Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_225
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: 124973
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Found at i:1747 original size:12 final size:11
Alignment explanation
Indices: 1729--1784 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
1719 AGACCGTATG
1729 CAATTTTTTTT
1 CAATTTTTTTT
1740 CAAATTTTTTTTT
1 C-AA-TTTTTTTT
1753 CAATTTTTTTT
1 CAATTTTTTTT
*
1764 CGATTTTTTTT
1 CAATTTTTTTT
*
1775 CGATTTTTTT
1 CAATTTTTTT
1785 AATCTACAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
11 29 0.69
12 4 0.10
13 9 0.21
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.71
Consensus pattern (11 bp):
CAATTTTTTTT
Found at i:2036 original size:30 final size:30
Alignment explanation
Indices: 2002--2098 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
1992 AGCTCACTCC
2002 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
2032 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
2062 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
2092 TAGCTCA
1 TAGCTCA
2099 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:4735 original size:20 final size:20
Alignment explanation
Indices: 4689--4735 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4679 AGCTCGTTTC
*
4689 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
4709 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
4729 CAGCTCA
1 CAGCTCA
4736 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:6228 original size:11 final size:11
Alignment explanation
Indices: 6212--6253 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
6202 TTGGAGTAAC
6212 AAAAAAAATCA
1 AAAAAAAATCA
*
6223 AAAAAAATTCGA
1 AAAAAAAATC-A
*
6235 AAAAAAAATTA
1 AAAAAAAATCA
6246 AAAAAAAA
1 AAAAAAAA
6254 GAAGTGACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (11 bp):
AAAAAAAATCA
Found at i:7269 original size:18 final size:18
Alignment explanation
Indices: 7248--7332 Score: 55
Period size: 18 Copynumber: 4.6 Consensus size: 18
7238 GGAACAAGAA
7248 ATTGAAAAAGAGAGTGAG
1 ATTGAAAAAGAGAGTGAG
*
7266 ATTGAAGAAAGA-AATGAG
1 ATTGAA-AAAGAGAGTGAG
* * **
7284 AGTGTAAAAGAAACGAGTGTC
1 ATTG-AAAA-AGA-GAGTGAG
* * *
7305 ATGGAAAAAGAAATTGAG
1 ATTGAAAAAGAGAGTGAG
7323 ATTGAAAAAG
1 ATTGAAAAAG
7333 GATGTGAAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
18 28 0.58
19 11 0.23
20 4 0.08
21 5 0.10
ACGTcount: A:0.52, C:0.02, G:0.28, T:0.18
Consensus pattern (18 bp):
ATTGAAAAAGAGAGTGAG
Found at i:7408 original size:48 final size:47
Alignment explanation
Indices: 7308--7413 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 47
7298 GAGTGTCATG
*
7308 GAAAAAGAAATTGAGATTGAAAAAGGATGTGAAAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAGGAAGTGAAAAAGAG-AAGAAATC
*
7356 GAAAAAGAAATTGAGATTGAACAAAAGTGTAAG-GAAAAAGAG-A-AAATT
1 GAAAAAGAAATTGAGATTG-A-AAAAG-G-AAGTGAAAAAGAGAAGAAATC
7404 GAAAAAGAAA
1 GAAAAAGAAA
7414 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
48 33 0.63
49 2 0.04
50 5 0.10
51 10 0.19
52 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.24, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAGGAAGTGAAAAAGAGAAGAAATC
Found at i:9130 original size:20 final size:20
Alignment explanation
Indices: 9084--9130 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
9074 AGCTCGTTTC
*
9084 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
9104 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
9124 CAGCTCA
1 CAGCTCA
9131 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:11067 original size:20 final size:20
Alignment explanation
Indices: 11044--11090 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
11034 GGGTTAAGAT
*
11044 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
11064 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
11084 TGAGCTG
1 TGAGCTG
11091 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:13304 original size:13 final size:13
Alignment explanation
Indices: 13288--13320 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
13278 TAAAAAAAAT
13288 AAAAAAAACTT-G
1 AAAAAAAACTTCG
*
13300 AAAAAAAATTTCG
1 AAAAAAAACTTCG
13313 AAAAAAAA
1 AAAAAAAA
13321 ATCAAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAAAAAACTTCG
Found at i:13414 original size:28 final size:28
Alignment explanation
Indices: 13373--13439 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 28
13363 TAGTATTGAA
*
13373 GAAAAAAAGAAGAAAAAAAATTTGGAATT
1 GAAAAAAAGAAGAAAAAAAA-TTGAAATT
13402 -AAAAAAAGAAG-AAAAAAATTGAAATT
1 GAAAAAAAGAAGAAAAAAAATTGAAATT
13428 GAAAAAAA-AAGA
1 GAAAAAAAGAAGA
13440 GTGATTGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
26 10 0.29
27 14 0.40
28 11 0.31
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (28 bp):
GAAAAAAAGAAGAAAAAAAATTGAAATT
Found at i:14447 original size:10 final size:10
Alignment explanation
Indices: 14423--14471 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
14413 AGCTCGTTTC
*
14423 CAGCTCACTT
1 CAGCTCAATT
* *
14433 GAGCTCAAGT
1 CAGCTCAATT
14443 CAGCTC-ATT
1 CAGCTCAATT
14452 CGAGCTCAATT
1 C-AGCTCAATT
14463 CAGCTCAAT
1 CAGCTCAAT
14472 CTTAACCCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 25 0.78
11 4 0.12
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:14448 original size:20 final size:20
Alignment explanation
Indices: 14423--14469 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
14413 AGCTCGTTTC
14423 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGCTCAAGT
*
14443 CAGCTCATTCGAGCTCAATT
1 CAGCTCATTCGAGCTCAAGT
14463 CAGCTCA
1 CAGCTCA
14470 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGCTCAAGT
Found at i:17540 original size:10 final size:11
Alignment explanation
Indices: 17518--17542 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17508 AAAAAAATTG
17518 AAATTCAAAAA
1 AAATTCAAAAA
17529 AAATTCAAAAA
1 AAATTCAAAAA
17540 AAA
1 AAA
17543 GAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:17552 original size:25 final size:25
Alignment explanation
Indices: 17524--17576 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
17514 ATTGAAATTC
*
17524 AAAAAAAATTCAAAAAAAAGAAAAA
1 AAAAAAAAGTCAAAAAAAAGAAAAA
* * **
17549 AAAAAGAAGTGAGCAAAAAGAAAAA
1 AAAAAAAAGTCAAAAAAAAGAAAAA
17574 AAA
1 AAA
17577 GTAAAAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.79, C:0.04, G:0.11, T:0.06
Consensus pattern (25 bp):
AAAAAAAAGTCAAAAAAAAGAAAAA
Found at i:18654 original size:15 final size:15
Alignment explanation
Indices: 18629--18675 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
18619 AGAAAAGAAT
18629 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
18645 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
18660 AAA-AATATGAAAATG
1 AAAGAA-ATGAAAATG
18675 A
1 A
18676 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:18722 original size:12 final size:12
Alignment explanation
Indices: 18705--18767 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
18695 AGTGAAAAGC
*
18705 AAAAAGAGATTG
1 AAAAAGAAATTG
18717 AAAAAGAAATTG
1 AAAAAGAAATTG
*
18729 AAAGAG-AA--G
1 AAAAAGAAATTG
*
18738 AAAAAGAAAGAGTGG
1 AAAAAG-AA-A-TTG
18753 AAAAAGAAATTG
1 AAAAAGAAATTG
18765 AAA
1 AAA
18768 GAGAGCCTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
9 6 0.15
11 3 0.07
12 22 0.54
13 1 0.02
14 2 0.05
15 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.11
Consensus pattern (12 bp):
AAAAAGAAATTG
Found at i:18746 original size:15 final size:15
Alignment explanation
Indices: 18728--18761 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18718 AAAAGAAATT
18728 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
18743 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
18758 GAAA
1 GAAA
18762 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:20681 original size:10 final size:10
Alignment explanation
Indices: 20657--20705 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
20647 AGCTCGTTTC
*
20657 CAGCTCACTT
1 CAGCTCAATT
* *
20667 GAGCTCAAGT
1 CAGCTCAATT
20677 CAGCTC-ATT
1 CAGCTCAATT
20686 CAAGCTCAATT
1 C-AGCTCAATT
20697 CAGCTCAAT
1 CAGCTCAAT
20706 CTTAATGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 25 0.78
11 4 0.12
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:22626 original size:12 final size:13
Alignment explanation
Indices: 22574--22623 Score: 73
Period size: 13 Copynumber: 3.7 Consensus size: 13
22564 ATAGGTACGT
*
22574 AAAAAAAAGAGTTCG
1 AAAAAAAA-AATT-G
22589 AAAAAAAAAATTG
1 AAAAAAAAAATTG
22602 AAAAAAAAAATTG
1 AAAAAAAAAATTG
22615 AAAAAAAAA
1 AAAAAAAAA
22624 TTGCATACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
13 23 0.68
14 3 0.09
15 8 0.24
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (13 bp):
AAAAAAAAAATTG
Found at i:23661 original size:5 final size:5
Alignment explanation
Indices: 23651--23713 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
23641 AAGAGAAAAC
*
23651 AAAGA AAAGA AAAGAA AAAGA AAA-A GAAAGA GAAGAA AAAGAA AAAGA
1 AAAGA AAAGA AAAG-A AAAGA AAAGA -AAAGA AAAG-A AAAG-A AAAGA
23699 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
23714 GAGGCAAGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 2 0.04
5 31 0.62
6 17 0.34
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:23692 original size:37 final size:37
Alignment explanation
Indices: 23640--23711 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 37
23630 ACATTCTTGT
23640 AAAGAGAAAACAAAG-AAAAGAAAAGAAAAAGAAAAAG
1 AAAGAGAAAACAAAGAAAAAG-AAAGAAAAAGAAAAAG
*
23677 AAAGAGAAGAA-AAAGAAAAAGAAATAAAAAGAAAA
1 AAAGAGAA-AACAAAGAAAAAGAAAGAAAAAGAAAA
23712 GAGAGGCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.78
38 7 0.22
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (37 bp):
AAAGAGAAAACAAAGAAAAAGAAAGAAAAAGAAAAAG
Found at i:23711 original size:6 final size:6
Alignment explanation
Indices: 23651--23700 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
23641 AAGAGAAAAC
23651 AAAG-A AAAG-A AAAGAA AAAGAA AAAGAAA GAGAAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
23700 A
1 A
23701 TAAAAAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
5 9 0.22
6 23 0.56
7 3 0.07
8 3 0.07
9 3 0.07
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:23713 original size:21 final size:21
Alignment explanation
Indices: 23651--23711 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
23641 AAGAGAAAAC
23651 AAAGAAAAGAAAAGAAAAAGAA
1 AAAGAAAA-AAAAGAAAAAGAA
* *
23673 AAAGAAAGAGAAGAAAAAGAA
1 AAAGAAAAAAAAGAAAAAGAA
23694 AAAGAAATAAAAAGAAAA
1 AAAGAAA-AAAAAGAAAA
23712 GAGAGGCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAAAAGAAAAAGAA
Found at i:23793 original size:11 final size:12
Alignment explanation
Indices: 23761--23791 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
23751 TTGAGAGAAC
23761 TTGAAAAAGCCT
1 TTGAAAAAGCCT
23773 TTGAAAAAGCCT
1 TTGAAAAAGCCT
23785 TTGAAAA
1 TTGAAAA
23792 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:26007 original size:30 final size:30
Alignment explanation
Indices: 25971--26067 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
25961 AGCTCACTCC
*
25971 TAGCTCATA-TTTAGCTCACAAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
26001 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
26031 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
26061 TAGCTCA
1 TAGCTCA
26068 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:29062 original size:21 final size:18
Alignment explanation
Indices: 29038--29082 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
29028 ACGAGAGTAC
29038 AAAAGAAATGAGTGATGTGA
1 AAAAGAAA-GAG-GATGTGA
*
29058 TAAAAGAAAGAGGATTTGA
1 -AAAAGAAAGAGGATGTGA
29077 AAAAGA
1 AAAAGA
29083 GTTTGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 3 0.13
21 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.18
Consensus pattern (18 bp):
AAAAGAAAGAGGATGTGA
Found at i:33689 original size:14 final size:13
Alignment explanation
Indices: 33670--33705 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
33660 AAAGAGTTCG
33670 AAAAAAAAATTGA
1 AAAAAAAAATTGA
33683 AAAAAAAAATTGA
1 AAAAAAAAATTGA
33696 AAAGAAAAAA
1 AAA-AAAAAA
33706 AAATTGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (13 bp):
AAAAAAAAATTGA
Found at i:39443 original size:22 final size:22
Alignment explanation
Indices: 39418--39461 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
39408 TTGTAGATTC
39418 AAAAAAAA-AGAAATAAAAAATT
1 AAAAAAAATAGAAA-AAAAAATT
*
39440 AAAAAAAATTGAAAAAAAAATT
1 AAAAAAAATAGAAAAAAAAATT
39462 TTGAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (22 bp):
AAAAAAAATAGAAAAAAAAATT
Found at i:39474 original size:14 final size:14
Alignment explanation
Indices: 39440--39475 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
39430 ATAAAAAATT
39440 AAAAAAAA--TTGA
1 AAAAAAAATTTTGA
39452 AAAAAAAATTTTGA
1 AAAAAAAATTTTGA
39466 AAAAAAAATT
1 AAAAAAAATT
39476 GCATACGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.36
14 14 0.64
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (14 bp):
AAAAAAAATTTTGA
Found at i:39524 original size:99 final size:99
Alignment explanation
Indices: 39412--39626 Score: 346
Period size: 99 Copynumber: 2.2 Consensus size: 99
39402 CATAAATTGT
* *
39412 AGATTCAAAAAAAAAGAAATAAAAAAT-TAAAAAAAATTG-AAAAAAAAATTTTGAAAAAAAAAT
1 AGATTCATAAAAAAA-AAA-AAAAAATCAAAAAAAAATTGAAAAAAAAAATTTTGAAAAAAAAAT
39475 TGCATACGGTCTAGGTGCGGACGAAAAGAACGTGAA
64 TGCATACGGTCTAGGTGCGGACGAAAAGAACGTGAA
*
39511 AGATTCAT-AAAAAATAAAAAAAATCGAAAAAAAAATTGAAAAAAAAAATTTTGAAAAAAAAATT
1 AGATTCATAAAAAAAAAAAAAAAATC-AAAAAAAAATTGAAAAAAAAAATTTTGAAAAAAAAATT
39575 GCATACGGTCTAGGTGCGGACGAAAAGAACGTGAA
65 GCATACGGTCTAGGTGCGGACGAAAAGAACGTGAA
*
39610 AGATCCATAAAAAAAAA
1 AGATTCATAAAAAAAAA
39627 GAGTCTGGAG
Statistics
Matches: 107, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
96 7 0.07
97 2 0.02
98 17 0.16
99 74 0.69
100 7 0.07
ACGTcount: A:0.59, C:0.08, G:0.15, T:0.18
Consensus pattern (99 bp):
AGATTCATAAAAAAAAAAAAAAAATCAAAAAAAAATTGAAAAAAAAAATTTTGAAAAAAAAATTG
CATACGGTCTAGGTGCGGACGAAAAGAACGTGAA
Found at i:39544 original size:13 final size:12
Alignment explanation
Indices: 39526--39557 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
39516 CATAAAAAAT
39526 AAAAAAAATCGA
1 AAAAAAAATCGA
*
39538 AAAAAAAATTGA
1 AAAAAAAATCGA
39550 AAAAAAAA
1 AAAAAAAA
39558 ATTTTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.81, C:0.03, G:0.06, T:0.09
Consensus pattern (12 bp):
AAAAAAAATCGA
Found at i:39558 original size:13 final size:13
Alignment explanation
Indices: 39526--39572 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 13
39516 CATAAAAAAT
*
39526 AAAAAAAATCG-A
1 AAAAAAAATTGAA
39538 AAAAAAAATTGAA
1 AAAAAAAATTGAA
39551 AAAAAAAATTTTGAA
1 AAAAAAAA--TTGAA
39566 AAAAAAA
1 AAAAAAA
39573 TTGCATACGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 10 0.32
13 9 0.29
15 12 0.39
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAAAAAATTGAA
Found at i:39573 original size:14 final size:14
Alignment explanation
Indices: 39536--39574 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
39526 AAAAAAAATC
39536 GAAAAAAAAA--TT
1 GAAAAAAAAATTTT
39548 GAAAAAAAAAATTTT
1 G-AAAAAAAAATTTT
39563 GAAAAAAAAATT
1 GAAAAAAAAATT
39575 GCATACGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 9 0.38
14 11 0.46
15 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (14 bp):
GAAAAAAAAATTTT
Found at i:47542 original size:46 final size:46
Alignment explanation
Indices: 47490--47583 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
47480 CAAAGAAAAG
*
47490 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
47536 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
47582 AC
1 AC
47584 GCCACACTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:50304 original size:19 final size:18
Alignment explanation
Indices: 50268--50307 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50258 TTTCCACTCG
*
50268 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
50286 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
50305 TTT
1 TTT
50308 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:52700 original size:30 final size:30
Alignment explanation
Indices: 52666--52762 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
52656 TAAACTAAAA
*
52666 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
52696 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
*
52726 TGAGCTAAGGTTTAGCTCGTGAGGTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
52755 ATGAGCTA
1 -TGAGCTA
52763 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:54460 original size:22 final size:22
Alignment explanation
Indices: 54432--54475 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
54422 TTTTGAACCA
54432 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
54454 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
54476 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:54843 original size:15 final size:14
Alignment explanation
Indices: 54823--54878 Score: 94
Period size: 14 Copynumber: 3.9 Consensus size: 14
54813 ACTAGCTCTC
54823 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
54837 TTTTTTTTCACAATT
1 TTTTTTTTCACAA-T
*
54852 TTTTTTTTCAAAAT
1 TTTTTTTTCACAAT
54866 TTTTTTTTCACAA
1 TTTTTTTTCACAA
54879 CTTGATATCC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
14 26 0.67
15 13 0.33
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTTTTCACAAT
Found at i:54866 original size:29 final size:29
Alignment explanation
Indices: 54823--54878 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
54813 ACTAGCTCTC
*
54823 TTTTTTTTCACAATTTTTTTTTCACAATT
1 TTTTTTTTCAAAATTTTTTTTTCACAATT
54852 TTTTTTTTCAAAATTTTTTTTTCACAA
1 TTTTTTTTCAAAATTTTTTTTTCACAA
54879 CTTGATATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTTTTTCAAAATTTTTTTTTCACAATT
Found at i:54937 original size:12 final size:12
Alignment explanation
Indices: 54920--54960 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
54910 AACCAAAAAA
54920 TTTTTTTGAA-T
1 TTTTTTTGAATT
54931 TTTTTTTGAATT
1 TTTTTTTGAATT
* *
54943 TTTTTTCGAGTT
1 TTTTTTTGAATT
54955 TTTTTT
1 TTTTTT
54961 CGAGAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:54964 original size:12 final size:11
Alignment explanation
Indices: 54920--54960 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
54910 AACCAAAAAA
54920 TTTTTTTGAAT
1 TTTTTTTGAAT
54931 TTTTTTTGAAT
1 TTTTTTTGAAT
*
54942 TTTTTTTCGAGT
1 TTTTTTT-GAAT
54954 TTTTTTT
1 TTTTTTT
54961 CGAGAAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:55329 original size:46 final size:46
Alignment explanation
Indices: 55277--55370 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 46
55267 CAAAGAAAAG
* *
55277 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTGTATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
55323 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
55369 AC
1 AC
55371 GCCACACTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:62558 original size:17 final size:18
Alignment explanation
Indices: 62536--62576 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
62526 CATTTCTTTT
62536 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
62553 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
62571 T-TTTTG
1 TCTTTTG
62577 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:64834 original size:12 final size:12
Alignment explanation
Indices: 64807--64848 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
64797 CGTATGCAAT
*
64807 TTTTTTTTTCAAA
1 TTTTTTTTTC-GA
64820 TTTTTTTTTCGA
1 TTTTTTTTTCGA
64832 -TTTTTTTT-GA
1 TTTTTTTTTCGA
64842 TTTTTTT
1 TTTTTTT
64849 AATCTACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 2 0.07
11 14 0.52
12 1 0.04
13 10 0.37
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTCGA
Found at i:64848 original size:13 final size:13
Alignment explanation
Indices: 64803--64839 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
64793 AGACCGTATG
64803 CAATTTTTTTTTT
1 CAATTTTTTTTTT
*
64816 CAAATTTTTTTTT
1 CAATTTTTTTTTT
*
64829 CGATTTTTTTT
1 CAATTTTTTTT
64840 GATTTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (13 bp):
CAATTTTTTTTTT
Found at i:67680 original size:18 final size:19
Alignment explanation
Indices: 67620--67682 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
67610 CAAATGAGAG
67620 AAAAAGAAAAGAGCGAAAAT-A
1 AAAAAGAAAAGA---AAAATCA
* *
67641 CAAAAGAAAAGAAAAATGA
1 AAAAAGAAAAGAAAAATCA
*
67660 AAAAAG-AAAGAAAATTCA
1 AAAAAGAAAAGAAAAATCA
67678 AAAAA
1 AAAAA
67683 AGAGAATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 20 0.54
19 6 0.16
21 11 0.30
ACGTcount: A:0.75, C:0.05, G:0.14, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAATCA
Found at i:67733 original size:14 final size:15
Alignment explanation
Indices: 67704--67733 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
67694 AGAGAGCGAG
67704 AAAAGAAAAAGATGA
1 AAAAGAAAAAGATGA
67719 AAAAGAAAAAG-TGA
1 AAAAGAAAAAGATGA
67733 A
1 A
67734 TGAAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAGATGA
Found at i:70682 original size:20 final size:20
Alignment explanation
Indices: 70659--70705 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
70649 GGGTTAAGAT
*
70659 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
70679 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
70699 TGAGCTG
1 TGAGCTG
70706 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:72664 original size:33 final size:33
Alignment explanation
Indices: 72626--72688 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
72616 GATTACTCAC
72626 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
72659 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
72689 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:72701 original size:13 final size:13
Alignment explanation
Indices: 72685--72739 Score: 58
Period size: 13 Copynumber: 4.1 Consensus size: 13
72675 TCAAGCTCTC
72685 TTTCAATTTCTTT
1 TTTCAATTTCTTT
*
72698 TTTCACTTT-TCTT
1 TTTCAATTTCT-TT
72711 TTTCAATTTTCTTT
1 TTTCAA-TTTCTTT
*
72725 TCTTCATTTTCTTT
1 T-TTCAATTTCTTT
72739 T
1 T
72740 CTCTCACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 1 0.03
13 15 0.43
14 14 0.40
15 5 0.14
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCAATTTCTTT
Found at i:72710 original size:14 final size:15
Alignment explanation
Indices: 72691--72750 Score: 74
Period size: 14 Copynumber: 4.2 Consensus size: 15
72681 TCTCTTTCAA
72691 TTTCTTTT-TTCACT
1 TTTCTTTTCTTCACT
*
72705 TTTC-TTT-TTCAAT
1 TTTCTTTTCTTCACT
72718 TTTCTTTTCTTCA-T
1 TTTCTTTTCTTCACT
72732 TTTCTTTTCTCTCACT
1 TTTCTTTTCT-TCACT
72748 TTT
1 TTT
72751 TCGATTTCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
13 12 0.29
14 18 0.44
15 7 0.17
16 4 0.10
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCTTTTCTTCACT
Found at i:72740 original size:26 final size:26
Alignment explanation
Indices: 72685--72739 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
72675 TCAAGCTCTC
72685 TTTCAATTTCTTTTTTCACTTTTCTT
1 TTTCAATTTCTTTTTTCACTTTTCTT
72711 TTTCAATTTTCTTTTCTTCA-TTTTCTT
1 TTTCAA-TTTCTTTT-TTCACTTTTCTT
72738 TT
1 TT
72740 CTCTCACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 6 0.22
27 17 0.63
28 4 0.15
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTCAATTTCTTTTTTCACTTTTCTT
Found at i:72767 original size:18 final size:18
Alignment explanation
Indices: 72746--72803 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
72736 TTTTCTCTCA
72746 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
* * *
72764 CTTTTACAATTTCTTTCT
1 CTTTTTCGATTTCTTTTT
*
72782 C-TTTTCGTTTTCTTTTT
1 CTTTTTCGATTTCTTTTT
*
72799 GTTTT
1 CTTTT
72804 CTTTCAATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.07, C:0.17, G:0.05, T:0.71
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:73837 original size:39 final size:39
Alignment explanation
Indices: 73794--73898 Score: 110
Period size: 39 Copynumber: 2.7 Consensus size: 39
73784 GCAAGACTTT
73794 TCACTTTTTTTTTCTTCTTTTTTTAACTCGATTTTTTTG
1 TCACTTTTTTTTTCTTCTTTTTTTAACTCGATTTTTTTG
* *
73833 TCACTTCTTTTTTT-TCCTTTTTTT--TTCGATTTTTTTG
1 TCACTT-TTTTTTTCTTCTTTTTTTAACTCGATTTTTTTG
*
73870 T-ATTTTTTTGAATTTCTTCTCTTTTTTAA
1 TCACTTTTTT---TTTCTTCT-TTTTTTAA
73899 AATCCAATAC
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
35 4 0.07
36 3 0.06
37 13 0.24
38 3 0.06
39 18 0.33
40 13 0.24
ACGTcount: A:0.10, C:0.14, G:0.05, T:0.70
Consensus pattern (39 bp):
TCACTTTTTTTTTCTTCTTTTTTTAACTCGATTTTTTTG
Found at i:73976 original size:11 final size:11
Alignment explanation
Indices: 73960--73988 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
73950 CCAACTCAAA
73960 TTTTTTTTGA-
1 TTTTTTTTGAC
73970 TTTTTTTTGAC
1 TTTTTTTTGAC
73981 TTTTTTTT
1 TTTTTTTT
73989 ACATTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:76875 original size:33 final size:33
Alignment explanation
Indices: 76837--76899 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
76827 GATTACTCAC
76837 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
76870 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
76900 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:76922 original size:15 final size:13
Alignment explanation
Indices: 76896--76952 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
76886 TCAAGCTCTC
*
76896 TTTCAATTTCTTT
1 TTTCATTTTCTTT
76909 TTTCACTTTT-TCTT
1 TTTCA-TTTTCT-TT
76923 TTTCAATTTTCTTT
1 TTTC-ATTTTCTTT
76937 TCTTCATTTTCTTT
1 T-TTCATTTTCTTT
76951 TT
1 TT
76953 CTCTCACTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 7 0.18
14 26 0.68
15 5 0.13
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCATTTTCTTT
Found at i:76926 original size:27 final size:27
Alignment explanation
Indices: 76896--76953 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
76886 TCAAGCTCTC
76896 TTTCAA-TTTCTTTT-TTCACTTTTTCTT
1 TTTCAATTTTCTTTTCTTCA--TTTTCTT
76923 TTTCAATTTTCTTTTCTTCATTTTCTT
1 TTTCAATTTTCTTTTCTTCATTTTCTT
76950 TTTC
1 TTTC
76954 TCTCACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 17 0.59
28 8 0.28
29 4 0.14
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTCAATTTTCTTTTCTTCATTTTCTT
Found at i:76939 original size:18 final size:17
Alignment explanation
Indices: 76916--77035 Score: 66
Period size: 18 Copynumber: 6.7 Consensus size: 17
76906 TTTTTTCACT
76916 TTTTCTTTTTCAATTTTC
1 TTTTCTTTTTC-ATTTTC
*
76934 TTTTCTTCATTTTCTTTTTC
1 TTTTC-T--TTTTCATTTTC
**
76954 TCTCACTTTTTCGA-TTTC
1 T-TTTCTTTTTC-ATTTTC
* *
76972 TTTTTCTTTTGCAATTTC
1 -TTTTCTTTTTCATTTTC
*
76990 TTTTTCTTTTTCGTTTTC
1 -TTTTCTTTTTCATTTTC
*
77008 TTTT-TGTTTTC-TTTTA
1 TTTTCT-TTTTCATTTTC
*
77024 ATTTCTTTTTCA
1 TTTTCTTTTTCA
77036 ATCTCTTTCT
Statistics
Matches: 80, Mismatches: 12, Indels: 21
0.71 0.11 0.19
Matches are distributed among these distances:
16 13 0.16
17 11 0.14
18 40 0.50
19 2 0.03
20 7 0.09
21 7 0.09
ACGTcount: A:0.08, C:0.17, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTCTTTTTCATTTTC
Found at i:77034 original size:6 final size:6
Alignment explanation
Indices: 76914--77022 Score: 76
Period size: 6 Copynumber: 17.8 Consensus size: 6
76904 TCTTTTTTCA
* * * **
76914 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
76965 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
77013 -GTTTT CTTTT
1 CTTTTT CTTTT
77023 AATTTCTTTT
Statistics
Matches: 75, Mismatches: 25, Indels: 6
0.71 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 59 0.79
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:79882 original size:33 final size:33
Alignment explanation
Indices: 79844--79906 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
79834 GATTACTCAC
79844 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
79877 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
79907 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:79929 original size:15 final size:13
Alignment explanation
Indices: 79903--79959 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
79893 TCAAGCTCTC
*
79903 TTTCAATTTCTTT
1 TTTCATTTTCTTT
79916 TTTCACTTTT-TCTT
1 TTTCA-TTTTCT-TT
79930 TTTCAATTTTCTTT
1 TTTC-ATTTTCTTT
79944 TCTTCATTTTCTTT
1 T-TTCATTTTCTTT
79958 TT
1 TT
79960 CTCTCACTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 7 0.18
14 26 0.68
15 5 0.13
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCATTTTCTTT
Found at i:79933 original size:27 final size:27
Alignment explanation
Indices: 79903--79960 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
79893 TCAAGCTCTC
79903 TTTCAA-TTTCTTTT-TTCACTTTTTCTT
1 TTTCAATTTTCTTTTCTTCA--TTTTCTT
79930 TTTCAATTTTCTTTTCTTCATTTTCTT
1 TTTCAATTTTCTTTTCTTCATTTTCTT
79957 TTTC
1 TTTC
79961 TCTCACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 17 0.59
28 8 0.28
29 4 0.14
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTCAATTTTCTTTTCTTCATTTTCTT
Found at i:80019 original size:18 final size:18
Alignment explanation
Indices: 79921--80024 Score: 84
Period size: 18 Copynumber: 5.6 Consensus size: 18
79911 TCTTTTTTCA
79921 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
79940 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* **
79960 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
79978 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
79996 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
80014 CTTTTTGTTTT
1 CTTTTTCTTTT
80025 CTTTCAATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 1 0.02
18 46 0.70
19 3 0.05
20 8 0.12
21 8 0.12
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:80041 original size:6 final size:6
Alignment explanation
Indices: 79921--80028 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
79911 TCTTTTTTCA
* * * **
79921 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
79972 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
80020 -GTTTT CTTT
1 CTTTTT CTTT
80029 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:80060 original size:81 final size:83
Alignment explanation
Indices: 79906--80060 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 83
79896 AGCTCTCTTT
* * ** *
79906 CAATTTCTTTTTTCACTTTTTCTTTTTCAATTTTCTTTTCTTCATTTTCTTTTTCTCTCACTTTT
1 CAATTTCTTTTTT-ACTTTTTCGTTTTCAATTTTCTTTTCTTCAATTTCTTTTTCAATCACTTTC
*
79971 TCGATTTCTTTTTCTTTTG
65 TCCATTTCTTTTTCTTTTG
* * *
79990 CAATTTC-TTTTT-CTTTTTCGTTTTC-TTTTTGTTTTCTTTCAATTTCTTTTTCAATCTCTTTC
1 CAATTTCTTTTTTACTTTTTCGTTTTCAATTTTCTTTTC-TTCAATTTCTTTTTCAATCACTTTC
*
80052 TCCTTTTCT
65 TCCATTTCT
80061 CGCTCAATGG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
80 9 0.15
81 39 0.65
83 5 0.08
84 7 0.12
ACGTcount: A:0.09, C:0.21, G:0.03, T:0.68
Consensus pattern (83 bp):
CAATTTCTTTTTTACTTTTTCGTTTTCAATTTTCTTTTCTTCAATTTCTTTTTCAATCACTTTCT
CCATTTCTTTTTCTTTTG
Found at i:82880 original size:33 final size:33
Alignment explanation
Indices: 82842--82904 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
82832 GATTACTCAC
82842 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
82875 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
82905 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:82943 original size:18 final size:18
Alignment explanation
Indices: 82919--82962 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
82909 TCTTTTTTCG
* *
82919 CTTTTTCTTTTTCAATTT
1 CTTTTTCATTCTCAATTT
*
82937 TTTTTTCATTCTCAATTT
1 CTTTTTCATTCTCAATTT
82955 CTTTTTCA
1 CTTTTTCA
82963 ATTTTCTTTT
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:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTTCATTCTCAATTT
Found at i:84029 original size:10 final size:9
Alignment explanation
Indices: 84016--84050 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
84006 CTTTTCACTT
84016 TTTTTTGTTC
1 TTTTTT-TTC
84026 TTTTTTTTAC
1 TTTTTTTT-C
84036 TTTTTTTTC
1 TTTTTTTTC
84045 TTTTTT
1 TTTTTT
84051 GCTCACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:84058 original size:21 final size:19
Alignment explanation
Indices: 84016--84064 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 19
84006 CTTTTCACTT
*
84016 TTTTTTGTTCTTTTTTTTAC
1 TTTTTT-TTCTTTTTTTCAC
84036 TTTTTTTTCTTTTTTGCTCAC
1 TTTTTTTTCTTTTTT--TCAC
84057 TTTTTTTT
1 TTTTTTTT
84065 TGAATTTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 9 0.35
20 6 0.23
21 11 0.42
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.80
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTTCAC
Found at i:84061 original size:22 final size:20
Alignment explanation
Indices: 84007--84065 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 20
83997 CTCGCAAGAC
84007 TTTTCACTTTTTTTTGTTCTTT
1 TTTTCAC-TTTTTTT-TTCTTT
*
84029 TTTTTAC-TTTTTTTTCTTT
1 TTTTCACTTTTTTTTTCTTT
84048 TTTGCTCACTTTTTTTTT
1 TTT--TCACTTTTTTTTT
84066 GAATTTCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 9 0.28
20 6 0.19
21 3 0.09
22 14 0.44
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTTCACTTTTTTTTTCTTT
Found at i:86964 original size:40 final size:40
Alignment explanation
Indices: 86906--87222 Score: 447
Period size: 40 Copynumber: 7.8 Consensus size: 40
86896 ATTTGAATTT
* *
86906 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
*
86946 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTG--ATA
* *
86988 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
*
87028 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTG--ATA
* *
87070 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTG--ATA
*
87112 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
*
87152 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGATA
** *
87192 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
87223 TTGTGGTAAT
Statistics
Matches: 253, Mismatches: 18, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
39 3 0.01
40 132 0.52
41 3 0.01
42 115 0.45
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
Found at i:87043 original size:82 final size:82
Alignment explanation
Indices: 86906--87222 Score: 469
Period size: 82 Copynumber: 3.9 Consensus size: 82
86896 ATTTGAATTT
* *
86906 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAA
86971 TTGTGCGAGTTGATATA
66 TTGTGCGAGTTGATATA
* *
86988 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAA
87053 TTGTGCGAGTTGATATA
66 TTGTGCGAGTTGATATA
* * *
87070 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTG--ATATATCCGGGCTAAGACCCGAAGGC
*
87135 AATTGTGCAAGTTG--ATA
64 AATTGTGCGAGTTGATATA
* * ** *
87152 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGCTATGCCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCA
87216 ATTGTGC
65 ATTGTGC
87223 TTGTGGTAAT
Statistics
Matches: 220, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
80 30 0.14
81 2 0.01
82 150 0.68
84 38 0.17
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (82 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTTGATATA
Found at i:87124 original size:124 final size:122
Alignment explanation
Indices: 86906--87222 Score: 517
Period size: 124 Copynumber: 2.6 Consensus size: 122
86896 ATTTGAATTT
* * *
86906 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
*
86971 TTGTGCGAGTTGATATATATCCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTGATA
66 TTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
*
87028 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGCAGGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATATATCCGGGCTAAGACCCGAAGGC
87093 ATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
64 ATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
* * ** * *
87152 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATGCCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
87217 TTGTGC
66 TTGTGC
87223 TTGTGGTAAT
Statistics
Matches: 181, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
122 62 0.34
124 119 0.66
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (122 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
Found at i:88993 original size:11 final size:10
Alignment explanation
Indices: 88968--89028 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
88958 ACCAATAAAA
88968 TAAA-TGAGC
1 TAAATTGAGC
*
88977 TGAATTGTAGC
1 TAAATTG-AGC
88988 TAAATTGAGC
1 TAAATTGAGC
**
88998 TCGATTGAGC
1 TAAATTGAGC
89008 TGAAA-TGAGC
1 T-AAATTGAGC
*
89018 TCAATTGAGC
1 TAAATTGAGC
89028 T
1 T
89029 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:89029 original size:20 final size:20
Alignment explanation
Indices: 88969--89029 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
88959 CCAATAAAAT
*
88969 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
88989 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
89010 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
89030 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:91117 original size:27 final size:27
Alignment explanation
Indices: 91087--91158 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 27
91077 CTTCTTCAAT
91087 ATCTTTTTCTTTTTCAATTTT-TTCTC
1 ATCTTTTTCTTTTTCAATTTTCTTCTC
* *
91113 AATCTCAATTTCTTTTTCAATTTTCTTTTC
1 -ATCT--TTTTCTTTTTCAATTTTCTTCTC
* *
91143 TTCATTTTCTTTTTCA
1 ATCTTTTTCTTTTTCA
91159 CTCACTATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
27 15 0.41
29 18 0.49
30 4 0.11
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.65
Consensus pattern (27 bp):
ATCTTTTTCTTTTTCAATTTTCTTCTC
Found at i:91122 original size:17 final size:18
Alignment explanation
Indices: 91100--91133 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91090 TTTTTCTTTT
91100 TCAATTT-TTTCTCAATC
1 TCAATTTCTTTCTCAATC
*
91117 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTCTCAAT
91134 TTTCTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.56
Consensus pattern (18 bp):
TCAATTTCTTTCTCAATC
Found at i:92045 original size:15 final size:15
Alignment explanation
Indices: 92027--92076 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
92017 TTTAACTTGA
92027 TTTTTTTTGCTCACT
1 TTTTTTTTGCTCACT
**
92042 TTTTTTTT-CTTTCT
1 TTTTTTTTGCTCACT
92056 TTTTTTTTGCTCGA-T
1 TTTTTTTTGCTC-ACT
92071 TTTTTT
1 TTTTTT
92077 CACTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.04, C:0.14, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTTTTTGCTCACT
Found at i:92082 original size:29 final size:28
Alignment explanation
Indices: 92013--92088 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
92003 CTTTTCACTT
* **
92013 TTTTTTTAACTTGATTTTTTTTGCTCAC
1 TTTTTTTCACTTTTTTTTTTTTGCTCAC
**
92041 TTTTTTTTTCTTTCTTTTTTTTTGCTCGA-
1 TTTTTTTCACTTT-TTTTTTTTTGCTC-AC
92070 TTTTTTTCACTTTTTTTTT
1 TTTTTTTCACTTTTTTTTT
92089 GAATTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 16 0.40
29 23 0.57
30 1 0.03
ACGTcount: A:0.08, C:0.13, G:0.05, T:0.74
Consensus pattern (28 bp):
TTTTTTTCACTTTTTTTTTTTTGCTCAC
Found at i:92085 original size:12 final size:12
Alignment explanation
Indices: 92004--92100 Score: 50
Period size: 12 Copynumber: 7.3 Consensus size: 12
91994 CTCGCAAGAC
92004 TTTTCACTTTTT
1 TTTTCACTTTTT
*
92016 TTTTAACTTGATTTTT
1 TTTTCAC----TTTTT
92032 TTTGCTCACTTTTT
1 TTT--TCACTTTTT
*
92046 TTTTCTTTCTTTTT
1 TTTTC--ACTTTTT
* **
92060 TTTTGCTCGATTT
1 TTTT-CACTTTTT
92073 TTTTCACTTTTT
1 TTTTCACTTTTT
* *
92085 TTTTGAATTTTT
1 TTTTCACTTTTT
92097 TTTT
1 TTTT
92101 GAATTTTGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
12 27 0.41
13 9 0.14
14 18 0.27
15 1 0.02
16 8 0.12
18 3 0.05
ACGTcount: A:0.09, C:0.12, G:0.05, T:0.73
Consensus pattern (12 bp):
TTTTCACTTTTT
Found at i:92101 original size:12 final size:12
Alignment explanation
Indices: 92070--92107 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
92060 TTTTGCTCGA
* *
92070 TTTTTTTCACTT
1 TTTTTTTGAATT
92082 TTTTTTTGAATT
1 TTTTTTTGAATT
92094 TTTTTTTGAATT
1 TTTTTTTGAATT
92106 TT
1 TT
92108 GATTTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:96775 original size:20 final size:20
Alignment explanation
Indices: 96752--96816 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
96742 AAGCTCAAAC
96752 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGTAAGCTAAATT
*
96772 GAGCTCAAA-CAAGCTAAATT
1 GAGCT-AAAGTAAGCTAAATT
* * * * *
96792 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGTAAGCTAAATT
96812 GAGCT
1 GAGCT
96817 GGGAAAAACT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.89
21 3 0.09
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (20 bp):
GAGCTAAAGTAAGCTAAATT
Found at i:99760 original size:11 final size:10
Alignment explanation
Indices: 99744--99781 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
99734 AGACTTTTCA
99744 CTTTTTTTGTT
1 CTTTTTTT-TT
*
99755 CTTTTTTTTA
1 CTTTTTTTTT
99765 CTTTTTTTTT
1 CTTTTTTTTT
99775 CTTTTTT
1 CTTTTTT
99782 GCTCACTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:99796 original size:22 final size:20
Alignment explanation
Indices: 99738--99797 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 20
99728 CTCGCAAGAC
99738 TTTTCACTTTTTTTGTTCTTT
1 TTTTCACTTTTTTT-TTCTTT
*
99759 TTTTTACTTTTTTTTTCTTT
1 TTTTCACTTTTTTTTTCTTT
99779 TTTGCTCACTTCTTTTTTT
1 TTT--TCACTT-TTTTTTT
99798 TTGAATTTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.26
21 13 0.38
22 5 0.15
23 7 0.21
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTTCACTTTTTTTTTCTTT
Found at i:102502 original size:14 final size:14
Alignment explanation
Indices: 102455--102509 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
102445 AAGCTCTCTC
102455 TCAA-TTTCTTTTT
1 TCAATTTTCTTTTT
**
102468 TCGCTTTT-TCTTTT
1 TCAATTTTCT-TTTT
102482 TCAATTTTCTTTTCT
1 TCAATTTTCTTTT-T
102497 TC-ATTTTCTTTTT
1 TCAATTTTCTTTTT
102510 CTCTCTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 4 0.12
14 26 0.76
15 4 0.12
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (14 bp):
TCAATTTTCTTTTT
Found at i:102530 original size:12 final size:12
Alignment explanation
Indices: 102473--102592 Score: 81
Period size: 12 Copynumber: 10.0 Consensus size: 12
102463 TTTTTTCGCT
102473 TTTTCTTTTTCAA
1 TTTTCTTTTTC-A
102486 TTTTCTTTTCTTCA
1 TTTTC-TTT-TTCA
102500 TTTTCTTTTTC-
1 TTTTCTTTTTCA
*
102511 TCTCTCTTTTTCGA
1 T-TTTCTTTTTC-A
102525 -TTTCTTTTTC-
1 TTTTCTTTTTCA
** *
102535 TTTTGCAATTTCT
1 TTTT-CTTTTTCA
*
102548 TTTTCTCTTTCA
1 TTTTCTTTTTCA
*
102560 TTTTCTTTTT-G
1 TTTTCTTTTTCA
102571 TTTTC--TTTCA
1 TTTTCTTTTTCA
*
102581 ATTTCTTTTTCA
1 TTTTCTTTTTCA
102593 ATCTCTTTCT
Statistics
Matches: 85, Mismatches: 11, Indels: 23
0.71 0.09 0.19
Matches are distributed among these distances:
9 3 0.04
10 4 0.05
11 9 0.11
12 45 0.53
13 12 0.14
14 9 0.11
15 3 0.04
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:102591 original size:6 final size:6
Alignment explanation
Indices: 102471--102578 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
102461 TCTTTTTTCG
* * * *
102471 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCT CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** * *
102522 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTCTTT CATTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
102570 -GTTTT CTTT
1 CTTTTT CTTT
102579 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:105133 original size:20 final size:20
Alignment explanation
Indices: 105110--105156 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
105100 GGGTTAAGAT
*
105110 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
105130 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
105150 TGAGCTG
1 TGAGCTG
105157 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:107692 original size:10 final size:10
Alignment explanation
Indices: 107677--107738 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
107667 TTTGAACCAT
*
107677 TACCAATTCG
1 TACCAATTCA
*
107687 TACCAAATACCA
1 TACC-AAT-TCA
*
107699 TACCATTTCA
1 TACCAATTCA
107709 TACCAATTCCA
1 TACCAATT-CA
* *
107720 TACCATTTCG
1 TACCAATTCA
107730 TACCAATTC
1 TACCAATTC
107739 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:107722 original size:21 final size:21
Alignment explanation
Indices: 107677--107739 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
107667 TTTGAACCAT
* *
107677 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
107699 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
107720 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
107740 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:109850 original size:40 final size:40
Alignment explanation
Indices: 109767--110029 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
109757 TTGAATGCTG
* * * * * *
109767 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
109807 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
109847 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
109887 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
109927 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
109967 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
110006 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
110030 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:110049 original size:79 final size:80
Alignment explanation
Indices: 109806--110064 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
109796 AAGTGAATAT
* * * * * *
109806 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
109870 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
109886 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
109951 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
109966 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
110030 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
110045 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
110065 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:117166 original size:40 final size:40
Alignment explanation
Indices: 117076--117338 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
117066 TTGAATGCTG
* * * * * *
117076 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * * *
117116 TCCAGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
117156 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
117196 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
117236 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
117276 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
117315 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
117339 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 36 0.18
40 155 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:117358 original size:79 final size:80
Alignment explanation
Indices: 117129--117373 Score: 244
Period size: 80 Copynumber: 3.1 Consensus size: 80
117119 AGATTAAGAT
* * * * * ** * *
117129 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
117193 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * *** ** *
117209 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
117274 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
117289 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
117353 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
117367 CCGAAGG
1 CCGAAGG
117374 TACGTGATTT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.10
79 46 0.32
80 82 0.58
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:118975 original size:6 final size:6
Alignment explanation
Indices: 118964--118996 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
118954 AGTTGTAAAG
118964 TTTTAT TTTTAT TTTTAT TTTTAT TATTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TT
118997 ATTTATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:119002 original size:12 final size:13
Alignment explanation
Indices: 118965--119005 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
118955 GTTGTAAAGT
*
118965 TTTATTTTTATT-
1 TTTATTTATATTA
*
118977 TTTATTTTTATTA
1 TTTATTTATATTA
118990 TTTATTTAT-TTA
1 TTTATTTATATTA
119002 TTTA
1 TTTA
119006 CTTAGTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATATTA
Found at i:119909 original size:23 final size:22
Alignment explanation
Indices: 119857--119909 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
119847 TCCACGTCTT
*
119857 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
119879 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
119902 TTTCTTTT
1 TTTCTTTT
119910 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:121619 original size:14 final size:16
Alignment explanation
Indices: 121600--121632 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
121590 TTGTTTTCGA
121600 TTTCTTT-CTT-TACT
1 TTTCTTTGCTTATACT
121614 TTTCTTTGCTTATACT
1 TTTCTTTGCTTATACT
121630 TTT
1 TTT
121633 GCCGATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 3 0.18
16 7 0.41
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTCTTTGCTTATACT
Done.