Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 38 of 97
Found at i:15601661 original size:273 final size:274
Alignment explanation
Indices: 15601168--15601671 Score: 850
Period size: 273 Copynumber: 1.8 Consensus size: 274
15601158 GGGGTGAACT
* * *
15601168 TTTAACCAATTAGAGAGAGAAAGATGTATAGCTTGTAGTAGCTAAATAACACCAAGTAAGGAAAG
1 TTTAACCAATTAGAGAGAGAAAGATGTAAAACTTGTAGTAGCTAAATAACACAAAGTAAGGAAAG
* * *
15601233 GGTAGAGATAAGTGGATAATGTAAGAGTGTTAATAGTAGTTCAGTCCCCATGACCTACATCCACT
66 GGTAGAGAGAAGTAGATAATGCAAGAGTGTTAATAGTAGTTCAGTCCCCATGACCTACATCCACT
* *
15601298 ACCTTGATCACCCAATCAAGGATTGTTAATGCAACTACACTATACTAGTAGAATTAACAGCTTCC
131 ACCTTGATCACCCAATCAAGGATTGTTAATACAACTACACTATACCAGTAGAATTAACAGCTTCC
15601363 ACTAAGCTTTTACAAGGTGAGCTTCTAACCCAAGCTCTAATCCCTTTCAACAAGCTTTAGAGTGC
196 ACTAAGCTTTTACAAGGTGAGCTTCTAACCCAAGCTCTAATCCCTTTCAACAAGCTTTAGAGTGC
15601428 TTCTCACACTCTAA
261 TTCTCACACTCTAA
*
15601442 TTTAA-CAATTAGAGAGAGAATGATGTAAAACTTGTAGTAGCTAAA-AGACACAAAGTAAGGAAA
1 TTTAACCAATTAGAGAGAGAAAGATGTAAAACTTGTAGTAGCTAAATA-ACACAAAGTAAGGAAA
* *
15601505 GGGTAGAGAGAAGTAGATAATGCAAGAGTGTTTATAGTGGTTCAGTCCCCATGACCTACATCCAC
65 GGGTAGAGAGAAGTAGATAATGCAAGAGTGTTAATAGTAGTTCAGTCCCCATGACCTACATCCAC
* * * *
15601570 TACTTTGATCTCCCAATCAAGGATTTTTAATACAACTACACTATACCAGTGGAATTAACAGCTTC
130 TACCTTGATCACCCAATCAAGGATTGTTAATACAACTACACTATACCAGTAGAATTAACAGCTTC
15601635 CACTAAGCTTTTACAAGGTGAGCTTCTAACCCAAGCT
195 CACTAAGCTTTTACAAGGTGAGCTTCTAACCCAAGCT
15601672 NNNNNNNNNN
Statistics
Matches: 214, Mismatches: 15, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
272 1 0.00
273 208 0.97
274 5 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (274 bp):
TTTAACCAATTAGAGAGAGAAAGATGTAAAACTTGTAGTAGCTAAATAACACAAAGTAAGGAAAG
GGTAGAGAGAAGTAGATAATGCAAGAGTGTTAATAGTAGTTCAGTCCCCATGACCTACATCCACT
ACCTTGATCACCCAATCAAGGATTGTTAATACAACTACACTATACCAGTAGAATTAACAGCTTCC
ACTAAGCTTTTACAAGGTGAGCTTCTAACCCAAGCTCTAATCCCTTTCAACAAGCTTTAGAGTGC
TTCTCACACTCTAA
Found at i:15612248 original size:19 final size:19
Alignment explanation
Indices: 15612224--15612261 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15612214 ACTTATAAAC
15612224 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
15612243 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
15612262 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:15617107 original size:2 final size:2
Alignment explanation
Indices: 15617100--15617147 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
15617090 NNNNNNNNNN
15617100 AT AT AT AT AT AT AT AT AT AT AT 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 AT AT AT
15617142 AT AT AT
1 AT AT AT
15617148 GGTTTGAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15618823 original size:52 final size:49
Alignment explanation
Indices: 15618724--15618855 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 49
15618714 AAATTTTAAT
*
15618724 ATTATTTTTCTTTTTC-TTTTTTTCCTTTTTTCTTGTTTTCCTTTCTCCA
1 ATTA-TTTTCTTTTTCTTTTTTTTCCTTTTTTCTTGTTTTCCCTTCTCCA
15618773 ATTATTCTTCTTTTTCTTTTTTTCTCTCTTTTTTCTTGTTTTCCCTTCTCCA
1 ATTATT-TTCTTTTTCTTTTTTT-TC-CTTTTTTCTTGTTTTCCCTTCTCCA
** *
15618825 ATT-TTTTCCATTTATTTTTTTTCCTTTTTTC
1 ATTATTTTCTTTTTCTTTTTTTTCCTTTTTTC
15618856 CCCTTTTTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
48 10 0.13
49 15 0.20
50 19 0.25
51 4 0.05
52 27 0.36
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.70
Consensus pattern (49 bp):
ATTATTTTCTTTTTCTTTTTTTTCCTTTTTTCTTGTTTTCCCTTCTCCA
Found at i:15618852 original size:9 final size:9
Alignment explanation
Indices: 15618840--15618874 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
15618830 TTCCATTTAT
15618840 TTTTTTTCC
1 TTTTTTTCC
*
15618849 TTTTTTCCCC
1 TTTTTT-TCC
15618859 TTTTTTTCC
1 TTTTTTTCC
15618868 TTTTTTT
1 TTTTTTT
15618875 TCCCTCTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTCC
Found at i:15618852 original size:10 final size:10
Alignment explanation
Indices: 15618839--15618877 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
15618829 TTTCCATTTA
15618839 TTTTTTTTCC
1 TTTTTTTTCC
*
15618849 -TTTTTTCCC
1 TTTTTTTTCC
*
15618858 CTTTTTTTCC
1 TTTTTTTTCC
15618868 TTTTTTTTCC
1 TTTTTTTTCC
15618878 CTCTCCAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTTTCC
Found at i:15618852 original size:60 final size:60
Alignment explanation
Indices: 15618783--15618912 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
15618773 ATTATTCTTC
* *
15618783 TTTTT-CTTTTTTTCTCTCTTTTTT-C-TTGTTTTCCCTTCTCCAAT-TTTTTCCATTTATTT
1 TTTTTCCTTTTTTCCCCT-TTTTTTCCTTTGTTTTCCC-TCTCCAATGTTTTTCC-TTTATTT
* *
15618842 TTTTTCCTTTTTTCCCCTTTTTTTCCTTTTTTTTCCCTCTCCAATGTTTTTCCTTTTTTT
1 TTTTTCCTTTTTTCCCCTTTTTTTCCTTTGTTTTCCCTCTCCAATGTTTTTCCTTTATTT
15618902 TCTTTTCCTTT
1 T-TTTTCCTTT
15618913 GACCTTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
59 11 0.18
60 26 0.42
61 25 0.40
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.69
Consensus pattern (60 bp):
TTTTTCCTTTTTTCCCCTTTTTTTCCTTTGTTTTCCCTCTCCAATGTTTTTCCTTTATTT
Found at i:15618924 original size:60 final size:61
Alignment explanation
Indices: 15618811--15618925 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 61
15618801 TTTTTTCTTG
**
15618811 TTTTCCCTTCTCCAATTTTTTCCATTTATTTTTTTTCCTTTTTTCCCCTTTTTTTCCTTTT
1 TTTTCCCTTCTCCAATTTTTTCCATTTATTTTTTTTCCTTTTGACCCCTTTTTTTCCTTTT
* **
15618872 TTTTCCC-TCTCCAATGTTTTTCC-TTTTTTTTCTTTTCC-TTTGACCTTTTTTTTT
1 TTTTCCCTTCTCCAAT-TTTTTCCATTTATTTT-TTTTCCTTTTGACCCCTTTTTTT
15618926 TTACTTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
60 27 0.57
61 20 0.43
ACGTcount: A:0.06, C:0.25, G:0.02, T:0.67
Consensus pattern (61 bp):
TTTTCCCTTCTCCAATTTTTTCCATTTATTTTTTTTCCTTTTGACCCCTTTTTTTCCTTTT
Found at i:15618934 original size:60 final size:60
Alignment explanation
Indices: 15618801--15618936 Score: 145
Period size: 60 Copynumber: 2.2 Consensus size: 60
15618791 TTTTTCTCTC
*
15618801 TTTTTTCTTGTTTTCCCTTCTCCAATTTTTTCCATTTATTTTTTTTCCTTTTTTCCCCTTTTT
1 TTTTTTCTT-TTTTCCCTTCTCCAATTTTTTCCATTTATTTTTTTTCC--TTTTCACCTTTTT
** * *
15618864 TTCCTT-TTTTTTCCC-TCTCCAATGTTTTTCC-TTTTTTTTCTTTTCC-TTTGACCTTTTT
1 TTTTTTCTTTTTTCCCTTCTCCAAT-TTTTTCCATTTATTTT-TTTTCCTTTTCACCTTTTT
15618922 TTTTTTACTTTTTTC
1 TTTTTT-CTTTTTTC
15618937 TTGTTTTCCC
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
58 14 0.23
60 22 0.35
61 20 0.32
62 2 0.03
63 4 0.06
ACGTcount: A:0.06, C:0.24, G:0.02, T:0.68
Consensus pattern (60 bp):
TTTTTTCTTTTTTCCCTTCTCCAATTTTTTCCATTTATTTTTTTTCCTTTTCACCTTTTT
Found at i:15619154 original size:17 final size:18
Alignment explanation
Indices: 15619115--15619158 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
15619105 ATCTAAAAAC
*
15619115 TTTTTTCCTTTTCCAATT
1 TTTTTTCTTTTTCCAATT
* *
15619133 ATTTTTCTTTTTCC-TTT
1 TTTTTTCTTTTTCCAATT
15619150 TTTTTTCTT
1 TTTTTTCTT
15619159 GTTTTTCCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTCTTTTTCCAATT
Found at i:15619221 original size:30 final size:32
Alignment explanation
Indices: 15619187--15619257 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
15619177 TTTTTTCCAA
* * *
15619187 TTATTTTTCTTGTCC-TTTTTTT-CCCTTTTT
1 TTATTTTTCGTCTCCATTTTTTTCCCCTTTTC
15619217 TTATTTTTCGTCTCCAATTTTTTTCCCCTTTTC
1 TTATTTTTCGTCTCC-ATTTTTTTCCCCTTTTC
*
15619250 TTGTTTTT
1 TTATTTTT
15619258 TCTCTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.38
32 7 0.21
33 14 0.41
ACGTcount: A:0.06, C:0.21, G:0.04, T:0.69
Consensus pattern (32 bp):
TTATTTTTCGTCTCCATTTTTTTCCCCTTTTC
Found at i:15619695 original size:14 final size:15
Alignment explanation
Indices: 15619676--15619705 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15619666 ACTTTTATAT
15619676 TAAGTTT-ATGAATA
1 TAAGTTTGATGAATA
15619690 TAAGTTTGATGAATA
1 TAAGTTTGATGAATA
15619705 T
1 T
15619706 TAATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (15 bp):
TAAGTTTGATGAATA
Found at i:15619789 original size:14 final size:14
Alignment explanation
Indices: 15619749--15619781 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15619739 ATATTAATGT
15619749 TTAAGTTTAAAATAA
1 TTAA-TTTAAAATAA
15619764 TTAATTTAAAAT-A
1 TTAATTTAAAATAA
15619777 TTAAT
1 TTAAT
15619782 ATTTAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 8 0.44
15 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
TTAATTTAAAATAA
Found at i:15620033 original size:40 final size:40
Alignment explanation
Indices: 15619978--15620056 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
15619968 AAAAATATTT
15619978 CAATAATTGTTATTTAATGAAAATAT-TTTATAAGTATAA
1 CAATAATTGTTATTTAATGAAAATATATTTATAAGTATAA
**
15620017 NCAATAATTGTTATTTAATGAATGTATATTTATAAGTATA
1 -CAATAATTGTTATTTAATGAAAATATATTTATAAGTATA
15620057 GGTTTTGGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 24 0.67
41 12 0.33
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.44
Consensus pattern (40 bp):
CAATAATTGTTATTTAATGAAAATATATTTATAAGTATAA
Found at i:15620714 original size:111 final size:109
Alignment explanation
Indices: 15620544--15620770 Score: 276
Period size: 111 Copynumber: 2.1 Consensus size: 109
15620534 AACCTCATAC
* **
15620544 AAATTTGCCTAAAGTGAAAATCTAATATTATTTTTTTTCTGCTTTATATCTATTTATATTGGTAA
1 AAATTTACCTAAAGTGAAAATCTAATATTATTTTCCTTCTGCTTTATATCTATTTATATTGGTAA
15620609 ATCTAAAAATTTATAATTAAATTGTTAATG-AAATTTTATATAAT
66 ATCTAAAAATTTATAATTAAATTGTTAA-GAAAATTTTATATAAT
* * * * * *
15620653 AAATTTACCTAATGTGAAAATGTAATGTTAATATTTCCTTCTGCTTTATGTTTGTTTATATTGGT
1 AAATTTACCTAAAGTGAAAATCTAATATT-AT-TTTCCTTCTGCTTTATATCTATTTATATTGGT
* * * ** *
15620718 GAATTTGAAAATTTATTTTTAAATTGTTAAGAAAATTTTATATTAT
64 AAATCTAAAAATTTATAATTAAATTGTTAAGAAAATTTTATATAAT
*
15620764 AATTTTA
1 AAATTTA
15620771 TTTTATTTTA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
109 25 0.25
110 3 0.03
111 71 0.72
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (109 bp):
AAATTTACCTAAAGTGAAAATCTAATATTATTTTCCTTCTGCTTTATATCTATTTATATTGGTAA
ATCTAAAAATTTATAATTAAATTGTTAAGAAAATTTTATATAAT
Found at i:15628421 original size:2 final size:2
Alignment explanation
Indices: 15628414--15628442 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15628404 TTGGAAAATA
15628414 AT 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 AT A
15628443 ANNNNNNNNN
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15635855 original size:27 final size:27
Alignment explanation
Indices: 15635825--15635912 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
15635815 CTCTAAGGCT
15635825 CTTAAAAGCATCTTTTCACTCTTAAAA
1 CTTAAAAGCATCTTTTCACTCTTAAAA
** * *
15635852 CTTACAAATTAACTTTT-A-TAATATAAAA
1 CTTA-AAAGCATCTTTTCACT-CT-TAAAA
* *
15635880 -TCAAAAGCATCTTTTCACTCTTTAAA
1 CTTAAAAGCATCTTTTCACTCTTAAAA
15635906 CTTAAAA
1 CTTAAAA
15635913 AATAACTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
26 14 0.32
27 15 0.34
28 15 0.34
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (27 bp):
CTTAAAAGCATCTTTTCACTCTTAAAA
Found at i:15635919 original size:54 final size:54
Alignment explanation
Indices: 15635828--15635933 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
15635818 TAAGGCTCTT
* * *
15635828 AAAAGCATCTTTTCACTCTTAAAACTTACAAATTAACTTTTATAATATAAAATC
1 AAAAGCATCTTTTCACTCTTAAAACTTAAAAAATAACTTTTATAATACAAAATC
*
15635882 AAAAGCATCTTTTCACTCTTTAAACTTAAAAAATAACTTTTATAATACAAAA
1 AAAAGCATCTTTTCACTCTTAAAACTTAAAAAATAACTTTTATAATACAAAA
15635934 GTTCAAGATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.36
Consensus pattern (54 bp):
AAAAGCATCTTTTCACTCTTAAAACTTAAAAAATAACTTTTATAATACAAAATC
Found at i:15641544 original size:35 final size:35
Alignment explanation
Indices: 15641498--15641677 Score: 182
Period size: 35 Copynumber: 5.1 Consensus size: 35
15641488 AGTAATGCTC
*
15641498 CACTTATTTTAGTTGTTCTGCGTGAAATTA-TATTT
1 CACTTATTTTAGTTGTTCTGCGTGAAA-TAGTACTT
15641533 CACTTATTTTAGTTGTTCTGCGTGAAATAGTACTT
1 CACTTATTTTAGTTGTTCTGCGTGAAATAGTACTT
* * ** *
15641568 CACTTGTTTTAGTTGTTCTGTGTGATGTAGTATTT
1 CACTTATTTTAGTTGTTCTGCGTGAAATAGTACTT
* * * * * *
15641603 CACTTGTTCTAATTATTCTGCATGAAGTAGTACTT
1 CACTTATTTTAGTTGTTCTGCGTGAAATAGTACTT
* * * * * *
15641638 CATTTCTTTTAATTGTTCTACGTGAAGTAGTGCTT
1 CACTTATTTTAGTTGTTCTGCGTGAAATAGTACTT
15641673 CACTT
1 CACTT
15641678 GTAATAGCTA
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
34 2 0.02
35 121 0.98
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (35 bp):
CACTTATTTTAGTTGTTCTGCGTGAAATAGTACTT
Found at i:15654731 original size:18 final size:18
Alignment explanation
Indices: 15654689--15654731 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15654679 ATTTCTTTTA
* *
15654689 TTATTTTATTTTATATGT
1 TTATTTTAATTTATAAGT
15654707 TTATTTTAATTTATGAAGT
1 TTATTTTAATTTAT-AAGT
15654726 TT-TTTT
1 TTATTTT
15654732 GAAAAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
TTATTTTAATTTATAAGT
Found at i:15676347 original size:17 final size:19
Alignment explanation
Indices: 15676308--15676346 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
15676298 ATACTACATG
15676308 TTTTCTAGTAGGTTTGTCA
1 TTTTCTAGTAGGTTTGTCA
15676327 TTTTCTA-T-GGTTTGT-A
1 TTTTCTAGTAGGTTTGTCA
15676343 TTTT
1 TTTT
15676347 TTATCATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.25
17 7 0.35
18 1 0.05
19 7 0.35
ACGTcount: A:0.13, C:0.08, G:0.18, T:0.62
Consensus pattern (19 bp):
TTTTCTAGTAGGTTTGTCA
Found at i:15697782 original size:28 final size:28
Alignment explanation
Indices: 15697706--15697791 Score: 100
Period size: 28 Copynumber: 3.1 Consensus size: 28
15697696 TCTAGAACAA
* * **
15697706 CAATATTACTAAGGATATTTGCATTCTT
1 CAATATTATTATGGATATTTGTGTTCTT
* *
15697734 CAATATTATTATGAATGTTTGTGTTCTT
1 CAATATTATTATGGATATTTGTGTTCTT
* *
15697762 GAATATTGTTATGGATATTTGTGTTCTT
1 CAATATTATTATGGATATTTGTGTTCTT
15697790 CA
1 CA
15697792 TTAATATCTT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (28 bp):
CAATATTATTATGGATATTTGTGTTCTT
Found at i:15699662 original size:90 final size:90
Alignment explanation
Indices: 15699502--15699778 Score: 414
Period size: 90 Copynumber: 3.1 Consensus size: 90
15699492 GCTGAGGGTT
*
15699502 TGTCGCCGGTTGGGGAGAGCCGACTTTAGCGACGCCGCAAGGAGGAGCTCGCCGGCGTGAGAAGG
1 TGTCGCCGGTTGGGGAGAGCCGACTTTAGCGACGCCGCAAGGAGGAGTTCGCCGGCGTGAGAAGG
* *
15699567 AACCAGACCGTCGCGCCACCAGATC
66 GACCAGACCATCGCGCCACCAGATC
*
15699592 TGTTGCCGGTTGGGGAGAGCCGACTTTAGCGACGCCGCAAGGAGGAGTTCGCCGGCGTGAGAAGG
1 TGTCGCCGGTTGGGGAGAGCCGACTTTAGCGACGCCGCAAGGAGGAGTTCGCCGGCGTGAGAAGG
15699657 GACCAGACCATCGCGCCACCAGATC
66 GACCAGACCATCGCGCCACCAGATC
** * * *
15699682 TGTCAAC-GTTGGAAGGAAGAGCCGACTTGACCGACGCCGCAAGGAGGAGTTCGCCGGCGCGAGA
1 TGTCGCCGGTTGG--GG-AGAGCCGACTTTAGCGACGCCGCAAGGAGGAGTTCGCCGGCGTGAGA
*
15699746 A-GGAGCCCGACCATCGCGCCACCAGATC
63 AGGGA-CCAGACCATCGCGCCACCAGATC
15699774 TGTCG
1 TGTCG
15699779 ACGCTGGAAG
Statistics
Matches: 171, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
89 5 0.03
90 90 0.53
91 5 0.03
92 71 0.42
ACGTcount: A:0.22, C:0.29, G:0.36, T:0.13
Consensus pattern (90 bp):
TGTCGCCGGTTGGGGAGAGCCGACTTTAGCGACGCCGCAAGGAGGAGTTCGCCGGCGTGAGAAGG
GACCAGACCATCGCGCCACCAGATC
Found at i:15699746 original size:92 final size:92
Alignment explanation
Indices: 15699517--15699798 Score: 419
Period size: 92 Copynumber: 3.1 Consensus size: 92
15699507 CCGGTTGGGG
* * *
15699517 AGAGCCGACTTTAGCGACGCCGCAAGGAGGAGCTCGCCGGCGTGAGAAGGAACCAGACCGTCGCG
1 AGAGCCGACTTTAGCGACGCCGCAAGGAGGAGTTCGCCGGCGTGAGAAGGGACCAGACCATCGCG
* *
15699582 CCACCAGATCTGTTGCCGGTTGG--GG-
66 CCACCAGATCTGTCGAC-GTTGGAAGGA
15699607 AGAGCCGACTTTAGCGACGCCGCAAGGAGGAGTTCGCCGGCGTGAGAAGGGACCAGACCATCGCG
1 AGAGCCGACTTTAGCGACGCCGCAAGGAGGAGTTCGCCGGCGTGAGAAGGGACCAGACCATCGCG
*
15699672 CCACCAGATCTGTCAACGTTGGAAGGA
66 CCACCAGATCTGTCGACGTTGGAAGGA
* * * *
15699699 AGAGCCGACTTGACCGACGCCGCAAGGAGGAGTTCGCCGGCGCGAGAA-GGAGCCCGACCATCGC
1 AGAGCCGACTTTAGCGACGCCGCAAGGAGGAGTTCGCCGGCGTGAGAAGGGA-CCAGACCATCGC
*
15699763 GCCACCAGATCTGTCGACGCTGGAAGGA
65 GCCACCAGATCTGTCGACGTTGGAAGGA
15699791 AGAGCCGA
1 AGAGCCGA
15699799 TCCANNNNNN
Statistics
Matches: 176, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
89 5 0.03
90 76 0.43
91 5 0.03
92 90 0.51
ACGTcount: A:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (92 bp):
AGAGCCGACTTTAGCGACGCCGCAAGGAGGAGTTCGCCGGCGTGAGAAGGGACCAGACCATCGCG
CCACCAGATCTGTCGACGTTGGAAGGA
Found at i:15719588 original size:19 final size:19
Alignment explanation
Indices: 15719551--15719588 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15719541 TAACGATAAT
*
15719551 AAAAAAAAACTAAACACAA
1 AAAAAAAAACTAAAAACAA
15719570 AAAAAAAAAGC-AAAAACAA
1 AAAAAAAAA-CTAAAAACAA
15719589 CCAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.03
Consensus pattern (19 bp):
AAAAAAAAACTAAAAACAA
Found at i:15723939 original size:18 final size:18
Alignment explanation
Indices: 15723918--15723952 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15723908 CACATATACA
* *
15723918 TATATGTGTGTGTATATG
1 TATATGTATGTATATATG
15723936 TATATGTATGTATATAT
1 TATATGTATGTATATAT
15723953 ATACATGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (18 bp):
TATATGTATGTATATATG
Found at i:15725219 original size:18 final size:18
Alignment explanation
Indices: 15725186--15725224 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
15725176 ATATAAGGAC
*
15725186 AAAAGAAAAGAGAAAGATA
1 AAAAGAAAAGACAAAGA-A
15725205 AAAAGAAAA-ACAAAGAA
1 AAAAGAAAAGACAAAGAA
15725222 AAA
1 AAA
15725225 TGAGTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 6 0.32
19 9 0.47
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAGACAAAGAA
Found at i:15725551 original size:33 final size:33
Alignment explanation
Indices: 15725514--15725578 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
15725504 TTTTAATGCC
* *
15725514 ATATATTTTATTTTTATTTCTTATTATAATCTT
1 ATATATTTTATTTTCATTTCTTAATATAATCTT
15725547 ATATATTTTATTTTCATTTCTTAATATAATCT
1 ATATATTTTATTTTCATTTCTTAATATAATCT
15725579 CTTGTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (33 bp):
ATATATTTTATTTTCATTTCTTAATATAATCTT
Found at i:15727496 original size:2 final size:2
Alignment explanation
Indices: 15727484--15727513 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15727474 TCTATTTAGT
15727484 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15727514 TCATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:15730313 original size:2 final size:2
Alignment explanation
Indices: 15730308--15730349 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15730298 ATATATGGAC
15730308 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15730350 GCAAAGAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15731477 original size:30 final size:30
Alignment explanation
Indices: 15731443--15731529 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
15731433 TCATAAGGAT
*
15731443 TTTATTTAGATCAAAATAAAAGTATAAGAG
1 TTTATTTAGATCAAAATAAAAGTACAAGAG
* * *
15731473 TTTATTTGGCTCAACATAAAAGTACAAGAG
1 TTTATTTAGATCAAAATAAAAGTACAAGAG
* * *
15731503 CTTGA-TT-GAACATAATAAAAGTACAAG
1 -TTTATTTAGATCAAAATAAAAGTACAAG
15731530 GACTTATTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 16 0.34
30 28 0.60
31 3 0.06
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (30 bp):
TTTATTTAGATCAAAATAAAAGTACAAGAG
Found at i:15735722 original size:19 final size:20
Alignment explanation
Indices: 15735695--15735740 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15735685 AGGAGACAAG
*
15735695 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
15735714 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
15735733 ATAATATT
1 ATAATATT
15735741 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:15748317 original size:35 final size:36
Alignment explanation
Indices: 15748277--15748346 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
15748267 CCACCAAGCT
* *
15748277 TTTACAA-TGGCTTTTATCAAGCTCAACCACAACCC
1 TTTACAATTGGCTTTTACCAAGCTCAACCAAAACCC
* * *
15748312 TTTACAATTGGTTTTTCCCGAGCTCAACCAAAACC
1 TTTACAATTGGCTTTTACCAAGCTCAACCAAAACC
15748347 TAAAGTGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 7 0.24
36 22 0.76
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (36 bp):
TTTACAATTGGCTTTTACCAAGCTCAACCAAAACCC
Found at i:15748404 original size:35 final size:34
Alignment explanation
Indices: 15748288--15748413 Score: 91
Period size: 35 Copynumber: 3.7 Consensus size: 34
15748278 TTACAATGGC
* * *
15748288 TTTTATCAAGCTCAACCACAACCCTTT-ACAATTGGT
1 TTTTCTCAAGCTCAACCA-AAACCTTTAAC-ACT-GT
* * *
15748324 TTTTCCCGAGCTCAACCAAAACC--TAA-AGTGAT
1 TTTTCTCAAGCTCAACCAAAACCTTTAACACTG-T
* *
15748356 TTTTC-AAAGGCTCAACCACAACCTTTAACACTAGT
1 TTTTCTCAA-GCTCAACCAAAACCTTTAACACT-GT
15748391 TTTTCTCAAGCTCAACCAAAACC
1 TTTTCTCAAGCTCAACCAAAACC
15748414 CACAACTAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
31 2 0.03
32 21 0.30
33 1 0.01
34 4 0.06
35 25 0.35
36 18 0.25
ACGTcount: A:0.33, C:0.29, G:0.09, T:0.29
Consensus pattern (34 bp):
TTTTCTCAAGCTCAACCAAAACCTTTAACACTGT
Found at i:15748434 original size:67 final size:68
Alignment explanation
Indices: 15748297--15748428 Score: 160
Period size: 67 Copynumber: 1.9 Consensus size: 68
15748287 CTTTTATCAA
* * * * * * *
15748297 GCTCAACCACAACCCTTTACAATTGGTTTTTCCCGAGCTCAACCAAAACCTAAAGTGATTTTTCA
1 GCTCAACCACAACCCTTTACAACTAGTTTTTCCCAAGCTCAACCAAAACCCAAACTAACTTTTCA
15748362 AAG
66 AAG
*
15748365 GCTCAACCACAA-CCTTTA-ACACTAGTTTTTCTCAAGCTCAACCAAAACCCACAACTAACTTTT
1 GCTCAACCACAACCCTTTACA-ACTAGTTTTTCCCAAGCTCAACCAAAACCCA-AACTAACTTTT
15748428 C
64 C
15748429 TAGGCTAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 1 0.02
67 32 0.59
68 21 0.39
ACGTcount: A:0.33, C:0.31, G:0.08, T:0.27
Consensus pattern (68 bp):
GCTCAACCACAACCCTTTACAACTAGTTTTTCCCAAGCTCAACCAAAACCCAAACTAACTTTTCA
AAG
Found at i:15752771 original size:35 final size:35
Alignment explanation
Indices: 15752703--15752859 Score: 131
Period size: 35 Copynumber: 4.5 Consensus size: 35
15752693 CACTTTATTA
* *
15752703 AAATTATTTAATTAAG---TTGTGCCTAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* *
15752735 AAATTGTTTAATTAAGTCATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
* * * * * *
15752770 AAAATTGTCTAATTAAATTATTGGACTTACTTAATC
1 -AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
*** *
15752806 AAATTGTTTAATTAAGTTATCATGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
***
15752841 AAATTAAATAATTAAGTTA
1 AAATTGTTTAATTAAGTTA
15752860 ACTGAGCTTC
Statistics
Matches: 97, Mismatches: 24, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
32 15 0.15
35 55 0.57
36 27 0.28
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTTATTGGGCCTAATTAATT
Found at i:15754872 original size:15 final size:16
Alignment explanation
Indices: 15754844--15754873 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15754834 TTTTTAAAAA
15754844 AAATTTTATATTTTTT
1 AAATTTTATATTTTTT
15754860 AAATTTT-TATTTTT
1 AAATTTTATATTTTT
15754874 ATTTTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
AAATTTTATATTTTTT
Found at i:15757224 original size:2 final size:2
Alignment explanation
Indices: 15757217--15757255 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15757207 ATAAAATAAG
15757217 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
15757256 ATAAGAAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15757595 original size:40 final size:40
Alignment explanation
Indices: 15757538--15757661 Score: 176
Period size: 40 Copynumber: 3.1 Consensus size: 40
15757528 ATTTTTTTTC
* * * *
15757538 TTTTAGCTTTCAGTGATGCTTAATAAAGTTCAATAAGATG
1 TTTTAACTTTCAATGATGCTTGATAAAGTTCAACAAGATG
* *
15757578 TTTTAACTTTTAATGATGCTTGGTAAAGTTCAACAAGATG
1 TTTTAACTTTCAATGATGCTTGATAAAGTTCAACAAGATG
* *
15757618 TTTTAACTTTCAATGATGCTTGATAAAATTAAACAAGATG
1 TTTTAACTTTCAATGATGCTTGATAAAGTTCAACAAGATG
15757658 TTTT
1 TTTT
15757662 GACGTACAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (40 bp):
TTTTAACTTTCAATGATGCTTGATAAAGTTCAACAAGATG
Found at i:15761712 original size:212 final size:212
Alignment explanation
Indices: 15761338--15761736 Score: 609
Period size: 212 Copynumber: 1.9 Consensus size: 212
15761328 ACATGTGTGA
* * * *
15761338 AATTAATGATATAACTTCTATGTTAAAATGTTTTATAACAAAGTTTGTATAAATAAAAACTAATT
1 AATTAATGATACAAATTATATGTTAAAATGTTTTATAACAAAGTTTATATAAATAAAAACTAATT
** * *
15761403 ATAAACAATATGTTATAAAATCTAAGGTGATGGCTAATGAACTTATTAAGTGTAATCATATAAAC
66 ATAAACAATATGTTATAAAATCTAAGGTGATAACCAATAAACTTATTAAGTGTAATCATATAAAC
* * * *
15761468 AAAATTTATTATAAGTTATAGTAACGCTTATGTATAAGTTAAATATATGTATATATATAATATAT
131 AAAATCTATTATAAATTATAGTAACACTTATGTATAAATTAAATATATGTATATATATAATATAT
15761533 TACTTTATTAGATATAT
196 TACTTTATTAGATATAT
* *
15761550 AATTAATGATACAAATTATATGTTAAAATGTTTTATATCAAAGTTTATATAAATAATAACTAATT
1 AATTAATGATACAAATTATATGTTAAAATGTTTTATAACAAAGTTTATATAAATAAAAACTAATT
* * * * *
15761615 ATAAACAATGTGTTATAAAATCTAATGTGATAACCAATAAAGTTATTAAGTGTTATCATATAAAT
66 ATAAACAATATGTTATAAAATCTAAGGTGATAACCAATAAACTTATTAAGTGTAATCATATAAAC
* *
15761680 AAAGTCTATTATAAATTATAGTAATACTTATGTATAAATTAAATATATGTATATATA
131 AAAATCTATTATAAATTATAGTAACACTTATGTATAAATTAAATATATGTATATATA
15761737 ATTTATTTAT
Statistics
Matches: 166, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
212 166 1.00
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (212 bp):
AATTAATGATACAAATTATATGTTAAAATGTTTTATAACAAAGTTTATATAAATAAAAACTAATT
ATAAACAATATGTTATAAAATCTAAGGTGATAACCAATAAACTTATTAAGTGTAATCATATAAAC
AAAATCTATTATAAATTATAGTAACACTTATGTATAAATTAAATATATGTATATATATAATATAT
TACTTTATTAGATATAT
Found at i:15761759 original size:33 final size:32
Alignment explanation
Indices: 15761707--15761769 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
15761697 ATAGTAATAC
*
15761707 TTATGTATAAATTAAATATATGTATATATAAT
1 TTATGTATAAATTAAATATATATATATATAAT
* *
15761739 TTATTTATACAATTATATATATATATATATA
1 TTATGTATA-AATTAAATATATATATATATA
15761770 TATTCATAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (32 bp):
TTATGTATAAATTAAATATATATATATATAAT
Found at i:15762462 original size:6 final size:6
Alignment explanation
Indices: 15762451--15762502 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
15762441 GAACAGATAG
* * * *
15762451 AATAAA AATAAA AAAAATA AATATA AATAAA AATAAT AATATAA ATTAAA
1 AATAAA AATAAA AATAA-A AATAAA AATAAA AATAAA AATA-AA AATAAA
15762501 AA
1 AA
15762503 CTTTAAAAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
6 28 0.78
7 8 0.22
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
AATAAA
Found at i:15762478 original size:19 final size:18
Alignment explanation
Indices: 15762451--15762502 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
15762441 GAACAGATAG
*
15762451 AATAAAAATAAAAAAAAT
1 AATATAAATAAAAAAAAT
*
15762469 AAATATAAATAAAAATAAT
1 -AATATAAATAAAAAAAAT
15762488 AATATAAATTAAAAA
1 AATATAAA-TAAAAA
15762503 CTTTAAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 8 0.27
19 22 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AATATAAATAAAAAAAAT
Found at i:15765787 original size:28 final size:29
Alignment explanation
Indices: 15765756--15765837 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 29
15765746 CCTTCTTCAC
15765756 TTATTTAA-AAAATTTAAA-TTTTT-TATTT
1 TTATTTAATAAAA--TAAATTTTTTATATTT
*
15765784 TTATTATAATTAAATAAATTTTTTATATTT
1 TTATT-TAATAAAATAAATTTTTTATATTT
*
15765814 TTATTTCTAATCAAATAAATTTTT
1 TTA-TT-TAATAAAATAAATTTTT
15765838 ATAATTAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
28 9 0.20
29 8 0.17
30 11 0.24
31 18 0.39
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (29 bp):
TTATTTAATAAAATAAATTTTTTATATTT
Found at i:15765815 original size:30 final size:30
Alignment explanation
Indices: 15765770--15765837 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
15765760 TTAAAAAATT
*
15765770 TAAA-TTTTTTATTTTTA-TTATAATTAAA
1 TAAATTTTTTTATTTTTATTTATAATCAAA
*
15765798 TAAATTTTTTATATTTTTATTTCTAATCAAA
1 TAAATTTTTT-TATTTTTATTTATAATCAAA
15765829 TAAATTTTT
1 TAAATTTTT
15765838 ATAATTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 4 0.11
29 5 0.14
30 8 0.23
31 18 0.51
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (30 bp):
TAAATTTTTTTATTTTTATTTATAATCAAA
Found at i:15765838 original size:30 final size:29
Alignment explanation
Indices: 15765770--15765840 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
15765760 TTAAAAAATT
*
15765770 TAAATTTTT-TATTTTTATTATAATTAAA
1 TAAATTTTTATATTTTTATTATAATCAAA
*
15765798 TAAATTTTTTATATTTTTATTTCTAATCAAA
1 TAAA-TTTTTATATTTTTA-TTATAATCAAA
15765829 TAAATTTTTATA
1 TAAATTTTTATA
15765841 ATTAATAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 4 0.11
29 5 0.13
30 16 0.42
31 13 0.34
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
TAAATTTTTATATTTTTATTATAATCAAA
Found at i:15767847 original size:28 final size:28
Alignment explanation
Indices: 15767811--15767874 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
15767801 AATAACAATT
* *
15767811 AATTTATGCTTGTTCGATTCAAAATAAA
1 AATTCATGCTTATTCGATTCAAAATAAA
* *
15767839 AATTCATGCTTATTTGATTTAAAATAAA
1 AATTCATGCTTATTCGATTCAAAATAAA
*
15767867 AATACATG
1 AATTCATG
15767875 TATTTAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (28 bp):
AATTCATGCTTATTCGATTCAAAATAAA
Found at i:15768768 original size:16 final size:16
Alignment explanation
Indices: 15768718--15768768 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
15768708 AAGGTGAAAA
15768718 ATTTCACGTCATTA-T
1 ATTTCACGTCATTATT
*
15768733 ATTATCATGTCAAATTATT
1 ATT-TCACGTC--ATTATT
*
15768752 ATTTCACGTCATCATT
1 ATTTCACGTCATTATT
15768768 A
1 A
15768769 ATTATAATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 3 0.10
16 12 0.41
18 10 0.34
19 4 0.14
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTTCACGTCATTATT
Found at i:15775205 original size:6 final size:6
Alignment explanation
Indices: 15775194--15775219 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15775184 GGGTCTGCCG
15775194 CATTCT CATTCT CATTCT CATTCT CA
1 CATTCT CATTCT CATTCT CATTCT CA
15775220 ACCACCTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.46
Consensus pattern (6 bp):
CATTCT
Found at i:15792191 original size:25 final size:25
Alignment explanation
Indices: 15792145--15792192 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
15792135 TCATAAACGA
*
15792145 AAAATAAATAAAAATGATAAAAATT
1 AAAATAAAGAAAAATGATAAAAATT
15792170 AAAATAAAGAAGAAATGA-AAAAA
1 AAAATAAAGAA-AAATGATAAAAA
15792193 GAGGGGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (25 bp):
AAAATAAAGAAAAATGATAAAAATT
Found at i:15792562 original size:25 final size:26
Alignment explanation
Indices: 15792487--15792564 Score: 133
Period size: 25 Copynumber: 3.1 Consensus size: 26
15792477 GAGGAAGGGG
15792487 GAGATCTTGGGTGAGAGAGC-AAAAA
1 GAGATCTTGGGTGAGAGAGCAAAAAA
15792512 GAGATCTTGGGTGAGAGAGCAAAAAA
1 GAGATCTTGGGTGAGAGAGCAAAAAA
*
15792538 G-GATCTTGGGTGAGAAAGCAAAAAA
1 GAGATCTTGGGTGAGAGAGCAAAAAA
15792563 GA
1 GA
15792565 AACGGGTGGA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
25 44 0.88
26 6 0.12
ACGTcount: A:0.42, C:0.08, G:0.35, T:0.15
Consensus pattern (26 bp):
GAGATCTTGGGTGAGAGAGCAAAAAA
Found at i:15792571 original size:23 final size:24
Alignment explanation
Indices: 15792494--15792572 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
15792484 GGGGAGATCT
* *
15792494 TGGGTGAGAGAGC-AAAAAGAGATC
1 TGGGTGAGAAAGCAAAAAAGA-AAC
* * *
15792518 TTGGGTGAGAGAGCAAAAAAGGATC
1 -TGGGTGAGAAAGCAAAAAAGAAAC
15792543 TTGGGTGAGAAAGCAAAAAAGAAAC
1 -TGGGTGAGAAAGCAAAAAAGAAAC
15792568 -GGGTG
1 TGGGTG
15792573 GAGAGAAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.10
25 38 0.78
26 6 0.12
ACGTcount: A:0.42, C:0.08, G:0.37, T:0.14
Consensus pattern (24 bp):
TGGGTGAGAAAGCAAAAAAGAAAC
Found at i:15796752 original size:52 final size:51
Alignment explanation
Indices: 15796688--15796792 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 51
15796678 CAATAATCAC
*
15796688 TCATTACTATGAAAGTGTGGATTTGATAAACTTATAACTTCTTGATCTTCAT
1 TCATTACTATGAAAGTGTGGATTTGATAAACTCATAACTTCTTGATCTT-AT
* *
15796740 TCATTA-TAATGAAATTGTGGATTTGATAAACTCATAACTTCTTTATCTTAT
1 TCATTACT-ATGAAAGTGTGGATTTGATAAACTCATAACTTCTTGATCTTAT
15796791 TC
1 TC
15796793 TAGGTACATT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
51 5 0.10
52 44 0.90
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (51 bp):
TCATTACTATGAAAGTGTGGATTTGATAAACTCATAACTTCTTGATCTTAT
Found at i:15817225 original size:18 final size:18
Alignment explanation
Indices: 15817199--15817239 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15817189 TTTTCTTATT
*
15817199 TTTTA-CTTTTTGATTTA
1 TTTTATCTTTTGGATTTA
15817216 TTTTATCTTTTGGATTTA
1 TTTTATCTTTTGGATTTA
*
15817234 ATTTAT
1 TTTTAT
15817240 TATTTCTGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (18 bp):
TTTTATCTTTTGGATTTA
Found at i:15822084 original size:22 final size:22
Alignment explanation
Indices: 15822058--15822100 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15822048 TTTTATTGGT
*
15822058 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAGAGATTTTGGTTTTAAAG
15822080 ATCAGAGATTTTGGTTTTAAA
1 ATCAGAGATTTTGGTTTTAAA
15822101 AGCTTTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (22 bp):
ATCAGAGATTTTGGTTTTAAAG
Found at i:15822128 original size:15 final size:15
Alignment explanation
Indices: 15822088--15822134 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
15822078 AGATCAGAGA
15822088 TTTTGGTTTTAAAAG-
1 TTTTGGTTTT-AAAGT
* *
15822103 CTTTGAATTTTAAAGT
1 TTTTG-GTTTTAAAGT
15822119 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
15822134 T
1 T
15822135 GTTTTAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.55
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:15823697 original size:127 final size:121
Alignment explanation
Indices: 15823472--15823750 Score: 380
Period size: 127 Copynumber: 2.3 Consensus size: 121
15823462 CAACACAAAT
* * *
15823472 ATTATATCATACAAATCATAAACCCAAAACCCAAAACCAAGAAATATGAGCATAAGCCTGATATT
1 ATTATATCATGCAAATCCTAAACCCAAAACCCAAAACCAAGAAATATGAGCATAAGCATGATATT
15823537 TAACATCTAGAAACATAAAAGCAAAATCCAACCAAGAAATATATGAACATGAAAAA
66 TAACATCTAGAAACATAAAAGCAAAATCCAACCAAGAAATATATGAACATGAAAAA
* * * *
15823593 ATTATATCATGCAAATCCTAAAGCCAAAGCCCTAAACCAAGAAATATGAACGTGAGCATGAGCAT
1 ATTATATCATGCAAATCCTAAACCCAAAACCCAAAACCAAG-AA-AT--A--TGAGCATAAGCAT
* * ** *
15823658 GATTTTTAACATCTAGAAGCATAAAAGCAAAATTTAACCAAGAAATATATGAACATGAAGAA
60 GATATTTAACATCTAGAAACATAAAAGCAAAATCCAACCAAGAAATATATGAACATGAAAAA
15823720 ATTATATCATAG-AAATCCTAAACCCAAAACC
1 ATTATATCAT-GCAAATCCTAAACCCAAAACC
15823751 AAGAAATATG
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
121 36 0.26
122 2 0.01
123 2 0.01
125 1 0.01
127 95 0.69
128 1 0.01
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (121 bp):
ATTATATCATGCAAATCCTAAACCCAAAACCCAAAACCAAGAAATATGAGCATAAGCATGATATT
TAACATCTAGAAACATAAAAGCAAAATCCAACCAAGAAATATATGAACATGAAAAA
Found at i:15825053 original size:2 final size:2
Alignment explanation
Indices: 15824991--15825039 Score: 82
Period size: 2 Copynumber: 24.5 Consensus size: 2
15824981 GCGCTACGTT
15824991 TA TA TA TA CTA -A 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
15825033 TA TA TA T
1 TA TA TA T
15825040 TCACACATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.93
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15826077 original size:2 final size:2
Alignment explanation
Indices: 15826070--15826112 Score: 68
Period size: 2 Copynumber: 21.0 Consensus size: 2
15826060 GAGTTATACT
*
15826070 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
15826113 ACAAGTCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:15826083 original size:10 final size:10
Alignment explanation
Indices: 15826064--15826106 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
15826054 AAGGATGAGT
*
15826064 TATACTTATA
1 TATACATATA
15826074 TATACATATA
1 TATACATATA
*
15826084 TATATATATA
1 TATACATATA
*
15826094 TATATATATA
1 TATACATATA
15826104 TAT
1 TAT
15826107 GATATAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (10 bp):
TATACATATA
Found at i:15826441 original size:18 final size:18
Alignment explanation
Indices: 15826418--15826453 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15826408 TTTTGGATCT
*
15826418 GCTGTTGAAGATATTGAG
1 GCTGTTGAAGATAGTGAG
*
15826436 GCTGTTGAGGATAGTGAG
1 GCTGTTGAAGATAGTGAG
15826454 ATTGGTATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.39, T:0.31
Consensus pattern (18 bp):
GCTGTTGAAGATAGTGAG
Found at i:15826627 original size:6 final size:6
Alignment explanation
Indices: 15826616--15826640 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15826606 GCCATCCCTT
15826616 CATATC CATATC CATATC CATATC C
1 CATATC CATATC CATATC CATATC C
15826641 TGCATTAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (6 bp):
CATATC
Found at i:15827886 original size:2 final size:2
Alignment explanation
Indices: 15827879--15827911 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
15827869 GCCTTCAAGA
*
15827879 AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15827912 ATACAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:15840194 original size:3 final size:3
Alignment explanation
Indices: 15840186--15840226 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15840176 CGTCAGTCTC
15840186 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15840227 TATTGGTGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15849689 original size:8 final size:8
Alignment explanation
Indices: 15849676--15849702 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15849666 TTATGTTATG
15849676 ATGATTGC
1 ATGATTGC
15849684 ATGATTGC
1 ATGATTGC
15849692 ATGATTGC
1 ATGATTGC
15849700 ATG
1 ATG
15849703 TTTGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (8 bp):
ATGATTGC
Found at i:15851304 original size:23 final size:23
Alignment explanation
Indices: 15851269--15851329 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
15851259 TATTTTAATG
15851269 AAATAA-AAGATAAAAAATAA-ATA
1 AAATAATAA-ATAAAAAATAAGA-A
* *
15851292 AAATAATAAATAATAATTAAGAA
1 AAATAATAAATAAAAAATAAGAA
15851315 AACATAAT-AATAAAA
1 AA-ATAATAAATAAAA
15851330 TCAATGGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 24 0.75
24 8 0.25
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (23 bp):
AAATAATAAATAAAAAATAAGAA
Found at i:15851306 original size:19 final size:18
Alignment explanation
Indices: 15851264--15851328 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
15851254 TAAAATATTT
*
15851264 TAATGAAATAAAAGATAAA
1 TAAT-AAATAAAAAATAAA
*
15851283 AAATAAATAAAATAATAAA
1 TAATAAATAAAA-AATAAA
* *
15851302 TAATAATTAAGAAAACATAA
1 TAATAAATAA-AAAATA-AA
15851322 TAATAAA
1 TAATAAA
15851329 ATCAATGGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 8 0.22
19 19 0.51
20 10 0.27
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.23
Consensus pattern (18 bp):
TAATAAATAAAAAATAAA
Found at i:15853995 original size:16 final size:16
Alignment explanation
Indices: 15853971--15854002 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15853961 CAAGGCACAT
*
15853971 TTATGTCTTAAAGACA
1 TTATATCTTAAAGACA
15853987 TTATATCTTAAAGACA
1 TTATATCTTAAAGACA
15854003 CCTCTGCATA
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:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (16 bp):
TTATATCTTAAAGACA
Found at i:15856029 original size:25 final size:23
Alignment explanation
Indices: 15855998--15856056 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
15855988 TCACTTTCCT
15855998 TTTCTTTTTTTGATTGATTTTTCA
1 TTTCTTTTTTTGATTGA-TTTTCA
* **
15856022 TTTACTTTTCTTCTTTGATTTTCA
1 TTT-CTTTTTTTGATTGATTTTCA
15856046 TTT-TTTTTTTG
1 TTTCTTTTTTTG
15856057 TCCGATTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 6 0.21
24 12 0.41
25 11 0.38
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.73
Consensus pattern (23 bp):
TTTCTTTTTTTGATTGATTTTCA
Found at i:15865200 original size:2 final size:2
Alignment explanation
Indices: 15865195--15865225 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15865185 TTTATTTTCT
*
15865195 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15865226 CGAAATCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15871628 original size:4 final size:4
Alignment explanation
Indices: 15871612--15871642 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
15871602 GCTGACCCAA
15871612 AAAG AAA- AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
15871643 TATGAACAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:15878428 original size:20 final size:20
Alignment explanation
Indices: 15878381--15878429 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
15878371 TCATTTAACT
15878381 TATTAG-AGTATGATTTGAG
1 TATTAGAAGTATGATTTGAG
15878400 TAATT-GAAGTATGATTTGAGG
1 T-ATTAGAAGTATGATTTGA-G
15878421 T-TTAGAAGT
1 TATTAGAAGT
15878430 GAAAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 4 0.15
20 20 0.77
21 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.41
Consensus pattern (20 bp):
TATTAGAAGTATGATTTGAG
Found at i:15879660 original size:13 final size:13
Alignment explanation
Indices: 15879642--15879666 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15879632 GAAGAAATTG
15879642 TGATTTTATAAAA
1 TGATTTTATAAAA
15879655 TGATTTTATAAA
1 TGATTTTATAAA
15879667 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:15892278 original size:20 final size:20
Alignment explanation
Indices: 15892235--15892299 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
15892225 AAAATATTAA
* * * *
15892235 TATTTAATTTAAAATATTAA
1 TATTTAAATTAAAAAAATAC
* *
15892255 TATTTAAATTATACAAATAC
1 TATTTAAATTAAAAAAATAC
* *
15892275 TATTAAAATTAAAAAAATAT
1 TATTTAAATTAAAAAAATAC
15892295 TATTT
1 TATTT
15892300 TAAAGAAACC
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTTAAATTAAAAAAATAC
Found at i:15895944 original size:17 final size:17
Alignment explanation
Indices: 15895924--15895962 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
15895914 TGTGTCATTA
*
15895924 TTGTTGTGATTATTAGC
1 TTGTTGTGATGATTAGC
*
15895941 TTGTTGTGATGATTGGC
1 TTGTTGTGATGATTAGC
15895958 TTGTT
1 TTGTT
15895963 ATAATTGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.05, G:0.28, T:0.54
Consensus pattern (17 bp):
TTGTTGTGATGATTAGC
Found at i:15898476 original size:13 final size:13
Alignment explanation
Indices: 15898458--15898482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15898448 TTCCAAAAAA
15898458 TTTATAAAATCAT
1 TTTATAAAATCAT
15898471 TTTATAAAATCA
1 TTTATAAAATCA
15898483 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:15902711 original size:43 final size:44
Alignment explanation
Indices: 15902664--15902773 Score: 125
Period size: 43 Copynumber: 2.5 Consensus size: 44
15902654 AATCTGTCAA
*
15902664 TATTTTAAATTACAGACAAAATTTTTC-CTCAAAAATCCATTGG
1 TATTTTAAATTACAGACAAAATTTTTCTCTCAAAAATCCATTAG
* ** * *
15902707 TATTTTAAATTACCGTTAAAA-TTTTCTGTCGAAAATCCATTAG
1 TATTTTAAATTACAGACAAAATTTTTCTCTCAAAAATCCATTAG
* * *
15902750 AATTTTAAATTATAGACGAAATTT
1 TATTTTAAATTACAGACAAAATTT
15902774 GAACCTTTAG
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 5 0.09
43 46 0.87
44 2 0.04
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (44 bp):
TATTTTAAATTACAGACAAAATTTTTCTCTCAAAAATCCATTAG
Found at i:15908216 original size:27 final size:27
Alignment explanation
Indices: 15908178--15908261 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 27
15908168 AAAAGACAAA
15908178 GCTAGTTTTCTCTGGGGACCGCTCAAT
1 GCTAGTTTTCTCTGGGGACCGCTCAAT
15908205 GCTAGTTTTCTCTAGGGTGGGGACCGCTCAAT
1 GCTAGTTTTCTC-----TGGGGACCGCTCAAT
*
15908237 GCTAGTTTTCTCTAGGGACCGCTCA
1 GCTAGTTTTCTCTGGGGACCGCTCA
15908262 TTTTTTTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
27 24 0.47
32 27 0.53
ACGTcount: A:0.15, C:0.25, G:0.27, T:0.32
Consensus pattern (27 bp):
GCTAGTTTTCTCTGGGGACCGCTCAAT
Found at i:15908231 original size:32 final size:32
Alignment explanation
Indices: 15908190--15908253 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
15908180 TAGTTTTCTC
15908190 TGGGGACCGCTCAATGCTAGTTTTCTCTAGGG
1 TGGGGACCGCTCAATGCTAGTTTTCTCTAGGG
15908222 TGGGGACCGCTCAATGCTAGTTTTCTCTAGGG
1 TGGGGACCGCTCAATGCTAGTTTTCTCTAGGG
15908254 ACCGCTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.31
Consensus pattern (32 bp):
TGGGGACCGCTCAATGCTAGTTTTCTCTAGGG
Found at i:15908283 original size:12 final size:12
Alignment explanation
Indices: 15908266--15908302 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
15908256 CGCTCATTTT
15908266 TTTCTTTCTCTC
1 TTTCTTTCTCTC
*
15908278 TTTCTTTCTTTC
1 TTTCTTTCTCTC
*
15908290 TTTCATTCTCTC
1 TTTCTTTCTCTC
15908302 T
1 T
15908303 CCATCTCGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTCTTTCTCTC
Found at i:15909066 original size:48 final size:48
Alignment explanation
Indices: 15909014--15909118 Score: 210
Period size: 48 Copynumber: 2.2 Consensus size: 48
15909004 ATTTGATAAC
15909014 AAGATATCCTAGTATTACTTAATCGGGTCATGTAACGCATCTTATTAT
1 AAGATATCCTAGTATTACTTAATCGGGTCATGTAACGCATCTTATTAT
15909062 AAGATATCCTAGTATTACTTAATCGGGTCATGTAACGCATCTTATTAT
1 AAGATATCCTAGTATTACTTAATCGGGTCATGTAACGCATCTTATTAT
15909110 AAGATATCC
1 AAGATATCC
15909119 ATTAACATCC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (48 bp):
AAGATATCCTAGTATTACTTAATCGGGTCATGTAACGCATCTTATTAT
Found at i:15913006 original size:2 final size:2
Alignment explanation
Indices: 15912999--15913031 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
15912989 GACACCTCTT
15912999 AG AG AG AG AG AG AG AG AG AG AG -G AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15913032 GTAAGTTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15919271 original size:12 final size:11
Alignment explanation
Indices: 15919253--15919287 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
15919243 TAAAGTCAAA
15919253 AAGAAAAAAAG
1 AAGAAAAAAAG
15919264 AGAGAAAAAAA-
1 A-AGAAAAAAAG
15919275 AAGAAAAAAAG
1 AAGAAAAAAAG
15919286 AA
1 AA
15919288 CTCACTTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 9 0.41
11 4 0.18
12 9 0.41
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:15920906 original size:31 final size:30
Alignment explanation
Indices: 15920834--15920908 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
15920824 AAAAATCATA
15920834 AGGACTAAATTGAAGAAAAATTATGGTATG
1 AGGACTAAATTGAAGAAAAATTATGGTATG
* * *
15920864 AAGACTTAATTGAATAAAAATTCA-GTGTATG
1 AGGACTAAATTGAAGAAAAATT-ATG-GTATG
15920895 AGGACTAAATTGAA
1 AGGACTAAATTGAA
15920909 ACAAAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 20 0.53
31 18 0.47
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (30 bp):
AGGACTAAATTGAAGAAAAATTATGGTATG
Found at i:15921378 original size:11 final size:12
Alignment explanation
Indices: 15921363--15921395 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
15921353 AAAATGAGAG
15921363 GAGGAAAAGGAA
1 GAGGAAAAGGAA
*
15921375 -AGGAAAATGAA
1 GAGGAAAAGGAA
15921386 GAGGAAAAGG
1 GAGGAAAAGG
15921396 CTGCTGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.39, T:0.03
Consensus pattern (12 bp):
GAGGAAAAGGAA
Found at i:15921393 original size:23 final size:24
Alignment explanation
Indices: 15921345--15921395 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
15921335 AGCTCAAGAG
15921345 AAGGAAGGAAAATGAGAGGAGGAA
1 AAGGAAGGAAAATGAGAGGAGGAA
15921369 AAGGAAAGGAAAATGA-A-GAGGAA
1 AAGG-AAGGAAAATGAGAGGAGGAA
15921392 AAGG
1 AAGG
15921396 CTGCTGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 10 0.38
24 5 0.19
25 11 0.42
ACGTcount: A:0.57, C:0.00, G:0.39, T:0.04
Consensus pattern (24 bp):
AAGGAAGGAAAATGAGAGGAGGAA
Found at i:15922841 original size:67 final size:68
Alignment explanation
Indices: 15922725--15922947 Score: 191
Period size: 67 Copynumber: 3.3 Consensus size: 68
15922715 TTCATCATTT
* * ** * * * *
15922725 TGGTATTCTTACCCTCACATCGAGCTTAAGGAGGAAAAAAATGGTATGTTCTCCCAA-CTTGACC
1 TGGTATTCTTACCCTCACATCGGGATTAATAAGGGAAAAGATGGCATGTTCTACCAATCTTGACC
15922789 ATG
66 ATG
* ** *
15922792 TGGTATTCTTACCCTCACATCGGGATTCATAAGGGAAAAGATGGCATGTT-TGTCAATCTTAACC
1 TGGTATTCTTACCCTCACATCGGGATTAATAAGGGAAAAGATGGCATGTTCTACCAATCTTGACC
*
15922856 ATA
66 ATG
* ** ** * * **
15922859 TGGTATTCTTACCCTTACACTAAGCTTTTATATGGGGAGGAGATGGCATGTTC-ACCAATCTTGA
1 TGGTATTCTTACCCTCACA-TCGGGATTAATA-AGGGAAAAGATGGCATGTTCTACCAATCTTGA
*
15922923 CCCTG
64 CCATG
*
15922928 TGGTATTCTTACTCTCACAT
1 TGGTATTCTTACCCTCACAT
15922948 GGGCTTAGAT
Statistics
Matches: 124, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
66 4 0.03
67 68 0.55
68 8 0.06
69 44 0.35
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (68 bp):
TGGTATTCTTACCCTCACATCGGGATTAATAAGGGAAAAGATGGCATGTTCTACCAATCTTGACC
ATG
Found at i:15927098 original size:12 final size:12
Alignment explanation
Indices: 15927062--15927103 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
15927052 TTCAAAGGAT
15927062 TAATTAAATTAAA
1 TAATT-AATTAAA
*
15927075 -AA-TAAATAAA
1 TAATTAATTAAA
15927085 TAATTAATTAAA
1 TAATTAATTAAA
15927097 TAATTAA
1 TAATTAA
15927104 CAAAGCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 16 0.64
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATTAATTAAA
Found at i:15947070 original size:27 final size:27
Alignment explanation
Indices: 15947040--15947097 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
15947030 CAAACTTAGT
*
15947040 CTTTAGCTATGCTTTTAAGGGTTTATA
1 CTTTAGCTATGCTTTTAAGGGGTTATA
* *
15947067 CTTTAGCTATGTTTTTATGGGGTTATA
1 CTTTAGCTATGCTTTTAAGGGGTTATA
15947094 -TTTA
1 CTTTA
15947098 TGACTTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.52
Consensus pattern (27 bp):
CTTTAGCTATGCTTTTAAGGGGTTATA
Found at i:15958676 original size:25 final size:25
Alignment explanation
Indices: 15958648--15958763 Score: 66
Period size: 25 Copynumber: 5.3 Consensus size: 25
15958638 TAGAAGAAAG
15958648 AATTATTAGTGAAGGTTACTGTTAA
1 AATTATTAGTGAAGGTTACTGTTAA
* * *
15958673 AATTATT--T-TA---TAC--ATAG
1 AATTATTAGTGAAGGTTACTGTTAA
15958690 AATTATTAGTGAAGGTTACTGTTAA
1 AATTATTAGTGAAGGTTACTGTTAA
* * *
15958715 AATTATT--T-TA---TAC--ATAG
1 AATTATTAGTGAAGGTTACTGTTAA
15958732 AATTATTAGTGAAGGTTACTGTTAA
1 AATTATTAGTGAAGGTTACTGTTAA
15958757 AATTATT
1 AATTATT
15958764 TTATACATAA
Statistics
Matches: 63, Mismatches: 12, Indels: 32
0.59 0.11 0.30
Matches are distributed among these distances:
17 18 0.29
19 8 0.13
20 2 0.03
22 2 0.03
23 8 0.13
25 25 0.40
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (25 bp):
AATTATTAGTGAAGGTTACTGTTAA
Found at i:15958705 original size:42 final size:42
Alignment explanation
Indices: 15958646--15958772 Score: 254
Period size: 42 Copynumber: 3.0 Consensus size: 42
15958636 GGTAGAAGAA
15958646 AGAATTATTAGTGAAGGTTACTGTTAAAATTATTTTATACAT
1 AGAATTATTAGTGAAGGTTACTGTTAAAATTATTTTATACAT
15958688 AGAATTATTAGTGAAGGTTACTGTTAAAATTATTTTATACAT
1 AGAATTATTAGTGAAGGTTACTGTTAAAATTATTTTATACAT
15958730 AGAATTATTAGTGAAGGTTACTGTTAAAATTATTTTATACAT
1 AGAATTATTAGTGAAGGTTACTGTTAAAATTATTTTATACAT
15958772 A
1 A
15958773 AAACCCAATC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (42 bp):
AGAATTATTAGTGAAGGTTACTGTTAAAATTATTTTATACAT
Found at i:15969310 original size:2 final size:2
Alignment explanation
Indices: 15969303--15969336 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15969293 AAATTAAGGA
15969303 AT AT AT AT AT AT AT 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
15969337 GTCGGCTGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15969412 original size:18 final size:19
Alignment explanation
Indices: 15969389--15969426 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
15969379 AATGTTCAGA
*
15969389 TCAT-AAAATAAAATAATT
1 TCATAAAAAGAAAATAATT
15969407 TCATAAAAAGAAAATAATT
1 TCATAAAAAGAAAATAATT
15969426 T
1 T
15969427 GTTAAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
TCATAAAAAGAAAATAATT
Found at i:15974919 original size:390 final size:390
Alignment explanation
Indices: 15974220--15975371 Score: 2026
Period size: 390 Copynumber: 3.0 Consensus size: 390
15974210 GGGATTAAAC
* * * * * *
15974220 GATAACCCTTATACAATCCACAAAGGGATACTTG-TTTATAAC-AGAATGAAGTAATAACCCACC
1 GATAACCTTTACACAATTCACAAAAGGATACTTGCTTT-TAACAAG-ATGAAGCAGTAACCCACC
* * *
15974283 ATCAATGGTTTTTAAAGGCTTAACCATAAACCCTCATAAATAGCTTTTCAAGGTTAAACTAGAAG
64 ATCAATGGTTTTTAAAGGCTCAACCACAAACTCTCATAAATAGCTTTTCAAGGTTAAACTAGAA-
15974348 C-TTTACAAGATGTGTGTACATGGGAATAATAGCAAAGATTTACCTCACAAAGGCTAGATGCTAG
128 CTTTTACAAGATGTGTGTACATGGGAATAATAGCAAAGATTTACCTCACAAAGGCTAGATGCTAG
15974412 AGATTTTAGCTTAAGAGTAGTGAGAGAAGAAAAATCAACTCAAATGAAGAAAGTATTCAACTTTG
193 AGATTTTAGCTTAAGAGTAGTGAGAGAAGAAAAATCAACTCAAATGAAGAAAGTATTCAACTTTG
15974477 TAAGCTTTGTGGAAGACTAAAAAGATGCTAGAGAGTGAAGATGAGCTTTTGAAGGTCTCTTTAGG
258 TAAGCTTTGTGGAAGACTAAAAAGATGCTAGAGAGTGAAGATGAGCTTTTGAAGGTCTCTTTAGG
15974542 GTTTGAAGCTTTGGCACAAGTCTTCTCTTACTTCAAAATGGCTCAAATGCTTTTTCACGAGATCA
323 GTTTGAAGCTTTGGCACAAGTCTTCTCTTACTTCAAAATGGCTCAAATGCTTTTTCACGAGATCA
15974607 AGT
388 AGT
15974610 GATAACCTTTACACAATTCACAAAAGGATACTTGCTTTTAACAAGATGAAGCAGTAACCCACCAT
1 GATAACCTTTACACAATTCACAAAAGGATACTTGCTTTTAACAAGATGAAGCAGTAACCCACCAT
15974675 CAATGGTTTTTAAAGGCTCAACCACAAACTCTCATAAATAGCTTTTCAAGGTTAAACTAGAACTT
66 CAATGGTTTTTAAAGGCTCAACCACAAACTCTCATAAATAGCTTTTCAAGGTTAAACTAGAACTT
15974740 TTACAAGATGTGTGTACATGGGAATAATAGCAAAGATTTACCTCACAAAGGCTAGATGCTAGAGA
131 TTACAAGATGTGTGTACATGGGAATAATAGCAAAGATTTACCTCACAAAGGCTAGATGCTAGAGA
15974805 TTTTAGCTTAAGAGTAGTGAGAGAAGAAAAATCAACTCAAATGAAGAAAGTATTCAACTTTGTAA
196 TTTTAGCTTAAGAGTAGTGAGAGAAGAAAAATCAACTCAAATGAAGAAAGTATTCAACTTTGTAA
15974870 GCTTTGTGGAAGACTAAAAAGATGCTAGAGAGTGAAGATGAGCTTTTGAAGGTCTCTTTAGGGTT
261 GCTTTGTGGAAGACTAAAAAGATGCTAGAGAGTGAAGATGAGCTTTTGAAGGTCTCTTTAGGGTT
15974935 TGAAGCTTTGGCACAAGTCTTCTCTTACTTCAAAATGGCTCAAATGCTTTTTCACGAGATCAAGT
326 TGAAGCTTTGGCACAAGTCTTCTCTTACTTCAAAATGGCTCAAATGCTTTTTCACGAGATCAAGT
15975000 GATAACCTTTACACAATTCACAAAAGGATACTTGCTTTTAACAAGATGAAGCAGTAACCCACCAT
1 GATAACCTTTACACAATTCACAAAAGGATACTTGCTTTTAACAAGATGAAGCAGTAACCCACCAT
15975065 CAATGGTTTTTAAAGGCTCAACCACAAACTCTCATAAATAGCTTTTCAAGGTTAAACTAGAACTT
66 CAATGGTTTTTAAAGGCTCAACCACAAACTCTCATAAATAGCTTTTCAAGGTTAAACTAGAACTT
* * *
15975130 TCACAAGATGTGTGTACATAGGAATAATAGCAAAGA-TTAGCCTCACAAAGGCTAGGTGCTAGAG
131 TTACAAGATGTGTGTACATGGGAATAATAGCAAAGATTTA-CCTCACAAAGGCTAGATGCTAGAG
** *
15975194 ATTTTAGCTTAAGAGTAGTGAGAGAAGAAAAATCCGCTCAAATGAAGAAAATATTCAACTTTGTA
195 ATTTTAGCTTAAGAGTAGTGAGAGAAGAAAAATCAACTCAAATGAAGAAAGTATTCAACTTTGTA
* * *
15975259 AGCTTGGTGGAAGACTAAAAAGATGCTAGAAAGTGAAGATGAGCTTTTGAAGGTCGT-TCTAGGG
260 AGCTTTGTGGAAGACTAAAAAGATGCTAGAGAGTGAAGATGAGCTTTTGAAGGTC-TCTTTAGGG
** * *
15975323 TTTGAAGCTTTGGCTTAGGTATTCTCTTACTTCAAAATGGCTCAAATGC
324 TTTGAAGCTTTGGCACAAGTCTTCTCTTACTTCAAAATGGCTCAAATGC
15975372 GTCTATTTAT
Statistics
Matches: 735, Mismatches: 22, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
389 4 0.01
390 725 0.99
391 6 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (390 bp):
GATAACCTTTACACAATTCACAAAAGGATACTTGCTTTTAACAAGATGAAGCAGTAACCCACCAT
CAATGGTTTTTAAAGGCTCAACCACAAACTCTCATAAATAGCTTTTCAAGGTTAAACTAGAACTT
TTACAAGATGTGTGTACATGGGAATAATAGCAAAGATTTACCTCACAAAGGCTAGATGCTAGAGA
TTTTAGCTTAAGAGTAGTGAGAGAAGAAAAATCAACTCAAATGAAGAAAGTATTCAACTTTGTAA
GCTTTGTGGAAGACTAAAAAGATGCTAGAGAGTGAAGATGAGCTTTTGAAGGTCTCTTTAGGGTT
TGAAGCTTTGGCACAAGTCTTCTCTTACTTCAAAATGGCTCAAATGCTTTTTCACGAGATCAAGT
Found at i:15977007 original size:26 final size:26
Alignment explanation
Indices: 15976971--15977023 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
15976961 GAAAGTGTTA
15976971 GCACCCTCATAATGCCCATTTAATAT
1 GCACCCTCATAATGCCCATTTAATAT
15976997 GCACCCTCATAATGCCCATTTAATAT
1 GCACCCTCATAATGCCCATTTAATAT
15977023 G
1 G
15977024 GTAACTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.30
Consensus pattern (26 bp):
GCACCCTCATAATGCCCATTTAATAT
Found at i:15981419 original size:20 final size:17
Alignment explanation
Indices: 15981396--15981437 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 17
15981386 AAATAAACAT
15981396 AAAATTAAAATAAATTAATA
1 AAAATT-AAAT-AATT-ATA
15981416 AAAATTAAATAATTATA
1 AAAATTAAATAATTATA
15981433 AAAAT
1 AAAAT
15981438 AACTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 4 0.18
20 6 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTAAATAATTATA
Found at i:15982274 original size:25 final size:25
Alignment explanation
Indices: 15982217--15982276 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
15982207 AATCTTTGTC
*
15982217 TAGCATACTTGAGATATAATTCTAA
1 TAGCATATTTGAGATATAATTCTAA
*
15982242 TAGCATATTTGAGATATAATTTTAA
1 TAGCATATTTGAGATATAATTCTAA
*
15982267 TATCATATTT
1 TAGCATATTT
15982277 ATAACTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.43
Consensus pattern (25 bp):
TAGCATATTTGAGATATAATTCTAA
Found at i:15986324 original size:20 final size:20
Alignment explanation
Indices: 15986307--15986344 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15986297 TCTCAAATCT
*
15986307 TACTCCAATAAGTCAAATTA
1 TACTCCAAGAAGTCAAATTA
15986327 TACTCCAAGAAGTCAAAT
1 TACTCCAAGAAGTCAAAT
15986345 GGGGGCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (20 bp):
TACTCCAAGAAGTCAAATTA
Found at i:15992175 original size:18 final size:18
Alignment explanation
Indices: 15992148--15992193 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
15992138 ACACGTTTAC
*
15992148 TTAATCGTGTTATCGTGT
1 TTAATCGTGTTATCGTAT
*
15992166 TTAATTGTGTTATCGTAT
1 TTAATCGTGTTATCGTAT
15992184 TTAATCGTGT
1 TTAATCGTGT
15992194 ATACGTGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.20, T:0.52
Consensus pattern (18 bp):
TTAATCGTGTTATCGTAT
Found at i:15992457 original size:20 final size:20
Alignment explanation
Indices: 15992370--15992459 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
15992360 ATGTTATTAT
* * *
15992370 TATTTTTGTTTTATTATAAT
1 TATTTTTATTTAATTATAAA
*
15992390 TATTTTTA--TAATTATAGA
1 TATTTTTATTTAATTATAAA
** *
15992408 T-TTTAAATTTAAATAATAAA
1 TATTTTTATTT-AATTATAAA
*
15992428 -A-TTATATTTAATTATAAA
1 TATTTTTATTTAATTATAAA
15992446 TATTTTTATTTAAT
1 TATTTTTATTTAAT
15992460 CGTGTTAATC
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
17 4 0.08
18 16 0.30
19 9 0.17
20 24 0.45
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTTTTATTTAATTATAAA
Found at i:15993415 original size:18 final size:18
Alignment explanation
Indices: 15993392--15993426 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15993382 AGAAAAACAT
*
15993392 ATAAAATATAAATAAATA
1 ATAAAAAATAAATAAATA
15993410 ATAAAAAATAAATAAAT
1 ATAAAAAATAAATAAAT
15993427 CAGTTGGTTA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAAATAAATAAATA
Found at i:16004243 original size:20 final size:19
Alignment explanation
Indices: 16004218--16004256 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
16004208 AAAGATATAA
*
16004218 TATTTAAAATATCTTTAAAT
1 TATTTAAAAAAT-TTTAAAT
16004238 TATTTAAAAAATTTTAAAT
1 TATTTAAAAAATTTTAAAT
16004257 AAATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTTAAAAAATTTTAAAT
Found at i:16004262 original size:20 final size:21
Alignment explanation
Indices: 16004214--16004262 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
16004204 TATAAAAGAT
*
16004214 ATAATATTTAAAATATCTTTAA
1 ATAA-ATTTAAAAAATCTTTAA
*
16004236 AT-TATTTAAAAAAT-TTTAA
1 ATAAATTTAAAAAATCTTTAA
16004255 ATAAATTT
1 ATAAATTT
16004263 TTATTCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 14 0.61
22 2 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAATTTAAAAAATCTTTAA
Found at i:16004282 original size:29 final size:30
Alignment explanation
Indices: 16004250--16004318 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
16004240 TTTAAAAAAT
16004250 TTTAAATAAATTTTTAT-TCTTTTATTATA-
1 TTTAAATAAATTTTTATGT-TTTTATTATAG
*
16004279 TTT-AATCAAA-TTTTATGTTTTTATTTTAG
1 TTTAAAT-AAATTTTTATGTTTTTATTATAG
*
16004308 ATTAAATAAAT
1 TTTAAATAAAT
16004319 CTTATGACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
28 18 0.55
29 12 0.36
30 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTAAATAAATTTTTATGTTTTTATTATAG
Found at i:16024896 original size:33 final size:33
Alignment explanation
Indices: 16024834--16024896 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
16024824 CTTGAGTAAT
* * **
16024834 ATTTCAACATTTTTCTGCTTGATTTATATTAAC
1 ATTTCAACATTTTTCTACCTGATCAATATTAAC
16024867 ATTTCAACATTTTTCTACCTGATCAATATT
1 ATTTCAACATTTTTCTACCTGATCAATATT
16024897 TAGAAATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (33 bp):
ATTTCAACATTTTTCTACCTGATCAATATTAAC
Found at i:16031750 original size:19 final size:20
Alignment explanation
Indices: 16031719--16031756 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
16031709 CCTGGTCGTC
*
16031719 TGAAAGATGTTTGGTGGTGT
1 TGAAAGATGTTTGATGGTGT
16031739 TGAAAGAT-TTTGATGGTG
1 TGAAAGATGTTTGATGGTG
16031757 AAATTATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (20 bp):
TGAAAGATGTTTGATGGTGT
Found at i:16036929 original size:23 final size:23
Alignment explanation
Indices: 16036895--16036949 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
16036885 TATACATATA
16036895 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATGCACACCAT
*
16036918 CCCGTCATCATCATGCACACCAT
1 CCCATCATCATCATGCACACCAT
16036941 CCCATCATC
1 CCCATCATC
16036950 CCCAACTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.45, G:0.05, T:0.22
Consensus pattern (23 bp):
CCCATCATCATCATGCACACCAT
Found at i:16037033 original size:43 final size:43
Alignment explanation
Indices: 16036986--16037076 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
16036976 CACATGGCTA
* *
16036986 GGTCATCATCGGGTTATACGCACTCCCTACTCGTACATAACCG
1 GGTCATCATCGGCTTATACGCACTCCCTACTCGCACATAACCG
* * * * *
16037029 GGTCATCATTGGCTTATGCGTATTCCCTACTCGCACATAGCCG
1 GGTCATCATCGGCTTATACGCACTCCCTACTCGCACATAACCG
*
16037072 AGTCA
1 GGTCA
16037077 ATATCATTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (43 bp):
GGTCATCATCGGCTTATACGCACTCCCTACTCGCACATAACCG
Found at i:16043708 original size:38 final size:38
Alignment explanation
Indices: 16043666--16043744 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
16043656 CTGCTAACAT
*
16043666 TCTCATATTTGTTCCCTAAAAAAGAAGTTACAGGCTCA
1 TCTCATATTTGTTCCCTAAAAAAAAAGTTACAGGCTCA
16043704 TCTCATATTTGTTCCCTAAAAAAAAAGTTACAGGCTCA
1 TCTCATATTTGTTCCCTAAAAAAAAAGTTACAGGCTCA
16043742 TCT
1 TCT
16043745 GTTGTGTCCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (38 bp):
TCTCATATTTGTTCCCTAAAAAAAAAGTTACAGGCTCA
Found at i:16047212 original size:13 final size:13
Alignment explanation
Indices: 16047175--16047200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16047165 AATTCTTAAA
16047175 ATAAATTTTTATT
1 ATAAATTTTTATT
16047188 ATAAATTTTTATT
1 ATAAATTTTTATT
16047201 TATATTATTT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATAAATTTTTATT
Found at i:16053696 original size:9 final size:9
Alignment explanation
Indices: 16053683--16053749 Score: 64
Period size: 10 Copynumber: 7.0 Consensus size: 9
16053673 CGAGAAAGAA
16053683 AAAAAAAAG
1 AAAAAAAAG
16053692 CAAAAAAGAAAG
1 --AAAAA-AAAG
16053704 AAAAAAAAG
1 AAAAAAAAG
16053713 AAAAAAAAG
1 AAAAAAAAG
16053722 AAGAAAAAAG
1 AA-AAAAAAG
**
16053732 CAAAACTAA-
1 -AAAAAAAAG
16053741 AAAAAAAAG
1 AAAAAAAAG
16053750 TTAAAAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
8 6 0.12
9 15 0.31
10 16 0.33
11 7 0.15
12 4 0.08
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.01
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:16053698 original size:12 final size:11
Alignment explanation
Indices: 16053677--16053749 Score: 69
Period size: 12 Copynumber: 6.4 Consensus size: 11
16053667 GAGAAGCGAG
16053677 AAAGAAAAAAA
1 AAAGAAAAAAA
*
16053688 AAAGCAAAAAAG
1 AAAG-AAAAAAA
16053700 AAAG--AAAAA
1 AAAGAAAAAAA
16053709 AAAGAAAAAAA
1 AAAGAAAAAAA
16053720 AGAAGAAAAAAGCA
1 A-AAGAAAAAA--A
*
16053734 AAACTAAAAAAA
1 AAA-GAAAAAAA
16053746 AAAG
1 AAAG
16053750 TTAAAAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
9 8 0.16
11 10 0.20
12 23 0.45
13 2 0.04
14 8 0.16
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.01
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:16058303 original size:24 final size:22
Alignment explanation
Indices: 16058254--16058303 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
16058244 TAGCTTGCCA
** *
16058254 AAGAAGATCAAAGATTTTTTAT
1 AAGAAGATCAAAGATTTTAGAC
16058276 AAGAAGAATCAAATGATTTTAGAC
1 AAGAAG-ATCAAA-GATTTTAGAC
16058300 AAGA
1 AAGA
16058304 GCAAGAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 6 0.26
24 11 0.48
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (22 bp):
AAGAAGATCAAAGATTTTAGAC
Found at i:16059247 original size:22 final size:21
Alignment explanation
Indices: 16059208--16059251 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
16059198 ACATTGACAA
* *
16059208 GGCATGCGTGATTGGTTGATAG
1 GGCATGCGTGACTAGTTG-TAG
16059230 GGCATGCGTGACTAGTTGTAG
1 GGCATGCGTGACTAGTTGTAG
16059251 G
1 G
16059252 AATTAGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.18, C:0.11, G:0.41, T:0.30
Consensus pattern (21 bp):
GGCATGCGTGACTAGTTGTAG
Found at i:16059434 original size:23 final size:22
Alignment explanation
Indices: 16059407--16059574 Score: 138
Period size: 22 Copynumber: 7.5 Consensus size: 22
16059397 TTGCTATTGT
*
16059407 TGACTGGTTTTTAGGGCATTGTA
1 TGACTGGTTTTTA-GGCATTATA
* *
16059430 TGACTGGTTTTTAAAGCATTACA
1 TGACTGGTTTTT-AGGCATTATA
* **
16059453 TGATTGGTTTTTAGGCATTACG
1 TGACTGGTTTTTAGGCATTATA
* * * *
16059475 TTAGTAGTTTTTAGGCATTATG
1 TGACTGGTTTTTAGGCATTATA
* *
16059497 TGACTGGTTTTTAAAGCATTACA
1 TGACTGGTTTTT-AGGCATTATA
* **
16059520 TGATTGGTTTTTAGGCATTACG
1 TGACTGGTTTTTAGGCATTATA
* * * *
16059542 TTAGTAGTTTTTAGGCATTATG
1 TGACTGGTTTTTAGGCATTATA
16059564 TGACTGGTTTT
1 TGACTGGTTTT
16059575 AGTCAATGTG
Statistics
Matches: 117, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
22 69 0.59
23 47 0.40
24 1 0.01
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.45
Consensus pattern (22 bp):
TGACTGGTTTTTAGGCATTATA
Found at i:16059506 original size:67 final size:67
Alignment explanation
Indices: 16059413--16059574 Score: 297
Period size: 67 Copynumber: 2.4 Consensus size: 67
16059403 TTGTTGACTG
* *
16059413 GTTTTTAGGGCATTGTATGACTGGTTTTTAAAGCATTACATGATTGGTTTTTAGGCATTACGTTA
1 GTTTTTA-GGCATTATGTGACTGGTTTTTAAAGCATTACATGATTGGTTTTTAGGCATTACGTTA
16059478 GTA
65 GTA
16059481 GTTTTTAGGCATTATGTGACTGGTTTTTAAAGCATTACATGATTGGTTTTTAGGCATTACGTTAG
1 GTTTTTAGGCATTATGTGACTGGTTTTTAAAGCATTACATGATTGGTTTTTAGGCATTACGTTAG
16059546 TA
66 TA
16059548 GTTTTTAGGCATTATGTGACTGGTTTT
1 GTTTTTAGGCATTATGTGACTGGTTTT
16059575 AGTCAATGTG
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
67 85 0.92
68 7 0.08
ACGTcount: A:0.22, C:0.09, G:0.23, T:0.46
Consensus pattern (67 bp):
GTTTTTAGGCATTATGTGACTGGTTTTTAAAGCATTACATGATTGGTTTTTAGGCATTACGTTAG
TA
Found at i:16059729 original size:16 final size:16
Alignment explanation
Indices: 16059708--16059738 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16059698 TGGCACGTTT
*
16059708 TTAGGCATTGTGTGAC
1 TTAGGCATTGCGTGAC
16059724 TTAGGCATTGCGTGA
1 TTAGGCATTGCGTGA
16059739 TTGGTTTTTA
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:0.19, C:0.13, G:0.32, T:0.35
Consensus pattern (16 bp):
TTAGGCATTGCGTGAC
Found at i:16059789 original size:43 final size:44
Alignment explanation
Indices: 16059728--16059847 Score: 152
Period size: 43 Copynumber: 2.7 Consensus size: 44
16059718 TGTGACTTAG
* *
16059728 GCATTGCGTGATTGGTTTTTAGTCATTGC-TGACTGGTTGATAT
1 GCATTGCGTGATTGGTTTTTAGGCATTGCGTGACTAGTTGATAT
*
16059771 GCATTGCGTGATTGGTTTTTAGGCATTGCGTGACTAGTTGATAGG
1 GCATTGCGTGATTGGTTTTTAGGCATTGCGTGACTAGTTGATA-T
* ** * *
16059816 GCATTGTGCAACTAGTTTTTAGGCATTGCGTG
1 GCATTGCGTGATTGGTTTTTAGGCATTGCGTG
16059848 GCTGCTTGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 28 0.42
44 12 0.18
45 27 0.40
ACGTcount: A:0.17, C:0.12, G:0.30, T:0.40
Consensus pattern (44 bp):
GCATTGCGTGATTGGTTTTTAGGCATTGCGTGACTAGTTGATAT
Found at i:16059815 original size:22 final size:22
Alignment explanation
Indices: 16059725--16059877 Score: 110
Period size: 22 Copynumber: 6.9 Consensus size: 22
16059715 TTGTGTGACT
* **
16059725 TAGGCATTGCGTGATTGGTTTT
1 TAGGCATTGCGTGACTGGTTGA
*
16059747 TAGTCATTGC-TGACTGGTTGA
1 TAGGCATTGCGTGACTGGTTGA
* * **
16059768 TATGCATTGCGTGATTGGTTTT
1 TAGGCATTGCGTGACTGGTTGA
*
16059790 TAGGCATTGCGTGACTAGTTGA
1 TAGGCATTGCGTGACTGGTTGA
* ** * **
16059812 TAGGGCATTGTGCAACTAGTTTT
1 TA-GGCATTGCGTGACTGGTTGA
* *
16059835 TAGGCATTGCGTGGCTGCTTGA
1 TAGGCATTGCGTGACTGGTTGA
* *
16059857 TAGGGCATTGAGTAACTGGTT
1 TA-GGCATTGCGTGACTGGTT
16059878 TTTAAGGTAT
Statistics
Matches: 97, Mismatches: 31, Indels: 5
0.73 0.23 0.04
Matches are distributed among these distances:
21 16 0.16
22 50 0.52
23 31 0.32
ACGTcount: A:0.18, C:0.12, G:0.31, T:0.39
Consensus pattern (22 bp):
TAGGCATTGCGTGACTGGTTGA
Found at i:16059835 original size:45 final size:44
Alignment explanation
Indices: 16059740--16059899 Score: 162
Period size: 45 Copynumber: 3.6 Consensus size: 44
16059730 ATTGCGTGAT
* * * * *
16059740 TGGTTTTTAGTCATTGC-TGACTGGTTGATA-TGCATTGCGTGAT
1 TGGTTTTTAGGCATTGCGTGACT-GTTGATAGGGCATTGAGTAAC
* *
16059783 TGGTTTTTAGGCATTGCGTGACTAGTTGATAGGGCATTGTGCAAC
1 TGGTTTTTAGGCATTGCGTGACT-GTTGATAGGGCATTGAGTAAC
* *
16059828 TAGTTTTTAGGCATTGCGTGGCTGCTTGATAGGGCATTGAGTAAC
1 TGGTTTTTAGGCATTGCGTGACTG-TTGATAGGGCATTGAGTAAC
* * *
16059873 TGGTTTTTAAGGTATTACATGACTGTT
1 TGGTTTTT-AGGCATTGCGTGACTGTT
16059900 TTCTAGGCAT
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
43 16 0.16
44 13 0.13
45 56 0.58
46 12 0.12
ACGTcount: A:0.19, C:0.12, G:0.29, T:0.40
Consensus pattern (44 bp):
TGGTTTTTAGGCATTGCGTGACTGTTGATAGGGCATTGAGTAAC
Done.