Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022167.1 Corchorus olitorius cultivar O-4 contig22200, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16552
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Found at i:2025 original size:11 final size:11
Alignment explanation
Indices: 2009--2034 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1999 AGATAATTTC
2009 TTTTCTTCTAG
1 TTTTCTTCTAG
2020 TTTTCTTCTAG
1 TTTTCTTCTAG
2031 TTTT
1 TTTT
2035 TAGGCAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTCTTCTAG
Found at i:2824 original size:15 final size:15
Alignment explanation
Indices: 2794--2835 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
2784 TTACTTTGCT
2794 TTGTTTTCTAGTTTAA
1 TTGTTTTCT-GTTTAA
2810 TTGTTTTCTGTTTAA
1 TTGTTTTCTGTTTAA
*
2825 TTGCTTTCTGT
1 TTGTTTTCTGT
2836 CAATCTCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.12, C:0.10, G:0.14, T:0.64
Consensus pattern (15 bp):
TTGTTTTCTGTTTAA
Found at i:3598 original size:26 final size:26
Alignment explanation
Indices: 3569--3619 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
3559 CCCTTAAAAA
*
3569 CTTTT-TTGAAAACTCATTTTTGAAAC
1 CTTTTATTGAAAAC-AATTTTTGAAAC
3595 CTTTTATTGAAAACAATTTTTGAAA
1 CTTTTATTGAAAACAATTTTTGAAA
3620 AATGTTTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (26 bp):
CTTTTATTGAAAACAATTTTTGAAAC
Found at i:3617 original size:13 final size:13
Alignment explanation
Indices: 3571--3620 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
3561 CTTAAAAACT
3571 TTTTTGAAAACTCA
1 TTTTTGAAAAC-CA
*
3585 TTTTTG-AAACCT
1 TTTTTGAAAACCA
*
3597 TTTATTGAAAACAA
1 TTT-TTGAAAACCA
3611 TTTTTGAAAA
1 TTTTTGAAAA
3621 ATGTTTCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 4 0.13
13 14 0.45
14 13 0.42
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTTGAAAACCA
Found at i:4973 original size:40 final size:41
Alignment explanation
Indices: 4807--5074 Score: 346
Period size: 41 Copynumber: 6.6 Consensus size: 41
4797 AATTAAAAAG
* * *
4807 CACCTTCCGACTGGGAAGCGCAAATTGGTAAAAGTAAACAA
1 CACCTTCCGACTGGGAAGGGCAAACTGGGAAAAGTAAACAA
* * *
4848 CTCCTTCTG-GTGGGGAAGGGCAAACTGGGAAAAGTAAACAA
1 CACCTTCCGACT-GGGAAGGGCAAACTGGGAAAAGTAAACAA
*
4889 CACCTTCTGA-TAGGGAAGGGCAAACTGGGAAAAGTAAACAA
1 CACCTTCCGACT-GGGAAGGGCAAACTGGGAAAAGTAAACAA
* * *
4930 CACCTTCCGACTGGGAAGGGTAGACT-GAAAAAGTAAACAA
1 CACCTTCCGACTGGGAAGGGCAAACTGGGAAAAGTAAACAA
* *
4970 CACCTTCCGATTGGGAAGGGCAGACT-GGAAAAGTAAACAA
1 CACCTTCCGACTGGGAAGGGCAAACTGGGAAAAGTAAACAA
* * *
5010 CACCTTCTGACTGGGAAGGGAAAACTGGGAAGAGTAAACAA
1 CACCTTCCGACTGGGAAGGGCAAACTGGGAAAAGTAAACAA
*
5051 CACCTTCCGACTGGGAGGGGCAAA
1 CACCTTCCGACTGGGAAGGGCAAA
5075 ATAGGAATAA
Statistics
Matches: 200, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
40 73 0.37
41 126 0.63
42 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.15
Consensus pattern (41 bp):
CACCTTCCGACTGGGAAGGGCAAACTGGGAAAAGTAAACAA
Found at i:5035 original size:121 final size:123
Alignment explanation
Indices: 4807--5066 Score: 382
Period size: 121 Copynumber: 2.1 Consensus size: 123
4797 AATTAAAAAG
* * * * *
4807 CACCTTCCGACTGGGAAGCGCAAATTGGTAAAAGTAAACAACTCCTTCTGGTGGGGAAGGGCAAA
1 CACCTTCCGACTGGGAAGCGCAAACTGGAAAAAGTAAACAACACCTTCCGATGGGGAAGGGCAAA
*
4872 CTGGGAAAAGTAAACAACACCTTCTGATAGGGAAGGGCAAACTGGGAAAAGTAAACAA
66 CTGGGAAAAGTAAACAACACCTTCTGATAGGGAAGGGAAAACTGGGAAAAGTAAACAA
* * * * *
4930 CACCTTCCGACTGGGAAGGGTAGACT-GAAAAAGTAAACAACACCTTCCGATTGGGAAGGGCAGA
1 CACCTTCCGACTGGGAAGCGCAAACTGGAAAAAGTAAACAACACCTTCCGATGGGGAAGGGCAAA
*
4994 CT-GGAAAAGTAAACAACACCTTCTGACT-GGGAAGGGAAAACTGGGAAGAGTAAACAA
66 CTGGGAAAAGTAAACAACACCTTCTGA-TAGGGAAGGGAAAACTGGGAAAAGTAAACAA
5051 CACCTTCCGACTGGGA
1 CACCTTCCGACTGGGA
5067 GGGGCAAAAT
Statistics
Matches: 124, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
121 67 0.54
122 35 0.28
123 22 0.18
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.16
Consensus pattern (123 bp):
CACCTTCCGACTGGGAAGCGCAAACTGGAAAAAGTAAACAACACCTTCCGATGGGGAAGGGCAAA
CTGGGAAAAGTAAACAACACCTTCTGATAGGGAAGGGAAAACTGGGAAAAGTAAACAA
Found at i:5121 original size:49 final size:49
Alignment explanation
Indices: 5044--5412 Score: 426
Period size: 49 Copynumber: 7.5 Consensus size: 49
5034 CTGGGAAGAG
* *
5044 TAAACAACACCTTCCGACTGGGAGGGGCAAAATAGGAATAAGACAAACT
1 TAAACAACACCTTCCGACTGGGAAGGGCAAAATAGGAAAAAGACAAACT
* * * *
5093 TAAAAAACACCTTCTGACTGGGAAGGGCAAATTGGGAAAAAAGAC-AACT
1 TAAACAACACCTTCCGACTGGGAAGGGCAAAATAGG-AAAAAGACAAACT
** *
5142 TAAACAACACCTTCCGAAC-GGGAAGGGCAATTTGGGAAAAAGACAAACT
1 TAAACAACACCTTCCG-ACTGGGAAGGGCAAAATAGGAAAAAGACAAACT
* ** *
5191 TAAACAACACCTTCCGACCGGGAAGGGCAATTTTGGAAAAAGACAAACT
1 TAAACAACACCTTCCGACTGGGAAGGGCAAAATAGGAAAAAGACAAACT
*
5240 TAAACAACACCTTCCGACTGGGAAGGGC-AAATCAGGAAAAAGACAGACT
1 TAAACAACACCTTCCGACTGGGAAGGGCAAAAT-AGGAAAAAGACAAACT
* * * * *
5289 TCAACAGCACCTTTCGACTGGGAAGGGC-AAATCAAGAAAAAGACAACCT
1 TAAACAACACCTTCCGACTGGGAAGGGCAAAAT-AGGAAAAAGACAAACT
* * * *
5338 TAAACAACACCTTCCGACCGGGAAGGGC-GAATCA-GAAAAAAAAAAGACT
1 TAAACAACACCTTCCGACTGGGAAGGGCAAAAT-AGGAAAAAGACAA-ACT
*
5387 TAAACAACACCTTCCAACTGGGAAGG
1 TAAACAACACCTTCCGACTGGGAAGG
5413 TGATCGATCG
Statistics
Matches: 283, Mismatches: 31, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
48 21 0.07
49 253 0.89
50 9 0.03
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.14
Consensus pattern (49 bp):
TAAACAACACCTTCCGACTGGGAAGGGCAAAATAGGAAAAAGACAAACT
Found at i:6832 original size:19 final size:18
Alignment explanation
Indices: 6799--6834 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6789 TTGAAATAAT
6799 TCTTCAATGATCTTCAAA
1 TCTTCAATGATCTTCAAA
*
6817 TCTTCAAATTATCTTCAA
1 TCTTC-AATGATCTTCAA
6835 TGAGTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (18 bp):
TCTTCAATGATCTTCAAA
Found at i:6842 original size:11 final size:10
Alignment explanation
Indices: 6799--6845 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
6789 TTGAAATAAT
6799 TCTTCAATGA
1 TCTTCAATGA
6809 TCTTCAA--A
1 TCTTCAATGA
*
6817 TCTTCAAATTA
1 TCTTC-AATGA
6828 TCTTCAATGA
1 TCTTCAATGA
6838 GTCTTCAA
1 -TCTTCAA
6846 ACATGAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 11 0.34
11 13 0.41
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.40
Consensus pattern (10 bp):
TCTTCAATGA
Found at i:7421 original size:29 final size:30
Alignment explanation
Indices: 7379--7436 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
7369 GGAACACGAA
*
7379 CTTCGAATGATCTTCAATGA-TCTTCAAAT
1 CTTCAAATGATCTTCAATGAGTCTTCAAAT
*
7408 CTTCAAATTATCTTCAATGAGTCTTCAAA
1 CTTCAAATGATCTTCAATGAGTCTTCAAA
7437 CACGAACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.38
Consensus pattern (30 bp):
CTTCAAATGATCTTCAATGAGTCTTCAAAT
Found at i:7422 original size:19 final size:18
Alignment explanation
Indices: 7388--7424 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
7378 ACTTCGAATG
7388 ATCTTCAATGATCTTCAA
1 ATCTTCAATGATCTTCAA
*
7406 ATCTTCAAATTATCTTCAA
1 ATCTTC-AATGATCTTCAA
7425 TGAGTCTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.41
Consensus pattern (18 bp):
ATCTTCAATGATCTTCAA
Found at i:7432 original size:11 final size:10
Alignment explanation
Indices: 7379--7435 Score: 64
Period size: 11 Copynumber: 5.6 Consensus size: 10
7369 GGAACACGAA
7379 CTTCGAATGAT
1 CTTC-AATGAT
7390 CTTCAATGAT
1 CTTCAATGAT
7400 CTTCAA--AT
1 CTTCAATGAT
*
7408 CTTCAAATTAT
1 CTTC-AATGAT
7419 CTTCAATGAGT
1 CTTCAATGA-T
7430 CTTCAA
1 CTTCAA
7436 ACACGAACTT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
8 6 0.15
9 2 0.05
10 16 0.39
11 17 0.41
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (10 bp):
CTTCAATGAT
Found at i:7741 original size:48 final size:49
Alignment explanation
Indices: 7664--7768 Score: 149
Period size: 48 Copynumber: 2.2 Consensus size: 49
7654 GACTCAATCA
*
7664 GAAGGGCAAATTAGGAAAAAGACAAACTTAAACAACACCTTCCGACCGG
1 GAAGGGCAAATCAGGAAAAAGACAAACTTAAACAACACCTTCCGACCGG
* * * * *
7713 GAAGGGCGAATCA-GAAAAAGACAGACTTAAACAGCATCTTCCGACTGG
1 GAAGGGCAAATCAGGAAAAAGACAAACTTAAACAACACCTTCCGACCGG
7761 GAAGGGCA
1 GAAGGGCA
7769 TTTTGGGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 38 0.78
49 11 0.22
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (49 bp):
GAAGGGCAAATCAGGAAAAAGACAAACTTAAACAACACCTTCCGACCGG
Found at i:7917 original size:590 final size:590
Alignment explanation
Indices: 6799--7963 Score: 2204
Period size: 590 Copynumber: 2.0 Consensus size: 590
6789 TTGAAATAAT
*
6799 TCTTCAATGATCTTCAAATCTTCAAATTATCTTCAATGAGTCTTCAAACATGAACTTCGAATCTC
1 TCTTCAATGATCTTCAAATCTTCAAATTATCTTCAATGAGTCTTCAAACACGAACTTCGAATCTC
* *
6864 CAAATCTATACTCAAAATTACTTTGCTCATATCTGTGTAAAAAGTCATCAAAATAGCTCCAAAAG
66 CAAATCTATACTCAAAATTACTTTACTCATATATGTGTAAAAAGTCATCAAAATAGCTCCAAAAG
6929 TAGTGAAAATTAACAAATTCTCAATTTCACATCACTTAAGATCTCAAAACACAAATATTATCAAA
131 TAGTGAAAATTAACAAATTCTCAATTTCACATCACTTAAGATCTCAAAACACAAATATTATCAAA
* *
6994 ATAGCATATATTTAAGCATAAATAGATCCAAAAAACATAATAAAATATCCATAAAAATAGGGTTG
196 ATAGCATATATTTAAGCATAAATAGATCCAAAAAACATAATAAAATAGCCATAAAAATAGGGTTA
* *
7059 TTTTTGGCTCAATCAGAAGGGAAAATTAGGAAAAAGACAAACTTAAACAACACCTTCTGACCGGG
261 TTTTTGACTCAATCAGAAGGGAAAATTAGGAAAAAGACAAACTTAAACAACACCTTCCGACCGGG
*
7124 AAGAGCGAATCAGAAAAAGATAGACTTAAACAGCATCTTCCGACTGGGAAGGGCATTTTGGGAAA
326 AAGAGCGAATCAGAAAAAGACAGACTTAAACAGCATCTTCCGACTGGGAAGGGCATTTTGGGAAA
7189 AGTGGAAACAAGACAAATAATAGATTGATGCATGCAAAGGTTCTTTTGAATTTGACTTTTCAATT
391 AGTGGAAACAAGACAAATAATAGATTGATGCATGCAAAGGTTCTTTTGAATTTGACTTTTCAATT
*
7254 TTTAACTTAAACTCTGATTAATGCAACGTATGGATTGATGCATGCAAATGTTCATTTATTTAAGC
456 TTTAACTTAAACTCTGATTAATGCAACGTATGGATTGATGCATGCAAATGCTCATTTATTTAAGC
*
7319 TGACTCGCGTAGTCCCGGGTTATTGAAAGCCCTTTCTGGGATATATGTGCGGAACACGAACTTCG
521 TGACTCGCGTAGTCCCGGGTTATTGAAAGCCCTTCCTGGGATATATGTGCGGAACACGAACTTCG
7384 AATGA
586 AATGA
7389 TCTTCAATGATCTTCAAATCTTCAAATTATCTTCAATGAGTCTTCAAACACGAACTTCGAATCTC
1 TCTTCAATGATCTTCAAATCTTCAAATTATCTTCAATGAGTCTTCAAACACGAACTTCGAATCTC
7454 CAAATCTATACTCAAAATTACTTTACTCATATATGTGTAAAAAGTCATCAAAATAGCTCCAAAAG
66 CAAATCTATACTCAAAATTACTTTACTCATATATGTGTAAAAAGTCATCAAAATAGCTCCAAAAG
*
7519 TAGTGAAAATTAACAAATTCTCAATTTCACATCGCTTAAGATCTCAAAACACAAATATTATCAAA
131 TAGTGAAAATTAACAAATTCTCAATTTCACATCACTTAAGATCTCAAAACACAAATATTATCAAA
7584 ATAGCATATATTTAAGCATAAATAGATCCAAAAAACATAATAAAATAGCCATAAAAATAGGGTTA
196 ATAGCATATATTTAAGCATAAATAGATCCAAAAAACATAATAAAATAGCCATAAAAATAGGGTTA
*
7649 TTTTTGACTCAATCAGAAGGGCAAATTAGGAAAAAGACAAACTTAAACAACACCTTCCGACCGGG
261 TTTTTGACTCAATCAGAAGGGAAAATTAGGAAAAAGACAAACTTAAACAACACCTTCCGACCGGG
*
7714 AAGGGCGAATCAGAAAAAGACAGACTTAAACAGCATCTTCCGACTGGGAAGGGCATTTTGGGAAA
326 AAGAGCGAATCAGAAAAAGACAGACTTAAACAGCATCTTCCGACTGGGAAGGGCATTTTGGGAAA
*
7779 AGTGGAAACAAGACAAATAATGGATTGATGCATGCAAAGGTTCTTTTGAATTTGACTTTTCAATT
391 AGTGGAAACAAGACAAATAATAGATTGATGCATGCAAAGGTTCTTTTGAATTTGACTTTTCAATT
7844 TTTAACTTAAACTCTGATTAATGCAACGTATGGATTGATGCATGCAAATGCTCATTTATTTAAGC
456 TTTAACTTAAACTCTGATTAATGCAACGTATGGATTGATGCATGCAAATGCTCATTTATTTAAGC
7909 TGACTCGCGTAGTCCCGGGTTATTGAAAGCCCTTCCTGGGATATATGTGCGGAAC
521 TGACTCGCGTAGTCCCGGGTTATTGAAAGCCCTTCCTGGGATATATGTGCGGAAC
7964 TCCGATGCAT
Statistics
Matches: 561, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
590 561 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (590 bp):
TCTTCAATGATCTTCAAATCTTCAAATTATCTTCAATGAGTCTTCAAACACGAACTTCGAATCTC
CAAATCTATACTCAAAATTACTTTACTCATATATGTGTAAAAAGTCATCAAAATAGCTCCAAAAG
TAGTGAAAATTAACAAATTCTCAATTTCACATCACTTAAGATCTCAAAACACAAATATTATCAAA
ATAGCATATATTTAAGCATAAATAGATCCAAAAAACATAATAAAATAGCCATAAAAATAGGGTTA
TTTTTGACTCAATCAGAAGGGAAAATTAGGAAAAAGACAAACTTAAACAACACCTTCCGACCGGG
AAGAGCGAATCAGAAAAAGACAGACTTAAACAGCATCTTCCGACTGGGAAGGGCATTTTGGGAAA
AGTGGAAACAAGACAAATAATAGATTGATGCATGCAAAGGTTCTTTTGAATTTGACTTTTCAATT
TTTAACTTAAACTCTGATTAATGCAACGTATGGATTGATGCATGCAAATGCTCATTTATTTAAGC
TGACTCGCGTAGTCCCGGGTTATTGAAAGCCCTTCCTGGGATATATGTGCGGAACACGAACTTCG
AATGA
Found at i:8650 original size:49 final size:48
Alignment explanation
Indices: 8563--8704 Score: 178
Period size: 49 Copynumber: 2.9 Consensus size: 48
8553 TATCAAATGT
8563 TATCAAAAGTT-AATCGTTTTAACTTCAAGATTTCATTTTTATTCCAAAAC
1 TATCAAAA-TTCAATC-TTTTAACTT-AAGATTTCATTTTTATTCCAAAAC
* ***
8613 TATCAAAATTCAATCTTTTCAACTTAAGATTTCATTTTTATTCCTAGTT
1 TATCAAAATTCAATCTTTT-AACTTAAGATTTCATTTTTATTCCAAAAC
*
8662 TATCAAAATTCAATCTTCTTAACATAAAGATTTCATTTTTATT
1 TATCAAAATTCAATCTT-TTAAC-TTAAGATTTCATTTTTATT
8705 TCAACTTAAC
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
49 46 0.55
50 37 0.45
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (48 bp):
TATCAAAATTCAATCTTTTAACTTAAGATTTCATTTTTATTCCAAAAC
Found at i:12743 original size:22 final size:22
Alignment explanation
Indices: 12715--12763 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
12705 TGAATTTTTT
12715 TCTTTTTAACTCCTTAAAATAA
1 TCTTTTTAACTCCTTAAAATAA
* *
12737 TCTTTTTAGCTTCTTAAAATAA
1 TCTTTTTAACTCCTTAAAATAA
12759 T-TTTT
1 TCTTTT
12764 CTTTCATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.53
Consensus pattern (22 bp):
TCTTTTTAACTCCTTAAAATAA
Found at i:15729 original size:8 final size:8
Alignment explanation
Indices: 15718--15747 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
15708 AAAATTGTAA
15718 TTTTTTAT
1 TTTTTTAT
15726 TTTTATTAT
1 TTTT-TTAT
15735 TTTTTTAT
1 TTTTTTAT
15743 TTTTT
1 TTTTT
15748 ATTCATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTAT
Found at i:15740 original size:17 final size:19
Alignment explanation
Indices: 15718--15759 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
15708 AAAATTGTAA
15718 TTTTTTA-TTTTTATT-AT
1 TTTTTTATTTTTTATTCAT
15735 TTTTTTATTTTTTATTCAT
1 TTTTTTATTTTTTATTCAT
15754 TTTTTT
1 TTTTTT
15760 CGGTCAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 8 0.35
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTATTTTTTATTCAT
Done.