Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2338
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: 33087
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Found at i:2640 original size:67 final size:67
Alignment explanation
Indices: 2556--2686 Score: 178
Period size: 67 Copynumber: 1.9 Consensus size: 67
2546 TGAACAAGTA
*
2556 AATTTTTACTAATCAAACTTAATTCTATC-CATGAATAGATATA-TTCGATAAT-ATGATTAATC
1 AATTTTTACTAACCAAACTTAA-TCT-TCTCATGAATAGATATACTT-GATAATAATGATTAATC
2618 TTATT
63 TTATT
* *
2623 AATTTTTACTAACCAAACTTAATCTTCTTCATGAATAGATCTACTTGATGATAATGATTAATCT
1 AATTTTTACTAACCAAACTTAATCTTC-TCATGAATAGATATACTTGATAATAATGATTAATCT
2687 AATAATGTCA
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
65 2 0.04
66 3 0.05
67 39 0.68
68 13 0.23
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (67 bp):
AATTTTTACTAACCAAACTTAATCTTCTCATGAATAGATATACTTGATAATAATGATTAATCTTA
TT
Found at i:7663 original size:109 final size:106
Alignment explanation
Indices: 7474--8013 Score: 462
Period size: 109 Copynumber: 5.0 Consensus size: 106
7464 TTTACACGAG
* * * * * * **
7474 AAATGAATTATCTTATATAAAGGGCGTTCATGCGCCACTTTATGGCCCTAGACAATGATCTATTT
1 AAATGAATTATCCTATATAAAGGGCGTTCGTACG-CGCTTTATGACTCTAGATGATGAT-TATTT
* * * *
7539 CGATGCCAATATTTTGGTACCTGAATTTACGTAATTAATGCAAA
64 CG-GGTCAATTTTTTGGTACCAGAATTTACGTAATTAATGCAAA
** ** *
7583 AAATGAATTATATTATATAAAGGGCGTTCAAACGTCGCTTTATGACTTTAGATGATGACTTATTT
1 AAATGAATTATCCTATATAAAGGGCGTTCGTACG-CGCTTTATGACTCTAGATGATGA-TTATTT
*
7648 CGGGATCAATTTTTTGGTGCTC-GAATTTACGTAATTAATGCAAA
64 CGGG-TCAATTTTTTGGTAC-CAGAATTTACGTAATTAATGCAAA
* * * ** *
7692 AAATAAATTATCCTATATAAAGGGCATTCGTACGCTGTTTTATGACTCTAGACAATGGCTTATTT
1 AAATGAATTATCCTATATAAAGGGCGTTCGTACGC-GCTTTATGACTCTAGATGAT-GATTATTT
* * * *
7757 CAAGGCCAATCTTTTT-GTGCCCA-AATTTACGTAATTAATGCAGA
64 C-GGGTCAAT-TTTTTGGT-ACCAGAATTTACGTAATTAATGCAAA
* * * * *
7801 AAATAAATTAT-CT-TATAAAGGGTGTTCGTACACCTCTTTACGACTCTAGATGATGATCTATTT
1 AAATGAATTATCCTATATAAAGGGCGTTCGTAC-GCGCTTTATGACTCTAGATGATGAT-TATTT
* * * * *
7864 TGAGGTTAATCTTTTGGTACCAGAATATTATGTAATT-ATGCAAT
64 CG-GGTCAATTTTTTGGTACCAGAAT-TTACGTAATTAATGCAAA
* ** * *
7908 AAATGAATTATCCTATATAAAAGGTATTCGTACGCTGCTTTACGACTTTAGATGATGATTTATTT
1 AAATGAATTATCCTATATAAAGGGCGTTCGTACGC-GCTTTATGACTCTAGATGATGA-TTATTT
*
7973 CGGGGTCAATTTTTTGGTACCAAAATATTACGTAATTAATG
64 C-GGGTCAATTTTTTGGTACCAGAAT-TTACGTAATTAATG
8014 TAATTAAATT
Statistics
Matches: 352, Mismatches: 58, Indels: 41
0.78 0.13 0.09
Matches are distributed among these distances:
106 9 0.03
107 61 0.17
108 17 0.05
109 249 0.71
110 16 0.05
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (106 bp):
AAATGAATTATCCTATATAAAGGGCGTTCGTACGCGCTTTATGACTCTAGATGATGATTATTTCG
GGTCAATTTTTTGGTACCAGAATTTACGTAATTAATGCAAA
Found at i:7927 original size:216 final size:217
Alignment explanation
Indices: 7474--8013 Score: 547
Period size: 216 Copynumber: 2.5 Consensus size: 217
7464 TTTACACGAG
* * * * ** * *
7474 AAATGAATTATCTTATATAAAGGGCGTTCATGCGCCACTTTATGGCCCTAGACAAT-GATCTATT
1 AAATGAATTATCCTATATAAAGGGCATTCGTACGCTGCTTTATGACTCTAGACAATGGAT-TATT
* * ** * *
7538 TCGATGCCAATATTTTGGTACCTGAATTTACGTAATTAATGCAAAAAATGAATTATATTATATAA
65 TCGAGGCCAAT-TTTTTGTACCAAAATTTACGTAATTAATGCAAAAAATAAATTATACTATATAA
** * * * *
7603 AGGGCGTTCAAACGTCGCTTTATGACTTTAGATGATGACTTATTTCGGGATCAATTTTTTGGTGC
129 AGGGCGTTCAAACACCGCTTTACGACTCTAGATGATGACTTATTTCGGGATCAATCTTTTGGTAC
7668 TCGAATTTACGTAATTAATGCAAA
194 TCGAATTTACGTAATTAATGCAAA
* * *
7692 AAATAAATTATCCTATATAAAGGGCATTCGTACGCTGTTTTATGACTCTAGACAATGGCTTATTT
1 AAATGAATTATCCTATATAAAGGGCATTCGTACGCTGCTTTATGACTCTAGACAATGGATTATTT
* * * *
7757 CAAGGCCAATCTTTTTGTGCCCAAATTTACGTAATTAATGCAGAAAATAAATTAT-CT-TATAAA
66 CGAGGCCAAT-TTTTTGTACCAAAATTTACGTAATTAATGCAAAAAATAAATTATACTATATAAA
* ** * * *
7820 GGGTGTTCGTACACCTCTTTACGACTCTAGATGATGA-TCTATTTTGAGG-TTAATCTTTTGGTA
130 GGGCGTTCAAACACCGCTTTACGACTCTAGATGATGACT-TATTTCG-GGATCAATCTTTTGGTA
* *
7883 C-CAGAATATTATGTAATT-ATGCAAT
193 CTC-GAAT-TTACGTAATTAATGCAAA
* * * * **
7908 AAATGAATTATCCTATATAAAAGGTATTCGTACGCTGCTTTACGACTTTAGATGAT-GATTTATT
1 AAATGAATTATCCTATATAAAGGGCATTCGTACGCTGCTTTATGACTCTAGACAATGGA-TTATT
* *
7972 TCGGGGTCAATTTTTTGGTACCAAAATATTACGTAATTAATG
65 TCGAGGCCAATTTTTT-GTACCAAAAT-TTACGTAATTAATG
8014 TAATTAAATT
Statistics
Matches: 265, Mismatches: 49, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
215 8 0.03
216 132 0.50
217 26 0.10
218 97 0.37
219 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (217 bp):
AAATGAATTATCCTATATAAAGGGCATTCGTACGCTGCTTTATGACTCTAGACAATGGATTATTT
CGAGGCCAATTTTTTGTACCAAAATTTACGTAATTAATGCAAAAAATAAATTATACTATATAAAG
GGCGTTCAAACACCGCTTTACGACTCTAGATGATGACTTATTTCGGGATCAATCTTTTGGTACTC
GAATTTACGTAATTAATGCAAA
Found at i:8433 original size:2 final size:2
Alignment explanation
Indices: 8426--8452 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8416 CATCATCAAC
8426 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8453 ACTGAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8433 original size:148 final size:148
Alignment explanation
Indices: 8165--8442 Score: 452
Period size: 148 Copynumber: 1.9 Consensus size: 148
8155 CTCATTTTAA
* * *
8165 TACAATAGATAATTTAAGCATTTTAACATTCATTTAATAACATAAATTAAAAATAAATACATAAT
1 TACAATAGATAATTTAAGCATTTTAAAATTCATTTAATAACATAAATCAAAAATAAATAAATAAT
* ** * *
8230 TAAATCAATAATATCATATACCTTGAATACAAAGCAAACATCATCCATATATATATATATATATA
66 CAAATCAATAATATCATATACCTCAAATACAAAGCAAACATCATCAACATATATATATATATATA
8295 ATTGAGCATTTAAATATT
131 ATTGAGCATTTAAATATT
8313 TACAATAGATAATTTAAGCATTTTAAAATTCATTTAA-AAGCATAAATCAAAAATAAATAAATAA
1 TACAATAGATAATTTAAGCATTTTAAAATTCATTTAATAA-CATAAATCAAAAATAAATAAATAA
8377 -CAAACTCAATAATATCATATACCTCAAATACAAAGCAAACATCATCAACATATATATATATATA
65 TCAAA-TCAATAATATCATATACCTCAAATACAAAGCAAACATCATCAACATATATATATATATA
8441 TA
129 TA
8443 TATATATATA
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
147 5 0.04
148 115 0.96
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (148 bp):
TACAATAGATAATTTAAGCATTTTAAAATTCATTTAATAACATAAATCAAAAATAAATAAATAAT
CAAATCAATAATATCATATACCTCAAATACAAAGCAAACATCATCAACATATATATATATATATA
ATTGAGCATTTAAATATT
Found at i:10871 original size:1 final size:1
Alignment explanation
Indices: 10865--10949 Score: 89
Period size: 1 Copynumber: 85.0 Consensus size: 1
10855 AAATCTTCAC
* * * * ** *
10865 TTTTTTTTTGTTTTGTTTTTTTTTTTTTTTTGTTTTGTTTTTTTTTTTTTTTTCCTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
10930 TTTGTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTT
10950 CCAATTGCCA
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:10893 original size:22 final size:22
Alignment explanation
Indices: 10865--10949 Score: 111
Period size: 22 Copynumber: 3.9 Consensus size: 22
10855 AAATCTTCAC
10865 TTTTTTTTTGTTTTGTTTTTTT
1 TTTTTTTTTGTTTTGTTTTTTT
10887 TTTTTTTTTGTTTTGTTTTTTT
1 TTTTTTTTTGTTTTGTTTTTTT
* *
10909 TTTTTTTTTCCTTTT-TTTTGTT
1 TTTTTTTTT-GTTTTGTTTTTTT
* *
10931 TTGTTTTTT-TTTTCTTTTT
1 TTTTTTTTTGTTTTGTTTTT
10950 CCAATTGCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
20 4 0.07
21 4 0.07
22 45 0.79
23 4 0.07
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (22 bp):
TTTTTTTTTGTTTTGTTTTTTT
Found at i:10924 original size:32 final size:32
Alignment explanation
Indices: 10865--10951 Score: 124
Period size: 32 Copynumber: 2.7 Consensus size: 32
10855 AAATCTTCAC
*
10865 TTTTTTTTTGTTTTGTTTTTTTT--TTTTTTTTG
1 TTTTGTTTT-TTTT-TTTTTTTTCCTTTTTTTTG
10897 TTTTGTTTTTTTTTTTTTTTTCCTTTTTTTTG
1 TTTTGTTTTTTTTTTTTTTTTCCTTTTTTTTG
*
10929 TTTTGTTTTTTTTTTCTTTTTCC
1 TTTTGTTTTTTTTTTTTTTTTCC
10952 AATTGCCATG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 8 0.16
31 4 0.08
32 39 0.76
ACGTcount: A:0.00, C:0.06, G:0.07, T:0.87
Consensus pattern (32 bp):
TTTTGTTTTTTTTTTTTTTTTCCTTTTTTTTG
Found at i:21687 original size:27 final size:27
Alignment explanation
Indices: 21652--21724 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
21642 AATCACCTAT
*
21652 TGTTTGTAAAAAATTATGATTAT-TTTG
1 TGTTTGTAAAAAATAATGATT-TCTTTG
* *
21679 TGTTTGTAAAAAATAATAATTTCTTTT
1 TGTTTGTAAAAAATAATGATTTCTTTG
* *
21706 TATTTGTAAAAAATGATGA
1 TGTTTGTAAAAAATAATGA
21725 CATGTTATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.48
Consensus pattern (27 bp):
TGTTTGTAAAAAATAATGATTTCTTTG
Found at i:26281 original size:27 final size:27
Alignment explanation
Indices: 26214--26282 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
26204 CCACTCATTG
** * *
26214 TTTGTCAAAAATTATGGTTACTTTGTG
1 TTTGTCAAAAATGGTAGTTACTTTGTA
* *
26241 TTTGTCAAAAATGGTAGTTTCTTTTTA
1 TTTGTCAAAAATGGTAGTTACTTTGTA
26268 TTTGTCAAAAATGGT
1 TTTGTCAAAAATGGT
26283 GGCATATTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (27 bp):
TTTGTCAAAAATGGTAGTTACTTTGTA
Found at i:26381 original size:13 final size:13
Alignment explanation
Indices: 26363--26407 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
26353 GGCTCCCTTC
26363 TCCCTCTCAAGTA
1 TCCCTCTCAAGTA
*
26376 TCCCTCTCAAGCA
1 TCCCTCTCAAGTA
**
26389 T-CCTCTCTTGTA
1 TCCCTCTCAAGTA
26401 TCCCTCT
1 TCCCTCT
26408 TCAATTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 9 0.33
13 18 0.67
ACGTcount: A:0.16, C:0.42, G:0.07, T:0.36
Consensus pattern (13 bp):
TCCCTCTCAAGTA
Found at i:26455 original size:33 final size:33
Alignment explanation
Indices: 26418--26483 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
26408 TCAATTCTTT
26418 CTCATAATAGAATTGGTGGTGTCCGAGGACATA
1 CTCATAATAGAATTGGTGGTGTCCGAGGACATA
26451 CTCATAATAGAATTGGTGGTGTCCGAGGACATA
1 CTCATAATAGAATTGGTGGTGTCCGAGGACATA
26484 GGCATAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (33 bp):
CTCATAATAGAATTGGTGGTGTCCGAGGACATA
Found at i:27828 original size:27 final size:28
Alignment explanation
Indices: 27792--27846 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
27782 AATATTAAAA
27792 AAAATAATTTTGT-AAATAAATTTTTTAT
1 AAAATAATTTTGTAAAAT-AATTTTTTAT
*
27820 AAAAT-ATTTTTTAAAATAATTTTTTAT
1 AAAATAATTTTGTAAAATAATTTTTTAT
27847 GAATACGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
AAAATAATTTTGTAAAATAATTTTTTAT
Found at i:27851 original size:14 final size:13
Alignment explanation
Indices: 27794--27851 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
27784 TATTAAAAAA
*
27794 AATAATTTTGTA-
1 AATAATTTTTTAT
27806 AATAAATTTTTTAT
1 AAT-AATTTTTTAT
* *
27820 AAAATATTTTTTAA
1 AATA-ATTTTTTAT
27834 AATAATTTTTTAT
1 AATAATTTTTTAT
27847 GAATA
1 -AATA
27852 CGTTAAGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 3 0.08
13 17 0.46
14 17 0.46
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
AATAATTTTTTAT
Found at i:28072 original size:22 final size:21
Alignment explanation
Indices: 28024--28080 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
28014 ATTTTTTATA
*
28024 AAATTTAAAATAATATTTAATT
1 AAATTTAAAA-AATATTTAAGT
28046 AAATTTAAAAAA-ATTTAAGGT
1 AAATTTAAAAAATATTTAA-GT
*
28067 ATAATTTATAAAAT
1 A-AATTTAAAAAAT
28081 TAATTGTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.20
21 4 0.13
22 20 0.67
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
AAATTTAAAAAATATTTAAGT
Found at i:28367 original size:22 final size:23
Alignment explanation
Indices: 28331--28377 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
28321 TTTTAATAAA
*
28331 TTTAATATCTAATTT-ATTTTATT
1 TTTAAAATCTAATTTGA-TTTATT
28354 TTTAAAATC-AATTTGATTTATT
1 TTTAAAATCTAATTTGATTTATT
28376 TT
1 TT
28378 ATGAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTAAAATCTAATTTGATTTATT
Found at i:29055 original size:32 final size:32
Alignment explanation
Indices: 29018--29078 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
29008 ATTTATGTAA
*
29018 TTTAATTGATTTATAAAAATT-TAAAATTTAAT
1 TTTAATTGAATTAT-AAAATTGTAAAATTTAAT
*
29050 TTTAATTTAATTATAAAATTGTAAAATTT
1 TTTAATTGAATTATAAAATTGTAAAATTT
29079 TAAGATTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
TTTAATTGAATTATAAAATTGTAAAATTTAAT
Found at i:31952 original size:16 final size:17
Alignment explanation
Indices: 31931--31971 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
31921 AAATATTGCT
*
31931 ATTTTAATCA-TTACAA
1 ATTTTAATAACTTACAA
*
31947 ATTTT-ATAACTTTCAA
1 ATTTTAATAACTTACAA
31963 ATTTTAATA
1 ATTTTAATA
31972 GCTTTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 15 0.71
17 3 0.14
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTTAATAACTTACAA
Found at i:32274 original size:122 final size:123
Alignment explanation
Indices: 32116--32380 Score: 346
Period size: 122 Copynumber: 2.2 Consensus size: 123
32106 ATTAATAAAA
*
32116 TTTTAATTTTAA-TTTTTTTGTTTTAAAAAACATAATAATTAATATTTTAA-TTGTTAAT-GTAA
1 TTTTTATTTTAATTTTTTTTGTTTTAAAAAACATAATAATTAATATTTTAATTTGTTAATAG-AA
* * *
32178 ATTTTTTAAACTTAATTAAATA-T-TTTTT-A-TTTCATTAAAAATTATAATAAAAAACAT
65 A-TTTTTAAACTTAATTAAATATTATTTTTAAGTTT-ATTAAAAATAAGAATAAAAAACAC
* *
32235 TTTTTATTTTAATTTTTTTTATTTTTATAAAAATATAATAATTAATATTTTAATTTGTTAATAGA
1 TTTTTATTTTAATTTTTTTT-GTTTTA-AAAAACATAATAATTAATATTTTAATTTGTTAATAGA
* *
32300 AATTTTTAAACTTAATTAAATATTATTTTTAAGTTTATTAAAAATAAGAATAATAAACCC
64 AATTTTTAAACTTAATTAAATATTATTTTTAAGTTTATTAAAAATAAGAATAAAAAACAC
*
32360 TTTTTAATTTAATTTGTTTTT
1 TTTTTATTTTAATTT-TTTTT
32381 TAAAAAATTA
Statistics
Matches: 127, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
119 11 0.09
120 7 0.06
121 5 0.04
122 44 0.35
123 12 0.09
124 6 0.05
125 34 0.27
126 8 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (123 bp):
TTTTTATTTTAATTTTTTTTGTTTTAAAAAACATAATAATTAATATTTTAATTTGTTAATAGAAA
TTTTTAAACTTAATTAAATATTATTTTTAAGTTTATTAAAAATAAGAATAAAAAACAC
Found at i:32430 original size:24 final size:23
Alignment explanation
Indices: 32394--32443 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
32384 AAAATTAATA
*
32394 TTTTAATTTATT-AATATAATTTT
1 TTTTAATTAATTAAATAT-ATTTT
32417 TTTTAAGTTAATTAAATATATTTT
1 TTTTAA-TTAATTAAATATATTTT
32441 TTT
1 TTT
32444 AAAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 13 0.54
25 5 0.21
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTTAATTAATTAAATATATTTT
Found at i:32537 original size:16 final size:17
Alignment explanation
Indices: 32508--32558 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
32498 ACCATGACCC
32508 TTTTTTTAAATTTA-AA
1 TTTTTTTAAATTTATAA
**
32524 TTTTTTTATTTTTATAA
1 TTTTTTTAAATTTATAA
*
32541 TTAAATTTTAAATTTATA
1 TT--TTTTTAAATTTATA
32559 TATAATAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 12 0.44
17 4 0.15
19 11 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTTAAATTTATAA
Done.