Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2108
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: 86603
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Found at i:6558 original size:18 final size:18
Alignment explanation
Indices: 6535--6569 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6525 TAAATAAGAG
6535 ACAATATAAAAAATGAAC
1 ACAATATAAAAAATGAAC
*
6553 ACAATATAAATAATGAA
1 ACAATATAAAAAATGAA
6570 TATCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.09, G:0.06, T:0.20
Consensus pattern (18 bp):
ACAATATAAAAAATGAAC
Found at i:12008 original size:16 final size:15
Alignment explanation
Indices: 11964--12016 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
11954 TAAACCACCA
11964 ATTTATTTTCTTTATT
1 ATTTATTTTCTTT-TT
* *
11980 TTTGTCTTTTTCTTTTT
1 ATT-T-ATTTTCTTTTT
11997 GATTTATTTTCTTTTT
1 -ATTTATTTTCTTTTT
12013 ATTT
1 ATTT
12017 TTGGGAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 4 0.13
16 12 0.40
17 4 0.13
18 10 0.33
ACGTcount: A:0.11, C:0.08, G:0.04, T:0.77
Consensus pattern (15 bp):
ATTTATTTTCTTTTT
Found at i:12586 original size:26 final size:27
Alignment explanation
Indices: 12538--12589 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
12528 AAATTTTTCA
* *
12538 TTATTTTTTAATTCTATTGAATTTTAT
1 TTATTTTTAAATTCTATTAAATTTTAT
*
12565 TTATTTTTAAATT-TGTTAAATTTTA
1 TTATTTTTAAATTCTATTAAATTTTA
12590 ACAGAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (27 bp):
TTATTTTTAAATTCTATTAAATTTTAT
Found at i:15197 original size:19 final size:19
Alignment explanation
Indices: 15173--15209 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15163 TTTAGTATAA
15173 ACAACTAGAGGAACAATAT
1 ACAACTAGAGGAACAATAT
* *
15192 ACAACTCGATGAACAATA
1 ACAACTAGAGGAACAATA
15210 AAACACCGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (19 bp):
ACAACTAGAGGAACAATAT
Found at i:16009 original size:16 final size:16
Alignment explanation
Indices: 15987--16020 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
15977 TAAAATATTC
15987 ATATATTTATATTATTTT
1 ATAT-TTTA-ATTATTTT
16005 ATATTTTAATTATTTT
1 ATATTTTAATTATTTT
16021 TTCATGTCAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATATTTTAATTATTTT
Found at i:16218 original size:22 final size:22
Alignment explanation
Indices: 16178--16219 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16168 ATTAAAAATT
** *
16178 TATTTTTATATTTATATTTATA
1 TATTTTTATAAATAAATTTATA
16200 TATTTTTATAAATAAATTTA
1 TATTTTTATAAATAAATTTA
16220 AATAAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAAATAAATTTATA
Found at i:16983 original size:2 final size:2
Alignment explanation
Indices: 16976--17020 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
16966 AAGCAAACAC
16976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17018 TA T
1 TA T
17021 GTCTCAGTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17203 original size:2 final size:2
Alignment explanation
Indices: 17196--17227 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17186 GTTGAATACT
17196 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17228 ATCTAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17429 original size:21 final size:20
Alignment explanation
Indices: 17404--17456 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
17394 ATTTTTATAT
17404 TAATATTTATAATTTAAATAAA
1 TAATATTT-TAA-TTAAATAAA
*
17426 -AATAATTTTTATTAAATAAA
1 TAAT-ATTTTAATTAAATAAA
17446 TAATAATTTTA
1 TAAT-ATTTTA
17457 GCCTGTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 9 0.33
21 14 0.52
22 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATATTTTAATTAAATAAA
Found at i:17442 original size:20 final size:21
Alignment explanation
Indices: 17417--17455 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
17407 TATTTATAAT
17417 TTAAATAAA-AATAATTTTTA
1 TTAAATAAATAATAATTTTTA
17437 TTAAATAAATAATAATTTT
1 TTAAATAAATAATAATTTT
17456 AGCCTGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAATAAATAATAATTTTTA
Found at i:17784 original size:19 final size:19
Alignment explanation
Indices: 17756--17794 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17746 TAAAGTAACA
*
17756 TTATTGATTAAAAATTAAT
1 TTATTAATTAAAAATTAAT
*
17775 TTATTAATTAATAATTAAT
1 TTATTAATTAAAAATTAAT
17794 T
1 T
17795 AAAATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTATTAATTAAAAATTAAT
Found at i:18148 original size:17 final size:16
Alignment explanation
Indices: 18096--18149 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
18086 AATTTTAAAT
*
18096 ATATTAAAATATTTTTA
1 ATATTAAAATA-TATTA
* *
18113 AAATTAAAA-ATATTT
1 ATATTAAAATATATTA
18128 ATATTAAATATATATTA
1 ATATTAAA-ATATATTA
18145 ATATT
1 ATATT
18150 TTATATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
17 18 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAAAATATATTA
Found at i:18201 original size:7 final size:7
Alignment explanation
Indices: 18178--18224 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
18168 TTTCAAGAAA
*
18178 AAAAAGT
1 AAAAATT
18185 AAATAA-T
1 AAA-AATT
18192 AAAAATT
1 AAAAATT
18199 AAAAATT
1 AAAAATT
18206 AAAAATT
1 AAAAATT
18213 AAAAATT
1 AAAAATT
18220 AAAAA
1 AAAAA
18225 AAAAAAGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 2 0.05
7 34 0.89
8 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:18230 original size:21 final size:21
Alignment explanation
Indices: 18191--18230 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18181 AAGTAAATAA
**
18191 TAAAAATTAAAAATTAAAAAT
1 TAAAAATTAAAAAAAAAAAAT
18212 TAAAAATTAAAAAAAAAAA
1 TAAAAATTAAAAAAAAAAA
18231 GTGAAAGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAAATTAAAAAAAAAAAAT
Found at i:18466 original size:20 final size:21
Alignment explanation
Indices: 18431--18481 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
18421 AATTTAATTC
*
18431 ATTTTAATTTATAAAT-TT-AA
1 ATTTT-ATTTAAAAATATTAAA
18451 ATTATTATTTAAAAATATTAAA
1 ATT-TTATTTAAAAATATTAAA
18473 ATTTTATTT
1 ATTTTATTT
18482 TTATATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 12 0.44
21 10 0.37
22 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTATTTAAAAATATTAAA
Found at i:18506 original size:19 final size:19
Alignment explanation
Indices: 18460--18508 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
18450 AATTATTATT
18460 TAAAAATATTAAAATTTTA
1 TAAAAATATTAAAATTTTA
**** *
18479 TTTTTATATTAATATTTTA
1 TAAAAATATTAAAATTTTA
18498 TAAAAATATTA
1 TAAAAATATTA
18509 GCTTTATATT
Statistics
Matches: 21, Mismatches: 9, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAAAATATTAAAATTTTA
Found at i:19046 original size:18 final size:17
Alignment explanation
Indices: 19023--19060 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
19013 CTGTTCATTA
19023 TTTTTTTAAAAAAAGTAT
1 TTTTTTTAAAAAAAGT-T
*
19041 TTTTTTTAATAAAAGTT
1 TTTTTTTAAAAAAAGTT
19058 TTT
1 TTT
19061 GGAATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTTTTTAAAAAAAGTT
Found at i:21369 original size:2 final size:2
Alignment explanation
Indices: 21362--21397 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
21352 ATTTCATAAA
*
21362 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21398 CCAGAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:25760 original size:19 final size:18
Alignment explanation
Indices: 25704--25761 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
25694 TAATTCGAAA
* *
25704 AAATTTAAAATTAAAATTA
1 AAATTT-AATTTAAAATTT
25723 AAATTTAATTTAATAATTT
1 AAATTTAATTTAA-AATTT
*
25742 AAATTATTATTTAAAATTT
1 AAATT-TAATTTAAAATTT
25761 A
1 A
25762 TTAAAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.18
19 21 0.62
20 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTAATTTAAAATTT
Found at i:25807 original size:22 final size:22
Alignment explanation
Indices: 25779--25820 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
25769 AGTTAAAAAT
25779 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
25801 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
25821 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:28779 original size:182 final size:184
Alignment explanation
Indices: 28529--28864 Score: 473
Period size: 182 Copynumber: 1.8 Consensus size: 184
28519 AACATAGCGT
* * *
28529 AAAAAACCTGCATGAAAGATGTAATTCAACAGATCATTTCTTCTGTCAGAGAAGTTACGATGACA
1 AAAAAAACTACATGAAAGATGTAATTCAACAGATCATTTCTTCTGTCAGAGAAGTTACGATAACA
* * * * ** *
28594 ATCCCAT-TTTTTGTGTGTTTTATGAGGCCGCTCATTGATGCAG-CTGACATCCTG-GTTCCAAA
66 ATCCCATGTTTTCGTATGTTTTATGAGCCCGCTCATTGATACAGCCAAACAT-CTGTGCTCCAAA
*
28656 GTGGATCGGTTGCCAAAGTTGCATCAGTATGTTTGAACATAACCAAAAAAAAAAA
130 GTGGACCGGTTGCCAAAGTTGCATCAGTATGTTTGAACATAACCAAAAAAAAAAA
* *
28711 AAAAAAACTACATGAAAGATGTAATTCGACAGATCATTTCTTCTGT-AGTAGAAGTTATGATAAC
1 AAAAAAACTACATGAAAGATGTAATTCAACAGATCATTTCTTCTGTCAG-AGAAGTTACGATAAC
* *
28775 AATCCCGTGTTTTCGTATGTTTTATGAGCCCGCTCATTGATACAGCCAAACATCTGTGCTCCGAA
65 AATCCCATGTTTTCGTATGTTTTATGAGCCCGCTCATTGATACAGCCAAACATCTGTGCTCCAAA
* *
28840 GTGGACCTGTTGCCACAGTTGCATC
130 GTGGACCGGTTGCCAAAGTTGCATC
28865 TGCAGATTTC
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
181 2 0.02
182 63 0.47
183 35 0.26
184 33 0.25
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (184 bp):
AAAAAAACTACATGAAAGATGTAATTCAACAGATCATTTCTTCTGTCAGAGAAGTTACGATAACA
ATCCCATGTTTTCGTATGTTTTATGAGCCCGCTCATTGATACAGCCAAACATCTGTGCTCCAAAG
TGGACCGGTTGCCAAAGTTGCATCAGTATGTTTGAACATAACCAAAAAAAAAAA
Found at i:34673 original size:33 final size:33
Alignment explanation
Indices: 34623--34709 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
34613 TTTATCAACG
* *
34623 TAATATAAA-TATATAAATATTTTAAAATTTATA
1 TAATAAAAATTAT-TAAATATATTAAAATTTATA
*
34656 TAATAAAAATTATTAAATATATTAAATTTTATA
1 TAATAAAAATTATTAAATATATTAAAATTTATA
* *
34689 TAAATATAAAATAATTTAATA
1 T-AATA-AAAATTATTAAATA
34710 ATATGATAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 27 0.59
34 7 0.15
35 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
TAATAAAAATTATTAAATATATTAAAATTTATA
Found at i:34675 original size:19 final size:20
Alignment explanation
Indices: 34653--34697 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
34643 TTTAAAATTT
34653 ATATAATAAAAATTAT-TAA
1 ATATAATAAAAATTATATAA
* **
34672 ATATATTAAATTTTATATAA
1 ATATAATAAAAATTATATAA
34692 ATATAA
1 ATATAA
34698 AATAATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATAATAAAAATTATATAA
Found at i:34700 original size:18 final size:17
Alignment explanation
Indices: 34645--34700 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 17
34635 ATAAATATTT
34645 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
34661 -AAAA-TTAT-TAAATA
1 TAAAATTTATATAAATA
34675 TATTAAATTTTATATAAATA
1 TA--AAA-TTTATATAAATA
34695 TAAAAT
1 TAAAAT
34701 AATTTAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
13 1 0.03
14 8 0.24
15 5 0.15
17 4 0.12
18 3 0.09
19 4 0.12
20 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:34712 original size:18 final size:19
Alignment explanation
Indices: 34648--34713 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 19
34638 AATATTTTAA
34648 AATTTATATAATA-AAAAT
1 AATTTATATAATATAAAAT
* * *
34666 TA-TTAAAT-ATATTAAAT
1 AATTTATATAATATAAAAT
34683 --TTTATATAAATATAAAAT
1 AATTTATAT-AATATAAAAT
34701 AATTTA-ATAATAT
1 AATTTATATAATAT
34714 GATAGACTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
16 8 0.22
17 9 0.24
18 14 0.38
19 2 0.05
20 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTTATATAATATAAAAT
Found at i:34975 original size:19 final size:19
Alignment explanation
Indices: 34930--34977 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
34920 ATATGTAAGA
*
34930 ATAAAATATTTATATATTT
1 ATAAAATTTTTATATATTT
**
34949 ATTTAATTTTTATATATTT
1 ATAAAATTTTTATATATTT
34968 ATAAAATTTT
1 ATAAAATTTT
34978 ATTTTTAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATAAAATTTTTATATATTT
Found at i:34981 original size:24 final size:22
Alignment explanation
Indices: 34949--34992 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
34939 TTATATATTT
34949 ATTTAATTTTTATATATTTATAAA
1 ATTTAATTTTTA-A-ATTTATAAA
*
34973 ATTTTATTTTTAAATTTATA
1 ATTTAATTTTTAAATTTATA
34993 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATTTAATTTTTAAATTTATAAA
Found at i:35052 original size:15 final size:15
Alignment explanation
Indices: 35034--35071 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
35024 TATAAATATT
35034 TTAAAA-AATTAAAAA
1 TTAAAATAA-TAAAAA
*
35049 TTAAAATAATATAAA
1 TTAAAATAATAAAAA
35064 TTAAAATA
1 TTAAAATA
35072 TGATATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TTAAAATAATAAAAA
Found at i:35556 original size:16 final size:16
Alignment explanation
Indices: 35535--35566 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35525 ATTATCATGA
*
35535 AAAAAATTTAAAAAAT
1 AAAAAAGTTAAAAAAT
35551 AAAAAAGTTAAAAAAT
1 AAAAAAGTTAAAAAAT
35567 GTTTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAAAAGTTAAAAAAT
Found at i:36177 original size:25 final size:24
Alignment explanation
Indices: 36149--36202 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
36139 AAACTTATTT
*
36149 TATTTTTAAAAATATTTATAATTAA
1 TATTTTTAAAAATAATTATAA-TAA
* *
36174 TATTTTTTAAATTAATTATAATAA
1 TATTTTTAAAAATAATTATAATAA
36198 TATTT
1 TATTT
36203 ATTATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTTTTAAAAATAATTATAATAA
Found at i:36219 original size:15 final size:15
Alignment explanation
Indices: 36160--36219 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
36150 ATTTTTAAAA
*
36160 ATATTTATAATTAAT
1 ATATTTATAATTATT
*
36175 AT-TTTTTAAATTAATT
1 ATATTTAT-AATT-ATT
* * *
36191 ATAATAATATTTATT
1 ATATTTATAATTATT
36206 ATATTTATAATTAT
1 ATATTTATAATTAT
36220 AATAAATATA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
14 4 0.12
15 20 0.61
16 7 0.21
17 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATTTATAATTATT
Found at i:36221 original size:24 final size:24
Alignment explanation
Indices: 36160--36223 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
36150 ATTTTTAAAA
*
36160 ATATTTATAA-T-TAATATTTTTT
1 ATATTTATAATTATAATATTTATT
* * * *
36182 AAATTAATTATAATAATATTTATT
1 ATATTTATAATTATAATATTTATT
36206 ATATTTATAATTATAATA
1 ATATTTATAATTATAATA
36224 AATATAATAT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 7 0.23
24 24 0.77
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATTTATAATTATAATATTTATT
Found at i:36229 original size:15 final size:15
Alignment explanation
Indices: 36181--36254 Score: 50
Period size: 15 Copynumber: 5.1 Consensus size: 15
36171 TAATATTTTT
36181 TAAAT-TAATTATAA
1 TAAATATAATTATAA
*
36195 T-AATAT--TTATTA
1 TAAATATAATTATAA
**
36207 TATTTATAATTATAA
1 TAAATATAATTATAA
36222 TAAATATAA-TATAA
1 TAAATATAATTATAA
*
36236 CTAAAAATATATCTATAA
1 -TAAATATA-AT-TATAA
36254 T
1 T
36255 TATAATTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
12 6 0.13
13 6 0.13
14 7 0.16
15 19 0.42
16 1 0.02
17 1 0.02
18 5 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATATAATTATAA
Found at i:37357 original size:16 final size:14
Alignment explanation
Indices: 37329--37386 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 14
37319 AAGTACTATT
37329 AAAAATATCAATACCAA
1 AAAAATAT-AATA--AA
*
37346 AAAAATATAATATA
1 AAAAATATAATAAA
37360 AAAAATATAAATAAA
1 AAAAATAT-AATAAA
37375 ATATAAATATAA
1 A-A-AAATATAA
37387 GAATATATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
14 9 0.25
15 6 0.17
16 7 0.19
17 14 0.39
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATATAATAAA
Found at i:37362 original size:15 final size:15
Alignment explanation
Indices: 37329--37375 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
37319 AAGTACTATT
*
37329 AAAAATATCAATACCAA
1 AAAAATAT-AATA-TAA
37346 AAAAATATAATAT-A
1 AAAAATATAATATAA
37360 AAAAATATAA-ATAA
1 AAAAATATAATATAA
37374 AA
1 AA
37376 TATAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.07
14 14 0.50
16 4 0.14
17 8 0.29
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATATAATATAA
Found at i:37393 original size:14 final size:13
Alignment explanation
Indices: 37347--37393 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
37337 CAATACCAAA
37347 AAAATAT-AATAT
1 AAAATATAAATAT
*
37359 AAAAAATATAA-AT
1 AAAATATA-AATAT
37372 AAAATATAAATAT
1 AAAATATAAATAT
37385 AAGAATATA
1 AA-AATATA
37394 TTAAAAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 8 0.28
13 13 0.45
14 8 0.28
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
AAAATATAAATAT
Found at i:37401 original size:25 final size:24
Alignment explanation
Indices: 37344--37400 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
37334 TATCAATACC
37344 AAAAAAATATAATATAAAAAATAT
1 AAAAAAATATAATATAAAAAATAT
*
37368 AAATAAAATATAAATATAAGAATATAT
1 AAA-AAAATAT-AATATAA-AAAATAT
*
37395 TAAAAA
1 AAAAAA
37401 TCTATATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 3 0.11
25 7 0.25
26 10 0.36
27 8 0.29
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAAAAATATAATATAAAAAATAT
Found at i:37744 original size:2 final size:2
Alignment explanation
Indices: 37737--37773 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
37727 TTGTTGTTAC
37737 AT AT AT AT -T AT AT AT AT AT GAT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
37774 CAAATAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 2 0.06
2 28 0.88
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37755 original size:13 final size:12
Alignment explanation
Indices: 37737--37773 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
37727 TTGTTGTTAC
37737 ATATATAT-TAT
1 ATATATATATAT
37748 ATATATATGATAT
1 ATATATAT-ATAT
37761 ATATATATA-AT
1 ATATATATATAT
37772 AT
1 AT
37774 CAAATAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.50
12 1 0.04
13 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
ATATATATATAT
Found at i:39581 original size:21 final size:20
Alignment explanation
Indices: 39534--39595 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
39524 AATAGCGATA
* * *
39534 AAATTAATTATTATTATGAT
1 AAATTAAATATTATAATAAT
39554 GAAATTAAATATTATAATAAT
1 -AAATTAAATATTATAATAAT
39575 AATATTAAA-ATTATAATAAT
1 AA-ATTAAATATTATAATAAT
39595 A
1 A
39596 TATACATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 14 0.38
21 23 0.62
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAATTAAATATTATAATAAT
Found at i:40031 original size:23 final size:23
Alignment explanation
Indices: 40005--40050 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
39995 AAAATTATTG
40005 TTTAATAATAAAAATTATATAAA
1 TTTAATAATAAAAATTATATAAA
** *
40028 TTTAATTTTAAAATTTATATAAA
1 TTTAATAATAAAAATTATATAAA
40051 ATATTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTAATAATAAAAATTATATAAA
Found at i:40056 original size:21 final size:23
Alignment explanation
Indices: 40013--40080 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
40003 TGTTTAATAA
*
40013 TAAAAATTATATAAATTTAATTT
1 TAAAAATTATATAAATATAATTT
*
40036 TAAAATTTATATAAA-AT-ATTT
1 TAAAAATTATATAAATATAATTT
*
40057 TAAAAATT-T-T-AATATTATTT
1 TAAAAATTATATAAATATAATTT
40077 TAAA
1 TAAA
40081 TAATAGCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 2 0.05
19 3 0.08
20 9 0.22
21 11 0.28
22 1 0.03
23 14 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATTATATAAATATAATTT
Found at i:40062 original size:22 final size:24
Alignment explanation
Indices: 40013--40065 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
40003 TGTTTAATAA
*
40013 TAAAAA-TTATATAAATTTAATTT
1 TAAAAATTTATATAAATATAATTT
40036 T-AAAATTTATATAAA-AT-ATTT
1 TAAAAATTTATATAAATATAATTT
40057 TAAAAATTT
1 TAAAAATTT
40066 TAATATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.19
22 12 0.44
23 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAAAATTTATATAAATATAATTT
Found at i:42556 original size:10 final size:10
Alignment explanation
Indices: 42541--42608 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
42531 CCATATCATA
42541 TTTATATATT
1 TTTATATATT
42551 TTTATATATT
1 TTTATATATT
* *
42561 ATATT-TAAAATA
1 -T-TTAT-ATATT
42573 TTTA-ATATT
1 TTTATATATT
* *
42582 TATATAAATT
1 TTTATATATT
*
42592 TTAATATATT
1 TTTATATATT
42602 TTTATAT
1 TTTATAT
42609 TAATATTATA
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
9 6 0.14
10 29 0.67
11 3 0.07
12 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTATATATT
Found at i:42596 original size:18 final size:18
Alignment explanation
Indices: 42538--42598 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
42528 TATCCATATC
*
42538 ATATTTATAT-ATTTTTA
1 ATATTTATATAAATTTTA
*
42555 TATATTATATTTAAAATATTTA
1 -ATATT-TATAT-AAAT-TTTA
42577 ATATTTATATAAATTTTA
1 ATATTTATATAAATTTTA
42595 ATAT
1 ATAT
42599 ATTTTTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 13 0.36
19 8 0.22
20 4 0.11
21 7 0.19
22 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTTATATAAATTTTA
Found at i:42617 original size:11 final size:11
Alignment explanation
Indices: 42556--42641 Score: 54
Period size: 11 Copynumber: 7.9 Consensus size: 11
42546 ATATTTTTAT
42556 ATATTATATTTA
1 ATATTATA-TTA
*
42568 A-AATAT-TTA
1 ATATTATATTA
*
42577 ATATTTATATAA
1 ATA-TTATATTA
*
42589 ATTTTA-ATATA
1 ATATTATAT-TA
* *
42600 TTTTTATATTA
1 ATATTATATTA
*
42611 ATATTATATTT
1 ATATTATATTA
42622 ATATTATATT-
1 ATATTATATTA
*
42632 ATATCATATT
1 ATATTATATT
42642 TTAATTATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
9 4 0.07
10 12 0.20
11 36 0.61
12 7 0.12
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATTATATTA
Found at i:42620 original size:19 final size:17
Alignment explanation
Indices: 42545--42663 Score: 63
Period size: 16 Copynumber: 7.1 Consensus size: 17
42535 ATCATATTTA
42545 TATATTTT-TA-TATAT
1 TATATTTTATATTATAT
* *
42560 TATA-TTTAAAATAT-T
1 TATATTTTATATTATAT
* *
42575 TAATATTTATATAAATTTTAA
1 T-ATATTT-TAT--ATTATAT
42596 TATATTTTTATATTAATAT
1 TATA-TTTTATATT-ATAT
42615 TATA-TTTATATTATAT
1 TATATTTTATATTATAT
** *
42631 TATATCATATTTTA-AT
1 TATATTTTATATTATAT
*
42647 TAT-TTTTATATCATAT
1 TATATTTTATATTATAT
42663 T
1 T
42664 TACATTACTT
Statistics
Matches: 78, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
14 3 0.04
15 13 0.17
16 22 0.28
17 16 0.21
18 5 0.06
19 6 0.08
20 9 0.12
21 4 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATTTTATATTATAT
Found at i:42628 original size:5 final size:5
Alignment explanation
Indices: 42603--42641 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
42593 TAATATATTT
*
42603 TTATA TTAATA TTATA TTTATA TTATA TTATA TCATA TT
1 TTATA TT-ATA TTATA -TTATA TTATA TTATA TTATA TT
42642 TTAATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:42658 original size:22 final size:23
Alignment explanation
Indices: 42580--42664 Score: 84
Period size: 22 Copynumber: 3.6 Consensus size: 23
42570 ATATTTAATA
*
42580 TTTATAT-AAATTTTAATATATT
1 TTTATATCATATTTTAATATATT
* * *
42602 TTTATATTAATATTATATTTATATT
1 TTTATA-TCATATTTTA-ATATATT
42627 ATATTATATCATATTTTAAT-TATT
1 -T-TTATATCATATTTTAATATATT
42651 TTTATATCATATTT
1 TTTATATCATATTT
42665 ACATTACTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 19 0.37
23 2 0.04
24 10 0.19
25 7 0.13
26 9 0.17
27 5 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTATATCATATTTTAATATATT
Found at i:43014 original size:14 final size:14
Alignment explanation
Indices: 42995--43022 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42985 TTAATTATAA
42995 AATATAAAAATATT
1 AATATAAAAATATT
43009 AATATAAAAATATT
1 AATATAAAAATATT
43023 TTTAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAAAATATT
Found at i:44293 original size:96 final size:97
Alignment explanation
Indices: 44062--44307 Score: 327
Period size: 97 Copynumber: 2.5 Consensus size: 97
44052 TTTTTGATTG
* * * *
44062 AAAAACGGGGTTGGAGTATCCTCTCGGAGGAATAGGGTTGGAA-TGTCCCCGATGATGACAATTT
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATAAGGTT-GAAGTGTCTCCGATGATGACAATTT
* * *
44126 GAGTGAGAATAAGATTTAAACTTTGATGTGTTT
65 AAGTAAGAACAAGATTTAAACTTTGATGTGTTT
* * ** *
44159 AAAAGTGGGGTTGGAGCATCCCCTTAGAGGAATGAGGTTGAAGTGTCTCCGATGATGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATAAGGTTGAAGTGTCTCCGATGATGACAATTTA
44224 AGTAAGAACAAGATTTAAAC-TTGATGTGTTT
66 AGTAAGAACAAGATTTAAACTTTGATGTGTTT
* *
44255 AAAAGCGGGGTTGGAGTATCCCCTCGGAGAAATAAGGTT-AGAGTATCTCCGAT
1 AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATAAGGTTGA-AGTGTCTCCGAT
44308 AAATAAAATT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
95 1 0.01
96 58 0.45
97 69 0.54
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCCCCTCGGAGGAATAAGGTTGAAGTGTCTCCGATGATGACAATTTA
AGTAAGAACAAGATTTAAACTTTGATGTGTTT
Found at i:45951 original size:22 final size:22
Alignment explanation
Indices: 45909--45969 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 22
45899 CTAACCTTAT
*
45909 TTTTTTCTACTTCTTTGTTTCT-A
1 TTTTTTCT-CTT-TTTCTTTCTCA
*
45932 TTTTTTCTCTCTTTTCTTTCTCCC
1 TTTTTTCTCT-TTTTCTTTCT-CA
45956 TTTTTTCTCTTTTT
1 TTTTTTCTCTTTTT
45970 TTTTTTTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 10 0.30
23 13 0.39
24 10 0.30
ACGTcount: A:0.03, C:0.23, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTTCTCTTTTTCTTTCTCA
Found at i:45972 original size:11 final size:11
Alignment explanation
Indices: 45908--45972 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
45898 GCTAACCTTA
45908 TTTTTTTCTACT
1 TTTTTTTCT-CT
*
45920 TCTTTGTTTCTAT
1 T-TTT-TTTCTCT
*
45933 TTTTTCTCTCT
1 TTTTTTTCTCT
* *
45944 TTTCTTTCTCC
1 TTTTTTTCTCT
*
45955 CTTTTTTCTCT
1 TTTTTTTCTCT
45966 TTTTTTT
1 TTTTTTT
45973 TTTTAGCTGA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
11 27 0.66
12 4 0.10
13 5 0.12
14 5 0.12
ACGTcount: A:0.03, C:0.22, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:46784 original size:168 final size:167
Alignment explanation
Indices: 46529--46872 Score: 412
Period size: 168 Copynumber: 2.1 Consensus size: 167
46519 AAATCATTAT
* * ** *
46529 ATGAATTATAAAATTTTTAAACTGAAAAAAAATCCCTCCAAAAAAAATTTACGGAGAAGAAAACT
1 ATGAATTTTAAAAATTGAAAACTGAAAAAAAATCCCTCCAAAAAAAATTTACGGAGAAGAAAAAT
* * * * *
46594 CGATTTTTTAAAAAAAAGAAATTTTCAA-AGAAAAATTAAAAACTTATGAAAATGAATTAATTTT
66 CGATTTTTGAAAAAAAAGAAA-TTTCAAGAAAAAAATTAAAAACTCATGAAAATAAATGAA--TT
* * *
46658 TTTAAAAACTGAATTAATATGA-ATCAAATGATGATGTTTG
128 TTTAAAAACTAAATTAATATGAGAT-AAATGATAATATTTG
* * **
46698 ATGAATTTTAAAAATTGAAAACTG-AGAAAAATCTCCT-C-AAAAAAATTTATGGAGTTGAAAAT
1 ATGAATTTTAAAAATTGAAAACTGAAAAAAAATC-CCTCCAAAAAAAATTTACGGAGAAGAAAA-
46760 ATCG-TTTTTCGAAAAAAAAGAAATTTCAAGAAAAAAATTAAAAACTCATGAAAATAAATGAATT
64 ATCGATTTTT-GAAAAAAAAGAAATTTCAAGAAAAAAATTAAAAACTCATGAAAATAAATGAATT
*
46824 TTTGAAAACTAAATTAATATGAGATAAATGATAATATTTG
128 TTTAAAAACTAAATTAATATGAGATAAATGATAATATTTG
*
46864 ATTAATTTT
1 ATGAATTTT
46873 GATATTTGAA
Statistics
Matches: 151, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
166 43 0.28
167 33 0.22
168 52 0.34
169 23 0.15
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (167 bp):
ATGAATTTTAAAAATTGAAAACTGAAAAAAAATCCCTCCAAAAAAAATTTACGGAGAAGAAAAAT
CGATTTTTGAAAAAAAAGAAATTTCAAGAAAAAAATTAAAAACTCATGAAAATAAATGAATTTTT
AAAAACTAAATTAATATGAGATAAATGATAATATTTG
Found at i:47688 original size:21 final size:22
Alignment explanation
Indices: 47671--47712 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
47661 TTAATATATT
*
47671 AAAA-TTTATATA-AAATATAA
1 AAAATTTTAAATACAAATATAA
47691 AAAATTTTAAATACAAATATAA
1 AAAATTTTAAATACAAATATAA
47713 CATAACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
22 8 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATTTTAAATACAAATATAA
Found at i:50712 original size:14 final size:14
Alignment explanation
Indices: 50693--50725 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
50683 GATTTTTAAA
50693 ATATATATATATAC
1 ATATATATATATAC
50707 ATATATATATATAC
1 ATATATATATATAC
50721 ATATA
1 ATATA
50726 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:51110 original size:9 final size:9
Alignment explanation
Indices: 51096--51151 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 9
51086 CCATTTCATA
51096 TTTTT-TTC
1 TTTTTCTTC
*
51104 TTTTTTTTC
1 TTTTTCTTC
51113 TTTTTCTT-
1 TTTTTCTTC
51121 TTTTTCTTC
1 TTTTTCTTC
**
51130 TTCATCTTC
1 TTTTTCTTC
*
51139 TTTCT-TTC
1 TTTTTCTTC
51147 TTTTT
1 TTTTT
51152 TACCTAACTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 20 0.50
9 20 0.50
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:51122 original size:20 final size:22
Alignment explanation
Indices: 51099--51152 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
51089 TTTCATATTT
51099 TTTTCTTTTTTT-TCTT-TTTC
1 TTTTCTTTTTTTATCTTCTTTC
51119 TTTT-TTTCTTCTTCATCTTCTTTC
1 TTTTCTTT-TT-TT-ATCTTCTTTC
51143 -TTTCTTTTTT
1 TTTTCTTTTTT
51153 ACCTAACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
19 3 0.11
20 6 0.21
21 2 0.07
22 1 0.04
23 9 0.32
24 7 0.25
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTCTTTTTTTATCTTCTTTC
Found at i:51124 original size:17 final size:17
Alignment explanation
Indices: 51104--51151 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
51094 TATTTTTTTC
51104 TTTTTTTTCTTTTTCTT
1 TTTTTTTTCTTTTTCTT
* **
51121 TTTTTCTTCTTCATCTT
1 TTTTTTTTCTTTTTCTT
* *
51138 CTTTCTTTCTTTTT
1 TTTTTTTTCTTTTT
51152 TACCTAACTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTCTTTTTCTT
Found at i:52426 original size:32 final size:32
Alignment explanation
Indices: 52371--52876 Score: 816
Period size: 32 Copynumber: 15.8 Consensus size: 32
52361 AAAATGGTGA
* * * *
52371 TTTGAAAAGGGTTACCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
52403 TTTTAAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
52435 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
52467 TTTGAAAAAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
52499 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
52531 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
52563 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
52595 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
52627 TTTGAAAAGGGTTACCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
52659 TTTGAAATGGGTTGCCACCCACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
52691 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
52723 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
52755 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
52787 TTTGGAATGGGTTGCCACCGATTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
52819 TTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
52851 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
52877 AATTTAAAAG
Statistics
Matches: 449, Mismatches: 25, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
31 13 0.03
32 436 0.97
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:53052 original size:137 final size:136
Alignment explanation
Indices: 52859--53269 Score: 617
Period size: 137 Copynumber: 3.0 Consensus size: 136
52849 GTTTTGAAAT
* *
52859 GGGTGCCACAGAGTTGTGAATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
52924 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
52989 TTAAAA
131 TTAAAA
* * *
52995 GGGTGCCACAGAATTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACA
1 GGGTGCCACAGAGTTGTGGACTTAAAAG-GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* * *
53060 GAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGTC
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
53125 -TTAAAA
130 TTTAAAA
* * * * *
53131 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGAATTAAAAGAGATGCCAC
1 GGGTGCCACAGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
* ** * * *
53196 GGAGTTATGGACTTAAAAGGGTGCCATAGAGTTGTGGACTTAAAAAGATGCCACAGAGTTGTGGA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
53261 CTTTAAAA
129 CTTTAAAA
53269 G
1 G
53270 AAAAAACCAC
Statistics
Matches: 246, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
136 73 0.30
137 166 0.67
138 7 0.03
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.24
Consensus pattern (136 bp):
GGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
TTAAAA
Found at i:53151 original size:164 final size:164
Alignment explanation
Indices: 52862--53269 Score: 665
Period size: 164 Copynumber: 2.5 Consensus size: 164
52852 TTGAAATGGG
* * * * * * *
52862 TGCCACAGAGTTGTGAATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGT
52927 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
66 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
*
52992 AAAGGGTGCCACAGAATTGTGGACTTAAAAGAGA
131 AAAGGGTGCCACAGAATTGTGGAATTAAAAGAGA
53026 TGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGT
1 TGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGT
* *
53091 TGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
66 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
*
53156 AAAGGGTGCCACAGAGTTGTGGAATTAAAAGAGA
131 AAAGGGTGCCACAGAATTGTGGAATTAAAAGAGA
* * *
53190 TGCCACGGAGTTATGGACTTAAAAGGGTGCCATAGAGTTGTGGACTTAAAAAGATGCCAC-AGAG
1 TGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGA-AG
53254 TTGTGGACTTTAAAAG
65 TTGTGGAC-TTAAAAG
53270 AAAAAACCAC
Statistics
Matches: 227, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
163 1 0.00
164 219 0.96
165 7 0.03
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (164 bp):
TGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGT
TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTA
AAAGGGTGCCACAGAATTGTGGAATTAAAAGAGA
Found at i:53270 original size:27 final size:27
Alignment explanation
Indices: 52859--53269 Score: 588
Period size: 27 Copynumber: 15.0 Consensus size: 27
52849 GTTTTGAAAT
* * *
52859 GGGTGCCACAGAGTTGTGAATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
52886 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
52913 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
52940 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
52967 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
52995 GGGTGCCACAGAATTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
53022 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
53050 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
53077 GGGTGCCACGAAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
53104 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
53131 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
53159 GGGTGCCACAGAGTTGTGGAATTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
53186 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
**
53214 GGGTGCCATAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
53241 AGATGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
53269 G
1 G
53270 AAAAAACCAC
Statistics
Matches: 346, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
27 244 0.71
28 102 0.29
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:54336 original size:13 final size:13
Alignment explanation
Indices: 54318--54342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54308 AGGGTGAAAA
54318 GGTTTTTTTTTTT
1 GGTTTTTTTTTTT
54331 GGTTTTTTTTTT
1 GGTTTTTTTTTT
54343 AAGATTAGGT
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:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
GGTTTTTTTTTTT
Found at i:54645 original size:35 final size:35
Alignment explanation
Indices: 54605--54679 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 35
54595 TTGTTGTTCC
* *
54605 TTTTTTTTTATTTTGCTTTTGCACTTTTTCTTT-TCA
1 TTTTTTGTGATTTTGCTTTTG-ACTTTTT-TTTGTCA
*
54641 TTTTTTGTGCTTTTGCTTTTGACTTTTTTTTGTCA
1 TTTTTTGTGATTTTGCTTTTGACTTTTTTTTGTCA
54676 TTTT
1 TTTT
54680 GAAGGGAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 3 0.09
35 14 0.40
36 18 0.51
ACGTcount: A:0.07, C:0.12, G:0.09, T:0.72
Consensus pattern (35 bp):
TTTTTTGTGATTTTGCTTTTGACTTTTTTTTGTCA
Found at i:60672 original size:2 final size:2
Alignment explanation
Indices: 60665--60701 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
60655 GATTTTTAAA
* *
60665 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60702 AATAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:60686 original size:16 final size:16
Alignment explanation
Indices: 60665--60701 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
60655 GATTTTTAAA
60665 ATATATATATATATAC
1 ATATATATATATATAC
60681 ATATATATATATATAC
1 ATATATATATATATAC
60697 ATATA
1 ATATA
60702 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATATATATATAC
Found at i:61081 original size:10 final size:10
Alignment explanation
Indices: 61066--61096 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
61056 ACATTTCATA
61066 TTTTTTTCTT
1 TTTTTTTCTT
61076 TTTTTTTCTT
1 TTTTTTTCTT
*
61086 TTTCTTTCTT
1 TTTTTTTCTT
61096 T
1 T
61097 CTTCTTCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:61095 original size:20 final size:21
Alignment explanation
Indices: 61066--61123 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 21
61056 ACATTTCATA
*
61066 TTTT-TTTCTTTTTTT-TTCT
1 TTTTCTTTCTTTTTTTCATCT
61085 TTTTCTTTCTTTCTTCTTCATCT
1 TTTTCTTTCTTT-TT-TTCATCT
61108 TCTTTCTTTCTTTTTT
1 T-TTTCTTTCTTTTTT
61124 ACCTAACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 4 0.12
20 7 0.21
21 2 0.06
22 3 0.09
23 6 0.18
24 11 0.33
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTTCATCT
Found at i:62062 original size:37 final size:38
Alignment explanation
Indices: 62021--62092 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
62011 AATTACATGT
* *
62021 TATAAAA-ATAATATGAAAAAAAATAATTAACATAAAA
1 TATAAAATATAATAGGAAAAAAAATAATAAACATAAAA
* * *
62058 TATAAAATATGATAGGTAAAAAAATTATAAACATA
1 TATAAAATATAATAGGAAAAAAAATAATAAACATA
62093 TTAAAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 7 0.24
38 22 0.76
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (38 bp):
TATAAAATATAATAGGAAAAAAAATAATAAACATAAAA
Found at i:62098 original size:17 final size:17
Alignment explanation
Indices: 62078--62113 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
62068 GATAGGTAAA
62078 AAAATT-ATAAACATATT
1 AAAATTAATAAA-ATATT
62095 AAAATTAATAAAATATT
1 AAAATTAATAAAATATT
62112 AA
1 AA
62114 TTATTGATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTAATAAAATATT
Found at i:62625 original size:9 final size:9
Alignment explanation
Indices: 62611--62639 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
62601 CCTTTATCAA
62611 TTATTTATT
1 TTATTTATT
62620 TTATTTATT
1 TTATTTATT
62629 TTATTT-TT
1 TTATTTATT
62637 TTA
1 TTA
62640 AATATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTTATT
Found at i:69148 original size:7 final size:8
Alignment explanation
Indices: 69132--69159 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
69122 ACCCCATCTG
69132 AAAATAAA
1 AAAATAAA
69140 AAAATAAA
1 AAAATAAA
69148 AAAATAAA
1 AAAATAAA
69156 AAAA
1 AAAA
69160 AGGACATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATAAA
Found at i:78116 original size:1 final size:1
Alignment explanation
Indices: 78110--78137 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
78100 AAAAGAAGTT
78110 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
78138 GAGAACTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:81087 original size:28 final size:28
Alignment explanation
Indices: 81055--81112 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
81045 TCAAAATGGA
*
81055 CATAGTTTATATTTCTATATTAGAAGTC
1 CATAGTTTATATTTCCATATTAGAAGTC
*
81083 CATAGTTTATATTTCCATATTAGATGTC
1 CATAGTTTATATTTCCATATTAGAAGTC
81111 CA
1 CA
81113 AAATGCGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (28 bp):
CATAGTTTATATTTCCATATTAGAAGTC
Found at i:83633 original size:2 final size:2
Alignment explanation
Indices: 83626--83662 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
83616 AAACAAACAA
83626 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
83663 AAACAAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:86172 original size:23 final size:22
Alignment explanation
Indices: 86124--86179 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
86114 TTTGAGATTC
* **
86124 AATATTATTAAATAATAATATTA
1 AATATTA-TAAAAAATAATAAAA
86147 AATATTATAAAAAATAATTAAAA
1 AATATTATAAAAAATAA-TAAAA
86170 AATA-TATAAA
1 AATATTATAAA
86180 CAAGTTACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AATATTATAAAAAATAATAAAA
Found at i:86269 original size:17 final size:16
Alignment explanation
Indices: 86214--86270 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
86204 TATATGCATA
86214 ATAT-TTAAA-TTTAT
1 ATATATTAAATTTTAT
86228 ATATA-TAAATTATTA-
1 ATATATTAAATT-TTAT
86243 ATATATTTAAATTTTAT
1 ATATA-TTAAATTTTAT
86260 ATATTATTAAA
1 ATA-TATTAAA
86271 CTAAATATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.22
15 6 0.17
16 6 0.17
17 14 0.39
18 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTAAATTTTAT
Found at i:86278 original size:32 final size:30
Alignment explanation
Indices: 86214--86278 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 30
86204 TATATGCATA
*
86214 ATATTTAAATTTATATATATAAATTATTAAT
1 ATATTTAAATTTATATATATAAACTA-TAAT
86245 ATATTTAAATTTTATATATTATTAAACTA-AAT
1 ATATTTAAA-TTTATATA-TA-TAAACTATAAT
86277 AT
1 AT
86279 TATTATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 9 0.30
32 13 0.43
33 2 0.07
34 6 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
ATATTTAAATTTATATATATAAACTATAAT
Done.