140
18467 AACCAAATAA
** * *
18477 AGTAAAATTCTTTTCTTGCTTGTTTTTTTCTCTTTTTTATTTATCCTTTCCTTTACATTTTAAAA
1 AGTAAAATTCTTTTCTTGCTCATGTTTTTCTCTTTTTTATTTATTCTTTCCTTTACATTTTAAAA
18542 TAAGCTTTATCTTATTCTTTTTTT-ACTA-T-TC-A-TCTTTTTCTACATAACTCGATACTTATG
66 TAAGCTTTATCTT-TTCTTTTTTTCACTAGTATCTACTCTTTTTCTACATAACTCGATACTTATG
18602 AAATTAGTTTTTTTT
130 AAATTA----TTTTT
*
18617 AGTAAAATTCTTTTCTTGCTCATGTTTTTCTCTTTTTTATTTATTCTTTCCTTTACATTATAAAA
1 AGTAAAATTCTTTTCTTGCTCATGTTTTTCTCTTTTTTATTTATTCTTTCCTTTACATTTTAAAA
* *
18682 TATGCTTTTTCTTCTTCTTTTTTTCACTAATAGGTGATCTATCCGTCTTTTTCTACATAACTCGA
66 TAAGCTTTATCTT-TTCTTTTTTTCAC---TA-GT-ATCTA--C-TCTTTTTCTACATAACTCGA
18747 TACTTATGAAATTATTTTT
122 TACTTATGAAATTATTTTT
* *
18766 AGTAAAATTCTTTTCTTGCTCATGTTTTTTTTCTCTTTTTTAGTTATTCTTTCTTTTACATTTTA
1 AGTAAAATTCTTTTCTTGCTCATG---TTTTTCTCTTTTTTATTTATTCTTTCCTTTACATTTTA
* *
18831 AAATTAGTTTTATCTTTATCTTTTTTTCACTA
63 AAATAAGCTTTATCTTT-TCTTTTTTTCACTA
18863 CTAGGTGATA
Statistics
Matches: 214, Mismatches: 15, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
140 81 0.38
141 2 0.01
144 2 0.01
146 1 0.00
148 2 0.01
149 32 0.15
151 1 0.00
152 59 0.28
153 34 0.16
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.58
Consensus pattern (140 bp):
AGTAAAATTCTTTTCTTGCTCATGTTTTTCTCTTTTTTATTTATTCTTTCCTTTACATTTTAAAA
TAAGCTTTATCTTTTCTTTTTTTCACTAGTATCTACTCTTTTTCTACATAACTCGATACTTATGA
AATTATTTTT
Found at i:18788 original size:149 final size:151
Alignment explanation
Indices: 18572--18910 Score: 472
Period size: 152 Copynumber: 2.2 Consensus size: 151
18562 TTTTACTATT
18572 CATCTTTTTCTACATAACTCGATACTTATGAAATTAGTTTTTTTTAGTAAAATTCTTTTCTTGCT
1 CATCTTTTTCTACATAACTCGATACTTATGAAATTA---TTTTTTAGTAAAATTCTTTTCTTGCT
*
18637 CATG-TTTTTCTCTTTTTTATTTATTCTTTCCTTTACATTATAAAA-TATGCTTTT-TCTTCT-T
63 CATGTTTTTTCTCTTTTTTAGTTATTCTTTCCTTTACATTATAAAATTA-G-TTTTATCTT-TAT
*
18698 CTTTTTTTCACTAATAGGTGATCTATC
125 CTTTTTTTCACTAATAGGTGATATATC
*
18725 CGTCTTTTTCTACATAACTCGATACTTATGAAATTA-TTTTTAGTAAAATTCTTTTCTTGCTCAT
1 CATCTTTTTCTACATAACTCGATACTTATGAAATTATTTTTTAGTAAAATTCTTTTCTTGCTCAT
* *
18789 GTTTTTTTTCTCTTTTTTAGTTATTCTTTCTTTTACATTTTAAAATTAGTTTTATCTTTATCTTT
66 G--TTTTTTCTCTTTTTTAGTTATTCTTTCCTTTACATTATAAAATTAGTTTTATCTTTATCTTT
*
18854 TTTTCACTACTAGGTGATATATC
129 TTTTCACTAATAGGTGATATATC
* * * * *
18877 CAACTTTTTCTATATAATTAGATACTTATAAAAT
1 CATCTTTTTCTACATAACTCGATACTTATGAAAT
18911 CAATCATTTT
Statistics
Matches: 168, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
149 29 0.17
151 5 0.03
152 97 0.58
153 37 0.22
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.54
Consensus pattern (151 bp):
CATCTTTTTCTACATAACTCGATACTTATGAAATTATTTTTTAGTAAAATTCTTTTCTTGCTCAT
GTTTTTTCTCTTTTTTAGTTATTCTTTCCTTTACATTATAAAATTAGTTTTATCTTTATCTTTTT
TTCACTAATAGGTGATATATC
Found at i:21077 original size:23 final size:23
Alignment explanation
Indices: 21034--21077 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
21024 TTTAAAGTTA
* *
21034 TTTTATTTTAAGGTATGATTTAT
1 TTTTATTTTAAGATATAATTTAT
21057 TTTTATTTATAAGAT-TAATTT
1 TTTTATTT-TAAGATATAATTT
21078 GATTAGAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (23 bp):
TTTTATTTTAAGATATAATTTAT
Found at i:21104 original size:27 final size:28
Alignment explanation
Indices: 21074--21136 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
21064 TATAAGATTA
* *
21074 ATTTGATTAGAG-TTATTATTTA-TTTTT
1 ATTTGATTAAAGTTTA-AATTTATTTTTT
*
21101 ATTTG-TGAAAGTTTAAATTTATTTTTT
1 ATTTGATTAAAGTTTAAATTTATTTTTT
21128 ATTTGATTA
1 ATTTGATTA
21137 TGTGAGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 9 0.31
27 18 0.62
28 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (28 bp):
ATTTGATTAAAGTTTAAATTTATTTTTT
Found at i:21129 original size:33 final size:31
Alignment explanation
Indices: 21086--21151 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 31
21076 TTGATTAGAG
*
21086 TTATTATTTATTTTTATT-TGTGAAAGTTTAAAT
1 TTATTATTTA-TTTGATTATGTG--AGTTTAAAT
*
21119 TTATTTTTTATTTGATTATGTGAGTTTAAAT
1 TTATTATTTATTTGATTATGTGAGTTTAAAT
21150 TT
1 TT
21152 TTAAGAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 11 0.37
32 6 0.20
33 13 0.43
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (31 bp):
TTATTATTTATTTGATTATGTGAGTTTAAAT
Found at i:21271 original size:75 final size:70
Alignment explanation
Indices: 21091--21273 Score: 192
Period size: 75 Copynumber: 2.5 Consensus size: 70
21081 TAGAGTTATT
* * * * *
21091 ATTTATTTTTATTTGT-GAAAGTTTAAATTTATTTTTTATTTGATTATGTGAGTTTAAATTTTTA
1 ATTTAATTTTATTTATAGAAA-TTTAAATTTATTTTTTATTTGATGATATGAGTTTAAATTTATA
21155 AGAATA
65 AGAATA
* *
21161 ATTT-ATTTTCA-CTATAGAAATTTAAATTTATTTTTTTATTTGGCATGATATTAGTTTAAATTT
1 ATTTAATTTT-ATTTATAGAAATTTAAATTTA-TTTTTTATTT-G-ATGATATGAGTTTAAATTT
**
21224 ATAATGGTGTA
62 ATAA--GAATA
21235 ATTTAATTTTATTTATAGAAATTTAAAATTTATTTTTTA
1 ATTTAATTTTATTTATAGAAATTT-AAATTTATTTTTTA
21274 ATTTAATTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
69 16 0.17
70 19 0.20
71 1 0.01
72 19 0.20
74 8 0.09
75 23 0.25
76 7 0.08
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (70 bp):
ATTTAATTTTATTTATAGAAATTTAAATTTATTTTTTATTTGATGATATGAGTTTAAATTTATAA
GAATA
Found at i:21358 original size:16 final size:16
Alignment explanation
Indices: 21339--21386 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
21329 GTGAAATTTG
21339 AAAAAGAAAGAAAGGA
1 AAAAAGAAAGAAAGGA
21355 AAAAAGAAAG-AAGGA
1 AAAAAGAAAGAAAGGA
*
21370 AACAATGAAAGGAAAGG
1 AA-AAAGAAA-GAAAGG
21387 GAGAAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 7 0.25
16 16 0.57
17 1 0.04
18 4 0.14
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAGAAAGGA
Found at i:21412 original size:22 final size:24
Alignment explanation
Indices: 21387--21436 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
21377 AAAGGAAAGG
21387 GAGAAGAAAA-A-GAAAAAAAAAA
1 GAGAAGAAAAGAGGAAAAAAAAAA
*
21409 GAGAA-AAAAGAGGAGAAAAAAAA
1 GAGAAGAAAAGAGGAAAAAAAAAA
21432 G-GAAG
1 GAGAAG
21437 GCTGGGCGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 9 0.38
23 11 0.46
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (24 bp):
GAGAAGAAAAGAGGAAAAAAAAAA
Found at i:21434 original size:12 final size:12
Alignment explanation
Indices: 21386--21434 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
21376 GAAAGGAAAG
*
21386 GGAGAAGAAAAA
1 GGAGAAAAAAAA
21398 -GA-AAAAAAAA
1 GGAGAAAAAAAA
* *
21408 AGAGAAAAAAGA
1 GGAGAAAAAAAA
21420 GGAGAAAAAAAA
1 GGAGAAAAAAAA
21432 GGA
1 GGA
21435 AGGCTGGGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 7 0.23
11 4 0.13
12 20 0.65
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GGAGAAAAAAAA
Found at i:23378 original size:2 final size:2
Alignment explanation
Indices: 23314--23361 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
23304 TTGTATCTCC
23314 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23356 TA TA TA
1 TA TA TA
23362 AAACTTATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30072 original size:15 final size:16
Alignment explanation
Indices: 30054--30086 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
30044 TTTTAAAAAT
30054 TTAAATA-TATCTATA
1 TTAAATAGTATCTATA
30069 TTAAATATGTATCTATA
1 TTAAATA-GTATCTATA
30086 T
1 T
30087 CAAACACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (16 bp):
TTAAATAGTATCTATA
Found at i:33840 original size:42 final size:42
Alignment explanation
Indices: 33791--33928 Score: 111
Period size: 42 Copynumber: 3.2 Consensus size: 42
33781 CGATATCTAT
*
33791 TTTGATCAAACTAATCGACCGAACTAACTAACATCTAGTGAG
1 TTTGATCAAACTAATTGACCGAACTAACTAACATCTAGTGAG
* * * * * * * *
33833 TTTGATC-AATTCAATTAACATCTAA-TAATCTTACTTGATA-TCTAT
1 TTTGATCAAACT-AATTGAC--CGAACTAA-CTAACAT-CTAGT-GAG
*
33878 TTTGATCAAACTAATTGACCGAACTAACCAACATCTAGTGAG
1 TTTGATCAAACTAATTGACCGAACTAACTAACATCTAGTGAG
33920 TTTGATCAA
1 TTTGATCAA
33929 TTCAATTATT
Statistics
Matches: 69, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
41 3 0.04
42 24 0.35
43 11 0.16
44 12 0.17
45 16 0.23
46 3 0.04
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (42 bp):
TTTGATCAAACTAATTGACCGAACTAACTAACATCTAGTGAG
Found at i:33873 original size:87 final size:87
Alignment explanation
Indices: 33768--33936 Score: 304
Period size: 87 Copynumber: 1.9 Consensus size: 87
33758 ACTCAATGTT
*
33768 TAATAATCTTATTCGATATCTATTTTGATCAAACTAATCGACCGAACTAACTAACATCTAGTGAG
1 TAATAATCTTATTCGATATCTATTTTGATCAAACTAATCGACCGAACTAACCAACATCTAGTGAG
33833 TTTGATCAATTCAATTAACATC
66 TTTGATCAATTCAATTAACATC
*
33855 TAATAATCTTACTT-GATATCTATTTTGATCAAACTAATTGACCGAACTAACCAACATCTAGTGA
1 TAATAATCTTA-TTCGATATCTATTTTGATCAAACTAATCGACCGAACTAACCAACATCTAGTGA
33919 GTTTGATCAATTCAATTA
65 GTTTGATCAATTCAATTA
33937 TTATTATTAA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
87 77 0.97
88 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (87 bp):
TAATAATCTTATTCGATATCTATTTTGATCAAACTAATCGACCGAACTAACCAACATCTAGTGAG
TTTGATCAATTCAATTAACATC
Found at i:34416 original size:17 final size:17
Alignment explanation
Indices: 34396--34433 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
34386 AATAAATACA
*
34396 TAAACTAATAAAATAAT
1 TAAACTAAAAAAATAAT
*
34413 TAAATTAAAAAAATAAT
1 TAAACTAAAAAAATAAT
34430 TAAA
1 TAAA
34434 ATAAGAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAACTAAAAAAATAAT
Found at i:34524 original size:13 final size:14
Alignment explanation
Indices: 34499--34528 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
34489 TAACATTAAC
34499 AAAATTTATTATAT
1 AAAATTTATTATAT
34513 AAAATTTA-TATAT
1 AAAATTTATTATAT
34526 AAA
1 AAA
34529 CTTGGATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATTTATTATAT
Found at i:34552 original size:27 final size:27
Alignment explanation
Indices: 34521--34575 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
34511 ATAAAATTTA
34521 TATATAAACTTGGATTATGTTCATGGG
1 TATATAAACTTGGATTATGTTCATGGG
34548 TATATAAACTTGGATTATGTTCATGGG
1 TATATAAACTTGGATTATGTTCATGGG
34575 T
1 T
34576 CAGATGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
TATATAAACTTGGATTATGTTCATGGG
Found at i:35078 original size:15 final size:15
Alignment explanation
Indices: 35058--35123 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
35048 TATATATATA
35058 TATATATATTATGTT
1 TATATATATTATGTT
* *
35073 TATATATTTTAT-TA
1 TATATATATTATGTT
*
35087 TAT-TAAAATTATGTT
1 TATAT-ATATTATGTT
* *
35102 TAATATATTTTATATT
1 T-ATATATATTATGTT
35118 TATATA
1 TATATA
35124 AATTTTAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
13 1 0.03
14 9 0.23
15 18 0.46
16 10 0.26
17 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TATATATATTATGTT
Found at i:35088 original size:25 final size:28
Alignment explanation
Indices: 35052--35116 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 28
35042 ACAATTTATA
35052 TATATATATATATATTATGTTTATATATTT
1 TATATATAT-TA-ATTATGTTTATATATTT
35082 TAT-TATATTAAAATTATGTTTAATATATTT
1 TATATATATT--AATTATGTTT-ATATATTT
35112 TATAT
1 TATAT
35117 TTATATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
28 1 0.03
29 14 0.45
30 15 0.48
31 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (28 bp):
TATATATATTAATTATGTTTATATATTT
Found at i:35520 original size:27 final size:23
Alignment explanation
Indices: 35453--35520 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 23
35443 TGGATTGTTG
*
35453 ATTAAATAATATTAAATTTTAAT
1 ATTAAATAAAATTAAATTTTAAT
*
35476 ATTAAATAAAA-AATAATTTTACTTAT
1 ATTAAATAAAATTA-AATTTTA---AT
35502 ATTAATATAAAATTAAATT
1 ATTAA-ATAAAATTAAATT
35521 AATTTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.03
23 17 0.47
26 7 0.19
27 10 0.28
28 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTAAATAAAATTAAATTTTAAT
Found at i:36449 original size:22 final size:22
Alignment explanation
Indices: 36407--36451 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
36397 TAATTTATTA
*
36407 TATTTTTAAATATTTTTAAATT
1 TATTTTTAAATATTTTAAAATT
*
36429 TATTTATTTAATA-TTTAAAATT
1 TATTT-TTAAATATTTTAAAATT
36451 T
1 T
36452 TTGAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTAAATATTTTAAAATT
Found at i:36459 original size:15 final size:14
Alignment explanation
Indices: 36441--36484 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
36431 TTTATTTAAT
*
36441 ATTTAAAATTTTTGA
1 ATTTAAAATTTAT-A
36456 ATTTTAAAATTTATA
1 A-TTTAAAATTTATA
*
36471 ATTTTAAATTTATA
1 ATTTAAAATTTATA
36485 TTTTCATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
ATTTAAAATTTATA
Found at i:38225 original size:25 final size:26
Alignment explanation
Indices: 38192--38252 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 26
38182 TAATTATGTC
* *
38192 ATAATTATTAAAAAGTATAAATA-TA
1 ATAAATATTAAAAAGTATAAATACAA
** *
38217 ATAAATATT-ATTATTATAAATACAA
1 ATAAATATTAAAAAGTATAAATACAA
38242 ATAAATATTAA
1 ATAAATATTAA
38253 TAATAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 10 0.34
25 18 0.62
26 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
ATAAATATTAAAAAGTATAAATACAA
Found at i:39607 original size:2 final size:2
Alignment explanation
Indices: 39602--39642 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
39592 TTCAAGTGTG
*
39602 TA TA TA CA 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
39643 GTTTTGAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:40849 original size:4 final size:4
Alignment explanation
Indices: 40842--40882 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
40832 TCTTGGTGTG
40842 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
40883 CTATTGGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:41461 original size:3 final size:3
Alignment explanation
Indices: 41453--41491 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
41443 ATGTAAACAA
41453 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
41492 TGGCGAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:42346 original size:31 final size:27
Alignment explanation
Indices: 42311--42381 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 27
42301 TTAAGTTAGA
42311 TTAATTAAAAATT-AATACTAAATAAGTAAAT
1 TTAA-TAAAAATTAAATA-T-AATAAGT--AT
42342 TTAATAAATATATTAAATATAATAAGTAT
1 TTAATAAA-A-ATTAAATATAATAAGTAT
42371 TTAATAAAAAT
1 TTAATAAAAAT
42382 ATATTTAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
27 2 0.05
28 1 0.03
29 10 0.27
30 4 0.11
31 12 0.32
32 4 0.11
33 4 0.11
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (27 bp):
TTAATAAAAATTAAATATAATAAGTAT
Found at i:42697 original size:18 final size:18
Alignment explanation
Indices: 42674--42736 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 18
42664 GCAACCACGC
42674 ATTTATATTAGATTTATA
1 ATTTATATTAGATTTATA
* * *
42692 ATTTATATATTGATATAAA
1 ATTTATAT-TAGATTTATA
* *
42711 ATTTA-A-TATATTAATA
1 ATTTATATTAGATTTATA
42727 ATTTATATTA
1 ATTTATATTA
42737 TATAAATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
16 10 0.29
17 1 0.03
18 11 0.32
19 12 0.35
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (18 bp):
ATTTATATTAGATTTATA
Found at i:42702 original size:20 final size:21
Alignment explanation
Indices: 42677--42723 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
42667 ACCACGCATT
* *
42677 TATATTAGATTTATAATTT-A
1 TATATTAGATATAAAATTTAA
42697 TATATT-GATATAAAATTTAA
1 TATATTAGATATAAAATTTAA
42717 TATATTA
1 TATATTA
42724 ATAATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
TATATTAGATATAAAATTTAA
Found at i:42731 original size:16 final size:15
Alignment explanation
Indices: 42707--42754 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
42697 TATATTGATA
42707 TAAAATTTAATATAT
1 TAAAATTTAATATAT
42722 TAATAATTT-ATATTAT
1 TAA-AATTTAATA-TAT
*
42738 ATAAATTTTAATATAT
1 -TAAAATTTAATATAT
42754 T
1 T
42755 TATATATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 7 0.25
16 15 0.54
17 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAAATTTAATATAT
Found at i:42738 original size:18 final size:17
Alignment explanation
Indices: 42674--42739 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 17
42664 GCAACCACGC
* *
42674 ATTTATATTAGATTTATA
1 ATTTATA-TATATTAATA
42692 ATTTATATATTGATATAA-A
1 ATTTATATA-T-AT-TAATA
42711 ATTTA-ATATATTAATA
1 ATTTATATATATTAATA
42727 ATTTATATTATAT
1 ATTTATA-TATAT
42740 AAATTTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
15 3 0.08
16 8 0.20
17 4 0.10
18 15 0.38
19 8 0.20
20 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTATATATATTAATA
Found at i:42748 original size:32 final size:34
Alignment explanation
Indices: 42697--42763 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
42687 TTATAATTTA
42697 TATATTGATATAAAATTTAATATATTAATA-ATT
1 TATATTGATATAAAATTTAATATATTAATATATT
* *
42730 TATATT-ATATAAATTTTAATATATTTATATATT
1 TATATTGATATAAAATTTAATATATTAATATATT
42763 T
1 T
42764 TTATCGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (34 bp):
TATATTGATATAAAATTTAATATATTAATATATT
Found at i:42757 original size:20 final size:18
Alignment explanation
Indices: 42691--42760 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 18
42681 TTAGATTTAT
42691 AATTT-ATATATTGATATAA
1 AATTTAATATATT-ATAT-A
42710 AATTTAATATATTA-AT-
1 AATTTAATATATTATATA
42726 AA-TT--TATATTATATA
1 AATTTAATATATTATATA
42741 AATTTTAATATATTTATATA
1 AA-TTTAATATA-TTATATA
42761 TTTTTATCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 7 0.16
14 2 0.05
15 4 0.09
16 2 0.05
17 2 0.05
18 2 0.05
19 10 0.23
20 14 0.33
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (18 bp):
AATTTAATATATTATATA
Found at i:42758 original size:18 final size:16
Alignment explanation
Indices: 42685--42763 Score: 56
Period size: 17 Copynumber: 4.8 Consensus size: 16
42675 TTTATATTAG
42685 ATTTAT-AATTTATAT
1 ATTTATAAATTTATAT
42700 ATTGATATAAAATTTAATAT
1 ATT--TAT-AAATTT-ATAT
*
42720 ATTAAT-AATTTATAT
1 ATTTATAAATTTATAT
*
42735 -TATATAAATTTTAATAT
1 ATTTATAAA-TTT-ATAT
*
42752 ATTTATATATTT
1 ATTTATAAATTT
42764 TTATCGTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
14 3 0.06
15 9 0.18
16 8 0.16
17 10 0.20
18 8 0.16
19 5 0.10
20 7 0.14
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (16 bp):
ATTTATAAATTTATAT
Found at i:42765 original size:19 final size:19
Alignment explanation
Indices: 42711--42779 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
42701 TTGATATAAA
** *
42711 ATTTAATATATTAATAATTT
1 ATTT-ATATATTTTTAATAT
*
42731 ATATTATATAAATTTTAATAT
1 AT-TTATAT-ATTTTTAATAT
*
42752 ATTTATATATTTTT-ATCGT
1 ATTTATATATTTTTAAT-AT
42771 ATTTATATA
1 ATTTATATA
42780 ATTATTTAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
18 2 0.05
19 15 0.38
20 12 0.30
21 11 0.28
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (19 bp):
ATTTATATATTTTTAATAT
Found at i:44097 original size:24 final size:25
Alignment explanation
Indices: 44052--44102 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
44042 TCATTAATTT
* * *
44052 AATTTTCATAATTAGAATTTAA-AA
1 AATTTTAAAAATTAGAACTTAATAA
*
44076 AATTTTAAAAATTATAACTTAATAA
1 AATTTTAAAAATTAGAACTTAATAA
44101 AA
1 AA
44103 ATAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
AATTTTAAAAATTAGAACTTAATAA
Found at i:44117 original size:17 final size:17
Alignment explanation
Indices: 44097--44130 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44087 TTATAACTTA
44097 ATAAAAATAAATTTATT
1 ATAAAAATAAATTTATT
44114 ATAAAAATAAATTTATT
1 ATAAAAATAAATTTATT
44131 TTTTAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAAAATAAATTTATT
Found at i:44284 original size:15 final size:17
Alignment explanation
Indices: 44259--44299 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
44249 CGTGTTTTAA
*
44259 TTATTTTTTAAGTTA-T
1 TTATATTTTAAGTTACT
*
44275 TT-TATTTTAATTTACT
1 TTATATTTTAAGTTACT
44291 TTATATTTT
1 TTATATTTT
44300 GCATGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 10 0.48
16 5 0.24
17 6 0.29
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATATTTTAAGTTACT
Found at i:45811 original size:28 final size:29
Alignment explanation
Indices: 45780--45885 Score: 87
Period size: 28 Copynumber: 3.7 Consensus size: 29
45770 TGTATATCAT
45780 TATTATATATTT-TATCATATTAAAATTA
1 TATTATATATTTATATCATATTAAAATTA
* * *
45808 TATTTTATATTTATAT-AAATTTAAATTAA
1 TATTATATATTTATATCATATTAAAATT-A
* * *
45837 TAATT-TATATTT-TATAAATTTTAACA-TA
1 T-ATTATATATTTATAT-CATATTAAAATTA
45865 TATATATATATTTATATCATA
1 TAT-TATATATTTATATCATA
45886 ACATATTTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
27 2 0.03
28 26 0.43
29 22 0.36
30 11 0.18
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
TATTATATATTTATATCATATTAAAATTA
Found at i:45843 original size:29 final size:27
Alignment explanation
Indices: 45785--45857 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
45775 ATCATTATTA
* * *
45785 TATATTTTATCATATTAAAATTATATTT
1 TATATTTTAT-AAATTTAAATTATAATT
45813 TATATTTATATAAATTTAAATTAATAATT
1 TATATTT-TATAAATTTAAATT-ATAATT
45842 TATATTTTATAAATTT
1 TATATTTTATAAATTT
45858 TAACATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 25 0.62
29 15 0.38
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (27 bp):
TATATTTTATAAATTTAAATTATAATT
Found at i:45859 original size:29 final size:28
Alignment explanation
Indices: 45785--45877 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 28
45775 ATCATTATTA
* * *
45785 TATATTTTAT-CATATTAAAATTATATTT
1 TATATTTTATAAAT-TTTAAATTATAATT
45813 TATATTTATATAAA-TTTAAATTAATAATT
1 TATATTT-TATAAATTTTAAATT-ATAATT
*
45842 TATATTTTATAAATTTTAACA-TATATATA
1 TATATTTTATAAATTTTAA-ATTATA-ATT
45871 TATATTT
1 TATATTT
45878 ATATCATAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
28 23 0.42
29 30 0.55
30 2 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
TATATTTTATAAATTTTAAATTATAATT
Found at i:46151 original size:13 final size:13
Alignment explanation
Indices: 46135--46165 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
46125 AATTAATTTA
46135 ATTGGTAGGATTG
1 ATTGGTAGGATTG
46148 ATTGGTAGGATTG
1 ATTGGTAGGATTG
46161 ATTGG
1 ATTGG
46166 ATTGTTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.39
Consensus pattern (13 bp):
ATTGGTAGGATTG
Found at i:46905 original size:33 final size:33
Alignment explanation
Indices: 46863--46929 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
46853 CTTTAAGTGC
46863 ATTGCATGTAGGGATCCATCTAATTTGAAGAAG
1 ATTGCATGTAGGGATCCATCTAATTTGAAGAAG
46896 ATTGCATGTAGGGATCCATCTAATTTGAAGAAG
1 ATTGCATGTAGGGATCCATCTAATTTGAAGAAG
46929 A
1 A
46930 AAATATCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (33 bp):
ATTGCATGTAGGGATCCATCTAATTTGAAGAAG
Found at i:47198 original size:14 final size:16
Alignment explanation
Indices: 47179--47215 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
47169 AAAAAATAAA
47179 ATATTA-TT-ATTTTT
1 ATATTATTTAATTTTT
47193 ATATTATTTTAATTTTT
1 ATATTA-TTTAATTTTT
47210 ATATTA
1 ATATTA
47216 GTTTTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
16 2 0.10
17 12 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATATTATTTAATTTTT
Found at i:47207 original size:17 final size:18
Alignment explanation
Indices: 47187--47221 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
47177 AAATATTATT
47187 ATTTTTATATTA-TTTTA
1 ATTTTTATATTAGTTTTA
47204 ATTTTTATATTAGTTTTA
1 ATTTTTATATTAGTTTTA
47222 TATTGATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTTTATATTAGTTTTA
Found at i:47491 original size:27 final size:27
Alignment explanation
Indices: 47435--47491 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
47425 AATTAATAAT
**
47435 AATTTATTATATTTTTAAATATTTTCA
1 AATTTATTATATTTTTAAATATTTAAA
*
47462 AATTTATT-TATTTATTTAATATTTAAA
1 AATTTATTATATTT-TTAAATATTTAAA
47489 AAT
1 AAT
47492 ATTAAATCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
AATTTATTATATTTTTAAATATTTAAA
Found at i:47832 original size:14 final size:14
Alignment explanation
Indices: 47809--47842 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
47799 TAATTATAAG
47809 AATA-TAAAAATATT
1 AATATTAAAAAT-TT
47823 AATATTAAAAATTT
1 AATATTAAAAATTT
47837 AATATT
1 AATATT
47843 TTAATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATTAAAAATTT
Found at i:51336 original size:17 final size:17
Alignment explanation
Indices: 51314--51347 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51304 AAAAATAAAT
*
51314 ATATTTATATCGAACAC
1 ATATTTATATCCAACAC
*
51331 ATATTTGTATCCAACAC
1 ATATTTATATCCAACAC
51348 TAAATTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (17 bp):
ATATTTATATCCAACAC
Found at i:53265 original size:21 final size:20
Alignment explanation
Indices: 53227--53268 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
53217 ATAAATATTT
*
53227 TATTTAAATTTATTTATAAAA
1 TATTTAAATTTA-ATATAAAA
53248 TATTTAAATATTAATATAAAA
1 TATTTAAAT-TTAATATAAAA
53269 ATTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTTAAATTTAATATAAAA
Found at i:53275 original size:25 final size:25
Alignment explanation
Indices: 53210--53283 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 25
53200 AATTATTATT
* *
53210 TATTAATATAAATATTTTATTTAAA
1 TATTAATATAAAAATTATATTTAAA
* *
53235 T-TT-ATTTATAAA--ATATTTAAA
1 TATTAATATAAAAATTATATTTAAA
*
53256 TATTAATATAAAAATTATATTTTAA
1 TATTAATATAAAAATTATATTTAAA
53281 TAT
1 TAT
53284 ATTTTTAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
21 9 0.24
22 2 0.05
23 13 0.34
24 2 0.05
25 12 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTAATATAAAAATTATATTTAAA
Found at i:54524 original size:3 final size:3
Alignment explanation
Indices: 54518--54546 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
54508 AGTTTATTAT
54518 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
54547 TGGCCAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:55024 original size:17 final size:16
Alignment explanation
Indices: 55008--55066 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
54998 AAATACTATA
55008 TTATTTAATTAAATAT
1 TTATTTAATTAAATAT
* *
55024 ATATTTTTATTAAATAT
1 TTA-TTTAATTAAATAT
**
55041 TTA-TTATATTTTATAT
1 TTATTTA-ATTAAATAT
55057 TTATTTAATT
1 TTATTTAATT
55067 TTAAATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 2 0.06
16 15 0.44
17 17 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTTAATTAAATAT
Found at i:55056 original size:16 final size:16
Alignment explanation
Indices: 55037--55080 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
55027 TTTTTATTAA
55037 ATATTTA-TTATATTTT
1 ATATTTATTTA-ATTTT
55053 ATATTTATTTAATTTT
1 ATATTTATTTAATTTT
*
55069 AAATTT-TTTAAT
1 ATATTTATTTAAT
55081 ATAATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 6 0.23
16 17 0.65
17 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATATTTATTTAATTTT
Found at i:55419 original size:17 final size:19
Alignment explanation
Indices: 55397--55443 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
55387 AAAAATTAGT
55397 ATTAAATAA-ATAAATTTA
1 ATTAAATAATATAAATTTA
*
55415 A-TAAA-AATATATATTTA
1 ATTAAATAATATAAATTTA
55432 ATTAAATAATAT
1 ATTAAATAATAT
55444 TATTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 13 0.52
18 5 0.20
19 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAAATAATATAAATTTA
Found at i:55438 original size:31 final size:31
Alignment explanation
Indices: 55381--55440 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
55371 TTAAGTTAGA
55381 TTAATTAAAAATTAGTATTAAATAAATAAAT
1 TTAATTAAAAATTAGTATTAAATAAATAAAT
*
55412 TTAA-TAAAAATATA-TATTTAATTAAATAA
1 TTAATTAAAAAT-TAGTA-TTAAATAAATAA
55441 TATTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (31 bp):
TTAATTAAAAATTAGTATTAAATAAATAAAT
Found at i:55766 original size:18 final size:18
Alignment explanation
Indices: 55743--55803 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
55733 TTATTTTATA
55743 TTATATTAGATTTATAAT
1 TTATATTAGATTTATAAT
* * *
55761 TTATATATTGATATAAAAT
1 TTATAT-TAGATTTATAAT
* *
55780 TTA-A-TAAATTAATAAT
1 TTATATTAGATTTATAAT
55796 TTATATTA
1 TTATATTA
55804 TATAAATTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
16 10 0.31
17 1 0.03
18 9 0.28
19 12 0.38
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATATTAGATTTATAAT
Found at i:55821 original size:19 final size:21
Alignment explanation
Indices: 55797--55848 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
55787 ATTAATAATT
55797 TATA-TTATATAAAT-TTTAA
1 TATATTTATATAAATCTTTAA
*
55816 TATATTTATATAATTCTTTAA
1 TATATTTATATAAATCTTTAA
55837 TATTATATTATA
1 TA-TAT-TTATA
55849 ATTTATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 4 0.14
20 9 0.32
21 7 0.25
22 3 0.11
23 5 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATTTATATAAATCTTTAA
Found at i:55849 original size:21 final size:21
Alignment explanation
Indices: 55797--55851 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
55787 ATTAATAATT
*
55797 TATAT-TATATAAAT-TTTAA
1 TATATATATATAATTCTTTAA
*
55816 TATATTTATATAATTCTTTAA
1 TATATATATATAATTCTTTAA
55837 TAT-TATATTATAATT
1 TATATATA-TATAATT
55852 TATATTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.16
20 11 0.35
21 15 0.48
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATATATATAATTCTTTAA
Found at i:56375 original size:18 final size:18
Alignment explanation
Indices: 56351--56397 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
56341 AAAGGAAATA
56351 GTTATTTTGTTATTTT-AT
1 GTTATTTT-TTATTTTCAT
*
56369 TTTA-TTTTTATTTTCAT
1 GTTATTTTTTATTTTCAT
56386 GTTATTTTTTAT
1 GTTATTTTTTAT
56398 ATATTTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 7 0.28
17 8 0.32
18 10 0.40
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.74
Consensus pattern (18 bp):
GTTATTTTTTATTTTCAT
Found at i:56392 original size:17 final size:16
Alignment explanation
Indices: 56360--56394 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
56350 AGTTATTTTG
*
56360 TTATTTTATTTTATTT
1 TTATTTTATGTTATTT
56376 TTATTTTCATGTTATTT
1 TTATTTT-ATGTTATTT
56393 TT
1 TT
56395 TATATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (16 bp):
TTATTTTATGTTATTT
Found at i:57926 original size:13 final size:13
Alignment explanation
Indices: 57905--57942 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
57895 TAAAATTTAA
57905 TTTAAAATTAATT
1 TTTAAAATTAATT
*
57918 TTTATAATTAATT
1 TTTAAAATTAATT
57931 TATTAAAATTAA
1 T-TTAAAATTAA
57943 AAAAATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAAAATTAATT
Found at i:58744 original size:23 final size:25
Alignment explanation
Indices: 58700--58782 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 25
58690 TAATACTACT
*
58700 TATTAATTAACATTATCGAAATTTA
1 TATTAATTAACAATATCGAAATTTA
*
58725 TATTAATTAA-AATAT-TAAATTTA
1 TATTAATTAACAATATCGAAATTTA
** * * *
58748 TATTGCTTAAGATTATC-AAAATT-
1 TATTAATTAACAATATCGAAATTTA
58771 TATTAATTAACA
1 TATTAATTAACA
58783 TTTATTGATA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
23 24 0.51
24 13 0.28
25 10 0.21
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (25 bp):
TATTAATTAACAATATCGAAATTTA
Found at i:59385 original size:19 final size:20
Alignment explanation
Indices: 59361--59410 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
59351 ATTATATTTA
*
59361 ATATATTTTATATTTAT-AT
1 ATATATTTTATATTAATAAT
*
59380 ATATA-TTTAAATTAATAAT
1 ATATATTTTATATTAATAAT
*
59399 TTATATTTTATA
1 ATATATTTTATA
59411 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 9 0.36
19 11 0.44
20 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATATTTTATATTAATAAT
Found at i:59410 original size:7 final size:6
Alignment explanation
Indices: 59352--59406 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
59342 AATGTTAAAA
* * * *
59352 TTATAT TTA-AT ATAT-T TTATAT TTATAT ATATAT TTAAAT TAATAAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTAT-AT
59399 TTATAT TT
1 TTATAT TT
59407 TATAAATTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
5 8 0.21
6 25 0.66
7 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (6 bp):
TTATAT
Found at i:59736 original size:24 final size:24
Alignment explanation
Indices: 59706--59751 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
59696 TGGATATATG
*
59706 ATTAAATAAAAATAAAAATTTAAT
1 ATTAAATAAAAAGAAAAATTTAAT
*
59730 ATTAAATAAAAAGATAAATTTA
1 ATTAAATAAAAAGAAAAATTTA
59752 TTTATGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTAAATAAAAAGAAAAATTTAAT
Found at i:60154 original size:21 final size:21
Alignment explanation
Indices: 60124--60185 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
60114 TTATTTAAAT
60124 TTAATTATAAAATATATAATTA
1 TTAATTATAAAATAT-TAATTA
*
60146 TTAA-TATAAAATATTATTTA
1 TTAATTATAAAATATTAATTA
* * *
60166 TTATTTATTATATATTAATT
1 TTAATTATAAAATATTAATT
60186 TTGCTCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 8 0.24
21 22 0.65
22 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAATTATAAAATATTAATTA
Found at i:61176 original size:5 final size:5
Alignment explanation
Indices: 61168--61266 Score: 55
Period size: 5 Copynumber: 19.8 Consensus size: 5
61158 AAAAAATAAA
* * **
61168 ATTAT ATTAT TTTA- ATT-T -TTAT ATTAAT TTTAT ATTGAT CGTATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATT-AT ATTAT ATT-AT ATTA-T
* * *
61213 AATTAT ATAAA ATTAT ATTAT ATTA- ATTAT ATTAA ATTAT ATTAT -TTAAT
1 A-TTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT-AT
61263 ATTA
1 ATTA
61267 GTTAATATTA
Statistics
Matches: 70, Mismatches: 14, Indels: 20
0.67 0.13 0.19
Matches are distributed among these distances:
3 2 0.03
4 9 0.13
5 45 0.64
6 12 0.17
7 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:61236 original size:24 final size:24
Alignment explanation
Indices: 61209--61262 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
61199 ATATTGATCG
61209 TATTAATTATATAAAATTATATTA
1 TATTAATTATATAAAATTATATTA
*
61233 TATTAATTATATTAAATTATATTA
1 TATTAATTATATAAAATTATATTA
61257 T-TTAAT
1 TATTAAT
61263 ATTAGTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTAATTATATAAAATTATATTA
Found at i:61828 original size:14 final size:14
Alignment explanation
Indices: 61798--61838 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
61788 ATTTAAATTT
*
61798 AATTTAAAATATAAA
1 AATTTAATAT-TAAA
61813 AATATTAATATTAAA
1 AAT-TTAATATTAAA
61828 AATTTAATATT
1 AATTTAATATT
61839 TTAATATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 10 0.42
16 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTAATATTAAA
Found at i:64852 original size:2 final size:2
Alignment explanation
Indices: 64845--64892 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
64835 TCTCAATCTA
* * *
64845 AT AT AT AT AT AC AT AG AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64887 AT AT AT
1 AT AT AT
64893 TACTGCATGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66663 original size:2 final size:2
Alignment explanation
Indices: 66658--66686 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
66648 TATATGTGTG
66658 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
66687 TGGCTTTGCT
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:67444 original size:14 final size:14
Alignment explanation
Indices: 67421--67460 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
67411 AATTGAGTTA
*
67421 AATTTGATAAATTT
1 AATTTAATAAATTT
*
67435 AATTTAATAAGTTT
1 AATTTAATAAATTT
67449 AATTTATATAAA
1 AATTTA-ATAAA
67461 ATGAATGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (14 bp):
AATTTAATAAATTT
Found at i:67506 original size:20 final size:21
Alignment explanation
Indices: 67483--67523 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
67473 TAAAAATAAT
*
67483 TTAATTTAAAT-TATTATTTA
1 TTAATATAAATATATTATTTA
67503 TTAATATAAATATATTATTTA
1 TTAATATAAATATATTATTTA
67524 AATTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAATATAAATATATTATTTA
Found at i:67556 original size:21 final size:23
Alignment explanation
Indices: 67492--67559 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 23
67482 TTTAATTTAA
**
67492 ATTATTATTTATTAATATAAATAT
1 ATTATTAAATATTAATATAAA-AT
*
67516 ATTATTTAAAT-TTATTTATAAAAT
1 ATTA-TTAAATATTA-ATATAAAAT
67540 A-TA-TAAATATTAATATAAAA
1 ATTATTAAATATTAATATAAAA
67560 ATAATATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
21 12 0.32
22 3 0.08
23 2 0.05
24 10 0.27
25 10 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATTAAATATTAATATAAAAT
Found at i:68742 original size:3 final size:3
Alignment explanation
Indices: 68734--68760 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
68724 TAAACAAAAC
68734 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
68761 TGGCGAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:69616 original size:14 final size:14
Alignment explanation
Indices: 69597--69626 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69587 TGAGATTTTT
69597 AATTAAATCAATTA
1 AATTAAATCAATTA
*
69611 AATTAAATTAATTA
1 AATTAAATCAATTA
69625 AA
1 AA
69627 AATTAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTAAATCAATTA
Found at i:69647 original size:21 final size:21
Alignment explanation
Indices: 69606--69647 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
69596 TAATTAAATC
*
69606 AATTAAATTAAATTAATTAAA
1 AATTAAATTAAATTAAGTAAA
69627 AATTAATATTAAA-TAAGTAAA
1 AATTAA-ATTAAATTAAGTAAA
69648 TTTAATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTAAATTAAATTAAGTAAA
Found at i:69667 original size:13 final size:13
Alignment explanation
Indices: 69632--69667 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
69622 TTAAAAATTA
69632 ATATTAAATAAGT
1 ATATTAAATAAGT
* *
69645 AAATTTAATAAGT
1 ATATTAAATAAGT
69658 ATATTAAATA
1 ATATTAAATA
69668 TAATAAGTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (13 bp):
ATATTAAATAAGT
Found at i:70009 original size:5 final size:5
Alignment explanation
Indices: 69999--70130 Score: 75
Period size: 5 Copynumber: 27.4 Consensus size: 5
69989 ATCGTGTAAG
* * *
69999 TATTA TTTTA TATTA TATTA TATTA TATT- TATAA TTTTA TA-TA T-TTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * * * * * *
70046 TA-TA AATTT TAATA TA-TA AATTA T-TTA TATTA TA-TA AATTT TAATA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
70092 TATT- TA-TA TATTTA TATTA TTATTTAA TATTA TATTA TA
1 TATTA TATTA TA-TTA TATTA -TA-TT-A TATTA TATTA TA
70131 ATTTATATCA
Statistics
Matches: 95, Mismatches: 19, Indels: 26
0.68 0.14 0.19
Matches are distributed among these distances:
3 1 0.01
4 26 0.27
5 55 0.58
6 8 0.08
7 4 0.04
8 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:70060 original size:18 final size:17
Alignment explanation
Indices: 70003--70092 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 17
69993 TGTAAGTATT
*
70003 ATTTT-ATATTATAT-T
1 ATTTTAATATTATATAA
*
70018 ATATT-ATATT-TAT-A
1 ATTTTAATATTATATAA
70032 ATTTTATATATTTATATAA
1 ATTTTA-ATA-TTATATAA
70051 ATTTT-A-A-TATATAA
1 ATTTTAATATTATATAA
*
70065 ATTATTTATATTATATAA
1 ATT-TTAATATTATATAA
70083 ATTTTAATAT
1 ATTTTAATAT
70093 ATTTATATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
14 17 0.27
15 11 0.18
16 5 0.08
17 10 0.16
18 13 0.21
19 6 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTAATATTATATAA
Found at i:70064 original size:32 final size:31
Alignment explanation
Indices: 70028--70147 Score: 108
Period size: 30 Copynumber: 4.0 Consensus size: 31
70018 ATATTATATT
70028 TATA-ATTTTATATATTTATATAAATTTTAA
1 TATATATTTTATATATTTATATAAATTTTAA
** *
70058 TATATAAATTATTTATATTATATAAATTTT-A
1 TATATATTTTATATAT-TTATATAAATTTTAA
* *
70089 -ATATA-TTTATATATTTATATTATTATTTAA
1 TATATATTTTATATATTTATATAAAT-TTTAA
* * *
70119 TAT-TATATTATA-ATTTATATCATTTTTAA
1 TATATATTTTATATATTTATATAAATTTTAA
70148 GTATTTTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 13
0.77 0.09 0.13
Matches are distributed among these distances:
28 8 0.11
29 15 0.20
30 23 0.31
31 16 0.21
32 13 0.17
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
TATATATTTTATATATTTATATAAATTTTAA
Found at i:70126 original size:18 final size:20
Alignment explanation
Indices: 70005--70143 Score: 84
Period size: 18 Copynumber: 7.2 Consensus size: 20
69995 TAAGTATTAT
70005 TTTATATTA-TATTATATTATA
1 TTTATATTATTATT-TA-TATA
70026 TTTATA--A-T-TTTATATA
1 TTTATATTATTATTTATATA
* *
70042 TTTATATAAAT-TTTA-ATA
1 TTTATATTATTATTTATATA
* *
70060 TATAAATTATTTATATTATATAAA
1 TTTATATTA-TTAT-TTATAT--A
*
70084 TTT-TAATA-TATTTATATA
1 TTTATATTATTATTTATATA
70102 TTTATATTATTATTTA-ATA
1 TTTATATTATTATTTATATA
*
70121 -TTATATTATAATTTATATCA
1 TTTATATTATTATTTATAT-A
70141 TTT
1 TTT
70144 TTAAGTATTT
Statistics
Matches: 95, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
16 10 0.11
17 2 0.02
18 30 0.32
19 17 0.18
20 14 0.15
21 14 0.15
22 2 0.02
23 3 0.03
24 3 0.03
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTATATTATTATTTATATA
Found at i:70127 original size:12 final size:12
Alignment explanation
Indices: 70098--70138 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
70088 AATATATTTA
70098 TATATTT-ATAT
1 TATATTTAATAT
70109 TATTATTTAATAT
1 TA-TATTTAATAT
70122 TATATTATAAT-T
1 TATATT-TAATAT
70134 TATAT
1 TATAT
70139 CATTTTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.07
12 15 0.56
13 10 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTTAATAT
Found at i:70663 original size:13 final size:13
Alignment explanation
Indices: 70619--70697 Score: 65
Period size: 13 Copynumber: 6.1 Consensus size: 13
70609 AGAAAAGGAG
70619 AGGAGAAAGGAAA
1 AGGAGAAAGGAAA
** *
70632 TTGAGTAA-GAAA
1 AGGAGAAAGGAAA
70644 AGTGAGAAAGGAAA
1 AG-GAGAAAGGAAA
*
70658 AGGAGAAAGGAGA
1 AGGAGAAAGGAAA
*
70671 GGGA-ATAAGAGAAA
1 AGGAGA-AAG-GAAA
70685 A-GAGAAAGGAAA
1 AGGAGAAAGGAAA
70697 A
1 A
70698 AAAAAATTGT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
12 10 0.20
13 31 0.61
14 10 0.20
ACGTcount: A:0.58, C:0.00, G:0.35, T:0.06
Consensus pattern (13 bp):
AGGAGAAAGGAAA
Found at i:70680 original size:39 final size:39
Alignment explanation
Indices: 70619--70697 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
70609 AGAAAAGGAG
** * *
70619 AGGAGAAAGGAAATTGAGTAAGA-AAAGTGAGAAAGGAAA
1 AGGAGAAAGGAAAGGGAATAAGAGAAA-AGAGAAAGGAAA
*
70658 AGGAGAAAGGAGAGGGAATAAGAGAAAAGAGAAAGGAAA
1 AGGAGAAAGGAAAGGGAATAAGAGAAAAGAGAAAGGAAA
70697 A
1 A
70698 AAAAAATTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 31 0.91
40 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.35, T:0.06
Consensus pattern (39 bp):
AGGAGAAAGGAAAGGGAATAAGAGAAAAGAGAAAGGAAA
Found at i:70822 original size:12 final size:12
Alignment explanation
Indices: 70805--70852 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
70795 AAAAATTATA
70805 TTTATATTATTT
1 TTTATATTATTT
*
70817 TTTATATTATAT
1 TTTATATTATTT
70829 TTTA-ATTATTT
1 TTTATATTATTT
70840 TTGTATATT-TTT
1 TT-TATATTATTT
70852 T
1 T
70853 CATATCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 8 0.25
12 21 0.66
13 3 0.09
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:70829 original size:23 final size:24
Alignment explanation
Indices: 70799--70848 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 24
70789 ATAAATAAAA
70799 ATTATA-TTTATATTATTTTT-TAT
1 ATTATATTTTA-ATTATTTTTGTAT
70822 ATTATATTTTAATTATTTTTGTAT
1 ATTATATTTTAATTATTTTTGTAT
70846 ATT
1 ATT
70849 TTTTCATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
ATTATATTTTAATTATTTTTGTAT
Found at i:71388 original size:24 final size:25
Alignment explanation
Indices: 71343--71393 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
71333 TCATAAATTT
* * *
71343 AATTTTCATAATTAAAATTTAA-AA
1 AATTTTAAAAATTAAAACTTAATAA
*
71367 AATTTTAAAAATTATAACTTAATAA
1 AATTTTAAAAATTAAAACTTAATAA
71392 AA
1 AA
71394 ATAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (25 bp):
AATTTTAAAAATTAAAACTTAATAA
Found at i:72283 original size:13 final size:13
Alignment explanation
Indices: 72262--72295 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
72252 TAAAATTTAA
72262 TTTAAAATTAATT
1 TTTAAAATTAATT
*
72275 TTTATAATTAATT
1 TTTAAAATTAATT
72288 TATTAAAA
1 T-TTAAAA
72296 ATTTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAAAATTAATT
Found at i:74799 original size:25 final size:25
Alignment explanation
Indices: 74743--74800 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
74733 ATTAATTAAC
* *
74743 AAAATTTTAAAATTATTTTTATATT
1 AAAATTTTAAAATTAATTTTATATA
* *
74768 AATATTTTATAATTAAATTTTA-ATA
1 AAAATTTTAAAATT-AATTTTATATA
74793 AAAATTTT
1 AAAATTTT
74801 TATTATTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AAAATTTTAAAATTAATTTTATATA
Found at i:74988 original size:10 final size:9
Alignment explanation
Indices: 74961--74994 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
74951 ACATGTTTGA
*
74961 TTTTAATTT
1 TTTTAATAT
74970 TTTTAATAT
1 TTTTAATAT
74979 TTTTATATAT
1 TTTTA-ATAT
74989 TTTTAA
1 TTTTAA
74995 GATCACACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTAATAT
Found at i:75286 original size:22 final size:23
Alignment explanation
Indices: 75242--75347 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 23
75232 ATTTAAGACC
* * *
75242 TAATAAAAATATATATATAAAAAA
1 TAATTAAAATAT-TAAATAAAATA
75266 TAATTAAAATATTAAATAAAATA
1 TAATTAAAATATTAAATAAAATA
* *
75289 TAACATAAAATA--ATATAAAATA
1 TAA-TTAAAATATTAAATAAAATA
75311 TAATATAAAA-A-T-AATATAAATA
1 TAAT-TAAAATATTAAATA-AAATA
*
75333 T-ATTAACATATTAAA
1 TAATTAAAATATTAAA
75348 ATTTATAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.06
21 7 0.10
22 24 0.36
23 14 0.21
24 18 0.27
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TAATTAAAATATTAAATAAAATA
Found at i:75306 original size:10 final size:11
Alignment explanation
Indices: 75242--75330 Score: 78
Period size: 12 Copynumber: 7.8 Consensus size: 11
75232 ATTTAAGACC
75242 TAATA-AAAATA
1 TAATATAAAA-A
75253 TATATATAAAAAA
1 TA-ATAT-AAAAA
75266 TAAT-TAAAATA
1 TAATATAAAA-A
75277 TTAA-ATAAAATA
1 -TAATATAAAA-A
*
75289 TAACAT-AAAA
1 TAATATAAAAA
75299 TAATATAAAATA
1 TAATATAAAA-A
75311 TAATATAAAAA
1 TAATATAAAAA
75322 TAATATAAA
1 TAATATAAA
75331 TATATTAACA
Statistics
Matches: 68, Mismatches: 1, Indels: 18
0.78 0.01 0.21
Matches are distributed among these distances:
10 10 0.15
11 23 0.34
12 28 0.41
13 3 0.04
14 4 0.06
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATATAAAAA
Found at i:75330 original size:33 final size:33
Alignment explanation
Indices: 75262--75347 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
75252 ATATATATAA
75262 AAAATAATTAAAATATTAAATAAAATATAACAT
1 AAAATAATTAAAATATTAAATAAAATATAACAT
*
75295 AAAATAATATAAAATA-TAATATAAAA-ATAATAT
1 AAAATAAT-TAAAATATTAA-ATAAAATATAACAT
*
75328 -AAATATATTAACATATTAAA
1 AAAATA-ATTAAAATATTAAA
75348 ATTTATAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
32 12 0.26
33 22 0.47
34 13 0.28
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.31
Consensus pattern (33 bp):
AAAATAATTAAAATATTAAATAAAATATAACAT
Found at i:77150 original size:18 final size:17
Alignment explanation
Indices: 77118--77153 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
77108 TTATTTTTCA
77118 TATTTTAAAAATTATTT
1 TATTTTAAAAATTATTT
*
77135 TATTTATAAAATTTATTT
1 TATTT-TAAAAATTATTT
77153 T
1 T
77154 TAATTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTTAAAAATTATTT
Found at i:79017 original size:20 final size:21
Alignment explanation
Indices: 78975--79017 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
78965 TTAAAAATAT
*
78975 TATTTTTATATTAATGATTAA
1 TATTTTTATATTAATGATAAA
78996 TATTTTTA-ATTAAAT-ATAAA
1 TATTTTTATATT-AATGATAAA
79016 TA
1 TA
79018 AAAATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTTTTATATTAATGATAAA
Found at i:79257 original size:22 final size:25
Alignment explanation
Indices: 79217--79262 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 25
79207 ATATTATTTA
79217 TTTAATATTATTATAAAAATAATAT
1 TTTAATATTATTATAAAAATAATAT
79242 TTTAATATT-TT-T-AAAATAATA
1 TTTAATATTATTATAAAAATAATA
79263 AAACGTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
23 1 0.05
24 2 0.10
25 9 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTAATATTATTATAAAAATAATAT
Found at i:79762 original size:19 final size:20
Alignment explanation
Indices: 79740--79778 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
79730 TATATTCATT
79740 TTATATT-TAAATATTTTTA
1 TTATATTATAAATATTTTTA
*
79759 TTATATTATAATTATTTTTA
1 TTATATTATAAATATTTTTA
79779 AAATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATATTATAAATATTTTTA
Found at i:79784 original size:20 final size:19
Alignment explanation
Indices: 79742--79786 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
79732 TATTCATTTT
**
79742 ATATTTAAATATTTTTATT
1 ATATTTAAATATTTTTAAA
*
79761 ATATTATAATTATTTTTAAA
1 ATATT-TAAATATTTTTAAA
79781 ATATTT
1 ATATTT
79787 TATATTCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATTTAAATATTTTTAAA
Found at i:79799 original size:30 final size:29
Alignment explanation
Indices: 79725--79799 Score: 68
Period size: 30 Copynumber: 2.6 Consensus size: 29
79715 AGATTCGATA
79725 ATTTATATATTCAT-T--TTATATTTAAAT
1 ATTT-TATATTCATATAATTATATTTAAAT
* *
79752 ATTTT-TATTATATTATAATTATTTTTAAAAT
1 ATTTTATATT-CA-TATAATTATATTT-AAAT
79783 ATTTTATATTCATATAA
1 ATTTTATATTCATATAA
79800 ATTTTAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
25 4 0.11
26 2 0.05
27 5 0.13
28 1 0.03
30 12 0.32
31 10 0.26
32 4 0.11
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
ATTTTATATTCATATAATTATATTTAAAT
Found at i:79843 original size:17 final size:17
Alignment explanation
Indices: 79794--79843 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
79784 TTTTATATTC
*
79794 ATAT-AAATTTTAATAT
1 ATATAAAATTTTAAAAT
*
79810 AT-TAACAA-TTTATAAT
1 ATATAA-AATTTTAAAAT
79826 ATATAAAATTTTAAAAT
1 ATATAAAATTTTAAAAT
79843 A
1 A
79844 ATTTTATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
15 1 0.04
16 13 0.48
17 13 0.48
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAAAATTTTAAAAT
Found at i:80447 original size:2 final size:2
Alignment explanation
Indices: 80440--80480 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
80430 TTCAACAACA
80440 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80481 ATCTACTTTT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:80633 original size:24 final size:24
Alignment explanation
Indices: 80598--80644 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
80588 CAAAAATACG
* * *
80598 ATATAAATATAATGTATTTAATAA
1 ATATAAAAATAATATAATTAATAA
80622 ATATAAAAATAATATAATTAATA
1 ATATAAAAATAATATAATTAATA
80645 TGATTAACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATAAAAATAATATAATTAATAA
Found at i:83443 original size:2 final size:2
Alignment explanation
Indices: 83436--83472 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
83426 TTTTGTGTCC
*
83436 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83473 GTGTATGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:83461 original size:17 final size:17
Alignment explanation
Indices: 83439--83472 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
83429 TGTGTCCATA
*
83439 TATATATATATATATAT
1 TATATATATACATATAT
83456 TATATATATACATATAT
1 TATATATATACATATAT
83473 GTGTATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATATATACATATAT
Found at i:85052 original size:2 final size:2
Alignment explanation
Indices: 85045--85074 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
85035 AATTCATAGA
85045 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
85075 CCCATAATCC
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:89208 original size:30 final size:30
Alignment explanation
Indices: 89172--89231 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
89162 CATTACAAAA
*
89172 CTCTATTTCAAAGATCTCGAATTTAAATTT
1 CTCTATTTCAAAGATCTCAAATTTAAATTT
* * *
89202 CTCTATTTTATAGATTTCAAATTTAAATTT
1 CTCTATTTCAAAGATCTCAAATTTAAATTT
89232 TACGAGACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.48
Consensus pattern (30 bp):
CTCTATTTCAAAGATCTCAAATTTAAATTT
Found at i:89984 original size:22 final size:23
Alignment explanation
Indices: 89959--90011 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
89949 AATATAATAA
89959 AATATTTAAAATATTTT-TAATT
1 AATATTTAAAATATTTTATAATT
* *
89981 AATATTT-ATATATTTTATTATT
1 AATATTTAAAATATTTTATAATT
90003 AA-ATTTAAA
1 AATATTTAAA
90012 TAAAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATATTTAAAATATTTTATAATT
Done.