Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 22 of 240
Found at i:7898495 original size:12 final size:12
Alignment explanation
Indices: 7898437--7898565 Score: 93
Period size: 12 Copynumber: 10.8 Consensus size: 12
7898427 AAATAACCCT
**
7898437 AAATCAAAATCA
1 AAATCAAAATTG
**
7898449 AAATCAAAATCA
1 AAATCAAAATTG
* *
7898461 AAATCGAAATCG
1 AAATCAAAATTG
7898473 AAATCAAAATTG
1 AAATCAAAATTG
7898485 AAATCAAAATTG
1 AAATCAAAATTG
*
7898497 AAATCAGTGAA-TG
1 AAATCA--AAATTG
**
7898510 -TTTCAAAATTG
1 AAATCAAAATTG
**
7898521 AAATCAAAATCA
1 AAATCAAAATTG
*
7898533 AAATCGAAATTG
1 AAATCAAAATTG
*
7898545 AAATC-AAATTA
1 AAATCAAAATTG
*
7898556 AAATTAAAAT
1 AAATCAAAAT
7898566 CAGAATAGAA
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
10 2 0.02
11 11 0.12
12 78 0.82
13 2 0.02
14 2 0.02
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.24
Consensus pattern (12 bp):
AAATCAAAATTG
Found at i:7898558 original size:29 final size:29
Alignment explanation
Indices: 7898521--7898583 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
7898511 TTCAAAATTG
* *
7898521 AAATCAAAATCAAAATC-GAAATTGAAATC
1 AAATTAAAATCAAAATCAG-AATAGAAATC
*
7898550 AAATTAAAATTAAAATCAGAATAGAAATC
1 AAATTAAAATCAAAATCAGAATAGAAATC
7898579 AAATT
1 AAATT
7898584 TGAAATTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.24
Consensus pattern (29 bp):
AAATTAAAATCAAAATCAGAATAGAAATC
Found at i:7898607 original size:16 final size:16
Alignment explanation
Indices: 7898586--7898622 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
7898576 ATCAAATTTG
*
7898586 AAATTGGAATAACCCT
1 AAATTGAAATAACCCT
7898602 AAATTGAAATAACCCT
1 AAATTGAAATAACCCT
7898618 AAATT
1 AAATT
7898623 CAAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (16 bp):
AAATTGAAATAACCCT
Found at i:7899058 original size:21 final size:20
Alignment explanation
Indices: 7899034--7899076 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
7899024 AACGTGGCAT
7899034 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAG-TG
7899055 GTTAACTTGCCACATCAGTG
1 GTTAACTTGCCACATCAGTG
7899075 GT
1 GT
7899077 CCCATTAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (20 bp):
GTTAACTTGCCACATCAGTG
Found at i:7906390 original size:19 final size:19
Alignment explanation
Indices: 7906354--7906391 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7906344 TTTTTATAAG
*
7906354 GGTGTTTTTGTTTTTTGTT
1 GGTGTTTTTGTTTGTTGTT
7906373 GGTGTTTTATG-TTGTTGTT
1 GGTGTTTT-TGTTTGTTGTT
7906392 TCGATGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (19 bp):
GGTGTTTTTGTTTGTTGTT
Found at i:7929428 original size:12 final size:13
Alignment explanation
Indices: 7929411--7929447 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
7929401 GAACCGGACA
7929411 CGAACCGAA-CTC
1 CGAACCGAAGCTC
7929423 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
7929435 CGAACCGTAGCTC
1 CGAACCGAAGCTC
7929448 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:7929791 original size:24 final size:25
Alignment explanation
Indices: 7929754--7929800 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
7929744 TCAATAATGG
*
7929754 AGCACTTTATATGGC-TAAAATTTC
1 AGCACTTTACATGGCATAAAATTTC
*
7929778 AGCACTTTGCATGGCATAAAATT
1 AGCACTTTACATGGCATAAAATT
7929801 GCTCCACGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (25 bp):
AGCACTTTACATGGCATAAAATTTC
Found at i:7933922 original size:11 final size:11
Alignment explanation
Indices: 7933906--7933933 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7933896 TAAGTAAAAC
7933906 TATTATGTTAT
1 TATTATGTTAT
7933917 TATTATGTTAT
1 TATTATGTTAT
7933928 TATTAT
1 TATTAT
7933934 TTTAATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (11 bp):
TATTATGTTAT
Found at i:7934810 original size:40 final size:41
Alignment explanation
Indices: 7934742--7934831 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
7934732 AGCTGCATTA
* * *
7934742 TGAAA-TACTGAATATTGTTTTTGAGTACTGAATTGAATTG
1 TGAAATTACTAAATATTGTTTATGAGTACTGAATTGAACTG
* * * *
7934782 TGAAGTTACTAAATATTG-TTATGTGTACTGCATTTAACTG
1 TGAAATTACTAAATATTGTTTATGAGTACTGAATTGAACTG
7934822 TGAAATTACT
1 TGAAATTACT
7934832 GAAGTAATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 30 0.73
41 11 0.27
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (41 bp):
TGAAATTACTAAATATTGTTTATGAGTACTGAATTGAACTG
Found at i:7935107 original size:45 final size:45
Alignment explanation
Indices: 7935038--7935138 Score: 132
Period size: 45 Copynumber: 2.2 Consensus size: 45
7935028 GCCGACTACT
* * *
7935038 GTTACTGTTACCAATTCGATACTTTGTGTGTCGGATACTGTTACC
1 GTTACTGTTACAAATTCGACACTTTGTGTGTCGAATACTGTTACC
* *
7935083 GTTACTGTTACAAATTC-AGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAAATTCGA-CACTTTGTGTGTCGAATACTGTTACC
*
7935128 GTTATTGTTAC
1 GTTACTGTTAC
7935139 TGCTACCGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 48 0.98
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (45 bp):
GTTACTGTTACAAATTCGACACTTTGTGTGTCGAATACTGTTACC
Found at i:7937635 original size:46 final size:46
Alignment explanation
Indices: 7937568--7937722 Score: 204
Period size: 46 Copynumber: 3.6 Consensus size: 46
7937558 TTTGAGTACT
*
7937568 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
7937614 TCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
7937650 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
7937696 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
7937723 TGATCAAGTG
Statistics
Matches: 94, Mismatches: 5, Indels: 20
0.79 0.04 0.17
Matches are distributed among these distances:
36 30 0.32
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 56 0.60
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:7937645 original size:36 final size:36
Alignment explanation
Indices: 7937604--7937676 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
7937594 GGTAGCTTTA
*
7937604 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGT
*
7937640 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGT
7937676 G
1 G
7937677 GTAGCTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGT
Found at i:7937732 original size:25 final size:25
Alignment explanation
Indices: 7937698--7937747 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
7937688 TACACTTATC
7937698 TGATCAAGTGACAAAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
7937723 TGATCAAGTGACAAAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
7937748 GTAGCCTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (25 bp):
TGATCAAGTGACAAAGTGATAAGTG
Found at i:7937736 original size:71 final size:68
Alignment explanation
Indices: 7937652--7937790 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 68
7937642 TACACTTATC
* *
7937652 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGAGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AGGGAC-AAGTGA
7937717 TAAGTG
63 TAAGTG
*
7937723 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAA
1 TGATCAAGAGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAA
7937788 GTG
66 GTG
7937791 ATCATACGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
68 12 0.18
69 5 0.08
70 19 0.29
71 29 0.45
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (68 bp):
TGATCAAGAGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAA
GTG
Found at i:7940999 original size:45 final size:45
Alignment explanation
Indices: 7940922--7941028 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
7940912 TAATCAGTAA
* *
7940922 CGGTAGCAGTAACAGTAACAGTATTCAGCACACAAAGTGCT-GAAT
1 CGGTAACAGTAACAGTAACAGTATGCAGCACACAAAGTG-TAGAAT
** * *
7940967 TTGTTACAGTAACAGTAACAGTATGC-GACACACAATGTGTAGAAT
1 CGGTAACAGTAACAGTAACAGTATGCAG-CACACAAAGTGTAGAAT
7941012 CGGTAACAGTAACAGTA
1 CGGTAACAGTAACAGTA
7941029 GTTGGCATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 2 0.04
45 49 0.96
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (45 bp):
CGGTAACAGTAACAGTAACAGTATGCAGCACACAAAGTGTAGAAT
Found at i:7941274 original size:40 final size:40
Alignment explanation
Indices: 7941228--7941320 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
7941218 AATTCATTAC
* *
7941228 TTCAGTAATTTCACAGTTCAATGCAGTA-CACATAACAATA
1 TTCAGTAATTTCACAATTCAATGCAGTATCA-AAAACAATA
* *
7941268 TTCAGTAACTTCACAATTCAATTCAGTATTCAAAAACAATA
1 TTCAGTAATTTCACAATTCAATGCAGTA-TCAAAAACAATA
7941309 TTCAGT-ATTTCA
1 TTCAGTAATTTCA
7941321 TAATGCAGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 30 0.65
41 14 0.30
42 2 0.04
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (40 bp):
TTCAGTAATTTCACAATTCAATGCAGTATCAAAAACAATA
Found at i:7941293 original size:21 final size:21
Alignment explanation
Indices: 7941228--7941295 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
7941218 AATTCATTAC
* *
7941228 TTCAGTAATTTCACAGTTCAA
1 TTCAGTAACTTCACAATTCAA
* * *
7941249 TGCAGTACACATAACAA-T--A
1 TTCAGTA-ACTTCACAATTCAA
7941268 TTCAGTAACTTCACAATTCAA
1 TTCAGTAACTTCACAATTCAA
7941289 TTCAGTA
1 TTCAGTA
7941296 TTCAAAAACA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
21 15 0.43
22 5 0.14
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (21 bp):
TTCAGTAACTTCACAATTCAA
Found at i:7942045 original size:14 final size:14
Alignment explanation
Indices: 7942021--7942069 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
7942011 CCTATTTTTC
7942021 CTTTTTCTTTTCTTT
1 CTTTTT-TTTTCTTT
*
7942036 CTTTTTTTTTCCTT
1 CTTTTTTTTTCTTT
**
7942050 CTTTCCTTTTCTTT
1 CTTTTTTTTTCTTT
7942064 CTTTTT
1 CTTTTT
7942070 CCTTCTTTCC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 22 0.79
15 6 0.21
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTTTTTTTTCTTT
Found at i:7942051 original size:18 final size:18
Alignment explanation
Indices: 7942030--7942081 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
7942020 CCTTTTTCTT
* *
7942030 TTCTTTCTTTTTTTTTCC
1 TTCTTTCCTTTTCTTTCC
7942048 TTCTTTCCTTTTCTTT-C
1 TTCTTTCCTTTTCTTTCC
7942065 TT-TTTCC--TTCTTTCC
1 TTCTTTCCTTTTCTTTCC
7942080 TT
1 TT
7942082 TCTCTGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.19
15 3 0.10
16 5 0.16
17 3 0.10
18 14 0.45
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTTTCCTTTTCTTTCC
Found at i:7942060 original size:24 final size:24
Alignment explanation
Indices: 7942025--7942082 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
7942015 TTTTTCCTTT
* *
7942025 TTCTTTTC-TTTCTTTTTTTTTCC
1 TTCTTTCCTTTTCTTTCTTTTTCC
7942048 TTCTTTCCTTTTCTTTCTTTTTCC
1 TTCTTTCCTTTTCTTTCTTTTTCC
7942072 TTCTTTCCTTT
1 TTCTTTCCTTT
7942083 CTCTGTTTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 7 0.22
24 25 0.78
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (24 bp):
TTCTTTCCTTTTCTTTCTTTTTCC
Found at i:7942075 original size:14 final size:14
Alignment explanation
Indices: 7942015--7942078 Score: 59
Period size: 14 Copynumber: 5.0 Consensus size: 14
7942005 AAAAACCCTA
7942015 TTTTTCCTT-TTTC
1 TTTTTCCTTCTTTC
* *
7942028 -TTTTCTTTCTTTT
1 TTTTTCCTTCTTTC
7942041 TTTTTCCTTCTTTC
1 TTTTTCCTTCTTTC
*
7942055 --CTT--TTCTTTC
1 TTTTTCCTTCTTTC
7942065 TTTTTCCTTCTTTC
1 TTTTTCCTTCTTTC
7942079 CTTTCTCTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
10 7 0.18
12 11 0.28
13 3 0.08
14 18 0.46
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTCCTTCTTTC
Found at i:7942130 original size:13 final size:14
Alignment explanation
Indices: 7942112--7942140 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7942102 TCTGTTTTAT
7942112 TTCTTTT-TTTCTA
1 TTCTTTTATTTCTA
7942125 TTCTTTTATTTCTA
1 TTCTTTTATTTCTA
7942139 TT
1 TT
7942141 ATGTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (14 bp):
TTCTTTTATTTCTA
Found at i:7942331 original size:22 final size:20
Alignment explanation
Indices: 7942306--7942346 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
7942296 AATAATATAA
7942306 TATAACATAATATAATATATTT
1 TATAA-ATAA-ATAATATATTT
*
7942328 TATAATTAAATAATATATT
1 TATAAATAAATAATATATT
7942347 AATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAAATAAATAATATATTT
Found at i:7944531 original size:28 final size:30
Alignment explanation
Indices: 7944500--7944623 Score: 96
Period size: 29 Copynumber: 4.2 Consensus size: 30
7944490 GTTTTTCAGT
*
7944500 TTTTAAGGGCCCAAAATTTTTTTT-T-AAC
1 TTTTAAAGGCCCAAAATTTTTTTTATCAAC
*
7944528 TTTTAAAGG-TCAAAATTTTTTTTATCAAC
1 TTTTAAAGGCCCAAAATTTTTTTTATCAAC
* * * *
7944557 TTTTGATGGCCC-AAATTTCTTTTACCAAC
1 TTTTAAAGGCCCAAAATTTTTTTTATCAAC
* * ** *
7944586 ATTTAAGAGACTTAAAATTTTTTTCT-CCAAC
1 TTTTAA-AGGCCCAAAATTTTTTT-TATCAAC
7944617 TTTTAAA
1 TTTTAAA
7944624 AATTTTAAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
27 13 0.17
28 9 0.12
29 29 0.39
30 4 0.05
31 19 0.25
32 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.45
Consensus pattern (30 bp):
TTTTAAAGGCCCAAAATTTTTTTTATCAAC
Found at i:7945733 original size:11 final size:10
Alignment explanation
Indices: 7945701--7945735 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
7945691 GTTTTTTAAG
7945701 TTTTATAATA
1 TTTTATAATA
7945711 TTTTATAATA
1 TTTTATAATA
*
7945721 TTTATATATTA
1 TTT-TATAATA
7945732 TTTT
1 TTTT
7945736 CACTTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTATAATA
Found at i:7945761 original size:8 final size:8
Alignment explanation
Indices: 7945745--7945777 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
7945735 TCACTTTCTA
7945745 AATTTTAT
1 AATTTTAT
*
7945753 AATTATAT
1 AATTTTAT
7945761 -ATTTTAT
1 AATTTTAT
7945768 AATTTTAT
1 AATTTTAT
7945776 AA
1 AA
7945778 AAAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
AATTTTAT
Found at i:7945764 original size:15 final size:15
Alignment explanation
Indices: 7945746--7945776 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7945736 CACTTTCTAA
7945746 ATTTTATAATTATAT
1 ATTTTATAATTATAT
*
7945761 ATTTTATAATTTTAT
1 ATTTTATAATTATAT
7945776 A
1 A
7945777 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTATAATTATAT
Found at i:7945775 original size:23 final size:23
Alignment explanation
Indices: 7945703--7945777 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 23
7945693 TTTTTAAGTT
7945703 TTATAATATTTTATAATATTTATATA
1 TTAT-ATATTTTATAAT-TTTATA-A
*
7945729 TTATTTTCACTTTCTA-AATTTTATAA
1 TTA-TAT-A-TTT-TATAATTTTATAA
7945755 TTATATATTTTATAATTTTATAA
1 TTATATATTTTATAATTTTATAA
7945778 AAAAATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
22 2 0.05
23 13 0.31
24 1 0.02
25 2 0.05
26 8 0.19
27 8 0.19
28 6 0.14
29 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATATATTTTATAATTTTATAA
Found at i:7947235 original size:12 final size:12
Alignment explanation
Indices: 7947212--7947254 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
7947202 CCAGCACTTT
*
7947212 CAACAACAACAA
1 CAACAGCAACAA
*
7947224 CACCAGCAACAA
1 CAACAGCAACAA
* *
7947236 CAACAGCATCAG
1 CAACAGCAACAA
7947248 CAACAGC
1 CAACAGC
7947255 TGTGGCTCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.51, C:0.37, G:0.09, T:0.02
Consensus pattern (12 bp):
CAACAGCAACAA
Found at i:7947235 original size:18 final size:18
Alignment explanation
Indices: 7947212--7947252 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
7947202 CCAGCACTTT
7947212 CAACAACAACAACACCAG
1 CAACAACAACAACACCAG
* *
7947230 CAACAACAACAGCATCAG
1 CAACAACAACAACACCAG
7947248 CAACA
1 CAACA
7947253 GCTGTGGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.37, G:0.07, T:0.02
Consensus pattern (18 bp):
CAACAACAACAACACCAG
Found at i:7953586 original size:2 final size:2
Alignment explanation
Indices: 7953579--7953606 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7953569 AGCATGGATG
7953579 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
7953607 AAAGGCAATA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7961273 original size:7 final size:7
Alignment explanation
Indices: 7961261--7961288 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
7961251 AACTGGTAAA
7961261 TGGAAAT
1 TGGAAAT
7961268 TGGAAAT
1 TGGAAAT
7961275 TGGAAAT
1 TGGAAAT
7961282 TGGAAAT
1 TGGAAAT
7961289 AACTTTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
TGGAAAT
Found at i:7961858 original size:24 final size:24
Alignment explanation
Indices: 7961809--7961858 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
7961799 TACAATATAA
*
7961809 TATTATTATAATATTTAATCTCAT
1 TATTATTATAATATTTAATCTAAT
* *
7961833 TATTATTATTATTTTTACA-CTAAT
1 TATTATTATAATATTTA-ATCTAAT
7961857 TA
1 TA
7961859 GTAAACATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTATTATAATATTTAATCTAAT
Found at i:7966688 original size:28 final size:29
Alignment explanation
Indices: 7966656--7966711 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
7966646 AAAACTTTTT
* *
7966656 ATTATTTATGAAAAT-ATCCATTTTAAAA
1 ATTATGTACGAAAATGATCCATTTTAAAA
* *
7966684 ATTATGTACGTAAATGATTCATTTTAAA
1 ATTATGTACGAAAATGATCCATTTTAAA
7966712 CAGTAAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (29 bp):
ATTATGTACGAAAATGATCCATTTTAAAA
Found at i:7966977 original size:26 final size:27
Alignment explanation
Indices: 7966938--7966989 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
7966928 ATTAAATTGA
*
7966938 AATAACCTTTAAAAAATAT-TAAAAAC
1 AATAACCTTAAAAAAATATATAAAAAC
* *
7966964 AATAATCTTAAAAAATTATATAAAAA
1 AATAACCTTAAAAAAATATATAAAAA
7966990 TCTTATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (27 bp):
AATAACCTTAAAAAAATATATAAAAAC
Found at i:7967970 original size:21 final size:23
Alignment explanation
Indices: 7967947--7967994 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
7967937 TTCCATTTTT
*
7967947 AAATTTTTTT-TATATTTTTATA
1 AAATTTTTTTGAATATTTTTATA
*
7967969 AAATTTTTTTGAATATTTTTAAA
1 AAATTTTTTTGAATATTTTTATA
7967992 AAA
1 AAA
7967995 ATCATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
AAATTTTTTTGAATATTTTTATA
Found at i:7968206 original size:33 final size:32
Alignment explanation
Indices: 7968145--7968208 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
7968135 AATTTTAAAA
7968145 TTTTAAAAATAAAAATAAAAATACATATAATTT
1 TTTTAAAAATAAAAATAAAAATA-ATATAATTT
*
7968178 TTTTAAAATTAATAAATTAAAAAT-ATATAAT
1 TTTTAAAAATAA-AAA-TAAAAATAATATAAT
7968209 AAATTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 18 0.64
34 3 0.11
35 7 0.25
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
TTTTAAAAATAAAAATAAAAATAATATAATTT
Found at i:7968208 original size:18 final size:17
Alignment explanation
Indices: 7968182--7968222 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
7968172 TAATTTTTTT
7968182 AAAAT-TAATAAATTAA
1 AAAATATAATAAATTAA
7968198 AAATATATAATAAATTAA
1 AAA-ATATAATAAATTAA
7968216 AAAATAT
1 AAAATAT
7968223 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.13
17 6 0.26
18 14 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATAATAAATTAA
Found at i:7968394 original size:17 final size:16
Alignment explanation
Indices: 7968374--7968415 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
7968364 ATTTTAGAAA
*
7968374 TTTAAAAATATATAAAT
1 TTTAAAAA-ATAAAAAT
7968391 TTTAAAAAATAAAAAT
1 TTTAAAAAATAAAAAT
*
7968407 TATAAAAAA
1 TTTAAAAAA
7968416 GTTAATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTTAAAAAATAAAAAT
Found at i:7975034 original size:10 final size:10
Alignment explanation
Indices: 7975014--7975094 Score: 60
Period size: 10 Copynumber: 8.1 Consensus size: 10
7975004 ATTTAAATAT
*
7975014 TATAGAATTA
1 TATAAAATTA
*
7975024 TAGAAAATTA
1 TATAAAATTA
*
7975034 TATAAATATAA
1 TATAAA-ATTA
*
7975045 T-TAAAATGA
1 TATAAAATTA
*
7975054 TA-AAAATTC
1 TATAAAATTA
7975063 TATAAAATTAA
1 TATAAAATT-A
*
7975074 TAAAAAATTA
1 TATAAAATTA
7975084 TA-AAAACTTA
1 TATAAAA-TTA
7975094 T
1 T
7975095 TGAAAGTATA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
9 15 0.26
10 30 0.53
11 12 0.21
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (10 bp):
TATAAAATTA
Found at i:7975039 original size:29 final size:29
Alignment explanation
Indices: 7975007--7975078 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
7974997 TTTAAATATT
* *
7975007 TAAATATTA-TAGAATTATAGAAAATTATA
1 TAAATATTATTAAAATGATA-AAAATTATA
* *
7975036 TAAATATAATTAAAATGATAAAAATTCTA
1 TAAATATTATTAAAATGATAAAAATTATA
*
7975065 TAAA-ATTAATAAAA
1 TAAATATTATTAAAA
7975079 AATTATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 8 0.22
29 20 0.56
30 8 0.22
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (29 bp):
TAAATATTATTAAAATGATAAAAATTATA
Found at i:7975079 original size:29 final size:30
Alignment explanation
Indices: 7975027--7975094 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
7975017 AGAATTATAG
*
7975027 AAAATTATATAAATATAAT-TAAAATGATA
1 AAAATTATATAAATATAATAAAAAATGATA
* *
7975056 AAAATTCTATAAA-ATTAATAAAAAATTATA
1 AAAATTATATAAATA-TAATAAAAAATGATA
7975086 AAAACTTAT
1 AAAA-TTAT
7975095 TGAAAGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 16 0.50
30 12 0.38
31 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAATTATATAAATATAATAAAAAATGATA
Found at i:7981006 original size:22 final size:21
Alignment explanation
Indices: 7980965--7981009 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
7980955 TCCAACTTAA
*
7980965 TTTAAATATAATAAATTAATT
1 TTTAAATATAATAAAATAATT
7980986 TTTAAATTATAA-ACAAATAATT
1 TTTAAA-TATAATA-AAATAATT
7981008 TT
1 TT
7981010 ATTCTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTAAATATAATAAAATAATT
Found at i:7985840 original size:20 final size:21
Alignment explanation
Indices: 7985815--7985864 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
7985805 AAACTTTATT
*
7985815 TAATATTTTATAAATTT-TAA
1 TAATATTTTACAAATTTATAA
7985835 TAATA-TTTACAAATTTATAA
1 TAATATTTTACAAATTTATAA
*
7985855 AAATAATTTT
1 TAAT-ATTTT
7985865 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 10 0.40
20 11 0.44
21 1 0.04
22 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATATTTTACAAATTTATAA
Found at i:7994014 original size:7 final size:7
Alignment explanation
Indices: 7994002--7994032 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7993992 ATAGTTCAAA
7994002 ATTATAT
1 ATTATAT
7994009 ATTATAT
1 ATTATAT
7994016 ATTATAT
1 ATTATAT
*
7994023 ATTATTT
1 ATTATAT
7994030 ATT
1 ATT
7994033 TCTATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
ATTATAT
Found at i:7995683 original size:31 final size:31
Alignment explanation
Indices: 7995647--7995708 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
7995637 AACGGATTCA
7995647 GAATTAATTATAATTGGATCAAGTCTAATGT
1 GAATTAATTATAATTGGATCAAGTCTAATGT
* *
7995678 GAATTAATTATACTTGGGTCAAGTCTAATGT
1 GAATTAATTATAATTGGATCAAGTCTAATGT
7995709 ATCATTCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (31 bp):
GAATTAATTATAATTGGATCAAGTCTAATGT
Found at i:8000355 original size:26 final size:28
Alignment explanation
Indices: 8000325--8000377 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
8000315 ATAATTATTG
*
8000325 AAAAATAAA-ATAAATATATTTTTTTTT
1 AAAATTAAATATAAATATATTTTTTTTT
*
8000352 AAAATTAAATATTAATATATTTTTTT
1 AAAATTAAATATAAATATATTTTTTT
8000378 AAAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
AAAATTAAATATAAATATATTTTTTTTT
Found at i:8000383 original size:28 final size:26
Alignment explanation
Indices: 8000325--8000383 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
8000315 ATAATTATTG
*
8000325 AAAAATAAAATAAATATATTTTTTTTT
1 AAAAATAAAATAAATATA-TTTTTTTA
* *
8000352 AAAATTAAATATTAATATATTTTTTTA
1 AAAAATAAA-ATAAATATATTTTTTTA
8000379 AAAAA
1 AAAAA
8000384 ATAACAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AAAAATAAAATAAATATATTTTTTTA
Found at i:8001997 original size:12 final size:12
Alignment explanation
Indices: 8001973--8002005 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
8001963 AATCAAATTA
8001973 GTATATA-TTTT
1 GTATATATTTTT
8001984 GTATATATTTTT
1 GTATATATTTTT
8001996 GTATATATTT
1 GTATATATTT
8002006 CATTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (12 bp):
GTATATATTTTT
Found at i:8002000 original size:23 final size:22
Alignment explanation
Indices: 8001973--8002027 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
8001963 AATCAAATTA
* *
8001973 GTATATATTTTGTATATATTTTT
1 GTATATATTTT-CATATAATTTT
*
8001996 GTATATA-TTTCATTTAATTTT
1 GTATATATTTTCATATAATTTT
8002017 GTATATATTTT
1 GTATATATTTT
8002028 TATGTCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.54
22 6 0.21
23 7 0.25
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (22 bp):
GTATATATTTTCATATAATTTT
Found at i:8003181 original size:72 final size:72
Alignment explanation
Indices: 8003104--8003287 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
8003094 TATTATTATT
8003104 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
8003169 TTTTAAG
66 TTTTAAG
8003176 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
8003241 TTTTAAG
66 TTTTAAG
*
8003248 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
8003288 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:8004120 original size:27 final size:25
Alignment explanation
Indices: 8004082--8004132 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
8004072 TATATGTATG
*
8004082 TTTTTAGTAAATTTATATATTTTTAAT
1 TTTTTAGTAAATAT-TA-ATTTTTAAT
8004109 TTTTTA-TAAAATATTAATTTTTAA
1 TTTTTAGT-AAATATTAATTTTTAA
8004133 GTTATTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 8 0.36
26 3 0.14
27 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTTAGTAAATATTAATTTTTAAT
Found at i:8005511 original size:17 final size:17
Alignment explanation
Indices: 8005489--8005523 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8005479 TTTATTACTA
8005489 TTTTT-ATTATATACACT
1 TTTTTAATT-TATACACT
8005506 TTTTTAATTTATACACT
1 TTTTTAATTTATACACT
8005523 T
1 T
8005524 GTACCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAATTTATACACT
Found at i:8006695 original size:10 final size:10
Alignment explanation
Indices: 8006661--8006713 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
8006651 GAATAATATA
8006661 AAAAATTTAT
1 AAAAATTTAT
* *
8006671 AATATATAATAT
1 AA-AAAT-TTAT
8006683 AAAAATTTAT
1 AAAAATTTAT
8006693 AAAAATTTAT
1 AAAAATTTAT
8006703 --AAATTTAT
1 AAAAATTTAT
8006711 AAA
1 AAA
8006714 TATACATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 8 0.23
10 16 0.46
11 6 0.17
12 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:8007032 original size:15 final size:14
Alignment explanation
Indices: 8007012--8007058 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 14
8007002 TTCCTTTTTG
8007012 TTAATTTATATATTT
1 TTAATTTATA-ATTT
*
8007027 TTAATTTTTAATTT
1 TTAATTTATAATTT
8007041 TTAA--TAT-ATTT
1 TTAATTTATAATTT
8007052 TTAATTT
1 TTAATTT
8007059 TAAAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
13 1 0.04
14 8 0.29
15 9 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTAATTTATAATTT
Found at i:8007059 original size:7 final size:7
Alignment explanation
Indices: 8007012--8007045 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
8007002 TTCCTTTTTG
8007012 TTAATTT
1 TTAATTT
*
8007019 ATATATTT
1 TTA-ATTT
8007027 TTAATTT
1 TTAATTT
8007034 TTAATTT
1 TTAATTT
8007041 TTAAT
1 TTAAT
8007046 ATATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTAATTT
Found at i:8007070 original size:25 final size:25
Alignment explanation
Indices: 8007019--8007073 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
8007009 TTGTTAATTT
* * **
8007019 ATATATTTTTAATTTTTAATTTTTA
1 ATATATTTTTAATTTTAAAATAATA
8007044 ATATATTTTTAATTTTAAAATAATA
1 ATATATTTTTAATTTTAAAATAATA
8007069 ATATA
1 ATATA
8007074 AATAACCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATATTTTTAATTTTAAAATAATA
Found at i:8008582 original size:9 final size:9
Alignment explanation
Indices: 8008565--8008601 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
8008555 TGAGTTTTCG
8008565 AATTCGAAT
1 AATTCGAAT
*
8008574 AACTCGAAT
1 AATTCGAAT
8008583 AATTCGAAT
1 AATTCGAAT
8008592 AATTCGAAT
1 AATTCGAAT
8008601 A
1 A
8008602 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8008844 original size:25 final size:25
Alignment explanation
Indices: 8008816--8008863 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8008806 AACCTTTTAT
*
8008816 TTTCCCCCAAAATTTTTACTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCAC
* *
8008841 TTTCCCCTAAAACTTTTATTCCC
1 TTTCCCCCAAAACTTTTACTCCC
8008864 TTCTCACCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTCCCCCAAAACTTTTACTCCCAC
Found at i:8010008 original size:10 final size:11
Alignment explanation
Indices: 8009977--8010005 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
8009967 TGATATTAGA
8009977 GATATTTTAAT
1 GATATTTTAAT
8009988 GATATTTTAAT
1 GATATTTTAAT
8009999 GATATTT
1 GATATTT
8010006 AATTAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (11 bp):
GATATTTTAAT
Found at i:8011896 original size:45 final size:46
Alignment explanation
Indices: 8011832--8011923 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
8011822 ACGAATAATG
* * * *
8011832 TTATGTATTTAATATATTGTT-GAAAAATGGAATGTTGTTAAATTA
1 TTATGTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTA
*
8011877 TTATGTATTTAGCATATTGTTAAAAAAATGAAATATTGTTAAATTA
1 TTATGTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTA
8011923 T
1 T
8011924 GAATTGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 19 0.46
46 22 0.54
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (46 bp):
TTATGTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTA
Found at i:8012009 original size:24 final size:24
Alignment explanation
Indices: 8011982--8012029 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8011972 TCGTTTTGTG
*
8011982 GCAAAGGATCAATTGA-AGACAAAT
1 GCAAAGGATAAATTGACAG-CAAAT
8012006 GCAAAGGATAAATTGACAGCAAAT
1 GCAAAGGATAAATTGACAGCAAAT
8012030 TACCCAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.17
Consensus pattern (24 bp):
GCAAAGGATAAATTGACAGCAAAT
Found at i:8012206 original size:42 final size:43
Alignment explanation
Indices: 8012120--8012241 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 43
8012110 CTCATATGAG
* ***
8012120 TTTCAGTTTAACCCTTATAGGTTTTTGTTCAGCTCTTTTTAGC
1 TTTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGC
8012163 -TTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGC
1 TTTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGC
* * * * *
8012205 TTTCA-TTCAAACCTTATGGGTTTCTGTTTAGCACTTA
1 TTTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTA
8012242 TGTGCTTCTG
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 65 0.94
43 4 0.06
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.47
Consensus pattern (43 bp):
TTTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGC
Found at i:8014001 original size:41 final size:40
Alignment explanation
Indices: 8013956--8014057 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 40
8013946 TGATTCAGTA
8013956 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
8013997 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
* *
8014038 CACCGTCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
8014058 AGCGCTAAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
40 2 0.04
41 50 0.93
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:8015753 original size:30 final size:32
Alignment explanation
Indices: 8015693--8015756 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
8015683 CACTTATTTT
8015693 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
8015726 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
8015757 ATATACATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:8016020 original size:41 final size:41
Alignment explanation
Indices: 8015975--8016171 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
8015965 ACCGGCTCTT
*
8015975 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
8016016 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
8016057 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
8016098 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGTATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
8016139 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
8016172 TAACGATAAA
Statistics
Matches: 147, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 138 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:8017723 original size:13 final size:13
Alignment explanation
Indices: 8017705--8017729 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8017695 CCATCGAATG
8017705 CACACAAAATAAA
1 CACACAAAATAAA
8017718 CACACAAAATAA
1 CACACAAAATAA
8017730 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:8021972 original size:46 final size:44
Alignment explanation
Indices: 8021912--8022026 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
8021902 ACAGAACAGA
* *
8021912 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
8021958 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
8022002 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
8022027 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:8022007 original size:44 final size:45
Alignment explanation
Indices: 8021912--8022045 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
8021902 ACAGAACAGA
* *
8021912 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
8021958 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
8022002 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
8022046 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:8026014 original size:30 final size:32
Alignment explanation
Indices: 8025954--8026017 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
8025944 CACTTATTTT
8025954 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
8025987 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
8026018 ATATATATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:8026285 original size:41 final size:41
Alignment explanation
Indices: 8026240--8026436 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
8026230 ACCGGCTCTT
*
8026240 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
8026281 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
8026322 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
8026363 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
8026404 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
8026437 TAACGATAAA
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 139 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:8027990 original size:13 final size:13
Alignment explanation
Indices: 8027972--8027996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8027962 CCATCGAATG
8027972 CACACAAAATAAA
1 CACACAAAATAAA
8027985 CACACAAAATAA
1 CACACAAAATAA
8027997 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:8028806 original size:13 final size:13
Alignment explanation
Indices: 8028788--8028812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8028778 CAATCAGATG
8028788 CACACAAAATAAA
1 CACACAAAATAAA
8028801 CACACAAAATAA
1 CACACAAAATAA
8028813 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:8031922 original size:42 final size:43
Alignment explanation
Indices: 8031871--8031970 Score: 139
Period size: 42 Copynumber: 2.3 Consensus size: 43
8031861 GATTTGAGAT
*
8031871 TTACGTGTAAGACCATATCTGGGACATTAGCATCG-TATATGA
1 TTACGTGTAAGACCATATCTGGGACAGTAGCATCGATATATGA
* * * *
8031913 TTACGTGTAAGACCCTATCTGGGACAGTGGCATTGATATTTGA
1 TTACGTGTAAGACCATATCTGGGACAGTAGCATCGATATATGA
*
8031956 TTACTTGTAAGACCA
1 TTACGTGTAAGACCA
8031971 CGTTTGGGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 31 0.62
43 19 0.38
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
TTACGTGTAAGACCATATCTGGGACAGTAGCATCGATATATGA
Found at i:8031979 original size:43 final size:44
Alignment explanation
Indices: 8031832--8031990 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 44
8031822 TGTGTTATCA
* * *
8031832 TGTAAGACCACGTCTT-GGACGTTGGCATGGAT-TTGAGATTTACG
1 TGTAAGACCACGTATTGGGACGTTGGCATTGATATT-TGA-TTACG
* * * *
8031876 TGTAAGACCA--TATCTGGGACATTAGCATCG-TATATGATTACG
1 TGTAAGACCACGTAT-TGGGACGTTGGCATTGATATTTGATTACG
*
8031918 TGTAAGACC-C-TATCTGGGACAG-TGGCATTGATATTTGATTACT
1 TGTAAGACCACGTAT-TGGGAC-GTTGGCATTGATATTTGATTACG
8031961 TGTAAGACCACGT-TTGGGACGTTGGCATTG
1 TGTAAGACCACGTATTGGGACGTTGGCATTG
8031991 TACGAGATTT
Statistics
Matches: 95, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
42 33 0.35
43 37 0.39
44 24 0.25
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACGTATTGGGACGTTGGCATTGATATTTGATTACG
Found at i:8049741 original size:27 final size:27
Alignment explanation
Indices: 8049711--8049762 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
8049701 AACTCTAAAC
8049711 CCAAACTCAAACCCTAAACCTTAAATT
1 CCAAACTCAAACCCTAAACCTTAAATT
* * *
8049738 CCAAATTCAAACCTTGAACCTTAAA
1 CCAAACTCAAACCCTAAACCTTAAA
8049763 GTTCAGGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.23
Consensus pattern (27 bp):
CCAAACTCAAACCCTAAACCTTAAATT
Found at i:8050650 original size:14 final size:15
Alignment explanation
Indices: 8050626--8050659 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8050616 AGATGAAACT
*
8050626 AATAGTTAAAAATTG
1 AATAGTTAAAAATTA
8050641 AATA-TTAAAAATTA
1 AATAGTTAAAAATTA
8050655 AATAG
1 AATAG
8050660 AGCTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (15 bp):
AATAGTTAAAAATTA
Found at i:8053616 original size:12 final size:12
Alignment explanation
Indices: 8053581--8053619 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
8053571 AAACTGAAAA
8053581 AATGGAAAATTG
1 AATGGAAAATTG
8053593 AATGGTGAAAAATTG
1 AAT-G-G-AAAATTG
8053608 AATGGAAAATTG
1 AATGGAAAATTG
8053620 CATTTGATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 10 0.42
13 2 0.08
14 2 0.08
15 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (12 bp):
AATGGAAAATTG
Found at i:8054645 original size:9 final size:10
Alignment explanation
Indices: 8054607--8054647 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
8054597 AGATAAATAT
*
8054607 TTAAAAATTA
1 TTAAGAATTA
8054617 TTAAGAATTA
1 TTAAGAATTA
8054627 -TAAGAGATTA
1 TTAAGA-ATTA
8054637 TTAA-AATTA
1 TTAAGAATTA
8054646 TT
1 TT
8054648 TTAAATTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 11 0.39
10 14 0.50
11 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
TTAAGAATTA
Found at i:8057529 original size:95 final size:93
Alignment explanation
Indices: 8057368--8057553 Score: 336
Period size: 95 Copynumber: 2.0 Consensus size: 93
8057358 AATCTGATCG
8057368 CAATTAAGCGGGATAAAGAAATGACATAATAAAATAAAATTTGAGATAAACCCCAAAATTACACA
1 CAATTAAGCGGGATAAAGAAATGACATAATAAAATAAAATTTGAGATAAACCCCAAAATTACACA
*
8057433 TTAATTTTGATTTAATGTGAAATTGTCA
66 TTAATTTTGATTTAATATGAAATTGTCA
*
8057461 CAATTAAGCGGGATAAAGATAAATGACATAATAAAATAAAATTTGAGATAAACCTCAAAATTACA
1 CAATTAAGCGGGATAAAG--AAATGACATAATAAAATAAAATTTGAGATAAACCCCAAAATTACA
8057526 CATTAATTTTGATTTAATATGAAATTGT
64 CATTAATTTTGATTTAATATGAAATTGT
8057554 TTACATGAAT
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
93 18 0.20
95 71 0.80
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (93 bp):
CAATTAAGCGGGATAAAGAAATGACATAATAAAATAAAATTTGAGATAAACCCCAAAATTACACA
TTAATTTTGATTTAATATGAAATTGTCA
Found at i:8088538 original size:31 final size:31
Alignment explanation
Indices: 8088500--8088562 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
8088490 TACCACAAAT
*
8088500 AGAACTCTGGGTATGGTAATGGGAGAGAATC
1 AGAACTCTGGATATGGTAATGGGAGAGAATC
8088531 AGAACTCTGGATATGGTAATGGGAGAGAATC
1 AGAACTCTGGATATGGTAATGGGAGAGAATC
8088562 A
1 A
8088563 TTTTTGGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.33, T:0.22
Consensus pattern (31 bp):
AGAACTCTGGATATGGTAATGGGAGAGAATC
Found at i:8092141 original size:16 final size:16
Alignment explanation
Indices: 8092120--8092188 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
8092110 TTTGGTTCGC
8092120 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8092136 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8092152 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
8092169 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8092185 TGTA
1 TGTA
8092189 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8092166 original size:33 final size:32
Alignment explanation
Indices: 8092120--8092188 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
8092110 TTTGGTTCGC
8092120 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
8092152 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
8092185 TGTA
1 TGTA
8092189 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:8092253 original size:44 final size:45
Alignment explanation
Indices: 8092169--8092259 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
8092159 GGATTAGAGG
* * *
8092169 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
8092214 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
8092258 TG
1 TG
8092260 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:8092445 original size:18 final size:17
Alignment explanation
Indices: 8092424--8092458 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8092414 TTATTATTAA
*
8092424 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8092442 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8092459 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8092776 original size:66 final size:65
Alignment explanation
Indices: 8092704--8092901 Score: 161
Period size: 66 Copynumber: 3.2 Consensus size: 65
8092694 GAAATTCTTA
*
8092704 ATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTCTTATATTAATTTACT-AAATCATAATATATAATACTGTAAAATATAAATTAA
8092769 C
65 C
* ** * * *
8092770 ATAATTATTATT-AAATA-TAATTTAAT-AA--A-AATATATAAT-TTAGTAAAAT-T--CTT-A
1 ATAATTAATATTCTTATATTAATTTACTAAATCATAATATATAATACT-GTAAAATATAAATTAA
8092824 -
65 C
* * * *
8092824 AT-ATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTTA
1 ATAATT-AATATTCTTATATTAATTTACT-AAATCATAATATATAATACTGTAAAATATAAATTA
8092888 AC
64 AC
*
8092890 ATAATTATTATT
1 ATAATTAATATT
8092902 AAATATAATT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 3 0.03
54 7 0.07
55 4 0.04
56 8 0.08
58 4 0.04
59 16 0.16
60 2 0.02
61 16 0.16
62 4 0.04
64 10 0.10
65 4 0.04
66 18 0.18
67 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (65 bp):
ATAATTAATATTCTTATATTAATTTACTAAATCATAATATATAATACTGTAAAATATAAATTAAC
Found at i:8092987 original size:120 final size:120
Alignment explanation
Indices: 8092407--8092986 Score: 975
Period size: 120 Copynumber: 4.8 Consensus size: 120
8092397 ATCATATTTA
8092407 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
8092472 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
8092527 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
8092592 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
8092647 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
8092712 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
* * *
8092767 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
* * * * *
8092831 ATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT
65 ATATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
* *
8092887 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
* *
8092951 ATATTCTTATATGAATTTTCTAAAATCATAATATAT
65 ATATTCTTATATTAATTTACTAAAATCATAATATAT
8092987 ATAATACTAC
Statistics
Matches: 444, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
119 3 0.01
120 441 0.99
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:8093113 original size:14 final size:15
Alignment explanation
Indices: 8093094--8093126 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
8093084 CATTATTCTT
*
8093094 AAAATTCAAAAA-TA
1 AAAATTAAAAAACTA
8093108 AAAATTAAAAAACTA
1 AAAATTAAAAAACTA
8093123 AAAA
1 AAAA
8093127 ATTTAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATTAAAAAACTA
Found at i:8093576 original size:59 final size:58
Alignment explanation
Indices: 8093472--8093621 Score: 203
Period size: 59 Copynumber: 2.6 Consensus size: 58
8093462 AAAGTTGCTA
* * **
8093472 TGTTTTGGCACTAAAAGCAACTGCAAGCCACAACTACCAGCATGTCAAGGATTAAATT
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
* * * *
8093530 TGTTTTGGCACCAAAAGTAAACCACAAGTCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-CAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
*
8093589 TGTTTGGGCACTAAAAGCAACCGCAA-TCACAAG
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAG
8093622 CCACAAGTAC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 49 0.62
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
Found at i:8095595 original size:28 final size:26
Alignment explanation
Indices: 8095553--8095605 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
8095543 ACGCTGTTGG
8095553 TTTTTAAAAAATTTAAAAAGTTATAAC
1 TTTTTAAAAAATTTAAAAAG-TATAAC
*
8095580 TTTTTAAAAAATTTTAAGAAGTATAA
1 TTTTTAAAAAA-TTTAAAAAGTATAA
8095606 AAATTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.42
Consensus pattern (26 bp):
TTTTTAAAAAATTTAAAAAGTATAAC
Found at i:8099608 original size:2 final size:2
Alignment explanation
Indices: 8099603--8099627 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8099593 AGCGTGTGTT
8099603 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
8099628 AGTAAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8122534 original size:6 final size:6
Alignment explanation
Indices: 8122523--8122563 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
8122513 TGTATGTATA
8122523 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGT
1 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGT
8122564 ATGGATGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.51
Consensus pattern (6 bp):
TATGTC
Found at i:8133689 original size:18 final size:18
Alignment explanation
Indices: 8133655--8133690 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8133645 GAGACGGTGA
*
8133655 CCTTTAGTTTCTGCCTCT
1 CCTTTAGTTCCTGCCTCT
*
8133673 CCTTTAGTTCCTTCCTCT
1 CCTTTAGTTCCTGCCTCT
8133691 TTTTTGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.36, G:0.08, T:0.50
Consensus pattern (18 bp):
CCTTTAGTTCCTGCCTCT
Found at i:8137716 original size:10 final size:11
Alignment explanation
Indices: 8137693--8137717 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8137683 CTGTCTTTTC
8137693 TTTTTCTTATT
1 TTTTTCTTATT
8137704 TTTTTCTTATT
1 TTTTTCTTATT
8137715 TTT
1 TTT
8137718 CCATTTCCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTTATT
Found at i:8140140 original size:10 final size:10
Alignment explanation
Indices: 8140097--8140143 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
8140087 TAATTATTTT
8140097 AAAAT-TTAA
1 AAAATATTAA
*
8140106 AAAATGTTTAA
1 AAAAT-ATTAA
*
8140117 AAAATA-AAA
1 AAAATATTAA
8140126 AAAATATTAA
1 AAAATATTAA
8140136 AAAATATT
1 AAAATATT
8140144 TCTAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 13 0.41
10 10 0.31
11 9 0.28
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAATATTAA
Found at i:8143303 original size:39 final size:39
Alignment explanation
Indices: 8143244--8143387 Score: 135
Period size: 39 Copynumber: 3.5 Consensus size: 39
8143234 GCCTTAATAC
* *
8143244 GACAGCTGAGAGCTTTTAACTCTCGCTAACTGTTTGGTG
1 GACAACTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAG
** *
8143283 GACAACTGAGAGCTTTTAACTCTCGTTCTCGCTATTTGTTTAGAG
1 GACAACTGAGAGCTTTTAA----C--TCTCGCTAACTGTTTGGAG
* * *
8143328 GACAACTGAGAGCTCTTAACTGTCGTTAACTGTTTGGAG
1 GACAACTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAG
* * *
8143367 GACAGCTGTGAGCTTTGAACT
1 GACAACTGAGAGCTTTTAACT
8143388 TACCGCACCA
Statistics
Matches: 84, Mismatches: 15, Indels: 12
0.76 0.14 0.11
Matches are distributed among these distances:
39 49 0.58
41 1 0.01
43 1 0.01
45 33 0.39
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (39 bp):
GACAACTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAG
Found at i:8143331 original size:45 final size:45
Alignment explanation
Indices: 8143264--8143354 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
8143254 AGCTTTTAAC
* * *
8143264 TCTCGCTAACTGTTTGGTGGACAACTGAGAGCTTTTAACTCTCGT
1 TCTCGCTAACTGTTTAGAGGACAACTGAGAGCTCTTAACTCTCGT
** *
8143309 TCTCGCTATTTGTTTAGAGGACAACTGAGAGCTCTTAACTGTCGT
1 TCTCGCTAACTGTTTAGAGGACAACTGAGAGCTCTTAACTCTCGT
8143354 T
1 T
8143355 AACTGTTTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (45 bp):
TCTCGCTAACTGTTTAGAGGACAACTGAGAGCTCTTAACTCTCGT
Found at i:8144549 original size:13 final size:13
Alignment explanation
Indices: 8144531--8144557 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8144521 TCTCCTCCTC
8144531 TGAGTTAATTATT
1 TGAGTTAATTATT
8144544 TGAGTTAATTATT
1 TGAGTTAATTATT
8144557 T
1 T
8144558 ATAAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (13 bp):
TGAGTTAATTATT
Found at i:8151721 original size:13 final size:13
Alignment explanation
Indices: 8151703--8151727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8151693 ATGAACATTT
8151703 TATTTCTCAAAAG
1 TATTTCTCAAAAG
8151716 TATTTCTCAAAA
1 TATTTCTCAAAA
8151728 TTACTTTTCC
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:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
TATTTCTCAAAAG
Found at i:8153641 original size:25 final size:24
Alignment explanation
Indices: 8153593--8153680 Score: 70
Period size: 25 Copynumber: 3.6 Consensus size: 24
8153583 GAATAGCTAT
** *
8153593 TAACGGGAAGCTCACAAGAACCATA
1 TAACGGGAAGCT-ATGAGAGCCATA
*
8153618 TAACGGGAAGCTATAGAGGGCCATA
1 TAACGGGAAGCTAT-GAGAGCCATA
* * *
8153643 TATCGGGATGCTCATGAGAGCTA-A
1 TAACGGGAAGCT-ATGAGAGCCATA
*
8153667 TAACGGGACGCTAT
1 TAACGGGAAGCTAT
8153681 TTCTAGCTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.04
24 12 0.24
25 35 0.69
26 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.18
Consensus pattern (24 bp):
TAACGGGAAGCTATGAGAGCCATA
Found at i:8158568 original size:38 final size:37
Alignment explanation
Indices: 8158527--8158599 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 37
8158517 GACATTTCAA
8158527 AAAAAGTCAA-ATAGATTTTTTAATAAAAATATTGACT
1 AAAAAGTCAATATA-ATTTTTTAATAAAAATATTGACT
*
8158564 AAAAAGTCAATTTTAATTTTTTAATAAAAATATTGA
1 AAAAAGTCAA-TATAATTTTTTAATAAAAATATTGA
8158600 TTTTCAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 10 0.30
38 21 0.64
39 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (37 bp):
AAAAAGTCAATATAATTTTTTAATAAAAATATTGACT
Found at i:8160101 original size:15 final size:15
Alignment explanation
Indices: 8160066--8160098 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8160056 TGATATAAAA
8160066 TAAATATTTCATATT
1 TAAATATTTCATATT
*
8160081 TAAATATTT-TTATT
1 TAAATATTTCATATT
8160095 TAAA
1 TAAA
8160099 ATAGGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TAAATATTTCATATT
Found at i:8162807 original size:32 final size:32
Alignment explanation
Indices: 8162747--8162809 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
8162737 GACTGTCATT
* *
8162747 ATAATTATTTTTTATCCAACAAGTTAAGGTTC
1 ATAATTAATTTTTATCCAACAAGATAAGGTTC
8162779 ATAATTAATTTTTATCCAA-ACAGATAAGGTT
1 ATAATTAATTTTTATCCAACA-AGATAAGGTT
8162810 AGGTTAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (32 bp):
ATAATTAATTTTTATCCAACAAGATAAGGTTC
Found at i:8164028 original size:19 final size:20
Alignment explanation
Indices: 8164019--8164055 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
8164009 TAATGATATT
8164019 TAATTTTTTTTAAAAAATTG
1 TAATTTTTTTTAAAAAATTG
8164039 TAA-TTTTTTTAAAAAAT
1 TAATTTTTTTTAAAAAAT
8164056 AATTAAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TAATTTTTTTTAAAAAATTG
Found at i:8169476 original size:37 final size:37
Alignment explanation
Indices: 8169416--8169491 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
8169406 TATTACGAAA
* * *
8169416 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
* *
8169453 TCTTACCTGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
8169490 TC
1 TC
8169492 CTTAGAACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:8169789 original size:49 final size:48
Alignment explanation
Indices: 8169613--8170391 Score: 1162
Period size: 49 Copynumber: 16.2 Consensus size: 48
8169603 CCCTTCGGGA
* * * * * *
8169613 CTTATCAC-ATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
8169660 CCTGTCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
8169707 CTTATCAC-GCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8169754 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8169803 CTTATCAC-ACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8169850 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8169899 CTTATCAC-ACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8169946 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8169995 CCTATTCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8170043 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8170092 CTTATCAC-ACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8170139 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8170188 CTTATCAC-ACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8170235 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8170284 CCTATTCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8170332 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8170381 CTTATCACAAT
1 CTTATCACAAT
8170392 TTAGAATTCA
Statistics
Matches: 668, Mismatches: 48, Indels: 31
0.89 0.06 0.04
Matches are distributed among these distances:
47 273 0.41
48 84 0.13
49 303 0.45
50 8 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (48 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:8169808 original size:96 final size:96
Alignment explanation
Indices: 8169613--8170389 Score: 1342
Period size: 96 Copynumber: 8.1 Consensus size: 96
8169603 CCCTTCGGGA
** * * * * ** * *
8169613 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
* *
8169676 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
*
8169707 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8169772 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
8169803 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8169868 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
8169899 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8169964 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
* * *
8169995 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATA
8170060 CACTTTCACATTCATCACATCGGCTATTAGGC
65 CACTTTCACATTCATCACATCGGCTATTAGGC
8170092 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8170157 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
8170188 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8170253 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
* * *
8170284 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATA
*
8170349 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCTATTAGGC
8170381 CTTATCACA
1 CTTATCACA
8170390 ATTTAGAATT
Statistics
Matches: 654, Mismatches: 25, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
94 44 0.07
96 425 0.65
97 185 0.28
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:8170129 original size:289 final size:289
Alignment explanation
Indices: 8169613--8170389 Score: 1380
Period size: 289 Copynumber: 2.7 Consensus size: 289
8169603 CCCTTCGGGA
** * * * * ** * *
8169613 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
* * * **
8169676 ACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACGCATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
*
8169740 ATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
131 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
8169805 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
196 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
8169870 TTTCACATTCATCACATCGGCTATTAGGC
261 TTTCACATTCATCACATCGGCTATTAGGC
8169899 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8169964 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
8170029 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
131 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
8170094 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
196 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
8170159 TTTCACATTCATCACATCGGCTATTAGGC
261 TTTCACATTCATCACATCGGCTATTAGGC
8170188 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8170253 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
*
8170318 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
131 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
8170383 TATCACA
196 TATCACA
8170390 ATTTAGAATT
Statistics
Matches: 471, Mismatches: 17, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
286 45 0.10
288 40 0.08
289 386 0.82
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (289 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:8172075 original size:39 final size:39
Alignment explanation
Indices: 8172021--8172098 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
8172011 CTCTCCCTAA
*
8172021 ATCCAAATTCGGCATATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
*
8172060 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
8172099 CAACGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.23
Consensus pattern (39 bp):
ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
Found at i:8174306 original size:40 final size:40
Alignment explanation
Indices: 8174163--8174475 Score: 244
Period size: 40 Copynumber: 7.8 Consensus size: 40
8174153 CACCAGCATG
* * * *
8174163 ATTGCTCTTCGGGACCTAGCCCGGATATAAC-ACCAGCACGA
1 ATTGC-CTTCGGGTCTTAGCCCGGATATATCAACTAGCAC-A
** * **
8174204 A-TGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCACGA
1 ATTGC-CTTCGGGTCTTAGCCCGGATATATCAACTAGCAC-A
** * * * *
8174244 A-TGCTCTTCAGAAT-TTAGCCCGGATATAACCACAAGCTCA
1 ATTGC-CTTC-GGGTCTTAGCCCGGATATATCAACTAGCACA
* * * *
8174284 ATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCAC-A
* *
8174325 A-TGCCTTCGGGTCTTAGCCCGGATGTATCAACTTGCACA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACA
* *
8174364 ATTGCCTTCGAGTCTTAGCCCGGATATATCAATTCA-CACA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATCAACT-AGCACA
* * *
8174404 AATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACA
* * *
8174444 AATGCCTTCGAGTCTTATCCCGGATATATCAA
1 ATTGCCTTCGGGTCTTAGCCCGGATATATCAA
8174476 TTCGCACACA
Statistics
Matches: 226, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
39 4 0.02
40 208 0.92
41 14 0.06
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (40 bp):
ATTGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACA
Found at i:8174333 original size:120 final size:119
Alignment explanation
Indices: 8174182--8174475 Score: 269
Period size: 120 Copynumber: 2.5 Consensus size: 119
8174172 CGGGACCTAG
* * *
8174182 CCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCACGA
1 CCCGGATATAGCAACTC-GCACGAATGC-CTTCGGAACTTAGCCCGGATACATCAACTAGCAC-A
* * *
8174244 A-TGCTCTTCAGAAT-TTAGCCCGGATATAACCA-CAAGCTCAATTGCCTTCGGGTCTTAA
63 ATTGC-CTTC-GAATCTTAGCCCGGATATAACAATC-A-CACAAATGCCTTCGGGTCTTAA
* ** ** *
8174302 CCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTATCAACTTGCACAATT
1 CCCGGATATAGCAACTCGCACGAATGCCTTCGGAACTTAGCCCGGATACATCAACTAGCACAATT
* * *
8174367 GCCTTCGAGTCTTAGCCCGGATATATCAATTCACACAAATGCCTTCGGGTCTTAG
66 GCCTTCGAATCTTAGCCCGGATATAACAA-TCACACAAATGCCTTCGGGTCTTAA
* * * * * *
8174422 CCCGGATATATCAATTCGCACAAATGCCTTC-GAGTCTTATCCCGGATATATCAA
1 CCCGGATATAGCAACTCGCACGAATGCCTTCGGA-ACTTAGCCCGGATACATCAA
8174476 TTCGCACACA
Statistics
Matches: 144, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
119 4 0.03
120 115 0.80
121 23 0.16
122 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (119 bp):
CCCGGATATAGCAACTCGCACGAATGCCTTCGGAACTTAGCCCGGATACATCAACTAGCACAATT
GCCTTCGAATCTTAGCCCGGATATAACAATCACACAAATGCCTTCGGGTCTTAA
Found at i:8174472 original size:80 final size:80
Alignment explanation
Indices: 8174258--8174483 Score: 292
Period size: 80 Copynumber: 2.8 Consensus size: 80
8174248 TCTTCAGAAT
* * ** * * * * * *
8174258 TTAGCCCGGATATAACCACAAGCTCAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATATCAACTTGCACAAATGCCTTCGAGTCTTAACCCGGATATATCAATTCGCAC
*
8174323 GAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * *
8174338 TTAGCCCGGATGTATCAACTTGCACAATTGCCTTCGAGTCTTAGCCCGGATATATCAATTCACAC
1 TTAGCCCGGATATATCAACTTGCACAAATGCCTTCGAGTCTTAACCCGGATATATCAATTCGCAC
8174403 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
8174418 TTAGCCCGGATATATCAA-TTCGCACAAATGCCTTCGAGTCTTATCCCGGATATATCAATTCGCA
1 TTAGCCCGGATATATCAACTT-GCACAAATGCCTTCGAGTCTTAACCCGGATATATCAATTCGCA
8174482 CA
65 CA
8174484 CATAGTGCTT
Statistics
Matches: 128, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
79 2 0.02
80 126 0.98
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (80 bp):
TTAGCCCGGATATATCAACTTGCACAAATGCCTTCGAGTCTTAACCCGGATATATCAATTCGCAC
AAATGCCTTCGGGTC
Found at i:8174476 original size:40 final size:40
Alignment explanation
Indices: 8174286--8174483 Score: 281
Period size: 40 Copynumber: 5.0 Consensus size: 40
8174276 CAAGCTCAAT
* * * * *
8174286 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
8174326 TGCCTTCGGGTCTTAGCCCGGATGTATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
* *
8174366 TGCCTTCGAGTCTTAGCCCGGATATATCAATTCACACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
8174406 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
8174446 TGCCTTCGAGTCTTATCCCGGATATATCAATTCGCACA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACA
8174484 CATAGTGCTT
Statistics
Matches: 141, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.01
40 138 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:8174543 original size:29 final size:29
Alignment explanation
Indices: 8174501--8174579 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
8174491 CTTAATAATC
* *
8174501 AACCACGCATACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
8174531 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
8174560 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
8174580 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:8174622 original size:43 final size:43
Alignment explanation
Indices: 8174561--8174861 Score: 548
Period size: 43 Copynumber: 7.0 Consensus size: 43
8174551 TGCATTTCAA
* *
8174561 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
8174604 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
8174647 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
*
8174690 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
*
8174733 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
*
8174776 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
*
8174819 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
8174862 CCTGAAAACC
Statistics
Matches: 253, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 253 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
Found at i:8176802 original size:37 final size:37
Alignment explanation
Indices: 8176728--8176803 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
8176718 TATTACGAAA
* * * * *
8176728 TCTTACCCGGACATAATCTCCACCCGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCACCGGG
*
8176765 TCTTACCCGGACAAAATCCCCACACGTAGTCACCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCACCGGG
8176802 TC
1 TC
8176804 CTTAGAACTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCACCGGG
Found at i:8177002 original size:47 final size:47
Alignment explanation
Indices: 8176924--8177704 Score: 1112
Period size: 47 Copynumber: 16.2 Consensus size: 47
8176914 CCCTTCGGGA
* * * * * *
8176924 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
8176971 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
8177018 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8177065 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8177114 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8177161 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8177210 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8177257 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8177306 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8177354 CTTATCACATATATATATATACATTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC------ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8177407 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8177454 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8177503 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
8177550 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
8177599 CCTATTCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8177647 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
8177696 CTTATCACA
1 CTTATCACA
8177705 ATTTAGAATT
Statistics
Matches: 662, Mismatches: 52, Indels: 40
0.88 0.07 0.05
Matches are distributed among these distances:
47 273 0.41
48 81 0.12
49 255 0.39
50 8 0.01
53 45 0.07
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:8177119 original size:96 final size:96
Alignment explanation
Indices: 8176924--8177704 Score: 1296
Period size: 96 Copynumber: 8.1 Consensus size: 96
8176914 CCCTTCGGGA
** * * * * ** * *
8176924 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
* *
8176987 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
*
8177018 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8177083 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
8177114 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8177179 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
8177210 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8177275 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
* * *
8177306 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC----ATATA
*
8177371 TATACATTTTCACATTCATCACATCGGCTATTAGGC
61 TATACACTTTCACATTCATCACATCGGCTATTAGGC
8177407 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8177472 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
8177503 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8177568 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
* * * *
8177599 CCTATTCACATATATACACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATATA
1 CTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATA
*
8177664 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCTATTAGGC
8177696 CTTATCACA
1 CTTATCACA
8177705 ATTTAGAATT
Statistics
Matches: 651, Mismatches: 28, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
94 44 0.07
96 375 0.58
97 140 0.22
100 49 0.08
101 43 0.07
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:8177444 original size:293 final size:289
Alignment explanation
Indices: 8176924--8177704 Score: 1334
Period size: 293 Copynumber: 2.7 Consensus size: 289
8176914 CCCTTCGGGA
** * * * * ** * *
8176924 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
* * * **
8176987 ACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACGCATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
*
8177051 ATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
131 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
8177116 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
196 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
8177181 TTTCACATTCATCACATCGGCTATTAGGC
261 TTTCACATTCATCACATCGGCTATTAGGC
8177210 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8177275 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
*
8177340 ATCGGCCATTAGGCCTTATCACATATATATATATACATTTTCACATTCATCACATCGGCTATTAG
131 ATCGGCCATTAGGCCTTATCAC----ATATATATACACTTTCACATTCATCACATCGGCTATTAG
8177405 GCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATAT
192 GCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATAT
8177470 ACACTTTCACATTCATCACATCGGCTATTAGGC
257 ACACTTTCACATTCATCACATCGGCTATTAGGC
8177503 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
8177568 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
* *
8177633 ATCGGTCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
131 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
8177698 TATCACA
196 TATCACA
8177705 ATTTAGAATT
Statistics
Matches: 468, Mismatches: 20, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
286 45 0.10
288 40 0.09
289 96 0.21
293 287 0.61
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (289 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
TATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACAC
TTTCACATTCATCACATCGGCTATTAGGC
Found at i:8179390 original size:39 final size:39
Alignment explanation
Indices: 8179336--8179413 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
8179326 CTCTCCCTAA
*
8179336 ATCCAAATTCGGCATATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
*
8179375 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
8179414 CAACGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.23
Consensus pattern (39 bp):
ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
Done.