Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2564
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: 51424
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Found at i:7586 original size:33 final size:33
Alignment explanation
Indices: 7548--7646 Score: 121
Period size: 33 Copynumber: 3.0 Consensus size: 33
7538 AAATTTCCAG
**
7548 ATGTATCGATACAAAGATCAATGTATCGATACA
1 ATGTATCGATACATTGATCAATGTATCGATACA
* * *
7581 ATGTATTGATACATTGA-CTAATGTATCGGTAGA
1 ATGTATCGATACATTGATC-AATGTATCGATACA
7614 ATGTATCGATACATTGAGT-AATGTATCGATACA
1 ATGTATCGATACATTGA-TCAATGTATCGATACA
7647 TTTCTTTGGC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
32 1 0.02
33 54 0.98
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACATTGATCAATGTATCGATACA
Found at i:7703 original size:19 final size:19
Alignment explanation
Indices: 7679--7741 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
7669 AGCGATACAT
7679 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
7698 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
7711 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
7730 TGTATCGATACA
1 TGTATCGATACA
7742 GTTACTATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:7712 original size:32 final size:32
Alignment explanation
Indices: 7666--7741 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
7656 CAGTAGCTTT
*
7666 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
7698 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
7730 TGTATCGATACA
1 TGTATCGATACA
7742 GTTACTATTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:7716 original size:13 final size:13
Alignment explanation
Indices: 7665--7722 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
7655 GCAGTAGCTT
*
7665 TTGTAGCGATACA
1 TTGTATCGATACA
7678 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
7694 CTTATGTATCGATACA
1 --T-TGTATCGATACA
7710 TTGTATCGATACA
1 TTGTATCGATACA
7723 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:7755 original size:20 final size:19
Alignment explanation
Indices: 7677--7762 Score: 71
Period size: 19 Copynumber: 4.8 Consensus size: 19
7667 GTAGCGATAC
7677 ATTGTATCGATACAACACT
1 ATTGTATCGATACAACACT
7696 -TATGTATCGAT-----AC-
1 AT-TGTATCGATACAACACT
7709 ATTGTATCGATACAACACT
1 ATTGTATCGATACAACACT
**
7728 -TATGTATCGATACAGTTACT
1 AT-TGTATCGATACA-ACACT
7748 ATTGTATCGATACAA
1 ATTGTATCGATACAA
7763 ATTGTTGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 22
0.68 0.04 0.28
Matches are distributed among these distances:
13 9 0.17
14 3 0.06
18 4 0.08
19 21 0.40
20 15 0.28
21 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (19 bp):
ATTGTATCGATACAACACT
Found at i:12218 original size:13 final size:13
Alignment explanation
Indices: 12200--12225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12190 TTTACCCCAA
12200 TGTATCGATACAT
1 TGTATCGATACAT
12213 TGTATCGATACAT
1 TGTATCGATACAT
12226 GAATAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16794 original size:20 final size:21
Alignment explanation
Indices: 16758--16832 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 21
16748 TTCAACAATT
16758 TGTATCGATACAATAAG-GCAA
1 TGTATCGATACAATAAGTG-AA
*
16779 TGTATTGATA-AATAAGTGAA
1 TGTATCGATACAATAAGTGAA
**
16799 TGTATCGATAC-ATACCTGAAA
1 TGTATCGATACAATAAGTG-AA
*
16820 TGTATCAATACAA
1 TGTATCGATACAA
16833 GACCATGTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 22 0.49
21 22 0.49
22 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:17466 original size:12 final size:13
Alignment explanation
Indices: 17449--17477 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17439 CATCTTAGTT
17449 AAAACA-TCAACA
1 AAAACACTCAACA
17461 AAAACACTCAACA
1 AAAACACTCAACA
17474 AAAA
1 AAAA
17478 ATCCATTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.69, C:0.24, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAACACTCAACA
Found at i:24231 original size:20 final size:21
Alignment explanation
Indices: 24184--24224 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
24174 ACAATTTGTC
24184 TCGATACAATAAGGCAATGTA
1 TCGATACAATAAGGCAATGTA
24205 TCGATAC-ATAAGTG-AATGTA
1 TCGATACAATAAG-GCAATGTA
24225 CTGATACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (21 bp):
TCGATACAATAAGGCAATGTA
Found at i:26152 original size:19 final size:19
Alignment explanation
Indices: 26106--26223 Score: 107
Period size: 19 Copynumber: 6.7 Consensus size: 19
26096 ATTCAACAAT
*
26106 TTGTATCGATACAAATAAGTAA
1 TTGTATCGATAC--ATAAGT-G
26128 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
26147 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
26161 -TGCATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
26179 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
26193 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
26211 TTGTATCGATACA
1 TTGTATCGATACA
26224 ATGTATCGCT
Statistics
Matches: 81, Mismatches: 3, Indels: 27
0.73 0.03 0.24
Matches are distributed among these distances:
13 21 0.26
15 4 0.05
17 4 0.05
19 34 0.42
20 6 0.07
22 12 0.15
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:26173 original size:32 final size:32
Alignment explanation
Indices: 26129--26231 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
26119 AATAAGTAAT
26129 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
26161 TGCATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
26193 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
26225 TGTATCG
1 TGTATCG
26232 CTACGAAGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:26198 original size:13 final size:13
Alignment explanation
Indices: 26180--26204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26170 ACATAAGTGT
26180 TGTATCGATACAA
1 TGTATCGATACAA
26193 TGTATCGATACA
1 TGTATCGATACA
26205 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:26341 original size:52 final size:52
Alignment explanation
Indices: 26272--26372 Score: 159
Period size: 52 Copynumber: 1.9 Consensus size: 52
26262 ATAAATTACT
**
26272 CAAATGTATCGATACATTGAT-CTTTGTATCGATACATGCAGGCAAATTTGCC
1 CAAATGTATCGATACATT-ATGCAATGTATCGATACATGCAGGCAAATTTGCC
*
26324 CAAATGTATCGATACATTATGCAATGTATCGATACATGTAGGCAAATTT
1 CAAATGTATCGATACATTATGCAATGTATCGATACATGCAGGCAAATTT
26373 TCATATTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.04
52 43 0.96
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (52 bp):
CAAATGTATCGATACATTATGCAATGTATCGATACATGCAGGCAAATTTGCC
Found at i:30762 original size:14 final size:14
Alignment explanation
Indices: 30743--30772 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30733 CAACACTGGG
*
30743 TTATTTTTACTTAT
1 TTATTTTCACTTAT
30757 TTATTTTCACTTAT
1 TTATTTTCACTTAT
30771 TT
1 TT
30773 TTACTTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTTTCACTTAT
Found at i:34066 original size:13 final size:12
Alignment explanation
Indices: 34040--34086 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
34030 GATGAAAAGA
34040 ATTTTTTTTATT
1 ATTTTTTTTATT
*
34052 ATTTTATTTTGTT
1 ATTTT-TTTTATT
*
34065 ATTATTTTTATT
1 ATTTTTTTTATT
*
34077 ATATTTTTTA
1 ATTTTTTTTA
34087 AAATTTTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (12 bp):
ATTTTTTTTATT
Found at i:34066 original size:16 final size:16
Alignment explanation
Indices: 34042--34072 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34032 TGAAAAGAAT
*
34042 TTTTTTTATTATTTTA
1 TTTTGTTATTATTTTA
34058 TTTTGTTATTATTTT
1 TTTTGTTATTATTTT
34073 TATTATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTGTTATTATTTTA
Found at i:34606 original size:13 final size:13
Alignment explanation
Indices: 34584--34614 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34574 TTGAAAAATA
*
34584 AATAACAACAAGC
1 AATAAAAACAAGC
34597 AATAAAAACAAGC
1 AATAAAAACAAGC
34610 AATAA
1 AATAA
34615 TATAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.16, G:0.06, T:0.10
Consensus pattern (13 bp):
AATAAAAACAAGC
Found at i:34999 original size:21 final size:21
Alignment explanation
Indices: 34973--35040 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
34963 AGGCTCGAGT
*
34973 TGCTGCCGTGTTCATGGATGC
1 TGCTGCCGTGTTCGTGGATGC
34994 TGCTGCTGTCGTGTTCGTGGATGC
1 TGCTGC---CGTGTTCGTGGATGC
* *
35018 TGCTGCTGTGTTCGTGGAAGC
1 TGCTGCCGTGTTCGTGGATGC
35039 TG
1 TG
35041 AAAGAAGCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 21 0.51
24 20 0.49
ACGTcount: A:0.07, C:0.21, G:0.37, T:0.35
Consensus pattern (21 bp):
TGCTGCCGTGTTCGTGGATGC
Found at i:35006 original size:24 final size:24
Alignment explanation
Indices: 34973--35026 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
34963 AGGCTCGAGT
*
34973 TGCTGCCGTGTTCATGGATGCTGC
1 TGCTGTCGTGTTCATGGATGCTGC
*
34997 TGCTGTCGTGTTCGTGGATGCTGC
1 TGCTGTCGTGTTCATGGATGCTGC
35021 TGCTGT
1 TGCTGT
35027 GTTCGTGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.06, C:0.22, G:0.35, T:0.37
Consensus pattern (24 bp):
TGCTGTCGTGTTCATGGATGCTGC
Found at i:35118 original size:31 final size:30
Alignment explanation
Indices: 35035--35122 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 30
35025 GTGTTCGTGG
* ** * *
35035 AAGCTGAAAGAAGCTCGAGCTATTGCCGTGG
1 AAGCTGGAAGAAGCTCGAGCTGCTG-GGTGA
* *
35066 AAGCTGGAAGAGGCTCAAGCTGCTGGGATGA
1 AAGCTGGAAGAAGCTCGAGCTGCTGGG-TGA
35097 AAGCTGGAAGAAGCTCGAGCTGCTGG
1 AAGCTGGAAGAAGCTCGAGCTGCTGG
35123 TTTCAGGTGC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 1 0.02
31 46 0.98
ACGTcount: A:0.28, C:0.18, G:0.36, T:0.17
Consensus pattern (30 bp):
AAGCTGGAAGAAGCTCGAGCTGCTGGGTGA
Found at i:35782 original size:16 final size:17
Alignment explanation
Indices: 35761--35812 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
35751 ATTTCATGAT
35761 TTTTTTTATTTTTTT-A
1 TTTTTTTATTTTTTTAA
35777 TTTTTTTGATTTTTATTAA
1 TTTTTTT-ATTTTT-TTAA
35796 TTTTTATTATTATTTTT
1 TTTTT-TTATT-TTTTT
35813 TTAATTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 7 0.23
17 6 0.19
18 2 0.06
19 11 0.35
20 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTTTATTTTTTTAA
Found at i:35821 original size:9 final size:9
Alignment explanation
Indices: 35759--35821 Score: 65
Period size: 9 Copynumber: 6.7 Consensus size: 9
35749 GCATTTCATG
*
35759 ATTTTTTTT
1 ATTTTTTTA
35768 ATTTTTTT-
1 ATTTTTTTA
*
35776 ATTTTTTTG
1 ATTTTTTTA
35785 ATTTTTATTA
1 ATTTTT-TTA
35795 ATTTTTATTA
1 ATTTTT-TTA
35805 TTATTTTTTTA
1 --ATTTTTTTA
35816 ATTTTT
1 ATTTTT
35822 CATTTCTACT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
8 8 0.16
9 20 0.41
10 12 0.24
11 3 0.06
12 6 0.12
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:35821 original size:10 final size:10
Alignment explanation
Indices: 35759--35821 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
35749 GCATTTCATG
35759 ATTTTTTTT-
1 ATTTTTTTTA
35768 A-TTTTTTT-
1 ATTTTTTTTA
*
35776 A-TTTTTTTG
1 ATTTTTTTTA
*
35785 ATTTTTATTA
1 ATTTTTTTTA
*
35795 ATTTTTATTA
1 ATTTTTTTTA
*
35805 TTATTTTTTTA
1 AT-TTTTTTTA
35816 ATTTTT
1 ATTTTT
35822 CATTTCTACT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
8 15 0.33
9 2 0.04
10 21 0.46
11 8 0.17
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (10 bp):
ATTTTTTTTA
Found at i:36371 original size:42 final size:42
Alignment explanation
Indices: 36325--36921 Score: 752
Period size: 42 Copynumber: 14.2 Consensus size: 42
36315 TAGATGAGGC
* * * * * *
36325 AGTCTTCAGGGTCAAAGCCCATAGTCAGACTAAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * * * *
36367 AGTCTCCAGGGT-TAAGACCGACAGGCAGGCTAAAGGTAGAAA
1 AGTCTCCAGGGTCAAAG-CCGACAGGCAGACTAAGGGAAGGAA
* *
36409 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * * * *
36451 AGTCTCTAGGGT-TAAGCCGAC-GAGCAGACTGCAGGAAAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAG-GCAGACT-AAGGGAAGGAA
* * *
36493 AGTCTTCAGGGTCAAAGCCGACAAGCAGACTCAA-GGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGAAGGAA
* *
36535 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
*
36577 AGTCTCCAGGGTTAAAGCCGACAGGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
*
36619 AGTCTCCAGGATCAAAGCCGACAGGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * *
36661 AGTCTGCAGGGTCAAAGCCAATAGGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* *
36703 AGTCTCCAGGGTCAAAGCTGACAAGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
** * *
36745 AGTCTCCAGGGTCAAAGTTGATAGGCAGACTAAGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* *
36787 AGTCTCCAGGGTCAAAGCCGACAGGTAGACTAGGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * *
36829 AGTCTCCAAGGTCAAAGCCGACAAGCAGACTAAGGGAAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * *
36871 AGTCTCCACGGTCAAAGCCGATAGGCAGACTAAGGGAAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
36913 AGTCTCCAG
1 AGTCTCCAG
36922 AAGTTTAATG
Statistics
Matches: 486, Mismatches: 62, Indels: 14
0.86 0.11 0.02
Matches are distributed among these distances:
40 1 0.00
41 19 0.04
42 447 0.92
43 19 0.04
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.13
Consensus pattern (42 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
Found at i:37537 original size:13 final size:13
Alignment explanation
Indices: 37519--37546 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37509 ATTACTCAAA
37519 TGTATCGATACAT
1 TGTATCGATACAT
37532 TGTATCGATACAT
1 TGTATCGATACAT
37545 TG
1 TG
37547 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:48634 original size:22 final size:23
Alignment explanation
Indices: 48609--48653 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
48599 ATTCTTAGTA
*
48609 ATTAAGCAAATATTG-ATGAATG
1 ATTAAGAAAATATTGAATGAATG
* *
48631 ATTATGAAAATGTTGAATGAATG
1 ATTAAGAAAATATTGAATGAATG
48654 CCATGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (23 bp):
ATTAAGAAAATATTGAATGAATG
Done.