Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3717
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: 38190
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:1630 original size:11 final size:10
Alignment explanation
Indices: 1605--1665 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
1595 ACCAATAAAA
1605 TAAA-TGAGC
1 TAAATTGAGC
*
1614 TGAATTGTAGC
1 TAAATTG-AGC
1625 TAAATTGAGC
1 TAAATTGAGC
**
1635 TCGATTGAGC
1 TAAATTGAGC
1645 TGAAA-TGAGC
1 T-AAATTGAGC
*
1655 TCAATTGAGC
1 TAAATTGAGC
1665 T
1 T
1666 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:1666 original size:20 final size:20
Alignment explanation
Indices: 1606--1666 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
1596 CCAATAAAAT
*
1606 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
1626 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
1647 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
1667 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:3758 original size:12 final size:12
Alignment explanation
Indices: 3719--3784 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 12
3709 TCAACATCTT
3719 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
3731 TTTTTTTCAATCTCAA
1 TTTCTTT---T-TCAA
3747 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
3759 TTTTCTTTTCTTCAT
1 -TTTC-TTT-TTCAA
3774 TTTCTTTTTCA
1 TTTCTTTTTCA
3785 CTCACTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
12 14 0.32
13 8 0.18
14 7 0.16
15 5 0.11
16 10 0.23
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:3782 original size:28 final size:27
Alignment explanation
Indices: 3718--3784 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
3708 TTCAACATCT
3718 TTTTCTTTTTCAATTTTTTTCAATCTCA
1 TTTTCTTTTTCAATTTTTTTC-ATCTCA
*
3746 ATTTCTTTTTCAATTTTCTTT--TCTTCA
1 TTTTCTTTTTCAATTTT-TTTCATC-TCA
3773 TTTTCTTTTTCA
1 TTTTCTTTTTCA
3785 CTCACTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 2 0.06
27 14 0.40
28 16 0.46
29 3 0.09
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTCTTTTTCAATTTTTTTCATCTCA
Found at i:4642 original size:15 final size:15
Alignment explanation
Indices: 4622--4651 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4612 AAGACTTTTC
4622 ACTTTTTTTTTCTTT
1 ACTTTTTTTTTCTTT
4637 ACTTTTTTTTTCTTT
1 ACTTTTTTTTTCTTT
4652 TTTTTCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (15 bp):
ACTTTTTTTTTCTTT
Found at i:4644 original size:14 final size:12
Alignment explanation
Indices: 4624--4696 Score: 58
Period size: 14 Copynumber: 5.5 Consensus size: 12
4614 GACTTTTCAC
4624 TTTTTTTTTCTTT
1 TTTTTTTTTC-TT
4637 ACTTTTTTTTTCTT
1 --TTTTTTTTTCTT
*
4651 TTTTTTCACTTCTT
1 TTTTTT--TTTCTT
4665 TTTTTTTTT-TT
1 TTTTTTTTTCTT
4676 CTTTTTTTTTGACTT
1 -TTTTTTTTT--CTT
4691 TTTTTT
1 TTTTTT
4697 GAATTTTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
11 2 0.04
12 17 0.34
14 19 0.38
15 12 0.24
ACGTcount: A:0.04, C:0.11, G:0.01, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:4666 original size:21 final size:19
Alignment explanation
Indices: 4624--4675 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
4614 GACTTTTCAC
* *
4624 TTTTTTTTTCTTTACTTTT
1 TTTTTTTTTTTTTACTTCT
4643 TTTTTCTTTTTTTTCACTTCT
1 TTTTT-TTTTTTTT-ACTTCT
4664 TTTTTTTTTTTT
1 TTTTTTTTTTTT
4676 CTTTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.17
20 14 0.48
21 10 0.34
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTTTTTACTTCT
Found at i:4692 original size:11 final size:10
Alignment explanation
Indices: 4628--4707 Score: 67
Period size: 11 Copynumber: 7.8 Consensus size: 10
4618 TTTCACTTTT
4628 TTTTTCTTTAC
1 TTTTT-TTTAC
*
4639 TTTTTTTTTC
1 TTTTTTTTAC
4649 TTTTTTTTCAC
1 TTTTTTTT-AC
*
4660 TTCTTTTT--
1 TTTTTTTTAC
4668 TTTTTTTT-C
1 TTTTTTTTAC
4677 TTTTTTTTTGAC
1 -TTTTTTTT-AC
*
4689 TTTTTTTTGAA
1 TTTTTTTT-AC
4700 TTTTTTTT
1 TTTTTTTT
4708 TCAATTTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
8 7 0.12
10 20 0.34
11 31 0.53
12 1 0.02
ACGTcount: A:0.06, C:0.10, G:0.03, T:0.81
Consensus pattern (10 bp):
TTTTTTTTAC
Found at i:4715 original size:11 final size:10
Alignment explanation
Indices: 4640--4719 Score: 58
Period size: 11 Copynumber: 7.8 Consensus size: 10
4630 TTTCTTTACT
4640 TTTTTTTTC-
1 TTTTTTTTCA
4649 TTTTTTTTCA
1 TTTTTTTTCA
*
4659 CTTCTTTTT--
1 -TTTTTTTTCA
*
4668 TTTTTTTTCT
1 TTTTTTTTCA
*
4678 TTTTTTTTGA
1 TTTTTTTTCA
*
4688 CTTTTTTTTGAA
1 -TTTTTTTT-CA
4700 TTTTTTTTTCAA
1 -TTTTTTTTC-A
4712 TTTTTTTT
1 TTTTTTTT
4720 TGATTTTTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
8 7 0.12
9 9 0.16
10 8 0.14
11 23 0.40
12 10 0.18
ACGTcount: A:0.07, C:0.09, G:0.03, T:0.81
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:4725 original size:11 final size:11
Alignment explanation
Indices: 4666--4728 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
4656 TCACTTCTTT
**
4666 TTTTTTTTTTC
1 TTTTTTTTTGA
4677 TTTTTTTTTGA
1 TTTTTTTTTGA
*
4688 CTTTTTTTTGAA
1 TTTTTTTTTG-A
*
4700 TTTTTTTTTCAA
1 TTTTTTTTT-GA
4712 TTTTTTTTTGA
1 TTTTTTTTTGA
4723 TTTTTT
1 TTTTTT
4729 GTTACCAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
11 25 0.57
12 19 0.43
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.81
Consensus pattern (11 bp):
TTTTTTTTTGA
Found at i:6077 original size:11 final size:10
Alignment explanation
Indices: 6052--6112 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
6042 ACCAATAAAA
6052 TAAA-TGAGC
1 TAAATTGAGC
*
6061 TGAATTGTAGC
1 TAAATTG-AGC
6072 TAAATTGAGC
1 TAAATTGAGC
**
6082 TCGATTGAGC
1 TAAATTGAGC
6092 TGAAA-TGAGC
1 T-AAATTGAGC
*
6102 TCAATTGAGC
1 TAAATTGAGC
6112 T
1 T
6113 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:6113 original size:20 final size:20
Alignment explanation
Indices: 6053--6113 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
6043 CCAATAAAAT
*
6053 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
6073 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
6094 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
6114 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:21291 original size:29 final size:29
Alignment explanation
Indices: 21258--21317 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
21248 ATAACCAAAC
*
21258 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
21287 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
21316 CT
1 CT
21318 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:21310 original size:15 final size:15
Alignment explanation
Indices: 21264--21311 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
21254 AAACCTACAA
*
21264 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
21279 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
21293 AAACTTCATATCCAT
1 AAACTTCATATCCAT
21308 AAAC
1 AAAC
21312 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:21593 original size:16 final size:18
Alignment explanation
Indices: 21562--21595 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
21552 AAAAAATTTC
21562 AAACAAAAATTCTGAAAA
1 AAACAAAAATTCTGAAAA
21580 AAAC-AAAA-TCTGAAAA
1 AAACAAAAATTCTGAAAA
21596 TTTGAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.68, C:0.12, G:0.06, T:0.15
Consensus pattern (18 bp):
AAACAAAAATTCTGAAAA
Found at i:22661 original size:30 final size:28
Alignment explanation
Indices: 22625--22680 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
22615 AAGCGAAAAA
* *
22625 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
22655 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
22681 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:28023 original size:12 final size:12
Alignment explanation
Indices: 28006--28046 Score: 64
Period size: 12 Copynumber: 3.2 Consensus size: 12
27996 AAAAAAAAAA
28006 TTTTGAATTTTT
1 TTTTGAATTTTT
28018 TTTTGAATTTTTTT
1 TTTTGAA--TTTTT
28032 TTTTGAATTTTT
1 TTTTGAATTTTT
28044 TTT
1 TTT
28047 CAAATTTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 15 0.56
14 12 0.44
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTGAATTTTT
Found at i:28032 original size:14 final size:14
Alignment explanation
Indices: 28013--28046 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
28003 AAATTTTGAA
28013 TTTTTTTTTGAATT
1 TTTTTTTTTGAATT
28027 TTTTTTTTTGAATT
1 TTTTTTTTTGAATT
28041 TTTTTT
1 TTTTTT
28047 CAAATTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTGAATT
Found at i:32099 original size:29 final size:29
Alignment explanation
Indices: 32066--32125 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
32056 ATAACCAAAC
* *
32066 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
32095 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
32124 CT
1 CT
32126 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:32118 original size:15 final size:15
Alignment explanation
Indices: 32072--32119 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
32062 AAACCTACAA
*
32072 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
32087 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
32101 AAACTTCATATCCAT
1 AAACTTCATATCCAT
32116 AAAC
1 AAAC
32120 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:33060 original size:30 final size:30
Alignment explanation
Indices: 33026--33122 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
33016 TAAACTAAAA
33026 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
33056 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
33086 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
33116 TGAGCTA
1 TGAGCTA
33123 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:35252 original size:31 final size:30
Alignment explanation
Indices: 35215--35298 Score: 93
Period size: 29 Copynumber: 2.8 Consensus size: 30
35205 TTCTTTTGTT
*
35215 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCATCTTCTTTTTCAATC
*
35245 TCAAATTTC-TTTTC--GTTCTCTTTTCAATC
1 TC-AATTTCTTTTTCATCTTCT-TTTTCAATC
* *
35274 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTTCATCTTCTTTTT
35299 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
28 9 0.20
29 15 0.33
30 11 0.24
31 10 0.22
ACGTcount: A:0.13, C:0.23, G:0.01, T:0.63
Consensus pattern (30 bp):
TCAATTTCTTTTTCATCTTCTTTTTCAATC
Found at i:35282 original size:28 final size:28
Alignment explanation
Indices: 35232--35285 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
35222 CTTTTTCATC
*
35232 TTCTTTTTCACTCTCAAATTTCTTTTCG
1 TTCTTTTTCAATCTCAAATTTCTTTTCG
*
35260 TTCTCTTTTCAATCTC-ATTTTCTTTT
1 TTCT-TTTTCAATCTCAAATTTCTTTT
35286 TCATTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.13, C:0.24, G:0.02, T:0.61
Consensus pattern (28 bp):
TTCTTTTTCAATCTCAAATTTCTTTTCG
Found at i:35305 original size:12 final size:12
Alignment explanation
Indices: 35274--35298 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35264 CTTTTCAATC
35274 TCATTTTCTTTT
1 TCATTTTCTTTT
35286 TCATTTTCTTTT
1 TCATTTTCTTTT
35298 T
1 T
35299 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:35387 original size:13 final size:13
Alignment explanation
Indices: 35369--35434 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 13
35359 CTTGCCTCTC
35369 TTTTCTTTAT-TTT
1 TTTTCTTT-TCTTT
35382 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
35395 TTCTTCTTTTGCTTTTT
1 TT-TTCTTTT-C--TTT
35412 CTTTTCTTTTCTTT
1 -TTTTCTTTTCTTT
35426 TTTCTCTTT
1 TTT-TCTTT
35435 ACAAGAATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
12 1 0.02
13 16 0.35
14 15 0.33
15 1 0.02
16 1 0.02
17 10 0.22
18 2 0.04
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTCTTT
Found at i:35390 original size:5 final size:5
Alignment explanation
Indices: 35367--35426 Score: 63
Period size: 5 Copynumber: 12.2 Consensus size: 5
35357 CTCTTGCCTC
* *
35367 TCTTT TC-TT TATTT T-TTT TCTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
35416 TCTTT TCTTT T
1 TCTTT TCTTT T
35427 TTCTCTTTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
4 10 0.21
5 31 0.66
6 2 0.04
7 4 0.09
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:35417 original size:26 final size:24
Alignment explanation
Indices: 35367--35428 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 24
35357 CTCTTGCCTC
35367 TCTTTTCTTTATTT--TTTTTCTTT
1 TCTTTTCTTT-TTTGCTTTTTCTTT
35390 TCTTTTTCTTCTTTTGCTTTTTCTTT
1 TC-TTTTCTT-TTTTGCTTTTTCTTT
35416 TCTTTTCTTTTTT
1 TCTTTTCTTTTTT
35429 CTCTTTACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
23 2 0.06
24 14 0.40
25 8 0.23
26 11 0.31
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (24 bp):
TCTTTTCTTTTTTGCTTTTTCTTT
Found at i:36345 original size:13 final size:13
Alignment explanation
Indices: 36327--36383 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
36317 CATTAAACAC
*
36327 TTTTTTTCAGATT
1 TTTTTTTCAAATT
36340 TTTTTTTCGAAATT
1 TTTTTTTC-AAATT
*
36354 TTTTTTT-GAA--
1 TTTTTTTCAAATT
36364 TTTTTTTCAAATT
1 TTTTTTTCAAATT
36377 TTTTTTT
1 TTTTTTT
36384 ACTTGTATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 7 0.19
11 2 0.05
12 2 0.05
13 15 0.41
14 11 0.30
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (13 bp):
TTTTTTTCAAATT
Found at i:38154 original size:30 final size:30
Alignment explanation
Indices: 38061--38156 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
38051 TAAACTAAAA
*
38061 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAG
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAAG
* * * * * *
38090 TGAGCTGAGGCTAAACTCCTAAGCTG-AAG
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAAG
*
38119 TTGAGCTAAGGTTTAGCTCGTGAGTTGAAAG
1 -TGAGCTAAGGTTTAGCTCGTGAGCTGAAAG
38150 TGAGCTA
1 TGAGCTA
38157 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 5
0.72 0.20 0.07
Matches are distributed among these distances:
29 21 0.42
30 26 0.52
31 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAAG
Done.