Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold291
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: 742724
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 5
Found at i:255 original size:16 final size:17
Alignment explanation
Indices: 236--268 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
226 AAAATGCAGG
236 AAAACAAAA-AAAAAAA
1 AAAACAAAATAAAAAAA
252 AAAACAAAATAAAAAAA
1 AAAACAAAATAAAAAAA
269 GGAATTTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAACAAAATAAAAAAA
Found at i:1449 original size:24 final size:23
Alignment explanation
Indices: 1422--1469 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
1412 AAGATAACCA
1422 TATGCTGATAGCCTGATATCCGAC
1 TATGCTGATAGCCTG-TATCCGAC
1446 TATGCTGATAGCCTGTATCCGAC
1 TATGCTGATAGCCTGTATCCGAC
1469 T
1 T
1470 GCAACATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (23 bp):
TATGCTGATAGCCTGTATCCGAC
Found at i:7055 original size:146 final size:146
Alignment explanation
Indices: 6786--7084 Score: 526
Period size: 146 Copynumber: 2.0 Consensus size: 146
6776 TTCCATGCCA
*
6786 GAACGATTCCAAAGCTACCTCCTCCACTTCCTCGAATTGCCCAAAACAGATCTTCCCCCGTGGAC
1 GAACAATTCCAAAGCTACCTCCTCCACTTCCTCGAATTGCCCAAAACAGATCTTCCCCCGTGGAC
* *
6851 TTTCTGTCAAGAATTCTGACATTAACTTCGATTAATCGAGCATCGATTATGTCATCAACTGCAAG
66 TTTCTGTCAAGAATTCTGACATTAACTTCGATAAATCAAGCATCGATTATGTCATCAACTGCAAG
6916 ACCATAATTTCGGAAC
131 ACCATAATTTCGGAAC
* * *
6932 GAACAATTCCAAAGCTACCTCCTCCACTTCCTCGACTTGCCCAAAGCAGATCTTCTCCCGTGGAC
1 GAACAATTCCAAAGCTACCTCCTCCACTTCCTCGAATTGCCCAAAACAGATCTTCCCCCGTGGAC
*
6997 TTTCTGTCAAGAATTCTGACATTAACTTCGATAAATCAAGCATCGATTATGTTATCAACTGCAAG
66 TTTCTGTCAAGAATTCTGACATTAACTTCGATAAATCAAGCATCGATTATGTCATCAACTGCAAG
*
7062 ACCGTAATTTCGGAAC
131 ACCATAATTTCGGAAC
7078 GAACAAT
1 GAACAAT
7085 CCATAATCTC
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 145 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (146 bp):
GAACAATTCCAAAGCTACCTCCTCCACTTCCTCGAATTGCCCAAAACAGATCTTCCCCCGTGGAC
TTTCTGTCAAGAATTCTGACATTAACTTCGATAAATCAAGCATCGATTATGTCATCAACTGCAAG
ACCATAATTTCGGAAC
Found at i:8307 original size:2 final size:2
Alignment explanation
Indices: 8294--8329 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8284 TATTTGTAAC
*
8294 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8330 TCTAACATTT
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:10601 original size:34 final size:33
Alignment explanation
Indices: 10528--10602 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 33
10518 TATCATTTAT
*
10528 ATAATAAAAAATTTTATTTAATGTTAATTATAA
1 ATAATAAAAAATTTTATTTAATATTAATTATAA
* * *
10561 AT-ATAAATAAATATTTTTTTAATATT-ATTTTGA
1 ATAATAAA-AAAT-TTTATTTAATATTAATTATAA
10594 ATAATAAAA
1 ATAATAAAA
10603 TAAGCTCTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
32 5 0.14
33 14 0.40
34 16 0.46
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (33 bp):
ATAATAAAAAATTTTATTTAATATTAATTATAA
Found at i:10787 original size:22 final size:22
Alignment explanation
Indices: 10759--10830 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
10749 TTTAAAATAA
10759 AAATTACATAAACTAACTAAAT
1 AAATTACATAAACTAACTAAAT
*
10781 AAATTACATGAACTAACTAAAT
1 AAATTACATAAACTAACTAAAT
* * *
10803 AAATTATATAATCTAATTAAATT
1 AAATTACATAAACTAACTAAA-T
10826 AAATT
1 AAATT
10831 TCGAATTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 38 0.86
23 6 0.14
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.33
Consensus pattern (22 bp):
AAATTACATAAACTAACTAAAT
Found at i:14149 original size:26 final size:26
Alignment explanation
Indices: 14107--14156 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
14097 TGAATAATTT
* *
14107 AATTTTAATAAATTTTTTAAAATTAA
1 AATTTTAATAAAATTTTAAAAATTAA
14133 AATTTTAA-AATAATTTTAAAAATT
1 AATTTTAATAA-AATTTTAAAAATT
14157 TTTAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AATTTTAATAAAATTTTAAAAATTAA
Found at i:15037 original size:15 final size:15
Alignment explanation
Indices: 14996--15038 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
14986 ATTTTTATTT
14996 AAATTTAATT-ATAA
1 AAATTTAATTAATAA
15010 AAA-TTAATATAATAA
1 AAATTTAAT-TAATAA
*
15025 AAATTTTATTAATA
1 AAATTTAATTAATA
15039 TTTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 4 0.16
15 12 0.48
16 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATTTAATTAATAA
Found at i:15906 original size:16 final size:17
Alignment explanation
Indices: 15882--15914 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15872 ATAATATTTA
*
15882 ATTATAAGAT-TAAGAT
1 ATTAAAAGATATAAGAT
15898 ATTAAAAGATATAAGAT
1 ATTAAAAGATATAAGAT
15915 TAATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (17 bp):
ATTAAAAGATATAAGAT
Found at i:16675 original size:35 final size:36
Alignment explanation
Indices: 16635--16704 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
16625 ATTTAATTAC
*
16635 TTAATT-TTAATATAAA-TTTAAAAATTTTAATCTTT
1 TTAATTATAAATA-AAATTTTAAAAATTTTAATCTTT
16670 TTAATTATAAATAAAATTTTAAAAATTTTAATCTT
1 TTAATTATAAATAAAATTTTAAAAATTTTAATCTT
16705 AATTTTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (36 bp):
TTAATTATAAATAAAATTTTAAAAATTTTAATCTTT
Found at i:16698 original size:27 final size:29
Alignment explanation
Indices: 16637--16701 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
16627 TTAATTACTT
*
16637 AATTTTAA-TATAAATTTAAAAATTTTAAT
1 AATTTTAATTATAAA-TTAAAAATTTTAAA
**
16666 CTTTTTAATTATAAA-T-AAAATTTTAAA
1 AATTTTAATTATAAATTAAAAATTTTAAA
16693 AATTTTAAT
1 AATTTTAAT
16702 CTTAATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
27 17 0.57
28 1 0.03
29 6 0.20
30 6 0.20
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
AATTTTAATTATAAATTAAAAATTTTAAA
Found at i:16731 original size:21 final size:20
Alignment explanation
Indices: 16696--16743 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
16686 TTTTAAAAAT
* *
16696 TTTAATCTTAATTTTATTTA
1 TTTAATCTAAATTTTATTAA
16716 TTTAATCTAAATTTTTATTAA
1 TTTAATCTAAA-TTTTATTAA
*
16737 TTAAATC
1 TTTAATC
16744 GATTTAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTAATCTAAATTTTATTAA
Found at i:16740 original size:20 final size:20
Alignment explanation
Indices: 16697--16740 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16687 TTTAAAAATT
* *
16697 TTAATCTTAATTTTATTTAT
1 TTAATCTAAATTTTATTTAA
16717 TTAATCTAAATTTT-TATTAA
1 TTAATCTAAATTTTAT-TTAA
16737 TTAA
1 TTAA
16741 ATCGATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATCTAAATTTTATTTAA
Found at i:21759 original size:10 final size:10
Alignment explanation
Indices: 21744--21826 Score: 52
Period size: 10 Copynumber: 8.7 Consensus size: 10
21734 TTTTAGTCAA
21744 TATATTTATT
1 TATATTTATT
21754 TATATTTATAT
1 TATATTTAT-T
* * *
21765 AAAATTAATT
1 TATATTTATT
*
21775 TA-ATTT-TA
1 TATATTTATT
21783 TATA-TT-TT
1 TATATTTATT
*
21791 TATAATTTTTT
1 TAT-ATTTATT
*
21802 TATA-TAATT
1 TATATTTATT
21811 TATATTTATT
1 TATATTTATT
21821 TA-ATTT
1 TATATTT
21827 CATCGTCATA
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
8 9 0.16
9 16 0.28
10 20 0.35
11 12 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TATATTTATT
Found at i:21817 original size:19 final size:21
Alignment explanation
Indices: 21778--21822 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21768 ATTAATTTAA
*
21778 TTTTATATATTTTTATAATTT
1 TTTTATATATATTTATAATTT
21799 TTTTATATA-ATTTAT-ATTT
1 TTTTATATATATTTATAATTT
*
21818 ATTTA
1 TTTTA
21823 ATTTCATCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 5 0.23
21 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATATATATTTATAATTT
Found at i:22611 original size:4 final size:4
Alignment explanation
Indices: 22602--22627 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22592 GAAGCATGTG
22602 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
22628 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:24372 original size:3 final size:3
Alignment explanation
Indices: 24364--24400 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
24354 ACGATATGGC
24364 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24401 AAGCCTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24579 original size:17 final size:16
Alignment explanation
Indices: 24554--24611 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
24544 ATTATGTTTA
*
24554 AAATATTAATTTTATAT
1 AAATTTTAATTTTA-AT
24571 AAATTTTAATATATTAAT
1 AAATTTTAAT-T-TTAAT
24589 -AA-TTT-ATTTTACAT
1 AAATTTTAATTTTA-AT
24603 AAATTTTAA
1 AAATTTTAA
24612 AATTTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
13 3 0.09
14 3 0.09
15 4 0.12
16 6 0.18
17 12 0.35
18 3 0.09
19 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
AAATTTTAATTTTAAT
Found at i:27082 original size:18 final size:18
Alignment explanation
Indices: 27050--27095 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
27040 AGTATATCTA
*
27050 ATAATTTTA-AATATGAT
1 ATAATTATATAATATGAT
27067 ATAATTATATAATATGAT
1 ATAATTATATAATATGAT
27085 ATAA-TATATAA
1 ATAATTATATAA
27096 AAATAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (18 bp):
ATAATTATATAATATGAT
Found at i:27088 original size:10 final size:10
Alignment explanation
Indices: 27059--27091 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
27049 AATAATTTTA
27059 AATATGATAT
1 AATATGATAT
27069 AAT-T-ATAT
1 AATATGATAT
27077 AATATGATAT
1 AATATGATAT
27087 AATAT
1 AATAT
27092 ATAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.33
9 2 0.10
10 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (10 bp):
AATATGATAT
Found at i:27170 original size:20 final size:21
Alignment explanation
Indices: 27123--27170 Score: 82
Period size: 20 Copynumber: 2.4 Consensus size: 21
27113 GATATATAAA
27123 TATATAA-ATATATTAAAATT
1 TATATAATATATATTAAAATT
27143 TATATAATA-ATATTAAAATT
1 TATATAATATATATTAAAATT
27163 TATATAAT
1 TATATAAT
27171 TAAACATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATAATATATATTAAAATT
Found at i:27958 original size:23 final size:20
Alignment explanation
Indices: 27913--27981 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 20
27903 TATATATATG
27913 ATATTATCAAATTTTTTATA
1 ATATTATCAAATTTTTTATA
*
27933 ATATTATTAAATTTTTTATCA
1 ATATTATCAAATTTTTTAT-A
* *
27954 AAATAATCACAATTTATTTTATA
1 ATATTATCA-AA-TT-TTTTATA
27977 ATATT
1 ATATT
27982 CATAATATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 18 0.46
21 7 0.18
22 2 0.05
23 6 0.15
24 6 0.15
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTATCAAATTTTTTATA
Found at i:28374 original size:2 final size:2
Alignment explanation
Indices: 28367--28408 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
28357 CATGAATTTC
28367 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28409 TCAATTTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28750 original size:52 final size:52
Alignment explanation
Indices: 28670--28771 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 52
28660 AATTTGGCCT
28670 AAATTATATTGAAAATATTATAAACAATGGGATGAATCATGTTCTTTTTTTA
1 AAATTATATTGAAAATATTATAAACAATGGGATGAATCATGTTCTTTTTTTA
* *
28722 AAATTATATTGAAAATATTATAATCAATGGGATGCATCATGTTCTTTTTT
1 AAATTATATTGAAAATATTATAAACAATGGGATGAATCATGTTCTTTTTT
28772 CTTTTTTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (52 bp):
AAATTATATTGAAAATATTATAAACAATGGGATGAATCATGTTCTTTTTTTA
Found at i:28990 original size:28 final size:29
Alignment explanation
Indices: 28959--29020 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
28949 GTTGATTTTG
28959 ACCATAATTAAC-AAATGTTGCTTACGTC
1 ACCATAATTAACAAAATGTTGCTTACGTC
*
28987 ACCATAATTAACAAAATGTTGCTTACTTC
1 ACCATAATTAACAAAATGTTGCTTACGTC
29016 ACCAT
1 ACCAT
29021 TAAGGTGGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 12 0.38
29 20 0.62
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (29 bp):
ACCATAATTAACAAAATGTTGCTTACGTC
Found at i:29561 original size:32 final size:30
Alignment explanation
Indices: 29481--29563 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 30
29471 TAAATATAAA
29481 TTTTAAAATTATAA-AAATTTAATATAAAAAAT
1 TTTTAAAA-TATAATAAA--TAATATAAAAAAT
*
29513 TTTTAAACCTCA-AATAAATAAGTATAAAAATAT
1 TTTTAAA-AT-ATAATAAATAA-TATAAAAA-AT
29546 TTTTAAAATATAATAAAT
1 TTTTAAAATATAATAAAT
29564 TATTATTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
31 4 0.09
32 26 0.60
33 13 0.30
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.39
Consensus pattern (30 bp):
TTTTAAAATATAATAAATAATATAAAAAAT
Found at i:31788 original size:3 final size:3
Alignment explanation
Indices: 31780--31823 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
31770 GTTTATTAAA
31780 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
31824 AATAAATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:33349 original size:10 final size:10
Alignment explanation
Indices: 33331--33390 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
33321 GAGTTTTCTC
*
33331 AATTAAATTA
1 AATTAAATTT
*
33341 AATTTAATTT
1 AATTAAATTT
*
33351 AATTTAATTT
1 AATTAAATTT
*
33361 AATTTAAATTC
1 AA-TTAAATTT
*
33372 AAATAAATTT
1 AATTAAATTT
33382 AA-TAAATTT
1 AATTAAATTT
33391 TTTAAAATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
9 7 0.16
10 28 0.65
11 8 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (10 bp):
AATTAAATTT
Found at i:33354 original size:15 final size:15
Alignment explanation
Indices: 33331--33390 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
33321 GAGTTTTCTC
*
33331 AATTAAATTAAATTT
1 AATTTAATTAAATTT
*
33346 AATTTAATTTAATTT
1 AATTTAATTAAATTT
*
33361 AATTTAAATTCAAA-TA
1 AATTT-AATT-AAATTT
33377 AATTTAA-TAAATTT
1 AATTTAATTAAATTT
33391 TTTAAAATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 20 0.54
16 10 0.27
17 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTTAATTAAATTT
Found at i:34474 original size:16 final size:17
Alignment explanation
Indices: 34413--34477 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
34403 ATGTAAATAT
*
34413 AATTTATAT-AAT-TTA
1 AATTTATATAAATATAA
34428 AA-TTAT-TAATATATTAA
1 AATTTATATAA-ATA-TAA
34445 AATTTATATAAATATAA
1 AATTTATATAAATATAA
*
34462 AATTT-TTTAAATATAA
1 AATTTATATAAATATAA
34478 TTATAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.02
14 5 0.12
15 4 0.10
16 10 0.24
17 12 0.29
18 7 0.17
19 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTATATAAATATAA
Found at i:34514 original size:20 final size:21
Alignment explanation
Indices: 34489--34529 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
34479 TATAATATAA
34489 AAATAAAATAAA-TATTAAAT
1 AAATAAAATAAATTATTAAAT
34509 AAATAAAATAAATTATTAAAT
1 AAATAAAATAAATTATTAAAT
34530 TTATTTACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATAAAATAAATTATTAAAT
Found at i:34845 original size:21 final size:21
Alignment explanation
Indices: 34806--34845 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34796 AAAATAAAAA
*
34806 ATATTTTATTTTAATATTTTT
1 ATATTTTATATTAATATTTTT
34827 ATATTTTATAATTAA-ATTT
1 ATATTTTAT-ATTAATATTT
34846 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATATTTTATATTAATATTTTT
Found at i:35146 original size:17 final size:17
Alignment explanation
Indices: 35078--35146 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
35068 AATTACATAA
* *
35078 ATTTTAATAAATTTATAT
1 ATTTTAAT-TATTTTTAT
* * *
35096 ATTTTTATCATATTTAT
1 ATTTTAATTATTTTTAT
*
35113 ATTATTAATTA-TATTAT
1 ATT-TTAATTATTTTTAT
35130 ATTTTAATTATTTTTAT
1 ATTTTAATTATTTTTAT
35147 CATATAATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
16 7 0.17
17 21 0.52
18 12 0.30
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTAATTATTTTTAT
Found at i:36052 original size:22 final size:22
Alignment explanation
Indices: 36009--36053 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
35999 GACCATAAGC
*
36009 AAAAAAATGTAATATATTTTAA
1 AAAAAAATGTAATATATATTAA
*
36031 AAAAAAATTTAATGATA-ATTAA
1 AAAAAAATGTAAT-ATATATTAA
36053 A
1 A
36054 TAATCTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAAAAATGTAATATATATTAA
Found at i:37693 original size:2 final size:2
Alignment explanation
Indices: 37686--37717 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
37676 TACAATATGT
37686 AC AC AC AC AC AC A- AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
37718 TAAACATGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:42756 original size:20 final size:21
Alignment explanation
Indices: 42720--42793 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 21
42710 CACTTGTATT
*
42720 ATTATTTTGATTTTATATTAA
1 ATTATATTGATTTTATATTAA
42741 ATTATATTGA-TTTATATCT--
1 ATTATATTGATTTTATAT-TAA
*
42760 ATTAATATT-ATTTTATATCAA
1 ATT-ATATTGATTTTATATTAA
*
42781 ATTATATTAATTT
1 ATTATATTGATTT
42794 GTAACAATCA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
19 4 0.09
20 24 0.53
21 17 0.38
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (21 bp):
ATTATATTGATTTTATATTAA
Found at i:42769 original size:49 final size:49
Alignment explanation
Indices: 42670--42793 Score: 122
Period size: 49 Copynumber: 2.7 Consensus size: 49
42660 AATGAACCTG
* * *
42670 TATTATTTTAATTTTTTATCAAATTATATTAATTTGTATTCACTTGTAT
1 TATTATTTTAATTTTATATCAAATTATATTAATTTATATTCACTTATAT
* * *
42719 TATTATTTTGATTTTATATTAAATTATATTGATTTATA-T--C---TAT
1 TATTATTTTAATTTTATATCAAATTATATTAATTTATATTCACTTATAT
*
42762 TA--ATATT-ATTTTATATCAAATTATATTAATTT
1 TATTATTTTAATTTTATATCAAATTATATTAATTT
42794 GTAACAATCA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
40 23 0.34
41 4 0.06
43 5 0.07
46 1 0.01
48 1 0.01
49 33 0.49
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (49 bp):
TATTATTTTAATTTTATATCAAATTATATTAATTTATATTCACTTATAT
Found at i:42807 original size:40 final size:40
Alignment explanation
Indices: 42729--42807 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
42719 TATTATTTTG
* * * * *
42729 ATTTTATATTAAATTATATTGATTTATATCTATTAATATT
1 ATTTTATATCAAATTATATTAATTTATAACAATCAATATT
*
42769 ATTTTATATCAAATTATATTAATTTGTAACAATCAATAT
1 ATTTTATATCAAATTATATTAATTTATAACAATCAATAT
42808 CCATCAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (40 bp):
ATTTTATATCAAATTATATTAATTTATAACAATCAATATT
Found at i:42869 original size:13 final size:15
Alignment explanation
Indices: 42850--42884 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
42840 CTTGGTATAA
42850 AATTTTTATTT-TTT
1 AATTTTTATTTATTT
42864 -ATTTTTATTTATTT
1 AATTTTTATTTATTT
42878 AATTTTT
1 AATTTTT
42885 TAACTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.53
14 3 0.16
15 6 0.32
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
AATTTTTATTTATTT
Found at i:43280 original size:4 final size:4
Alignment explanation
Indices: 43271--43303 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
43261 TTTCATAAAA
43271 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
43304 ATATAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:44114 original size:16 final size:17
Alignment explanation
Indices: 44090--44127 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
44080 TTCGATTTCA
*
44090 AAATTTTAAAA-TAAAG
1 AAATCTTAAAATTAAAG
*
44106 AAATCTTAAAATTAAAT
1 AAATCTTAAAATTAAAG
44123 AAATC
1 AAATC
44128 AAACTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATCTTAAAATTAAAG
Found at i:45253 original size:16 final size:15
Alignment explanation
Indices: 45206--45254 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
45196 AATTTTTATT
45206 TTTTATTATATTCGTA
1 TTTTATTATA-TCGTA
*
45222 TTATATT-TA-CGTA
1 TTTTATTATATCGTA
45235 TTTTATTATATCAGTA
1 TTTTATTATATC-GTA
45251 TTTT
1 TTTT
45255 TATTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 10 0.36
14 2 0.07
15 3 0.11
16 13 0.46
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTATTATATCGTA
Found at i:45287 original size:17 final size:17
Alignment explanation
Indices: 45265--45319 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
45255 TATTTAAAAT
45265 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
45282 ATTTTAATATATTA-AT-A
1 ATTTT-ATAT-TTATATAA
45299 ATTTT-TA-TTATATAA
1 ATTTTATATTTATATAA
45314 ATTTTA
1 ATTTTA
45320 AAATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.09
14 2 0.06
15 8 0.24
17 11 0.33
18 6 0.18
19 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:45299 original size:18 final size:19
Alignment explanation
Indices: 45265--45329 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 19
45255 TATTTAAAAT
45265 ATTTT-ATAT-TTATATAA
1 ATTTTAATATATTATATAA
45282 ATTTTAATATATTA-AT-A
1 ATTTTAATATATTATATAA
45299 A-TTT--T-TATTATATAA
1 ATTTTAATATATTATATAA
*
45314 ATTTTAAAATA-TATAT
1 ATTTTAATATATTATAT
45330 TTATATTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
13 5 0.13
14 3 0.08
15 2 0.05
16 6 0.15
17 7 0.18
18 11 0.28
19 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTAATATATTATATAA
Found at i:45310 original size:32 final size:29
Alignment explanation
Indices: 45263--45341 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 29
45253 TTTATTTAAA
*
45263 ATATTTTATATTTATATAAATTTTAATATATT
1 ATATTTT-TA-TTATATAAATTTTAAAATA-T
45295 AATAATTTTTATTATATAAATTTTAAAATAT
1 -AT-ATTTTTATTATATAAATTTTAAAATAT
*
45326 ATATTTATATTATATA
1 ATATTTTTATTATATA
45342 TATTAATACT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 13 0.30
30 2 0.05
31 1 0.02
32 18 0.42
33 4 0.09
34 5 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
ATATTTTTATTATATAAATTTTAAAATAT
Found at i:45342 original size:15 final size:15
Alignment explanation
Indices: 45289--45345 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
45279 TAAATTTTAA
45289 TATATTA-ATA-ATT
1 TATATTATATATATT
* *
45302 TTTATTATATAAATT
1 TATATTATATATATT
**
45317 T-TAAAATATATATT
1 TATATTATATATATT
45331 TATATTATATATATT
1 TATATTATATATATT
45346 AATACTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 6 0.17
14 14 0.40
15 15 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATTATATATATT
Found at i:45731 original size:30 final size:29
Alignment explanation
Indices: 45670--45744 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
45660 TATATAATTA
45670 TATAATATAAAAAATAATAAAAATATTAAT
1 TATAATAT-AAAAATAATAAAAATATTAAT
* *
45700 TATAACATAAAAAT-ATAAATATATTAAAAT
1 TATAATATAAAAATAATAAAAATATT--AAT
45730 TATATATATAAAAAT
1 TATA-ATATAAAAAT
45745 TTTAATTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
28 10 0.26
29 6 0.15
30 14 0.36
31 9 0.23
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (29 bp):
TATAATATAAAAATAATAAAAATATTAAT
Found at i:46541 original size:17 final size:16
Alignment explanation
Indices: 46499--46551 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
46489 TTTGAATTTG
46499 ATAA-AATAAAAAATA
1 ATAATAATAAAAAATA
*
46514 ATTATAATAAAGAAATA
1 ATAATAATAAA-AAATA
*
46531 ATAAT-ATTAAAAATA
1 ATAATAATAAAAAATA
46546 A-AATAA
1 ATAATAA
46552 AAATTTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.09
15 10 0.31
16 10 0.31
17 9 0.28
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAATAATAAAAAATA
Found at i:46563 original size:20 final size:19
Alignment explanation
Indices: 46501--46568 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 19
46491 TGAATTTGAT
46501 AAAATAAAAAATAATTATAATAA
1 AAAAT-AAAAAT-ATTA-AA-AA
*
46524 AGAAATAATAATATTAAAAA
1 A-AAATAAAAATATTAAAAA
* *
46544 TAAAATAAAAATTTTGAAAA
1 -AAAATAAAAATATTAAAAA
46564 AAAAT
1 AAAAT
46569 GCAATATGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.13
20 17 0.44
21 3 0.08
22 4 0.10
23 6 0.15
24 4 0.10
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAATAAAAATATTAAAAA
Found at i:47281 original size:14 final size:14
Alignment explanation
Indices: 47236--47286 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
47226 TATAAAGAGT
*
47236 TATTTTAATTATTA
1 TATTTTAATTTTTA
* * *
47250 CATTATTAAATTTAA
1 TATT-TTAATTTTTA
47265 TATTTTAATTTTTA
1 TATTTTAATTTTTA
47279 TATTTTAA
1 TATTTTAA
47287 AATATTTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTTAATTTTTA
Found at i:47307 original size:17 final size:18
Alignment explanation
Indices: 47285--47327 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
47275 TTTATATTTT
*
47285 AAAATATTTATTAATA-A
1 AAAATATTTAATAATATA
* *
47302 AAAATAATTAATAATATT
1 AAAATATTTAATAATATA
47320 AAAATATT
1 AAAATATT
47328 ATTTAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATATTTAATAATATA
Found at i:47338 original size:21 final size:22
Alignment explanation
Indices: 47309--47350 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
47299 TAAAAAATAA
*
47309 TTAATAATAT-TAAAATATTAT
1 TTAAAAATATATAAAATATTAT
*
47330 TTAAAAATATATAAATTATTA
1 TTAAAAATATATAAAATATTA
47351 CCATATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAAAATATATAAAATATTAT
Found at i:47566 original size:28 final size:28
Alignment explanation
Indices: 47494--47572 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
47484 ATTTTTTATT
* *
47494 TATTATTAATTTAAAAATATATAAATTAAA
1 TATTA-TAA-TTAATAATATAAAAATTAAA
*
47524 TATTATATTTAATAATATAAAAATTAAAA
1 TATTATAATTAATAATATAAAAATT-AAA
*
47553 TATTTTAATT-ATAATATAAA
1 TATTATAATTAATAATATAAA
47573 GAGTACTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
28 25 0.58
29 13 0.30
30 5 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TATTATAATTAATAATATAAAAATTAAA
Found at i:47824 original size:20 final size:19
Alignment explanation
Indices: 47792--47829 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
47782 CTTTGTACAA
*
47792 ATTTAAAAATTTATATAAT
1 ATTTAAAAATTTAAATAAT
47811 ATTTAAAAATTTTAAATAA
1 ATTTAAAAA-TTTAAATAA
47830 AAATAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAAAATTTAAATAAT
Found at i:47877 original size:20 final size:21
Alignment explanation
Indices: 47849--47887 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
47839 TTATTTAAAA
47849 AATAGTTAAGTTTT-AGTTAT
1 AATAGTTAAGTTTTGAGTTAT
*
47869 AATATTTAAGTTTTGAGTT
1 AATAGTTAAGTTTTGAGTT
47888 CGATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (21 bp):
AATAGTTAAGTTTTGAGTTAT
Found at i:47920 original size:23 final size:22
Alignment explanation
Indices: 47897--47955 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
47887 TCGATTTTAT
47897 TTATTTTTATTTATATAATATA
1 TTATTTTTATTTATATAATATA
47919 TTAATTTTATATTTAT-T-ATATA
1 TT-ATTTT-TATTTATATAATATA
47941 --ATTTTTA-TTATATAA
1 TTATTTTTATTTATATAA
47956 AAATAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
17 4 0.12
18 3 0.09
19 6 0.18
22 7 0.21
23 6 0.18
24 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTTTTATTTATATAATATA
Found at i:47939 original size:22 final size:23
Alignment explanation
Indices: 47894--47955 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 23
47884 AGTTCGATTT
*
47894 TATTTATTTTTATTTATATAATA
1 TATTAATTTTTATTTATATAATA
47917 TATTAA-TTTTATATT-TAT--TA
1 TATTAATTTTTAT-TTATATAATA
47937 TA-TAATTTTTA-TTATATAA
1 TATTAATTTTTATTTATATAA
47956 AAATAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
18 2 0.06
19 6 0.18
20 9 0.27
22 9 0.27
23 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTAATTTTTATTTATATAATA
Found at i:49111 original size:15 final size:14
Alignment explanation
Indices: 49091--49120 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49081 TTTTTTTATT
49091 ATTAATTAAAATTAA
1 ATTAATT-AAATTAA
49106 ATTAATTAAATTAA
1 ATTAATTAAATTAA
49120 A
1 A
49121 AATCGATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTAATTAAATTAA
Found at i:49347 original size:29 final size:29
Alignment explanation
Indices: 49313--49393 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
49303 TTTTTTTCAA
* *
49313 AAATAAAATTTTATATTTTTAT-TATATTC
1 AAAT-AAATTTTATATTTTGATATATACTC
*
49342 ACATAAATCTTTA-ATTTTGATATATACTC
1 AAATAAAT-TTTATATTTTGATATATACTC
*
49371 AAATAAATTTTTTATTTT-ATATA
1 AAATAAATTTTATATTTTGATATA
49394 AAATAATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 19 0.43
29 25 0.57
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (29 bp):
AAATAAATTTTATATTTTGATATATACTC
Found at i:49446 original size:30 final size:29
Alignment explanation
Indices: 49412--49510 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 29
49402 ATTTATATTT
49412 AAAATTTATATAAATATAAATTAAAAATTA
1 AAAATTTAT-TAAATATAAATTAAAAATTA
* *
49442 AAAATTTATTTAAATATAAAATAATAATTA
1 AAAATTTA-TTAAATATAAATTAAAAATTA
* * * *
49472 AAATTTTATTTAATATTAATTAAAAATAA
1 AAAATTTATTAAATATAAATTAAAAATTA
*
49501 AAAATATATT
1 AAAATTTATT
49511 CGATAAAGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 24 0.41
30 33 0.57
31 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
AAAATTTATTAAATATAAATTAAAAATTA
Found at i:49504 original size:66 final size:64
Alignment explanation
Indices: 49381--49505 Score: 144
Period size: 66 Copynumber: 1.9 Consensus size: 64
49371 AAATAAATTT
* * * * *
49381 TTTATTTTATATAAAATAATAATTTATATTTAAAATTTATATAAATATAAATTAAAAATTAAAAA
1 TTTATTTAATATAAAATAATAATTAAAATTT-AAATTTATATAAATAAAAATAAAAAATTAAAAA
* *
49446 TTTATTTAAATATAAAATAATAATTAAAATTT-TATTTAATATTAATTAAAAATAAAAAAT
1 TTTATTT-AATATAAAATAATAATTAAAATTTAAATTT-ATA-TAAATAAAAATAAAAAAT
49506 ATATTCGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
64 4 0.08
65 10 0.20
66 36 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (64 bp):
TTTATTTAATATAAAATAATAATTAAAATTTAAATTTATATAAATAAAAATAAAAAATTAAAAA
Found at i:50235 original size:4 final size:4
Alignment explanation
Indices: 50226--50259 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
50216 ACAAGGTCAT
* *
50226 TTTC TTTC TTTC TTTC TTTC TTCC TTTC ATTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
50260 CTTATTTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:55522 original size:14 final size:16
Alignment explanation
Indices: 55492--55523 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
55482 TTTGCTTGTT
55492 TTAATATATATTAATA
1 TTAATATATATTAATA
55508 TTAATATA-ATT-ATA
1 TTAATATATATTAATA
55522 TT
1 TT
55524 TGGTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 3 0.19
16 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATATATATTAATA
Found at i:56048 original size:22 final size:21
Alignment explanation
Indices: 56013--56074 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
56003 ATTGAGATAT
*
56013 AAATATA-AAGATATAATTTTTA
1 AAATATATAA-ATAT-ATTTATA
56035 AAATATATAAATAT-TTTATA
1 AAATATATAAATATATTTATA
*
56055 AAAAAT-TAAATATATTTATA
1 AAATATATAAATATATTTATA
56075 TTAAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 7 0.19
20 16 0.44
22 11 0.31
23 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATATATAAATATATTTATA
Found at i:56069 original size:21 final size:21
Alignment explanation
Indices: 56049--56088 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
56039 ATATAAATAT
56049 TTTATA-AAAAATTAAATATA
1 TTTATATAAAAATTAAATATA
* *
56069 TTTATATTAAATTTAAATAT
1 TTTATATAAAAATTAAATAT
56089 CCATATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTATATAAAAATTAAATATA
Found at i:56072 original size:20 final size:20
Alignment explanation
Indices: 56023--56088 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
56013 AAATATAAAG
* *
56023 ATATAATTTTTAAAATATATAA
1 ATAT-ATTTATAAAAAAT-TAA
56045 ATAT-TTTATAAAAAATTAA
1 ATATATTTATAAAAAATTAA
* *
56064 ATATATTTATATTAAATTTAA
1 ATATATTTATA-AAAAATTAA
56085 ATAT
1 ATAT
56089 CCATATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 7 0.18
20 16 0.42
21 11 0.29
22 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATATTTATAAAAAATTAA
Found at i:57563 original size:19 final size:19
Alignment explanation
Indices: 57513--57567 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
57503 GTTAATCAAT
57513 ATTTAAAAAAT-ATATGTA
1 ATTTAAAAAATAATATGTA
* * *
57531 A-TTAATAAATTAATTTTTA
1 ATTTAA-AAAATAATATGTA
57550 ATTTAAAAAATAATATGT
1 ATTTAAAAAATAATATGT
57568 TATCGTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
17 4 0.14
18 5 0.18
19 15 0.54
20 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
ATTTAAAAAATAATATGTA
Found at i:57912 original size:27 final size:27
Alignment explanation
Indices: 57867--57937 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 27
57857 TTTATTATTT
*
57867 AAAATATA-TTTAAA--AAAATTAAAA
1 AAAATATATTTTAAATTAAATTTAAAA
*
57891 AAAATTATATTTTAAATTAAATTTAAAT
1 AAAA-TATATTTTAAATTAAATTTAAAA
57919 AAAATAT-TTTTATAATTAA
1 AAAATATATTTTA-AATTAA
57938 TTATTTTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.10
25 4 0.10
26 11 0.28
27 9 0.22
28 12 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAATATATTTTAAATTAAATTTAAAA
Found at i:58471 original size:21 final size:22
Alignment explanation
Indices: 58432--58477 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
58422 TTCAATCGTT
*
58432 AAAATTTAAAAATCTAATT-TA
1 AAAATTTAAAAATCAAATTATA
* *
58453 AAAATTTAGAATTCAAATTATA
1 AAAATTTAAAAATCAAATTATA
58475 AAA
1 AAA
58478 CGAATTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAATTTAAAAATCAAATTATA
Found at i:59100 original size:2 final size:2
Alignment explanation
Indices: 59093--59131 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
59083 TGGTAAACCA
*
59093 AT AT AT AT AT AT AT AT AT AC 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 A
59132 CAAATATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:59805 original size:2 final size:2
Alignment explanation
Indices: 59798--59823 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59788 CAGTAAGGTT
59798 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
59824 AATCTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60705 original size:18 final size:17
Alignment explanation
Indices: 60677--60713 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
60667 AAAATTAAAT
*
60677 TAATTTTATATATTTTA
1 TAATTTTATATAATTTA
60694 TAATTGTTATATAATTTA
1 TAATT-TTATATAATTTA
60712 TA
1 TA
60714 TTTATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TAATTTTATATAATTTA
Found at i:60761 original size:28 final size:28
Alignment explanation
Indices: 60730--60788 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
60720 TTAACAGTCT
* *
60730 TATTTCATATAAATTAAAAATATTT-AAC
1 TATTT-ATATAAAGTAAAAACATTTCAAC
* *
60758 TATTTATTTAACGTAAAAACATTTCAAC
1 TATTTATATAAAGTAAAAACATTTCAAC
60786 TAT
1 TAT
60789 CAAATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (28 bp):
TATTTATATAAAGTAAAAACATTTCAAC
Found at i:62467 original size:18 final size:18
Alignment explanation
Indices: 62439--62498 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
62429 TTATAATTAT
62439 ATTTATAATATTTATATAA
1 ATTT-TAATATTTATATAA
62458 ATTTTAATATATTA-AT-A
1 ATTTTAATAT-TTATATAA
62475 A-TTT-ATATTATATATAA
1 ATTTTAATATT-TATATAA
*
62492 AATTTAA
1 ATTTTAA
62499 ATATATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 1 0.03
15 6 0.17
16 5 0.14
17 4 0.11
18 11 0.31
19 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTTAATATTTATATAA
Found at i:62502 original size:35 final size:34
Alignment explanation
Indices: 62434--62553 Score: 100
Period size: 35 Copynumber: 3.4 Consensus size: 34
62424 TTATATTATA
* * *
62434 ATTAT-ATTTATAATATTTATATAAATTTTAATAT
1 ATTATAATTTATATTATATATA-AAATTTAAATAT
62468 ATTAATAATTTATATTATATATAAAATTTAAATAT
1 ATT-ATAATTTATATTATATATAAAATTTAAATAT
* * * **
62503 ATTTTTATATTATATTATATTATAATTATTTTATTTAT
1 ATTATAAT-TTATATTATA-TATAA--AATTTAAATAT
62541 ATTAT-ATTTATAT
1 ATTATAATTTATAT
62554 ATTCGTATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
34 6 0.08
35 26 0.37
36 25 0.35
37 2 0.03
38 12 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (34 bp):
ATTATAATTTATATTATATATAAAATTTAAATAT
Found at i:62507 original size:45 final size:40
Alignment explanation
Indices: 62410--62526 Score: 119
Period size: 45 Copynumber: 2.8 Consensus size: 40
62400 TCATGTACTC
* *
62410 AAAT-AATTTTTAAATTATATTATAATTATATTTATAATATTT
1 AAATAAATTTTTATATTATATTAT-ATTATA--TATAAAATTT
*
62452 ATATAAATTTTAATATATTAATAATTTATATTATATATAAAATTT
1 AAATAAATTTT--TATATT-AT-A-TTATATTATATATAAAATTT
*
62497 AAATATATTTTTATATTATATTATATTATA
1 AAATAAATTTTTATATTATATTATATTATA
62527 ATTATTTTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
40 10 0.16
41 1 0.02
42 5 0.08
43 12 0.19
45 23 0.36
46 2 0.03
47 7 0.11
48 4 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (40 bp):
AAATAAATTTTTATATTATATTATATTATATATAAAATTT
Found at i:62540 original size:9 final size:11
Alignment explanation
Indices: 62418--62553 Score: 90
Period size: 11 Copynumber: 12.6 Consensus size: 11
62408 TCAAATAATT
*
62418 TTTAAATTATA
1 TTTATATTATA
62429 -TTATAATTATA
1 TTTAT-ATTATA
62440 TTTATA--ATA
1 TTTATATTATA
*
62449 TTTATA-TAAA
1 TTTATATTATA
*
62459 TTT-TAATATA
1 TTTATATTATA
*
62469 TTAATAATTTATA
1 TTTAT-A-TTATA
* *
62482 TTATATATAAAA
1 TT-TATATTATA
* *
62494 TTTAAATATATT
1 TTTATAT-TATA
62506 TTTATATTATA
1 TTTATATTATA
62517 -TTATATTATA
1 TTTATATTATA
*
62527 ATTAT-TT-TA
1 TTTATATTATA
62536 TTTATATTATA
1 TTTATATTATA
62547 TTTATAT
1 TTTATAT
62554 ATTCGTATTT
Statistics
Matches: 98, Mismatches: 15, Indels: 24
0.72 0.11 0.18
Matches are distributed among these distances:
9 17 0.17
10 27 0.28
11 28 0.29
12 17 0.17
13 7 0.07
14 2 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTATATTATA
Found at i:62562 original size:25 final size:25
Alignment explanation
Indices: 62512--62575 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
62502 TATTTTTATA
*
62512 TTATATTATATTATAATTATTTTAT
1 TTATATTATATTATAATTATTGTAT
62537 TTATATTATATT-T-ATATATTCGTAT
1 TTATATTATATTATAAT-TATT-GTAT
62562 TTAATATTAT-TTAT
1 TT-ATATTATATTAT
62576 TGACGAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
23 2 0.06
24 5 0.15
25 19 0.56
26 8 0.24
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTATATTATATTATAATTATTGTAT
Found at i:62563 original size:30 final size:30
Alignment explanation
Indices: 62423--62553 Score: 99
Period size: 30 Copynumber: 4.2 Consensus size: 30
62413 TAATTTTTAA
*
62423 ATTATATTATAATTATATTTA-TAATATT-T
1 ATTATATTATAATTAT-TTTATTTATATTAT
* * *
62452 ATATAAATTTTAATATATTAATAATTTATATTAT
1 AT-TATATTATAAT-TATT--TTATTTATATTAT
* * *
62486 ATATAAAATT-TAAATATATT-TTTATATTAT
1 AT-T-ATATTATAATTATTTTATTTATATTAT
62516 ATTATATTATAATTATTTTATTTATATTAT
1 ATTATATTATAATTATTTTATTTATATTAT
62546 ATTTATAT
1 A-TTATAT
62554 ATTCGTATTT
Statistics
Matches: 82, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
28 4 0.05
29 11 0.13
30 33 0.40
31 10 0.12
32 2 0.02
33 9 0.11
34 8 0.10
35 5 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTATATTATAATTATTTTATTTATATTAT
Found at i:62865 original size:11 final size:11
Alignment explanation
Indices: 62841--62899 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
62831 AACATAACCC
62841 ATTA-TTAA-T
1 ATTATTTAATT
62850 ATTATTTAATT
1 ATTATTTAATT
* *
62861 ATTATTTTATA
1 ATTATTTAATT
**
62872 AAAATTTAA-T
1 ATTATTTAATT
62882 ATTATTTAATT
1 ATTATTTAATT
62893 ATTATTT
1 ATTATTT
62900 TATAAAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 4 0.10
10 11 0.28
11 24 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATTTAATT
Found at i:62886 original size:32 final size:31
Alignment explanation
Indices: 62845--62910 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 31
62835 TAACCCATTA
62845 TTAATATTATTTAATTATTATTTTATAAAAAT
1 TTAATATTATTTAATTATTATTTTAT-AAAAT
62877 TTAATATTATTTAATTATTATTTTATAAAAT
1 TTAATATTATTTAATTATTATTTTATAAAAT
62908 TTA
1 TTA
62911 TTTGCATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.24
32 26 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (31 bp):
TTAATATTATTTAATTATTATTTTATAAAAT
Found at i:66161 original size:18 final size:18
Alignment explanation
Indices: 66140--66190 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
66130 TATTAAAATT
*
66140 AAATAATTAATTATTTTA
1 AAATAATTAATTATTTAA
* * *
66158 AAAT-ATAAAATAATTAA
1 AAATAATTAATTATTTAA
66175 AAATAATTCAATTATT
1 AAATAATT-AATTATT
66191 AATATTTAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
17 13 0.54
18 6 0.25
19 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATAATTAATTATTTAA
Found at i:69511 original size:6 final size:6
Alignment explanation
Indices: 69502--69534 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
69492 TCGATTTCAC
*
69502 TGAAGA TGAAGA TGAAGA TGAAGA TGATGA TGA
1 TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGA
69535 CGACGAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.21
Consensus pattern (6 bp):
TGAAGA
Found at i:69913 original size:42 final size:41
Alignment explanation
Indices: 69838--69921 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 41
69828 TTTGAAATTT
* * *
69838 AAAAAAAAATGATAATTAATATATAATTTTTTAATTTTTTA
1 AAAAAAAAATGAAAATAAATATATAATTTTTTAATTTATTA
69879 AAAATAAAAAT-AAAATAAATAT-TAATTTAATTTAATTTATTA
1 AAAA-AAAAATGAAAATAAATATATAATTT--TTTAATTTATTA
69921 A
1 A
69922 TTTTTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
40 6 0.16
41 13 0.35
42 18 0.49
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (41 bp):
AAAAAAAAATGAAAATAAATATATAATTTTTTAATTTATTA
Found at i:70995 original size:2 final size:2
Alignment explanation
Indices: 70988--71026 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
70978 GGTTTAACTC
70988 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 A
71027 CCTATTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:71543 original size:20 final size:20
Alignment explanation
Indices: 71502--71545 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
71492 TCATAAGATT
71502 AAAACATTATTTTATTAATTA
1 AAAACATTATTTTATT-ATTA
*
71523 AAAACTTTATTTTTATT-TTA
1 AAAACATTA-TTTTATTATTA
71543 AAA
1 AAA
71546 TGTATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAACATTATTTTATTATTA
Found at i:73626 original size:3 final size:3
Alignment explanation
Indices: 73618--73648 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
73608 TAGATGCTGG
73618 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
73649 TTTCCTGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:74314 original size:19 final size:20
Alignment explanation
Indices: 74278--74315 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
74268 GTATAATTAT
*
74278 ATTATTTAATTTAATAATCG
1 ATTATTTAATATAATAATCG
*
74298 ATTA-TTAATATATTAATC
1 ATTATTTAATATAATAATC
74316 ATATATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTATTTAATATAATAATCG
Found at i:74566 original size:22 final size:23
Alignment explanation
Indices: 74541--74593 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
74531 CATACGACAC
*
74541 AAATATAAATAAA-AAAATAATT
1 AAATATAAATAAATAAAATAAAT
*
74563 AAATAT-AATAAATATAATAAAT
1 AAATATAAATAAATAAAATAAAT
74585 AAAT-TAAAT
1 AAATATAAAT
74594 TTTATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATATAAATAAATAAAATAAAT
Found at i:74572 original size:27 final size:27
Alignment explanation
Indices: 74542--74701 Score: 86
Period size: 27 Copynumber: 6.0 Consensus size: 27
74532 ATACGACACA
74542 AATATAAATAAAAAAATAATTAAATAT
1 AATATAAATAAAAAAATAATTAAATAT
* *
74569 -A-ATAAATATAATAAATAAATTAAATTT
1 AATATAAATA-AAAAAAT-AATTAAATAT
* * *
74596 TATATAAAT-ATAAAATATTTTAAATAT
1 AATATAAATAAAAAAATA-ATTAAATAT
* * * *
74623 -AT-TAAATATATATA-AATTAAATTT
1 AATATAAATAAAAAAATAATTAAATAT
*
74647 AATATAAAT-AATAAATAAATTAAA-ATT
1 AATATAAATAAAAAAAT-AATTAAATA-T
* * *
74674 TATATAAATATTAAAAAT-TTTAAATAT
1 AATATAAATA-AAAAAATAATTAAATAT
74701 A
1 A
74702 TAAATATGAT
Statistics
Matches: 99, Mismatches: 20, Indels: 28
0.67 0.14 0.19
Matches are distributed among these distances:
24 7 0.07
25 19 0.19
26 17 0.17
27 43 0.43
28 2 0.02
29 11 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
AATATAAATAAAAAAATAATTAAATAT
Found at i:74576 original size:9 final size:9
Alignment explanation
Indices: 74545--74639 Score: 67
Period size: 9 Copynumber: 10.7 Consensus size: 9
74535 CGACACAAAT
74545 ATAAATA-A
1 ATAAATATA
74553 A-AAA-ATA
1 ATAAATATA
74560 ATTAAATATA
1 A-TAAATATA
74570 ATAAATATA
1 ATAAATATA
74579 ATAAATA-A
1 ATAAATATA
*
74587 ATTAAATTTTA
1 A-TAAA-TATA
74598 TATAAATAT-
1 -ATAAATATA
*
74607 A-AAATATT
1 ATAAATATA
*
74615 TTAAATATA
1 ATAAATATA
*
74624 TTAAATATA
1 ATAAATATA
74633 TATAAAT
1 -ATAAAT
74640 TAAATTTAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
6 1 0.01
7 11 0.15
8 4 0.06
9 37 0.52
10 12 0.17
11 5 0.07
12 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
ATAAATATA
Found at i:74585 original size:4 final size:4
Alignment explanation
Indices: 74545--74593 Score: 53
Period size: 4 Copynumber: 11.5 Consensus size: 4
74535 CGACACAAAT
* *
74545 ATAA ATAA AAAA ATAA TTAA ATATA ATAA ATATA ATAA ATAA ATTAA AT
1 ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATA-A ATAA ATAA A-TAA AT
74594 TTTATATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 26 0.68
5 12 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (4 bp):
ATAA
Found at i:74613 original size:7 final size:8
Alignment explanation
Indices: 74543--74708 Score: 65
Period size: 9 Copynumber: 19.2 Consensus size: 8
74533 TACGACACAA
74543 ATATAAAT
1 ATATAAAT
* *
74551 AAAAAAAT
1 ATATAAAT
74559 A-ATTAAAT
1 ATA-TAAAT
74567 ATAATAAAT
1 AT-ATAAAT
74576 ATAATAAAT
1 AT-ATAAAT
*
74585 AAATTAAATTTT
1 ATA-TAAA---T
74597 ATATAAAT
1 ATATAAAT
74605 ATA-AAAT
1 ATATAAAT
*
74612 ATTTTAAAT
1 A-TATAAAT
74621 ATATTAAAT
1 ATA-TAAAT
74630 ATATATAA-
1 ATATA-AAT
74638 AT-TAAATTT
1 ATATAAA--T
74647 AATATAAAT
1 -ATATAAAT
74656 A-ATAAAT
1 ATATAAAT
*
74663 AAATTAAAATTT
1 ATA-T-AAA--T
74675 ATATAAAT
1 ATATAAAT
*
74683 AT-TAAAA
1 ATATAAAT
*
74690 ATTTTAAAT
1 A-TATAAAT
74699 ATATAAAT
1 ATATAAAT
74707 AT
1 AT
74709 GATATAATTA
Statistics
Matches: 124, Mismatches: 11, Indels: 46
0.69 0.06 0.25
Matches are distributed among these distances:
6 2 0.02
7 20 0.16
8 37 0.30
9 41 0.33
10 9 0.07
11 9 0.07
12 6 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAAAT
Found at i:74676 original size:78 final size:78
Alignment explanation
Indices: 74559--74715 Score: 248
Period size: 78 Copynumber: 2.0 Consensus size: 78
74549 ATAAAAAAAT
*
74559 AATTAAATATAATAAATATAATAAATAAATTAAATTTTATATAAATA-TAAAATATTTTAAATAT
1 AATTAAATATAATAAATATAATAAATAAATTAAAATTTATATAAATATTAAAA-ATTTTAAATAT
74623 ATTAAATAT-ATATA
65 A-TAAATATGATATA
*
74637 AATTAAATTTAATATAA-ATAATAAATAAATTAAAATTTATATAAATATTAAAAATTTTAAATAT
1 AATTAAATATAATA-AATATAATAAATAAATTAAAATTTATATAAATATTAAAAATTTTAAATAT
74701 ATAAATATGATATA
65 ATAAATATGATATA
74715 A
1 A
74716 TTATTGGATG
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
77 7 0.09
78 60 0.81
79 7 0.09
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (78 bp):
AATTAAATATAATAAATATAATAAATAAATTAAAATTTATATAAATATTAAAAATTTTAAATATA
TAAATATGATATA
Found at i:74764 original size:2 final size:2
Alignment explanation
Indices: 74757--74784 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
74747 TATTTTGATC
74757 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
74785 TTAGTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75670 original size:19 final size:18
Alignment explanation
Indices: 75645--75692 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
75635 ATTTTTAAAT
*
75645 TTTAATTATAAATATTTT
1 TTTAATTATAAATATTTA
75663 TATTAATTAT-AATATTTA
1 T-TTAATTATAAATATTTA
75681 TTTAATTTATAA
1 TTTAA-TTATAA
75693 GTAAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.15
18 13 0.50
19 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATTATAAATATTTA
Found at i:77310 original size:30 final size:30
Alignment explanation
Indices: 77238--77334 Score: 110
Period size: 29 Copynumber: 3.3 Consensus size: 30
77228 TTTATCTAAG
* *
77238 TTTTTATATTTTT-A-TTAAATTTAAATAAA
1 TTTTTA-ATTTTTAATTTACATTCAAATAAA
* *
77267 TTTTTAA-TTTTAATTTACATTCTATTAAA
1 TTTTTAATTTTTAATTTACATTCAAATAAA
*
77296 TTTTTAATTTTTAATTTATATTCAAATAAA
1 TTTTTAATTTTTAATTTACATTCAAATAAA
77326 CTTTTTAAT
1 -TTTTTAAT
77335 AGAAAATCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
27 4 0.07
28 2 0.04
29 24 0.42
30 19 0.33
31 8 0.14
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTTAATTTTTAATTTACATTCAAATAAA
Found at i:78567 original size:23 final size:20
Alignment explanation
Indices: 78534--78590 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 20
78524 TTATTTTTAT
78534 TTAAATTTAATTATAAAAATA
1 TTAAATTTAATTATAAAAA-A
78555 TATAAATATTAA-TATAAAAAA
1 T-TAAAT-TTAATTATAAAAAA
*
78576 TTAATTTTTAATTAT
1 TTAA-ATTTAATTAT
78591 TTTTACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 7 0.23
21 7 0.23
22 13 0.42
23 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAATTTAATTATAAAAAA
Found at i:78713 original size:17 final size:17
Alignment explanation
Indices: 78688--78720 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
78678 TTAAATCGTG
78688 ACTTAAAAAATTTTTAA
1 ACTTAAAAAATTTTTAA
*
78705 ACTTCAAAAATTTTTA
1 ACTTAAAAAATTTTTA
78721 GATTTTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (17 bp):
ACTTAAAAAATTTTTAA
Found at i:78854 original size:18 final size:19
Alignment explanation
Indices: 78821--78866 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
78811 TATAATTAAA
78821 TTTAAATAAAATATATTAT
1 TTTAAATAAAATATATTAT
*
78840 TTTAATTAAAA-ATATTAT
1 TTTAAATAAAATATATTAT
78858 TTTAAATAA
1 TTTAAATAA
78867 TCTCGAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAAATAAAATATATTAT
Found at i:79256 original size:1 final size:1
Alignment explanation
Indices: 79250--79276 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
79240 GACAGGAGAG
79250 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
79277 GGAAGAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:80757 original size:21 final size:21
Alignment explanation
Indices: 80733--80838 Score: 58
Period size: 21 Copynumber: 5.0 Consensus size: 21
80723 TTTAAAAAAT
80733 ATTTATATAATATTTATATTA
1 ATTTATATAATATTTATATTA
* *
80754 ATTTTTATTAA-ATTTAT-TTT
1 ATTTATA-TAATATTTATATTA
* * *
80774 A-TAAAATAATATAATTATATCA
1 ATTTATATAATAT--TTATATTA
*
80796 ATATAATATAATA-TTATATTTA
1 AT-TTATATAATATTTATA-TTA
* * *
80818 TTTTAAATTATATTTATATTA
1 ATTTATATAATATTTATATTA
80839 TATAATAATA
Statistics
Matches: 63, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
18 3 0.05
19 4 0.06
20 3 0.05
21 31 0.49
22 13 0.21
24 9 0.14
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTATATAATATTTATATTA
Found at i:80760 original size:12 final size:11
Alignment explanation
Indices: 80705--80770 Score: 64
Period size: 11 Copynumber: 6.0 Consensus size: 11
80695 TTATATAATA
80705 ATAATATTTAT
1 ATAATATTTAT
* *
80716 ATATAAATTTAA
1 ATA-ATATTTAT
*
80728 AAAATATTTAT
1 ATAATATTTAT
80739 ATAATATTTAT
1 ATAATATTTAT
*
80750 ATTAATTTTTAT
1 A-TAATATTTAT
80762 -TAA-ATTTAT
1 ATAATATTTAT
80771 TTTATAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
9 5 0.11
10 3 0.07
11 20 0.44
12 17 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATAATATTTAT
Found at i:80840 original size:64 final size:65
Alignment explanation
Indices: 80737--80869 Score: 189
Period size: 64 Copynumber: 2.1 Consensus size: 65
80727 AAAAATATTT
* *
80737 ATATAATATTTATATTAATTTTTATTAAATTTATTTTATAAAATAATATAATTATATCA-ATATA
1 ATATAATATTTATATTAATTTTAATTAAATTTATATTATAAAATAATATAATTATATCATATATA
* * * *
80801 ATATAATA-TTATATTTATTTTAAATTATATTTATATTATATAATAATATAATTATATCATATTT
1 ATATAATATTTATATTAATTTT-AATTAAATTTATATTATAAAATAATATAATTATATCATATAT
80865 A
65 A
80866 ATAT
1 ATAT
80870 TATTATGCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
63 12 0.20
64 41 0.67
65 8 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (65 bp):
ATATAATATTTATATTAATTTTAATTAAATTTATATTATAAAATAATATAATTATATCATATATA
Found at i:80887 original size:64 final size:63
Alignment explanation
Indices: 80742--80887 Score: 163
Period size: 64 Copynumber: 2.3 Consensus size: 63
80732 TATTTATATA
** *
80742 ATAT-TTATATT-AATTTTTATTAAATTTATTTTATAAAATAATATAATTATATCAATATAAT
1 ATATATTATATTAAATTTAAATTAAATTTATATTATAAAATAATATAATTATATCAATATAAT
* * * * *
80803 ATAATATTATATTTATTTTAAATTATATTTATATTATATAATAATATAATTATATCATATTTAAT
1 AT-ATATTATATTAAATTTAAATTAAATTTATATTATAAAATAATATAATTATATCA-ATATAAT
*
80868 AT-TATTATGCTTAAATTTAA
1 ATATATTAT-ATTAAATTTAA
80888 CTAAGGAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
61 2 0.03
62 2 0.03
63 13 0.19
64 45 0.64
65 8 0.11
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.53
Consensus pattern (63 bp):
ATATATTATATTAAATTTAAATTAAATTTATATTATAAAATAATATAATTATATCAATATAAT
Found at i:85148 original size:13 final size:13
Alignment explanation
Indices: 85130--85154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85120 TTATTTGGGT
85130 TCAAATATAAATG
1 TCAAATATAAATG
85143 TCAAATATAAAT
1 TCAAATATAAAT
85155 ATGTTCGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
TCAAATATAAATG
Found at i:85472 original size:4 final size:4
Alignment explanation
Indices: 85453--85486 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
85443 GTGGCTGTTT
85453 TTTA TTTTA TTTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA TTTA
85487 CGAAGCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 20 0.69
5 9 0.31
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:86135 original size:21 final size:21
Alignment explanation
Indices: 86102--86166 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
86092 TTATTTATTT
*
86102 AAATTTAATTATAAAATATAA
1 AAATTTAATTATAAAAAATAA
86123 AAATATTAA-TATAAAAAATAA
1 AAAT-TTAATTATAAAAAATAA
* * *
86144 TATTTTAATAATATAATAAATAA
1 AAATTTAAT--TATAAAAAATAA
86167 TAAAATAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 4 0.11
21 17 0.47
22 4 0.11
23 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTAATTATAAAAAATAA
Found at i:86561 original size:19 final size:19
Alignment explanation
Indices: 86517--86564 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
86507 ATCTTTAATT
* *
86517 TTTTTAATGTTAATAATAAA
1 TTTTTAAT-ATAAAAATAAA
*
86537 -TATTAATATAAAAATAAA
1 TTTTTAATATAAAAATAAA
86555 TTTTTAATAT
1 TTTTTAATAT
86565 TATTTTAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTTTTAATATAAAAATAAA
Found at i:86769 original size:23 final size:21
Alignment explanation
Indices: 86725--86765 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
86715 ATTTAAGTTT
*
86725 AAATTTAAATTATTATTTTAA
1 AAATTTAAAATATTATTTTAA
86746 AAATATTAAAATATTATTTT
1 AAAT-TTAAAATATTATTTT
86766 TAAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATTTAAAATATTATTTTAA
Found at i:89320 original size:2 final size:2
Alignment explanation
Indices: 89315--89380 Score: 96
Period size: 2 Copynumber: 33.0 Consensus size: 2
89305 TAGGAGAGAA
* * * *
89315 AT AT AT AT AT AT AT AT AT AT GT AT GT GT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89357 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
89381 GGTAATTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89494 original size:22 final size:22
Alignment explanation
Indices: 89469--89511 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
89459 ATAATCATTT
89469 TTTAAAATTAATAT-TTAATATA
1 TTTAAAATTAA-ATCTTAATATA
*
89491 TTTAAATTTAAATCTTAATAT
1 TTTAAAATTAAATCTTAATAT
89512 CTATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTAAAATTAAATCTTAATATA
Found at i:89908 original size:12 final size:12
Alignment explanation
Indices: 89869--89909 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
89859 AATTTTTTTA
89869 AAATATAAAATT
1 AAATATAAAATT
89881 AAAT-TAAAATT
1 AAATATAAAATT
89892 AAATATATAAA-T
1 AAATATA-AAATT
89904 AAATAT
1 AAATAT
89910 CTAAATTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.41
12 13 0.48
13 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATATAAAATT
Found at i:97673 original size:2 final size:2
Alignment explanation
Indices: 97666--97690 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
97656 ATTAATGTTC
97666 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
97691 ACACACACAC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:98049 original size:23 final size:23
Alignment explanation
Indices: 98020--98066 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
98010 ACAAAATATT
98020 TACAGCTATTAAAACAGAAAATA
1 TACAGCTATTAAAACAGAAAATA
*
98043 TACAGCTATTAAAACAGTAAATA
1 TACAGCTATTAAAACAGAAAATA
98066 T
1 T
98067 CTCTTCCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.26
Consensus pattern (23 bp):
TACAGCTATTAAAACAGAAAATA
Found at i:99208 original size:30 final size:30
Alignment explanation
Indices: 99174--99246 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
99164 ACTAATTTAA
*
99174 ATCTCTTAAATTAAGGATTAGTACACCACT
1 ATCTCTTAAATTAAGGACTAGTACACCACT
* * *
99204 ATCTCTTAGATTAAGGACTAGTGCACTACT
1 ATCTCTTAAATTAAGGACTAGTACACCACT
99234 ATCTAACTTAAAT
1 ATCT--CTTAAAT
99247 CCCCTTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 30 0.83
32 6 0.17
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (30 bp):
ATCTCTTAAATTAAGGACTAGTACACCACT
Found at i:107494 original size:9 final size:9
Alignment explanation
Indices: 107475--107532 Score: 55
Period size: 9 Copynumber: 6.0 Consensus size: 9
107465 TATCTTTGTA
107475 TGTTA-GTG
1 TGTTAGGTG
107483 TGTTAGGTG
1 TGTTAGGTG
107492 TGTTAGGTGAG
1 TGTTAGGT--G
*
107503 AATATTAGGTGG
1 --TGTTAGGT-G
107515 TGTTAGGTG
1 TGTTAGGTG
107524 TGTTAGGTG
1 TGTTAGGTG
107533 AGAGTATTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
8 5 0.12
9 21 0.50
10 7 0.17
11 1 0.02
12 1 0.02
13 7 0.17
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (9 bp):
TGTTAGGTG
Found at i:107523 original size:32 final size:32
Alignment explanation
Indices: 107482--107545 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
107472 GTATGTTAGT
107482 GTGTTAGGTGTGTTAGGTGAGAATATTAGGTG
1 GTGTTAGGTGTGTTAGGTGAGAATATTAGGTG
*
107514 GTGTTAGGTGTGTTAGGTGAGAGTATTAGGTG
1 GTGTTAGGTGTGTTAGGTGAGAATATTAGGTG
107546 ATGTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (32 bp):
GTGTTAGGTGTGTTAGGTGAGAATATTAGGTG
Found at i:109629 original size:34 final size:34
Alignment explanation
Indices: 109587--109670 Score: 150
Period size: 34 Copynumber: 2.5 Consensus size: 34
109577 TGTGTTAAGT
*
109587 GGTGGTGTGGTAGGTGTGTTAGGTGAGAATATTA
1 GGTGGTGTGTTAGGTGTGTTAGGTGAGAATATTA
*
109621 GGTGGTGTGTTAGGTGTGTTCGGTGAGAATATTA
1 GGTGGTGTGTTAGGTGTGTTAGGTGAGAATATTA
109655 GGTGGTGTGTTAGGTG
1 GGTGGTGTGTTAGGTG
109671 AGAGTATTAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.17, C:0.01, G:0.45, T:0.37
Consensus pattern (34 bp):
GGTGGTGTGTTAGGTGTGTTAGGTGAGAATATTA
Found at i:109664 original size:25 final size:25
Alignment explanation
Indices: 109633--109697 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
109623 TGGTGTGTTA
*
109633 GGTGTGTTCGGTGAGAATATTAGGT
1 GGTGTGTTAGGTGAGAATATTAGGT
*
109658 GGTGTGTTAGGTGAGAGTATTAGGT
1 GGTGTGTTAGGTGAGAATATTAGGT
109683 GGTGTGTTAGGTGAG
1 GGTGTGTTAGGTGAG
109698 CAATTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.18, C:0.02, G:0.45, T:0.35
Consensus pattern (25 bp):
GGTGTGTTAGGTGAGAATATTAGGT
Done.