Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 154 of 221
Found at i:46683261 original size:19 final size:19
Alignment explanation
Indices: 46683239--46683294 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
46683229 ATACGAGAAA
46683239 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
46683257 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
46683275 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
46683294 T
1 T
46683295 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:46683338 original size:18 final size:17
Alignment explanation
Indices: 46683289--46683339 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
46683279 TGAAAACGCG
46683289 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
46683306 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
46683324 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
46683340 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:46683854 original size:7 final size:7
Alignment explanation
Indices: 46683842--46683891 Score: 82
Period size: 7 Copynumber: 6.9 Consensus size: 7
46683832 TTTTTCTTCT
46683842 TTTTTTC
1 TTTTTTC
46683849 TTTTTTC
1 TTTTTTC
46683856 TTTTTTCC
1 TTTTTT-C
46683864 TTTTTTC
1 TTTTTTC
46683871 TTTTTTC
1 TTTTTTC
46683878 TTTTTTC
1 TTTTTTC
46683885 TTCTTTT
1 TT-TTTT
46683892 TCTTCCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
7 30 0.73
8 11 0.27
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:46683858 original size:15 final size:15
Alignment explanation
Indices: 46683833--46683908 Score: 93
Period size: 14 Copynumber: 5.1 Consensus size: 15
46683823 TGAACCCCCT
46683833 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
46683849 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTTC
46683864 TTTTTTC-TTTTTTC
1 TTTTTTCTTTTTTTC
46683878 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
**
46683894 TTCCTT-TTTTTTTC
1 TTTTTTCTTTTTTTC
46683908 T
1 T
46683909 GCTGGGCTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
14 20 0.37
15 20 0.37
16 14 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:46683870 original size:22 final size:22
Alignment explanation
Indices: 46683842--46683903 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
46683832 TTTTTCTTCT
46683842 TTTTTTCTTTTTT-CTTTTTTCC
1 TTTTTTCTTTTTTCCTTTTTT-C
46683864 TTTTTTCTTTTTT-CTTTTTTC
1 TTTTTTCTTTTTTCCTTTTTTC
* *
46683885 -TTCTT-TTTCTTCCTTTTTT
1 TTTTTTCTTTTTTCCTTTTTT
46683904 TTTCTGCTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.14
20 11 0.30
21 1 0.03
22 20 0.54
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTCTTTTTTCCTTTTTTC
Found at i:46683904 original size:22 final size:22
Alignment explanation
Indices: 46683832--46683908 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 22
46683822 TTGAACCCCC
46683832 TTTTTCTTCTTTTT-TTCTTTT
1 TTTTTCTTCTTTTTCTTCTTTT
* *
46683853 TTCTTTTTTCCTTTTTTCTTTTTTCT
1 TT-TTTCTT-C-TTTTTCTTCTTT-T
46683879 TTTTTCTTCTTTTTCTTCCTTTT
1 TTTTTCTTCTTTTTCTT-CTTTT
46683902 TTTTTCT
1 TTTTTCT
46683909 GCTGGGCTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
21 2 0.04
22 5 0.11
23 17 0.37
24 9 0.20
25 10 0.22
26 3 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTCTTCTTTTTCTTCTTTT
Found at i:46684064 original size:16 final size:16
Alignment explanation
Indices: 46684045--46684075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46684035 CTTCTTTTTT
*
46684045 TTTGCTTTTTTTTTGC
1 TTTGATTTTTTTTTGC
46684061 TTTGATTTTTTTTTG
1 TTTGATTTTTTTTTG
46684076 GGCTTGTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.06, G:0.13, T:0.77
Consensus pattern (16 bp):
TTTGATTTTTTTTTGC
Found at i:46684075 original size:11 final size:11
Alignment explanation
Indices: 46684038--46684063 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
46684028 TCTTTCCCTT
46684038 CTTTTTTTTTG
1 CTTTTTTTTTG
46684049 CTTTTTTTTTG
1 CTTTTTTTTTG
46684060 CTTT
1 CTTT
46684064 GATTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTTG
Found at i:46684103 original size:16 final size:16
Alignment explanation
Indices: 46684039--46684099 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
46684029 CTTTCCCTTC
46684039 TTTTT-TTTTGCTTTT
1 TTTTTGTTTTGCTTTT
* *
46684054 TTTTTGCTTTGATTTT
1 TTTTTGTTTTGCTTTT
*
46684070 TTTTTGGGCTTGTTTCTTTT
1 TTTTT--G-TT-TTGCTTTT
46684090 TTTTTGTTTT
1 TTTTTGTTTT
46684100 TCTTGGGCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
15 5 0.14
16 15 0.42
17 2 0.06
18 2 0.06
19 1 0.03
20 11 0.31
ACGTcount: A:0.02, C:0.07, G:0.13, T:0.79
Consensus pattern (16 bp):
TTTTTGTTTTGCTTTT
Found at i:46684201 original size:3 final size:3
Alignment explanation
Indices: 46684195--46684240 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
46684185 TTTTCTTTCT
*
46684195 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
46684241 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:46684224 original size:10 final size:10
Alignment explanation
Indices: 46684209--46684237 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
46684199 TCTTCCTCTT
46684209 TTCTTCTTCC
1 TTCTTCTTCC
46684219 TTCTTCTTCC
1 TTCTTCTTCC
46684229 TTCTTCTTC
1 TTCTTCTTC
46684238 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:46684225 original size:13 final size:13
Alignment explanation
Indices: 46684195--46684240 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
46684185 TTTTCTTTCT
46684195 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
46684207 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
46684219 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
46684232 TTCTTCTTC
1 TTCTTCTTC
46684241 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:46684331 original size:10 final size:10
Alignment explanation
Indices: 46684296--46684345 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
46684286 ACGCCGGTAC
46684296 TCTT-TCTTT
1 TCTTCTCTTT
* *
46684305 TCTTCTCCTC
1 TCTTCTCTTT
46684315 T-TTCTCTTT
1 TCTTCTCTTT
46684324 TCTTCTCTTT
1 TCTTCTCTTT
*
46684334 TCTTCTTTTT
1 TCTTCTCTTT
46684344 TC
1 TC
46684346 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:46684343 original size:19 final size:19
Alignment explanation
Indices: 46684300--46684342 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
46684290 CGGTACTCTT
46684300 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
46684319 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
46684336 TTCTTTT
1 -TCTTTT
46684343 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:46684624 original size:29 final size:29
Alignment explanation
Indices: 46684591--46684707 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
46684581 TGTAATTTTT
*
46684591 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
46684620 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
46684650 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
46684679 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
46684708 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:46684646 original size:30 final size:30
Alignment explanation
Indices: 46684606--46684707 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
46684596 ATTTAGGATT
*
46684606 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
46684636 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
46684666 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
46684696 AAAATGCAATTT
1 AAAATGAAATTT
46684708 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:46684730 original size:16 final size:17
Alignment explanation
Indices: 46684705--46684740 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
46684695 CAAAATGCAA
46684705 TTTTTATTTTTT-AAAT
1 TTTTTATTTTTTGAAAT
*
46684721 TTTTTTTTTTTTGAAAT
1 TTTTTATTTTTTGAAAT
46684738 TTT
1 TTT
46684741 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTGAAAT
Found at i:46684731 original size:17 final size:17
Alignment explanation
Indices: 46684705--46684740 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46684695 CAAAATGCAA
*
46684705 TTTTTATTTTTTAAATT
1 TTTTTATTTTTGAAATT
*
46684722 TTTTTTTTTTTGAAATT
1 TTTTTATTTTTGAAATT
46684739 TT
1 TT
46684741 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTGAAATT
Found at i:46685200 original size:53 final size:54
Alignment explanation
Indices: 46684982--46685231 Score: 386
Period size: 53 Copynumber: 4.7 Consensus size: 54
46684972 CACGTGAGCC
* *
46684982 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
46685037 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
46685087 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
46685141 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
46685194 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
46685232 TTTTTTTGAA
Statistics
Matches: 182, Mismatches: 7, Indels: 13
0.90 0.03 0.06
Matches are distributed among these distances:
50 48 0.26
52 1 0.01
53 50 0.27
54 39 0.21
55 38 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:46685272 original size:13 final size:14
Alignment explanation
Indices: 46685244--46685276 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
46685234 TTTTTGAAAC
46685244 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
46685258 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
46685271 ACAGAA
1 ACAGAA
46685277 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:46685284 original size:14 final size:14
Alignment explanation
Indices: 46685237--46685284 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
46685227 TTTTTTTTTT
*
46685237 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
46685251 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
46685265 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
46685278 TTGAAAA
1 TTGAAAA
46685285 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:46685548 original size:72 final size:72
Alignment explanation
Indices: 46685360--46688022 Score: 4951
Period size: 72 Copynumber: 37.1 Consensus size: 72
46685350 ATTAGTAAAG
* * * *
46685360 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
46685424 TTTGAAAA
65 TTTGAAAA
* *
46685432 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
46685497 TTTGAAAA
65 TTTGAAAA
46685505 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
46685570 TTGAGAAG
66 TTGA-AAA
*
46685578 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46685643 TTGAAAA
66 TTGAAAA
46685650 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46685715 TTGAAAA
66 TTGAAAA
46685722 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46685786 TTGAAAA
66 TTGAAAA
46685793 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46685858 TTG-AAA
66 TTGAAAA
46685864 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46685928 TTGAAAA
66 TTGAAAA
46685935 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46685999 TTGAAAA
66 TTGAAAA
46686006 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686071 TTG-AAA
66 TTGAAAA
46686077 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686141 TTGAAAA
66 TTGAAAA
46686148 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686213 TTGAAAA
66 TTGAAAA
46686220 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686285 TTG-AAA
66 TTGAAAA
46686291 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686355 TTGAAAA
66 TTGAAAA
46686362 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686426 TTGAAAA
66 TTGAAAA
46686433 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686498 TTGAAAA
66 TTGAAAA
*
46686505 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686570 TTGAAAA
66 TTGAAAA
*
46686577 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686642 TTGAAAA
66 TTGAAAA
46686649 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686714 TTG-AAA
66 TTGAAAA
*
46686720 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686785 TTGAAAA
66 TTGAAAA
46686792 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686856 TTGAAAA
66 TTGAAAA
46686863 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686928 TTGAAAA
66 TTGAAAA
46686935 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687000 TTGAAAA
66 TTGAAAA
46687007 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687072 TTGAAAA
66 TTGAAAA
46687079 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687143 TTGAAAA
66 TTGAAAA
46687150 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687215 TTGAAAA
66 TTGAAAA
46687222 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687287 TTGAAAA
66 TTGAAAA
46687294 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687359 TTGAAAA
66 TTGAAAA
46687366 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687431 TTGAAAA
66 TTGAAAA
46687438 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687502 TTGAAAA
66 TTGAAAA
46687509 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687574 TTGAAAA
66 TTGAAAA
46687581 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687646 TTGAAAA
66 TTGAAAA
46687653 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687718 TTGAAAA
66 TTGAAAA
46687725 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687790 TTGAAAA
66 TTGAAAA
*
46687797 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687862 TTGAAAA
66 TTGAAAA
* * *
46687869 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
*
46687934 TTTTAACAA
65 TTTGAA-AA
* * * ** * *
46687943 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46688007 TTGAAAAA
66 TTG-AAAA
*
46688015 CATAAATT
1 CAGAAATT
46688023 AAAAGGCTTA
Statistics
Matches: 2547, Mismatches: 27, Indels: 33
0.98 0.01 0.01
Matches are distributed among these distances:
70 165 0.06
71 586 0.23
72 1593 0.63
73 143 0.06
74 60 0.02
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:46686801 original size:287 final size:288
Alignment explanation
Indices: 46685360--46688026 Score: 4909
Period size: 287 Copynumber: 9.3 Consensus size: 288
46685350 ATTAGTAAAG
* * *
46685360 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
46685424 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
46685489 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
129 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
* *
46685554 CAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTC
194 CAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTC
46685619 ATTTCTCGCAATATGAGTTGAATTTTGAAAA
258 ATTTCTCGCAATATGAGTTGAATTTTGAAAA
*
46685650 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46685715 TTGAAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
46685779 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
46685844 ATATGAGTTGAATTTTG-AAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATT
196 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
46685907 TCTCGCAATATGAGTTGAATTTTGAAAA
261 TCTCGCAATATGAGTTGAATTTTGAAAA
46685935 CAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
46685999 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
46686064 TTGAATTTTG-AAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
46686127 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
196 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
46686192 TCTCGCAATATGAGTTGAATTTTGAAAA
261 TCTCGCAATATGAGTTGAATTTTGAAAA
*
46686220 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686285 TTG-AAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
46686348 TTGAATTTTGAAAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
46686412 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
196 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
46686477 TCTCGCAATATGAGTTGAATTTTGAAAA
261 TCTCGCAATATGAGTTGAATTTTGAAAA
46686505 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46686570 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
46686635 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
*
46686700 ATATGAGTTGAATTTTG-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATT
196 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
46686764 TCTCGCAATATGAGTTGAATTTTGAAAA
261 TCTCGCAATATGAGTTGAATTTTGAAAA
46686792 CAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
46686856 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
46686921 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
46686986 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
196 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
46687051 TCTCGCAATATGAGTTGAATTTTGAAAA
261 TCTCGCAATATGAGTTGAATTTTGAAAA
46687079 CAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
46687143 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
46687208 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
46687273 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
196 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
46687338 TCTCGCAATATGAGTTGAATTTTGAAAA
261 TCTCGCAATATGAGTTGAATTTTGAAAA
*
46687366 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
46687431 TTGAAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
46687495 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
46687560 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
196 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
46687625 TCTCGCAATATGAGTTGAATTTTGAAAA
261 TCTCGCAATATGAGTTGAATTTTGAAAA
*
46687653 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
46687718 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
46687783 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
* * *
46687848 ATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATT
196 ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
* *
46687913 TCTCGCAATATGAGTTGATTTTTTTAACAA
261 TCTCGCAATATGAGTTGA-ATTTTGAA-AA
* * ** * *
46687943 CAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-AT
1 CAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
46688006 TTTGAAAAACATAAATT-AAAA
65 TTTG-AAAACAGAAATTGAAAA
46688027 GGCTTAACTC
Statistics
Matches: 2330, Mismatches: 31, Indels: 33
0.97 0.01 0.01
Matches are distributed among these distances:
283 55 0.02
284 157 0.07
285 418 0.18
286 284 0.12
287 813 0.35
288 446 0.19
289 27 0.01
290 128 0.05
291 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (288 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
ATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
TCTCGCAATATGAGTTGAATTTTGAAAA
Found at i:46689013 original size:45 final size:45
Alignment explanation
Indices: 46688952--46689064 Score: 113
Period size: 46 Copynumber: 2.5 Consensus size: 45
46688942 GTTTCATTAG
*
46688952 GACGCCC-TCTCGGGTTTTCATCCTAAT-CTTTTTGTATTAATCAA
1 GACGCCCTTTTCGGGTTTTCATCCTAATCCTTTTT-TATTAATCAA
** * * ** *
46688996 GACGCCCTTTTCGGGTTTTCGCCCTGATCCCTTTTTTTTTTTTTAA
1 GACGCCCTTTTCGGGTTTTCATCCTAAT-CCTTTTTTATTAATCAA
*
46689042 GATGCCCTTTTCGGGTTTTCATC
1 GACGCCCTTTTCGGGTTTTCATC
46689065 TTAAGCATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
44 7 0.13
45 16 0.29
46 26 0.47
47 6 0.11
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (45 bp):
GACGCCCTTTTCGGGTTTTCATCCTAATCCTTTTTTATTAATCAA
Found at i:46699956 original size:21 final size:19
Alignment explanation
Indices: 46699918--46699964 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
46699908 GAAGCGCAAT
46699918 ATTTCTTTTTTAAAACGA-A
1 ATTT-TTTTTTAAAACGAGA
46699937 AGTTTTTTTTTAAAATACGAGA
1 A-TTTTTTTTT-AAA-ACGAGA
46699959 ATTTTT
1 ATTTTT
46699965 GAAAACACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 9 0.38
22 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (19 bp):
ATTTTTTTTTAAAACGAGA
Found at i:46699963 original size:16 final size:17
Alignment explanation
Indices: 46699943--46700354 Score: 128
Period size: 17 Copynumber: 23.3 Consensus size: 17
46699933 CGAAAGTTTT
*
46699943 TTTTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
46699960 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAGAA
*
46699978 TTTGT-AAACAC--GAA
1 TTTTTAAAACACGAGAA
*
46699992 TATTTTAGAAACACGAAAA
1 T-TTTTA-AAACACGAGAA
*
46700011 TTTTTGGAAAAAAACGA-AA
1 TTTTT---AAAACACGAGAA
* *
46700030 TTTTCTTAAAACACGACATTTT
1 -TTT-TTAAAACACGAGA---A
* *
46700052 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAGAA
* * *
46700069 TTTTTAAAACAAGACATT
1 TTTTTAAAACACGAGA-A
* ** ***
46700087 TTTTTGAAACAAAATTT
1 TTTTTAAAACACGAGAA
46700104 TTTCTTAAAA-A--A-AA
1 TTT-TTAAAACACGAGAA
* *
46700118 ATTTT-AAATACGAGAA
1 TTTTTAAAACACGAGAA
*
46700134 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
46700151 TTTTTAAAACAGGGAAATA
1 TTTTTAAAACA-CGAGA-A
46700170 TTTTTTTTAAAACACGA-AA
1 ---TTTTTAAAACACGAGAA
* *
46700189 TTTTTTTTTGAAAACAAGAAAA
1 ----TTTTT-AAAACACGAGAA
* *
46700211 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAGAA
*
46700228 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
* *
46700245 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAGAA
*
46700262 TTTTTAAAAGCACGAGGA
1 TTTTTAAAA-CACGAGAA
* *
46700280 TTATTGAAAGCACGA-AGA
1 TT-TTTAAAACACGAGA-A
* * *
46700298 TTTATAAAAAACGACAA
1 TTTTTAAAACACGAGAA
* *
46700315 TTTTTGAAATACGAGAAA
1 TTTTTAAAACACGAG-AA
* * *
46700333 TTTTTTAAACGCGAAAA
1 TTTTTAAAACACGAGAA
46700350 TTTTT
1 TTTTT
46700355 TTCAAACACG
Statistics
Matches: 300, Mismatches: 58, Indels: 74
0.69 0.13 0.17
Matches are distributed among these distances:
12 3 0.01
13 3 0.01
14 6 0.02
15 5 0.02
16 13 0.04
17 115 0.38
18 84 0.28
19 13 0.04
20 29 0.10
21 16 0.05
22 13 0.04
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:46700152 original size:17 final size:17
Alignment explanation
Indices: 46700114--46700388 Score: 138
Period size: 17 Copynumber: 15.4 Consensus size: 17
46700104 TTTCTTAAAA
* *
46700114 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
46700130 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
*
46700147 AAAATTTTTAAAACAGGG
1 AAAATTTTTAAAACA-CG
46700165 AAATATTTTTTTTAAAACACG
1 AAA-A---TTTTTAAAACACG
* *
46700186 AAATTTTTTTTTGAAAACAAG
1 AAA---ATTTTT-AAAACACG
* *
46700207 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
46700224 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
46700241 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
*
46700258 AGAATTTTTAAAAGCACG
1 AAAATTTTTAAAA-CACG
** * *
46700276 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
* * *
46700294 AAGATTTATAAAAAACG
1 AAAATTTTTAAAACACG
* * *
46700311 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
* *
46700328 AGAAATTTTTTAAACGCG
1 A-AAATTTTTAAAACACG
*
46700346 AAAATTTTTTTCAAACACG
1 AAAA--TTTTTAAAACACG
* * *
46700365 AAAACCTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
46700383 AAAATT
1 AAAATT
46700389 CGAAAATTTC
Statistics
Matches: 195, Mismatches: 50, Indels: 27
0.72 0.18 0.10
Matches are distributed among these distances:
16 7 0.04
17 84 0.43
18 52 0.27
19 21 0.11
20 5 0.03
21 14 0.07
22 11 0.06
23 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:46700178 original size:22 final size:20
Alignment explanation
Indices: 46700134--46700215 Score: 80
Period size: 22 Copynumber: 4.0 Consensus size: 20
46700124 AATACGAGAA
*
46700134 TTTTTAAAACACGAAA---A
1 TTTTTAAAACACGAAATTTT
*
46700151 TTTTTAAAACAGGGAAATATTT
1 TTTTTAAAACA-CGAAAT-TTT
46700173 TTTTTAAAACACGAAATTTT
1 TTTTTAAAACACGAAATTTT
*
46700193 TTTTTGAAAACAAGAAAATTTT
1 TTTTT-AAAACACG-AAATTTT
46700215 T
1 T
46700216 GAAACACTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 11 0.20
18 4 0.07
20 8 0.15
21 12 0.22
22 19 0.35
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (20 bp):
TTTTTAAAACACGAAATTTT
Found at i:46700188 original size:21 final size:20
Alignment explanation
Indices: 46700134--46700215 Score: 89
Period size: 21 Copynumber: 4.1 Consensus size: 20
46700124 AATACGAGAA
46700134 TTTTTAAAACACGAAAA---
1 TTTTTAAAACACGAAAATTT
*
46700151 TTTTTAAAACAGGGAAATATTT
1 TTTTTAAAACA-CGAAA-ATTT
*
46700173 TTTTTAAAACACGAAATTTT
1 TTTTTAAAACACGAAAATTT
*
46700193 TTTTTGAAAACAAGAAAATTT
1 TTTTT-AAAACACGAAAATTT
46700214 TT
1 TT
46700216 GAAACACTAG
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
17 11 0.20
18 4 0.07
19 1 0.02
20 8 0.15
21 19 0.35
22 11 0.20
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (20 bp):
TTTTTAAAACACGAAAATTT
Found at i:46700354 original size:18 final size:18
Alignment explanation
Indices: 46700333--46700388 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
46700323 ATACGAGAAA
46700333 TTTTTTAAACGCGAAAAT
1 TTTTTTAAACGCGAAAAT
* *
46700351 TTTTTTCAAACACGAAAAC
1 TTTTTT-AAACGCGAAAAT
* **
46700370 CTTTGAAAACGCGAAAAT
1 TTTTTTAAACGCGAAAAT
46700388 T
1 T
46700389 CGAAAATTTC
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (18 bp):
TTTTTTAAACGCGAAAAT
Found at i:46700432 original size:18 final size:17
Alignment explanation
Indices: 46700383--46700433 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
46700373 TGAAAACGCG
46700383 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
46700400 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
46700418 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
46700434 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:46700977 original size:9 final size:8
Alignment explanation
Indices: 46700927--46700976 Score: 52
Period size: 7 Copynumber: 6.4 Consensus size: 8
46700917 ATTGAACCCC
46700927 CTTTTTCTT
1 CTTTTT-TT
46700936 C-TTTTTT
1 CTTTTTTT
46700943 C-TTTTTT
1 CTTTTTTT
46700950 C-TTTTTT
1 CTTTTTTT
*
46700957 CCTTTTTT
1 CTTTTTTT
46700965 CTTCTTTTT
1 CTT-TTTTT
46700974 CTT
1 CTT
46700977 CCTTTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
7 17 0.45
8 12 0.32
9 9 0.24
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
CTTTTTTT
Found at i:46700982 original size:9 final size:7
Alignment explanation
Indices: 46700929--46700972 Score: 61
Period size: 7 Copynumber: 5.9 Consensus size: 7
46700919 TGAACCCCCT
46700929 TTTTCTTC
1 TTTT-TTC
46700937 TTTTTTC
1 TTTTTTC
46700944 TTTTTTC
1 TTTTTTC
46700951 TTTTTTCC
1 TTTTTT-C
46700959 TTTTTTC
1 TTTTTTC
46700966 TTCTTTT
1 TT-TTTT
46700973 TCTTCCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 19 0.56
8 15 0.44
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:46701297 original size:14 final size:13
Alignment explanation
Indices: 46701280--46701316 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
46701270 TTTTTCTTTC
46701280 TTTCTTCTTCCTCT
1 TTTCTTCTTCCT-T
46701294 TTTCTTCTTCCTT
1 TTTCTTCTTCCTT
*
46701307 CTTCTTCTTC
1 TTTCTTCTTC
46701317 AAAGTCTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTCTTCTTCCTT
Found at i:46701301 original size:21 final size:22
Alignment explanation
Indices: 46701271--46701315 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
46701261 TTTTCTTTTT
*
46701271 TTTTCTTTCTTTCTTCTTCCTC
1 TTTTCTTTCTTCCTTCTTCCTC
*
46701293 TTTTC-TTCTTCCTTCTTCTTC
1 TTTTCTTTCTTCCTTCTTCCTC
46701314 TT
1 TT
46701316 CAAAGTCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTCTTTCTTCCTTCTTCCTC
Found at i:46701407 original size:10 final size:10
Alignment explanation
Indices: 46701372--46701421 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
46701362 ACGCCGGTAC
46701372 TCTT-TCTTT
1 TCTTCTCTTT
* *
46701381 TCTTCTCCTC
1 TCTTCTCTTT
46701391 T-TTCTCTTT
1 TCTTCTCTTT
46701400 TCTTCTCTTT
1 TCTTCTCTTT
*
46701410 TCTTCTTTTT
1 TCTTCTCTTT
46701420 TC
1 TC
46701422 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:46701419 original size:19 final size:19
Alignment explanation
Indices: 46701376--46701418 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
46701366 CGGTACTCTT
46701376 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
46701395 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
46701412 TTCTTTT
1 -TCTTTT
46701419 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:46701720 original size:30 final size:29
Alignment explanation
Indices: 46701665--46701781 Score: 128
Period size: 30 Copynumber: 4.0 Consensus size: 29
46701655 TGTAATTTTT
* *
46701665 AGAAAATTTA-GGATTAAAATGAAATTTA
1 AGAAAATTTAGGGGTCAAAATGAAATTTA
* *
46701693 ATGAAAATTTAGGGGTCTAAGTGAAATTTAA
1 A-GAAAATTTAGGGGTCAAAATGAAATTT-A
* *
46701724 AGAAAGTTTAAGGGTCAAAATGAAATTTA
1 AGAAAATTTAGGGGTCAAAATGAAATTTA
* *
46701753 AGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGGGGTCAAAATGAAATTT
46701782 TTATTTTTTA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 1 0.01
29 15 0.21
30 55 0.75
31 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGGTCAAAATGAAATTTA
Found at i:46701804 original size:16 final size:17
Alignment explanation
Indices: 46701779--46701814 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
46701769 CAAAATGCAA
46701779 TTTTTATTTTTT-AAAT
1 TTTTTATTTTTTGAAAT
*
46701795 TTTTTTTTTTTTGAAAT
1 TTTTTATTTTTTGAAAT
46701812 TTT
1 TTT
46701815 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTGAAAT
Found at i:46701805 original size:17 final size:17
Alignment explanation
Indices: 46701779--46701814 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46701769 CAAAATGCAA
*
46701779 TTTTTATTTTTTAAATT
1 TTTTTATTTTTGAAATT
*
46701796 TTTTTTTTTTTGAAATT
1 TTTTTATTTTTGAAATT
46701813 TT
1 TT
46701815 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTGAAATT
Found at i:46712819 original size:31 final size:31
Alignment explanation
Indices: 46712780--46712845 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 31
46712770 ATGGATGGAA
*
46712780 TTTTTAACA-A-AATGG-CTAATTTGCACTTTT
1 TTTTTAACATACAA-GGTCTAACTTGC-CTTTT
46712810 TTTTCTAACATACAAGGTCTAACTTGCCTTTT
1 TTTT-TAACATACAAGGTCTAACTTGCCTTTT
46712842 TTTT
1 TTTT
46712846 AGTAAAAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
30 4 0.13
31 5 0.16
32 12 0.39
33 10 0.32
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (31 bp):
TTTTTAACATACAAGGTCTAACTTGCCTTTT
Found at i:46714034 original size:12 final size:11
Alignment explanation
Indices: 46714019--46714085 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
46714009 CAATTATAAG
46714019 GAAAGAAATAAA
1 GAAAGAAA-AAA
46714031 GAAAGAAAAGAA
1 GAAAGAAAA-AA
*
46714043 G-GAGAAAAAA
1 GAAAGAAAAAA
*
46714053 CAAAGAAAGAAAA
1 GAAAG-AA-AAAA
*
46714066 GAAAAAAAAAA
1 GAAAGAAAAAA
*
46714077 GAGAGAAAA
1 GAAAGAAAA
46714086 GGAAATAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
10 2 0.05
11 20 0.45
12 15 0.34
13 7 0.16
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (11 bp):
GAAAGAAAAAA
Found at i:46714083 original size:35 final size:34
Alignment explanation
Indices: 46714020--46714085 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
46714010 AATTATAAGG
* *
46714020 AAAGAAATAAAGAAAGAAAAGAAGGAGAAAAAAC
1 AAAGAAAAAAAGAAAGAAAAAAAGGAGAAAAAAC
46714054 AAAGAAAGAAAAGAAA-AAAAAAAGAGAGAAAA
1 AAAGAAA-AAAAGAAAGAAAAAAAG-GAGAAAA
46714086 GGAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (34 bp):
AAAGAAAAAAAGAAAGAAAAAAAGGAGAAAAAAC
Found at i:46714090 original size:21 final size:21
Alignment explanation
Indices: 46714016--46714095 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 21
46714006 TAGCAATTAT
*
46714016 AAGGAAAGAAATAAAGAAAGAAAA
1 AAGGAAA-AAAAAAAGAAAG--AA
46714040 GAAGGAGAAAAAACAAAGAAAGAA
1 -AAGGA-AAAAAA-AAAGAAAGAA
*
46714064 AA-GAAAAAAAAAAGAGAGAA
1 AAGGAAAAAAAAAAGAAAGAA
*
46714084 AAGGAAATAAAA
1 AAGGAAAAAAAA
46714096 TTTTTCTATG
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 11 0.22
21 14 0.29
22 2 0.04
23 2 0.04
24 2 0.04
25 8 0.16
26 10 0.20
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (21 bp):
AAGGAAAAAAAAAAGAAAGAA
Found at i:46714095 original size:20 final size:20
Alignment explanation
Indices: 46714020--46714086 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
46714010 AATTATAAGG
*
46714020 AAAGAAATAAAGAAAGAAAAGA
1 AAAGAAA-AAAAAAAG-AAAGA
* *
46714042 AGGAGAAAAAACAAAGAAAGA
1 A-AAGAAAAAAAAAAGAAAGA
*
46714063 AAAGAAAAAAAAAAGAGAGA
1 AAAGAAAAAAAAAAGAAAGA
46714083 AAAG
1 AAAG
46714087 GAAATAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 20 0.51
21 6 0.15
22 8 0.21
23 5 0.13
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAAAAAAGAAAGA
Found at i:46717274 original size:12 final size:12
Alignment explanation
Indices: 46717257--46717289 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
46717247 GTTTGGGATA
*
46717257 GATGGGAGGTGG
1 GATGGGAAGTGG
46717269 GATGGGAAGTGG
1 GATGGGAAGTGG
46717281 GATGGGAAG
1 GATGGGAAG
46717290 GGAATAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.61, T:0.15
Consensus pattern (12 bp):
GATGGGAAGTGG
Found at i:46717322 original size:30 final size:31
Alignment explanation
Indices: 46717283--46717342 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
46717273 GGAAGTGGGA
**
46717283 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAAATTTAGGGGAAAAG
* *
46717314 TGGG-AGGGAGTAAAAAATTTGGGGGAAAA
1 TGGGAAGGGAATAAAAAATTTAGGGGAAAA
46717343 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.18
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAAATTTAGGGGAAAAG
Found at i:46717670 original size:18 final size:18
Alignment explanation
Indices: 46717635--46717677 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
46717625 GAAAAAAAAT
*
46717635 TCGAGTTAATTCGAATAAC
1 TCGA-TTAACTCGAATAAC
*
46717654 TCGATTAACTCGCATAAC
1 TCGATTAACTCGAATAAC
46717672 TCGATT
1 TCGATT
46717678 CGTTTAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (18 bp):
TCGATTAACTCGAATAAC
Found at i:46718319 original size:17 final size:17
Alignment explanation
Indices: 46718297--46718330 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46718287 AAAGTTAGTT
46718297 CACTTTCACAAAATTAA
1 CACTTTCACAAAATTAA
46718314 CACTTTCACAAAATTAA
1 CACTTTCACAAAATTAA
46718331 ACATAGTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CACTTTCACAAAATTAA
Found at i:46719836 original size:25 final size:25
Alignment explanation
Indices: 46719783--46719883 Score: 59
Period size: 25 Copynumber: 4.1 Consensus size: 25
46719773 AACATTAAAT
* *
46719783 TTAAT-TTAATATTAAGACAATCACT-
1 TTAATATTAA-ATTAATAAAAT-ACTA
46719808 TTAATATTAAATTAATAAAATACTA
1 TTAATATTAAATTAATAAAATACTA
* * * *
46719833 TTAAGA-T-AAGTATTAAAATA-AA
1 TTAATATTAAATTAATAAAATACTA
* * *
46719855 TTTAATATTAAACTATTAAAATATTA
1 -TTAATATTAAATTAATAAAATACTA
46719881 TTA
1 TTA
46719884 TTTTTGGAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
22 1 0.02
23 16 0.26
24 5 0.08
25 34 0.56
26 5 0.08
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (25 bp):
TTAATATTAAATTAATAAAATACTA
Found at i:46722910 original size:28 final size:27
Alignment explanation
Indices: 46722877--46722975 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
46722867 TAATGAGATT
*
46722877 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTATAATTGAA
*
46722904 ATGCACTAAGTGTGCGAGTATAATGGTAA
1 A-GCACTAAGTGTGCGAGTATAATTG-AA
* *
46722933 AGCACTAAGTGTGCGAGTGTGATT-ATTA
1 AGCACTAAGTGTGCGAGTATAATTGA--A
46722961 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
46722976 TACTTATTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 58 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTATAATTGAA
Found at i:46728524 original size:108 final size:106
Alignment explanation
Indices: 46728337--46728540 Score: 293
Period size: 108 Copynumber: 1.9 Consensus size: 106
46728327 TGGATTAAGA
* * *
46728337 TTTAAAAGGTTATTTGGCTATTTGGTCAAATGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATACTTGGCTATTTGATCAAATGAGAAATCGAAACCCAGCACATTAGGGCACATTT
* * *
46728402 TTTCGAATTTCCAAACGCAAAACATTGCCTTACTTCGAAAT
66 TCTCGAATCTCCAAACGCAAAACATTACCTTACTTCGAAAT
* *
46728443 TTTAAAAGGATACTTGGCTATTTGAT-AGAATGAGAAAAATCGAAACTCAGCACATTAGGGCACG
1 TTTAAAAGGATACTTGGCTATTTGATCA-AATGAG--AAATCGAAACCCAGCACATTAGGGCACA
*
46728507 TTTTCTCGAATCTCCAAATGCAAAACATTACCTT
63 TTTTCTCGAATCTCCAAACGCAAAACATTACCTT
46728541 TATTATTTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
105 1 0.01
106 29 0.34
108 56 0.65
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (106 bp):
TTTAAAAGGATACTTGGCTATTTGATCAAATGAGAAATCGAAACCCAGCACATTAGGGCACATTT
TCTCGAATCTCCAAACGCAAAACATTACCTTACTTCGAAAT
Found at i:46729449 original size:3 final size:3
Alignment explanation
Indices: 46729372--46729429 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
46729362 CAAGCCATAG
* * * *
46729372 ATA ATA ATA ATA ATA TTA ATA ATA ATC ATA ATA ATA ATG ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46729420 ATA ATA ATA A
1 ATA ATA ATA A
46729430 CTTATTAGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:46731001 original size:44 final size:42
Alignment explanation
Indices: 46730953--46731351 Score: 111
Period size: 42 Copynumber: 9.2 Consensus size: 42
46730943 GTGCTTAGGA
46730953 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACTGATGG
1 AGGCAAGATCTG-TATCTTTAACCAGCTCCACTGCAAC-GATGG
* * * * * * * *
46730997 AGGCAAGGCTTTGT-T-TTCAATCTGCTTCGCTGTTAACGCA-GG
1 AGGCAA-GATCTGTATCTTTAACCAGCTCCACTG-CAACG-ATGG
46731039 AAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTG-TATCTTTAACCAGCTCCACTGCAA-CGATGG
* * **** * * * *
46731084 AGGCAAGGCTTTGT-T-TTCGGTCTGCTTCGCTGTTAACGCA-GG
1 AGGCAA-GATCTGTATCTTTAACCAGCTCCACTG-CAACG-ATGG
* * *
46731126 AAGGCAAGATCTGCTATCTTTAACCAGATCCACTGTAACCGATAG
1 -AGGCAAGATCTG-TATCTTTAACCAGCTCCACTGCAA-CGATGG
* * * * * * *
46731171 AGGCAAG-GCTTTAT-TTTCGATCTGCTTCACTGTTAACGCA-GG
1 AGGCAAGATCTGTATCTTT-AACCAGCTCCACTG-CAACG-ATGG
* * * *
46731213 AAGACAAGATCTGTTATCTTTAACCAACTCCACTACAACCGTTGG
1 -AGGCAAGATCTG-TATCTTTAACCAGCTCCACTGCAA-CGATGG
* * * * * * * *
46731258 AGGCAAG-GCTTTAT-TTTCGATCTGCTTCGCTGTTAACGCA-GG
1 AGGCAAGATCTGTATCTTT-AACCAGCTCCACTG-CAACG-ATGG
*
46731300 AAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCTATGG
1 -AGGCAAGATCTG-TATCTTTAACCAGCTCCACTGCAA-CGATGG
46731345 AGGCAAG
1 AGGCAAG
46731352 GCTTTGTTTT
Statistics
Matches: 242, Mismatches: 77, Indels: 72
0.62 0.20 0.18
Matches are distributed among these distances:
41 6 0.02
42 66 0.27
43 46 0.19
44 52 0.21
45 66 0.27
46 6 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (42 bp):
AGGCAAGATCTGTATCTTTAACCAGCTCCACTGCAACGATGG
Found at i:46731046 original size:43 final size:43
Alignment explanation
Indices: 46730997--46731133 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
46730987 CAACTGATGG
46730997 AGGCAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAACGCAGGA
* * * * * * *
46731040 AGGCAAGATCTGTTATCTTT-AACCAGCTCCACTG-CAAC-CGATGG-
1 AGGCAAG-GCT-TTGT-TTTCAATCTGCTTCGCTGTTAACGC-A-GGA
**
46731084 AGGCAAGGCTTTGTTTTCGGTCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAACGCAGGA
46731127 AGGCAAG
1 AGGCAAG
46731134 ATCTGCTATC
Statistics
Matches: 69, Mismatches: 16, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
41 3 0.04
42 13 0.19
43 21 0.30
44 14 0.20
45 15 0.22
46 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAACGCAGGA
Found at i:46731095 original size:87 final size:87
Alignment explanation
Indices: 46730949--46731628 Score: 1054
Period size: 87 Copynumber: 7.8 Consensus size: 87
46730939 GCTAGTGCTT
*
46730949 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACTGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
46731014 CAATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
*
46731036 AGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
46731101 CGGTCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * *
46731123 AGGAAGGCAAGATCTGCTATCTTTAACCAGATCCACTGTAACCGATAGAGGCAAGGCTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
46731188 CGATCTGCTTCACTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * * *
46731210 AGGAAGACAAGATCTGTTATCTTTAACCAACTCCACTACAACCGTTGGAGGCAAGGCTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
46731275 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
*
46731297 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCTATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* * * *
46731362 TGTTCTGCTTTGCTGTTAACGT
66 CGATCTGCTTCGCTGTTAACGC
* * * * * *
46731384 AGAAAGGCAAGATCTACTATCTTTAACCAACTCCACTACACCCGATGAAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
46731449 CGATCTGCTTCGCTATTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* *
46731471 AGGAAGACAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
46731536 TGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * *
46731558 AGGAAGGTAAGATCTGCTATCTTTAGCCAGCTCCACTACAACCGATGGAGGTAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
46731623 CGATCT
66 CGATCT
46731629 TCACTGATCT
Statistics
Matches: 533, Mismatches: 60, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 533 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:46732891 original size:13 final size:13
Alignment explanation
Indices: 46732858--46732892 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
46732848 TTAGCCTCTC
46732858 CATTTTTACTCTTT
1 CATTTTT-CTCTTT
*
46732872 CATTTTTCTTTTT
1 CATTTTTCTCTTT
46732885 CATTTTTC
1 CATTTTTC
46732893 ATCATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (13 bp):
CATTTTTCTCTTT
Found at i:46733298 original size:6 final size:6
Alignment explanation
Indices: 46733272--46733311 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
46733262 TGATTTCTCT
*
46733272 TTTTGC TTTTGAA TTTT-A TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTG-A TTTTGA TTTTGA TTTTGA TTTTGA TTTT
46733312 TTTCTTCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.16
6 22 0.71
7 4 0.13
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:46737548 original size:108 final size:106
Alignment explanation
Indices: 46737361--46737564 Score: 329
Period size: 108 Copynumber: 1.9 Consensus size: 106
46737351 TGGATTAAGA
* * *
46737361 TTTAAGAGGATATTTGGCTATTTGGTCAAACAAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTGGCTATTTGATCAAACAAAAAATCGAAACCCAGCACATTAGGGCACATTT
*
46737426 TCTCGAATTTCCAAACGCAAAACATTGCCTTACTTCGAAAT
66 TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCGAAAT
*
46737467 TTTAAAAGGATATTTGGCTATTTGAT-AGAACGAGAAAAATCGAAACCCAGTACATTAGGGCACA
1 TTTAAAAGGATATTTGGCTATTTGATCA-AAC-A-AAAAATCGAAACCCAGCACATTAGGGCACA
46737531 TTTTCTCGAATCTCCAAACGCAAAACATTGCCTT
63 TTTTCTCGAATCTCCAAACGCAAAACATTGCCTT
46737565 TATTATTTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
105 1 0.01
106 27 0.30
107 1 0.01
108 61 0.68
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGATCAAACAAAAAATCGAAACCCAGCACATTAGGGCACATTT
TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCGAAAT
Found at i:46738405 original size:3 final size:3
Alignment explanation
Indices: 46738397--46738454 Score: 89
Period size: 3 Copynumber: 19.3 Consensus size: 3
46738387 CAAGACATAG
* * *
46738397 ATA ATA ATA ATA TTA ATA ATA ATC ATA ATA ATA ATC ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46738445 ATA ATA ATA A
1 ATA ATA ATA A
46738455 CAACTTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:46739184 original size:13 final size:13
Alignment explanation
Indices: 46739166--46739190 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46739156 ACAATAAAAA
46739166 ATATAACAAAATG
1 ATATAACAAAATG
46739179 ATATAACAAAAT
1 ATATAACAAAAT
46739191 AAAATGAAAA
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:0.64, C:0.08, G:0.04, T:0.24
Consensus pattern (13 bp):
ATATAACAAAATG
Found at i:46745982 original size:12 final size:12
Alignment explanation
Indices: 46745965--46745994 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46745955 TCAGTGAGCT
*
46745965 ACACGGGTTGAG
1 ACACGGGCTGAG
46745977 ACACGGGCTGAG
1 ACACGGGCTGAG
46745989 ACACGG
1 ACACGG
46745995 CCGTGTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.23, G:0.40, T:0.10
Consensus pattern (12 bp):
ACACGGGCTGAG
Found at i:46752425 original size:125 final size:125
Alignment explanation
Indices: 46752274--46752528 Score: 501
Period size: 125 Copynumber: 2.0 Consensus size: 125
46752264 TGCAGCAGTT
46752274 ATGGTGGTGTTTGCATAGAGGTGTAAATTCACCAAAACAAAGCAGATATTTTCATTGAAATGCAA
1 ATGGTGGTGTTTGCATAGAGGTGTAAATTCACCAAAACAAAGCAGATATTTTCATTGAAATGCAA
*
46752339 ATTTAAACACCGTCATTGAAGTAAATATCATTGAAAAACTCGTAAAAGAAACCTCGTAGG
66 ATTTAAACACCATCATTGAAGTAAATATCATTGAAAAACTCGTAAAAGAAACCTCGTAGG
46752399 ATGGTGGTGTTTGCATAGAGGTGTAAATTCACCAAAACAAAGCAGATATTTTCATTGAAATGCAA
1 ATGGTGGTGTTTGCATAGAGGTGTAAATTCACCAAAACAAAGCAGATATTTTCATTGAAATGCAA
46752464 ATTTAAACACCATCATTGAAGTAAATATCATTGAAAAACTCGTAAAAGAAACCTCGTAGG
66 ATTTAAACACCATCATTGAAGTAAATATCATTGAAAAACTCGTAAAAGAAACCTCGTAGG
46752524 ATGGT
1 ATGGT
46752529 TTCCAGAAAA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 129 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (125 bp):
ATGGTGGTGTTTGCATAGAGGTGTAAATTCACCAAAACAAAGCAGATATTTTCATTGAAATGCAA
ATTTAAACACCATCATTGAAGTAAATATCATTGAAAAACTCGTAAAAGAAACCTCGTAGG
Found at i:46755231 original size:2 final size:2
Alignment explanation
Indices: 46755224--46755265 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
46755214 CTCACTCTGC
46755224 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
46755266 ATCACACGAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:46759948 original size:31 final size:29
Alignment explanation
Indices: 46759880--46759948 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
46759870 CTTAGGTTAG
* * *
46759880 ATTTTAGTCACTTATGTTTGAAATGTTAC
1 ATTTTAGTCACTTACGTTTCAAATGTAAC
*
46759909 GTTTTAGTCACTTACGTTATCAAATTGTAAC
1 ATTTTAGTCACTTACGTT-TCAAA-TGTAAC
46759940 ATTTTAGTC
1 ATTTTAGTC
46759949 CTTGAGCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 16 0.48
30 4 0.12
31 13 0.39
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (29 bp):
ATTTTAGTCACTTACGTTTCAAATGTAAC
Found at i:46760405 original size:23 final size:23
Alignment explanation
Indices: 46760379--46760423 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46760369 ATAAAAGTTA
46760379 AAATAATAT-AAAAAGAAAAAATT
1 AAATAAT-TCAAAAAGAAAAAATT
* *
46760402 AAATTATTCAAAATGAAAAAAT
1 AAATAATTCAAAAAGAAAAAAT
46760424 ATTGAGACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (23 bp):
AAATAATTCAAAAAGAAAAAATT
Found at i:46766237 original size:30 final size:30
Alignment explanation
Indices: 46766202--46766375 Score: 222
Period size: 30 Copynumber: 5.7 Consensus size: 30
46766192 ATACATGTTT
46766202 TATATATTGCCGAATTGATTTGTATATGGATA
1 TATATATTGCCGAATTGATTTGTATATGG--A
* * * *
46766234 TATATATTTCCGAATTTATTTATATATAGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
46766264 TATATATAGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
46766294 TATACACTGCCGAATTGATTTGTATATAGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
46766324 TATACATTGCTGAATTGATTTGTATATGTA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
46766354 TATATATTGCCTAATTGATTTG
1 TATATATTGCCGAATTGATTTG
46766376 AGCATTGGAT
Statistics
Matches: 122, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
30 97 0.80
32 25 0.20
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (30 bp):
TATATATTGCCGAATTGATTTGTATATGGA
Found at i:46766593 original size:36 final size:35
Alignment explanation
Indices: 46766545--46766613 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
46766535 AGAAAACATG
* *
46766545 TAAGACCATGTTTGGAACATTGGTATCGTATATGTA
1 TAAGACCATGTTTGGAACAGTGGCATCG-ATATGTA
*
46766581 TAAGATCC-TGTTTGGGACAGTGGCATCGATATG
1 TAAGA-CCATGTTTGGAACAGTGGCATCGATATG
46766614 CATTAACATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 5 0.17
36 22 0.76
37 2 0.07
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (35 bp):
TAAGACCATGTTTGGAACAGTGGCATCGATATGTA
Found at i:46767953 original size:62 final size:59
Alignment explanation
Indices: 46767837--46767957 Score: 136
Period size: 62 Copynumber: 2.0 Consensus size: 59
46767827 TTGTACAAAC
* ****
46767837 TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTGTTTTAAATATTTTAATAGTAAAT
1 TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTATTTTAAATAAGACAATAG-AAAT
* *
46767897 TATTTTTATATT-TTATCCTATTTAATAAAATATAAGTTATTTTGAATAAGACAATAGAAAT
1 TATTTTTATATTGTT-T--TATTTAATAAAATAAAAGTTATTTTAAATAAGACAATAGAAAT
46767958 AATGCAACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
59 2 0.04
60 13 0.25
61 4 0.08
62 32 0.63
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (59 bp):
TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTATTTTAAATAAGACAATAGAAAT
Found at i:46771157 original size:123 final size:125
Alignment explanation
Indices: 46770926--46771190 Score: 331
Period size: 123 Copynumber: 2.1 Consensus size: 125
46770916 ACCAAACAAT
* * **
46770926 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATTT
1 AACTACTGTAGAAAAAGAACATCCACGTGGGAGATTTTTTCAGTAATTTTGCTGACAGTGCATCC
* ** *
46770991 TGCTTGAAGAGTTTTTGACACTAATTTTTTAGATTCGTCTTCTCAAAATT-TTTTT-AGG
66 TGCTTGAAGAGTTTTTGACACTAATTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGA
** *
46771049 AACTACTGTAGAAAAAGAATTTCCACGTGGGAGATTTTTTCAGTAATTTTGCTGATAGTGCATCC
1 AACTACTGTAGAAAAAGAACATCCACGTGGGAGATTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * *
46771114 TGTTTGAAGCA-TTTTTGACA-TTATCTTTTCAGAACCGTTTTCTCAAAATTAATTTTTCTGA
66 TGCTTGAAG-AGTTTTTGACACTAAT-TTTTCAGAACCGTCTTCTCAAAATT-ATTTTTCAGA
*
46771175 AACTACTGTATAAAAA
1 AACTACTGTAGAAAAA
46771191 TAAATAAAAT
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
122 3 0.02
123 96 0.79
124 1 0.01
125 5 0.04
126 16 0.13
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAACATCCACGTGGGAGATTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGAGTTTTTGACACTAATTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGA
Found at i:46771320 original size:34 final size:33
Alignment explanation
Indices: 46771279--46771406 Score: 141
Period size: 33 Copynumber: 3.8 Consensus size: 33
46771269 CACAAAATTA
*
46771279 TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
1 TTTTTAAAAAATCTAAACCCTAATTTAATTAAT
* *
46771312 TTTCTT-AAAACTCTAAACCCTAATTTAATTTAT
1 TTT-TTAAAAAATCTAAACCCTAATTTAATTAAT
* * ***
46771345 TTATTTAAAACACCTAAAATGTAATTTAATTAAT
1 TT-TTTAAAAAATCTAAACCCTAATTTAATTAAT
*
46771379 TTTTTAAAAAATTCTAAACCTTAATTTA
1 TTTTTAAAAAA-TCTAAACCCTAATTTA
46771407 TTTTTTAAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
33 39 0.51
34 37 0.49
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.43
Consensus pattern (33 bp):
TTTTTAAAAAATCTAAACCCTAATTTAATTAAT
Found at i:46771352 original size:67 final size:65
Alignment explanation
Indices: 46771281--46771413 Score: 160
Period size: 67 Copynumber: 2.0 Consensus size: 65
46771271 CAAAATTATT
*
46771281 TTTAAAAAAACTAAACCCTAATTTAATTAATTTTCTT-AAAACTCTAAACCCTAATTTAATTTAT
1 TTTAAAAAAACTAAAACCTAATTTAATTAATTTT-TTAAAAACTCTAAACCCTAATTT-ATTT-T
46771345 TTA
63 TTA
* * ** * *
46771348 TTTAAAACACCTAAAATGTAATTTAATTAATTTTTTAAAAAATTCTAAACCTTAATTTATTTTTT
1 TTTAAAAAAACTAAAACCTAATTTAATTAATTTTTT-AAAAACTCTAAACCCTAATTTATTTTTT
46771413 A
65 A
46771414 AAATTTTTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
66 6 0.11
67 33 0.58
68 18 0.32
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (65 bp):
TTTAAAAAAACTAAAACCTAATTTAATTAATTTTTTAAAAACTCTAAACCCTAATTTATTTTTTA
Found at i:46782826 original size:16 final size:16
Alignment explanation
Indices: 46782805--46782853 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
46782795 CGCTGTATTG
46782805 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
*
46782821 GAATAGAGGTGTAATA
1 GAATAGAGGCGTAATA
*
46782837 GAATAGAAGCGTAATA
1 GAATAGAGGCGTAATA
46782853 G
1 G
46782854 TATTCTTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.45, C:0.04, G:0.31, T:0.20
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:46788775 original size:6 final size:6
Alignment explanation
Indices: 46788764--46788797 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
46788754 CCGGGTCCTA
46788764 GGCCCG GGCCC- GGCCCG GGCCCG GGCCC- GGCCCG
1 GGCCCG GGCCCG GGCCCG GGCCCG GGCCCG GGCCCG
46788798 ACCCGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.00, C:0.53, G:0.47, T:0.00
Consensus pattern (6 bp):
GGCCCG
Found at i:46788786 original size:17 final size:17
Alignment explanation
Indices: 46788764--46788797 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46788754 CCGGGTCCTA
46788764 GGCCCGGGCCCGGCCCG
1 GGCCCGGGCCCGGCCCG
46788781 GGCCCGGGCCCGGCCCG
1 GGCCCGGGCCCGGCCCG
46788798 ACCCGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.53, G:0.47, T:0.00
Consensus pattern (17 bp):
GGCCCGGGCCCGGCCCG
Found at i:46788927 original size:11 final size:11
Alignment explanation
Indices: 46788913--46788938 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
46788903 AATTAAAAAA
46788913 AAAAGTATTTT
1 AAAAGTATTTT
46788924 AAAAGTATTTT
1 AAAAGTATTTT
46788935 AAAA
1 AAAA
46788939 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:46788982 original size:17 final size:17
Alignment explanation
Indices: 46788960--46788993 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46788950 TAAAAAGTAT
46788960 TTTTAAAAAATTTAAAA
1 TTTTAAAAAATTTAAAA
46788977 TTTTAAAAAATTTAAAA
1 TTTTAAAAAATTTAAAA
46788994 AAAGTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTTAAAAAATTTAAAA
Found at i:46789008 original size:11 final size:11
Alignment explanation
Indices: 46788993--46789018 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
46788983 AAAATTTAAA
46788993 AAAAGTATTTT
1 AAAAGTATTTT
46789004 AAAAGTATTTT
1 AAAAGTATTTT
46789015 AAAA
1 AAAA
46789019 TTTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:46789032 original size:39 final size:39
Alignment explanation
Indices: 46788910--46789035 Score: 161
Period size: 40 Copynumber: 3.2 Consensus size: 39
46788900 AAAAATTAAA
46788910 AAAAAAAGTATTTTAAAAGTATTTTAAAA-TTAAAAAA-
1 AAAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAAAT
*
46788947 AATTAAAAAGTATTTTTAAAA--AATTTAAAATTTTAAAAAATTT
1 AA--AAAAAGTA-TTTTAAAAGTATTTTAAAA-TTTAAAAAA--T
46788990 AAAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAAAT
1 AAAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAAAT
46789029 AAAAAAA
1 AAAAAAA
46789036 TAAAAAAATT
Statistics
Matches: 77, Mismatches: 2, Indels: 18
0.79 0.02 0.19
Matches are distributed among these distances:
37 2 0.03
38 8 0.10
39 16 0.21
40 24 0.31
41 17 0.22
42 8 0.10
43 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (39 bp):
AAAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAAAT
Found at i:46790311 original size:21 final size:21
Alignment explanation
Indices: 46790287--46790326 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
46790277 TTTAATATCT
*
46790287 AAGATTATATTTTTATTTGTA
1 AAGATTATATTTGTATTTGTA
46790308 AAGATTATATTTGTATTTG
1 AAGATTATATTTGTATTTG
46790327 AGTTTTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
AAGATTATATTTGTATTTGTA
Found at i:46794546 original size:26 final size:26
Alignment explanation
Indices: 46794515--46794566 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
46794505 AATGCCGACC
*
46794515 CACAGCTCATGTGAGCAGGCCCATTT
1 CACAGCTCATGTGAGCAGGCACATTT
*
46794541 CACAGCTCGTGTGAGCAGGCACATTT
1 CACAGCTCATGTGAGCAGGCACATTT
46794567 TACCAAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (26 bp):
CACAGCTCATGTGAGCAGGCACATTT
Found at i:46794630 original size:2 final size:2
Alignment explanation
Indices: 46794623--46794647 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46794613 TGACAAAATT
46794623 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
46794648 TAAATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46801092 original size:52 final size:52
Alignment explanation
Indices: 46801013--46801177 Score: 216
Period size: 46 Copynumber: 3.2 Consensus size: 52
46801003 TACTTCTGAT
* *
46801013 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
** *
46801066 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
46801118 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
*
46801164 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
46801178 GCTACACTTA
Statistics
Matches: 96, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
46 43 0.45
52 41 0.43
53 12 0.12
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
Found at i:46801126 original size:46 final size:46
Alignment explanation
Indices: 46801073--46801251 Score: 187
Period size: 37 Copynumber: 4.3 Consensus size: 46
46801063 TGACAAGTGA
* *
46801073 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
*
46801119 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
*
46801165 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
*
46801202 AAAGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
46801239 AAAGTGATAAGTG
1 AAAGTGATAAGTG
46801252 GCTACACTTA
Statistics
Matches: 127, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
37 70 0.55
39 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 53 0.42
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
Found at i:46801185 original size:37 final size:37
Alignment explanation
Indices: 46801141--46801323 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
46801131 GATAGCTTTA
*
46801141 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46801178 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46801215 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
46801252 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
46801289 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
46801324 ATCATACGTA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 126 0.89
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:46805720 original size:17 final size:19
Alignment explanation
Indices: 46805684--46805721 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46805674 TATTATATAC
*
46805684 ATGTTTTATGTATATTTAA
1 ATGTTTAATGTATATTTAA
46805703 ATGTTTAAT-TAT-TTTAA
1 ATGTTTAATGTATATTTAA
46805720 AT
1 AT
46805722 CGAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
ATGTTTAATGTATATTTAA
Found at i:46808497 original size:44 final size:45
Alignment explanation
Indices: 46808442--46808618 Score: 160
Period size: 45 Copynumber: 4.0 Consensus size: 45
46808432 ACACTTTCAT
* *
46808442 ATGATGCCATAGTGTCTTTCAGCTATGGTCTTACACA-TTTTATC
1 ATGACGCCATAGTATCTTTCAGCTATGGTCTTACACATTTTTATC
* * * *
46808486 ATGGCGCCATAGTTTCTTTCAACTATGAG-CTTACTCATTTTTATC
1 ATGACGCCATAGTATCTTTCAGCTATG-GTCTTACACATTTTTATC
** * * **
46808531 ATGACGCCATAACATATTTTAGCTATGGTCTTACTTATTTTTATC
1 ATGACGCCATAGTATCTTTCAGCTATGGTCTTACACATTTTTATC
* * ** * **
46808576 ATAACACCATAACATCTTTAAGCTATGGTCTTATTCATTTTTA
1 ATGACGCCATAGTATCTTTCAGCTATGGTCTTACACATTTTTA
46808619 GGCATATAGC
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
44 31 0.28
45 80 0.72
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (45 bp):
ATGACGCCATAGTATCTTTCAGCTATGGTCTTACACATTTTTATC
Found at i:46815599 original size:15 final size:15
Alignment explanation
Indices: 46815576--46815627 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
46815566 CTAACTGAGC
* *
46815576 TTAAATTTTTATTAA
1 TTAAGTTTTAATTAA
*
46815591 TTAAGTTTTAACTAA
1 TTAAGTTTTAATTAA
* *
46815606 TTAA-ATTTGATTAA
1 TTAAGTTTTAATTAA
46815620 TTAAGTTT
1 TTAAGTTT
46815628 CTGTATATGT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (15 bp):
TTAAGTTTTAATTAA
Found at i:46816263 original size:28 final size:29
Alignment explanation
Indices: 46816195--46816271 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
46816185 CCTCGATACG
*
46816195 ATGTTAACTTGTGTGAACAAATTCATAAA
1 ATGTTAACTTGTGTGAGCAAATTCATAAA
* *
46816224 ATGTCAATTTGTGTGAGCAAATTCAT-AA
1 ATGTTAACTTGTGTGAGCAAATTCATAAA
* *
46816252 ATGTTAGCTTGTGTAAGCAA
1 ATGTTAACTTGTGTGAGCAA
46816272 CCCTAATCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 18 0.44
29 23 0.56
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (29 bp):
ATGTTAACTTGTGTGAGCAAATTCATAAA
Found at i:46817464 original size:36 final size:36
Alignment explanation
Indices: 46817417--46817487 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
46817407 GGCCTAACGT
*
46817417 CGTGACATGACAAACTATTTTGCGACGTCATGATGA
1 CGTGACATGACAAACTACTTTGCGACGTCATGATGA
* *
46817453 CGTGACGTGACAAACTACTTTGCGATGTCATGATG
1 CGTGACATGACAAACTACTTTGCGACGTCATGATG
46817488 TGGAAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (36 bp):
CGTGACATGACAAACTACTTTGCGACGTCATGATGA
Found at i:46818448 original size:19 final size:19
Alignment explanation
Indices: 46818413--46818454 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
46818403 TATGTTAATT
*
46818413 TAAAGTTAAATTAATAATAA
1 TAAAGTTAAA-TAATAAAAA
46818433 TAAAGTTAAA-ACATAAAAA
1 TAAAGTTAAATA-ATAAAAA
46818452 TAA
1 TAA
46818455 TGGTCATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 9 0.45
20 10 0.50
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
TAAAGTTAAATAATAAAAA
Found at i:46827673 original size:40 final size:43
Alignment explanation
Indices: 46827629--46827708 Score: 96
Period size: 42 Copynumber: 1.9 Consensus size: 43
46827619 GGTAAAAACA
46827629 TAACT-ACTATTATCAA-T-AAAATCAAATACAAA-ATGAATAT
1 TAACTCAC-ATTATCAACTCAAAATCAAATACAAAGATGAATAT
* * *
46827669 TAACTCACATTATTAACTCAAACTCAAATTCAAAGATGAA
1 TAACTCACATTATCAACTCAAAATCAAATACAAAGATGAA
46827709 AATAGCATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
40 12 0.36
41 3 0.09
42 13 0.39
43 5 0.15
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (43 bp):
TAACTCACATTATCAACTCAAAATCAAATACAAAGATGAATAT
Found at i:46832472 original size:13 final size:13
Alignment explanation
Indices: 46832454--46832478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46832444 ATTTAGTATT
46832454 TATATAATAAATG
1 TATATAATAAATG
46832467 TATATAATAAAT
1 TATATAATAAAT
46832479 ATATTTTTTA
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:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
TATATAATAAATG
Found at i:46832533 original size:20 final size:21
Alignment explanation
Indices: 46832504--46832542 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
46832494 TATTGTAAAG
46832504 TATTTGTAAAATAC-TTTTTT
1 TATTTGTAAAATACATTTTTT
*
46832524 TATTTTTAAAATACATTTT
1 TATTTGTAAAATACATTTT
46832543 CGGATATAAT
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:0.05, G:0.03, T:0.59
Consensus pattern (21 bp):
TATTTGTAAAATACATTTTTT
Found at i:46839478 original size:17 final size:18
Alignment explanation
Indices: 46839441--46839479 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
46839431 TAAATTAATT
*
46839441 ATTTTATAAATACTTATA
1 ATTTTATAAATACTTAGA
*
46839459 ATTTTAT-AATTCTTAGA
1 ATTTTATAAATACTTAGA
46839476 ATTT
1 ATTT
46839480 CACTTCCGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTATAAATACTTAGA
Found at i:46849208 original size:47 final size:47
Alignment explanation
Indices: 46849139--46849228 Score: 180
Period size: 47 Copynumber: 1.9 Consensus size: 47
46849129 ACTTGTTGGA
46849139 AGCTTAATCTATTTGACCATTACAAGGCCTGAAATTTCATACTTTGT
1 AGCTTAATCTATTTGACCATTACAAGGCCTGAAATTTCATACTTTGT
46849186 AGCTTAATCTATTTGACCATTACAAGGCCTGAAATTTCATACT
1 AGCTTAATCTATTTGACCATTACAAGGCCTGAAATTTCATACT
46849229 CTGTTAGTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (47 bp):
AGCTTAATCTATTTGACCATTACAAGGCCTGAAATTTCATACTTTGT
Found at i:46851404 original size:42 final size:42
Alignment explanation
Indices: 46851294--46851383 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
46851284 TCTCAGGCCA
* *
46851294 TGTAACATTCGAAATAGGGACACACGGCCGTGTCCCAGCTCG
1 TGTAACATTCGAAATAGGGACACACGGCCGTCTCCCAGCCCG
*
46851336 TGTAACATTCGAAATAGGGACACACGGTCGTCTCCCAGCCCG
1 TGTAACATTCGAAATAGGGACACACGGCCGTCTCCCAGCCCG
46851378 TGTAAC
1 TGTAAC
46851384 TCTCTGAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (42 bp):
TGTAACATTCGAAATAGGGACACACGGCCGTCTCCCAGCCCG
Found at i:46857485 original size:16 final size:17
Alignment explanation
Indices: 46857464--46857507 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
46857454 TATATTTAGT
*
46857464 AATATAATTT-ATTACA
1 AATATAATTTCACTACA
*
46857480 AATATAATTATCACTCCA
1 AATATAATT-TCACTACA
46857498 AATATAATTT
1 AATATAATTT
46857508 TAACAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATAATTTCACTACA
Found at i:46858305 original size:17 final size:17
Alignment explanation
Indices: 46858283--46858316 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46858273 ACTTGAATAC
* *
46858283 AAATAAACATGATAATG
1 AAATAAAAATGAAAATG
46858300 AAATAAAAATGAAAATG
1 AAATAAAAATGAAAATG
46858317 GCCATTAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (17 bp):
AAATAAAAATGAAAATG
Found at i:46858698 original size:22 final size:20
Alignment explanation
Indices: 46858650--46858698 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
46858640 TTAAACACCT
46858650 TTTAAAAATAAAATAATCAA
1 TTTAAAAATAAAATAATCAA
* * *
46858670 ATGAAAAATTAAACATAATCAG
1 TTTAAAAA-TAAA-ATAATCAA
46858692 TTTAAAA
1 TTTAAAA
46858699 CATATTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 6 0.27
21 4 0.18
22 12 0.55
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (20 bp):
TTTAAAAATAAAATAATCAA
Found at i:46861778 original size:17 final size:15
Alignment explanation
Indices: 46861748--46861799 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
46861738 ACTACAAAAC
*
46861748 ATTTATTATTAATAT
1 ATTTATTTTTAATAT
46861763 ATTTATAATTTTAATAAAT
1 ATTTAT--TTTTAAT--AT
*
46861782 ATTTATTTTTAAAAT
1 ATTTATTTTTAATAT
46861797 ATT
1 ATT
46861800 AATATTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 11 0.35
17 12 0.39
19 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTATTTTTAATAT
Found at i:46861798 original size:15 final size:15
Alignment explanation
Indices: 46861743--46861799 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
46861733 TTTATACTAC
* *
46861743 AAAACATTTATTATT
1 AAAATATTTATTTTT
*
46861758 AATATATTTATAATTTT
1 AAAATATTTAT--TTTT
46861775 AATAAATATTTATTTTT
1 -A-AAATATTTATTTTT
46861792 AAAATATT
1 AAAATATT
46861800 AATATTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 16 0.47
16 1 0.03
17 7 0.21
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
AAAATATTTATTTTT
Found at i:46864254 original size:20 final size:20
Alignment explanation
Indices: 46864226--46864277 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
46864216 ATAAGGTCCA
*
46864226 TCTCAAGACAGAGTTCCTCG
1 TCTCGAGACAGAGTTCCTCG
**
46864246 TCTCGAGACAAAGAGTTCCTTT
1 TCTCGAGAC--AGAGTTCCTCG
46864268 TCTCGAGACA
1 TCTCGAGACA
46864278 CAACATTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.33
22 18 0.67
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (20 bp):
TCTCGAGACAGAGTTCCTCG
Found at i:46864263 original size:22 final size:22
Alignment explanation
Indices: 46864235--46864277 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
46864225 ATCTCAAGAC
46864235 AGAGTTCCTCGTCTCGAGACAA
1 AGAGTTCCTCGTCTCGAGACAA
**
46864257 AGAGTTCCTTTTCTCGAGACA
1 AGAGTTCCTCGTCTCGAGACA
46864278 CAACATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (22 bp):
AGAGTTCCTCGTCTCGAGACAA
Found at i:46865875 original size:12 final size:12
Alignment explanation
Indices: 46865846--46865884 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46865836 TTATTTTCCG
46865846 TAAAAATGAAAA
1 TAAAAATGAAAA
**
46865858 CGAAAATGAAAA
1 TAAAAATGAAAA
*
46865870 TAAAAATAAAAA
1 TAAAAATGAAAA
46865882 TAA
1 TAA
46865885 CCTATGTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (12 bp):
TAAAAATGAAAA
Found at i:46866411 original size:23 final size:23
Alignment explanation
Indices: 46866385--46866429 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46866375 AGAAAATGTC
* *
46866385 ACAATAAAATTAACCAAAACGTT
1 ACAAAAAAATGAACCAAAACGTT
*
46866408 ACAAAAAAATGAACTAAAACGT
1 ACAAAAAAATGAACCAAAACGT
46866430 CAAAGAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.16, G:0.07, T:0.18
Consensus pattern (23 bp):
ACAAAAAAATGAACCAAAACGTT
Found at i:46870933 original size:7 final size:7
Alignment explanation
Indices: 46870921--46870950 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
46870911 AAAAACCACC
*
46870921 TGGAAAT
1 TGGAAAA
46870928 TGGAAAA
1 TGGAAAA
46870935 TGGAAAA
1 TGGAAAA
46870942 TGGAAAA
1 TGGAAAA
46870949 TG
1 TG
46870951 AAGAACTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (7 bp):
TGGAAAA
Found at i:46890323 original size:22 final size:23
Alignment explanation
Indices: 46890290--46890332 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
46890280 AGTATCTGGA
46890290 ATAGAGGCTGTTTGGTACTATGG
1 ATAGAGGCTGTTTGGTACTATGG
*
46890313 ATAG-GGCTGTTTGGTTCTAT
1 ATAGAGGCTGTTTGGTACTAT
46890333 TTTTCTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.19, C:0.09, G:0.33, T:0.40
Consensus pattern (23 bp):
ATAGAGGCTGTTTGGTACTATGG
Found at i:46890450 original size:18 final size:17
Alignment explanation
Indices: 46890423--46890492 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 17
46890413 AAATAAGTAA
*
46890423 TAAATAATAAAATAAAT
1 TAAAAAATAAAATAAAT
*
46890440 TAAAGTAAT-AAATAAAT
1 TAAA-AAATAAAATAAAT
*
46890457 TAAAGAAAATAAAATAAAA
1 T-AA-AAAATAAAATAAAT
46890476 TAAAAAATAAAAATAAA
1 TAAAAAAT-AAAATAAA
46890493 AATTAGGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
17 18 0.39
18 19 0.41
19 9 0.20
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAAAATAAAATAAAT
Found at i:46890452 original size:17 final size:17
Alignment explanation
Indices: 46890423--46890486 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
46890413 AAATAAGTAA
46890423 TAAA-TAATAAAATAAAT
1 TAAAGTAAT-AAATAAAT
46890440 TAAAGTAATAAATAAAT
1 TAAAGTAATAAATAAAT
*
46890457 TAAAG--A-AAATAAAA
1 TAAAGTAATAAATAAAT
* *
46890471 TAAAATAAAAAATAAA
1 TAAAGTAATAAATAAA
46890487 AATAAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 11 0.27
15 1 0.02
16 1 0.02
17 24 0.59
18 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAGTAATAAATAAAT
Found at i:46890493 original size:18 final size:19
Alignment explanation
Indices: 46890421--46890493 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
46890411 CCAAATAAGT
46890421 AATAAATAATAAAATAAATTA
1 AATAAA-AATAAAATAAA-TA
* *
46890442 AAGTAATAAATAAATTAAAGA
1 AA-TAA-AAATAAAATAAATA
46890463 AA-ATAAAATAAAATAAA-A
1 AATA-AAAATAAAATAAATA
46890481 AATAAAAATAAAA
1 AATAAAAATAAAA
46890494 ATTAGGTTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
18 12 0.27
19 13 0.29
20 1 0.02
21 5 0.11
22 13 0.29
23 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (19 bp):
AATAAAAATAAAATAAATA
Found at i:46890494 original size:12 final size:11
Alignment explanation
Indices: 46890421--46890495 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 11
46890411 CCAAATAAGT
46890421 AATAAATAATAA
1 AATAAA-AATAA
*
46890433 AAT-AAATTAA
1 AATAAAAATAA
*
46890443 AGTAATAAAT-A
1 AATAA-AAATAA
* *
46890454 AAT-TAAAGAA
1 AATAAAAATAA
46890464 AAT-AAAATAA
1 AATAAAAATAA
46890474 AATAAAAAATAAA
1 AAT-AAAAAT-AA
46890487 AATAAAAAT
1 AATAAAAAT
46890496 TAGGTTGCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
9 3 0.06
10 18 0.37
11 6 0.12
12 17 0.35
13 5 0.10
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:46896217 original size:17 final size:17
Alignment explanation
Indices: 46896195--46896229 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
46896185 CTTGGGTTCA
46896195 ATCCTCGGCTTTAGATG
1 ATCCTCGGCTTTAGATG
46896212 ATCCTCGGCTTTAGATG
1 ATCCTCGGCTTTAGATG
46896229 A
1 A
46896230 GCCATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (17 bp):
ATCCTCGGCTTTAGATG
Found at i:46897617 original size:16 final size:18
Alignment explanation
Indices: 46897593--46897635 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
46897583 AAACCTTACT
*
46897593 AAGATAAAAACCCT-GTG
1 AAGAAAAAAACCCTAGTG
*
46897610 -AGAAAAAAATCCTAGTG
1 AAGAAAAAAACCCTAGTG
46897627 AAGAAAAAA
1 AAGAAAAAA
46897636 GAGTACACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 11 0.50
17 3 0.14
18 8 0.36
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.14
Consensus pattern (18 bp):
AAGAAAAAAACCCTAGTG
Found at i:46914800 original size:61 final size:61
Alignment explanation
Indices: 46914705--46914826 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
46914695 TCAAGTGTAT
46914705 GATAGTCTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
1 GATAGTCTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
*
46914766 GATAGTTTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
1 GATAGTCTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
46914827 CTACTTTAGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.18, C:0.11, G:0.30, T:0.42
Consensus pattern (61 bp):
GATAGTCTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
Found at i:46917403 original size:56 final size:51
Alignment explanation
Indices: 46917337--46917528 Score: 172
Period size: 50 Copynumber: 3.7 Consensus size: 51
46917327 GGAATGAGAC
* **
46917337 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGA-G--ATGAGAGGT
* * * * *
46917393 CCTACGTAAGATCATGTATGGGACAAGGCGTTGGC-ACCGAGATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGT
* * * **
46917443 CCCCCGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAGAACT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGT
* * * *
46917493 CCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
46917529 GTACAGGAAA
Statistics
Matches: 111, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 78 0.70
52 1 0.01
53 3 0.03
56 29 0.26
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (51 bp):
CCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGT
Found at i:46917804 original size:20 final size:20
Alignment explanation
Indices: 46917779--46917817 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
46917769 TGAGTTATTT
46917779 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
46917799 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
46917818 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:46922858 original size:20 final size:20
Alignment explanation
Indices: 46922833--46922871 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
46922823 TACTTTCTTC
46922833 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
46922853 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
46922872 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:46923199 original size:49 final size:50
Alignment explanation
Indices: 46923122--46923266 Score: 195
Period size: 49 Copynumber: 2.9 Consensus size: 50
46923112 TTTCCTGTAC
* **
46923122 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
46923172 TGTCC-ATGCCATGTCCCAGACAT-GTCTTACGGGGGACCTCTCATCTCGG
1 TG-CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
46923221 TGCCAATGCCATATCCCAGACATTGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATA
46923267 ACCTCAATAA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
48 2 0.02
49 40 0.49
50 37 0.46
51 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:46925297 original size:45 final size:45
Alignment explanation
Indices: 46925216--46925347 Score: 196
Period size: 45 Copynumber: 3.0 Consensus size: 45
46925206 AATCGTTACA
* * **
46925216 CGGTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
* *
46925259 CGGTGGAATCAGCACATAGCAACCACCTTTATAGTCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
46925304 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATAC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATAC
46925348 TCAGTACACG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 6 0.08
44 13 0.16
45 60 0.76
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
Done.