Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 1 of 56
Found at i:2791 original size:29 final size:29
Alignment explanation
Indices: 2757--2815 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
2747 ATGGCAATTA
* *
2757 CTCATTCAATTTCTCCGTTCCTCCCTTGC
1 CTCATTCAATTCCACCGTTCCTCCCTTGC
2786 CTCATTCAATTCCACCGTTCCTCCCTTGC
1 CTCATTCAATTCCACCGTTCCTCCCTTGC
2815 C
1 C
2816 CTGTCTCCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.12, C:0.44, G:0.07, T:0.37
Consensus pattern (29 bp):
CTCATTCAATTCCACCGTTCCTCCCTTGC
Found at i:6136 original size:15 final size:15
Alignment explanation
Indices: 6118--6150 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6108 GTTAAATTGG
6118 TTTGAGTTAAAAAAT
1 TTTGAGTTAAAAAAT
*
6133 TTTGAGTTAATAAAT
1 TTTGAGTTAAAAAAT
6148 TTT
1 TTT
6151 TTAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
TTTGAGTTAAAAAAT
Found at i:6511 original size:15 final size:16
Alignment explanation
Indices: 6493--6522 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6483 TTTGAGTTTG
6493 TTAAATTTG-ATCATT
1 TTAAATTTGAATCATT
6508 TTAAATTTGAATCAT
1 TTAAATTTGAATCAT
6523 GGATTTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (16 bp):
TTAAATTTGAATCATT
Found at i:6676 original size:12 final size:12
Alignment explanation
Indices: 6659--6698 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
6649 AAGTCAAAGA
6659 AAACTAAAAAAT
1 AAACTAAAAAAT
6671 AAACTAAAAAAAT
1 AAACT-AAAAAAT
*
6684 AAAATAAAAAA-
1 AAACTAAAAAAT
6695 AAAC
1 AAAC
6699 ATATGACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 3 0.12
12 11 0.44
13 11 0.44
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (12 bp):
AAACTAAAAAAT
Found at i:6682 original size:13 final size:13
Alignment explanation
Indices: 6659--6695 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
6649 AAGTCAAAGA
6659 AAACT-AAAAAAT
1 AAACTAAAAAAAT
6671 AAACTAAAAAAAT
1 AAACTAAAAAAAT
*
6684 AAAATAAAAAAA
1 AAACTAAAAAAA
6696 AACATATGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (13 bp):
AAACTAAAAAAAT
Found at i:7421 original size:16 final size:16
Alignment explanation
Indices: 7402--7465 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 16
7392 TTTATGTTAT
7402 AATTATTATTTTATTA
1 AATTATTATTTTATTA
*
7418 AATTAATATTTTAAAATTA
1 AATTATTATTTT---ATTA
* *
7437 AATTA-TATTTAATTT
1 AATTATTATTTTATTA
*
7452 AATT-TTATATTATT
1 AATTATTATTTTATT
7466 TTAGATTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 14 0.36
16 11 0.28
18 5 0.13
19 9 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTATTATTTTATTA
Found at i:7468 original size:16 final size:16
Alignment explanation
Indices: 7439--7563 Score: 52
Period size: 16 Copynumber: 8.2 Consensus size: 16
7429 TAAAATTAAA
*
7439 TTATATTTAATTTAATT
1 TTATA-TTATTTTAATT
7456 TTATATTATTTTAGA-T
1 TTATATTATTTTA-ATT
7472 TTA-ATTA-TTTAA--
1 TTATATTATTTTAATT
**
7484 --AT-TTATTCAAATT
1 TTATATTATTTTAATT
* * *
7497 TAAGATAATTTTAATT
1 TTATATTATTTTAATT
* **
7513 TTA-ATTAATTTAAAC
1 TTATATTATTTTAATT
* *
7528 TCATATTATTTTAAAT
1 TTATATTATTTTAATT
*
7544 TTAAATTATTTTTAATT
1 TTATATTA-TTTTAATT
7561 TTA
1 TTA
7564 GATTGAATAA
Statistics
Matches: 80, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
10 4 0.05
11 3 0.04
13 1 0.01
14 4 0.05
15 15 0.19
16 37 0.46
17 16 0.20
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
TTATATTATTTTAATT
Found at i:7563 original size:17 final size:16
Alignment explanation
Indices: 7478--7561 Score: 64
Period size: 16 Copynumber: 5.2 Consensus size: 16
7468 AGATTTAATT
*
7478 ATTTAAATT-TATTCAA
1 ATTTAAATTAT-TTTAA
*
7494 ATTTAAGATAATTTT-A
1 ATTTAA-ATTATTTTAA
* *
7510 ATTTTAATTAATTTAA
1 ATTTAAATTATTTTAA
* * *
7526 ACTCATATTATTTTAA
1 ATTTAAATTATTTTAA
*
7542 ATTTAAATTATTTTTA
1 ATTTAAATTATTTTAA
7558 ATTT
1 ATTT
7562 TAGATTGAAT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
15 6 0.12
16 40 0.78
17 4 0.08
18 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (16 bp):
ATTTAAATTATTTTAA
Found at i:8319 original size:10 final size:9
Alignment explanation
Indices: 8285--8318 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
8275 AAAGTTTATC
8285 ATTTTTTAA
1 ATTTTTTAA
*
8294 ATTTTTCAA
1 ATTTTTTAA
*
8303 AATTTTTAA
1 ATTTTTTAA
8312 ATTTTTT
1 ATTTTTT
8319 TTAATTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:9452 original size:2 final size:2
Alignment explanation
Indices: 9430--9469 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
9420 GAGTTTTGTG
*
9430 AT AT AT A- AT -T AT AT -T AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9469 A
1 A
9470 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9941 original size:2 final size:2
Alignment explanation
Indices: 9934--9961 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9924 CAGTACTGAC
9934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9962 GTACATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10888 original size:20 final size:20
Alignment explanation
Indices: 10864--10910 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
10854 GAAGGAAAGG
10864 AGAAAGGAAGAAGAGAA-AAA
1 AGAAAGGAA-AAGAGAAGAAA
*
10884 GGAAA-G-AAAGAGAAGAAA
1 AGAAAGGAAAAGAGAAGAAA
10902 AGAAAGGAA
1 AGAAAGGAA
10911 CGAAAAGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
17 7 0.32
18 8 0.36
19 2 0.09
20 5 0.23
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
AGAAAGGAAAAGAGAAGAAA
Found at i:11036 original size:12 final size:12
Alignment explanation
Indices: 11021--11057 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
11011 GTATTTTTTG
11021 TTAAATTATATT
1 TTAAATTATATT
11033 TT-AATTATATT
1 TTAAATTATATT
*
11044 TTATATTATATT
1 TTAAATTATATT
11056 TT
1 TT
11058 TTTTGTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTAAATTATATT
Found at i:11040 original size:11 final size:11
Alignment explanation
Indices: 11024--11057 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
11014 TTTTTTGTTA
11024 AATTATATTTT
1 AATTATATTTT
11035 AATTATATTTT
1 AATTATATTTT
11046 ATATTATATTTT
1 A-ATTATATTTT
11058 TTTTGTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
AATTATATTTT
Found at i:11746 original size:13 final size:13
Alignment explanation
Indices: 11728--11753 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11718 AAAATAAAAA
11728 TTAAATAAATTAT
1 TTAAATAAATTAT
11741 TTAAATAAATTAT
1 TTAAATAAATTAT
11754 AATTATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAAATAAATTAT
Found at i:11770 original size:19 final size:18
Alignment explanation
Indices: 11735--11775 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
11725 AAATTAAATA
11735 AATTATTTAAATAAATTAT
1 AATTATTTAAATAAATT-T
11754 AATTATTT-AATATAATTT
1 AATTATTTAAATA-AATTT
11772 AATT
1 AATT
11776 TAAACTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTATTTAAATAAATTT
Found at i:11982 original size:18 final size:19
Alignment explanation
Indices: 11945--11982 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11935 CGATATAGAA
* *
11945 ATTTATAATTTGATTTAAT
1 ATTTATAATTTGACTCAAT
11964 ATTTAT-ATTTGACTCAAT
1 ATTTATAATTTGACTCAAT
11982 A
1 A
11983 AAAAAAATAT
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:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTTATAATTTGACTCAAT
Found at i:12900 original size:6 final size:6
Alignment explanation
Indices: 12889--12914 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12879 TTTATTAATT
12889 ATTAAA ATTAAA ATTAAA ATTAAA AT
1 ATTAAA ATTAAA ATTAAA ATTAAA AT
12915 CATTTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATTAAA
Found at i:14658 original size:7 final size:7
Alignment explanation
Indices: 14646--14671 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14636 GTGTATGTAT
14646 GGCAATG
1 GGCAATG
14653 GGCAATG
1 GGCAATG
14660 GGCAATG
1 GGCAATG
14667 GGCAA
1 GGCAA
14672 ATAGCAGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.42, T:0.12
Consensus pattern (7 bp):
GGCAATG
Found at i:15399 original size:13 final size:13
Alignment explanation
Indices: 15381--15408 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15371 AACGAATGTA
15381 AGAAATTTTAGAG
1 AGAAATTTTAGAG
15394 AGAAATTTTAGAG
1 AGAAATTTTAGAG
15407 AG
1 AG
15409 TAAGAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (13 bp):
AGAAATTTTAGAG
Found at i:15719 original size:9 final size:9
Alignment explanation
Indices: 15697--15729 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
15687 AAATATTAAT
15697 AAATAAAT-
1 AAATAAATA
15705 AAATAAATA
1 AAATAAATA
*
15714 AAATAATTA
1 AAATAAATA
15723 AAATAAA
1 AAATAAA
15730 AATATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAAATA
Found at i:15736 original size:17 final size:18
Alignment explanation
Indices: 15683--15738 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
15673 TAATATTTCG
*
15683 AATTAAATATTAAT-AAAT
1 AATTAAA-ATAAATAAAAT
*
15701 AAAT-AAATAAATAAAAT
1 AATTAAAATAAATAAAAT
*
15718 AATTAAAATAAA-AATAT
1 AATTAAAATAAATAAAAT
15735 AATT
1 AATT
15739 TCATCTCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 5 0.16
17 17 0.53
18 10 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTAAAATAAATAAAAT
Found at i:19704 original size:14 final size:14
Alignment explanation
Indices: 19685--19712 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19675 GAATCTGCAA
19685 TCCTTTATAAAATG
1 TCCTTTATAAAATG
19699 TCCTTTATAAAATG
1 TCCTTTATAAAATG
19713 AAAGCACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TCCTTTATAAAATG
Found at i:20930 original size:143 final size:143
Alignment explanation
Indices: 20672--20946 Score: 496
Period size: 143 Copynumber: 1.9 Consensus size: 143
20662 CTTTCAAGTG
*
20672 ACTTGTCTATAGGACAACAGTTGTGTTTTTACACAACATGTCTTTATTTAAATGCTATGTCTTTA
1 ACTTGTCTATAGAACAACAGTTGTGTTTTTACACAACATGTCTTTATTTAAATGCTATGTCTTTA
* *
20737 CATAACAAGTTTAAATGTTGTGTTCTTTCAACACAACTTTTTGATGCAATAAAAATATATACATA
66 CATAACAAGTTTAAATGTTATGTTCTTTCAACACAACTTTTTGATGCAATAAAAAAATATACATA
20802 TAAAATATTATGA
131 TAAAATATTATGA
* *
20815 ACTTGTCTATAGAATAATAGTTGTGTTTTTACACAACATGTCTTTATTTAAATGCTATGTCTTTA
1 ACTTGTCTATAGAACAACAGTTGTGTTTTTACACAACATGTCTTTATTTAAATGCTATGTCTTTA
*
20880 CATAACAAGTTTAAATGTTATGTTCTTTCAACACAACTTTTTGATGCAATAAAAAAATATATATA
66 CATAACAAGTTTAAATGTTATGTTCTTTCAACACAACTTTTTGATGCAATAAAAAAATATACATA
20945 TA
131 TA
20947 TATAAAATAT
Statistics
Matches: 126, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
143 126 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (143 bp):
ACTTGTCTATAGAACAACAGTTGTGTTTTTACACAACATGTCTTTATTTAAATGCTATGTCTTTA
CATAACAAGTTTAAATGTTATGTTCTTTCAACACAACTTTTTGATGCAATAAAAAAATATACATA
TAAAATATTATGA
Found at i:20981 original size:4 final size:4
Alignment explanation
Indices: 20972--21015 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
20962 ATTAAATATT
* *
20972 AATA AATA AACA AATA AATA AATA AATAA AATA ATTAA AATA AA
1 AATA AATA AATA AATA AATA AATA AAT-A AATA AAT-A AATA AA
21016 AATATAATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
4 27 0.79
5 7 0.21
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:21005 original size:9 final size:9
Alignment explanation
Indices: 20983--21015 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
20973 ATAAATAAAC
20983 AAATAAAT-
1 AAATAAATA
20991 AAATAAATA
1 AAATAAATA
*
21000 AAATAATTA
1 AAATAAATA
21009 AAATAAA
1 AAATAAA
21016 AATATAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAAATA
Found at i:21022 original size:17 final size:18
Alignment explanation
Indices: 20991--21024 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20981 ACAAATAAAT
20991 AAATAAATAAAATAATTA
1 AAATAAATAAAATAATTA
*
21009 AAATAAA-AATATAATT
1 AAATAAATAAAATAATT
21025 GCATCTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATAAAATAATTA
Found at i:21944 original size:2 final size:2
Alignment explanation
Indices: 21939--21972 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21929 CTCTCTCTCT
21939 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
21973 TATATATCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:22681 original size:2 final size:2
Alignment explanation
Indices: 22674--22706 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22664 AGCTGGAATC
22674 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22707 GTTGAAGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30374 original size:2 final size:2
Alignment explanation
Indices: 30310--30354 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
30300 TAATAACCAA
30310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30352 AT A
1 AT A
30355 CACACACACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32961 original size:5 final size:5
Alignment explanation
Indices: 32951--32996 Score: 65
Period size: 5 Copynumber: 9.0 Consensus size: 5
32941 GGACCCATCC
* *
32951 AGGGG AGGGG AGAGG AGAGG AGGGG AGGGG AGGGG AGGGG ATGGGG
1 AGGGG AGGGG AGGGG AGGGG AGGGG AGGGG AGGGG AGGGG A-GGGG
32997 TAGTAAGGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 34 0.89
6 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.74, T:0.02
Consensus pattern (5 bp):
AGGGG
Found at i:35604 original size:23 final size:22
Alignment explanation
Indices: 35578--35639 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
35568 AATTCATCCA
35578 TTATATTTTTTAAAATTATTATT
1 TTATATTTTTTAAAATTATT-TT
*
35601 TTAT-TCTTTTAAATATT-TTTT
1 TTATATTTTTTAAA-ATTATTTT
*
35622 TTATA-TTTTTAATATTAT
1 TTATATTTTTTAAAATTAT
35640 ATATATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.09
21 13 0.39
22 10 0.30
23 7 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATATTTTTTAAAATTATTTT
Found at i:35630 original size:20 final size:23
Alignment explanation
Indices: 35581--35639 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 23
35571 TCATCCATTA
35581 TATT-TTTTAAA-ATTATTATTT
1 TATTATTTTAAATATTATTATTT
*
35602 TATTCTTTTAAATATT-TT-TTT
1 TATTATTTTAAATATTATTATTT
*
35623 TA-TATTTTTAATATTAT
1 TATTATTTTAAATATTAT
35640 ATATATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 11 0.33
21 10 0.30
22 9 0.27
23 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
TATTATTTTAAATATTATTATTT
Found at i:36927 original size:3 final size:3
Alignment explanation
Indices: 36914--36953 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
36904 TCGCATATAC
*
36914 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
36954 GAACAAGCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37371 original size:6 final size:6
Alignment explanation
Indices: 37362--37386 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37352 TGGAAATGGA
37362 ATTGAC ATTGAC ATTGAC ATTGAC A
1 ATTGAC ATTGAC ATTGAC ATTGAC A
37387 ATATATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (6 bp):
ATTGAC
Found at i:37415 original size:2 final size:2
Alignment explanation
Indices: 37387--37444 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
37377 GACATTGACA
* * * *
37387 AT AT AT AC AT AT GT AT AA AT A- AT AT AT AT AT AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
37428 AT AG AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT A
37445 AAAGCAACGA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (2 bp):
AT
Found at i:37894 original size:2 final size:2
Alignment explanation
Indices: 37887--37918 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
37877 GACATGACCA
*
37887 AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37919 TCATCCAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:38479 original size:15 final size:15
Alignment explanation
Indices: 38459--38488 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38449 CTATTTGCTG
38459 TACAATATAATACAA
1 TACAATATAATACAA
*
38474 TACAATATAGTACAA
1 TACAATATAATACAA
38489 GTGATGCCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (15 bp):
TACAATATAATACAA
Found at i:40417 original size:30 final size:30
Alignment explanation
Indices: 40383--40439 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
40373 ATTAAAATTA
*
40383 AAATAAATTATTAAAATAATATTTTTTTTG
1 AAATAAATTATTAAAATAATATCTTTTTTG
* *
40413 AAATAATTTATTAAAATATTATCTTTT
1 AAATAAATTATTAAAATAATATCTTTT
40440 GTAATTAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
AAATAAATTATTAAAATAATATCTTTTTTG
Found at i:41006 original size:15 final size:15
Alignment explanation
Indices: 40988--41031 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
40978 ATATATTTTT
40988 TAAAAATATAATAAC
1 TAAAAATATAATAAC
*
41003 TAAAAAT-TAATAAA
1 TAAAAATATAATAAC
*
41017 TAAAAA-ATGATAAC
1 TAAAAATATAATAAC
41031 T
1 T
41032 TTATAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (15 bp):
TAAAAATATAATAAC
Found at i:41289 original size:23 final size:23
Alignment explanation
Indices: 41263--41309 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
41253 AATCAATATT
* *
41263 TATTTATTAGTATAATTACTTAA
1 TATTTATTAATATAATTAATTAA
41286 TATTTATTAATATAATTAATTAA
1 TATTTATTAATATAATTAATTAA
41309 T
1 T
41310 TAAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTATTAATATAATTAATTAA
Found at i:41305 original size:27 final size:27
Alignment explanation
Indices: 41251--41318 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
41241 TCATTTTTGT
* * *
41251 TTAATCAATATTTATTTATTAGTATAA
1 TTAATTAATATTTATTAATTAATATAA
*
41278 TTACTTAATATTTATTAATATAAT-TAA
1 TTAATTAATATTTATTAAT-TAATATAA
*
41305 TTAATTAAAATTTA
1 TTAATTAATATTTA
41319 AATTAGAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 31 0.91
28 3 0.09
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (27 bp):
TTAATTAATATTTATTAATTAATATAA
Found at i:44122 original size:2 final size:2
Alignment explanation
Indices: 44115--44153 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
44105 TTATTACAAA
44115 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
44154 ATCCATGGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44815 original size:50 final size:50
Alignment explanation
Indices: 44737--44919 Score: 199
Period size: 50 Copynumber: 3.7 Consensus size: 50
44727 TGGAAAGTAA
* * ** * * **
44737 CTTTGATAATAGAGAAAAGTAATCATAATTGTTGATGATTCTTCATTAAC
1 CTTTGACAATAGAGAGAAGTAGCCATAATTGTTAACGATTCTTCACCAAC
* * *
44787 CTTTGATAATAGAGAGAAGTAGCTATAATTATTAACGATTCTTCACCAAC
1 CTTTGACAATAGAGAGAAGTAGCCATAATTGTTAACGATTCTTCACCAAC
*
44837 CTTTGACAATAAAG-GAAGGT-GACCATAATTGTTAACGATTCTTCACCAAC
1 CTTTGACAATAGAGAGAA-GTAG-CCATAATTGTTAACGATTCTTCACCAAC
* * *
44887 CTTTGACAATAGAGGGAGGTGGCCATAATTGTT
1 CTTTGACAATAGAGAGAAGTAGCCATAATTGTT
44920 GACTCTAAGT
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
49 4 0.04
50 107 0.94
51 3 0.03
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (50 bp):
CTTTGACAATAGAGAGAAGTAGCCATAATTGTTAACGATTCTTCACCAAC
Found at i:49383 original size:50 final size:50
Alignment explanation
Indices: 49305--49490 Score: 255
Period size: 50 Copynumber: 3.7 Consensus size: 50
49295 TGGAAAGTAT
* ** *
49305 CTTTGACAATAGAGAGAGGTGGTTATAATTATTGACGATTCTTCACCAAC
1 CTTTGACAATAGAGGGAGGTGGCCATAATTATTGACGATTCGTCACCAAC
* * *
49355 CTTTGACAATAGAGGGAGATGGCCATAATTGTTGACGATTCGCCACCAAC
1 CTTTGACAATAGAGGGAGGTGGCCATAATTATTGACGATTCGTCACCAAC
* * * * *
49405 CTTTGATAATAGAAGGAGGTGACCATAATTGTTGATGATTCGTCACCAAC
1 CTTTGACAATAGAGGGAGGTGGCCATAATTATTGACGATTCGTCACCAAC
*
49455 CTTTGACAATAAAGGGAGGTGGCCATAATTATTGAC
1 CTTTGACAATAGAGGGAGGTGGCCATAATTATTGAC
49491 TCTAAATATA
Statistics
Matches: 117, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 117 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (50 bp):
CTTTGACAATAGAGGGAGGTGGCCATAATTATTGACGATTCGTCACCAAC
Found at i:49953 original size:3 final size:3
Alignment explanation
Indices: 49945--49975 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
49935 ATTAATTAAC
49945 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
49976 GAAAATGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:50042 original size:4 final size:4
Alignment explanation
Indices: 50029--50061 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
50019 AGAGAATGAA
*
50029 TATG TTTG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
50062 GTCTGTGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (4 bp):
TATG
Found at i:51057 original size:2 final size:2
Alignment explanation
Indices: 51052--51081 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
51042 ATATACGTTC
*
51052 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51082 TTCTTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51990 original size:21 final size:22
Alignment explanation
Indices: 51948--52005 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
51938 ATGATTATTT
**
51948 TTATTTTAAAAATAATATAAAA
1 TTATTTTAAAAATTTTATAAAA
51970 TTATTTTAAAAATTTTA-AAAA
1 TTATTTTAAAAATTTTATAAAA
*
51991 TT-TAATTAAAAATTT
1 TTAT-TTTAAAAATTT
52006 AAATTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 16 0.50
22 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTATTTTAAAAATTTTATAAAA
Found at i:52723 original size:19 final size:19
Alignment explanation
Indices: 52672--52743 Score: 80
Period size: 19 Copynumber: 4.0 Consensus size: 19
52662 AAAAATTTAA
52672 ATAA-TATTTTATTTTATT
1 ATAATTATTTTATTTTATT
**
52690 A-AATTAAATTA--TTATT
1 ATAATTATTTTATTTTATT
52706 ATAATTATTTTATTTTATT
1 ATAATTATTTTATTTTATT
* *
52725 TTAATTATTTTATTATATT
1 ATAATTATTTTATTTTATT
52744 GCAGTAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
16 6 0.14
17 10 0.23
18 6 0.14
19 22 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATAATTATTTTATTTTATT
Found at i:53968 original size:2 final size:2
Alignment explanation
Indices: 53961--53990 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
53951 CAATTGAGCC
53961 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53991 TAAAACTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54115 original size:21 final size:21
Alignment explanation
Indices: 54089--54129 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
54079 TTACTATTAC
54089 TATAGTATGTTTTGTGTACTA
1 TATAGTATGTTTTGTGTACTA
54110 TATAGTATGTTTTGTGTACT
1 TATAGTATGTTTTGTGTACT
54130 CTCTGTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.54
Consensus pattern (21 bp):
TATAGTATGTTTTGTGTACTA
Found at i:54357 original size:42 final size:42
Alignment explanation
Indices: 54308--54394 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
54298 CACAATCAGA
54308 TTAATCTGTCACCCAATAGACCTGTATATGACTCACAAATTT
1 TTAATCTGTCACCCAATAGACCTGTATATGACTCACAAATTT
54350 TTAATCTGTCACCCAATAGACCTGTATATGACTCACAAATTT
1 TTAATCTGTCACCCAATAGACCTGTATATGACTCACAAATTT
54392 TTA
1 TTA
54395 CTAGGACTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.34
Consensus pattern (42 bp):
TTAATCTGTCACCCAATAGACCTGTATATGACTCACAAATTT
Found at i:55371 original size:50 final size:50
Alignment explanation
Indices: 55312--55481 Score: 277
Period size: 50 Copynumber: 3.4 Consensus size: 50
55302 CCTTTCTCTG
* * *
55312 TTGTCAAAGGTTGGTAAAGAATAATCAACAATTATGGTTATCTCTCTCGA
1 TTGTCAAAGGTTGGTGAAGAATAATCAACAATTACGGTCATCTCTCTCGA
* *
55362 TTGTTAAAGGTTGGTGAAGAATAGTCAACAATTACGGTCATCTCTCTCGA
1 TTGTCAAAGGTTGGTGAAGAATAATCAACAATTACGGTCATCTCTCTCGA
*
55412 TTGTCAAAGGTTGGTGAAGAATAATCAACAATTACGGTCACCTCTCTCGA
1 TTGTCAAAGGTTGGTGAAGAATAATCAACAATTACGGTCATCTCTCTCGA
*
55462 TTGTCAAAGGTTGATGAAGA
1 TTGTCAAAGGTTGGTGAAGA
55482 CCACCAAATC
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
50 111 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (50 bp):
TTGTCAAAGGTTGGTGAAGAATAATCAACAATTACGGTCATCTCTCTCGA
Found at i:58652 original size:267 final size:267
Alignment explanation
Indices: 58175--58708 Score: 852
Period size: 267 Copynumber: 2.0 Consensus size: 267
58165 ATTAGATGTG
*
58175 CTGAACTTCAATCTATTTTGCTTACTTAAAACACAATGCTCACAAAAAGGTAGACTTACTGTTTT
1 CTGAACTTCAATCTATTTTGCTTACTTAAAACACAATGCTCACAAAAAGGTAGACTTACTATTTT
* * * *
58240 GAGTCCAGGAAGCAGTCCACTATCAGATAGAATCTTTATACCCCGTTCTGACATATGGCCTAATC
66 GAGTCCAGAAAGCAATCCACTATCAGATAGAATCTTTATACCCCGTTCTAACATATGGCCCAATC
* ** * * *
58305 TACGATGCCACATCATTGTTGATTTTTCATCTGAATTGGTTGTCACAACAAATGCGTTTGCCTCT
131 TACGATGCCACATCATAGTTGATACTTCATCTAAACTGGTTGTCACAACAAATGCGTCTGCCTCT
* * *
58370 TGCAGTGTTTCTCCTTTAAGTATGTATAGATTTGCAGCAACTTTCTCTGCCTTCGTCACCACCAA
196 TGCAGTGTCTCTCCTTTAAGCATGTATAGATTTGCAGCAACTTTCTCTGCCTTCATCACCACCAA
58435 TGTACAT
261 TGTACAT
* *
58442 CTGAACTTCAATTTATTTTGCTTACTTAAAACACAATGCTCACAGAAAGGTAGACTTACTATTTT
1 CTGAACTTCAATCTATTTTGCTTACTTAAAACACAATGCTCACAAAAAGGTAGACTTACTATTTT
* * *
58507 GAGTCCAGAAAGCAATCCACTATTAGATAGAATCTTTATATCTCGTTCTAACATATGGCCCAATC
66 GAGTCCAGAAAGCAATCCACTATCAGATAGAATCTTTATACCCCGTTCTAACATATGGCCCAATC
** *
58572 TACGATGCCACATCATAGTTGATACTTCATCTAAACTGGTTGTCGTAACAGATGCGTCTGCCTCT
131 TACGATGCCACATCATAGTTGATACTTCATCTAAACTGGTTGTCACAACAAATGCGTCTGCCTCT
* *
58637 TGTAGTGTCTCTCCTTTAAGCATGTATAGATTTGTAGCAACTTTCTCTGCCTTCATCACCACCAA
196 TGCAGTGTCTCTCCTTTAAGCATGTATAGATTTGCAGCAACTTTCTCTGCCTTCATCACCACCAA
58702 TGTACAT
261 TGTACAT
58709 TTGAGTATTT
Statistics
Matches: 243, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
267 243 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (267 bp):
CTGAACTTCAATCTATTTTGCTTACTTAAAACACAATGCTCACAAAAAGGTAGACTTACTATTTT
GAGTCCAGAAAGCAATCCACTATCAGATAGAATCTTTATACCCCGTTCTAACATATGGCCCAATC
TACGATGCCACATCATAGTTGATACTTCATCTAAACTGGTTGTCACAACAAATGCGTCTGCCTCT
TGCAGTGTCTCTCCTTTAAGCATGTATAGATTTGCAGCAACTTTCTCTGCCTTCATCACCACCAA
TGTACAT
Found at i:59931 original size:19 final size:19
Alignment explanation
Indices: 59901--59949 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
59891 CCACTGTTTC
*
59901 ACGTGCACAGTAACCGTAT
1 ACGTGAACAGTAACCGTAT
** *
59920 GTGTGAACAGTACCCGTAT
1 ACGTGAACAGTAACCGTAT
59939 ACGTGAACAGT
1 ACGTGAACAGT
59950 GCCTCAACAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (19 bp):
ACGTGAACAGTAACCGTAT
Found at i:60385 original size:50 final size:50
Alignment explanation
Indices: 60219--60389 Score: 245
Period size: 50 Copynumber: 3.4 Consensus size: 50
60209 ACATTTCTTT
*
60219 ATTGTCAAAGGTTGGTGAAA-AATAGTCAACAATTACGCCCACCTCTCTCG
1 ATTGTCAAAGGTTGGT-AAAGAATAGTCAACAATTACGGCCACCTCTCTCG
* * * *
60269 ATTGTCAAAGGTTGGTGAAGAATAGTCAATAATTACAGCTACCTCTCTCG
1 ATTGTCAAAGGTTGGTAAAGAATAGTCAACAATTACGGCCACCTCTCTCG
* * * *
60319 ATTGTCAAAAGTTGGTAAAGAATAGTTAACAACTACGGCCACCTCTCTTG
1 ATTGTCAAAGGTTGGTAAAGAATAGTCAACAATTACGGCCACCTCTCTCG
60369 ATTGTCAAAGGTTGGTAAAGA
1 ATTGTCAAAGGTTGGTAAAGA
60390 CCACCAAATC
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 2 0.02
50 104 0.98
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (50 bp):
ATTGTCAAAGGTTGGTAAAGAATAGTCAACAATTACGGCCACCTCTCTCG
Found at i:60627 original size:20 final size:20
Alignment explanation
Indices: 60602--60641 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
60592 GGACATAAAT
60602 ATAAAATAAAAGAGAAGCTG
1 ATAAAATAAAAGAGAAGCTG
60622 ATAAAATAAAAGAGAAGCTG
1 ATAAAATAAAAGAGAAGCTG
60642 CCTGATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.20, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAAGAGAAGCTG
Found at i:62413 original size:16 final size:15
Alignment explanation
Indices: 62392--62443 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
62382 ATATTATAAT
62392 AAATTAAAATATAAAA
1 AAATT-AAATATAAAA
* *
62408 AAATTAATTAAAATAA
1 AAATTAAATATAA-AA
*
62424 AAATTTAAATATACAA
1 AAA-TTAAATATAAAA
62440 AAAT
1 AAAT
62444 AATAAAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 7 0.24
16 15 0.52
17 7 0.24
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATATAAAA
Found at i:62423 original size:30 final size:30
Alignment explanation
Indices: 62376--62451 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 30
62366 CATTGCTATA
*
62376 AAAAAAAT-ATTATAAT-AAATTAAAATAT
1 AAAAAAATAATTAAAATAAAATTAAAATAT
*
62404 AAAAAAATTAATTAAAATAAAAATTTAAATAT
1 AAAAAAA-TAATTAAAAT-AAAATTAAAATAT
*
62436 ACAAAAATAA-TAAAAT
1 AAAAAAATAATTAAAAT
62452 TATTTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 7 0.17
29 1 0.02
30 13 0.32
31 3 0.07
32 17 0.41
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (30 bp):
AAAAAAATAATTAAAATAAAATTAAAATAT
Found at i:62442 original size:32 final size:31
Alignment explanation
Indices: 62387--62451 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 31
62377 AAAAAATATT
62387 ATAATAAATTAAAATATAAAAAAATTAATTAAA
1 ATAATAAATTAAAATATAAAAAAA-TAA-TAAA
* *
62420 ATAA-AAATTTAAATATACAAAAATAATAAA
1 ATAATAAATTAAAATATAAAAAAATAATAAA
62450 AT
1 AT
62452 TATTTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 6 0.20
31 3 0.10
32 17 0.57
33 4 0.13
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (31 bp):
ATAATAAATTAAAATATAAAAAAATAATAAA
Found at i:63024 original size:38 final size:37
Alignment explanation
Indices: 62972--63050 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 37
62962 GGTTACCTAT
** *
62972 TATTATTATTATTATTATAATATTAATATTTTTAATAA
1 TATTATTAAGATTATGATAATATTAATA-TTTTAATAA
* * *
63010 TATTATTAAGATTATGATTATATTCATATTTTAATTA
1 TATTATTAAGATTATGATAATATTAATATTTTAATAA
63047 TATT
1 TATT
63051 TTTATGTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
37 12 0.34
38 23 0.66
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (37 bp):
TATTATTAAGATTATGATAATATTAATATTTTAATAA
Found at i:63095 original size:19 final size:19
Alignment explanation
Indices: 63071--63111 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
63061 TATTTTTTAA
* *
63071 ATTAATAAAATATTATATT
1 ATTAATAAAAGATAATATT
63090 ATTAATAAAAGATAATATT
1 ATTAATAAAAGATAATATT
63109 ATT
1 ATT
63112 TTCAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAATAAAAGATAATATT
Found at i:63237 original size:65 final size:65
Alignment explanation
Indices: 63168--63300 Score: 146
Period size: 65 Copynumber: 2.0 Consensus size: 65
63158 TTCATTTACG
* * * *
63168 ATTA-TTAAAAGTAAATTTATTTATTTATATTGTAATCATATTATTATTTTAACATATTT-AATT
1 ATTATTTAAAAGTAAAATT-TTTATTTAAATTATAATCATATAATTATTTTAA-A-ATTTAAATT
63231 -TA
63 GTA
* ** *
63233 ATTATTTTAATTTAAAATTTTTATTTAAATTATAATCATCTAATTATTTTAAAATTTAAATTGTA
1 ATTATTTAAAAGTAAAATTTTTATTTAAATTATAATCATATAATTATTTTAAAATTTAAATTGTA
63298 ATT
1 ATT
63301 GTGGTAATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
63 4 0.07
64 5 0.09
65 38 0.67
66 10 0.18
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (65 bp):
ATTATTTAAAAGTAAAATTTTTATTTAAATTATAATCATATAATTATTTTAAAATTTAAATTGTA
Found at i:63241 original size:14 final size:14
Alignment explanation
Indices: 63224--63284 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
63214 TTTTAACATA
63224 TTTAATTTAATTAT
1 TTTAATTTAATTAT
*
63238 TTTAATTTAA-AAT
1 TTTAATTTAATTAT
*
63251 TTTTATTTAAATTAT
1 TTTAATTT-AATTAT
** * *
63266 AATCATCTAATTAT
1 TTTAATTTAATTAT
63280 TTTAA
1 TTTAA
63285 AATTTAAATT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
13 9 0.26
14 20 0.57
15 6 0.17
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATTTAATTAT
Found at i:63309 original size:65 final size:65
Alignment explanation
Indices: 63187--63309 Score: 151
Period size: 65 Copynumber: 1.9 Consensus size: 65
63177 AGTAAATTTA
* * * **
63187 TTTATTTATATTGTAATCATATTATTATTTTAACATATTTAATTTAATTATTTTAATTTAAAATT
1 TTTATTTAAATTATAATCATATAATTATTTTAACATATTTAATTTAATTATGGTAATTTAAAATT
* *
63252 TTTATTTAAATTATAATCATCTAATTATTTTAA-A-ATTTAAATTGTAATTGTGGTAATT
1 TTTATTTAAATTATAATCATATAATTATTTTAACATATTT-AATT-TAATTATGGTAATT
63310 ATTAAGAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
63 4 0.08
64 5 0.10
65 40 0.82
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.55
Consensus pattern (65 bp):
TTTATTTAAATTATAATCATATAATTATTTTAACATATTTAATTTAATTATGGTAATTTAAAATT
Found at i:63429 original size:24 final size:24
Alignment explanation
Indices: 63400--63452 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
63390 GAATCTTATG
*
63400 TTAGACGGTTACAATCT-TTAATAA
1 TTAGACGATTACAA-CTATTAATAA
63424 TTAGACGATTACAACTATTAATAA
1 TTAGACGATTACAACTATTAATAA
63448 TTAGA
1 TTAGA
63453 TGCTTCTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (24 bp):
TTAGACGATTACAACTATTAATAA
Found at i:63521 original size:38 final size:38
Alignment explanation
Indices: 63464--63549 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 38
63454 GCTTCTAACC
*
63464 TAAATTTT-AAAATAATTAGATTACTACAACTTT-AATT
1 TAAATTTTAAAAATAATTAGATGACTACAA-TTTAAATT
* *
63501 TAAATTTTAAAAATAATTAGATGATTATAATTTAAATT
1 TAAATTTTAAAAATAATTAGATGACTACAATTTAAATT
*
63539 AAAATTTTAAA
1 TAAATTTTAAA
63550 TTAAATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 11 0.26
38 32 0.74
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (38 bp):
TAAATTTTAAAAATAATTAGATGACTACAATTTAAATT
Found at i:63549 original size:13 final size:14
Alignment explanation
Indices: 63531--63563 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
63521 ATGATTATAA
63531 TTTAAATTAAA-AT
1 TTTAAATTAAATAT
63544 TTTAAATTAAATAT
1 TTTAAATTAAATAT
63558 TTTAAA
1 TTTAAA
63564 ATAATACACG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAAATTAAATAT
Found at i:63569 original size:13 final size:13
Alignment explanation
Indices: 63531--63569 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
63521 ATGATTATAA
*
63531 TTTAAATTAAAAT
1 TTTAAATTAATAT
63544 TTTAAATTAAATAT
1 TTTAAATT-AATAT
*
63558 TTTAAAATAATA
1 TTTAAATTAATA
63570 CACGATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTAAATTAATAT
Found at i:63680 original size:17 final size:20
Alignment explanation
Indices: 63635--63681 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
63625 TTTTTTAATA
*
63635 ATAAAACTATTATTATATTT
1 ATAAAAATATTATTATATTT
*
63655 ATAATAATATT-TTA-ATTT
1 ATAAAAATATTATTATATTT
63673 A-AAAAATAT
1 ATAAAAATAT
63682 CAATATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 7 0.29
18 5 0.21
19 3 0.12
20 9 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAAATATTATTATATTT
Found at i:63893 original size:28 final size:26
Alignment explanation
Indices: 63861--63922 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
63851 TTTTTATAAG
*
63861 TCAAAAAATAATATTTTCATAATTTATT
1 TCAAAAAAT--TATTTTAATAATTTATT
63889 TCAAATTAAATTATTTTAATAATTTATT
1 TCAAA--AAATTATTTTAATAATTTATT
63917 T-AAAAA
1 TCAAAAA
63923 TTAAAAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 2 0.06
27 3 0.10
28 22 0.71
30 4 0.13
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (26 bp):
TCAAAAAATTATTTTAATAATTTATT
Found at i:63894 original size:25 final size:28
Alignment explanation
Indices: 63872--63927 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
63862 CAAAAAATAA
*
63872 TATTTTCATAATTTATTTCAAATTAAAT
1 TATTTTAATAATTTATTTCAAATTAAAT
*
63900 TATTTTAATAATTTATTTAAAAATTAAA
1 TATTTTAATAATTTATTT-CAAATTAAA
63928 AATACTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTTTAATAATTTATTTCAAATTAAAT
Found at i:64507 original size:5 final size:5
Alignment explanation
Indices: 64497--64529 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
64487 CTCCGATGTT
*
64497 ATGGA ATGGA ATGGA ATGAA ATGGA ATGGA ATG
1 ATGGA ATGGA ATGGA ATGGA ATGGA ATGGA ATG
64530 CAATTAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.21
Consensus pattern (5 bp):
ATGGA
Found at i:65238 original size:16 final size:16
Alignment explanation
Indices: 65207--65252 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
65197 TAGATATAAA
65207 ATTAATTAA-T-TTTT
1 ATTAATTAATTATTTT
65221 ATTAATTAATTATTTT
1 ATTAATTAATTATTTT
*
65237 ATTTTATT-ATTATTTT
1 A-TTAATTAATTATTTT
65253 TTGTTTTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 9 0.32
15 1 0.04
16 13 0.46
17 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTAATTAATTATTTT
Found at i:65253 original size:17 final size:17
Alignment explanation
Indices: 65206--65253 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
65196 GTAGATATAA
65206 AATTAATTAATTTTTATT
1 AATTAATT-ATTTTTATT
65224 AATTAATTA-TTTTATTT
1 AATTAATTATTTTTA-TT
*
65241 TATT-ATTATTTTT
1 AATTAATTATTTTT
65254 TGTTTTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 9 0.33
17 10 0.37
18 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTAATTATTTTTATT
Found at i:78805 original size:2 final size:2
Alignment explanation
Indices: 78800--78827 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
78790 GTATAGTTTT
78800 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
78828 CCCTCCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:79116 original size:20 final size:20
Alignment explanation
Indices: 79091--79165 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
79081 TTTTACCTTG
*
79091 ATATATCGATACATTTTTTA
1 ATATATCGATACATTTTTCA
* * *
79111 ATATATCGATACATGTATGA
1 ATATATCGATACATTTTTCA
* * * *
79131 ATGTATCGATATATTCTACA
1 ATATATCGATACATTTTTCA
*
79151 ATGTATCGATACATT
1 ATATATCGATACATT
79166 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (20 bp):
ATATATCGATACATTTTTCA
Found at i:80102 original size:23 final size:23
Alignment explanation
Indices: 80075--80126 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
80065 AGCCTTTGAC
80075 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
80098 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
*
80120 CGTGCAT
1 CATGCAT
80127 CTTTAACATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.60
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:88602 original size:49 final size:49
Alignment explanation
Indices: 88532--88645 Score: 165
Period size: 49 Copynumber: 2.3 Consensus size: 49
88522 ACTCTATTGT
* * * *
88532 ATTTTAGTGAACTAAATATTCACATTATTTAATATTTATATAATAATAA
1 ATTTTAGTAAACCAAACATTCACATTATTTAATATTTACATAATAATAA
* *
88581 ATTTTAGTAAACCAAACATTCACATTATTTAATATTTACATAATGATGA
1 ATTTTAGTAAACCAAACATTCACATTATTTAATATTTACATAATAATAA
*
88630 ATTATAGTAAACCAAA
1 ATTTTAGTAAACCAAA
88646 GATGCATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (49 bp):
ATTTTAGTAAACCAAACATTCACATTATTTAATATTTACATAATAATAA
Found at i:90300 original size:2 final size:2
Alignment explanation
Indices: 90295--90334 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
90285 GCGTGTGTGC
90295 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90335 TCTCAAACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91494 original size:27 final size:27
Alignment explanation
Indices: 91444--91500 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
91434 AAACAACATG
*
91444 CCACCATTTTTGACAAATAAAAAGAAA
1 CCACCATTTTTGACAAACAAAAAGAAA
* *
91471 CCACCATTTTTGACAAACACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAGAAA
91498 CCA
1 CCA
91501 ATCAAACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.25, G:0.07, T:0.21
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGAAA
Found at i:95221 original size:16 final size:16
Alignment explanation
Indices: 95200--95230 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
95190 GTAATGTGAT
95200 CATTCATAGTGGTACG
1 CATTCATAGTGGTACG
95216 CATTCATAGTGGTAC
1 CATTCATAGTGGTAC
95231 CTACAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (16 bp):
CATTCATAGTGGTACG
Found at i:96053 original size:27 final size:26
Alignment explanation
Indices: 96016--96089 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 26
96006 AATAACATAC
*
96016 CATTATTTTTGACAAATAAAAAGAAA-
1 CATTATTTTTGATAAATAAAAA-AAAT
96042 CTATTATTTTTGATAAATACAAAAAAAT
1 C-ATTATTTTTGATAAATA-AAAAAAAT
*
96070 CACTATTTTTGATAAATAAA
1 CATTATTTTTGATAAATAAA
96090 TTGTGACTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 3 0.07
27 35 0.81
28 5 0.12
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.36
Consensus pattern (26 bp):
CATTATTTTTGATAAATAAAAAAAAT
Found at i:104549 original size:2 final size:2
Alignment explanation
Indices: 104538--104571 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
104528 TCACATTTAT
104538 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104572 TGACAGGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:107010 original size:151 final size:150
Alignment explanation
Indices: 106545--107053 Score: 455
Period size: 152 Copynumber: 3.3 Consensus size: 150
106535 AAAATGCCTT
* * *
106545 TAGGGGATACATTCGACGTATAAGTAC-CTGATACCCCTAAAGGACTTAAAAAGATCTATAAAAA
1 TAGGAGATACATTTGACGTAAAAGTACTC-GATACCCCTAAAGGACTT-AAAAGATC-ATAAAAA
* * * * * * *
106609 TGATGAACATATCCTAA-AGACCCACATTTGACATAAAAAC-AGACCTTGTGATAATCTAAAACT
63 -GATGAACATATCCTAACA-A-CCACCTTCGGCATAAAAGCGA-ACC-TGTGACAACCTAAGACT
* ***
106672 CGATTCTAAAAAATTATCAAAATGCCCC
123 CGATTCTAAAAAATTATAAAAATATTCC
* * * * * *
106700 TA-GAGGTATATTTCGACGTGAAAGTATCTCGGTACCCCTAAAGGACTTAAAAGATTA-AAAAAT
1 TAGGAGATACATTT-GACGTAAAAGTA-CTCGATACCCCTAAAGGACTTAAAAGATCATAAAAAG
* * * * * * *
106763 ATGTACTTACCCTAACTACCTACCTTCGGTATAAAAGCGGACCTGATGACAACCT-AGAACTCGG
64 ATGAACATATCCTAACAACC-ACCTTCGGCATAAAAGCGAACCTG-TGACAACCTAAG-ACTCGA
* *
106827 TTCTGAAAAATTATAAAAATGCTT-C
126 TTCTAAAAAATTATAAAAAT-ATTCC
* *
106852 T-GAGAGATACCTTTGACGTAAAAGTACTCGATACTCCTAAA-GAC-TAAAAGGGATCATAAAAA
1 TAG-GAGATACATTTGACGTAAAAGTACTCGATACCCCTAAAGGACTTAAAA--GATCATAAAAA
* *
106914 GATGAACCTATCCTAACAATCCACCTTCGGCATAAAAGCGAACCAGTGACAACCTAAGACTCGAT
63 GATGAACATATCCTAACAA-CCACCTTCGGCATAAAAGCGAACCTGTGACAACCTAAGACTCGAT
106979 TCTAAAAAATTATAAAAATATTCC
127 TCTAAAAAATTATAAAAATATTCC
* *
107003 TAGGAGATACATTTGACGTAAAAGTACCCAATACCCCTAAA-GACCTTAAAA
1 TAGGAGATACATTTGACGTAAAAGTACTCGATACCCCTAAAGGA-CTTAAAA
107054 AATTAGAAAT
Statistics
Matches: 284, Mismatches: 50, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
149 5 0.02
150 5 0.02
151 93 0.33
152 115 0.40
153 20 0.07
154 8 0.03
155 19 0.07
156 18 0.06
157 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (150 bp):
TAGGAGATACATTTGACGTAAAAGTACTCGATACCCCTAAAGGACTTAAAAGATCATAAAAAGAT
GAACATATCCTAACAACCACCTTCGGCATAAAAGCGAACCTGTGACAACCTAAGACTCGATTCTA
AAAAATTATAAAAATATTCC
Found at i:107629 original size:8 final size:8
Alignment explanation
Indices: 107616--107650 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
107606 AAGAATTTTG
107616 TTTATTAT
1 TTTATTAT
107624 TTTATT-T
1 TTTATTAT
107631 TATTATTAT
1 T-TTATTAT
107640 TTTATTAT
1 TTTATTAT
107648 TTT
1 TTT
107651 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 2 0.08
8 21 0.84
9 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTATTAT
Found at i:107641 original size:11 final size:11
Alignment explanation
Indices: 107620--107653 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
107610 ATTTTGTTTA
107620 TTATT-TTATT
1 TTATTATTATT
107630 TTATTATTATT
1 TTATTATTATT
107641 TTATTATT-TT
1 TTATTATTATT
107651 TTA
1 TTA
107654 AAATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTATTATT
Found at i:109225 original size:21 final size:21
Alignment explanation
Indices: 109201--109272 Score: 83
Period size: 21 Copynumber: 3.2 Consensus size: 21
109191 ATGACGTGAA
109201 AAATGAAAGAAAGTATGCATG
1 AAATGAAAGAAAGTATGCATG
109222 AAATGAAATGAACA-TATGCATATG
1 AAATGAAA-GAA-AGTATGC--ATG
109246 AAACATGAAAGAAAGTATGCATG
1 -AA-ATGAAAGAAAGTATGCATG
109269 AAAT
1 AAAT
109273 TGTTTACTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
21 10 0.23
22 10 0.23
23 4 0.09
24 4 0.09
25 10 0.23
26 6 0.14
ACGTcount: A:0.53, C:0.07, G:0.19, T:0.21
Consensus pattern (21 bp):
AAATGAAAGAAAGTATGCATG
Found at i:109410 original size:17 final size:16
Alignment explanation
Indices: 109364--109432 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 16
109354 TTTTCATGTT
109364 TTTTTAATGTTTATTA
1 TTTTTAATGTTTATTA
*
109380 TTATTT--TTTTTATTA
1 TT-TTTAATGTTTATTA
109395 TTTTTAATGATTTATTA
1 TTTTTAATG-TTTATTA
*
109412 TTTTTAATTTTTGATT-
1 TTTTTAATGTTT-ATTA
109428 TTTTT
1 TTTTT
109433 GATTTTTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
14 3 0.07
15 10 0.22
16 11 0.24
17 21 0.47
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTTAATGTTTATTA
Found at i:109423 original size:8 final size:8
Alignment explanation
Indices: 109412--109525 Score: 61
Period size: 8 Copynumber: 13.8 Consensus size: 8
109402 TGATTTATTA
109412 TTTTTAAT
1 TTTTTAAT
* *
109420 TTTTGATT
1 TTTTTAAT
*
109428 TTTTTGATT
1 TTTTT-AAT
*
109437 TTTTTGATT
1 TTTTT-AAT
*
109446 TTTTTGAT
1 TTTTTAAT
*
109454 TTCTTTGA-
1 TT-TTTAAT
*
109462 TTTTTGAT
1 TTTTTAAT
*
109470 TTTTTGAT
1 TTTTTAAT
*
109478 TTTTTGAT
1 TTTTTAAT
109486 TTTTTAATT
1 TTTTTAA-T
*
109495 ATTATTTTAT
1 -TT-TTTAAT
109505 TTTTT-AT
1 TTTTTAAT
*
109512 TTTTTATT
1 TTTTTAAT
109520 TTTTTA
1 TTTTTA
109526 CTTATTATTA
Statistics
Matches: 91, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
7 12 0.13
8 47 0.52
9 25 0.27
10 3 0.03
11 4 0.04
ACGTcount: A:0.16, C:0.01, G:0.07, T:0.76
Consensus pattern (8 bp):
TTTTTAAT
Found at i:109480 original size:6 final size:7
Alignment explanation
Indices: 109402--109489 Score: 61
Period size: 9 Copynumber: 11.1 Consensus size: 7
109392 TTATTTTTAA
109402 TGATTTAT
1 TGATTT-T
109410 T-ATTTT
1 TGATTTT
*
109416 TAATTTT
1 TGATTTT
109423 TGATTTTTT
1 TGA--TTTT
109432 TGATTTTTT
1 TGA--TTTT
109441 TGATTTTTT
1 TGA--TTTT
109450 TGATTTCTT
1 TGA-TT-TT
109459 TGATTTT
1 TGATTTT
109466 TGATTTTT
1 TGA-TTTT
109474 TGATTTTT
1 TGA-TTTT
109482 TGATTTT
1 TGATTTT
109489 T
1 T
109490 TAATTATTAT
Statistics
Matches: 74, Mismatches: 1, Indels: 11
0.86 0.01 0.13
Matches are distributed among these distances:
6 2 0.03
7 21 0.28
8 21 0.28
9 30 0.41
ACGTcount: A:0.15, C:0.01, G:0.10, T:0.74
Consensus pattern (7 bp):
TGATTTT
Found at i:109508 original size:19 final size:19
Alignment explanation
Indices: 109484--109541 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
109474 TGATTTTTTG
*
109484 ATTTTTTAATTATTATTTT
1 ATTTTTTAATTATTATTAT
109503 ATTTTTT-ATT-TT-TTAT
1 ATTTTTTAATTATTATTAT
*
109519 -TTTTTTACTTATTATTAT
1 ATTTTTTAATTATTATTAT
109537 ATTTT
1 ATTTT
109542 ATATCGAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 6 0.18
16 5 0.15
17 4 0.12
18 7 0.21
19 11 0.33
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
ATTTTTTAATTATTATTAT
Found at i:109511 original size:7 final size:7
Alignment explanation
Indices: 109363--109523 Score: 85
Period size: 7 Copynumber: 20.9 Consensus size: 7
109353 TTTTTCATGT
109363 TTTTTTAA
1 TTTTTT-A
109371 TGTTTATTA
1 T-TTT-TTA
109380 TTATTTT-
1 TT-TTTTA
109387 TTTTATTA
1 TTTT-TTA
109395 TTTTTAATGA
1 TTTTT--T-A
*
109405 TTTATTA
1 TTTTTTA
*
109412 TTTTTAA
1 TTTTTTA
*
109419 TTTTTGA
1 TTTTTTA
109426 TTTTTTTGA
1 -TTTTTT-A
109435 TTTTTTTGA
1 -TTTTTT-A
109444 TTTTTTTGA
1 -TTTTTT-A
109453 TTTCTTTGA
1 TTT-TTT-A
*
109462 TTTTTGA
1 TTTTTTA
109469 TTTTTTGA
1 TTTTTT-A
109477 TTTTTTGA
1 TTTTTT-A
109485 TTTTTTA
1 TTTTTTA
* *
109492 ATTATTA
1 TTTTTTA
109499 --TTTTA
1 TTTTTTA
109504 TTTTTTA
1 TTTTTTA
109511 TTTTTTA
1 TTTTTTA
109518 TTTTTT
1 TTTTTT
109524 TACTTATTAT
Statistics
Matches: 129, Mismatches: 10, Indels: 29
0.77 0.06 0.17
Matches are distributed among these distances:
5 4 0.03
6 2 0.02
7 47 0.36
8 34 0.26
9 35 0.27
10 7 0.05
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (7 bp):
TTTTTTA
Found at i:110087 original size:21 final size:21
Alignment explanation
Indices: 110048--110087 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
110038 AAAAATTCGA
*
110048 TTAATTAATTCGAATTTGAAC
1 TTAATTAATTCGAAGTTGAAC
110069 TTAATTCAATTCG-AGTTGA
1 TTAATT-AATTCGAAGTTGA
110088 TCAAAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (21 bp):
TTAATTAATTCGAAGTTGAAC
Found at i:110157 original size:16 final size:16
Alignment explanation
Indices: 110117--110178 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
110107 AAATCGATTT
*
110117 ATCTGAACTCGAAAATG
1 ATCTGAACT-TAAAATG
* *
110134 ATCCGAACTTAAAATA
1 ATCTGAACTTAAAATG
*
110150 ATCTGAACCTAAAATG
1 ATCTGAACTTAAAATG
110166 ATCTGAACTTAAA
1 ATCTGAACTTAAA
110179 TTAAATATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
16 30 0.79
17 8 0.21
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (16 bp):
ATCTGAACTTAAAATG
Found at i:110164 original size:32 final size:33
Alignment explanation
Indices: 110117--110178 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
110107 AAATCGATTT
110117 ATCTGAACTCGAAAATGATCCGAACTTAAAATA
1 ATCTGAACTCGAAAATGATCCGAACTTAAAATA
* *
110150 ATCTGAAC-CTAAAATGATCTGAACTTAAA
1 ATCTGAACTCGAAAATGATCCGAACTTAAA
110179 TTAAATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (33 bp):
ATCTGAACTCGAAAATGATCCGAACTTAAAATA
Found at i:111025 original size:16 final size:16
Alignment explanation
Indices: 111004--111034 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
110994 TTGATCCGAA
111004 TTTAAAATAATTCAAC
1 TTTAAAATAATTCAAC
111020 TTTAAAATAATTCAA
1 TTTAAAATAATTCAA
111035 ATCTATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (16 bp):
TTTAAAATAATTCAAC
Found at i:111046 original size:17 final size:16
Alignment explanation
Indices: 111006--111047 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
110996 GATCCGAATT
* *
111006 TAAAATAATTCAACTT
1 TAAAATAATTCAAATC
111022 TAAAATAATTCAAATC
1 TAAAATAATTCAAATC
111038 TATAAATAAT
1 TA-AAATAAT
111048 CTAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAATAATTCAAATC
Found at i:111076 original size:16 final size:16
Alignment explanation
Indices: 111048--111100 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
111038 TATAAATAAT
*
111048 CTAAAAAT-TTTTAAA
1 CTAAAAATAATTTAAA
111063 CTAAAAATAATTT-AA
1 CTAAAAATAATTTAAA
* *
111078 TTTAAAATAATTTAAA
1 CTAAAAATAATTTAAA
111094 CTAAAAA
1 CTAAAAA
111101 AACAAGCCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 21 0.68
16 10 0.32
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (16 bp):
CTAAAAATAATTTAAA
Found at i:111550 original size:6 final size:6
Alignment explanation
Indices: 111535--111602 Score: 81
Period size: 6 Copynumber: 11.8 Consensus size: 6
111525 AGCTGGAGTC
* *
111535 GAAGAC GAAGTT GAAG-T GGAAGAT GAAGAT G-A-A- GAAGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT -GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
111580 GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGA
111603 CGACGCCGAC
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 3 0.05
6 48 0.87
7 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.35, T:0.15
Consensus pattern (6 bp):
GAAGAT
Found at i:111573 original size:15 final size:15
Alignment explanation
Indices: 111553--111602 Score: 73
Period size: 15 Copynumber: 3.1 Consensus size: 15
111543 AGTTGAAGTG
111553 GAAGATGAAGATGAA
1 GAAGATGAAGATGAA
111568 GAAGATGAAGATGAAGA
1 GAAGATGAAGATG-A-A
111585 TGAAGATGAAGATGAA
1 -GAAGATGAAGATGAA
111601 GA
1 GA
111603 CGACGCCGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 15 0.47
16 2 0.06
17 2 0.06
18 13 0.41
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (15 bp):
GAAGATGAAGATGAA
Found at i:113065 original size:2 final size:2
Alignment explanation
Indices: 113058--113093 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
113048 CAATTTGGAT
113058 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
113094 AGTCTGTTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:120234 original size:2 final size:2
Alignment explanation
Indices: 120227--120259 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
120217 TTAAGCATTC
120227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120260 TATGAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121080 original size:6 final size:6
Alignment explanation
Indices: 121069--121098 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
121059 ACTCTCTGTA
121069 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
121099 GGTTACTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTC
Found at i:124139 original size:3 final size:3
Alignment explanation
Indices: 124131--124174 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
124121 TCCACAAGCA
124131 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
124175 TTTTGCAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:125426 original size:2 final size:2
Alignment explanation
Indices: 125419--125451 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
125409 TGTCACAAAG
125419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
125452 ATTACTACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:125585 original size:20 final size:20
Alignment explanation
Indices: 125560--125598 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
125550 ATTATCTATT
*
125560 CATTAATATATTTTGAACTA
1 CATTAATATATTATGAACTA
125580 CATTAATATATTATGAACT
1 CATTAATATATTATGAACT
125599 GACACATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
CATTAATATATTATGAACTA
Found at i:125698 original size:21 final size:20
Alignment explanation
Indices: 125674--125733 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 20
125664 ATTTAAAATA
125674 TTATATTTTGATATAAATTTT
1 TTATATTTT-ATATAAATTTT
*
125695 TTATATATTA-AT-AATTTAT
1 TTATATTTTATATAAATTT-T
*
125714 TT-TATTTTATATATATTTT
1 TTATATTTTATATAAATTTT
125733 T
1 T
125734 ATACGTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 11 0.33
19 9 0.27
20 5 0.15
21 8 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTATATTTTATATAAATTTT
Found at i:125863 original size:23 final size:24
Alignment explanation
Indices: 125837--125887 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
125827 TAAAATAAAT
125837 TTATATAAATT-TTTATATGTTAA
1 TTATATAAATTATTTATATGTTAA
* *
125860 TTAT-TAATTTATTTATATTTTAA
1 TTATATAAATTATTTATATGTTAA
125883 -TATAT
1 TTATAT
125888 TCATGTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
TTATATAAATTATTTATATGTTAA
Found at i:126232 original size:24 final size:23
Alignment explanation
Indices: 126188--126232 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
126178 CGTGTCATAT
* *
126188 TTATTTTTTATATTATGTTTTAA
1 TTATTTTTTATATCATATTTTAA
*
126211 TTATTTTTGTATGTCATATTTT
1 TTATTTTT-TATATCATATTTT
126233 TATTTTTCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (23 bp):
TTATTTTTTATATCATATTTTAA
Found at i:132553 original size:2 final size:2
Alignment explanation
Indices: 132546--132583 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
132536 CTTCAATAAC
132546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
132584 CACACACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:133261 original size:6 final size:6
Alignment explanation
Indices: 133250--133284 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
133240 TAACATCCTA
*
133250 TATTCC TATTCC TATTCC TATTCC TATTCT TATTC
1 TATTCC TATTCC TATTCC TATTCC TATTCC TATTC
133285 ATGTTCCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
TATTCC
Found at i:133291 original size:18 final size:18
Alignment explanation
Indices: 133249--133292 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
133239 CTAACATCCT
133249 ATATTCCTATTCCTATTC
1 ATATTCCTATTCCTATTC
* *
133267 CTATTCCTATTCTTATTC
1 ATATTCCTATTCCTATTC
*
133285 ATGTTCCT
1 ATATTCCT
133293 TTCAGACAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.02, T:0.52
Consensus pattern (18 bp):
ATATTCCTATTCCTATTC
Found at i:137168 original size:2 final size:2
Alignment explanation
Indices: 137161--137200 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
137151 GAATGGGAGC
137161 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
137201 ATGATGTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:137463 original size:21 final size:21
Alignment explanation
Indices: 137431--137490 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
137421 ATATATTTAT
137431 ATTTT-TATTTTTATAAATAAA
1 ATTTTATATTTTTAT-AATAAA
*
137452 ATTTTATATTTTTATAATAAT
1 ATTTTATATTTTTATAATAAA
* * *
137473 TTTTTATATATTAATAAT
1 ATTTTATATTTTTATAAT
137491 TTATTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 25 0.74
22 9 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTATATTTTTATAATAAA
Found at i:137475 original size:34 final size:33
Alignment explanation
Indices: 137411--137476 Score: 78
Period size: 34 Copynumber: 2.0 Consensus size: 33
137401 TTTGATAAAG
** *
137411 TAAAAAAATTATATATTTATATTTTTATTTTTA
1 TAAAAAAATTATATATTTATATAATAATTTTTA
* *
137444 TAAATAAAATTTTATATTTTTATAATAATTTTT
1 TAAA-AAAATTATATATTTATATAATAATTTTT
137477 TATATATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TAAAAAAATTATATATTTATATAATAATTTTTA
Found at i:137487 original size:18 final size:17
Alignment explanation
Indices: 137466--137518 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
137456 TATATTTTTA
137466 TAATAATTTTTTATATAT
1 TAATAATTTTTTATAT-T
137484 TAATAATTTATTT-TATT
1 TAATAATTT-TTTATATT
*
137501 TTATATATATTTTTATAT
1 TAATA-AT-TTTTTATAT
137519 GTATATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.17
18 17 0.57
19 8 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TAATAATTTTTTATATT
Found at i:137511 original size:16 final size:16
Alignment explanation
Indices: 137492--137560 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
137482 ATTAATAATT
*
137492 TATTTTATTTTATATA
1 TATTTTATTATATATA
*
137508 TA-TTT-TTATATGTA
1 TATTTTATTATATATA
*
137522 TATATTTA-TATATGTA
1 TAT-TTTATTATATATA
*
137538 TATTATTTTTATAT-TA
1 TATT-TTATTATATATA
137554 TATTTTA
1 TATTTTA
137561 AAAATTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
14 9 0.20
15 6 0.14
16 24 0.55
17 5 0.11
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TATTTTATTATATATA
Found at i:137529 original size:14 final size:14
Alignment explanation
Indices: 137497--137541 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
137487 TAATTTATTT
137497 TATTT-TATATATA
1 TATTTATATATATA
* *
137510 TTTTTATATGTATA
1 TATTTATATATATA
*
137524 TATTTATATATGTA
1 TATTTATATATATA
137538 TATT
1 TATT
137542 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 4 0.15
14 22 0.85
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TATTTATATATATA
Done.