Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 60 of 145
Found at i:20759820 original size:19 final size:20
Alignment explanation
Indices: 20759790--20759827 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
20759780 GATAATCTCT
20759790 CATAATTTTTAGTATTTTCC
1 CATAATTTTTAGTATTTTCC
20759810 CATAA-TTTTAGTATTTTC
1 CATAATTTTTAGTATTTTC
20759828 TCGTAAGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (20 bp):
CATAATTTTTAGTATTTTCC
Found at i:20760041 original size:20 final size:20
Alignment explanation
Indices: 20760018--20760092 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
20760008 CCTCTTATAA
20760018 TTTTTGGTACTCCATCATGT
1 TTTTTGGTACTCCATCATGT
*
20760038 TTTTTGGTACTCACATCATAT
1 TTTTTGGTACTC-CATCATGT
* *
20760059 TTTTTGGTATTTCC-TCGTGT
1 TTTTTGGTA-CTCCATCATGT
*
20760079 TTTTTAGTACTCCA
1 TTTTTGGTACTCCA
20760093 AAAATTATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.07
20 24 0.52
21 17 0.37
22 2 0.04
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (20 bp):
TTTTTGGTACTCCATCATGT
Found at i:20760054 original size:21 final size:20
Alignment explanation
Indices: 20760018--20760067 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
20760008 CCTCTTATAA
*
20760018 TTTTTGGTACTCCATCATGT
1 TTTTTGGTACTCCATCATAT
20760038 TTTTTGGTACTCACATCATAT
1 TTTTTGGTACTC-CATCATAT
20760059 TTTTTGGTA
1 TTTTTGGTA
20760068 TTTCCTCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (20 bp):
TTTTTGGTACTCCATCATAT
Found at i:20761666 original size:18 final size:18
Alignment explanation
Indices: 20761633--20761677 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
20761623 TAATAGGTTA
*
20761633 TTCAAATCATTTTCTA-T
1 TTCAAATCACTTTCTACT
20761650 TTCAAATTCACTTTCTACT
1 TTCAAA-TCACTTTCTACT
*
20761669 TTCTAATCA
1 TTCAAATCA
20761678 ATATACAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTCAAATCACTTTCTACT
Found at i:20762063 original size:24 final size:25
Alignment explanation
Indices: 20762020--20762066 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
20762010 AGTTCAGATA
20762020 ATTTCACTTCACTTCGATTCAATTC
1 ATTTCACTTCACTTCGATTCAATTC
**
20762045 ATTTCA-TTCACTTTTATTCAAT
1 ATTTCACTTCACTTCGATTCAAT
20762067 GCAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (25 bp):
ATTTCACTTCACTTCGATTCAATTC
Found at i:20762108 original size:14 final size:14
Alignment explanation
Indices: 20762089--20762117 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20762079 TACTCACCTC
20762089 AATTTCACTTACCA
1 AATTTCACTTACCA
20762103 AATTTCACTTACCA
1 AATTTCACTTACCA
20762117 A
1 A
20762118 GTACTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTTCACTTACCA
Found at i:20764969 original size:16 final size:17
Alignment explanation
Indices: 20764948--20764980 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20764938 TTATAATTTT
20764948 TTTTCAT-TTATTTAAA
1 TTTTCATATTATTTAAA
*
20764964 TTTTCATATTTTTTAAA
1 TTTTCATATTATTTAAA
20764981 AATTATCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTCATATTATTTAAA
Found at i:20766721 original size:29 final size:30
Alignment explanation
Indices: 20766661--20766809 Score: 105
Period size: 29 Copynumber: 5.1 Consensus size: 30
20766651 CAAAAAATAA
* * *
20766661 AAAATTACATTTTGACCCCTAAA-CTTCTT
1 AAAATCACATTTTGACCCCTAAATTTTCCT
*
20766690 AAAATCGCA-TTTGACCCCTAAATTTTCCT
1 AAAATCACATTTTGACCCCTAAATTTTCCT
* *
20766719 AAAATTATATTTTGACCCCTAAAATTTT--T
1 AAAATCACATTTTGACCCCT-AAATTTTCCT
* * * *
20766748 GAAATTACATTTTGACCCATTAACTTTT-C-
1 AAAATCACATTTTGACCC-CTAAATTTTCCT
* * * *
20766777 GAAATTATATTTTGACTCCTAAATTTT-CT
1 AAAATCACATTTTGACCCCTAAATTTTCCT
20766806 AAAA
1 AAAA
20766810 ATGATATCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
28 21 0.21
29 59 0.60
30 11 0.11
31 7 0.07
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (30 bp):
AAAATCACATTTTGACCCCTAAATTTTCCT
Found at i:20766759 original size:58 final size:58
Alignment explanation
Indices: 20766661--20766809 Score: 160
Period size: 58 Copynumber: 2.6 Consensus size: 58
20766651 CAAAAAATAA
* * * *
20766661 AAAATTACATTTTGACCCCTAAACTTCTTAAAATCGCA-TTTGACCC-CTAAATTTTCC
1 AAAATTATATTTTGACCCCTAAAATTTTTAAAATCACATTTTGACCCACTAAATTTT-C
* * * *
20766718 TAAAATTATATTTTGACCCCTAAAATTTTTGAAATTACATTTTGACCCATTAACTTTTC
1 -AAAATTATATTTTGACCCCTAAAATTTTTAAAATCACATTTTGACCCACTAAATTTTC
* *
20766777 GAAATTATATTTTGACTCCT-AAATTTTCTAAAA
1 AAAATTATATTTTGACCCCTAAAATTTT-TAAAA
20766810 ATGATATCTT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
57 7 0.09
58 54 0.70
59 9 0.12
60 7 0.09
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (58 bp):
AAAATTATATTTTGACCCCTAAAATTTTTAAAATCACATTTTGACCCACTAAATTTTC
Found at i:20767061 original size:5 final size:5
Alignment explanation
Indices: 20767051--20767126 Score: 54
Period size: 5 Copynumber: 15.8 Consensus size: 5
20767041 TTTTCGAAAA
* * *
20767051 AAGAG AAGAG AAGAG AAGAG AA-AG AAAAG AA-A- AAGAAA AAAAG AAGAG
1 AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG AAG-AG AAGAG AAGAG
* *
20767099 AAGAG AA-A- AAGAAA AAAAG AAGAG AAGA
1 AAGAG AAGAG AAG-AG AAGAG AAGAG AAGA
20767127 TGAGAGCTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
3 4 0.07
4 6 0.10
5 44 0.76
6 4 0.07
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:20767073 original size:24 final size:21
Alignment explanation
Indices: 20767046--20767126 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 21
20767036 GAGCTTTTTC
20767046 GAAAAAAGAGAAGAGAAGAGAAGA
1 GAAAAAA-AGAAGAGAAGA-AA-A
20767070 GAAAGAAAAGAA-A-AAGAAAA
1 GAAA-AAAAGAAGAGAAGAAAA
*
20767090 -AAAGAAGAGAAGAG-A-AAAA
1 GAAA-AAAAGAAGAGAAGAAAA
20767109 GAAAAAAAGAAGAGAAGA
1 GAAAAAAAGAAGAGAAGA
20767127 TGAGAGCTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
19 23 0.47
20 7 0.14
21 3 0.06
22 4 0.08
23 1 0.02
24 8 0.16
25 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
GAAAAAAAGAAGAGAAGAAAA
Found at i:20767093 original size:8 final size:8
Alignment explanation
Indices: 20767080--20767119 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
20767070 GAAAGAAAAG
20767080 AAAAAGAA
1 AAAAAGAA
20767088 AAAAAGAA
1 AAAAAGAA
* * *
20767096 GAGAAGAG
1 AAAAAGAA
20767104 AAAAAGAA
1 AAAAAGAA
20767112 AAAAAGAA
1 AAAAAGAA
20767120 GAGAAGATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:20767099 original size:38 final size:39
Alignment explanation
Indices: 20767046--20767119 Score: 116
Period size: 38 Copynumber: 1.9 Consensus size: 39
20767036 GAGCTTTTTC
*
20767046 GAAAAAAGAGAAGAGAAGAG-AAGAGAAAGAAAAGAAAAA
1 GAAAAAAGAGAAGAGAAGAGAAAAAGAAA-AAAAGAAAAA
20767085 GAAAAAA-AGAAGAGAAGAGAAAAAGAAAAAAAGAA
1 GAAAAAAGAGAAGAGAAGAGAAAAAGAAAAAAAGAA
20767120 GAGAAGATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
38 19 0.58
39 14 0.42
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (39 bp):
GAAAAAAGAGAAGAGAAGAGAAAAAGAAAAAAAGAAAAA
Found at i:20767220 original size:3 final size:3
Alignment explanation
Indices: 20767212--20767253 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
20767202 GGTTTCGAAA
* *
20767212 AAG AAG AAGG AAG AAG AAA AAG AAA AAG AAG AAG AAG AAG AA
1 AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
20767254 AGGAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20767236 original size:6 final size:6
Alignment explanation
Indices: 20767208--20767286 Score: 60
Period size: 6 Copynumber: 13.8 Consensus size: 6
20767198 CTAGGGTTTC
* * * *
20767208 GAAAAA GAAGAAG GAAGAA GAAAAA GAAAAA GAAGAA GAAGAA G--AAA
1 GAAAAA GAA-AAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
* *
20767255 GGAAAA -AAAAA GAAAAA G-AGAA -AAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
20767287 TAATTTTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
4 3 0.05
5 10 0.17
6 40 0.69
7 5 0.09
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:20767242 original size:18 final size:18
Alignment explanation
Indices: 20767208--20767286 Score: 87
Period size: 16 Copynumber: 4.6 Consensus size: 18
20767198 CTAGGGTTTC
*
20767208 GAAAAAGAAGAAGGAAGAA
1 GAAAAAGAA-AAAGAAGAA
20767227 GAAAAAGAAAAAGAAGAA
1 GAAAAAGAAAAAGAAGAA
* *
20767245 GAAGAAG-AAAGGAA-AA
1 GAAAAAGAAAAAGAAGAA
20767261 -AAAAAGAAAAAG-AGAA
1 GAAAAAGAAAAAGAAGAA
20767277 -AAAAAGAAAA
1 GAAAAAGAAAA
20767287 TAATTTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
15 6 0.11
16 18 0.34
17 6 0.11
18 14 0.26
19 9 0.17
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAGAA
Found at i:20767453 original size:16 final size:15
Alignment explanation
Indices: 20767432--20767472 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 15
20767422 TAGTAGGCCT
20767432 CGCAGGCCAACCCAAG
1 CGCAGGCCAACCC-AG
20767448 CGCAGGCCCAACCCAG
1 CGCAGG-CCAACCCAG
20767464 CGCCAGGCC
1 CG-CAGGCC
20767473 TAGCAGGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.24, C:0.49, G:0.27, T:0.00
Consensus pattern (15 bp):
CGCAGGCCAACCCAG
Found at i:20767460 original size:17 final size:16
Alignment explanation
Indices: 20767432--20767472 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
20767422 TAGTAGGCCT
20767432 CGCAGG-CCAACCCAAG
1 CGCAGGCCCAACCC-AG
20767448 CGCAGGCCCAACCCAG
1 CGCAGGCCCAACCCAG
20767464 CGCCAGGCC
1 CG-CAGGCC
20767473 TAGCAGGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.24, C:0.49, G:0.27, T:0.00
Consensus pattern (16 bp):
CGCAGGCCCAACCCAG
Found at i:20767585 original size:21 final size:21
Alignment explanation
Indices: 20767559--20767634 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 21
20767549 GCCCAGTCCC
*
20767559 GAAAAAAGGAAGGAAAAAAAG
1 GAAAAAAGGAAGAAAAAAAAG
* *
20767580 GAAAAAAGAAAGAAAAAAAAA
1 GAAAAAAGGAAGAAAAAAAAG
20767601 GAGAAAAAGAGAA-AAGAAAAAAG
1 GA-AAAAAG-GAAGAA-AAAAAAG
*
20767624 GCAAAAAGGAA
1 GAAAAAAGGAA
20767635 AAAGGGTTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
21 23 0.50
22 14 0.30
23 9 0.20
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (21 bp):
GAAAAAAGGAAGAAAAAAAAG
Found at i:20767590 original size:7 final size:7
Alignment explanation
Indices: 20767573--20767638 Score: 62
Period size: 7 Copynumber: 9.0 Consensus size: 7
20767563 AAAGGAAGGA
20767573 AAAAAAGG
1 AAAAAA-G
20767581 AAAAAAG
1 AAAAAAG
20767588 AAAGAAA-
1 AAA-AAAG
20767595 AAAAAAG
1 AAAAAAG
20767602 AGAAAAAG
1 A-AAAAAG
*
20767610 AGAAAAG
1 AAAAAAG
20767617 AAAAAAGG
1 AAAAAA-G
*
20767625 CAAAAAG
1 AAAAAAG
*
20767632 GAAAAAG
1 AAAAAAG
20767639 GGTTGTGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
6 3 0.06
7 25 0.50
8 22 0.44
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:20767608 original size:24 final size:23
Alignment explanation
Indices: 20767572--20767622 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 23
20767562 AAAAGGAAGG
20767572 AAAAAAAGGAAAAAAG-AAAGAA
1 AAAAAAAGGAAAAAAGAAAAGAA
20767594 AAAAAAAGAGAAAAAGAGAAAAGAA
1 AAAAAAAG-GAAAAA-AGAAAAGAA
20767619 AAAA
1 AAAA
20767623 GGCAAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 8 0.31
23 6 0.23
24 2 0.08
25 10 0.38
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AAAAAAAGGAAAAAAGAAAAGAA
Found at i:20767623 original size:22 final size:21
Alignment explanation
Indices: 20767572--20767637 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
20767562 AAAAGGAAGG
20767572 AAAAAAAGGAAAAA-AGAAAGAA
1 AAAAAAAGGAAAAAGAG-AA-AA
20767594 AAAAAAAGAGAAAAAGAGAAAA
1 AAAAAAAG-GAAAAAGAGAAAA
*
20767616 GAAAAAAGGCAAAAAG-GAAAA
1 AAAAAAAGG-AAAAAGAGAAAA
20767637 A
1 A
20767638 GGGTTGTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 6 0.15
22 23 0.59
23 8 0.21
24 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAAAAAGGAAAAAGAGAAAA
Found at i:20780066 original size:78 final size:78
Alignment explanation
Indices: 20779955--20782791 Score: 4908
Period size: 78 Copynumber: 36.1 Consensus size: 78
20779945 TTCTGTTTTT
20779955 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780020 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780033 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780098 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780111 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780176 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780189 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780254 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780267 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780332 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780345 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780410 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780423 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780488 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780501 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780566 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780579 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780644 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780657 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780722 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780735 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780800 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780813 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780878 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780891 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20780956 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20780969 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781034 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781047 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781112 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781125 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781190 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781203 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781268 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781281 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781346 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781359 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781424 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781437 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781502 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781515 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781580 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781593 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781658 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781671 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781736 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781749 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781814 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781827 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781892 TTTTAAATTTCTG
66 TTTTAAATTTCTG
20781905 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20781970 TTTTAAATTTCTG
66 TTTTAAATTTCTG
* ** *
20781983 TTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTC-GAACACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
* *
20782047 TTTTTAATTTCTT
66 TTTTAAATTTCTG
* * *
20782060 TTTTTCAAAAAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGACATATACCGAGG
1 TTTTTC----AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGG
20782124 TATTTTTTTAAATTTCTG
61 TATTTTTTTAAATTTCTG
* * ** *
20782142 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGTCACACGCTGAGGTA-TT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
20782206 TTTTAAATTTCTG
66 TTTTAAATTTCTG
* * **
20782219 TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCCGATATA
1 --TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTA
*
20782283 TTTCTTTTAAATTTCTA
63 TTT-TTTTAAATTTCTG
* * * *
20782300 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGTCACATGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
*
20782365 TTTTAAATTTATG
66 TTTTAAATTTCTG
* * * * *
20782378 TTTTTTGCAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC-GGACACATGCCAATGTAT
1 -TTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTAT
*
20782442 TTCTTTTTAATTTCTG
64 TT-TTTTAAATTTCTG
* * * *
20782458 TTTTTCAAAAAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCAGGTCACATGCTGAGGT
1 TTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGT
20782523 ATTTTTTTTAAATTTCTG
62 A-TTTTTTTAAATTTCTG
* *
20782541 TTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCCGAGGTA
1 --TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTA
*
20782605 TTTCTTTTAAATTTCCG
63 TTT-TTTTAAATTTCTG
* *
20782622 TTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGA-CGAGGT
1 TTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA-TACCGAGGT
*
20782686 A-TTTTTT-AATTTCTTTTTTT
62 ATTTTTTTAAATTTC-----TG
**
20782706 TTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACA-AGCCGAGGTA--
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATA-CCGAGGTATT
* *
20782767 TTTTTCAATTTCTA
65 TTTTTAAATTTCTG
20782781 TTTTTCAAAAA
1 TTTTTCAAAAA
20782792 AAAAAAAGAA
Statistics
Matches: 2662, Mismatches: 60, Indels: 76
0.95 0.02 0.03
Matches are distributed among these distances:
75 7 0.00
76 4 0.00
77 80 0.03
78 2060 0.77
79 83 0.03
80 151 0.06
81 85 0.03
82 152 0.06
83 25 0.01
84 9 0.00
85 6 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (78 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTT
TTTTAAATTTCTG
Found at i:20783047 original size:29 final size:29
Alignment explanation
Indices: 20783004--20783164 Score: 155
Period size: 29 Copynumber: 5.5 Consensus size: 29
20782994 AAAAAAATAA
* *
20783004 AAAATTATATTTTGACCCTTAAACTTCTT
1 AAAATTACATTTTGACCCTTAAACTTTTT
* * * **
20783033 GAAATCACATTTTGACCCCTAATTTTTTCT
1 AAAATTACATTTTGACCCTTAAACTTTT-T
* *
20783063 AAAATTATATTTTGACCCTTAAAATTTTT
1 AAAATTACATTTTGACCCTTAAACTTTTT
* * *
20783092 GAAATTACATTTTGACCCATAAACTTTTC
1 AAAATTACATTTTGACCCTTAAACTTTTT
20783121 AAAATTACATTTTGACTCC-TAAA-TTTTCT
1 AAAATTACATTTTGAC-CCTTAAACTTTT-T
*
20783150 CAAAATTATATTTTG
1 -AAAATTACATTTTG
20783165 GCCCCAGAAG
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
28 4 0.04
29 65 0.61
30 38 0.36
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTTAAACTTTTT
Found at i:20783071 original size:59 final size:58
Alignment explanation
Indices: 20783004--20783136 Score: 194
Period size: 59 Copynumber: 2.3 Consensus size: 58
20782994 AAAAAAATAA
* * **
20783004 AAAATTATATTTTGACCCTTAAACTTCTTGAAATCACATTTTGACCCCTAATTTTTTC
1 AAAATTATATTTTGACCCTTAAAATTCTTGAAATCACATTTTGACCCATAAACTTTTC
* *
20783062 TAAAATTATATTTTGACCCTTAAAATTTTTGAAATTACATTTTGACCCATAAACTTTTC
1 -AAAATTATATTTTGACCCTTAAAATTCTTGAAATCACATTTTGACCCATAAACTTTTC
*
20783121 AAAATTACATTTTGAC
1 AAAATTATATTTTGAC
20783137 TCCTAAATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
58 15 0.22
59 52 0.78
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.43
Consensus pattern (58 bp):
AAAATTATATTTTGACCCTTAAAATTCTTGAAATCACATTTTGACCCATAAACTTTTC
Found at i:20783156 original size:59 final size:59
Alignment explanation
Indices: 20783004--20783164 Score: 186
Period size: 59 Copynumber: 2.7 Consensus size: 59
20782994 AAAAAAATAA
* * * **
20783004 AAAATTATATTTTGACCCTTAAA-CTTCTTGAAATCACATTTTGACCCCTAATTTTTTCT
1 AAAATTATATTTTGACCCTTAAATTTTC-TGAAATTACATTTTGACCCATAAACTTTTCT
20783063 AAAATTATATTTTGACCCTTAAAATTTT-TGAAATTACATTTTGACCCATAAACTTTTC-
1 AAAATTATATTTTGACCCTT-AAATTTTCTGAAATTACATTTTGACCCATAAACTTTTCT
* * *
20783121 AAAATTACATTTTGACTCC-TAAATTTTCTCAAAATTATATTTTG
1 AAAATTATATTTTGAC-CCTTAAATTTTCT-GAAATTACATTTTG
20783165 GCCCCAGAAG
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
57 7 0.08
58 17 0.19
59 60 0.67
60 3 0.03
61 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (59 bp):
AAAATTATATTTTGACCCTTAAATTTTCTGAAATTACATTTTGACCCATAAACTTTTCT
Found at i:20783421 original size:16 final size:16
Alignment explanation
Indices: 20783396--20783436 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
20783386 TTTTTCGAAA
*
20783396 AAAGAGAAGAGAAAAG
1 AAAGAAAAGAGAAAAG
20783412 AAAGAAAAGA-AAAAG
1 AAAGAAAAGAGAAAAG
20783427 AAA-AAAAGAG
1 AAAGAAAAGAG
20783437 GAGAAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAGAAAAG
Found at i:20783570 original size:19 final size:18
Alignment explanation
Indices: 20783524--20783589 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
20783514 GCTAAGGTTT
20783524 TGAAAAAGAAGAAGGAAGA
1 TGAAAAA-AAGAAGGAAGA
20783543 TGAAGAAAAAGAA-GAAGAA
1 TGAA-AAAAAGAAGGAAG-A
*
20783562 TGGAAAAAA-AAGGAA-A
1 TGAAAAAAAGAAGGAAGA
* *
20783578 AGAAAAAGAGAA
1 TGAAAAAAAGAA
20783590 AAAAATAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
16 7 0.18
17 4 0.10
18 12 0.31
19 13 0.33
20 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (18 bp):
TGAAAAAAAGAAGGAAGA
Found at i:20783764 original size:16 final size:17
Alignment explanation
Indices: 20783732--20783775 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
20783722 AGCAGGCCTA
*
20783732 GCAGG-CCAGCCCAAGC
1 GCAGGCCCAACCCAAGC
20783748 GCAGGCCCAACCC-AGC
1 GCAGGCCCAACCCAAGC
20783764 GCCAGGCCCAAC
1 G-CAGGCCCAAC
20783776 AGCAGGCCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.25, C:0.48, G:0.27, T:0.00
Consensus pattern (17 bp):
GCAGGCCCAACCCAAGC
Found at i:20783892 original size:7 final size:7
Alignment explanation
Indices: 20783875--20783949 Score: 60
Period size: 8 Copynumber: 10.0 Consensus size: 7
20783865 AAAGGAAGGA
20783875 AAAAAAGG
1 AAAAAA-G
20783883 AAAAAAG
1 AAAAAAG
*
20783890 AAAGAAAA
1 AAA-AAAG
*
20783898 AAAGAAAA
1 AAA-AAAG
20783906 AAAAAAG
1 AAAAAAG
*
20783913 AGAAAAG
1 AAAAAAG
**
20783920 ATGAAAG
1 AAAAAAG
20783927 AAAAAAAG
1 -AAAAAAG
20783935 AAAAAAGG
1 AAAAAA-G
20783943 AAAAAAG
1 AAAAAAG
20783950 GTCGTGTATT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
7 25 0.44
8 32 0.56
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:20783898 original size:12 final size:12
Alignment explanation
Indices: 20783874--20783937 Score: 73
Period size: 12 Copynumber: 5.7 Consensus size: 12
20783864 TAAAGGAAGG
*
20783874 AAAA-AAAGGAA
1 AAAAGAAAGAAA
20783885 AAAAGAAAGAAA
1 AAAAGAAAGAAA
20783897 AAAAGAAA-AAA
1 AAAAGAAAGAAA
20783908 AAAAG--AGAAA
1 AAAAGAAAGAAA
* *
20783918 AGATGAAAGAAA
1 AAAAGAAAGAAA
20783930 AAAAGAAA
1 AAAAGAAA
20783938 AAAGGAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
9 1 0.02
10 6 0.14
11 12 0.27
12 25 0.57
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAGAAAGAAA
Found at i:20783898 original size:20 final size:20
Alignment explanation
Indices: 20783873--20783948 Score: 93
Period size: 20 Copynumber: 3.8 Consensus size: 20
20783863 ATAAAGGAAG
*
20783873 GAAAAAAAGGAAAAAAGAAA
1 GAAAAAAAGGAAAAAAAAAA
20783893 GAAAAAAA-GAAAAAAAAAA
1 GAAAAAAAGGAAAAAAAAAA
* *
20783912 GAGAAAAGATGAAAGAAAAAAA
1 GA-AAAAAAGGAAA-AAAAAAA
20783934 G-AAAAAAGGAAAAAA
1 GAAAAAAAGGAAAAAA
20783949 GGTCGTGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
19 15 0.31
20 22 0.45
21 4 0.08
22 8 0.16
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.01
Consensus pattern (20 bp):
GAAAAAAAGGAAAAAAAAAA
Found at i:20783926 original size:33 final size:31
Alignment explanation
Indices: 20783874--20783940 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 31
20783864 TAAAGGAAGG
20783874 AAAAAAAGGAAAAAAGAAAGAAAAAAAGAAA
1 AAAAAAAGGAAAAAAGAAAGAAAAAAAGAAA
*
20783905 AAAAAAAGAGAAAAGATGAAAGAAAAAAAGAAA
1 AAAAAAAG-GAAAA-AAGAAAGAAAAAAAGAAA
20783938 AAA
1 AAA
20783941 GGAAAAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
31 8 0.24
32 5 0.15
33 20 0.61
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (31 bp):
AAAAAAAGGAAAAAAGAAAGAAAAAAAGAAA
Found at i:20783935 original size:15 final size:15
Alignment explanation
Indices: 20783875--20783949 Score: 64
Period size: 15 Copynumber: 5.0 Consensus size: 15
20783865 AAAGGAAGGA
*
20783875 AAAAAAGGAAAAAAG
1 AAAAAAGAAAAAAAG
*
20783890 AAAGAAA-AAAAGAAAA
1 AAA-AAAGAAAA-AAAG
*
20783906 AAAAAAG-AGAAAAG
1 AAAAAAGAAAAAAAG
**
20783920 ATGAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
*
20783935 AAAAAAGGAAAAAAG
1 AAAAAAGAAAAAAAG
20783950 GTCGTGTATT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 8 0.17
15 29 0.63
16 9 0.20
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:20784881 original size:20 final size:20
Alignment explanation
Indices: 20784856--20784934 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
20784846 CTTTCGAAAC
* *
20784856 AATACAAAAAATTATGATAG
1 AATACAAAAAATTATGAGAA
*
20784876 AATACAAATCAA-TATGAGAA
1 AATACAAA-AAATTATGAGAA
* *
20784896 AATACAAAAAA-TATAAGGA
1 AATACAAAAAATTATGAGAA
* *
20784915 AGTAC-CAAAATTATGAGAA
1 AATACAAAAAATTATGAGAA
20784934 A
1 A
20784935 GTACCAAAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
18 4 0.09
19 19 0.40
20 22 0.47
21 2 0.04
ACGTcount: A:0.61, C:0.08, G:0.11, T:0.20
Consensus pattern (20 bp):
AATACAAAAAATTATGAGAA
Found at i:20784924 original size:19 final size:19
Alignment explanation
Indices: 20784886--20784943 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
20784876 AATACAAATC
* * *
20784886 AATATGAGAAAATACAAAA
1 AATATAAGAAAGTACCAAA
*
20784905 AATATAAGGAAGTACCAAA
1 AATATAAGAAAGTACCAAA
* *
20784924 ATTATGAGAAAGTACCAAA
1 AATATAAGAAAGTACCAAA
20784943 A
1 A
20784944 CTTAGATGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (19 bp):
AATATAAGAAAGTACCAAA
Found at i:20785008 original size:20 final size:19
Alignment explanation
Indices: 20784979--20785051 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
20784969 GAAAACCAAA
20784979 AAAAAATATGAGGAAGTACC
1 AAAAAATATGAGGAA-TACC
*
20784999 AAAAATTATGATCGG-ATACC
1 AAAAAATATGA--GGAATACC
** *
20785019 AAAAGTTATGAGGGATACC
1 AAAAAATATGAGGAATACC
20785038 AAAAAATATGAGGA
1 AAAAAATATGAGGA
20785052 TGTAAATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.04
19 16 0.36
20 24 0.53
21 1 0.02
22 2 0.04
ACGTcount: A:0.51, C:0.10, G:0.21, T:0.19
Consensus pattern (19 bp):
AAAAAATATGAGGAATACC
Found at i:20785218 original size:16 final size:16
Alignment explanation
Indices: 20785197--20785227 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20785187 GTACAAAAAA
20785197 AAAAATATGAGGATGT
1 AAAAATATGAGGATGT
*
20785213 AAAAATATGATGATG
1 AAAAATATGAGGATG
20785228 AAACAAAAAT
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:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (16 bp):
AAAAATATGAGGATGT
Found at i:20785235 original size:19 final size:18
Alignment explanation
Indices: 20785213--20785253 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
20785203 ATGAGGATGT
20785213 AAAAATATGATGATGAA-AC
1 AAAAATATGA-GA-GAATAC
20785232 AAAAATATGAGAGAATAC
1 AAAAATATGAGAGAATAC
20785250 AAAA
1 AAAA
20785254 CAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.14
18 8 0.38
19 10 0.48
ACGTcount: A:0.63, C:0.05, G:0.15, T:0.17
Consensus pattern (18 bp):
AAAAATATGAGAGAATAC
Found at i:20785373 original size:20 final size:20
Alignment explanation
Indices: 20785348--20785431 Score: 55
Period size: 20 Copynumber: 4.1 Consensus size: 20
20785338 GTACCAAAAA
20785348 ATGAGAAAGAACAAAAAATT
1 ATGAGAAAGAACAAAAAATT
* **
20785368 ATGAG-AGGATACAAAAAAAAAA
1 ATGAGAAAGA-AC--AAAAAATT
*
20785390 ATGA-AAATGTACAAAAAATT
1 ATGAGAAA-GAACAAAAAATT
* * *
20785410 ATGAGGAAGTATAAAAAATT
1 ATGAGAAAGAACAAAAAATT
20785430 AT
1 AT
20785432 AAGAGAATAC
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.06
20 30 0.61
21 2 0.04
22 13 0.27
23 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (20 bp):
ATGAGAAAGAACAAAAAATT
Found at i:20785426 original size:42 final size:42
Alignment explanation
Indices: 20785343--20785427 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
20785333 AGGAAGTACC
*
20785343 AAAAAATGAGAAAGAACAAAAAATTATGAGAGGATACAAAAA
1 AAAAAATGAGAAAGAACAAAAAATTATGAGAAGATACAAAAA
* *
20785385 AAAAAATGA-AAATGTACAAAAAATTATGAGGAAG-TATAAAAA
1 AAAAAATGAGAAA-GAACAAAAAATTATGA-GAAGATACAAAAA
20785427 A
1 A
20785428 TTATAAGAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 3 0.08
42 32 0.84
43 3 0.08
ACGTcount: A:0.66, C:0.04, G:0.15, T:0.15
Consensus pattern (42 bp):
AAAAAATGAGAAAGAACAAAAAATTATGAGAAGATACAAAAA
Found at i:20788760 original size:111 final size:112
Alignment explanation
Indices: 20788635--20788858 Score: 441
Period size: 111 Copynumber: 2.0 Consensus size: 112
20788625 ATATTTTTTA
20788635 TTATTTTTTAAAATAAATATATTTTCTTTTTATTTTTCATCATTCTAACTTTCCAACTAGACACT
1 TTATTTTTTAAAATAAATATATTTTCTTTTTATTTTTCATCATTCTAACTTTCCAACTAGACACT
20788700 ACGAAAAAAACATTTTCTTATCTTTCCACTCCTTTCCTTCAATGTTT
66 ACGAAAAAAACATTTTCTTATCTTTCCACTCCTTTCCTTCAATGTTT
20788747 TTATTTTTT-AAATAAATATATTTTCTTTTTATTTTTCATCATTCTAACTTTCCAACTAGACACT
1 TTATTTTTTAAAATAAATATATTTTCTTTTTATTTTTCATCATTCTAACTTTCCAACTAGACACT
20788811 ACGAAAAAAACATTTTCTTATCTTTCCACTCCTTTCCTTCAATGTTT
66 ACGAAAAAAACATTTTCTTATCTTTCCACTCCTTTCCTTCAATGTTT
20788858 T
1 T
20788859 CTTTCAATCC
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
111 103 0.92
112 9 0.08
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.49
Consensus pattern (112 bp):
TTATTTTTTAAAATAAATATATTTTCTTTTTATTTTTCATCATTCTAACTTTCCAACTAGACACT
ACGAAAAAAACATTTTCTTATCTTTCCACTCCTTTCCTTCAATGTTT
Found at i:20791025 original size:15 final size:15
Alignment explanation
Indices: 20791005--20791034 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20790995 AAATTAAAAA
20791005 ATTATAATATATAAT
1 ATTATAATATATAAT
20791020 ATTATAATATATAAT
1 ATTATAATATATAAT
20791035 TTTTCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATAATATATAAT
Found at i:20791951 original size:23 final size:21
Alignment explanation
Indices: 20791920--20791962 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20791910 CATTATATGA
20791920 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
20791943 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
20791963 CCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:20794690 original size:11 final size:12
Alignment explanation
Indices: 20794674--20794716 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
20794664 TATGTTATTT
20794674 TATAATAAAAG-
1 TATAATAAAAGA
20794685 TATAATAAAAGA
1 TATAATAAAAGA
* *
20794697 AATAATAAAAGT
1 TATAATAAAAGA
20794709 TATAATAA
1 TATAATAA
20794717 TAAAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 11 0.39
12 17 0.61
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (12 bp):
TATAATAAAAGA
Found at i:20794715 original size:15 final size:12
Alignment explanation
Indices: 20794675--20794726 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 12
20794665 ATGTTATTTT
*
20794675 ATAATAAAAG-T
1 ATAATAAAAGAA
20794686 ATAATAAAAGAA
1 ATAATAAAAGAA
20794698 ATAATAAAAGTTATA
1 ATAATAAAAG--A-A
20794713 ATAATAAAAAGAA
1 ATAAT-AAAAGAA
20794726 A
1 A
20794727 GTGGTAACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 10 0.29
12 10 0.29
13 2 0.06
14 2 0.06
15 6 0.17
16 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
ATAATAAAAGAA
Found at i:20795138 original size:20 final size:19
Alignment explanation
Indices: 20795094--20795138 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
20795084 TGGACAGGCC
*
20795094 TTTTTTTTGCTACTGCTTT
1 TTTTTTTTACTACTGCTTT
* *
20795113 TGTTTTTTTACTGCTGCTGT
1 T-TTTTTTTACTACTGCTTT
20795133 TTTTTT
1 TTTTTT
20795139 GGGCTGATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.04, C:0.13, G:0.13, T:0.69
Consensus pattern (19 bp):
TTTTTTTTACTACTGCTTT
Found at i:20795273 original size:20 final size:19
Alignment explanation
Indices: 20795244--20795303 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
20795234 TTTATTTTTC
20795244 CTTTTTCTTTCCATTTCTT
1 CTTTTTCTTTCCATTTCTT
20795263 CTTTCTTCTTT-C-TTTCTT
1 CTTT-TTCTTTCCATTTCTT
*
20795281 CTCTTTT-TCTCCATTTGCTT
1 CT-TTTTCTTTCCATTT-CTT
20795301 CTT
1 CTT
20795304 CTCCTTCGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 2 0.06
18 11 0.31
19 11 0.31
20 11 0.31
ACGTcount: A:0.03, C:0.28, G:0.02, T:0.67
Consensus pattern (19 bp):
CTTTTTCTTTCCATTTCTT
Found at i:20795289 original size:11 final size:12
Alignment explanation
Indices: 20795259--20795290 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
20795249 TCTTTCCATT
20795259 TCTTCTTTCTTC
1 TCTTCTTTCTTC
20795271 T-TTCTTTCTTC
1 TCTTCTTTCTTC
20795282 TCTT-TTTCT
1 TCTTCTTTCT
20795291 CCATTTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 16 0.84
12 3 0.16
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TCTTCTTTCTTC
Found at i:20795439 original size:12 final size:12
Alignment explanation
Indices: 20795392--20795441 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
20795382 TCCCTTATTT
20795392 TTTTTCTTTT-C
1 TTTTTCTTTTGC
*
20795403 TTTCTTC-TTTAC
1 TTT-TTCTTTTGC
*
20795415 TATTTCTTTTTGC
1 TTTTTC-TTTTGC
20795428 TTTTTCTTTTGC
1 TTTTTCTTTTGC
20795440 TT
1 TT
20795442 GCTGCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 9 0.28
12 14 0.44
13 9 0.28
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTTGC
Found at i:20795825 original size:29 final size:29
Alignment explanation
Indices: 20795762--20795902 Score: 167
Period size: 29 Copynumber: 4.8 Consensus size: 29
20795752 AAAATTTTTG
* *
20795762 GGGTCAAAACGTAATTTTGAGAAA-TTTCAA
1 GGGTTAAAATGTAATTTTGA-AAAGTTT-AA
*
20795792 GGGTTAAAATGTAATTTAGAAAAGTTTAA
1 GGGTTAAAATGTAATTTTGAAAAGTTTAA
* * *
20795821 GGGTTGAAATGTAATTTTGAAAATTTTAG
1 GGGTTAAAATGTAATTTTGAAAAGTTTAA
*
20795850 GGGTTGAAATGTAATTTTGAAAGAGTTTAA
1 GGGTTAAAATGTAATTTTGAAA-AGTTTAA
* *
20795880 GGGTCAAAATGTAATTTTAAAAA
1 GGGTTAAAATGTAATTTTGAAAA
20795903 AATTAGGGGT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
29 53 0.55
30 44 0.45
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (29 bp):
GGGTTAAAATGTAATTTTGAAAAGTTTAA
Found at i:20795909 original size:59 final size:58
Alignment explanation
Indices: 20795762--20795919 Score: 199
Period size: 59 Copynumber: 2.7 Consensus size: 58
20795752 AAAATTTTTG
* * *
20795762 GGGTCAAAACGTAATTTTGAGAAATTTCAAGGGTTAAAATGTAATTTAGAAAAGTTTAA
1 GGGTCAAAATGTAATTTTGAAAAATTT-AGGGGTTAAAATGTAATTTAGAAAAGTTTAA
** * * *
20795821 GGGTTGAAATGTAATTTTGAAAATTTTAGGGGTTGAAATGTAATTTTGAAAGAGTTTAA
1 GGGTCAAAATGTAATTTTGAAAAATTTAGGGGTTAAAATGTAATTTAGAAA-AGTTTAA
* * *
20795880 GGGTCAAAATGTAATTTTAAAAAAATTAGGGGTCAAAATG
1 GGGTCAAAATGTAATTTTGAAAAATTTAGGGGTTAAAATG
20795920 CAAATTTTTT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
58 21 0.25
59 62 0.75
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.34
Consensus pattern (58 bp):
GGGTCAAAATGTAATTTTGAAAAATTTAGGGGTTAAAATGTAATTTAGAAAAGTTTAA
Found at i:20795919 original size:88 final size:88
Alignment explanation
Indices: 20795752--20795919 Score: 198
Period size: 88 Copynumber: 1.9 Consensus size: 88
20795742 TAAATACAGT
* * **
20795752 AAAATTTTTGGGGTCAAAACGTAATTTTGAGAAATTTCAAGGGTTAAAATGTAATTTAGAAAAGT
1 AAAATTTTAGGGGTCAAAACGTAATTTTGAGAAATTTCAAGGGTCAAAATGTAATTTAGAAAAAA
**
20795817 TTAAGGGTTGAAATGTAATTTTG
66 TTAAGGGTCAAAATGTAATTTTG
** *
20795840 AAAATTTTAGGGGTTGAAATGTAATTTTGA-AAGAGTTT-AAGGGTCAAAATGTAATTTTA-AAA
1 AAAATTTTAGGGGTCAAAACGTAATTTTGAGAA-A-TTTCAAGGGTCAAAATGTAA-TTTAGAAA
*
20795902 AAATTAGGGGTCAAAATG
63 AAATTAAGGGTCAAAATG
20795920 CAAATTTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
87 2 0.03
88 58 0.87
89 7 0.10
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (88 bp):
AAAATTTTAGGGGTCAAAACGTAATTTTGAGAAATTTCAAGGGTCAAAATGTAATTTAGAAAAAA
TTAAGGGTCAAAATGTAATTTTG
Found at i:20797040 original size:77 final size:76
Alignment explanation
Indices: 20796108--20798598 Score: 2766
Period size: 75 Copynumber: 32.8 Consensus size: 76
20796098 CTTGGCGTGC
* * *
20796108 GACCGGAGGCTCAACTCACCTATCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT--TAA-A
*
20796172 ATACCTCGGCATGC
63 ATACCTCGGCATGT
* * *
20796186 GACCCGAAGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAGAAATTGAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAATT-TAAAA
* *
20796251 TACCTCAGCGTGT
64 TACCTCGGCATGT
* *
20796264 GACCCGAGGCTCAACACACCTCTCGCAACATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAATA
* * *
20796328 CCTCAGCGTGC
66 CCTCGGCATGT
* *
20796339 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTGAAAAACAAAAATTTAAAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAATA
* * *
20796403 CCTCAGCGTGC
66 CCTCGGCATGT
*
20796414 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGCAAAACAGAAATTTAAAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAATA
* * *
20796478 CCTCAGCGTGC
66 CCTCGGCATGT
* * * *
20796489 GACCTGAGACTCAACTCACCTCACGCAATATGAGCTGA-TTTTTGAAAAACAGAAATTTAAAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAATA
* * *
20796553 CCTCAGCGTGC
66 CCTCGGCATGT
* *
20796564 GACCCGAGGCTCAACTCACCTCTCGCAATATGGGTTGA-TTTTTGCAAAACAGAAATTTAAAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAATA
*
20796628 CCTCGGCTTGT
66 CCTCGGCATGT
* * *
20796639 G-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAAATAGAAA-TTAAAGAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAA-AT
*
20796700 ACCTCGGTATGT
65 ACCTCGGCATGT
* * *
20796712 GATCCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-ATAAAGAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAA-AT
*
20796776 ACCTCGGTATGT
65 ACCTCGGCATGT
* ** * *
20796788 GACCCGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATTGAAACTGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTTAAAA
**
20796853 TACCTTAGC--GT
64 TACCTCGGCATGT
* * * * *
20796864 GACTCGAGTCTCAACTCACCTCTGGCATTATGAGTTGATTTTTT-TAAAA-A-AAA-TTAAAGAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAA-AT
* *
20796925 ACCTCGGTAAGT
65 ACCTCGGCATGT
*
20796937 GACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTTAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTTAAAA
20797002 TACCTCGGCATGT
64 TACCTCGGCATGT
* * *
20797015 G-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAAATAGAAA-TTAAAGAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAA-AT
*
20797076 ACCTCGGTATGT
65 ACCTCGGCATGT
* * **
20797088 GATCCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-AGAAAGAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAA-AT
*
20797152 ACCTCGGTATGT
65 ACCTCGGCATGT
* * * * *
20797164 GACTCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGAAAAATAGAAACTAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTTAAAA
*
20797229 TACCTCAGC--GT
64 TACCTCGGCATGT
* * *
20797240 GACCCGAGGCTCAACTCACTTCTCGCATTATTAGTTGACTTTTTTGAAAAACAGAAA-TTAAAGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTTAAA-A
* * * *
20797304 TACATCAGTAAGT
64 TACCTCGGCATGT
* * * ***
20797317 GACCCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTTGAAAAATAGAAACAGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTTAAAA
*
20797382 TACCTCAGCA--T
64 TACCTCGGCATGT
*
20797393 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-TTAAAGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTTAAA-A
*
20797457 TACCTCGGTATGT
64 TACCTCGGCATGT
* *
20797470 GACCCGAAGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-TTAAAGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTTAAA-A
* *
20797534 TACCTCGGTAAGT
64 TACCTCGGCATGT
* * *
20797547 GACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTAAAAAACAAAAATTTAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTTAAAA
20797612 TACCTCGGCATGT
64 TACCTCGGCATGT
* * * *
20797625 G-TCCAAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTT--AAAATAGAAA-TTAAAGAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAA-AT
* *
20797686 ACCTCGGTAAGT
65 ACCTCGGCATGT
* * * *
20797698 GACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTT-TAAACCAAAAATTTAAAATA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAATA
20797762 CCTCGGCATGT
66 CCTCGGCATGT
* * *
20797773 G-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA-TTTTTG-AAAATAGAAA-TTAAAGAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAA-AT
*
20797834 ACCTCGGTATGT
65 ACCTCGGCATGT
* * * * *** *
20797846 GATCCGATGCTCAACTTACCTCTCGCAATATGAGTTGGTTTTAAAAAAAAACAGAAA-ATAAAGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTGAAAAACAGAAATTTAAA-A
*
20797910 TACCTCGGTATGT
64 TACCTCGGCATGT
* *
20797923 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTTAAAA
*
20797988 TACCTCAGC--GT
64 TACCTCGGCATGT
*
20797999 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAA-TTAAAGA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTTAAA-A
* *
20798063 TACCTCGGTAAGT
64 TACCTCGGCATGT
* * * *
20798076 GACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTCAAAAGCAG-ACTTTAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTT---AA
20798140 AATACCTCGGC--GT
62 AATACCTCGGCATGT
* *
20798153 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAACAAAAATTGAGAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAATTTA-AAA
*
20798217 TACCTCGGCGTGT
64 TACCTCGGCATGT
* * * * *
20798230 G-CCCAAGGCTCAACTCACCTCTTGCATTATGAGTTGAATTTTTTGAAAAACAGAACTTAAAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAAACAGAAATT---TAA
* * *
20798294 AACACCTCGGCGTAT
62 AATACCTCGGCATGT
* * * * *
20798309 GACCCGAGGCTCAACTCACCTCTCGCAATAGGAGTTTATTTTTTGAAAAAAAAAAATTGAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-TAAAAT
* *
20798374 CCCTCAGC--GT
65 ACCTCGGCATGT
* *
20798384 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAGAAATTGAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-TAAAAT
20798449 ACCTCAGG-ATGT
65 ACCTC-GGCATGT
* * * * *
20798461 GACTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTAAAAGCAGAAATTGAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTTAAAAT
*
20798526 ACCTCAGCA--T
65 ACCTCGGCATGT
* * *
20798536 GACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTTGCAAAAACAGAAATTGAAAA
1 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAACAGAAATTTAAAA
20798599 AAATAATTTT
Statistics
Matches: 2111, Mismatches: 230, Indels: 148
0.85 0.09 0.06
Matches are distributed among these distances:
70 4 0.00
71 10 0.00
72 20 0.01
73 136 0.06
74 251 0.12
75 542 0.26
76 332 0.16
77 451 0.21
78 241 0.11
79 77 0.04
80 47 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (76 bp):
GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAATA
CCTCGGCATGT
Found at i:20797074 original size:376 final size:378
Alignment explanation
Indices: 20796108--20798593 Score: 3177
Period size: 376 Copynumber: 6.6 Consensus size: 378
20796098 CTTGGCGTGC
* * * * *
20796108 GACCGGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAATAA
1 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTAAAAACAGAAATT--AAA-GA
* * * * * *
20796173 TACCTCGGCATGCGACCCGAAGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTTGAAAAAA
63 TACCTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTG-AAAAA
* * * * * **
20796237 CAGAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACACACCTCTCGCAACATGAGTTGA
127 CAGAAATT-TAAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA
* ** * *
20796302 TTTTTGAAAAACAGAAATTTAAA-ATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCA
190 TTTTTGAAAAACAGAAA-TTAAAGATACCTCGGTATGTGACCCGATGCTCAACTCACCTCTCGCA
* * ** *
20796366 ATATGAGCTGA-TTTTTGAAAAACA-AAAATTTAAA-ATACCTCAGCGTGCGACCCGAGGCTCAA
254 ATATGAGTTGATTTTTTGAAAAACAGAAAA--TAAAGATACCTCGGTATGTGACCCGAGGCTCAA
* * *
20796428 CTCACCTCTCGCAATATGAGTTGA---TTTTTGCAAAACAGAAATTTAAAATACCTCAGCGT
317 CTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGT
* * * * * *
20796487 GCGACCTGAGACTCAACTCACCTCACGCAATATGAGCTGATTTTTGAAAAACAGAAATTTAAA-A
1 --GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTAAAAACAGAAA-TTAAAGA
* * * *
20796551 TACCTCAGCGT--GCGACCCGAGGCTCAACTCACCTCTCGCAATATGGGTTGA--TTTTTGCAAA
63 TACCTC-G-GTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAA
*
20796612 ACAGAAATTTAAAATACCTCGGCTTGTGTCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGAT
126 ACAGAAATTTAAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGAT
* *
20796677 TTTTG-AAAATAGAAATTAAAGATACCTCGGTATGTGATCCGATGCTCAACTCACCTCTCGCAAT
191 TTTTGAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGATGCTCAACTCACCTCTCGCAAT
*
20796741 ATGAGTTGATTTTTTGAAAAACAGAAAATAAAGATACCTCGGTATGTGACCCGAGGCTCAATTCA
256 ATGAGTTGATTTTTTGAAAAACAGAAAATAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCA
* * *
20796806 CCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATTGAAACTGAAAATACCTTAGCGT
321 CCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGT
* * * *
20796864 GACTCGAGTCTCAACTCACCTCTGGCATTATGAGTTGATTTTTTTAAAA-A-AAATTAAAGATAC
1 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTAAAAACAGAAATTAAAGATAC
20796927 CTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTGAAAAACAG
66 CTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTTTTGAAAAACAG
20796992 AAATTTAAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTT
130 AAATTTAAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTT
* *
20797057 G-AAAATAGAAATTAAAGATACCTCGGTATGTGATCCGATGCTCAACTCACCTCTCGCAATATGA
195 GAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGATGCTCAACTCACCTCTCGCAATATGA
* *
20797121 GTTGATTTTTTGAAAAACAGAAAAGAAAGATACCTCGGTATGTGACTCGAGGCTCAACTCACCTC
260 GTTGATTTTTTGAAAAACAGAAAATAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTC
* * *
20797186 TCACAATATGAGTTGATTTTTTTTGAAAAATAGAAACTAAAAATACCTCAGCGT
325 TCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGT
* *
20797240 GACCCGAGGCTCAACTCACTTCTCGCATTATTAGTTGACTTTTTTGAAAAACAGAAATTAAAGAT
1 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTT-AAAAACAGAAATTAAAGAT
* * * *
20797305 ACATCAGTAAGTGACCCGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTTGAAAAAT
64 ACCTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTTTTGAAAAAC
*** * **
20797370 AGAAACAGAAAATACCTCAGCATG-ACCCGAGGCTCAACTCACCTCTCGC-ATTATGAGTTGATT
128 AGAAATTTAAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATT-TGAGTTGA--
* *
20797433 TTTTTGAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGAAGCTCAACTCACCTCTCGCAT
190 TTTTTGAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGATGCTCAACTCACCTCTCGCAA
* *
20797498 TATGAGTTGATTTTTTTGAAAAACAGAAATTAAAGATACCTCGGTAAGTGACCCGAGGCTCAACT
255 TATGAGTTGA-TTTTTTGAAAAACAGAAAATAAAGATACCTCGGTATGTGACCCGAGGCTCAACT
* * * * * *
20797563 CACCTTTCGCAATATGAGTTGATTTTTTTTAAAAAACAAAAATTTAAAATACCTCGGCATGT
319 CACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGC--GT
* * *
20797625 G-TCCAAGGCTCAACTCACCTCTCGCAATT-TGAGTTGATTTTTT-AAAATAGAAATTAAAGATA
1 GACCCGAGGCTCAACTCACCTCTCGC-ATTATGAGTTGATTTTTTAAAAACAGAAATTAAAGATA
* *
20797687 CCTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTT--AAACCAA
65 CCTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAG
20797750 AAATTTAAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTT
130 AAATTTAAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTT
* * *
20797815 G-AAAATAGAAATTAAAGATACCTCGGTATGTGATCCGATGCTCAACTTACCTCTCGCAATATGA
195 GAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGATGCTCAACTCACCTCTCGCAATATGA
* ***
20797879 GTTGGTTTTAAAAAAAAACAGAAAATAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCT
260 GTTGATTTT-TTGAAAAACAGAAAATAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCT
20797944 CTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGT
324 CTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGT
20797999 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAGAT
1 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTT-AAAAACAGAAATTAAAGAT
* *
20798064 ACCTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTCAAAAGCA
64 ACCTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACA
* * *
20798129 G-ACTTTAAAAAAATACCTCGGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
129 GAAATTT---AAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGA
* ** * * *
20798191 TTTTTGAAAAAACAAAAATTGAGAA-ATACCTCGGCGTGTG-CCCAAGGCTCAACTCACCTCTTG
190 TTTTTG-AAAAACAGAAATT-A-AAGATACCTCGGTATGTGACCCGATGCTCAACTCACCTCTCG
* * * * ** *
20798254 CATTATGAGTTGAATTTTTTGAAAAACAGAACTTAAAAAAAACACCTCGGCGTATGACCCGAGGC
252 CAATATGAGTTG-ATTTTTTGAAAAACAGAA---AATAAAGATACCTCGGTATGTGACCCGAGGC
* * * * *
20798319 TCAACTCACCTCTCGCAATAGGAGTT--TATTTTTTGAAAAAAAAAAATTGAAAAATCCCTCAGC
313 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTG-AAAATACCTCAGC
20798382 GT
377 GT
* * *
20798384 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAGAAATTGAAAAAT
1 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTT-AAAAACAGAAATT-AAAGAT
* * * *
20798449 ACCTCAGG-ATGTGACTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTTAAAAGC
64 ACCTC-GGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAAC
* * ** * *
20798513 AGAAATTGAAAATACCTCAGCATGACT-CGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTT
128 AGAAATTTAAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTT
20798577 TTGCAAAAACAGAAATT
193 TTG-AAAAACAGAAATT
20798594 GAAAAAAATA
Statistics
Matches: 1878, Mismatches: 171, Indels: 110
0.87 0.08 0.05
Matches are distributed among these distances:
371 2 0.00
372 11 0.01
373 105 0.06
374 105 0.06
375 94 0.05
376 463 0.25
377 47 0.03
378 147 0.08
379 68 0.04
380 114 0.06
381 160 0.09
382 79 0.04
383 218 0.12
384 85 0.05
385 125 0.07
386 55 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (378 bp):
GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTAAAAACAGAAATTAAAGATAC
CTCGGTAAGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
AATTTAAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTTTTG
AAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGATGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAAACAGAAAATAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCGT
Found at i:20799449 original size:15 final size:15
Alignment explanation
Indices: 20799431--20799511 Score: 57
Period size: 14 Copynumber: 5.7 Consensus size: 15
20799421 CATCTTGATT
20799431 TTTCATTTTTTGTTT-
1 TTTC-TTTTTTGTTTC
*
20799446 TTTCTGTTTTT-TTTG
1 TTTCT-TTTTTGTTTC
20799461 TTTC-TTTTTGTTTC
1 TTTCTTTTTTGTTTC
*
20799475 TTTC-TGTTT-TTTC
1 TTTCTTTTTTGTTTC
* *
20799488 TAT-TTTTTTGTTTT
1 TTTCTTTTTTGTTTC
*
20799502 TTTGTTTTTT
1 TTTCTTTTTT
20799512 TTGTTTGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
13 15 0.28
14 20 0.37
15 19 0.35
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.81
Consensus pattern (15 bp):
TTTCTTTTTTGTTTC
Found at i:20799458 original size:10 final size:9
Alignment explanation
Indices: 20799436--20799517 Score: 96
Period size: 9 Copynumber: 9.1 Consensus size: 9
20799426 TGATTTTTCA
20799436 TTTTTTGTT
1 TTTTTTGTT
*
20799445 TTTTCTGTT
1 TTTTTTGTT
20799454 TTTTTTGTT
1 TTTTTTGTT
20799463 TCTTTTTGTT
1 T-TTTTTGTT
*
20799473 TCTTTCTGTT
1 T-TTTTTGTT
* *
20799483 TTTTCT-AT
1 TTTTTTGTT
20799491 TTTTTTG-T
1 TTTTTTGTT
20799499 TTTTTTGTT
1 TTTTTTGTT
20799508 TTTTTTGTT
1 TTTTTTGTT
20799517 T
1 T
20799518 GTTTAGGCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
8 14 0.22
9 33 0.51
10 18 0.28
ACGTcount: A:0.01, C:0.06, G:0.10, T:0.83
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:20806042 original size:18 final size:18
Alignment explanation
Indices: 20806019--20806178 Score: 136
Period size: 17 Copynumber: 8.9 Consensus size: 18
20806009 GAGGGACAAG
20806019 ATTTTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
*
20806037 ATTTTTG-AAACACTG-GA
1 ATTTTTGAAAACAC-GAAA
* *
20806054 A-TTTTGAAAACATGAAG
1 ATTTTTGAAAACACGAAA
* *
20806071 ATTTTTG-AAACATGAGA
1 ATTTTTGAAAACACGAAA
20806088 ATTTTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
* *
20806106 TTTTTTTTAAAAACAC-AGAA
1 --ATTTTTGAAAACACGA-AA
20806126 ATTTTTG-AAACACGAGAA
1 ATTTTTGAAAACACGA-AA
*
20806144 TTTTTTTTGAAAACACGAAA
1 --ATTTTTGAAAACACGAAA
20806164 ATTTTTG-AAACACGA
1 ATTTTTGAAAACACGA
20806179 TTTTTTTTAA
Statistics
Matches: 116, Mismatches: 14, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.05
17 43 0.37
18 36 0.31
19 1 0.01
20 22 0.19
21 8 0.07
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (18 bp):
ATTTTTGAAAACACGAAA
Found at i:20806060 original size:16 final size:17
Alignment explanation
Indices: 20806021--20806109 Score: 64
Period size: 18 Copynumber: 5.2 Consensus size: 17
20806011 GGGACAAGAT
*
20806021 TTTTGAAAACAC-GAAAA
1 TTTTG-AAACACTGAGAA
20806038 TTTTTGAAACACTG-GAA
1 -TTTTGAAACACTGAGAA
*
20806055 TTTTGAAA-ACATGAAGAT
1 TTTTGAAACAC-TG-AGAA
20806073 TTTTGAAACA-TGAGAA
1 TTTTGAAACACTGAGAA
20806089 TTTTTGAAAACAC-GA-AA
1 -TTTTG-AAACACTGAGAA
20806106 TTTT
1 TTTT
20806110 TTTTAAAAAC
Statistics
Matches: 60, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
15 2 0.03
16 17 0.28
17 17 0.28
18 23 0.38
19 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.34
Consensus pattern (17 bp):
TTTTGAAACACTGAGAA
Found at i:20806126 original size:21 final size:20
Alignment explanation
Indices: 20806089--20806169 Score: 80
Period size: 21 Copynumber: 4.1 Consensus size: 20
20806079 AACATGAGAA
*
20806089 TTTTTGAAAACACGAAATTT
1 TTTTTAAAAACACGAAATTT
20806109 TTTTTAAAAACACAGAAA---
1 TTTTTAAAAACAC-GAAATTT
*
20806127 TTTTT-GAAACACGAGAATTT
1 TTTTTAAAAACACGA-AATTT
*
20806147 TTTTTGAAAACACGAAAATTT
1 TTTTTAAAAACACG-AAATTT
20806168 TT
1 TT
20806170 GAAACACGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
16 2 0.04
17 8 0.16
18 5 0.10
20 17 0.33
21 18 0.35
22 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
TTTTTAAAAACACGAAATTT
Found at i:20806129 original size:38 final size:37
Alignment explanation
Indices: 20806078--20806188 Score: 147
Period size: 38 Copynumber: 3.0 Consensus size: 37
20806068 AAGATTTTTG
* *
20806078 AAACATGAGAATTTTTGAAAACACGAAATTTTTTTTAA
1 AAACACGAAAATTTTTG-AAACACGAAATTTTTTTTAA
*
20806116 AAACAC-AGAAATTTTTGAAACACGAGAATTTTTTTTGA
1 AAACACGA-AAATTTTTGAAACACGA-AATTTTTTTTAA
20806154 AAACACGAAAATTTTTGAAACACG--ATTTTTTTTAA
1 AAACACGAAAATTTTTGAAACACGAAATTTTTTTTAA
20806189 GAAGTACCGT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
35 10 0.15
37 9 0.14
38 46 0.70
39 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (37 bp):
AAACACGAAAATTTTTGAAACACGAAATTTTTTTTAA
Found at i:20806185 original size:17 final size:17
Alignment explanation
Indices: 20806127--20806186 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
20806117 AACACAGAAA
20806127 TTTTTGAAACACGAGAATTT
1 TTTTTGAAACAC--G-ATTT
***
20806147 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGATTT
20806165 TTTTTGAAACACGATTT
1 TTTTTGAAACACGATTT
20806182 TTTTT
1 TTTTT
20806187 AAGAAGTACC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 13 0.39
18 7 0.21
19 1 0.03
20 6 0.18
21 6 0.18
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (17 bp):
TTTTTGAAACACGATTT
Found at i:20806475 original size:27 final size:29
Alignment explanation
Indices: 20806445--20806502 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
20806435 TGCCTTATTT
* *
20806445 ATTGAAATT-ATTTAAATTTAAAATA-AA
1 ATTGAAATTAAATTAAATTAAAAATATAA
20806472 ATTGAAATTAAATTAAATTAAAAATATAA
1 ATTGAAATTAAATTAAATTAAAAATATAA
20806501 AT
1 AT
20806503 ACAAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 9 0.33
28 14 0.52
29 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTGAAATTAAATTAAATTAAAAATATAA
Found at i:20806672 original size:16 final size:16
Alignment explanation
Indices: 20806647--20806695 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
20806637 GCAAATTGAA
20806647 TCCC-TTTTTTCTTTT
1 TCCCTTTTTTTCTTTT
20806662 TCCCTTTTTTTTCTTTT
1 TCCC-TTTTTTTCTTTT
*
20806679 T-TCTTTTTCTTCTTTT
1 TCCCTTTTT-TTCTTTT
20806695 T
1 T
20806696 TTTCTCCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.30
16 9 0.30
17 12 0.40
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TCCCTTTTTTTCTTTT
Found at i:20806686 original size:25 final size:25
Alignment explanation
Indices: 20806650--20806700 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
20806640 AATTGAATCC
20806650 CTTTTTTCTTTTTC-CCTTTTTTTT
1 CTTTTTTCTTTTTCTCCTTTTTTTT
*
20806674 CTTTTTTCTTTTTCTTCTTTTTTTT
1 CTTTTTTCTTTTTCTCCTTTTTTTT
20806699 CT
1 CT
20806701 CCTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (25 bp):
CTTTTTTCTTTTTCTCCTTTTTTTT
Found at i:20806705 original size:12 final size:12
Alignment explanation
Indices: 20806658--20806712 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
20806648 CCCTTTTTTC
20806658 TTTTTC-CCTTT
1 TTTTTCTCCTTT
**
20806669 TTTTTCTTTTTT
1 TTTTTCTCCTTT
*
20806681 CTTTTTCTTCTTT
1 -TTTTTCTCCTTT
20806694 TTTTTCTCCTTT
1 TTTTTCTCCTTT
20806706 TTTTTCT
1 TTTTTCT
20806713 GCTGGGCTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
11 6 0.16
12 21 0.55
13 11 0.29
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTCCTTT
Found at i:20806880 original size:19 final size:18
Alignment explanation
Indices: 20806838--20806880 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
20806828 AATCCTGCTG
* *
20806838 TTTTTTTGCTGCTGCTTT
1 TTTTTTTACTGCTACTTT
*
20806856 TGTTTTTTACTGCTACTAT
1 T-TTTTTTACTGCTACTTT
20806875 TTTTTT
1 TTTTTT
20806881 GGGCTGATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.07, C:0.14, G:0.12, T:0.67
Consensus pattern (18 bp):
TTTTTTTACTGCTACTTT
Found at i:20807028 original size:11 final size:10
Alignment explanation
Indices: 20806987--20807053 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 10
20806977 TTATTTTTCT
20806987 TTTTTTCTTTC
1 TTTTTTC-TTC
*
20806998 TATTTCTTCTTTA
1 T-TTT-TTC-TTC
20807011 TTTTTTCTTC
1 TTTTTTCTTC
20807021 TTTCTTTCTTC
1 TTT-TTTCTTC
20807032 TCTTTTTC-TC
1 T-TTTTTCTTC
*
20807042 CTTTTTCTTC
1 TTTTTTCTTC
20807052 TT
1 TT
20807054 CTCCTTCGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
9 6 0.13
10 10 0.21
11 16 0.34
12 8 0.17
13 7 0.15
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:20807037 original size:23 final size:23
Alignment explanation
Indices: 20807000--20807056 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
20806990 TTTCTTTCTA
*
20807000 TTTCTTCTT-TATTTTT-T-CTT
1 TTTCTTCTTCTCTTTTTCTCCTT
20807020 CTTTCTTTCTTCTCTTTTTCTCCTT
1 -TTTC-TTCTTCTCTTTTTCTCCTT
20807045 TTTCTTCTTCTC
1 TTTCTTCTTCTC
20807057 CTTCGGCAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 4 0.13
22 5 0.16
23 14 0.45
24 5 0.16
25 3 0.10
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTCTTCTTCTCTTTTTCTCCTT
Found at i:20807040 original size:36 final size:36
Alignment explanation
Indices: 20806971--20807045 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
20806961 TGTTAAAATT
* * *
20806971 TTTATTTTATTTTTCTTTTTTTCTTTCTATTTCTTC
1 TTTATTTTATTCTTCTTTCTTTCTTTCTATTTCTCC
*
20807007 TTTATTTT-TTCTTCTTTCTTTCTTCTCTTTTTCTCC
1 TTTATTTTATTCTTCTTTCTTTCTT-TCTATTTCTCC
20807043 TTT
1 TTT
20807046 TTCTTCTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 14 0.41
36 20 0.59
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (36 bp):
TTTATTTTATTCTTCTTTCTTTCTTTCTATTTCTCC
Found at i:20807277 original size:17 final size:17
Alignment explanation
Indices: 20807251--20807289 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
20807241 TGGGTTCAGC
* *
20807251 GGTGGAGCAATGATGGT
1 GGTGGAGCAACGATCGT
*
20807268 GGTGGTGCAACGATCGT
1 GGTGGAGCAACGATCGT
20807285 GGTGG
1 GGTGG
20807290 CGGTGGGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.10, G:0.49, T:0.23
Consensus pattern (17 bp):
GGTGGAGCAACGATCGT
Found at i:20807568 original size:30 final size:29
Alignment explanation
Indices: 20807524--20807685 Score: 157
Period size: 29 Copynumber: 5.6 Consensus size: 29
20807514 GTAAATGCAG
* * **
20807524 TAAAAGTTTT-AGGGTCGAAACATAATTT
1 TAAAAATTTTAAGGGTTGAAATGTAATTT
*
20807552 TAAGAAATTTTAAGGGTTAAAATGTAA-TT
1 TAA-AAATTTTAAGGGTTGAAATGTAATTT
* *
20807581 TAGAAAAGTTTAGGGGTTGAAATGTAATTT
1 TA-AAAATTTTAAGGGTTGAAATGTAATTT
* *
20807611 TGAAAATTTTAGGGGTTGAAATGTAATTT
1 TAAAAATTTTAAGGGTTGAAATGTAATTT
* **
20807640 TAAAATAGTTTAAGGGTCAAAATGTAATTT
1 TAAAA-ATTTTAAGGGTTGAAATGTAATTT
* *
20807670 TAAAAAATTTAGGGGT
1 TAAAAATTTTAAGGGT
20807686 CAAAATGCAA
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
28 3 0.03
29 69 0.62
30 40 0.36
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (29 bp):
TAAAAATTTTAAGGGTTGAAATGTAATTT
Found at i:20807609 original size:59 final size:59
Alignment explanation
Indices: 20807528--20807692 Score: 190
Period size: 59 Copynumber: 2.8 Consensus size: 59
20807518 ATGCAGTAAA
* * ** *
20807528 AGTTTTAGGGTCGAAACATAATTTTAAGAAATTTTAAGGGTTAAAATGTAA-TTTAGAAA-
1 AGTTTAAGGGTCAAAATGTAATTTTAA-AAATTTTAGGGGTTAAAATGTAATTTTA-AAAT
* ** * *
20807587 AGTTTAGGGGTTGAAATGTAATTTTGAAAATTTTAGGGGTTGAAATGTAATTTTAAAAT
1 AGTTTAAGGGTCAAAATGTAATTTTAAAAATTTTAGGGGTTAAAATGTAATTTTAAAAT
* *
20807646 AGTTTAAGGGTCAAAATGTAATTTTAAAAAATTTAGGGGTCAAAATG
1 AGTTTAAGGGTCAAAATGTAATTTTAAAAATTTTAGGGGTTAAAATG
20807693 CAAATTTTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
58 24 0.27
59 65 0.73
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.36
Consensus pattern (59 bp):
AGTTTAAGGGTCAAAATGTAATTTTAAAAATTTTAGGGGTTAAAATGTAATTTTAAAAT
Found at i:20809380 original size:24 final size:24
Alignment explanation
Indices: 20809336--20809381 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
20809326 TGGATTGTAA
20809336 TTTGAGTTATAAGTATAATGTTGG
1 TTTGAGTTATAAGTATAATGTTGG
20809360 TTTGAGTATATAAGTAT-ATGTT
1 TTTGAGT-TATAAGTATAATGTT
20809382 TATGTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (24 bp):
TTTGAGTTATAAGTATAATGTTGG
Found at i:20815953 original size:15 final size:17
Alignment explanation
Indices: 20815913--20815954 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
20815903 GAAAATGTTT
20815913 TGAGACTCACATGGCCG
1 TGAGACTCACATGGCCG
*
20815930 TGTGACTCACATGG-C-
1 TGAGACTCACATGGCCG
20815945 TGAGACTCAC
1 TGAGACTCAC
20815955 GCCCGTGTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 1 0.04
17 13 0.57
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (17 bp):
TGAGACTCACATGGCCG
Found at i:20821672 original size:27 final size:27
Alignment explanation
Indices: 20821631--20821692 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
20821621 TTGTTACAAC
**
20821631 TATTCTTTTAGAGTTCGCCATGAAGGT
1 TATTCTTTTAGAGTTCGCCACAAAGGT
**
20821658 TATTCTTTTTTAGTTCGCCACAAAGGT
1 TATTCTTTTAGAGTTCGCCACAAAGGT
20821685 TATTCTTT
1 TATTCTTT
20821693 CATGTCATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (27 bp):
TATTCTTTTAGAGTTCGCCACAAAGGT
Found at i:20822442 original size:49 final size:49
Alignment explanation
Indices: 20822368--20822463 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
20822358 GAAACTACTG
* * *
20822368 ATTTACATATTCTACCATCCTGGGTGGCCTGACAATGATGGTTTTCACT
1 ATTTACATATTATACCATCCTGGGTGGCCTGACAACGATGATTTTCACT
20822417 ATTTACATATTATACCATTCC-GGGTGGCCTGACAACGATGATTTTCA
1 ATTTACATATTATACCA-TCCTGGGTGGCCTGACAACGATGATTTTCA
20822464 ATAACTATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 40 0.93
50 3 0.07
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (49 bp):
ATTTACATATTATACCATCCTGGGTGGCCTGACAACGATGATTTTCACT
Found at i:20830690 original size:17 final size:17
Alignment explanation
Indices: 20830668--20830701 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20830658 AACTTTATGA
20830668 AAAAAAAAATATTGTAG
1 AAAAAAAAATATTGTAG
**
20830685 AAAAAAATTTATTGTAG
1 AAAAAAAAATATTGTAG
20830702 CCATTCATTT
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:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (17 bp):
AAAAAAAAATATTGTAG
Found at i:20830891 original size:23 final size:23
Alignment explanation
Indices: 20830859--20830904 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
20830849 ACTTATTAAA
20830859 ATTTTTAAAAATTAAAAA-CATT
1 ATTTTTAAAAATTAAAAATCATT
20830881 ATTTTTAAAAATTAAAAATCATT
1 ATTTTTAAAAATTAAAAATCATT
20830904 A
1 A
20830905 AAATTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTTTTAAAAATTAAAAATCATT
Found at i:20833108 original size:2 final size:2
Alignment explanation
Indices: 20833101--20833126 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20833091 GAAAAACATA
20833101 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20833127 CAAATTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20833384 original size:20 final size:20
Alignment explanation
Indices: 20833361--20833408 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
20833351 GATAAATTTA
20833361 AAAAAATATGA-AGAAATACC
1 AAAAAATATGAGAG-AATACC
* *
20833381 AAAAATTTTGAGAGAATACC
1 AAAAAATATGAGAGAATACC
20833401 AAAAAATA
1 AAAAAATA
20833409 AAAGAAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (20 bp):
AAAAAATATGAGAGAATACC
Found at i:20834071 original size:39 final size:37
Alignment explanation
Indices: 20834028--20834141 Score: 113
Period size: 39 Copynumber: 3.0 Consensus size: 37
20834018 ATTTATAAGA
*
20834028 AAGTACCAAAATTTATGAGCGAATACAAAAAGAATGAGG
1 AAGTACCAAAAATTATGAG-GAATACAAAAA-AATGAGG
* ** * *
20834067 AAGTACCAAAAGTTATGAGG-ATGTAAATATATGAGG
1 AAGTACCAAAAATTATGAGGAATACAAAAAAATGAGG
* *
20834103 ATGCACCAAAAATTATGAGGGAATACAAAAAATATGAGG
1 AAGTACCAAAAATTATGA-GGAATACAAAAAA-ATGAGG
20834142 GGATACTAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
36 21 0.35
37 8 0.13
38 7 0.12
39 24 0.40
ACGTcount: A:0.49, C:0.09, G:0.22, T:0.20
Consensus pattern (37 bp):
AAGTACCAAAAATTATGAGGAATACAAAAAAATGAGG
Found at i:20834084 original size:20 final size:20
Alignment explanation
Indices: 20834005--20834087 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
20833995 AAAAAATACA
* * *
20834005 AGGAAGTACCCAAATTTATA
1 AGGAAGTACCAAAAGTTATG
* *
20834025 AGAAAGTACCAAAATTTATG
1 AGGAAGTACCAAAAGTTATG
* *
20834045 AGCGAA-TACAAAAAG-AATG
1 AG-GAAGTACCAAAAGTTATG
20834064 AGGAAGTACCAAAAGTTATG
1 AGGAAGTACCAAAAGTTATG
20834084 AGGA
1 AGGA
20834088 TGTAAATATA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
18 3 0.06
19 13 0.25
20 33 0.65
21 2 0.04
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.19
Consensus pattern (20 bp):
AGGAAGTACCAAAAGTTATG
Found at i:20834133 original size:20 final size:19
Alignment explanation
Indices: 20834109--20834157 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
20834099 GAGGATGCAC
*
20834109 CAAAAATTATGAGGGAATA
1 CAAAAAATATGAGGGAATA
*
20834128 CAAAAAATATGAGGGGATA
1 CAAAAAATATGAGGGAATA
20834147 CTAAAAAATAT
1 C-AAAAAATAT
20834158 TAGAAAGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.55, C:0.06, G:0.18, T:0.20
Consensus pattern (19 bp):
CAAAAAATATGAGGGAATA
Found at i:20834188 original size:20 final size:20
Alignment explanation
Indices: 20834107--20834194 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
20834097 ATGAGGATGC
* *
20834107 ACCAAAAATTATGAGGGAAT
1 ACCAAAAAATATGAGAGAAT
* *
20834127 A-CAAAAAATATGAGGGGAT
1 ACCAAAAAATATGAGAGAAT
* *
20834146 ACTAAAAAATATTAGA-AAGT
1 ACCAAAAAATATGAGAGAA-T
*
20834166 ACCAAAAATTATGAGAGAAT
1 ACCAAAAAATATGAGAGAAT
20834186 ACCATAAAA
1 ACCA-AAAA
20834195 CTTGAGGAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
19 18 0.33
20 31 0.56
21 6 0.11
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (20 bp):
ACCAAAAAATATGAGAGAAT
Found at i:20834211 original size:59 final size:59
Alignment explanation
Indices: 20834107--20834227 Score: 140
Period size: 59 Copynumber: 2.1 Consensus size: 59
20834097 ATGAGGATGC
* * * *
20834107 ACCAAAAATTATGAGGGAATACAAAAAATATGAGGGGATACTAAAAAATATTAGAAAGT
1 ACCAAAAATTATGAGAGAATACAAAAAATATGAGGAGATACTAAAAAAAATGAGAAAGT
* *
20834166 ACCAAAAATTATGAGAGAATACCATAAAACT-TGAGGA-AGTA-TAAAAAAAATGAGAATGT
1 ACCAAAAATTATGAGAGAATA-CA-AAAAATATGAGGAGA-TACTAAAAAAAATGAGAAAGT
20834225 ACC
1 ACC
20834228 GATAATTTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
59 39 0.74
60 9 0.17
61 5 0.09
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (59 bp):
ACCAAAAATTATGAGAGAATACAAAAAATATGAGGAGATACTAAAAAAAATGAGAAAGT
Found at i:20834320 original size:153 final size:154
Alignment explanation
Indices: 20834052--20834380 Score: 407
Period size: 153 Copynumber: 2.1 Consensus size: 154
20834042 ATGAGCGAAT
* * * * * *
20834052 ACAAAAAGAATGAGGAAGTACC-AAAAGTTATGAGGATGTAAATATATGAGGATGCACCAAAAAT
1 ACAAAAAAAATGAGAAAGTACCGATAA-TT-TGAGGACGTAAAAATATGAGGATGCACCAAAAAA
* * * *
20834116 TATGAGGGAATACAAAAAATATGAGGGGATACTAAAAAATATTAGAAAGTACCAAAAATTATGAG
64 TATGAGAGAATACAAAAAACACGAGGGGATACTAAAAAATAATAGAAAGTACCAAAAATTATGAG
20834181 AGAATACCATAAAACTTGAGGAAGT-
129 AGAATACCATAAAACTTGAGGAAGTG
* * * *
20834206 ATAAAAAAAATGAGAATGTACCGATAATTTGAGGACGTAAAAATATGATGATGTA-CAAAAAATA
1 ACAAAAAAAATGAGAAAGTACCGATAATTTGAGGACGTAAAAATATGAGGATGCACCAAAAAATA
* * * *
20834270 TGAGAGAATGCCAAAAAAACACGAGGGGATATTAAAAATATAAT-G-AAGTACTAAATATTATGA
66 TGAGAGAAT-AC-AAAAAACACGAGGGGATACTAAAAA-ATAATAGAAAGTACCAAAAATTATGA
20834333 GAGAATACCATAAAACTTGAGGAAGTG
128 GAGAATACCATAAAACTTGAGGAAGTG
*
20834360 CCAAAAAAAATGAGAAAGTAC
1 ACAAAAAAAATGAGAAAGTAC
20834381 AAAAAATTAT
Statistics
Matches: 149, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
152 16 0.11
153 65 0.44
154 61 0.41
155 7 0.05
ACGTcount: A:0.51, C:0.09, G:0.20, T:0.20
Consensus pattern (154 bp):
ACAAAAAAAATGAGAAAGTACCGATAATTTGAGGACGTAAAAATATGAGGATGCACCAAAAAATA
TGAGAGAATACAAAAAACACGAGGGGATACTAAAAAATAATAGAAAGTACCAAAAATTATGAGAG
AATACCATAAAACTTGAGGAAGTG
Found at i:20835087 original size:34 final size:33
Alignment explanation
Indices: 20835049--20835147 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 33
20835039 GTACACATTA
* *
20835049 CCAGAAAAATATGTCAAATCAAAATGTCATATTT
1 CCAGAAACATAT-ACAAATCAAAATGTCATATTT
* *
20835083 CCAGAAACATATACTAGATTAAAATGTCATATTT
1 CCAGAAACATATAC-AAATCAAAATGTCATATTT
* * *
20835117 TCAGAAACATATACCATAGCAAAATGTCATA
1 CCAGAAACATATA-CAAATCAAAATGTCATA
20835148 ACATATCAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 1 0.02
34 53 0.96
35 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.28
Consensus pattern (33 bp):
CCAGAAACATATACAAATCAAAATGTCATATTT
Found at i:20840129 original size:33 final size:33
Alignment explanation
Indices: 20840070--20840133 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
20840060 CTACCACAGT
*
20840070 CCAACTATGGCCTTACATCCATAATGCCATAAC
1 CCAACTATGGCCTTACATCCAGAATGCCATAAC
* *
20840103 CCAATTATGGTCTTATCAT-CAGAATGCCATA
1 CCAACTATGGCCTTA-CATCCAGAATGCCATA
20840134 GCGAGCTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (33 bp):
CCAACTATGGCCTTACATCCAGAATGCCATAAC
Found at i:20842904 original size:22 final size:22
Alignment explanation
Indices: 20842860--20842906 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
20842850 GAAAATGTAC
* *
20842860 AAAAAATTACGAGGGAATTTAA
1 AAAAAATTACGAGGAAATATAA
20842882 AAAAAATTACGA-GAAAGTATAA
1 AAAAAATTACGAGGAAA-TATAA
20842904 AAA
1 AAA
20842907 CTATGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (22 bp):
AAAAAATTACGAGGAAATATAA
Found at i:20870987 original size:12 final size:12
Alignment explanation
Indices: 20870970--20870999 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
20870960 GAGGATGACC
20870970 AAAAGAAGAAAA
1 AAAAGAAGAAAA
20870982 AAAAGAAGAAAA
1 AAAAGAAGAAAA
20870994 ACAAAG
1 A-AAAG
20871000 CTGTTACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAGAAGAAAA
Found at i:20880321 original size:131 final size:129
Alignment explanation
Indices: 20880173--20880438 Score: 514
Period size: 131 Copynumber: 2.0 Consensus size: 129
20880163 GCTTATAATT
20880173 TTAATTATATATAAAAAATAATTTTAGTAGATTTGAATGTGGATTTTTATGGATTTGGATATCCA
1 TTAATTATATATAAAAAATAATTTTAGTAGATTTGAATGTGGATTTTTATGGATTTGGATATCCA
20880238 AAAAAAAATTAGAAATTTGAAAATATTTTTTTTTGTAAATTCGGATACTCAACGGATAACATAA
66 AAAAAAAATTAGAAATTTGAAAATATTTTTTTTTGTAAATTCGGATACTCAACGGATAACATAA
20880302 TTAATTATTATATATAAAAATAATTTTAGTAGATTTGAATGTGGATTTTTATGGATTTGGATATC
1 TTAATTA-TATATA-AAAAATAATTTTAGTAGATTTGAATGTGGATTTTTATGGATTTGGATATC
20880367 CAAAAAAAAATTAGAAATTTGAAAATATTTTTTTTTGTAAATTCGGATACTCAACGGATAACATA
64 CAAAAAAAAATTAGAAATTTGAAAATATTTTTTTTTGTAAATTCGGATACTCAACGGATAACATA
20880432 A
129 A
20880433 TTAATT
1 TTAATT
20880439 CAGATTTGGA
Statistics
Matches: 135, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
129 7 0.05
130 6 0.04
131 122 0.90
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (129 bp):
TTAATTATATATAAAAAATAATTTTAGTAGATTTGAATGTGGATTTTTATGGATTTGGATATCCA
AAAAAAAATTAGAAATTTGAAAATATTTTTTTTTGTAAATTCGGATACTCAACGGATAACATAA
Found at i:20883358 original size:33 final size:33
Alignment explanation
Indices: 20883321--20883385 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
20883311 CCTTCCCTTT
*
20883321 TCCATA-AGGTAGAAAGCTGGTTTTTGTCATTTC
1 TCCATAGA-GTAGAAAGCTGGGTTTTGTCATTTC
*
20883354 TCCATAGAGTAGAAAGTTGGGTTTTGTCATTT
1 TCCATAGAGTAGAAAGCTGGGTTTTGTCATTT
20883386 TAGATTACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (33 bp):
TCCATAGAGTAGAAAGCTGGGTTTTGTCATTTC
Found at i:20886689 original size:17 final size:17
Alignment explanation
Indices: 20886667--20886700 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20886657 ATCAAACTCA
20886667 TCTGTCATAATTCTAAG
1 TCTGTCATAATTCTAAG
20886684 TCTGTCATAATTCTAAG
1 TCTGTCATAATTCTAAG
20886701 GCAAAAATTA
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:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
TCTGTCATAATTCTAAG
Found at i:20894384 original size:27 final size:26
Alignment explanation
Indices: 20894331--20894383 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 26
20894321 TATCTTGAAT
20894331 TTTTTAGATAATTTTTAATATTTTTTA
1 TTTTTAGATAATTTTTAATA-TTTTTA
*
20894358 TTTTTATATAATCTTTATAATATTTT
1 TTTTTAGATAAT-TTT-TAATATTTT
20894384 ACAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 7 0.30
29 5 0.22
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTTAGATAATTTTTAATATTTTTA
Found at i:20894410 original size:21 final size:21
Alignment explanation
Indices: 20894356--20894410 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
20894346 TAATATTTTT
*
20894356 TATTTTTATATAATCTTTATAA
1 TATTTTT-TAAAATCTTTATAA
**
20894378 TATTTTACAAAAT-TTTAATAA
1 TATTTTTTAAAATCTTT-ATAA
20894399 TATTTTTTAAAA
1 TATTTTTTAAAA
20894411 AATTTAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.11
21 18 0.67
22 6 0.22
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTTTTTAAAATCTTTATAA
Found at i:20895921 original size:12 final size:12
Alignment explanation
Indices: 20895904--20895928 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20895894 AATATTTTTA
20895904 AAAATTAAAACT
1 AAAATTAAAACT
20895916 AAAATTAAAACT
1 AAAATTAAAACT
20895928 A
1 A
20895929 TGTGTGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATTAAAACT
Found at i:20896761 original size:72 final size:72
Alignment explanation
Indices: 20896644--20896780 Score: 215
Period size: 72 Copynumber: 1.9 Consensus size: 72
20896634 GGCTCACGGG
*
20896644 TCAACGAGTCTAATGCCTCTATCTAAATTGATACCTAAATCAATTCTCGATCCAA-TCAATTTAA
1 TCAACGAGTCTAATGCCTCTATCTAAATTGATACCTAAACCAATTCTCGATCCAACT-AATTTAA
20896708 CTAGCAGA
65 CTAGCAGA
* *
20896716 TCAACGAGTCTAATATCC-CTCTCTAAATTGATACCTAAACCAATTCTCGATCCAACTAATTTAA
1 TCAACGAGTCTAAT-GCCTCTATCTAAATTGATACCTAAACCAATTCTCGATCCAACTAATTTAA
20896780 C
65 C
20896781 AATTCGAACA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
72 57 0.95
73 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (72 bp):
TCAACGAGTCTAATGCCTCTATCTAAATTGATACCTAAACCAATTCTCGATCCAACTAATTTAAC
TAGCAGA
Found at i:20905662 original size:35 final size:35
Alignment explanation
Indices: 20905528--20905693 Score: 203
Period size: 35 Copynumber: 4.8 Consensus size: 35
20905518 CTTTGTTGGT
*
20905528 GTGTTTCGGGTGGATTAGCTCTTATGAGCACACTGGT
1 GTGTTTCGGGTGGATTAGCTCTTATGAG--CACTGGC
* *
20905565 GTGTTTCGAG-GGATTAGTTCTTATGAGCACT-GC
1 GTGTTTCGGGTGGATTAGCTCTTATGAGCACTGGC
** * *
20905598 GTGTTTCAAG-GGTTTAGTTCTTATGAGCACTGGC
1 GTGTTTCGGGTGGATTAGCTCTTATGAGCACTGGC
20905632 GTGTTTCGGGTGGATTAGCTCTTATGAGCACTGGC
1 GTGTTTCGGGTGGATTAGCTCTTATGAGCACTGGC
* * *
20905667 GTATATCAGGTGGATTAGCTCTTATGA
1 GTGTTTCGGGTGGATTAGCTCTTATGA
20905694 ACATCGGAGT
Statistics
Matches: 115, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
33 30 0.26
34 14 0.12
35 46 0.40
36 16 0.14
37 9 0.08
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (35 bp):
GTGTTTCGGGTGGATTAGCTCTTATGAGCACTGGC
Found at i:20922693 original size:2 final size:2
Alignment explanation
Indices: 20922686--20922711 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20922676 CATTTGAGTA
20922686 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20922712 TAAATAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20923411 original size:24 final size:24
Alignment explanation
Indices: 20923384--20923435 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
20923374 AATCAAAGTC
* *
20923384 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
20923408 AAATATATTGTACTCATAAATACT
1 AAATATATTATACTAATAAATACT
20923432 AAAT
1 AAAT
20923436 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:20928429 original size:19 final size:19
Alignment explanation
Indices: 20928388--20928430 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
20928378 AATCCAAAAC
* * **
20928388 CAAAACAGTCCCAAAATGT
1 CAAAACAATCCAAAAATAA
20928407 CAAAACAATCCAAAAATAA
1 CAAAACAATCCAAAAATAA
20928426 CAAAA
1 CAAAA
20928431 TGTGATAACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.23, G:0.05, T:0.12
Consensus pattern (19 bp):
CAAAACAATCCAAAAATAA
Found at i:20928616 original size:41 final size:41
Alignment explanation
Indices: 20928559--20928640 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
20928549 GTGAGTTTCG
20928559 AAACTCAGTGTGTAACATATCATATTATCAACAGAAGAAAA
1 AAACTCAGTGTGTAACATATCATATTATCAACAGAAGAAAA
20928600 AAACTCAGTGTGTAACATATCATATTATCAACAGAAGAAAA
1 AAACTCAGTGTGTAACATATCATATTATCAACAGAAGAAAA
20928641 TCAGATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (41 bp):
AAACTCAGTGTGTAACATATCATATTATCAACAGAAGAAAA
Found at i:20929413 original size:26 final size:25
Alignment explanation
Indices: 20929367--20929415 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
20929357 TAATGGGTTG
* **
20929367 AAAATATAGAGATAATTCTATTTCT
1 AAAATATAGAGACAAACCTATTTCT
20929392 AAAATTATAGAGACAAACCTATTT
1 AAAA-TATAGAGACAAACCTATTT
20929416 ATAGCATGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (25 bp):
AAAATATAGAGACAAACCTATTTCT
Found at i:20930111 original size:12 final size:12
Alignment explanation
Indices: 20930074--20930104 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20930064 ATATTCACAA
20930074 ATAAGCTCATTT
1 ATAAGCTCATTT
*
20930086 ATTAGCTCATTT
1 ATAAGCTCATTT
20930098 ATAAGCT
1 ATAAGCT
20930105 AGTTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (12 bp):
ATAAGCTCATTT
Found at i:20930230 original size:24 final size:23
Alignment explanation
Indices: 20930202--20930260 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
20930192 AACATTATTC
*
20930202 CTGAACATGTTCAATTATATGTTCA
1 CTGAACATGTTCAATTA-A-GTTAA
*
20930227 -TGAACATGTTCGATTAAGTTAA
1 CTGAACATGTTCAATTAAGTTAA
20930249 CTGAACATGTTC
1 CTGAACATGTTC
20930261 TTGAACATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 4 0.13
23 12 0.39
24 15 0.48
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (23 bp):
CTGAACATGTTCAATTAAGTTAA
Found at i:20930352 original size:20 final size:20
Alignment explanation
Indices: 20930327--20930364 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20930317 ACTGAGCACG
*
20930327 AACAAACTTAAAAATAAACA
1 AACAAACATAAAAATAAACA
*
20930347 AACAAACATGAAAATAAA
1 AACAAACATAAAAATAAA
20930365 TTTGTTCGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.13, G:0.03, T:0.13
Consensus pattern (20 bp):
AACAAACATAAAAATAAACA
Found at i:20930551 original size:2 final size:2
Alignment explanation
Indices: 20930544--20930570 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20930534 TTGAAGGTTT
20930544 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
20930571 TTGGAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20930714 original size:2 final size:2
Alignment explanation
Indices: 20930707--20930733 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20930697 TTGAAGGTTT
20930707 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
20930734 TTGGAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20930795 original size:163 final size:164
Alignment explanation
Indices: 20930514--20930840 Score: 647
Period size: 163 Copynumber: 2.0 Consensus size: 164
20930504 TTAGTTGTTA
20930514 CTGAAGAGGTCAAAACATGTTTGAAGGTTTTATATATATATATATATATATATATATTTGGAATT
1 CTGAAGAGGTCAAAACATGTTTGAAGGTTTTATATATATATATATATATATATATATTTGGAATT
20930579 TAATCATTTTATTTTTTAGATTTGAAAATAAGTTCAATTGTTAACATCGTTAAAATTCTTCTAAT
66 TAATCATTTTATTTTTTAGATTTGAAAATAAGTTCAATTGTTAACATCGTTAAAATTCTTCTAAT
20930644 AATTGAAGTTTGTTACAAAATCATTTCTTATTAT
131 AATTGAAGTTTGTTACAAAATCATTTCTTATTAT
20930678 CTGAAGAGGT-AAAACATGTTTGAAGGTTTTATATATATATATATATATATATATATTTGGAATT
1 CTGAAGAGGTCAAAACATGTTTGAAGGTTTTATATATATATATATATATATATATATTTGGAATT
20930742 TAATCATTTTATTTTTTAGATTTGAAAATAAGTTCAATTGTTAACATCGTTAAAATTCTTCTAAT
66 TAATCATTTTATTTTTTAGATTTGAAAATAAGTTCAATTGTTAACATCGTTAAAATTCTTCTAAT
20930807 AATTGAAGTTTGTTACAAAATCATTTCTTATTAT
131 AATTGAAGTTTGTTACAAAATCATTTCTTATTAT
20930841 ATATCTAACA
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
163 153 0.94
164 10 0.06
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (164 bp):
CTGAAGAGGTCAAAACATGTTTGAAGGTTTTATATATATATATATATATATATATATTTGGAATT
TAATCATTTTATTTTTTAGATTTGAAAATAAGTTCAATTGTTAACATCGTTAAAATTCTTCTAAT
AATTGAAGTTTGTTACAAAATCATTTCTTATTAT
Found at i:20931259 original size:19 final size:20
Alignment explanation
Indices: 20931235--20931275 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
20931225 AAGGTTTTTA
20931235 TTTTATTAGAG-TTAGGGTT
1 TTTTATTAGAGTTTAGGGTT
*
20931254 TTTTATTAGGGTTTAGGGTT
1 TTTTATTAGAGTTTAGGGTT
20931274 TT
1 TT
20931276 ATAAAAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (20 bp):
TTTTATTAGAGTTTAGGGTT
Found at i:20934321 original size:20 final size:20
Alignment explanation
Indices: 20934293--20934351 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 20
20934283 ATACGTGCCA
20934293 CACTGATATGTAGCTGCTAC
1 CACTGATATGTAGCTGCTAC
* *
20934313 CATTGATATATAGCCATAGCTAC
1 CACTGATATGTAG-C-T-GCTAC
*
20934336 CACTGAAATGTAGCTG
1 CACTGATATGTAGCTG
20934352 AAGCTACTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 12 0.39
21 2 0.06
22 2 0.06
23 15 0.48
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (20 bp):
CACTGATATGTAGCTGCTAC
Found at i:20934349 original size:23 final size:22
Alignment explanation
Indices: 20934308--20934383 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
20934298 ATATGTAGCT
* * *
20934308 GCTACCATTGATATATAGCCATA
1 GCTACCACTGAAATGTAGCCA-A
*
20934331 GCTACCACTGAAATGTAGCTGAA
1 GCTACCACTGAAATGTAGC-CAA
**
20934354 GCTACTGCTGAAATGTAGCCGAA
1 GCTACCACTGAAATGTAGCC-AA
20934377 GCTACCA
1 GCTACCA
20934384 TTGGTCAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
23 41 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (22 bp):
GCTACCACTGAAATGTAGCCAA
Found at i:20935984 original size:50 final size:49
Alignment explanation
Indices: 20935829--20936016 Score: 191
Period size: 50 Copynumber: 3.8 Consensus size: 49
20935819 TCAGTTCACA
* * * *
20935829 TAGTAGCCTACACATAGTACTGCACATGTGACCATTACCA-TCTGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-T--CATTCTGATACACG
* * ** * * *
20935880 TAGTAGCCTGCACATAGAACTACACACGTGATCAGAACTATCTGGT-CGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA-T-TCTGATACACG
*
20935930 TAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCATTCTGATACACG
*
20935980 TAGTAGCCTGCACATAGTACTGCACACGTGACCATCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA
20936017 CTTTCACTTT
Statistics
Matches: 111, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
48 1 0.01
49 9 0.08
50 65 0.59
51 36 0.32
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCATTCTGATACACG
Found at i:20936007 original size:100 final size:100
Alignment explanation
Indices: 20935827--20936010 Score: 289
Period size: 100 Copynumber: 1.8 Consensus size: 100
20935817 GTTCAGTTCA
* *
20935827 CATAGTAGCCTACACATAGTACTGCACATGTGACCATTACCATCTGATACATGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGTGACCA-TACCATCTGATACACGTAGTAGCCTGCA
20935892 CATAGAACTACACACGTGATCAGAACTATCTGGTCG
65 CATAGAACTACACACGTGATCAGAACTATCTGGTCG
* *
20935928 CATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGTGACCATACCA-TCTGATACACGTAGTAGCCTGCA
* *
20935992 CATAGTACTGCACACGTGA
65 CATAGAACTACACACGTGA
20936011 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
99 4 0.05
100 39 0.51
101 33 0.43
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (100 bp):
CATAGTAGCCTACACATAGTACTACACATGTGACCATACCATCTGATACACGTAGTAGCCTGCAC
ATAGAACTACACACGTGATCAGAACTATCTGGTCG
Found at i:20943751 original size:22 final size:22
Alignment explanation
Indices: 20943726--20943768 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
20943716 CAAATAAACT
*
20943726 CTAAACATTAGCATCA-GAATAG
1 CTAAACA-CAGCATCACGAATAG
*
20943748 CTAATCACAGCATCACGAATA
1 CTAAACACAGCATCACGAATA
20943769 TTTAACATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (22 bp):
CTAAACACAGCATCACGAATAG
Found at i:20944947 original size:22 final size:22
Alignment explanation
Indices: 20944922--20944963 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20944912 AATTTGGGTG
20944922 TTTTATTTATTTTATTTTTTCT
1 TTTTATTTATTTTATTTTTTCT
* * *
20944944 TTTTCTTTGTTTTCTTTTTT
1 TTTTATTTATTTTATTTTTT
20944964 TTCCTTGTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTATTTATTTTATTTTTTCT
Found at i:20945334 original size:4 final size:4
Alignment explanation
Indices: 20945327--20945351 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20945317 TTAAATAAAA
20945327 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
20945352 CAACCTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:20952189 original size:20 final size:21
Alignment explanation
Indices: 20952143--20952184 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
20952133 TTAATATTTT
20952143 AATA-TTTTAAAAATTCAAAAA
1 AATATTTTTAAAAATT-AAAAA
20952164 AATATTTTTAAAAATTAAAAA
1 AATATTTTTAAAAATTAAAAA
20952185 TTATTAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AATATTTTTAAAAATTAAAAA
Found at i:20954095 original size:25 final size:24
Alignment explanation
Indices: 20954078--20954153 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 24
20954068 TTTTTGCAAT
20954078 TTATTTATTTTAAAATTTTT-ATA
1 TTATTTATTTTAAAATTTTTAATA
* * *
20954101 TTATTTGTTTTAAATTATTTTATTA
1 TTATTTATTTTAAAAT-TTTTAATA
*
20954126 TTATTTATTTTAAAATTTTCACATA
1 TTATTTATTTTAAAATTTTTA-ATA
20954151 TTA
1 TTA
20954154 GGCATTTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 14 0.33
24 8 0.19
25 21 0.49
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (24 bp):
TTATTTATTTTAAAATTTTTAATA
Done.