Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167984.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_241, whole genome shotgun sequence
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: 44576
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
File 1 of 2
Found at i:37 original size:17 final size:18
Alignment explanation
Indices: 15--60 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
5 TAGATAATTA
*
15 ATTATATAATTAA-TAAT
1 ATTATATAAATAACTAAT
*
32 ATTATACAAATAACTAAT
1 ATTATATAAATAACTAAT
50 -TTATATTAAAT
1 ATTATA-TAAAT
61 TATTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTATATAAATAACTAAT
Found at i:1455 original size:13 final size:13
Alignment explanation
Indices: 1424--1464 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
1414 AGTACTTATT
1424 ATAACTTATTAACTA
1 ATAA-TTATTAA-TA
1439 ATAATTATTAATA
1 ATAATTATTAATA
*
1452 ATAATTGTTAATA
1 ATAATTATTAATA
1465 GATTAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 14 0.56
14 7 0.28
15 4 0.16
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (13 bp):
ATAATTATTAATA
Found at i:1709 original size:31 final size:29
Alignment explanation
Indices: 1671--1741 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
1661 AATACTTTAT
*
1671 TATAATTAATATAGTAAATATTATAATATTA
1 TATAATTAATATA-TAAATAAT-TAATATTA
1702 TATAATT-ATAATATAAATAATTAATATTA
1 TATAATTAAT-ATATAAATAATTAATATTA
1731 T-T-ATTAATATA
1 TATAATTAATATA
1742 ATTGTTATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
27 6 0.16
28 3 0.08
29 9 0.24
30 9 0.24
31 10 0.27
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
TATAATTAATATATAAATAATTAATATTA
Found at i:1711 original size:16 final size:16
Alignment explanation
Indices: 1690--1753 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
1680 TATAGTAAAT
1690 ATTATAATATTATATA
1 ATTATAATATTATATA
*
1706 ATTATAATA-TAAATA
1 ATTATAATATTATATA
*
1721 ATTAATATTATTAT-TA
1 ATT-ATAATATTATATA
*
1737 A-TATAATTGTTATATA
1 ATTATAA-TATTATATA
1753 A
1 A
1754 ATAAATGACT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
14 3 0.08
15 14 0.36
16 20 0.51
17 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATTATAATATTATATA
Found at i:1716 original size:21 final size:22
Alignment explanation
Indices: 1692--1753 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
1682 TAGTAAATAT
1692 TATAATATTATATAATTA-TAA
1 TATAATATTATATAATTATTAA
*
1713 TATAAATAATTAATATTATTATTAA
1 TAT-AAT-ATT-ATATAATTATTAA
*
1738 TATAATTGTTATATAA
1 TATAA-TATTATATAA
1754 ATAAATGACT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 3 0.09
22 3 0.09
23 8 0.24
24 12 0.36
25 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TATAATATTATATAATTATTAA
Found at i:1723 original size:15 final size:16
Alignment explanation
Indices: 1672--1724 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
1662 ATACTTTATT
1672 ATAATTA-ATATAGTAA
1 ATAATTATA-ATAGTAA
* *
1688 AT-ATTATAATATTAT
1 ATAATTATAATAGTAA
1703 ATAATTATAATA-TAA
1 ATAATTATAATAGTAA
1718 ATAATTA
1 ATAATTA
1725 ATATTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 20 0.62
16 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
ATAATTATAATAGTAA
Found at i:1752 original size:36 final size:36
Alignment explanation
Indices: 1669--1757 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 36
1659 ATAATACTTT
* *
1669 ATTATAAT-TAATATAGTAAATATTATAATATTATATA
1 ATTATAATATAA-ATAATTAATATTAT-ATATTATATA
1706 ATTATAATATAAATAATTAATATTAT-TATTAATATA
1 ATTATAATATAAATAATTAATATTATATATT-ATATA
* *
1742 ATTGTTATATAAATAA
1 ATTATAATATAAATAA
1758 ATGACTATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
35 4 0.09
36 19 0.41
37 20 0.43
38 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (36 bp):
ATTATAATATAAATAATTAATATTATATATTATATA
Found at i:1873 original size:16 final size:15
Alignment explanation
Indices: 1837--1875 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1827 TGTATATTAT
*
1837 ATTATATTATATTTA
1 ATTATAATATATTTA
*
1852 AATATAATATATTTTA
1 ATTATAATATA-TTTA
1868 ATTATAAT
1 ATTATAAT
1876 TAAAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATAATATATTTA
Found at i:1886 original size:30 final size:30
Alignment explanation
Indices: 1852--1936 Score: 72
Period size: 30 Copynumber: 2.8 Consensus size: 30
1842 ATTATATTTA
1852 AATATAATA-TATTTTAATTATAATTAAAAT
1 AATATAATACTATTTTAATTATAATT-AAAT
* *
1882 AATAT-ATATTATTACTATAATTAT--TTTAAT
1 AATATAATACTATT--T-TAATTATAATTAAAT
1912 AATATAATACTATATTTAA-TATAAT
1 AATATAATACTAT-TTTAATTATAAT
1937 AATCACTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
28 3 0.07
29 6 0.13
30 19 0.42
31 8 0.18
32 2 0.04
33 7 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
AATATAATACTATTTTAATTATAATTAAAT
Found at i:1889 original size:27 final size:26
Alignment explanation
Indices: 1829--1904 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
1819 ATTTGACATG
* * *
1829 TATATTATATTATATTAT-ATTTAAA
1 TATAATATATTTTATTATAATTAAAA
1854 TATAATATATTTTAATTATAATTAAAA
1 TATAATATATTTT-ATTATAATTAAAA
*
1881 TA-ATATATATTATTACTATAATTA
1 TATA-ATATATT-TTATTATAATTA
1905 TTTTAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
25 11 0.26
26 6 0.14
27 24 0.56
28 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (26 bp):
TATAATATATTTTATTATAATTAAAA
Found at i:1936 original size:25 final size:25
Alignment explanation
Indices: 1807--1939 Score: 74
Period size: 25 Copynumber: 5.1 Consensus size: 25
1797 TATAACTAAA
*
1807 AATATAATAC-ATATTTGACATGTATAT
1 AATATAATACTATATTT-A-ATATA-AT
* * *
1834 TATATTATATTATATTTAAATATAAT
1 AATATAATACTATATTT-AATATAAT
* * *
1860 ATATTTTAAT--TATAATTAAAATAAT
1 A-A-TATAATACTATATTTAATATAAT
* * * *
1885 ATATATTATTACTATAATTATTTTAAT
1 A-ATA-TAATACTATATTTAATATAAT
1912 AATATAATACTATATTTAATATAAT
1 AATATAATACTATATTTAATATAAT
1937 AAT
1 AAT
1940 CACTTAATTA
Statistics
Matches: 81, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
24 1 0.01
25 33 0.41
26 11 0.14
27 25 0.31
28 11 0.14
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (25 bp):
AATATAATACTATATTTAATATAAT
Found at i:2061 original size:18 final size:19
Alignment explanation
Indices: 2038--2086 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
2028 TAGATAATTA
2038 ATTATATAAATTAA-TAAT
1 ATTATATAAATTAACTAAT
*
2056 ATTATACAAA-TAACTAAT
1 ATTATATAAATTAACTAAT
2074 -TTATATTAAATTA
1 ATTATA-TAAATTA
2087 TATTTAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.31
18 16 0.62
19 2 0.08
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTATATAAATTAACTAAT
Found at i:2921 original size:31 final size:30
Alignment explanation
Indices: 2877--2937 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 30
2867 TAAGTTATTA
2877 TATTTGAATAACAA-TAAACTTAATAATAAATT
1 TATTTGAATAACAATTAAA-TT-A-AATAAATT
2909 TATTTG-ATAACAATTAAATTAAATAAATT
1 TATTTGAATAACAATTAAATTAAATAAATT
2938 ACTTATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 8 0.29
30 1 0.04
31 9 0.32
32 10 0.36
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.39
Consensus pattern (30 bp):
TATTTGAATAACAATTAAATTAAATAAATT
Found at i:3490 original size:14 final size:14
Alignment explanation
Indices: 3466--3507 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
3456 TAGTATTATT
3466 ATAACTTATTAACT-A
1 ATAA-TTATTAA-TAA
3481 ATAATTATTAATAA
1 ATAATTATTAATAA
*
3495 ATAATTGTTAATA
1 ATAATTATTAATA
3508 GATTAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 1 0.04
14 20 0.80
15 4 0.16
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (14 bp):
ATAATTATTAATAA
Found at i:3892 original size:25 final size:25
Alignment explanation
Indices: 3864--3918 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
3854 ATTTGACATG
*
3864 TATATTAT-ATTATATTTAAATATAA
1 TATATTATAATTATAATTAAA-ATAA
*
3889 TATATTTTAATTATAATTAAAATAA
1 TATATTATAATTATAATTAAAATAA
3914 TATAT
1 TATAT
3919 ATTATTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATATTATAATTATAATTAAAATAA
Found at i:3903 original size:16 final size:15
Alignment explanation
Indices: 3867--3905 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3857 TGACATGTAT
*
3867 ATTATATTATATTTA
1 ATTATAATATATTTA
*
3882 AATATAATATATTTTA
1 ATTATAATATA-TTTA
3898 ATTATAAT
1 ATTATAAT
3906 TAAAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATAATATATTTA
Found at i:3919 original size:27 final size:25
Alignment explanation
Indices: 3864--3923 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
3854 ATTTGACATG
*
3864 TATATTATATTATATTTAAATATAA
1 TATATTATATTATATTAAAATATAA
*
3889 TATATTTTAATTATAATTAAAATA-ATA
1 TATATTAT-ATTAT-ATTAAAATATA-A
3916 TATATTAT
1 TATATTAT
3924 TACTATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 7 0.24
26 6 0.21
27 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATTATATTATATTAAAATATAA
Found at i:3930 original size:27 final size:28
Alignment explanation
Indices: 3864--3933 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
3854 ATTTGACATG
*
3864 TATATTA-TATTATATTTAAATATAATA
1 TATATTATTATTATAATTAAATATAATA
*
3891 TAT-TT-TAATTATAATTAAA-ATAATA
1 TATATTATTATTATAATTAAATATAATA
*
3916 TATATTATTACTATAATT
1 TATATTATTATTATAATT
3934 GTTTTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 9 0.25
26 15 0.42
27 12 0.33
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TATATTATTATTATAATTAAATATAATA
Found at i:4133 original size:18 final size:16
Alignment explanation
Indices: 4079--4133 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 16
4069 AATTATCTAT
4079 TAAAT-ATAATTT-TA
1 TAAATAATAATTTATA
4093 TAAATTAATAATATTATA
1 TAAA-TAATAAT-TTATA
*
4111 CAAATAACTAATTTATA
1 TAAATAA-TAATTTATA
4128 TTAAAT
1 -TAAAT
4134 TATTATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 4 0.12
15 1 0.03
16 5 0.15
17 10 0.30
18 13 0.39
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATAATAATTTATA
Found at i:4558 original size:15 final size:14
Alignment explanation
Indices: 4538--4567 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4528 TGTTAATAAT
4538 AAATTATAATTTATA
1 AAATTATAA-TTATA
4553 AAATTATAATTATA
1 AAATTATAATTATA
4567 A
1 A
4568 TGGTAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTATAATTATA
Found at i:4818 original size:30 final size:31
Alignment explanation
Indices: 4759--4822 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
4749 ATTTAAAGAC
*
4759 AATTGTTAAGTATATAATAATCAATTAATTT
1 AATTGTTAAGTATATAATAATCAAATAATTT
* * *
4790 AATTGTTAATTA-ATAATCATTAAATAATTT
1 AATTGTTAAGTATATAATAATCAAATAATTT
4820 AAT
1 AAT
4823 ATATATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (31 bp):
AATTGTTAAGTATATAATAATCAAATAATTT
Found at i:5390 original size:20 final size:19
Alignment explanation
Indices: 5324--5390 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 19
5314 TATTATTTAA
5324 ATTATAATAATTTATATA--
1 ATTATAAT-ATTTATATATG
*
5342 ATTATAATATATA-AT-TG
1 ATTATAATATTTATATATG
*
5359 TTTATAATTATTTATATATG
1 ATTATAA-TATTTATATATG
5379 ATTATCAATATT
1 ATTAT-AATATT
5391 ATTAATAGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
16 2 0.05
17 10 0.26
18 13 0.33
19 2 0.05
20 10 0.26
21 2 0.05
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (19 bp):
ATTATAATATTTATATATG
Found at i:5644 original size:25 final size:25
Alignment explanation
Indices: 5615--5671 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
5605 TTATTATATC
5615 AATTATTATTATCATT-AAATTCA-TT
1 AATTATTATTAT-ATTGAAATT-ATTT
*
5640 AATTATAATTATATTGAAATTATTT
1 AATTATTATTATATTGAAATTATTT
5665 AATTATT
1 AATTATT
5672 TAAATAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (25 bp):
AATTATTATTATATTGAAATTATTT
Found at i:6013 original size:13 final size:13
Alignment explanation
Indices: 5995--6019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5985 TTATATATTT
5995 AATTATATAATAA
1 AATTATATAATAA
6008 AATTATATAATA
1 AATTATATAATA
6020 TTAATTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTATATAATAA
Found at i:6344 original size:17 final size:17
Alignment explanation
Indices: 6322--6363 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 17
6312 TATAAATATA
6322 ATTATATATTAATAATT
1 ATTATATATTAATAATT
6339 A-T-TATATT-ATAATT
1 ATTATATATTAATAATT
*
6353 ATTATAAATTA
1 ATTATATATTA
6364 TATTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
14 7 0.33
15 7 0.33
16 6 0.29
17 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATATATTAATAATT
Found at i:6364 original size:50 final size:48
Alignment explanation
Indices: 6296--6439 Score: 143
Period size: 50 Copynumber: 2.9 Consensus size: 48
6286 TAGATACTAT
*
6296 TTATAA-TATTACCAATTATAAATATAATTATATATTAATAATTATTATA
1 TTATAATTATTA-AAATTATAAATATAATTATATATTAATAATTATTA-A
* *
6345 TTATAATTATTATAAATTAT-ATTA-AATTAAATATTCAAATAATATATTAA
1 TTATAATTATTA-AAATTATAAATATAATTATATATT--AATAAT-TATTAA
* *
6395 CTATAATTATTAATAA-TATAAATATAATTATAATATTATTAATTA
1 TTATAATTATTAA-AATTATAAATATAATTAT-ATATTAATAATTA
6440 ATAGCAAATA
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
48 10 0.13
49 15 0.19
50 39 0.49
51 10 0.13
52 5 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (48 bp):
TTATAATTATTAAAATTATAAATATAATTATATATTAATAATTATTAA
Found at i:6409 original size:21 final size:20
Alignment explanation
Indices: 6314--6436 Score: 73
Period size: 20 Copynumber: 6.2 Consensus size: 20
6304 TTACCAATTA
*
6314 TAAATATAATTAT-ATATTAA
1 TAAATATAATTATAATA-TAT
*
6334 TAATTATTATATTATAAT-TAT
1 TAAATA-TA-ATTATAATATAT
* *
6355 T--ATA-AATTATATTAAAT
1 TAAATATAATTATAATATAT
6372 TAAATATTCAA--ATAATATAT
1 TAAATA-T-AATTATAATATAT
*
6392 TAACTATAATTATTAATA-AT
1 TAAATATAATTA-TAATATAT
6412 ATAAATATAATTATAATATTAT
1 -TAAATATAATTATAATA-TAT
6434 TAA
1 TAA
6437 TTAATAGCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 29
0.68 0.08 0.25
Matches are distributed among these distances:
16 7 0.09
17 4 0.05
18 2 0.03
19 6 0.08
20 25 0.32
21 24 0.30
22 9 0.11
23 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATATAATTATAATATAT
Found at i:6488 original size:21 final size:21
Alignment explanation
Indices: 6464--6507 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6454 TTAAATATTT
6464 TAATAATAATATCATA-TATAA
1 TAATAATAAT-TCATATTATAA
* *
6485 TAATTATAATTGATATTATAA
1 TAATAATAATTCATATTATAA
6506 TA
1 TA
6508 TATATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATAATAATTCATATTATAA
Found at i:6534 original size:16 final size:16
Alignment explanation
Indices: 6509--6539 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6499 ATTATAATAT
*
6509 ATATTTATAAATTATA
1 ATATTAATAAATTATA
6525 ATATTAATAAATTAT
1 ATATTAATAAATTAT
6540 TTTTACTTAC
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:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAAATTATA
Found at i:6602 original size:21 final size:21
Alignment explanation
Indices: 6553--6604 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
6543 TACTTACTAT
6553 TAATAAATATATTTATATTAA
1 TAATAAATATATTTATATTAA
*
6574 AAATTAAACTAT-TTTATA-TACA
1 TAA-TAAA-TATATTTATATTA-A
6596 TAATAAATA
1 TAATAAATA
6605 AAAATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
20 2 0.08
21 8 0.31
22 13 0.50
23 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAAATATATTTATATTAA
Found at i:6618 original size:25 final size:22
Alignment explanation
Indices: 6554--6619 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 22
6544 ACTTACTATT
*
6554 AATAAATATATTTATAT-TAAA
1 AATAAAAATATTTATATATAAA
* *
6575 AATTAAACTATTTTATATACATAATA
1 AATAAAAATA-TTTATAT--ATAA-A
6601 AATAAAAATATTTATATAT
1 AATAAAAATATTTATATAT
6620 TATAGATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
21 7 0.20
22 7 0.20
23 2 0.06
25 10 0.29
26 9 0.26
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAAATATTTATATATAAA
Found at i:6885 original size:27 final size:27
Alignment explanation
Indices: 6853--6904 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6843 GTAATTTTAA
6853 TAATTATT-TATAAATTAATTAAATATT
1 TAATTATTAT-TAAATTAATTAAATATT
* *
6880 TAATTATTATTTAATTAATTTAATA
1 TAATTATTATTAAATTAATTAAATA
6905 ATTGTATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TAATTATTATTAAATTAATTAAATATT
Found at i:6886 original size:23 final size:23
Alignment explanation
Indices: 6851--6897 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6841 TAGTAATTTT
*
6851 AATAATTATTTATAAATTAATTA
1 AATAATTAATTATAAATTAATTA
* * *
6874 AATATTTAATTATTATTTAATTA
1 AATAATTAATTATAAATTAATTA
6897 A
1 A
6898 TTTAATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATAATTAATTATAAATTAATTA
Found at i:7034 original size:11 final size:11
Alignment explanation
Indices: 7018--7047 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7008 CTATTTACAC
7018 AATTATATCAT
1 AATTATATCAT
*
7029 AATTATATCGT
1 AATTATATCAT
7040 AATTATAT
1 AATTATAT
7048 TAGATACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (11 bp):
AATTATATCAT
Found at i:7210 original size:17 final size:15
Alignment explanation
Indices: 7182--7216 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
7172 TATTAAAACT
7182 AATATATATTGTTTA
1 AATATATATTGTTTA
7197 AATATATTATTTGTTTA
1 AATATA-TA-TTGTTTA
7214 AAT
1 AAT
7217 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (15 bp):
AATATATATTGTTTA
Found at i:7363 original size:32 final size:30
Alignment explanation
Indices: 7325--7398 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
7315 TATAATAATT
*
7325 TTAATATTACTTAATTATATACTATTAAATAA
1 TTAATATTACTTAATAATATAC-A-TAAATAA
* * *
7357 TTAATATTAATT-ATAATATTCATAATTAA
1 TTAATATTACTTAATAATATACATAAATAA
*
7386 TTAATAATACTTA
1 TTAATATTACTTA
7399 TTTAAATAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 16 0.46
30 1 0.03
31 7 0.20
32 11 0.31
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (30 bp):
TTAATATTACTTAATAATATACATAAATAA
Found at i:7366 original size:28 final size:25
Alignment explanation
Indices: 7335--7386 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
7325 TTAATATTAC
7335 TTAATTATATACTATTAAATAATTAATA
1 TTAATTATA-A-TATT-AATAATTAATA
*
7363 TTAATTATAATATTCATAATTAAT
1 TTAATTATAATATTAATAATTAAT
7387 TAATAATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 9 0.39
26 4 0.17
27 1 0.04
28 9 0.39
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAATTATAATATTAATAATTAATA
Found at i:7461 original size:23 final size:22
Alignment explanation
Indices: 7435--7490 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
7425 AAAATATAGT
*
7435 TATTATTAATATTTGATT-ATAAA
1 TATTATTAATAATT-ATTAAT-AA
7458 TATT-TATAATAATTATTAATAA
1 TATTAT-TAATAATTATTAATAA
7480 -ATTATTAATAA
1 TATTATTAATAA
7491 ATAATTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
21 9 0.31
22 7 0.24
23 13 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TATTATTAATAATTATTAATAA
Found at i:7484 original size:11 final size:11
Alignment explanation
Indices: 7464--7492 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7454 TAAATATTTA
7464 TAAT-AATTAT
1 TAATAAATTAT
7474 TAATAAATTAT
1 TAATAAATTAT
7485 TAATAAAT
1 TAATAAAT
7493 AATTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATAAATTAT
Found at i:7981 original size:10 final size:10
Alignment explanation
Indices: 7966--8000 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
7956 TTGATGGTTA
7966 ATTAATTATT
1 ATTAATTATT
7976 ATTAATTAATT
1 ATTAATT-ATT
*
7987 ATTAATAATT
1 ATTAATTATT
7997 ATTA
1 ATTA
8001 TAATGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTAATTATT
Found at i:7982 original size:14 final size:14
Alignment explanation
Indices: 7963--8001 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
7953 AAGTTGATGG
7963 TTAATTAATTATTA
1 TTAATTAATTATTA
7977 TTAATTAATTATTA
1 TTAATTAATTATTA
*
7991 ATAATT-ATTAT
1 TTAATTAATTAT
8002 AATGAATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAATTAATTATTA
Found at i:8743 original size:21 final size:22
Alignment explanation
Indices: 8719--8764 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
8709 TTATTAGTTA
*
8719 TAAATCTAATTGTA-TTTATTT
1 TAAATATAATTGTATTTTATTT
* *
8740 TAAATATTATTTTATTTTATTT
1 TAAATATAATTGTATTTTATTT
8762 TAA
1 TAA
8765 TAATCAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TAAATATAATTGTATTTTATTT
Found at i:8775 original size:22 final size:22
Alignment explanation
Indices: 8733--8775 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8723 TCTAATTGTA
* *
8733 TTTATTTTAAATATTATTTTAT
1 TTTATTTTAAATATCAATTTAT
8755 TTTATTTT-AATAATCAATTTA
1 TTTATTTTAAAT-ATCAATTTA
8776 AAATAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTATTTTAAATATCAATTTAT
Found at i:8989 original size:19 final size:19
Alignment explanation
Indices: 8930--8989 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
8920 AAATTATTAT
* *
8930 TATTATAATATTAAATAAA
1 TATTAGAATATTTAATAAA
*
8949 TATTAGAATAATTAATAAAA
1 TATTAGAATATTTAAT-AAA
*
8969 TATTAG-TTATTTAATATAA
1 TATTAGAATATTTAATA-AA
8988 TA
1 TA
8990 CTATTAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.03
19 24 0.71
20 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TATTAGAATATTTAATAAA
Found at i:9096 original size:24 final size:24
Alignment explanation
Indices: 9069--9141 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
9059 ATTATAATCA
9069 AATTATTTATAATTAATATAAATT
1 AATTATTTATAATTAATATAAATT
*
9093 AATTAAAATT-T-ATTAATATATAA-T
1 AATT--ATTTATAATTAATATA-AATT
* * *
9117 AATTATTAATAAGTAATTTAAATT
1 AATTATTTATAATTAATATAAATT
9141 A
1 A
9142 TTACTAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
22 2 0.05
23 3 0.08
24 27 0.71
25 3 0.08
26 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (24 bp):
AATTATTTATAATTAATATAAATT
Found at i:9200 original size:18 final size:19
Alignment explanation
Indices: 9174--9210 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9164 TTTTAAATAC
9174 TAATAATATTA-TAATTAA
1 TAATAATATTATTAATTAA
*
9192 TAATCATATTATTAATTAA
1 TAATAATATTATTAATTAA
9211 ACATATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATAATATTATTAATTAA
Found at i:10074 original size:177 final size:177
Alignment explanation
Indices: 9331--10589 Score: 910
Period size: 177 Copynumber: 7.0 Consensus size: 177
9321 AATAAGATAT
* * * * *
9331 TATTTCAAATCGTTATCACCTTTTGTTTTGTCATATAACAATTGTTTTTTATT-ATACATGATTA
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTG-TTTTTATTCATACAAGCTTA
* * * * *
9395 TTTGAAATAAAATAATAATAATTTATTAATCTTTCAAAAATTAATAAGAGATTTAAAAAATGAAT
65 TTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAAAAAGAGATTTAAAAAATAAAT
* * * *
9460 ATGTTTACTGAATCC-GTTCAAATAGTTATGACTATTTGAACAATTCTA
130 TTGTTTA-TCAAACCAGTTCAAATAGTTATGACTATTTGAACAATTATA
* * * * ** *
9508 TACTTCAAATCATTATAACATTTTGTTATGTCATAAAACAATTACTTCTATTCATACAAGCTTAT
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTATTCATACAAGCTTAT
* * * * * *
9573 TCAAAATAAAACAATACTAATCTAATAATATTCCAAAAATTAATAACTAAGGGATTTAAAAAATA
66 TCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATT-A-AA--AAGAGATTTAAAAAATA
* ** * * ** * * *
9638 AATTTGTTTGTTGAACCAATTCAAATATTTAAAACTATATGAAAAATTATC
127 AATTTGTTTATCAAACCAGTTCAAATAGTTATGACTATTTGAACAATTATA
* * * * ** *
9689 TATTTCAAATCGTTATGACCTTTTATCTTGCCATAAAACAATT-TTCTCAATTCATACTAGCTTA
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTT-TTTATTCATACAAGCTTA
* * *
9753 TTCAAAATAAAATAA-AATGAATTTATTAATATTTCAAAAAATAATAAGTAAGAGATTTAAAAAA
65 TTCGAAATAAAATAATACT-AATTTATTAATATTTC-AAAAAT--TAA-AAAGAGATTTAAAAAA
* * * * * *
9817 T-AATTTTTTTACCTAACCAGTTCAAAAAATTAT-ACTACTTGAACAATTATA
125 TAAATTTGTTTATCAAACCAGTTCAAATAGTTATGACTATTTGAACAATTATA
* * * * * * *
9868 TATTTCAAATCATTATTACTTTTTGTTTTGTCATACAACAAATGTTTTTGTTCATATAAGTTTAT
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTATTCATACAAGCTTAT
* * * * * * *
9933 TCGGAATAAAGTAATACTAATCTATTAATATTTCAAAAATTAAAAAGTGATTTAGACAATAAATC
66 TCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAAAAAGAGATTTAAAAAATAAATT
* * * *
9998 TATGTATCAAACTAGTTCAAATAGTTATGACTATTTGAACAATTATT
131 TGTTTATCAAACCAGTTCAAATAGTTATGACTATTTGAACAATTATA
* ** *
10045 TATTTCAAATCATTATGACTTTTTGTTTTGTTGTAAAACAATTGTTTCTATTCATACAAGCTTAT
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTATTCATACAAGCTTAT
* * * ** * * *
10110 TTGCATTAAAATAATACTAATTTATTAATATTTTGACAATTAGTAAGTAA-AAATTTTTAAAAAT
66 TCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTA--AA--AAGAGA-TTTAAAAAAT
* * * * * * * * * *
10174 --A--TGTTTACCACACTAGATCATATAATCATGACAATTTGAATAATTATC
126 AAATTTGTTTATCAAACCAGTTCAAATAGTTATGACTATTTGAACAATTATA
* * * * * *
10222 TATTTCAAATCGTTATGACCTTTTGATTTGTCATAAAAGAGTTG-TTTCAGTTCATATAA-CTTA
1 TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTA-TTCATACAAGCTTA
* * *
10285 TTCAAAATAAAATAATACTAATTTATTAATAATCCAAAAATTAATGATAAAGAGATTTAAAAAAT
65 TTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATT-A--A-AAAGAGATTTAAAAAAT
* * * * * * * * *
10350 GACTTTGTTTA-CTAAACAAATTTAAATAATTAGGAC-AGTTTGAATAATTATC
126 AAATTTGTTTATC-AAACCAGTTCAAATAGTTATGACTA-TTTGAACAATTATA
* * * *
10402 TATTTGAAAT-AGCTATAACCTTTTGTTTTGTCATAAAAGAATT-TTTTCTATTCAT-CTAAGCT
1 TATTTCAAATCA-TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTT-TATTCATAC-AAGCT
* *
10464 TATTTCG-AATAAAATAATACAAATTTATTAATA-TT-AAGACAATTAATAAGTAAAAGATTT-A
63 TA-TTCGAAATAAAATAATACTAATTTATTAATATTTCAA-A-AATT-A-AA--AAGAGATTTAA
* * * * * * *
10525 AAAATAAATCTGTTTA-CTAAACAAGTTCTAATCA-TTATGGCTATTTGAGCAGTTATT
121 AAAATAAATTTGTTTATC-AAACCAGTTCAAAT-AGTTATGACTATTTGAACAATTATA
10582 TATTTCAA
1 TATTTCAA
10590 CATGTTATGA
Statistics
Matches: 849, Mismatches: 190, Indels: 83
0.76 0.17 0.07
Matches are distributed among these distances:
175 13 0.02
176 84 0.10
177 271 0.32
178 8 0.01
179 97 0.11
180 168 0.20
181 196 0.23
182 10 0.01
183 1 0.00
184 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (177 bp):
TATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTTTATTCATACAAGCTTAT
TCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAAAAAGAGATTTAAAAAATAAATT
TGTTTATCAAACCAGTTCAAATAGTTATGACTATTTGAACAATTATA
Found at i:11158 original size:16 final size:16
Alignment explanation
Indices: 11137--11170 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
11127 TCTATTATTA
11137 TTATATTAATT-TAAAT
1 TTATATT-ATTATAAAT
11153 TTATATTATTATAAAT
1 TTATATTATTATAAAT
11169 TT
1 TT
11171 TTTAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATATTATTATAAAT
Found at i:11159 original size:24 final size:23
Alignment explanation
Indices: 11132--11211 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
11122 CTATCTCTAT
11132 TATTATTATATTAATTTAAATTTA
1 TATTATTA-ATTAATTTAAATTTA
*
11156 TATTATT-ATAAATTT---TTTAA
1 TATTATTAATTAATTTAAATTT-A
11176 TATT-TTAATTAA-TTAATATTTA
1 TATTATTAATTAATTTAA-ATTTA
11198 TTATTATTAATTAA
1 -TATTATTAATTAA
11212 AATAATAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
19 7 0.15
20 9 0.20
22 8 0.17
23 7 0.15
24 15 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTATTAATTAATTTAAATTTA
Found at i:11206 original size:16 final size:16
Alignment explanation
Indices: 11107--11208 Score: 51
Period size: 16 Copynumber: 6.6 Consensus size: 16
11097 AAATGTCTTA
11107 TATTATTAATATTTACT
1 TATTATTAATATTTA-T
* *
11124 ATCTCTATTATTATTATAT
1 -TAT-TATTAATATT-TAT
*
11143 TAAT-TTAA-ATTTA-
1 TATTATTAATATTTAT
*
11156 TATTATT-ATA--AAT
1 TATTATTAATATTTAT
11169 T-TT-TTAATATTT-T
1 TATTATTAATATTTAT
*
11182 AATTAATTAATATTTAT
1 TATT-ATTAATATTTAT
11199 TATTATTAAT
1 TATTATTAAT
11209 TAAAATAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 26
0.63 0.10 0.27
Matches are distributed among these distances:
11 2 0.03
12 6 0.10
13 6 0.10
14 7 0.11
15 3 0.05
16 18 0.29
17 5 0.08
18 3 0.05
19 10 0.16
20 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTAATATTTAT
Found at i:12488 original size:182 final size:179
Alignment explanation
Indices: 11256--12488 Score: 817
Period size: 182 Copynumber: 6.9 Consensus size: 179
11246 TTACCTAATC
* * * *
11256 AGTTTAAATAATTATGACTATTTGAATAATTA-CATATTTCAAATCATTATTACTTTTTGTTTTG
1 AGTTCAAATAGTTATGACTATTTGAATAATTATC-TATTTCAAATCATTATAACATTTTGTTTTG
* *** * *** * *
11320 TCATAAAACAAATGGTTTTGTTCATATAAGTTTATTAGGAATAAAGTAATACTAATCTATTAATA
65 TCATAAAAC-AATTGTTCAATTCATATAAGCTTATTTCAAATAAAATAATA-TAATTTATTAATA
* * * * * *
11385 TTTCACAAATTAAAAAGT----GACTT-AAAAAATAAATCTATTTATCAAACT
128 TTCCA-AAATTAATAAGTAAAAGATTTAAAAAAATAAATCTGTTTATCGAACA
* * ** * * *
11433 TGTTCAAATAGTTATGACTGTTTGAGCAATTATTTATTTCAAATCTTTATGACATTTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGT
* * * ** * *
11498 TATAAAACAATTGTTTCTATTCATACAAGCTTATTTGGATTAAAATCATACTAATTTTATTAATA
66 CATAAAACAATTG-TTCAATTCATATAAGCTTATTTCAAATAAAATAATA-TAA-TTTATTAATA
** * * * *
11563 TTTTGACAATTAATAAGTTAAAA-ATTT-TAGAAATAAATATGTTTA-C---C-
128 -TTCCAAAATTAATAAG-TAAAAGATTTAAAAAAATAAATCTGTTTATCGAACA
* * * * * * * *
11610 ---T-AGAGAGTCATGACTATTTGAATAGTTATCTGTTTCAAATCGTTATGACCTTTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGT
* * * * ** **
11671 CATAAAA-AATTTATTTCAGTTCATAAAAGGTTATTGGAAATAAAATAATACCATGTTATTAATA
66 CATAAAACAA-TT-GTTCAATTCATATAAGCTTATTTCAAATAAAATAATATAAT-TTATTAATA
* * * * * *
11735 TTCTAAAAATTAATAATTAAGAGATTT-AAAAAATGAATCTATTTACCGAACA
128 TTC-CAAAATTAATAAGTAAAAGATTTAAAAAAATAAATCTGTTTATCGAACA
* * * * ** *** * *
11787 AGTTTAAATAATTAT-AGCCATTTGAACAATTAT-TGATTTGGAATTGCTATAACCTTTTGGTTT
1 AGTTCAAATAGTTATGA-CTATTTGAATAATTATCT-ATTTCAAATCATTATAACATTTTGTTTT
* ** * *** * *
11850 GTCATATAATGATTTTATTTGTTCATATAAGCTTACTTCGAAA-AGAAA-AATACAAATTTATTA
64 GTCATAAAACAATTGT-TCAATTCATATAAGCTTATTTC-AAATA-AAATAATA-TAATTTATTA
* *
11913 ATATT-AAGACAATTAATAAGTAAAAGATTT-AAAAAATAAATCTATTTATCGAACA
125 ATATTCCA-A-AATTAATAAGTAAAAGATTTAAAAAAATAAATCTGTTTATCGAACA
* * * * *
11968 AATTTAAAT-GTTATGACTATTTGAATAATTATTTATTTCAAATTC-TTATGACTTTTTTGTTTT
1 AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAA-TCATTATAAC-ATTTTGTTTT
* * * * * * * *
12031 TTCATAAAATAATTGTTCCATCCATATGAGCTTA-TTCGGATTAAAATAATATTGATTTATTAAT
64 GTCATAAAACAATTGTTCAATTCATATAAGCTTATTTC-AAATAAAATAATA-TAATTTATTAAT
* * *
12095 ATTTCAACAATTAATAAGTAAAAGATTTATAAAAAAT-AA---GTTTACCAAACA
127 ATTCCAA-AATTAATAAGTAAAAGATTTA-AAAAAATAAATCTGTTTATCGAACA
* * *
12146 AGTTCAAATAGTCATGACTATTTGAATAATTATCTACTTCAAATCATTGTAACATTTTGTTTTGT
1 AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGT
* * * * *
12211 AATAAAACAATTATTTCAATTCATGTTAGCTTATTTGAAATAAAATAATACTAATTTATTAATAT
66 CATAAAACAATT-GTTCAATTCATATAAGCTTATTTCAAATAAAATAATA-TAATTTATTAATAT
* * * *
12276 TCCAAAATTTAAAAAGTAAGAA-AATTAAAAAAATAAATCTGTTTATTGAATA
129 TCCAAAA-TTAATAAGTAA-AAGATTTAAAAAAATAAATCTGTTTATCGAACA
* * * **
12328 AGTCCAAATAGTTATGACTATCTT-AATAATTATCTATTTCAAAACATTACAACCCTTTGTTTTG
1 AGTTCAAATAGTTATGACTAT-TTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTG
*
12392 TCATAAAACAATTGGTTCTATTCAT-TCAAGCTTATTTCAAATAAAATAATATAAATTTATTAAT
65 TCATAAAACAATT-GTTCAATTCATAT-AAGCTTATTTCAAATAAAATAATAT-AATTTATTAAT
* *
12456 GTTCCAAAACTTAATAAGTAAAAGTTTTAAAAA
127 ATTCCAAAA-TTAATAAGTAAAAGATTTAAAAA
12489 TAAATTTATT
Statistics
Matches: 834, Mismatches: 167, Indels: 105
0.75 0.15 0.09
Matches are distributed among these distances:
171 7 0.01
172 39 0.05
173 86 0.10
174 1 0.00
176 5 0.01
177 93 0.11
178 66 0.08
179 109 0.13
180 92 0.11
181 161 0.19
182 173 0.21
183 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (179 bp):
AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGT
CATAAAACAATTGTTCAATTCATATAAGCTTATTTCAAATAAAATAATATAATTTATTAATATTC
CAAAATTAATAAGTAAAAGATTTAAAAAAATAAATCTGTTTATCGAACA
Found at i:12490 original size:540 final size:532
Alignment explanation
Indices: 11261--12500 Score: 1246
Period size: 540 Copynumber: 2.3 Consensus size: 532
11251 TAATCAGTTT
* *
11261 AAATAATTATGACTATTTGAATAATTA-CATATTTCAAATCATTATTACTTTTTGTTTTGTCATA
1 AAATAATTATGACTATTTGAATAATTATC-TATTTCAAATCATTATAACCTTTTGTTTTGTCATA
* * *** * *
11325 AAACAAATGGTTTTGTTCATATAAGTTTATTAGGAATAAAGTAATACT-AATCTATTAATATTTC
65 AAACAATTGGTTTTGTTCATATAAGCTTATTTCAAATAAAATAATA-TAAATTTATTAATA-TTC
* * * ***
11389 ACAAATTAAAAAGT--GA-CTTAAAAAATAAATCTATTTATCAAACTTGTTCAAATAGTTATGAC
128 A-AAATTAATAAGTAAAAGTTTAAAAAATAAATCTATTTATCAAACAAATTCAAATAGTTATGAC
* * *
11451 TGTTTGAGCAATTATTTATTTCAAATCTTTATGACATTTTGTTTTGTTATAAAACAATTGTTTCT
192 TATTTGAACAATTATTTATTTCAAATCTTTATGACATTTTGTTTTGTTATAAAACAATTGTTTCC
* * * **
11516 ATTCATACAAGCTTATTTGGATTAAAATCATACTAATTTTATTAATATTTTGACAATTAATAAGT
257 ATCCATACAAGCTTATTCGGATTAAAATAATACTAATTTTATTAATATTTCAACAATTAATAAGT
* * * **
11581 TAAAAATTTTAGAAATAAATATGTTTACCTAGAGAGTCATGACTATTTGAATAGTTATCTGTTTC
322 TAAAAATTTTAGAAATAAATAAGTTTACCTAAAGAGTCATGACTATTTGAATAATTATCTACTTC
* * * * * *
11646 AAATCGTTATGACCTTTTGTTTTGTCATAAAAAATTTATTTCAGTTCATAAAAGGTTATTGGAAA
387 AAATCATTATAACATTTTGTTTTGTAATAAAAAATTTATTTCAATTCATAAAAGCTTATTGGAAA
* * * * * * *
11711 TAAAATAATACCATGTTATTAATATTCTAAAAATTAATAATTAAGAGATTTAAAAAATGAATCTA
452 TAAAATAATACAATGTTATTAATATTCCAAAAATTAAAAAGTAAGAAATTAAAAAAATAAATCTA
**
11776 TTTACCGAACAAGTTT
517 TTTACCGAACAAGTCC
* * ** *** *
11792 AAATAATTAT-AGCCATTTGAACAATTAT-TGATTTGGAATTGCTATAACCTTTTGGTTTGTCAT
1 AAATAATTATGA-CTATTTGAATAATTATCT-ATTTCAAATCATTATAACCTTTTGTTTTGTCAT
* ** * * *
11855 ATAATGATT-TTATTTGTTCATATAAGCTTACTTCGAAA-AGAAA-AATACAAATTTATTAATAT
64 AAAACAATTGGT-TTTGTTCATATAAGCTTATTTC-AAATA-AAATAATATAAATTTATTAATAT
* * *
11917 TAAGACAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTATCGAACAAATTTAAAT-GTTA
126 TCA-A-AATTAATAAGTAAAAG-TTTAAAAAATAAATCTATTTATCAAACAAATTCAAATAGTTA
* * *
11981 TGACTATTTGAATAATTATTTATTTCAAAT-TCTTATGACTTTTTTGTTTT-TTCATAAAATAAT
188 TGACTATTTGAACAATTATTTATTTCAAATCT-TTATGAC-ATTTTGTTTTGTT-ATAAAACAAT
** * *
12044 TG-TTCCATCCATATGAGCTTATTCGGATTAAAATAATATTGA-TTTATTAATATTTCAACAATT
250 TGTTTCCATCCATACAAGCTTATTCGGATTAAAATAATACTAATTTTATTAATATTTCAACAATT
* *
12107 AATAAG-TAAAAGA-TTTATAAA-AAATAAGTTTACCAAACAAGTTCAAATAGTCATGACTATTT
315 AATAAGTTAAAA-ATTTTAGAAATAAATAAGTTTA-C---C----T-AAAGAGTCATGACTATTT
*
12169 GAATAATTATCTACTTCAAATCATTGTAACATTTTGTTTTGTAATAAAACAA-TTATTTCAATTC
370 GAATAATTATCTACTTCAAATCATTATAACATTTTGTTTTGTAATAAAA-AATTTATTTCAATTC
*** * *
12233 ATGTTAGCTTATTTGAAATAAAATAATACTAAT-TTATTAATATTCCAAAATTTAAAAAGTAAGA
434 ATAAAAGCTTATTGGAAATAAAATAATAC-AATGTTATTAATATTCCAAAAATTAAAAAGTAAG-
* ** *
12297 AAATTAAAAAAATAAATCTGTTTATTGAATAAGTCC
497 AAATTAAAAAAATAAATCTATTTACCGAACAAGTCC
* * * *
12333 AAATAGTTATGACTATCTT-AATAATTATCTATTTCAAAACATTACAACCCTTTGTTTTGTCATA
1 AAATAATTATGACTAT-TTGAATAATTATCTATTTCAAATCATTATAACCTTTTGTTTTGTCATA
* * *
12397 AAACAATTGGTTCTATTCAT-TCAAGCTTATTTCAAATAAAATAATATAAATTTATTAATGTTCC
65 AAACAATTGGTTTTGTTCATAT-AAGCTTATTTCAAATAAAATAATATAAATTTATTAATATT-C
* *
12461 AAAACTTAATAAGTAAAAGTTTTAAAAATAAATTTATTTA
128 AAAA-TTAATAAGTAAAAGTTTAAAAAATAAATCTATTTA
12501 AAAATTAATG
Statistics
Matches: 568, Mismatches: 104, Indels: 65
0.77 0.14 0.09
Matches are distributed among these distances:
530 7 0.01
531 107 0.19
532 17 0.03
533 28 0.05
534 72 0.13
535 52 0.09
539 1 0.00
540 146 0.26
541 132 0.23
542 6 0.01
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (532 bp):
AAATAATTATGACTATTTGAATAATTATCTATTTCAAATCATTATAACCTTTTGTTTTGTCATAA
AACAATTGGTTTTGTTCATATAAGCTTATTTCAAATAAAATAATATAAATTTATTAATATTCAAA
ATTAATAAGTAAAAGTTTAAAAAATAAATCTATTTATCAAACAAATTCAAATAGTTATGACTATT
TGAACAATTATTTATTTCAAATCTTTATGACATTTTGTTTTGTTATAAAACAATTGTTTCCATCC
ATACAAGCTTATTCGGATTAAAATAATACTAATTTTATTAATATTTCAACAATTAATAAGTTAAA
AATTTTAGAAATAAATAAGTTTACCTAAAGAGTCATGACTATTTGAATAATTATCTACTTCAAAT
CATTATAACATTTTGTTTTGTAATAAAAAATTTATTTCAATTCATAAAAGCTTATTGGAAATAAA
ATAATACAATGTTATTAATATTCCAAAAATTAAAAAGTAAGAAATTAAAAAAATAAATCTATTTA
CCGAACAAGTCC
Found at i:13053 original size:179 final size:177
Alignment explanation
Indices: 12543--13382 Score: 712
Period size: 180 Copynumber: 4.7 Consensus size: 177
12533 TAATACAAAA
* * * * *
12543 TTATTCAGAATAAAATAATACCATTTTATTACTATTTTGAAAA-T-TAA-TAAGAGATTTAAAAA
1 TTATTCAAAATAAAATAATACTAATTTATTAATA-TTTAAAAATTATAAGTAAGAGATTTAAAAA
* * * * *
12605 CTAAATCTCTTTA-CAGAA-CCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATCTCCAA
65 -TAAATCTATTTATCA-AATCAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAA
* * * * * * * *
12668 TTGTTATGA-TTTTTGTTTTGTCCTAAAACATTTAATTTCTATTCA-AAAAGC
128 TCGTTATGACCTTTTG-TTTATCATAAAATAATT-GTTTC-AATCATAAAAGC
* * * * * * *
12719 TTATTCAGAGTAAAATATTGCTAAATTAATAATATTCTAAACATTAGTAAGTAAG-GATTTAAAA
1 TTATTCAAAATAAAATAATACTAATTTATTAATATT-TAAAAATTA-TAAGTAAGAGATTT-AAA
* * * * * * * * *
12783 AATAAATGTGTTT-GCTGAATC-AGTTTAAATAGTTAAGAGTATTAGAACAATTATCTATTTCAA
63 AATAAATCTATTTATC-AAATCAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAA
* * * *
12846 ATCGTTTTGACCTTTTGTTTAGTCATAAAATAATTGCTTCAACTCATACATGC
127 ATCGTTATGACCTTTTGTTTA-TCATAAAATAATTGTTTCAA-TCATAAAAGC
* *
12899 TTATTCAAAATAAAATAATACTAATTTATTAACATTTAGAAAATTATTAAGTAAGA-AATTAGAA
1 TTATTCAAAATAAAATAATACTAATTTATTAATATTTA-AAAATTA-TAAGTAAGAGATTTA-AA
* * * *
12963 AA-AAATCTATTTACCAAA-CAAGTTCAAATATTTTTGACTATTTGAACAATTATCTATTTAAAA
63 AATAAATCTATTTATCAAATCAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAA
*
13026 TCGTTATGACCTTATAT-TTTATCATAAAACAATTGTTTCAATTCATAAAAGC
128 TCGTTATGACCTT-T-TGTTTATCATAAAATAATTGTTTCAA-TCATAAAAGC
* * * **
13078 TTA-TCTAAAATAAAATAATATTACTTTATTAATATTATAAAAGTTGATAAGTTTGAGATTTAAA
1 TTATTC-AAAATAAAATAATACTAATTTATTAATATT-TAAAAATT-ATAAGTAAGAGATTTAAA
* *
13142 ACATAAATC-AGTTTATCAAATCAA-TTCAAATAATTATG-GTCATTTAAACAATTATCTATTTC
63 A-ATAAATCTA-TTTATCAAATCAAGTTCAAATAATTATGACT-ATTTGAACAATTATCTATTTC
* * * *
13204 AAATCATTATGAACTTTTGTTTGTCATAAAATAATTGTTTTTC-ATCATATAAGC
125 AAATCGTTATGACCTTTTGTTTATCATAAAATAATTG--TTTCAATCATAAAAGC
* * *
13258 CTATTCAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAGGAGATTTAAAA
1 TTATTCAAAATAAAATAATACTAATTTATTAATATTT-AAAAATT-ATAAGTAAGAGATTT-AAA
* * * *
13323 AATAAATCTGTTTATCAAATC-AGTTCAAATAGTTATGACTATTTGAACTATTATATATTT
63 AATAAATCTATTTATCAAATCAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTT
13383 TCAATCATTA
Statistics
Matches: 536, Mismatches: 90, Indels: 72
0.77 0.13 0.10
Matches are distributed among these distances:
175 2 0.00
176 30 0.06
177 1 0.00
178 4 0.01
179 208 0.39
180 217 0.40
181 67 0.12
182 7 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (177 bp):
TTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAATTATAAGTAAGAGATTTAAAAAT
AAATCTATTTATCAAATCAAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCG
TTATGACCTTTTGTTTATCATAAAATAATTGTTTCAATCATAAAAGC
Found at i:13638 original size:10 final size:10
Alignment explanation
Indices: 13611--13698 Score: 54
Period size: 10 Copynumber: 8.2 Consensus size: 10
13601 AATCAAACAA
13611 TATATAAATAT
1 TATATAAAT-T
13622 TAT-TAAATT
1 TATATAAATT
13631 TATATAAATT
1 TATATAAATT
* **
13641 TAAAGCAATT
1 TATATAAATT
13651 TATATAATTCTATT
1 TATATAA----ATT
13665 TATATAAATT
1 TATATAAATT
*
13675 TAATTTAAAATT
1 T-ATAT-AAATT
13687 TA-ATAATATT
1 TATATAA-ATT
13697 TA
1 TA
13699 ATATTAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
9 6 0.10
10 32 0.52
11 7 0.11
12 6 0.10
14 10 0.16
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (10 bp):
TATATAAATT
Found at i:13697 original size:22 final size:23
Alignment explanation
Indices: 13662--13705 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
13652 ATATAATTCT
13662 ATTTATATAAATTTAAT-TTAAA
1 ATTTATATAAATTTAATATTAAA
13684 ATTTA-ATAATATTTAATATTAA
1 ATTTATATAA-ATTTAATATTAA
13706 TAATAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTATATAAATTTAATATTAAA
Found at i:14352 original size:180 final size:179
Alignment explanation
Indices: 14018--16410 Score: 1128
Period size: 181 Copynumber: 13.6 Consensus size: 179
14008 TCATTTTGAT
* * * * * *
14018 CTTTTATTTTGTCATATAATAATTCTTTTAGTTTATACAAGCTTATTCGAAATAAAATAATATTA
1 CTTTTGTTTTGTCATAAAACAATTGTTTTA-TTTATACAAGCTTATTCAAAATAAAATAATACTA
* * * * *
14083 ATTTATTAACA-TTCAAAAAATTAATAAGTAAGAGATTTGAAAAGATAAATTTA-TTACCAAAAA
65 ATTTATTAATATTTC-AAAAATTAATAAGTAAGAGATTT-AAAAAATAAATCTATTTACTAAAAC
* *
14146 AGTTCAAATAATTATGACTATTTGAACAGTTATCTATTTAAAATCTCTATTAC
128 AGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCT-TATTAC
* * * * * *
14199 CTTTTGTTTTGTCATAAAATAATTATTTTATTTTGTAAAAGTTTATCCAAAATAAAATAATA-TA
1 CTTTTGTTTTGTCATAAAACAATTGTTTTA-TTTATACAAGCTTATTCAAAATAAAATAATACTA
* * * * *
14263 CTTTATTAATATTTCAAAAATTAATAAGTAAGATATTTAAAAAATAAATCAATTTGCTAAATCAG
65 ATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACTAAAACAG
** * *
14328 TTTGAATAATTATGACCATTTGAACAACTATCTATTTCAAATCGTTATTAC
130 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATC-TTATTAC
* * * * * *
14379 CTTGTGTTTTGTCATAAAACATTTGTTTTCA-ATATACAAGTTTATTCGAAATAAAATAATAGTA
1 CTTTTGTTTTGTCATAAAACAATTGTTTT-ATTTATACAAGCTTATTCAAAATAAAATAATACTA
* * * * *
14443 ATTTATTAATATTTCAAGAA-T--TAA-TAAGAGATTTAAAAAATAAATTTCTTTACTGAACCAG
65 ATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACTAAAACAG
* *
14504 TTCAAATAGA-TATAACTATTTGAACAATTATCTATTTCAAAT-TGTTTTAAC
130 TTCAAATA-ATTATGACTATTTGAACAATTATCTATTTCAAATCT-TATT-AC
* * * * * * *
14555 CTTTTGTTATATCACAAAACAATTGTTTCAATTCATACAAGCTTATTCAGATTAAAATAATACTA
1 CTTTTGTTTTGTCATAAAACAATTGTTT-TATTTATACAAGCTTATTCAAAATAAAATAATACTA
* * ** * ** * * *
14620 ATTTAGTAAAATTTTGAAAATTAATAACTAAGAGATTTAAAAAATAAATCCGTTTGTCGAATA-A
65 ATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTT-ACTAAAACA
* * * * * * * * * *
14684 GTTGAAATAGTTAAGACTATATGAATAATGATTTATTTCAAATTGTTATGAG
129 GTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAA-TCTTATTAC
* * * * * * * *
14736 CTTTTATTTTGTCATAAAA-ATATTATTTTAGCTCATACAAGTTTATTCAGGAA-AGAATAAAAC
1 CTTTTGTTTTGTCATAAAACA-ATTGTTTTA-TTTATACAAGCTTATTCA-AAATAAAATAATAC
* * * *
14799 TAATTTATTAATATTTCAAAAATT--T-A-TAAGAGATTTAGAAAATAATTCTATTTA-TCGAAC
63 TAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACT-AAAA
* * *
14859 CAGTTGAAATAATTATAACTATTT---C-A--A---A--TC--A--TTATGAC
127 CAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCTTATTAC
* * * * * * * ** *
14897 CATTTCTTTTGTAATAAAACAATCGTTTCAGTTCATA-TAGACTTATTTGAAGTAAAATAATACT
1 CTTTTGTTTTGTCATAAAACAATTGTTTTA-TTTATACAAG-CTTATTCAAAATAAAATAATACT
* * * * *
14961 AATTTA-T-A-A--T---AAA-TGAGAA-T--GAGAATT-AAAAA-AAATCTA-TCAC-AAAAAA
64 AATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACTAAAACA
* ** ** * ** * *
15010 GAATC-TTTTGTTATGATTATCCGAACAATTATCTATTTCAAAACATTATGAC
129 G-TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATC-TTATTAC
* * * * * *
15062 CTTTTGTTTTGTCATAAAATAATTGGTTCTAATCATGCAAGCTTATTTC-GAATAAAATAATA-T
1 CTTTTGTTTTGTCATAAAACAATT-GTTTTATTTATACAAGCTTA-TTCAAAATAAAATAATACT
* * * * * * *
15125 AAATTTATTAATA-TTCTAGAAATTAAAAAGTAA-AAATTTAAAAAATAAATATGTTTTCT-GAA
64 -AATTTATTAATATTTC-AAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACTAAAA
* * * * *
15187 CATGTTCAAATAGTTATAACTATATGAATAATTATCTATTTCAAATCGTTATGAC
127 CA-GTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATC-TTATTAC
* * * ***
15242 CTTTTGTTTTGTTAT-AAACTAATTG-TTTATGTTCATATAATCTTATTTGGAATAAAATAATAC
1 CTTTTGTTTTGTCATAAAAC-AATTGTTTTAT-TT-ATACAAGCTTATTCAAAATAAAATAATAC
* * * * * **
15305 TAATTTATT--TATTCCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATATGTTTAAC-GAGT
63 TAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTT-ACTAAAA
* * * * *
15367 GAGTTCAAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGAT
127 CAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAA-TCTTATTAC
* * * * ** * * *
15421 ATTTTGTTTGGTCATAAAATAATTGTTTCTATTCATACAATTTTATTTAGAATAGAATAATACTA
1 CTTTTGTTTTGTCATAAAACAATTGTTT-TATTTATACAAGCTTATTCAAAATAAAATAATACTA
15486 ATTTATTAATA-TT-ATAAAA-T--TAA-T--GAG--TT------TAAA---ATTTACT-AAACA
65 ATTTATTAATATTTCA-AAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACTAAAAC-
* * * * *
15531 AGTTCAAATACTTATGTCTATTTGAACTATTATCTATTTCAAATTGTTATGAC
128 AGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAA-TCTTATTAC
* * * * ** *
15584 ATTTTGTTTTGTCGTAAAATAATTATTTT-TGTTCATACAAAATTATTCAGAATAAAATAATACT
1 CTTTTGTTTTGTCATAAAACAATTGTTTTAT-TT-ATACAAGCTTATTCAAAATAAAATAATACT
* * ** * ** *
15648 AATTTATTGATATTTCAAAAATTAATAAG---G-TATTTAAAAGCTAAATCTGTTTA-TCGATCT
64 AATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACTAAAAC-
* * * * * * * * *
15708 AGTTTTATATAGTTATAAATATATGAATAATTATTTATTTCAAATCGTTATGAC
128 AG-TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATC-TTATTAC
* * * * * * * * * * *
15762 CTTTTGTTTTGTCGTAAAACAAATGTTTTGTTCATATAAGTTTGTTTAGAATATAATAATATTAA
1 CTTTTGTTTTGTCATAAAACAATTGTTTTATTTATACAAGCTTATTCAAAATAAAATAATACTAA
** * * * *
15827 TTTATTAATATTTTGAAAA-T--CAA-TAAGAGATTTGAAAAATAAATCTACTTAC-CAAACTAG
66 TTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACTAAAAC-AG
* * * * *
15887 TTCAATTAGTTATAACAATTTGAACAATTAT-TCATTTCAAATCATTATGAC
130 TTCAAATAATTATGACTATTTGAACAATTATCT-ATTTCAAATC-TTATTAC
* * * * * * *
15938 CATTTGTTTTGTCATCAAACAATTGTTTCTATTGATA-TAGTCTTATTTAGAATAAAATAATGCT
1 CTTTTGTTTTGTCATAAAACAATTGTTT-TATTTATACAAG-CTTATTCAAAATAAAATAATACT
** * * * ** *
16002 AATTTATTAATA-TTCTAAAAATTAATGTGTAATG-GATTTAAAAAAT-GATTTGGTTGGCCT-G
64 AATTTATTAATATTTC-AAAAATTAATAAGTAA-GAGATTTAAAAAATAAATCT-ATT-TACTAA
* * * * * * * *
16063 ACCAATGCAAATAGTTATGACTATTTGAATAATTATCTATTTTAAATTGTTATAAC
125 AACAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAA-TCTTATTAC
* * * * * * * * **
16119 CCTTTATTTTGTCACAAAAAAATTATTTT-TGTTCATACAAGCTTACT-AGGAATAACATAATTT
1 CTTTTGTTTTGTCATAAAACAATTGTTTTAT-TT-ATACAAGCTTATTCA-AAATAAAATAATAC
* * * * * * * *
16182 TAATTTATTAATATTCCAAAAATTAATGAGTAAGAGATCTAAAAACTGAATCTGTTTATCGAATA
63 TAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTA-CTAAAA
* * * * * *
16247 -AGTTCAAATAGTTATGACTATTTCAACAGTTACCTATATCAAAT-TGCTATAAC
127 CAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCT--TATTAC
* ** * * * * *
16300 CTTTTGTTTTATCATAAAA-TTTTTTTTCCTATTCATACAAGCTCATTTC-AATTAAAATAATAA
1 CTTTTGTTTTGTCATAAAACAATTGTTT--TATTTATACAAGCTTA-TTCAAAATAAAATAATAC
* * * *
16363 AAATTTATT-ATA-TTCAGATAATTAATAAGTAAAAGATTTACAAAATAA
63 TAATTTATTAATATTTCA-AAAATTAATAAGTAAGAGATTTAAAAAATAA
16411 CTTTGATTAC
Statistics
Matches: 1690, Mismatches: 376, Indels: 293
0.72 0.16 0.12
Matches are distributed among these distances:
149 13 0.01
150 3 0.00
151 6 0.00
152 6 0.00
153 10 0.01
155 3 0.00
156 1 0.00
158 2 0.00
159 1 0.00
160 6 0.00
161 55 0.03
162 7 0.00
163 113 0.07
164 8 0.00
165 53 0.03
166 15 0.01
167 5 0.00
168 4 0.00
169 1 0.00
171 1 0.00
172 2 0.00
173 4 0.00
174 13 0.01
175 5 0.00
176 169 0.10
177 208 0.12
178 91 0.05
179 178 0.11
180 273 0.16
181 409 0.24
182 23 0.01
183 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (179 bp):
CTTTTGTTTTGTCATAAAACAATTGTTTTATTTATACAAGCTTATTCAAAATAAAATAATACTAA
TTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTATTTACTAAAACAGT
TCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCTTATTAC
Found at i:15554 original size:163 final size:163
Alignment explanation
Indices: 15368--15661 Score: 453
Period size: 163 Copynumber: 1.8 Consensus size: 163
15358 TTAACGAGTG
* *
15368 AGTTCAAATAATTATGACTATTTGAACAATTATTTATTTCAAATTGTTATGATATTTTGTTTGGT
1 AGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACATTTTGTTTGGT
* ** * *
15433 CATAAAATAATTGTTTCTATTCATACAATTTTATTTAGAATAGAATAATACTAATTTATTAATAT
66 CATAAAATAATTATTTCTATTCATACAAAATTATTCAGAATAAAATAATACTAATTTATTAATAT
15498 TATAAAATTAATGAGTTTAAAATTTACTAAACA
131 TATAAAATTAATGAGTTTAAAATTTACTAAACA
* * * *
15531 AGTTCAAATACTTATGTCTATTTGAACTATTATCTATTTCAAATTGTTATGACATTTTGTTTTGT
1 AGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACATTTTGTTTGGT
* * * *
15596 CGTAAAATAATTATTTTTGTTCATACAAAATTATTCAGAATAAAATAATACTAATTTATTGATAT
66 CATAAAATAATTATTTCTATTCATACAAAATTATTCAGAATAAAATAATACTAATTTATTAATAT
15661 T
131 T
15662 TCAAAAATTA
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
163 116 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (163 bp):
AGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACATTTTGTTTGGT
CATAAAATAATTATTTCTATTCATACAAAATTATTCAGAATAAAATAATACTAATTTATTAATAT
TATAAAATTAATGAGTTTAAAATTTACTAAACA
Found at i:15620 original size:687 final size:682
Alignment explanation
Indices: 14349--15654 Score: 1475
Period size: 687 Copynumber: 1.9 Consensus size: 682
14339 ATGACCATTT
* * * * * *
14349 GAACAACTATCTATTTCAAATCGTTATTACCTTGTGTTTTGTCATAAAACATTTGTTTTCAATAT
1 GAACAACTATCTATTTCAAAACATTATGACCTTGTGTTTTGTCATAAAAAATTGGTTCTCAATAT
* * *
14414 ACAAGTTTATTCGAAATAAAATAATAGTAATTTATTAATATTTCAAGAATTAATAAGAGATTTAA
66 ACAAGCTTATTCGAAATAAAATAATAGTAATTTATTAATATTTCAAGAATTAAAAAGAAATTTAA
* *
14479 AAAATAAATTTCTTTACTGAACCAGTTCAAATAGATATAACTATTTGAACAATTATCTATTTCAA
131 AAAATAAATATCTTTACTGAACCAGTTCAAATAGATATAACTATATGAACAATTATCTATTTCAA
* * *
14544 ATTGTTTTAACCTTTTGTTATATCACAAAACAATTGTTTCAATTCATACAAGCTTATTCAGATTA
196 ATCGTTATAACCTTTTGTTATATCACAAAACAATTGTTTCAATTCATACAAGCTTATTCAGAATA
*** * *
14609 AAATAATACTAATTTAGTAAAATTTTGAAAATTAATAACTAAGAGATTTAAAAAATAAATCCGTT
261 AAATAATACTAATTTAGTAAAATTCCAAAAATTAATAACTAAAAGATTTAAAAAATAAATACGTT
** * * * *
14674 TGTCGAATAAGTTGAAATAGTTAAGACTATATGAATAATGATTTATTTCAAATTGTTATGAGCTT
326 TAACGAATAAGTTCAAATAATTAAGACTATATGAACAATGATTTATTTCAAATTGTTATGAGATT
*
14739 TTATTTTGTCATAAAAATATTATTTTAGCTCATACAAGTTTATTCAGGAAAGAATAAAACTAATT
391 TTATTTGGTCATAAAAATATTATTTTAGCTCATACAAGTTTATTCAGGAAAGAATAAAACTAATT
* * * *
14804 TATTAATATTTCAAAAATTTATAAGAGATTTAGAAAATAATTCTATTTATCGAACCAGTTGAAAT
456 TATTAATATTTAAAAAATTTATAAGAGATTTACAAAACAATTCTACTTATCGAACCAGTTGAAAT
*
14869 AATTATAACTATTTCAAATCATTATGACCATTTCTTTTGTAATAAAACAATCGTTTCAGTTCATA
521 AATTAT-ACTATTTCAAATCATTATGACCATTTCTTTTGTAATAAAACAATCATTTCAGTTCATA
* * * *
14934 TAGACTTATT-TGAAGTAAAATAATACTAATTTATAATAAATGAGAATGAGAATTAAAAAAAATC
585 CAAAATTATTCAGAA-TAAAATAATACTAATTTATAATAAATGAGAATGAGAATTAAAAAAAATC
14998 TATCACAAAAAAGAATCTTTTGTTATGATTATCC
649 TATCACAAAAAAGAATCTTTTGTTATGATTATCC
* *
15032 GAACAATTATCTATTTCAAAACATTATGACCTTTTGTTTTGTCATAAAATAATTGGTTCT-AATC
1 GAACAACTATCTATTTCAAAACATTATGACCTTGTGTTTTGTCATAAAA-AATTGGTTCTCAAT-
* *
15096 ATGCAAGCTTATTTCG-AATAAAATAATA-TAAATTTATTAATA-TTCTAGAAATTAAAAAGTAA
64 ATACAAGCTTA-TTCGAAATAAAATAATAGT-AATTTATTAATATTTCAAG-AATTAAAAAG---
* * * *
15158 AAATTTAAAAAATAAATATGTTTTCTGAA-CATGTTCAAATAGTTATAACTATATGAATAATTAT
123 AAATTTAAAAAATAAATATCTTTACTGAACCA-GTTCAAATAGATATAACTATATGAACAATTAT
* * * * * * * *
15222 CTATTTCAAATCGTTATGACCTTTTGTTTTGTTA-TAAACTAATTGTTT-ATGTTCATATAATCT
187 CTATTTCAAATCGTTATAACCTTTTGTTATATCACAAAAC-AATTGTTTCA-ATTCATACAAGCT
** ** *
15285 TATTTGGAATAAAATAATACTAATTTA-T-TTATTCCAAAAATTAATAAGTAAAAGATTTAAAAA
250 TATTCAGAATAAAATAATACTAATTTAGTAAAATTCCAAAAATTAATAACTAAAAGATTTAAAAA
* * * * * *
15348 ATAAATATGTTTAACGAGTGAGTTCAAATAATTATGACTATTTGAACAATTATTTATTTCAAATT
315 ATAAATACGTTTAACGAATAAGTTCAAATAATTAAGACTATATGAACAATGATTTATTTCAAATT
* * * * * *
15413 GTTATGATATTTTGTTTGGTCAT-AAAATAATTGTTTCTA-TTCATACAATTTTATTTA-GAATA
380 GTTATGAGATTTTATTTGGTCATAAAAAT-ATTATTT-TAGCTCATACAAGTTTATTCAGGAA-A
* *
15475 GAATAATACTAATTTATTAATATTATAAAATTAATGAGTT-TAA-A-ATTTACTAAACAAGTTCA
442 GAATAAAACTAATTTATTAATATT-TAAAA--AAT---TTATAAGAGATTTACAAAACAA-TTC-
* * * * ** * *
15537 AATACTTAT-G-TCTATTTGAACT-ATTAT-CTATTTCAAATTGTTATGA-CATTTTGTTTTGTC
499 --TACTTATCGAACCAGTTGAAATAATTATACTATTTCAAATCATTATGACCA-TTTCTTTTGTA
* * * **
15597 GTAAAATAATTATTTTTGTTCATACAAAATTATTCAGAATAAAATAATACTAATTTAT
561 ATAAAACAATCATTTCAGTTCATACAAAATTATTCAGAATAAAATAATACTAATTTAT
15655 TGATATTTCA
Statistics
Matches: 514, Mismatches: 83, Indels: 48
0.80 0.13 0.07
Matches are distributed among these distances:
683 53 0.10
684 57 0.11
685 149 0.29
686 16 0.03
687 194 0.38
688 16 0.03
689 9 0.02
690 11 0.02
691 3 0.01
692 6 0.01
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (682 bp):
GAACAACTATCTATTTCAAAACATTATGACCTTGTGTTTTGTCATAAAAAATTGGTTCTCAATAT
ACAAGCTTATTCGAAATAAAATAATAGTAATTTATTAATATTTCAAGAATTAAAAAGAAATTTAA
AAAATAAATATCTTTACTGAACCAGTTCAAATAGATATAACTATATGAACAATTATCTATTTCAA
ATCGTTATAACCTTTTGTTATATCACAAAACAATTGTTTCAATTCATACAAGCTTATTCAGAATA
AAATAATACTAATTTAGTAAAATTCCAAAAATTAATAACTAAAAGATTTAAAAAATAAATACGTT
TAACGAATAAGTTCAAATAATTAAGACTATATGAACAATGATTTATTTCAAATTGTTATGAGATT
TTATTTGGTCATAAAAATATTATTTTAGCTCATACAAGTTTATTCAGGAAAGAATAAAACTAATT
TATTAATATTTAAAAAATTTATAAGAGATTTACAAAACAATTCTACTTATCGAACCAGTTGAAAT
AATTATACTATTTCAAATCATTATGACCATTTCTTTTGTAATAAAACAATCATTTCAGTTCATAC
AAAATTATTCAGAATAAAATAATACTAATTTATAATAAATGAGAATGAGAATTAAAAAAAATCTA
TCACAAAAAAGAATCTTTTGTTATGATTATCC
Found at i:15938 original size:176 final size:177
Alignment explanation
Indices: 15549--16023 Score: 507
Period size: 177 Copynumber: 2.7 Consensus size: 177
15539 TACTTATGTC
* * * *
15549 TATTTGAACTATTA-TCTATTTCAAATTGTTATGACATTTTGTTTTGTCGTAAAATAATTAT-TT
1 TATTTGAACAATTATTC-ATTTCAAATCGTTATGACCTTTTGTTTTGTCGTAAAACAA--ATGTT
* ** * * *
15612 TTGTTCATACAAAATTATTCAGAATAAAATAATACTAATTTATTGATATTTCAAAAATTAATAAG
63 TTGTTCATATAAGTTTATTTAGAATAAAATAATACTAATTTATTAATATTTCAAAAATCAATAAG
* ** * * * **
15677 GTATTTAAAAGCTAAATCTGTTTATCGATCTAGTTTTATATAGTTATAAA
128 GTATTTAAAAGATAAATCTACTTACCAAACTAGTTCAATATAGTTATAAA
* * *
15727 TATATGAATAATTATTTATTTCAAATCGTTATGACCTTTTGTTTTGTCGTAAAACAAATGTTTTG
1 TATTTGAACAATTATTCATTTCAAATCGTTATGACCTTTTGTTTTGTCGTAAAACAAATGTTTTG
* * * **
15792 TTCATATAAGTTTGTTTAGAATATAATAATATTAATTTATTAATATTTTGAAAATCAATAAGAG-
66 TTCATATAAGTTTATTTAGAATAAAATAATACTAATTTATTAATATTTCAAAAATCAATAAG-GT
15856 ATTTGAAAA-ATAAATCTACTTACCAAACTAGTTCAAT-TAGTTATAACA
130 ATTT-AAAAGATAAATCTACTTACCAAACTAGTTCAATATAGTTATAA-A
* * * * *
15904 -ATTTGAACAATTATTCATTTCAAATCATTATGACCATTTGTTTTGTCATCAAACAATTGTTTCT
1 TATTTGAACAATTATTCATTTCAAATCGTTATGACCTTTTGTTTTGTCGTAAAACAAATGTTT-T
* * *
15968 ATTGATAT-AGTCTTATTTAGAATAAAATAATGCTAATTTATTAATA-TTCTAAAAAT
65 GTTCATATAAGT-TTATTTAGAATAAAATAATACTAATTTATTAATATTTC-AAAAAT
16024 TAATGTGTAA
Statistics
Matches: 247, Mismatches: 42, Indels: 17
0.81 0.14 0.06
Matches are distributed among these distances:
176 70 0.28
177 123 0.50
178 53 0.21
179 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.44
Consensus pattern (177 bp):
TATTTGAACAATTATTCATTTCAAATCGTTATGACCTTTTGTTTTGTCGTAAAACAAATGTTTTG
TTCATATAAGTTTATTTAGAATAAAATAATACTAATTTATTAATATTTCAAAAATCAATAAGGTA
TTTAAAAGATAAATCTACTTACCAAACTAGTTCAATATAGTTATAAA
Found at i:16797 original size:179 final size:178
Alignment explanation
Indices: 16469--17012 Score: 549
Period size: 179 Copynumber: 3.0 Consensus size: 178
16459 AACAATTATT
** * * *
16469 TTCATACAAGCTTATT-CAGTTTAAACTAATATTAATTTATTAATATTTCAACAATTAATAAGTA
1 TTCATACAAGCTTATTCCA-AATAAAATAATA-TAATTTATTAATATTTCAAAAATTAATGAGT-
* * * * * * *
16533 AAAAATTTTAAAAATAAATTTGTTTACTAA-ATAAGTTCAAACAATCATAACTATTTGAATAATT
63 AAAAATTTTAAAAATAAATCTATTTACGAACA-AA-TTCAAATAGTTATAACTATTTGAACAATT
* ** *
16597 ATCTATTTCAAATTGTTATGACCTATTGTTTCATCATAAAACAATTGTATCAA
126 ATCCATTTCAAATCATTATGACATATTGTTTCATCATAAAACAATTGTATCAA
* * **
16650 TTCATATAGGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATGAGT-A
1 TTCATACAAGCTTATTCCAAATAAAATAATA-TAATTTATTAATATTTCAAAAATTAATGAGTAA
* * * *
16714 AGATTTAAAAAATAAATCTATTTATCGAACAAATTCAAATAGTTATGACTATTTGAACAATTTTC
65 AAATTTTAAAAATAAATCTATTTA-CGAACAAATTCAAATAGTTATAACTATTTGAACAATTATC
* ** ** * *
16779 CATTTCAAATCATTATGACATTTTGTTTTGTTTTAAAATAATTGTTTCAA
129 CATTTCAAATCATTATGACATATTGTTTCATCATAAAACAATTGTATCAA
*
16829 TTCATACAAGCTTATTCCAAATAAAATAATATAAATTTATTAAT-TTTAAAAAATTAATGAGTAA
1 TTCATACAAGCTTATTCCAAATAAAATAATAT-AATTTATTAATATTTCAAAAATTAATGAGTAA
* ** * *
16893 AAATTTTAAAAATAAATCTATTTGCTGAACATGTTCAAATAGTTATAACTATTTGAGCAATTATT
65 AAATTTTAAAAATAAATCTATTTAC-GAACAAATTCAAATAGTTATAACTATTTGAACAATTATC
* * * ** * * * *
16958 TATTTTAAAT-AGTTATGACATTTTGTTTTGTTATAAACCAATTGTTTCTA
129 CATTTCAAATCA-TTATGACATATTGTTTCATCATAAAACAATTGTATCAA
17008 TTCAT
1 TTCAT
17013 TCATATTCCA
Statistics
Matches: 305, Mismatches: 51, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
178 20 0.07
179 226 0.74
180 5 0.02
181 53 0.17
182 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (178 bp):
TTCATACAAGCTTATTCCAAATAAAATAATATAATTTATTAATATTTCAAAAATTAATGAGTAAA
AATTTTAAAAATAAATCTATTTACGAACAAATTCAAATAGTTATAACTATTTGAACAATTATCCA
TTTCAAATCATTATGACATATTGTTTCATCATAAAACAATTGTATCAA
Found at i:17051 original size:145 final size:145
Alignment explanation
Indices: 16877--17157 Score: 397
Period size: 145 Copynumber: 1.9 Consensus size: 145
16867 ATTAATTTTA
* * * *
16877 AAAAATTAATGAGTAAAAATTTTAAAAATAAATCTATTT-GCTGAACATGTTCAAATAGTTATAA
1 AAAAATTAATAAGTAAAAATTTAAAAAATAAATCTATTTATC-GAACAAGTTCAAATAGTTATAA
* * * * * *
16941 CTATTTGAGCAATTATTTATTTTAAATAGTTATGA-CATTTTGTTTTGTTATAAACCAATTGTTT
65 CAATTTGAACAATTATTTATTTCAAACAGTTATGATC-TTTTGTTTTGTCATAAAACAATTGTTT
17005 CTATTCATTCATATTCC
129 CTATTCATTCATATTCC
* * *
17022 AAAAATTAGTAAG-AAAATATTTAAAAAATAAATCTATTTATCGAGCAAGTTCAAATAGTTATGA
1 AAAAATTAATAAGTAAAA-ATTTAAAAAATAAATCTATTTATCGAACAAGTTCAAATAGTTATAA
17086 CAATTTGAACAATTATTTATTTCAAACAGTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTC
65 CAATTTGAACAATTATTTATTTCAAACAGTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTC
17151 TATTCAT
130 TATTCAT
17158 ACAAGTTTAT
Statistics
Matches: 120, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
144 4 0.03
145 114 0.95
146 2 0.02
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.42
Consensus pattern (145 bp):
AAAAATTAATAAGTAAAAATTTAAAAAATAAATCTATTTATCGAACAAGTTCAAATAGTTATAAC
AATTTGAACAATTATTTATTTCAAACAGTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCT
ATTCATTCATATTCC
Found at i:18615 original size:183 final size:182
Alignment explanation
Indices: 18215--19056 Score: 624
Period size: 183 Copynumber: 4.7 Consensus size: 182
18205 TTAATTTATT
* * * * * * * * *
18215 AACATTTATTTATTTCAAAT-TTTATGACTTTTTATTTTATCATAAAATAATT-ATTTTAGCTCA
1 AACAATTATCTATTTCAAATCGTTATAACCTTTTATTTTGTCATAAAACAATTGTTTTTA-TTCA
* * * * *
18278 TACAAGTGTATTCGAAATAGAATAAAACTAATTTATTAATATTTAAAAAATTTATAAG----AGA
65 TACAAGTTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGCAAAAGA
* ** * * * *
18339 TTT-AGAAAATAGTTTTATTTACTAAACCAGTTTAAGTTA-TTATAACTATTTG
130 TTTAAAAAAATAAATCTATTTACCAAACCAGTTTAA-ATAGTTTTAACTATTTG
* * * * * *
18391 AGCAATTATCTATTTCAAATCATTATTA-CTTTCTGTTTTGTCATAAAAAAATTGTTTTTATTAA
1 AACAATTATCTATTTCAAATCGTTATAACCTTT-TATTTTGTCATAAAACAATTGTTTTTATTCA
* * * * *
18455 TA-AAGTTTGTTCAAAATAAAATAATACTAATTTATTAATATTTAGAAAATTAATCAGTAAGAGA
65 TACAAGTTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGCAAAAGA
* * *
18519 TTTAAAAAAGTTAAATCTGTTTACCAAGCCA-TTTCAAATAGTTTTTAACTATTTG
130 TTTAAAAAA-ATAAATCTATTTACCAAACCAGTTT-AAATAG-TTTTAACTATTTG
* * * * * *
18574 AATAATTATCTATTTCAAATTGTTATGACCTTTTATTTTGTCATCAAACAATTGGTTTTGTTCAT
1 AACAATTATCTATTTCAAATCGTTATAACCTTTTATTTTGTCATAAAACAATTGTTTTTATTCAT
* *** * * ** * * * *
18639 A-ATATTTTATTTGGAA-AAAATAATATTAATTTAATAATATTTTGATACTTAATAACCAAAAAA
66 ACA-AGTTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGCAAAAGA
* * * * * * * *
18702 ATTAAAAAAATAAATCTAATTGCTAAACCAATTCAAATAG--TTAAGGTTATATG
130 TTTAAAAAAATAAATCTATTTACCAAACCAGTTTAAATAGTTTTAA--CTATTTG
* * * *
18755 AACGATTATCTATTTCAAATCGTTATAACCTTTTCTTTTGTCGTAAAACAATTATTTTGTA--CA
1 AACAATTATCTATTTCAAATCGTTATAACCTTTTATTTTGTCATAAAACAATTGTTTT-TATTCA
* ** * * * *
18818 TACAAGCTTATTCTGATTAGAATAATACTAATTTAATAATATTTCAAAAATTAATAAGCAAAAGA
65 TACAAGTTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGCAAAAGA
* * * * * *
18883 TTTAAAAAAATAAATTTGTTTACCAAATTCAGTTTAAATA-ATTAAGACTATTAG
130 TTTAAAAAAATAAATCTATTTACCAAA-CCAGTTTAAATAGTTTTA-ACTATTTG
* * * * * * *
18937 AACAATTATTTATTTGAAATCGTTCTAACCTTTTGTTTAGTCATAAAATAATTG-TTTCAGTTCA
1 AACAATTATCTATTTCAAATCGTTATAACCTTTTATTTTGTCATAAAACAATTGTTTTTA-TTCA
* * * * *
19001 TACAAGCTTATTTAAAATAAATTAATATTAATTTATTAACATTTAAAAAATTAATA
65 TACAAGTTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATA
19057 TTAATTTATT
Statistics
Matches: 517, Mismatches: 122, Indels: 47
0.75 0.18 0.07
Matches are distributed among these distances:
176 67 0.13
177 26 0.05
178 5 0.01
179 4 0.01
180 19 0.04
181 127 0.25
182 96 0.19
183 160 0.31
184 13 0.03
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (182 bp):
AACAATTATCTATTTCAAATCGTTATAACCTTTTATTTTGTCATAAAACAATTGTTTTTATTCAT
ACAAGTTTATTCAAAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGCAAAAGAT
TTAAAAAAATAAATCTATTTACCAAACCAGTTTAAATAGTTTTAACTATTTG
Found at i:19053 original size:15 final size:15
Alignment explanation
Indices: 19035--19083 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
19025 ATATTAATTT
19035 ATTAACATTTAAAAA
1 ATTAACATTTAAAAA
* ***
19050 ATTAATA-TTAATTT
1 ATTAACATTTAAAAA
19064 ATTAACATTTAAAAA
1 ATTAACATTTAAAAA
19079 ATTAA
1 ATTAA
19084 TAAGAAAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAACATTTAAAAA
Found at i:19055 original size:29 final size:29
Alignment explanation
Indices: 19010--19085 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
19000 ATACAAGCTT
19010 ATTTAAAATAAATTAATATTAATTTATTAAC
1 ATTT-AAA-AAATTAATATTAATTTATTAAC
19041 ATTTAAAAAATTAATATTAATTTATTAAC
1 ATTTAAAAAATTAATATTAATTTATTAAC
19070 ATTTAAAAAATTAATA
1 ATTTAAAAAATTAATA
19086 AGAAAGAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 38 0.84
30 3 0.07
31 4 0.09
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
ATTTAAAAAATTAATATTAATTTATTAAC
Found at i:19067 original size:14 final size:14
Alignment explanation
Indices: 19021--19068 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
19011 TTTAAAATAA
19021 ATTAATATTAATTT
1 ATTAATATTAATTT
* ***
19035 ATTAACATTTAAAAA
1 ATTAATA-TTAATTT
19050 ATTAATATTAATTT
1 ATTAATATTAATTT
19064 ATTAA
1 ATTAA
19069 CATTTAAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTAATATTAATTT
Found at i:19251 original size:212 final size:211
Alignment explanation
Indices: 18840--19251 Score: 492
Period size: 211 Copynumber: 1.9 Consensus size: 211
18830 CTGATTAGAA
* * * *
18840 TAATACTAATTTAATAATATTTCAAAAATTAATAAGCAAAAGATTTAAAAAAATAAATTTGTTTA
1 TAATACTAATTTAATAACATTTAAAAAATTAATAAGCAAAAGATTTAAAAAAATAAATCTATTTA
* * * * *
18905 CCAAATTCAGTTTAAATAATTAAGACTATTAGAACAATTATTTATTTGAAATCGTTCTAACCTTT
66 CCAAA-TCAGTTCAAATAATTAACACTATTAGAACAATTATCTATTTAAAATCGTTATAACCTTT
* * * ** *
18970 TGTTTAGTCATAAAATAATTGTTTCAGTTCATACAAGCTTATTTAAAATAAATTAATATTAATTT
130 TGTTTAGTCATAAAACAATTGTTTCAGTTAATAAAAGCTTAGATAAAATAAAATAATATTAATTT
19035 ATTAACATTTAAAAAAT
195 ATTAACATTTAAAAAAT
* *
19052 TAATATTAATTTATTAACATTTAAAAAATTAATAAG-AAAGAGATTTAAAAAAATAAATCTATTT
1 TAATACTAATTTAATAACATTTAAAAAATTAATAAGCAAA-AGATTTAAAAAAATAAATCTATTT
* * * * * *
19116 ATCAAA-CAAGTTCAAATAGA-TATCACTATTTGAACAATTGTCTATTTAAAATTGTTATAATCT
65 ACCAAATC-AGTTCAAATA-ATTAACACTATTAGAACAATTATCTATTTAAAATCGTTATAACCT
* * *
19179 TTTGATTT-GTCATAAAACAATTGTTTCAGTTAATAAAAGTTTAGAT-AATTAACAATATTATTA
128 TTTG-TTTAGTCATAAAACAATTGTTTCAGTTAATAAAAGCTTAGATAAAATAA-AATAATATTA
19242 ATATTATTAA
191 AT-TTATTAA
19252 TATATTTAAT
Statistics
Matches: 168, Mismatches: 26, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
210 6 0.04
211 92 0.55
212 70 0.42
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.40
Consensus pattern (211 bp):
TAATACTAATTTAATAACATTTAAAAAATTAATAAGCAAAAGATTTAAAAAAATAAATCTATTTA
CCAAATCAGTTCAAATAATTAACACTATTAGAACAATTATCTATTTAAAATCGTTATAACCTTTT
GTTTAGTCATAAAACAATTGTTTCAGTTAATAAAAGCTTAGATAAAATAAAATAATATTAATTTA
TTAACATTTAAAAAAT
Found at i:20456 original size:20 final size:21
Alignment explanation
Indices: 20392--20464 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 21
20382 ATAATATTAC
*
20392 TAATAATTGATATTATTATAATA
1 TAATAATT-ATAATATT-TAATA
*
20415 TAATAATTATAATATTT-TTA
1 TAATAATTATAATATTTAATA
20435 TAAT-ATTAGTAAT-TTTAATA
1 TAATAATTA-TAATATTTAATA
*
20455 T-ATAAATATA
1 TAATAATTATA
20465 GTTTCTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 11 0.26
20 16 0.37
21 1 0.02
22 7 0.16
23 8 0.19
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
TAATAATTATAATATTTAATA
Found at i:20812 original size:24 final size:24
Alignment explanation
Indices: 20780--20831 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
20770 AAAACAATTG
20780 ATAAAATTATTAAAT-ATTATAAAT
1 ATAAAATTA-TAAATAATTATAAAT
* *
20804 ATAATATTATAAATAATTATAATT
1 ATAAAATTATAAATAATTATAAAT
20828 ATAA
1 ATAA
20832 CTTATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAAAATTATAAATAATTATAAAT
Found at i:20829 original size:40 final size:43
Alignment explanation
Indices: 20758--20858 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 43
20748 TAACAATATT
*
20758 AATATAACTATTA-AAACAATTGATAAAATTATTAA-ATA-TTATA
1 AATATAA-TATTATAAATAATTGAT-AAATTA-TAACATATTTATA
*
20801 AATATAATATTATAAATAATT-AT-AATTATAACTTATTTATA
1 AATATAATATTATAAATAATTGATAAATTATAACATATTTATA
*
20842 AGT-TAATATTATAAATA
1 AATATAATATTATAAATA
20859 TTAGTTATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
39 3 0.06
40 21 0.40
41 7 0.13
42 7 0.13
43 14 0.27
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (43 bp):
AATATAATATTATAAATAATTGATAAATTATAACATATTTATA
Found at i:20918 original size:14 final size:14
Alignment explanation
Indices: 20882--20924 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
20872 TTAATTATAT
20882 TAATTTAT-TAATA
1 TAATTTATATAATA
*
20895 -AATATATATAATA
1 TAATTTATATAATA
*
20908 TAATTTATATATTA
1 TAATTTATATAATA
20922 TAA
1 TAA
20925 AATAATTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 14 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTTATATAATA
Found at i:20929 original size:19 final size:20
Alignment explanation
Indices: 20896--20940 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
20886 TTATTAATAA
*
20896 ATATA-TATAATATAATT-T
1 ATATATTATAAAATAATTGT
20914 ATATATTATAAAATAATTGT
1 ATATATTATAAAATAATTGT
20934 -TATATTA
1 ATATATTA
20941 CTTTAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 18 0.75
20 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATATATTATAAAATAATTGT
Found at i:20976 original size:30 final size:29
Alignment explanation
Indices: 20887--20978 Score: 73
Period size: 30 Copynumber: 3.1 Consensus size: 29
20877 TATATTAATT
* *
20887 TATTAATAAATATA-TATAATATAATTTATA
1 TATTAATAAAAATAGTTTAAT-TAATTTA-A
* *
20917 TATT-AT-AAAATAATTGTTATATTACTTTAA
1 TATTAATAAAAAT-AGT-TTA-ATTAATTTAA
20947 TATTAATAAACAATAGTTTAATTAATTTAA
1 TATTAATAAA-AATAGTTTAATTAATTTAA
20977 TA
1 TA
20979 ATTACTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
28 4 0.08
29 3 0.06
30 21 0.42
31 13 0.26
32 6 0.12
33 3 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
TATTAATAAAAATAGTTTAATTAATTTAA
Found at i:21810 original size:18 final size:20
Alignment explanation
Indices: 21765--21810 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
21755 TTTATTTATT
*
21765 TAATTAATAGTATTAACTAAA
1 TAATT-ATAATATTAACTAAA
*
21786 TATTTATAATATTAA-T-AA
1 TAATTATAATATTAACTAAA
21804 TAATTAT
1 TAATTAT
21811 TGTTTATCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 8 0.36
19 1 0.05
20 9 0.41
21 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TAATTATAATATTAACTAAA
Found at i:21841 original size:19 final size:18
Alignment explanation
Indices: 21813--21849 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
21803 ATAATTATTG
*
21813 TTTATCTTATATAACTATA
1 TTTATATTATAT-ACTATA
21832 TTTATATTATATACTATA
1 TTTATATTATATACTATA
21850 ATAATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATATTATATACTATA
Found at i:21856 original size:18 final size:19
Alignment explanation
Indices: 21819--21856 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
21809 ATTGTTTATC
* *
21819 TTATATAACTATATTTATA
1 TTATATAACTATAATAATA
21838 TTATAT-ACTATAATAATA
1 TTATATAACTATAATAATA
21856 T
1 T
21857 CATTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATATAACTATAATAATA
Found at i:22894 original size:26 final size:26
Alignment explanation
Indices: 22865--22916 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22855 AATTTTAATA
22865 ATTATT-TATAAATTAATTAAATATTT
1 ATTATTAT-TAAATTAATTAAATATTT
* *
22891 ATTATTATTTAATTAATTTAATATTT
1 ATTATTATTAAATTAATTAAATATTT
22917 GTATAGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTATTATTAAATTAATTAAATATTT
Found at i:22895 original size:22 final size:23
Alignment explanation
Indices: 22861--22906 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
22851 TAGTAATTTT
22861 AATAATTATTTATAAATTAATTA
1 AATAATTATTTATAAATTAATTA
* * *
22884 AATATTTA-TTATTATTTAATTA
1 AATAATTATTTATAAATTAATTA
22906 A
1 A
22907 TTTAATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATAATTATTTATAAATTAATTA
Found at i:24086 original size:20 final size:19
Alignment explanation
Indices: 24061--24103 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
24051 ATAATAGATA
24061 AATATTAA-TTATTTAATATT
1 AATATTAATTTA-TT-ATATT
24081 AATATTAATTTATTATATT
1 AATATTAATTTATTATATT
24100 AATA
1 AATA
24104 AGTTTGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 10 0.45
21 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTAATTTATTATATT
Found at i:24371 original size:23 final size:24
Alignment explanation
Indices: 24343--24392 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24333 TTATAATATG
*
24343 AATAATTAAT-ATATTACAGATTA
1 AATAATTAATAATATTAAAGATTA
* *
24366 AATAATTTATAATATTAAATATTA
1 AATAATTAATAATATTAAAGATTA
24390 AAT
1 AAT
24393 TAGCATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AATAATTAATAATATTAAAGATTA
Found at i:24991 original size:18 final size:17
Alignment explanation
Indices: 24969--25048 Score: 60
Period size: 18 Copynumber: 4.8 Consensus size: 17
24959 TATAATGATA
24969 TATATAAATATTATAAT
1 TATATAAATATTATAAT
** *
24986 TA-ATATTTA-TATAAC
1 TATATAAATATTATAAT
25001 TAT-TAAATATTA-AATT
1 TATATAAATATTATAA-T
*
25017 TATAATAAATATTATTAT
1 TAT-ATAAATATTATAAT
*
25035 ATATATAATTATTA
1 -TATATAAATATTA
25049 ATATTATTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
15 13 0.27
16 10 0.21
17 2 0.04
18 19 0.40
19 4 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATAAATATTATAAT
Found at i:25004 original size:24 final size:24
Alignment explanation
Indices: 24969--25036 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
24959 TATAATGATA
24969 TATATAAATATTATA-ATTAATATT
1 TATATAAATATTATATATTAA-ATT
* *
24993 TATATAACTATTAAATATTAAATT
1 TATATAAATATTATATATTAAATT
25017 TATAATAAATATTATTATAT
1 TAT-ATAAATATTA-TATAT
25037 ATATAATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 19 0.51
25 14 0.38
26 4 0.11
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TATATAAATATTATATATTAAATT
Found at i:25056 original size:24 final size:24
Alignment explanation
Indices: 24966--25070 Score: 80
Period size: 24 Copynumber: 4.5 Consensus size: 24
24956 ATATATAATG
* *
24966 ATATATATAAATATT-ATAATTAAT
1 ATATATATAATTATTAAT-ATTATT
* *
24990 ATTTATATAACTATTAA-A-TATT
1 ATATATATAATTATTAATATTATT
* *
25012 AAATTTATAA-TA--AATATTATT
1 ATATATATAATTATTAATATTATT
25033 ATATATATAATTATTAATATTATT
1 ATATATATAATTATTAATATTATT
25057 AGT-TATACTAATTA
1 A-TATATA-TAATTA
25071 AGTTAAATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.03
20 1 0.02
21 14 0.22
22 12 0.18
23 1 0.02
24 27 0.42
25 8 0.12
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (24 bp):
ATATATATAATTATTAATATTATT
Found at i:25213 original size:15 final size:17
Alignment explanation
Indices: 25183--25219 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
25173 TTATATAGAT
25183 ATAATATAAGTATTATA
1 ATAATATAAGTATTATA
25200 ATAAT-TAA-TATTATA
1 ATAATATAAGTATTATA
*
25215 CTAAT
1 ATAAT
25220 GTTAATTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 11 0.58
16 3 0.16
17 5 0.26
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAATATAAGTATTATA
Found at i:25434 original size:19 final size:19
Alignment explanation
Indices: 25412--25466 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
25402 TATTATAGTC
*
25412 ATTAATAATAATACTATAT
1 ATTAATAATAATAATATAT
*
25431 ATTAATATTAATAATATA-
1 ATTAATAATAATAATATAT
*
25449 ATT-ATAATTATAATATAT
1 ATTAATAATAATAATATAT
25467 TATGCAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 12 0.39
18 3 0.10
19 16 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAATAATAATAATATAT
Found at i:25454 original size:25 final size:28
Alignment explanation
Indices: 25390--25460 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 28
25380 ATATAATTCA
25390 AATATTAATTAT-TATTATAGTCATTAAT
1 AATA-TAATTATATATTATAGTCATTAAT
*
25418 AATA-ATACTATATATTA-A-T-ATTAAT
1 AATATA-ATTATATATTATAGTCATTAAT
25443 AATATAATTATA-ATTATA
1 AATATAATTATATATTATA
25461 ATATATTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
24 4 0.11
25 16 0.43
26 3 0.08
27 5 0.14
28 9 0.24
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (28 bp):
AATATAATTATATATTATAGTCATTAAT
Found at i:25786 original size:24 final size:24
Alignment explanation
Indices: 25741--25786 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25731 ACTTACTTAG
*
25741 TTATTATTTTTAGAATTTATTACA
1 TTATTATTTTTAGAATTAATTACA
*
25765 TTATTATATTTTATAA-TAATTA
1 TTATTAT-TTTTAGAATTAATTA
25787 TTGAATCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATTATTTTTAGAATTAATTACA
Found at i:26387 original size:17 final size:17
Alignment explanation
Indices: 26352--26387 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26342 ATTTATTTAG
*
26352 TATAAATATTAATATAT
1 TATAAATATTAATAAAT
*
26369 TATAAATATTATTAAAT
1 TATAAATATTAATAAAT
26386 TA
1 TA
26388 ATTAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATAAATATTAATAAAT
Found at i:26575 original size:21 final size:21
Alignment explanation
Indices: 26549--26613 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 21
26539 ATAAGCAATA
26549 AATTATATAATAATTTAATTT
1 AATTATATAATAATTTAATTT
* **
26570 AATTATTATATTAATTATTAAAAT
1 AATTA-TATAATAA-T-TTAATTT
26594 AATTGATATAATAA-TTAATT
1 AATT-ATATAATAATTTAATT
26614 ATTCCTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
21 9 0.26
22 7 0.21
23 1 0.03
24 16 0.47
25 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTATATAATAATTTAATTT
Found at i:26576 original size:46 final size:45
Alignment explanation
Indices: 26516--26613 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 45
26506 TAATTGATAT
* *
26516 ATTAATTTTATTATTTTA-TAATTA-TAAGCAATAAATT-ATATAATA
1 ATTAATTTAATTATTATATTAATTATTAA--AAT-AATTGATATAATA
26561 ATTTAATTTAATTATTATATTAATTATTAAAATAATTGATATAATA
1 A-TTAATTTAATTATTATATTAATTATTAAAATAATTGATATAATA
26607 ATTAATT
1 ATTAATT
26614 ATTCCTAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
45 11 0.23
46 27 0.57
47 6 0.13
48 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (45 bp):
ATTAATTTAATTATTATATTAATTATTAAAATAATTGATATAATA
Found at i:26750 original size:13 final size:14
Alignment explanation
Indices: 26713--26768 Score: 71
Period size: 13 Copynumber: 4.1 Consensus size: 14
26703 CAATATATGT
26713 TTAATAATTATTAA
1 TTAATAATTATTAA
*
26727 TATTATAATTATTAA
1 T-TAATAATTATTAA
26742 TTAAT-ATTATTAA
1 TTAATAATTATTAA
*
26755 TTAA-AATAATTAA
1 TTAATAATTATTAA
26768 T
1 T
26769 ATTAATAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 20 0.54
14 4 0.11
15 13 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAATAATTATTAA
Found at i:26775 original size:13 final size:13
Alignment explanation
Indices: 26717--26856 Score: 53
Period size: 12 Copynumber: 10.5 Consensus size: 13
26707 ATATGTTTAA
*
26717 TAATTATTAATAT
1 TAATAATTAATAT
*
26730 T-ATAATTATTAAT
1 TAATAATTAAT-AT
26743 TAATATTATTAAT-T
1 TAATA--ATTAATAT
*
26757 AAAATAATTAATAT
1 -TAATAATTAATAT
*
26771 TAATAGATAAATAAAT
1 TAATA-ATTAAT--AT
26787 ATAATAATT-AT-T
1 -TAATAATTAATAT
*
26799 TATATTATTAA-AT
1 TA-ATAATTAATAT
*
26812 AATATAACTTAAT-T
1 TA-ATAA-TTAATAT
*
26826 T-ATATTTAATAT
1 TAATAATTAATAT
*
26838 TAA-AATAAATAT
1 TAATAATTAATAT
26850 TAATAAT
1 TAATAAT
26857 AATTAAGATA
Statistics
Matches: 95, Mismatches: 14, Indels: 36
0.66 0.10 0.25
Matches are distributed among these distances:
11 7 0.07
12 28 0.29
13 25 0.26
14 15 0.16
15 6 0.06
16 9 0.09
17 5 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (13 bp):
TAATAATTAATAT
Found at i:26781 original size:22 final size:22
Alignment explanation
Indices: 26713--26888 Score: 72
Period size: 22 Copynumber: 8.4 Consensus size: 22
26703 CAATATATGT
*
26713 TTAATAATTATTAATATT-ATAA
1 TTAA-AATAATTAATATTAATAA
* *
26735 TT--ATTAATTAATATTATTAA
1 TTAAAATAATTAATATTAATAA
26755 TTAAAATAATTAATATTAATAGA
1 TTAAAATAATTAATATTAATA-A
* * *
26778 -T-AAATAAAT-ATAATAATTA
1 TTAAAATAATTAATATTAATAA
* * *
26797 TTTATATTATTAA-A-TAAT-A
1 TTAAAATAATTAATATTAATAA
** *
26816 -TAACTTAATTTATATTTAAT-A
1 TTAAAATAATTAATA-TTAATAA
* * *
26837 TTAAAATAAATATTAATAATAA
1 TTAAAATAATTAATATTAATAA
*
26859 TTAAGATAATTATAATATT-ATAA
1 TTAAAATAA-T-TAATATTAATAA
26882 -TAAAATA
1 TTAAAATA
26889 GTTATTTTAT
Statistics
Matches: 113, Mismatches: 27, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
18 7 0.06
19 14 0.12
20 17 0.15
21 22 0.19
22 43 0.38
23 5 0.04
24 5 0.04
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (22 bp):
TTAAAATAATTAATATTAATAA
Found at i:26797 original size:65 final size:63
Alignment explanation
Indices: 26715--26888 Score: 150
Period size: 65 Copynumber: 2.8 Consensus size: 63
26705 ATATATGTTT
26715 AATAATTATTAAT-ATTATA-ATTATTAATTAATATTATTAATTAAAATAATTAATATTAATAGA
1 AATAATTA-TAATAATTATAGATTATTAA-TAATATTATTAATTAAAATAATTAATATTAA-A-A
26778 TA
62 TA
* * * * *
26780 AATAAATATAATAATTATTTATATTATTAAATAATATAACTTAATT--TATATTTAATATTAAAA
1 AATAATTATAATAATTA--TAGATTATT-AATAATATTA-TTAATTAAAATAATTAATATTAAAA
26843 TA
62 TA
*
26845 AAT-ATTAATAATAATTA-AGATAATT-ATAATATTA-TAA-TAAAATA
1 AATAATT-ATAATAATTATAGATTATTAATAATATTATTAATTAAAATA
26889 GTTATTTTAT
Statistics
Matches: 91, Mismatches: 9, Indels: 24
0.73 0.07 0.19
Matches are distributed among these distances:
57 1 0.01
58 3 0.03
59 3 0.03
60 8 0.09
62 6 0.07
64 6 0.07
65 27 0.30
66 1 0.01
67 15 0.16
68 13 0.14
69 8 0.09
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (63 bp):
AATAATTATAATAATTATAGATTATTAATAATATTATTAATTAAAATAATTAATATTAAAATA
Found at i:26849 original size:33 final size:29
Alignment explanation
Indices: 26725--26856 Score: 83
Period size: 30 Copynumber: 4.4 Consensus size: 29
26715 AATAATTATT
* * *
26725 AATATTATAATTATTAATTAATATT-ATTA
1 AATATAATAATTATTTA-TAATATTAAATA
* * * *
26754 ATTAAAATAATTA-ATATTAATAGATAAATA
1 AATATAATAATTATTTA-TAATA-TTAAATA
*
26784 AATATAATAATTATTTATATTATTAAAT-
1 AATATAATAATTATTTATAATATTAAATA
26812 AATATAACTTAATTTATATT-TAATATTAAAATA
1 AATATAA--TAA-TTAT-TTATAATATT-AAATA
26845 AATATTAATAAT
1 AATA-TAATAAT
26857 AATTAAGATA
Statistics
Matches: 80, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
28 14 0.17
29 16 0.20
30 21 0.26
31 13 0.16
32 9 0.11
33 4 0.05
34 3 0.04
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (29 bp):
AATATAATAATTATTTATAATATTAAATA
Found at i:27038 original size:13 final size:13
Alignment explanation
Indices: 27016--27092 Score: 52
Period size: 13 Copynumber: 6.1 Consensus size: 13
27006 TATTAATTGA
*
27016 ATTAAATATTAAT
1 ATTAATTATTAAT
27029 ATTAATTATTAAT
1 ATTAATTATTAAT
* *
27042 ATTTATGA-TAA-
1 ATTAATTATTAAT
* *
27053 ATTAA-AATTTAT
1 ATTAATTATTAAT
* *
27065 AATAAATAATTAAT
1 -ATTAATTATTAAT
*
27079 ATTTATTATTAAT
1 ATTAATTATTAAT
27092 A
1 A
27093 AGTAATATAA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
10 1 0.02
11 6 0.12
12 3 0.06
13 33 0.67
14 6 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (13 bp):
ATTAATTATTAAT
Found at i:27044 original size:19 final size:18
Alignment explanation
Indices: 26996--27044 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
26986 TTTAAACTTA
26996 TATT-ATATTATATTAAT
1 TATTAATATTATATTAAT
27013 TGAATTAAATATTAATATTAAT
1 T--ATT-AATATT-ATATTAAT
27035 TATTAATATT
1 TATTAATATT
27045 TATGATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
19 9 0.33
20 3 0.11
21 5 0.19
22 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TATTAATATTATATTAAT
Found at i:27055 original size:20 final size:20
Alignment explanation
Indices: 27032--27084 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 20
27022 TATTAATATT
*
27032 AATTATTAATATTTATGATA
1 AATTATTAATATTTATAATA
27052 AATTA--AA-ATTTATAATA
1 AATTATTAATATTTATAATA
*
27069 AATAATTAATATTTAT
1 AATTATTAATATTTAT
27085 TATTAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 13 0.46
18 2 0.07
19 2 0.07
20 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATTATTAATATTTATAATA
Found at i:27092 original size:20 final size:20
Alignment explanation
Indices: 27015--27100 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 20
27005 ATATTAATTG
*
27015 AATTAA-ATATTAATATTAAT
1 AATTAATAT-TTATTATTAAT
* *
27035 TATTAATATTTATGA-T-A-
1 AATTAATATTTATTATTAAT
* * *
27052 AATTAAAATTTATAATAAAT
1 AATTAATATTTATTATTAAT
27072 AATTAATATTTATTATTAAT
1 AATTAATATTTATTATTAAT
*
27092 AAGTAATAT
1 AATTAATAT
27101 AAATAAATTA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
17 12 0.24
18 1 0.02
19 2 0.04
20 34 0.67
21 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATTAATATTTATTATTAAT
Found at i:27219 original size:20 final size:20
Alignment explanation
Indices: 27194--27257 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
27184 GTTTTATAAC
27194 TAATATTATTATAATTATTA
1 TAATATTATTATAATTATTA
*
27214 TAATATT-TGGATAATTTATT-
1 TAATATTAT-TATAA-TTATTA
*
27234 T-ATATAATTGATAATTATTA
1 TAATATTATT-ATAATTATTA
27254 -AATA
1 TAATA
27258 ACTAATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
19 10 0.29
20 20 0.57
21 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
TAATATTATTATAATTATTA
Found at i:27351 original size:17 final size:18
Alignment explanation
Indices: 27310--27354 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
27300 TAATTAAAAG
27310 TACTTAAT-TT-ATAATT
1 TACTTAATATTAATAATT
*
27326 TAATTAATATTAATAA-T
1 TACTTAATATTAATAATT
27343 TACTTAATATTA
1 TACTTAATATTA
27355 TTAACATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
TACTTAATATTAATAATT
Found at i:27474 original size:22 final size:25
Alignment explanation
Indices: 27431--27481 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 25
27421 TATAGTCAAT
27431 ATTATATAAATATATTATTAATTTA
1 ATTATATAAATATATTATTAATTTA
*
27456 ATTATAT-AATA-A-TATTAATTTT
1 ATTATATAAATATATTATTAATTTA
27478 ATTA
1 ATTA
27482 AACAATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 13 0.52
23 1 0.04
24 4 0.16
25 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTATATAAATATATTATTAATTTA
Found at i:27585 original size:29 final size:31
Alignment explanation
Indices: 27532--27606 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 31
27522 ATTTAGATCA
27532 TTAATAATATTAAATAATTAATAAGAATTTAT
1 TTAATAATATTAAATAA-TAATAAGAATTTAT
* *
27564 TTAAT-ATATTAAATAA-ATTAAGTATTTAT
1 TTAATAATATTAAATAATAATAAGAATTTAT
27593 TTAATTAACTATTA
1 TTAA-TAA-TATTA
27607 GTATTTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 15 0.39
30 1 0.03
31 12 0.32
32 10 0.26
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (31 bp):
TTAATAATATTAAATAATAATAAGAATTTAT
Found at i:27679 original size:13 final size:13
Alignment explanation
Indices: 27663--27705 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
27653 ACAAATATTG
27663 TATAATTATAATA
1 TATAATTATAATA
*
27676 TATAATAATTAATA
1 TATAATTA-TAATA
* *
27690 TATATTTATAAAA
1 TATAATTATAATA
27703 TAT
1 TAT
27706 TAATCTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATAATTATAATA
Found at i:27776 original size:21 final size:21
Alignment explanation
Indices: 27717--27778 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 21
27707 AATCTTAAAC
27717 AATATATTTAAAGTA-AAATT
1 AATATATTTAAAGTATAAATT
* *
27737 AAT-TA-TTAACTGT-TTAATT
1 AATATATTTAA-AGTATAAATT
27756 AATATATTTAAAGTATAAATT
1 AATATATTTAAAGTATAAATT
27777 AA
1 AA
27779 ATAACAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
18 4 0.12
19 11 0.33
20 7 0.21
21 11 0.33
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (21 bp):
AATATATTTAAAGTATAAATT
Found at i:28329 original size:32 final size:30
Alignment explanation
Indices: 28252--28331 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 30
28242 AAATATTAAT
28252 TTAAATTTAATTATAATATTTAATCTTTATTA
1 TTAAA-TTAATTATAATATTTAA-CTTTATTA
*
28284 -TAAA-TATAGTATAATATATCTAA-TTTATTA
1 TTAAATTA-ATTATAATAT-T-TAACTTTATTA
28314 GTTAAATTAATTATAATA
1 -TTAAATTAATTATAATA
28332 ATATGTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
29 2 0.05
30 16 0.40
31 5 0.12
32 15 0.38
33 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (30 bp):
TTAAATTAATTATAATATTTAACTTTATTA
Found at i:28795 original size:9 final size:9
Alignment explanation
Indices: 28781--28809 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
28771 CTTGTTTGAT
28781 ATTATATTA
1 ATTATATTA
28790 ATTATATTA
1 ATTATATTA
28799 ATTAT-TTA
1 ATTATATTA
28807 ATT
1 ATT
28810 TTTAGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
ATTATATTA
Found at i:29328 original size:182 final size:182
Alignment explanation
Indices: 28857--29514 Score: 621
Period size: 182 Copynumber: 3.7 Consensus size: 182
28847 TTAATAAGAC
* * * * * *
28857 AATTAATAAGTAA-A-AGATTTAAAAAATAAATCTATTTATCGAACAAATTCAAATCGTTTTGAC
1 AATTAATAAGTAAGATA-ATTAAAAAAATAAATATGTTTATCGAACAAGTTCAAATAGTTATGAC
* * * * *
28920 TATCTGAATAATTATTTATTTCAATTTC-TTATGACTTTTTTGTTTTGTCATAAAACAAATTGTT
65 TATTTGAATAATTATCTATTTCAA-ATCATTATAAC-ATTTTGTTTTGTCATAAAAC-AATTGTT
* * * * * * * * * *
28984 TTTGTCCATACGAGCTTATTCGGATTAAAATAATATTGATTTATTAATATTTCAAT
127 TCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAA
* * *
29040 AATTAATAAGTAA-A-AGATCTCAAAAAAAT--A-A-GTTTACCAAACAAGTTCAAATAGTCATG
1 AATTAATAAGTAAGATA-AT-T-AAAAAAATAAATATGTTTATCGAACAAGTTCAAATAGTTATG
* * * *
29099 ACTATTTGAATAATTATCTACTTCAAATCATTGTAATATTTTGTTTTGTAATAAAACAATTGTTT
63 ACTATTTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTT
* ***
29164 CAATTCATGTTAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAA
128 CTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAA
* *
29219 AATTAAAAAGTAAGATAATTAAAAAAATAAATATGTTTATCGAATAAGTTCAAATAGTTATGACT
1 AATTAATAAGTAAGATAATTAAAAAAATAAATATGTTTATCGAACAAGTTCAAATAGTTATGACT
* * * *
29284 ATCTT-AATAATTATCTATTTCAAAACATTACAACCTTTTGTTTTGTCATAAAACAATTGGTTCT
66 AT-TTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCT
** * * *
29348 ATTCATACAAAATTATTT-AGAATAAAATAATACTATTTTATTACTATTTTAAA
130 ATTCATACAAGCTTATTTGA-AATAAAATAATACTAATTTATTAATATTTCAAA
** * *
29401 AATTAATAAG--AGAT--TT-AAAATCTAAATATTTTTATCGAACCAGTTCAAATAGTTATGACT
1 AATTAATAAGTAAGATAATTAAAAAAATAAATATGTTTATCGAACAAGTTCAAATAGTTATGACT
* * * ** * * *
29461 ATTTGAACAATTATCTATCTCCAATTGTTATGA-TTTTTGTTTTATCATAAAACA
66 ATTTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACA
29515 TTAAATTTTA
Statistics
Matches: 394, Mismatches: 69, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
176 21 0.05
177 61 0.15
178 10 0.03
179 63 0.16
180 28 0.07
181 51 0.13
182 131 0.33
183 21 0.05
184 1 0.00
185 7 0.02
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (182 bp):
AATTAATAAGTAAGATAATTAAAAAAATAAATATGTTTATCGAACAAGTTCAAATAGTTATGACT
ATTTGAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTGTTTCTA
TTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCAAA
Found at i:29580 original size:24 final size:24
Alignment explanation
Indices: 29553--29598 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
29543 TAATATAAAT
*
29553 AATTTTGTAATAATTAATATTATC
1 AATTTAGTAATAATTAATATTATC
* *
29577 AATTTAGTTATTATTAATATTA
1 AATTTAGTAATAATTAATATTA
29599 AGTTATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
AATTTAGTAATAATTAATATTATC
Found at i:29625 original size:21 final size:21
Alignment explanation
Indices: 29584--29626 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
29574 ATCAATTTAG
* *
29584 TTATTATTAATATTAAGTTAT
1 TTATTATTAATATAAAATTAT
29605 TTATTAATTAATA-AAAATTAT
1 TTATT-ATTAATATAAAATTAT
29626 T
1 T
29627 ATTTAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTATTATTAATATAAAATTAT
Found at i:29740 original size:15 final size:15
Alignment explanation
Indices: 29722--29753 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29712 TGATTTATCT
*
29722 ATTTATTAATTATTA
1 ATTTATTAATAATTA
29737 ATTTATTAATAATTA
1 ATTTATTAATAATTA
29752 AT
1 AT
29754 AACTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTATTAATAATTA
Found at i:29859 original size:18 final size:18
Alignment explanation
Indices: 29834--29883 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
29824 TATTAATTGT
*
29834 AATAATTAATTTAACCT-
1 AATAATTAATTTAAACTA
* *
29851 TATATATTAATATAAACTA
1 AATA-ATTAATTTAAACTA
29870 AATAATTAATTTAA
1 AATAATTAATTTAA
29884 TTTATTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATTAATTTAAACTA
Found at i:30145 original size:15 final size:15
Alignment explanation
Indices: 30118--30220 Score: 62
Period size: 16 Copynumber: 7.1 Consensus size: 15
30108 TTTATATAAA
30118 ATAATTAATAATTATT
1 ATAATT-ATAATTATT
30134 ATAATTATAATTATT
1 ATAATTATAATTATT
30149 AGTAA-TATTAATTATT
1 A-TAATTA-TAATTATT
*
30165 -TAA--AT-ATTAAT
1 ATAATTATAATTATT
*
30176 -TAATTA-AAATATT
1 ATAATTATAATTATT
30189 -TAATTGATAATAATATT
1 ATAATT-ATAAT--TATT
*
30206 AT-ATTATATTTATT
1 ATAATTATAATTATT
30220 A
1 A
30221 ATAAACTAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
11 8 0.11
12 1 0.01
13 11 0.15
14 9 0.12
15 14 0.19
16 21 0.29
17 7 0.10
18 1 0.01
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATAATTATAATTATT
Found at i:30157 original size:55 final size:53
Alignment explanation
Indices: 30097--30247 Score: 136
Period size: 55 Copynumber: 2.9 Consensus size: 53
30087 TTATATTATC
*
30097 AATATTAATTATTTATATAAAATAATTAATAATTATTATAATTATAATTATTAGT
1 AATATTAATTATTTATATAAAATAATTAATAATTATTATAATTATAA-TAATA-T
* *
30152 AATATTAATTATTTAAATATTAATTAATTAA-AA-TATT-TAATTGATAATAATAT
1 AATATTAATTATTT--ATATAAAATAATTAATAATTATTATAATT-ATAATAATAT
* * * * *
30205 TATATT-A-TATTTAT-TAATA-AACTAATATTTATAATAATTATAA
1 AATATTAATTATTTATATAAAATAATTAATAATTATTATAATTATAA
30248 AAATTGCAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
47 5 0.06
48 3 0.04
49 9 0.11
50 5 0.06
51 5 0.06
52 1 0.01
53 6 0.08
54 9 0.11
55 22 0.28
56 2 0.03
57 13 0.16
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (53 bp):
AATATTAATTATTTATATAAAATAATTAATAATTATTATAATTATAATAATAT
Found at i:30187 original size:31 final size:32
Alignment explanation
Indices: 30126--30193 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
30116 AAATAATTAA
* *
30126 TAATTATTATAATTATAATTATTAGTAATA-T
1 TAATTATTATAAATATAATTATTAGAAATATT
30157 TAATTATT-TAAATATTAATTAATTA-AAATATT
1 TAATTATTATAAATA-TAATT-ATTAGAAATATT
30189 TAATT
1 TAATT
30194 GATAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 5 0.16
31 17 0.53
32 10 0.31
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (32 bp):
TAATTATTATAAATATAATTATTAGAAATATT
Found at i:30402 original size:24 final size:23
Alignment explanation
Indices: 30368--30436 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 23
30358 TAATAAATTA
*
30368 TATTTATTAATAATTTATTTAAAT
1 TATTTAATAATAATTTATTT-AAT
30392 TATTTAATAATTAA-TTATTTAAT
1 TATTTAATAA-TAATTTATTTAAT
*
30415 AATTTATATTAATAAATTTATT
1 TATTTA-A-TAAT-AATTTATT
30437 AATATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 8 0.21
24 17 0.45
25 8 0.21
26 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTTAATAATAATTTATTTAAT
Found at i:30411 original size:28 final size:28
Alignment explanation
Indices: 30358--30429 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
30348 ATATATATAA
30358 TAATAAATTATATT--T-ATTAATAATT
1 TAATAAATTATATTAATAATTAATAATT
* *
30383 TATTTAAATTAT-TTAATAATTAATTATT
1 TA-ATAAATTATATTAATAATTAATAATT
*
30411 TAATAATTTATATTAATAA
1 TAATAAATTATATTAATAA
30430 ATTTATTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 4 0.11
26 8 0.21
27 8 0.21
28 18 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TAATAAATTATATTAATAATTAATAATT
Found at i:30427 original size:25 final size:24
Alignment explanation
Indices: 30372--30456 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
30362 AAATTATATT
30372 TATTAA-TAATTTATTTAAATTATTTA
1 TATTAATTAA-TTATTT-AA-TATTTA
30398 -A-TAATTAATTATTTAATAATTTA
1 TATTAATTAATTATTTAAT-ATTTA
* *
30421 TATTAATAAATT-TATTAATATATA
1 TATTAATTAATTAT-TTAATATTTA
30445 TAGTTAATTAAT
1 TA-TTAATTAAT
30457 AAGAATTAGG
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
22 1 0.02
23 7 0.14
24 17 0.34
25 25 0.50
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (24 bp):
TATTAATTAATTATTTAATATTTA
Found at i:30666 original size:15 final size:15
Alignment explanation
Indices: 30627--30694 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
30617 TGATTATTTA
30627 AAAT-TATT-ATATT
1 AAATATATTAATATT
*
30640 AAA-AAATATAATATT
1 AAATATAT-TAATATT
*
30655 AATTATATTAATATT
1 AAATATATTAATATT
*
30670 AAATATATTAATTGTT
1 AAATATATTAA-TATT
30686 AAATA-ATTA
1 AAATATATTA
30695 TTGATAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
13 5 0.11
14 1 0.02
15 28 0.62
16 11 0.24
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
AAATATATTAATATT
Found at i:31515 original size:22 final size:21
Alignment explanation
Indices: 31487--31528 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
31477 TAGCATAATA
31487 TATTAATAATTATACAATATAT
1 TATTAATAATTA-ACAATATAT
*
31509 TATTAATAATTAATAATATA
1 TATTAATAATTAACAATATA
31529 AATTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTAATAATTAACAATATAT
Found at i:31527 original size:19 final size:20
Alignment explanation
Indices: 31481--31527 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
31471 CAATAATAGC
31481 ATAATA-TATTAATAATTAT
1 ATAATATTATTAATAATTAT
*
31500 ACAATATATTATTAATAATTA-
1 A-TA-ATATTATTAATAATTAT
31521 ATAATAT
1 ATAATAT
31528 AAATTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
19 5 0.22
20 2 0.09
21 4 0.17
22 12 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAATATTATTAATAATTAT
Done.