Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003389.1 Kokia drynarioides strain JFW-HI SEQ_116126, 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: 135156
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 153 characters in sequence are not A, C, G, or T
Found at i:152 original size:6 final size:6
Alignment explanation
Indices: 141--179 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
131 TGATCAAAAT
* * *
141 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
180 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:3598 original size:29 final size:29
Alignment explanation
Indices: 3564--3656 Score: 115
Period size: 29 Copynumber: 3.3 Consensus size: 29
3554 TTTATGTCTA
3564 TTAAAAGTTAGTAAAAAAATTTTGAGCCT
1 TTAAAAGTTAGTAAAAAAATTTTGAGCCT
* *
3593 TTAAAAGCTA--AAAAAAA--TTGAGCCC
1 TTAAAAGTTAGTAAAAAAATTTTGAGCCT
*
3618 TTAAAAGTTAGTAAAAAAAATTTTG-GTCT
1 TTAAAAGTTAGT-AAAAAAATTTTGAGCCT
3647 TTAAAAGTTA
1 TTAAAAGTTA
3657 AAATTTTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
25 16 0.30
27 7 0.13
28 7 0.13
29 21 0.39
30 3 0.06
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (29 bp):
TTAAAAGTTAGTAAAAAAATTTTGAGCCT
Found at i:3613 original size:25 final size:26
Alignment explanation
Indices: 3575--3624 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
3565 TAAAAGTTAG
* *
3575 TAAAAAAATTTTGAGCCTTTAAAAGC
1 TAAAAAAATATTGAGCCCTTAAAAGC
3601 TAAAAAAA-ATTGAGCCCTTAAAAG
1 TAAAAAAATATTGAGCCCTTAAAAG
3625 TTAGTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (26 bp):
TAAAAAAATATTGAGCCCTTAAAAGC
Found at i:3633 original size:25 final size:26
Alignment explanation
Indices: 3564--3634 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
3554 TTTATGTCTA
*
3564 TTAAAAGTTAGTAAAAAAATTTTGAGCCT
1 TTAAAAGTTAGT--AAAAA-TTTGAGCCC
* * *
3593 TTAAAAGCTA-AAAAAAATTGAGCCC
1 TTAAAAGTTAGTAAAAATTTGAGCCC
3618 TTAAAAGTTAGTAAAAA
1 TTAAAAGTTAGTAAAAA
3635 AAATTTTGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 16 0.46
26 10 0.29
29 9 0.26
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (26 bp):
TTAAAAGTTAGTAAAAATTTGAGCCC
Found at i:21814 original size:61 final size:61
Alignment explanation
Indices: 21719--21842 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
21709 GGAGTCGGTG
*
21719 ATTATGATGCAGGAGTTTTTATTTTCATTTTAAAATTTTATTATGTCAGTTTTATCTTATA
1 ATTATGATGCAGGAGTTTTTATTTTCATTATAAAATTTTATTATGTCAGTTTTATCTTATA
21780 ATTATGATGCAGGAGTTTTTATTTTCATTATAAAATTTTATTATGTCAGTTTTATCTTATA
1 ATTATGATGCAGGAGTTTTTATTTTCATTATAAAATTTTATTATGTCAGTTTTATCTTATA
21841 AT
1 AT
21843 ATTTATTTTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.53
Consensus pattern (61 bp):
ATTATGATGCAGGAGTTTTTATTTTCATTATAAAATTTTATTATGTCAGTTTTATCTTATA
Found at i:31505 original size:17 final size:17
Alignment explanation
Indices: 31483--31525 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
31473 TTAAAATATT
31483 AATTAATTAATTTATCA
1 AATTAATTAATTTATCA
* *
31500 AATTAAATTATTTTCTCA
1 AATT-AATTAATTTATCA
*
31518 ATTTAATT
1 AATTAATT
31526 CTAGTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTAATTAATTTATCA
Found at i:32894 original size:20 final size:20
Alignment explanation
Indices: 32855--32894 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
32845 AATATTTCAA
* * *
32855 AATTATTGATAATTTTTTGT
1 AATTATAGATAATATATTGT
32875 AATTATAGATAATATATTGT
1 AATTATAGATAATATATTGT
32895 TATAGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
AATTATAGATAATATATTGT
Found at i:47519 original size:2 final size:2
Alignment explanation
Indices: 47512--47541 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47502 CTACCACATA
47512 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
47542 TTTTTCTTTC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:49410 original size:16 final size:17
Alignment explanation
Indices: 49389--49430 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
49379 TTTAATCATT
49389 TAAAATTATAAAAAT-A
1 TAAAATTATAAAAATGA
*
49405 TAAAA-TATTAAAATGA
1 TAAAATTATAAAAATGA
*
49421 TGAAATTATA
1 TAAAATTATA
49431 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 8 0.38
16 10 0.48
17 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
TAAAATTATAAAAATGA
Found at i:50618 original size:15 final size:16
Alignment explanation
Indices: 50597--50635 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
50587 TTTAATTAAC
*
50597 AATTATTTGTATACAT
1 AATTATTTATATACAT
*
50613 -ATTATTTATATTCAT
1 AATTATTTATATACAT
50628 AATTATTT
1 AATTATTT
50636 TTAATGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (16 bp):
AATTATTTATATACAT
Found at i:78532 original size:24 final size:21
Alignment explanation
Indices: 78490--78532 Score: 50
Period size: 24 Copynumber: 1.9 Consensus size: 21
78480 CTTATTCATA
*
78490 TTCTTTGCTCATTTCCTATCG
1 TTCTTTGCTCATTTACTATCG
78511 TTCTTCTGCTTCAGTTTACTAT
1 TTCTT-TGC-TCA-TTTACTAT
78533 TCTTTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 3 0.17
24 7 0.39
ACGTcount: A:0.12, C:0.26, G:0.09, T:0.53
Consensus pattern (21 bp):
TTCTTTGCTCATTTACTATCG
Found at i:86072 original size:28 final size:27
Alignment explanation
Indices: 85988--86073 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 27
85978 CATGAACTGC
85988 ATCATGATGTGAGTATATACACAGATACT
1 ATCA-GATGTGAGTAT-TACACAGATACT
* *
86017 ATCAG-T-TTA-TATTACCTACAAAT-C-
1 ATCAGATGTGAGTATTA-C-ACAGATACT
86041 ATCACGATGTGAGTATTACACAGATACT
1 ATCA-GATGTGAGTATTACACAGATACT
86069 ATCAG
1 ATCAG
86074 CGTACACACT
Statistics
Matches: 45, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
24 6 0.13
25 6 0.13
26 13 0.29
27 6 0.13
28 10 0.22
29 4 0.09
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (27 bp):
ATCAGATGTGAGTATTACACAGATACT
Found at i:87483 original size:14 final size:14
Alignment explanation
Indices: 87464--87497 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
87454 ATGTCATTTC
87464 ATTATTATATTGTT
1 ATTATTATATTGTT
* *
87478 ATTATTTTGTTGTT
1 ATTATTATATTGTT
87492 ATTATT
1 ATTATT
87498 TAGATATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (14 bp):
ATTATTATATTGTT
Found at i:87639 original size:24 final size:22
Alignment explanation
Indices: 87594--87640 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
87584 TTTAAGTATA
87594 AATATTTTTTAAATTTTCTAGT
1 AATATTTTTTAAATTTTCTAGT
* *
87616 AATATTTATTTTAATGTTTTTAGT
1 AATATTT-TTTAAAT-TTTCTAGT
87640 A
1 A
87641 TTGTATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 6 0.29
24 8 0.38
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (22 bp):
AATATTTTTTAAATTTTCTAGT
Found at i:89587 original size:29 final size:29
Alignment explanation
Indices: 89544--89619 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
89534 AAATTGGATC
*
89544 AAATCAAGATTTCATGTATAAAATTGCACA-
1 AAATCAA-AGTTCATGT-TAAAATTGCACAT
*
89574 AAATCAAAGTTCATGTTACAATTGCACATT
1 AAATCAAAGTTCATGTTAAAATTGCACA-T
* *
89604 AAACCATAGTTCATGT
1 AAATCAAAGTTCATGT
89620 GTAGTTTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 11 0.28
29 8 0.20
30 21 0.52
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (29 bp):
AAATCAAAGTTCATGTTAAAATTGCACAT
Found at i:91764 original size:40 final size:38
Alignment explanation
Indices: 91683--91758 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
91673 AAAAAAATAC
91683 ATATATACCTTATTTTACCTTTAAAAAAACACATGTAA
1 ATATATACCTTATTTTACCTTTAAAAAAACACATGTAA
* *
91721 ATATATACCTTGTTTTACCTTTAAAAAAGCACATGTAA
1 ATATATACCTTATTTTACCTTTAAAAAAACACATGTAA
91759 CAATATTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (38 bp):
ATATATACCTTATTTTACCTTTAAAAAAACACATGTAA
Found at i:92048 original size:21 final size:21
Alignment explanation
Indices: 92019--92062 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
92009 ATCTAAAATC
*
92019 TAATTTTTAA-AATTATAAAAA
1 TAATATTTAAGAATTA-AAAAA
92040 TAATATTTAATGAATTAAAAAA
1 TAATATTTAA-GAATTAAAAAA
92062 T
1 T
92063 TAACACACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAATATTTAAGAATTAAAAAA
Found at i:106042 original size:15 final size:16
Alignment explanation
Indices: 106012--106045 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
106002 AAAATGTAAT
106012 TTTATCATTTTAATAG
1 TTTATCATTTTAATAG
*
106028 TTTAT-ATTTTTATAG
1 TTTATCATTTTAATAG
106043 TTT
1 TTT
106046 TTAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAG
Found at i:115496 original size:21 final size:22
Alignment explanation
Indices: 115450--115497 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
115440 CAAAGGAGTG
*
115450 GCCAACATCAGAAAGCTACAAT
1 GCCAACATCAGAAAGCTACAAA
* *
115472 GCCAAC-TCAGAAAGTTGCAAA
1 GCCAACATCAGAAAGCTACAAA
115493 GCCAA
1 GCCAA
115498 ATCTTCATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.44, C:0.27, G:0.17, T:0.12
Consensus pattern (22 bp):
GCCAACATCAGAAAGCTACAAA
Found at i:125695 original size:20 final size:20
Alignment explanation
Indices: 125639--125738 Score: 57
Period size: 20 Copynumber: 5.1 Consensus size: 20
125629 ATTGGTATCC
* * *
125639 CTCACAATTTTTAGTATCCT
1 CTCATAATTTTTAATATTCT
* *
125659 CTCAT-GTTATTTGATATTCT
1 CTCATAATT-TTTAATATTCT
125679 CTCATAATTTTTAATATT-T
1 CTCATAATTTTTAATATTCT
* * * *
125698 -T-TTTATTTTT-TTATTTT
1 CTCATAATTTTTAATATTCT
125715 CTCATAAATTTTTATATATTCT
1 CTCAT-AATTTTTA-ATATTCT
125737 CT
1 CT
125739 TTTTTTTTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
16 4 0.07
17 8 0.14
18 2 0.03
19 4 0.07
20 31 0.53
21 2 0.03
22 7 0.12
ACGTcount: A:0.24, C:0.14, G:0.03, T:0.59
Consensus pattern (20 bp):
CTCATAATTTTTAATATTCT
Found at i:125721 original size:36 final size:40
Alignment explanation
Indices: 125673--125749 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
125663 TGTTATTTGA
125673 TATTCTCTCAT-AATTTTTA-ATATT-T-TTTTATTTTTT
1 TATTCTCTCATAAATTTTTATATATTCTCTTTTATTTTTT
* *
125709 TATTTTCTCATAAATTTTTATATATTCTCTTTTTTTTTTT
1 TATTCTCTCATAAATTTTTATATATTCTCTTTTATTTTTT
125749 T
1 T
125750 TCGTATTCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 10 0.29
37 8 0.23
38 5 0.14
39 1 0.03
40 11 0.31
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (40 bp):
TATTCTCTCATAAATTTTTATATATTCTCTTTTATTTTTT
Found at i:125751 original size:36 final size:36
Alignment explanation
Indices: 125673--125751 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
125663 TGTTATTTGA
* * *
125673 TATTCTCTCATAATTTTTAATATTTTTTTATTTTTT
1 TATTTTCTCATAATTTTTAATATTCTCTTATTTTTT
125709 TATTTTCTCATAAATTTTTATATATTCTCTT-TTTTTT
1 TATTTTCTCAT-AATTTTTA-ATATTCTCTTATTTTTT
125746 T-TTTTC
1 TATTTTC
125752 GTATTCTCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 15 0.39
37 15 0.39
38 8 0.21
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (36 bp):
TATTTTCTCATAATTTTTAATATTCTCTTATTTTTT
Found at i:125915 original size:20 final size:20
Alignment explanation
Indices: 125745--125993 Score: 116
Period size: 20 Copynumber: 12.4 Consensus size: 20
125735 CTCTTTTTTT
*
125745 TTTTTTCGTA-TTCTCTCATA
1 TTTTTTGGTACTTC-CTCATA
* * * *
125765 ATTCTTGGTATTTTCTCATA
1 TTTTTTGGTACTTCCTCATA
* * * *
125785 TATTTTGATACATCCCCATCA
1 TTTTTTGGTACTTCCTCAT-A
* *
125806 TTTTTT-ATACTTCCTCAAA
1 TTTTTTGGTACTTCCTCATA
*
125825 TTTTATT-GTA-TTCTCTAATAA
1 TTTT-TTGGTACTTC-CTCAT-A
* *
125846 TTTTTT-ATACTTTCTCATA
1 TTTTTTGGTACTTCCTCATA
** **
125865 TTTTTTGGTACACCCTTGTA
1 TTTTTTGGTACTTCCTCATA
**
125885 TTTACTTTGGTACTTTTTCATA
1 TTT--TTTGGTACTTCCTCATA
*
125907 TTTTTTGGTA-TTCCTCGTA
1 TTTTTTGGTACTTCCTCATA
*
125926 TTTTTTTGTACTTCCTCATA
1 TTTTTTGGTACTTCCTCATA
* * * **
125946 TGTTTTGATACATATTCATA
1 TTTTTTGGTACTTCCTCATA
* * *
125966 TTTTTTGATATTTCCTCA-C
1 TTTTTTGGTACTTCCTCATA
125985 TTTTTTGGT
1 TTTTTTGGT
125994 GTTTCCTTAG
Statistics
Matches: 167, Mismatches: 52, Indels: 21
0.70 0.22 0.09
Matches are distributed among these distances:
19 38 0.23
20 100 0.60
21 15 0.09
22 14 0.08
ACGTcount: A:0.20, C:0.17, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTTTTGGTACTTCCTCATA
Found at i:132146 original size:5 final size:5
Alignment explanation
Indices: 132136--132173 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
132126 ATGCGCCCTG
132136 CCTCT CCTCT CCTCT CCTCT CCTCT CCTCT CCTCT CCT
1 CCTCT CCTCT CCTCT CCTCT CCTCT CCTCT CCTCT CCT
132174 TGCCTGCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (5 bp):
CCTCT
Found at i:132573 original size:60 final size:60
Alignment explanation
Indices: 132502--132630 Score: 197
Period size: 60 Copynumber: 2.1 Consensus size: 60
132492 TTAATTGAAT
**
132502 TTAATAATTAATAA-TCGAAATCAGTTAATTATATTTTGAAATTTGTTCGAAATCGAATAA
1 TTAATAATTAATAACT-GAAATCAGTTAATTATATTTTGAAATCGGTTCGAAATCGAATAA
* **
132562 TTAATAATTAATAACTGAAATCAGTTAATTATATTTTGAAATCGGTTCGAAATTGGGTAA
1 TTAATAATTAATAACTGAAATCAGTTAATTATATTTTGAAATCGGTTCGAAATCGAATAA
132622 TTAATAATT
1 TTAATAATT
132631 TTTATTCGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 62 0.98
61 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (60 bp):
TTAATAATTAATAACTGAAATCAGTTAATTATATTTTGAAATCGGTTCGAAATCGAATAA
Found at i:133144 original size:21 final size:22
Alignment explanation
Indices: 133107--133149 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
133097 TATTATTTTA
133107 AATTCAATATATTTAAAAAATT
1 AATTCAATATATTTAAAAAATT
*
133129 AATTTAATAT-TTTAAAAAATT
1 AATTCAATATATTTAAAAAATT
133150 TTGAAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTCAATATATTTAAAAAATT
Found at i:133222 original size:16 final size:16
Alignment explanation
Indices: 133181--133225 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
133171 TATACAATTT
133181 TAAACCTTAAAT-TCA
1 TAAACCTTAAATCTCA
*
133196 TAAATCTTAAATCTCA
1 TAAACCTTAAATCTCA
133212 -AATACCTTAAATCT
1 TAA-ACCTTAAATCT
133226 TTATATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAACCTTAAATCTCA
Done.