Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 78 of 153
Found at i:24783256 original size:103 final size:104
Alignment explanation
Indices: 24783012--24783277 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
24783002 GTTGTACATA
** *
24783012 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
24783077 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
24783116 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
24783180 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
24783219 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
24783278 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:24788857 original size:25 final size:28
Alignment explanation
Indices: 24788805--24788859 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 28
24788795 TTCAATATTT
*
24788805 TTGTATGAAAATTGATATGATAGGAAAA
1 TTGTATGAAAATTGATATGATAGAAAAA
24788833 TTGTATGAAAA-T-AT-TGATAGAAAAA
1 TTGTATGAAAATTGATATGATAGAAAAA
24788858 TT
1 TT
24788860 TTACCGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 12 0.46
26 2 0.08
27 1 0.04
28 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (28 bp):
TTGTATGAAAATTGATATGATAGAAAAA
Found at i:24794955 original size:16 final size:16
Alignment explanation
Indices: 24794934--24794966 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24794924 GAAATATGAC
24794934 AATTAAATCG-ATAAAA
1 AATT-AATCGTATAAAA
24794950 AATTAATCGTATAAAA
1 AATTAATCGTATAAAA
24794966 A
1 A
24794967 TATAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (16 bp):
AATTAATCGTATAAAA
Found at i:24798552 original size:21 final size:21
Alignment explanation
Indices: 24798528--24798592 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
24798518 ATAGAAGAGA
24798528 ATCATGATGGATACATCTAAC
1 ATCATGATGGATACATCTAAC
* *
24798549 ATCA--ATGAGATAGAAC-AGA-
1 ATCATGATG-GATACATCTA-AC
24798568 ATCATGATGGATACATCTAAC
1 ATCATGATGGATACATCTAAC
24798589 ATCA
1 ATCA
24798593 ATAAAGGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
19 8 0.24
20 14 0.41
21 12 0.35
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (21 bp):
ATCATGATGGATACATCTAAC
Found at i:24798559 original size:40 final size:40
Alignment explanation
Indices: 24798515--24798594 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
24798505 AAAATGGAGC
*
24798515 GAGATAGAAGAGAATCATGATGGATACATCTAACATCAAT
1 GAGATAGAACAGAATCATGATGGATACATCTAACATCAAT
24798555 GAGATAGAACAGAATCATGATGGATACATCTAACATCAAT
1 GAGATAGAACAGAATCATGATGGATACATCTAACATCAAT
24798595 AAAGGTGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.23
Consensus pattern (40 bp):
GAGATAGAACAGAATCATGATGGATACATCTAACATCAAT
Found at i:24799363 original size:13 final size:12
Alignment explanation
Indices: 24799345--24799387 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 12
24799335 AAATTTTAAT
24799345 TTTTTTATATATA
1 TTTTTTATAT-TA
24799358 TTTTTTATATT-
1 TTTTTTATATTA
* *
24799369 TTTTTAAAATTA
1 TTTTTTATATTA
24799381 TTTTTTA
1 TTTTTTA
24799388 AAAATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 9 0.35
12 7 0.27
13 10 0.38
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTTATATTA
Found at i:24799369 original size:23 final size:22
Alignment explanation
Indices: 24799338--24799388 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
24799328 AAAATTAAAA
*
24799338 TTTTAATTTTTTT-ATATATATT
1 TTTTAATTTTTTTAAAAT-TATT
24799360 TTTTATATTTTTTTAAAATTATT
1 TTTTA-ATTTTTTTAAAATTATT
24799383 TTTTAA
1 TTTTAA
24799389 AAATATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 6 0.23
23 17 0.65
24 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTAATTTTTTTAAAATTATT
Found at i:24803054 original size:21 final size:22
Alignment explanation
Indices: 24802993--24803058 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
24802983 GCGGTAAGTA
24802993 AACCATTTTGACCCCTTTGTAT
1 AACCATTTTGACCCCTTTGTAT
*** * * **
24803015 NGTCATTTAGAGCGGTTTGT-T
1 AACCATTTTGACCCCTTTGTAT
24803036 AACCATTTTGACCCCTTTGTAT
1 AACCATTTTGACCCCTTTGTAT
24803058 A
1 A
24803059 TTGCAATTTA
Statistics
Matches: 29, Mismatches: 14, Indels: 2
0.64 0.31 0.04
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.41
Consensus pattern (22 bp):
AACCATTTTGACCCCTTTGTAT
Found at i:24804411 original size:52 final size:52
Alignment explanation
Indices: 24804333--24804436 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
24804323 CTCGCCCCCC
24804333 CCCCCCACACACCAAAACCCCACCCCCAAAAATAAAAAGCAAATTAGTTAAT
1 CCCCCCACACACCAAAACCCCACCCCCAAAAATAAAAAGCAAATTAGTTAAT
*
24804385 CCCCCCACACCCCAAAACCCCACCCCCAAAAATAAAAAGCAAATTAGTTAAT
1 CCCCCCACACACCAAAACCCCACCCCCAAAAATAAAAAGCAAATTAGTTAAT
24804437 TATTACTACC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.45, C:0.39, G:0.04, T:0.12
Consensus pattern (52 bp):
CCCCCCACACACCAAAACCCCACCCCCAAAAATAAAAAGCAAATTAGTTAAT
Found at i:24804416 original size:15 final size:15
Alignment explanation
Indices: 24804387--24804415 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24804377 TAGTTAATCC
24804387 CCCCACACCCCAAAA
1 CCCCACACCCCAAAA
24804402 CCCCAC-CCCCAAAA
1 CCCCACACCCCAAAA
24804416 ATAAAAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.62, G:0.00, T:0.00
Consensus pattern (15 bp):
CCCCACACCCCAAAA
Found at i:24809963 original size:12 final size:12
Alignment explanation
Indices: 24809948--24809977 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24809938 ATTGCTAGAA
24809948 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
24809960 AAAAACAAAAAC
1 AAAAAAAAAAAC
24809972 AAAAAA
1 AAAAAA
24809978 CATTTCGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:24812178 original size:19 final size:19
Alignment explanation
Indices: 24812154--24812192 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24812144 ACTAAACAAT
24812154 TCATGATTCCATGCTTCAA
1 TCATGATTCCATGCTTCAA
*
24812173 TCATGATTCTATGCTTCAA
1 TCATGATTCCATGCTTCAA
24812192 T
1 T
24812193 TCACCATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (19 bp):
TCATGATTCCATGCTTCAA
Found at i:24817052 original size:22 final size:23
Alignment explanation
Indices: 24817027--24817072 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
24817017 CAACCAAATC
24817027 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
24817049 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
24817072 A
1 A
24817073 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:24817078 original size:23 final size:23
Alignment explanation
Indices: 24817034--24817078 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24817024 ATCAATTCAA
*
24817034 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
24817057 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
24817079 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:24823688 original size:19 final size:19
Alignment explanation
Indices: 24823664--24823717 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 19
24823654 ACACACACAA
*
24823664 AGTAAGCTTTCAAAAGCTT
1 AGTAAGCATTCAAAAGCTT
24823683 AGTAAGCCATTCAAAAGCTT
1 AGTAAG-CATTCAAAAGCTT
24823703 AGTAAGCCATTCAAA
1 AGTAAG-CATTCAAA
24823718 GTAAATAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 6 0.18
20 27 0.82
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (19 bp):
AGTAAGCATTCAAAAGCTT
Found at i:24823697 original size:20 final size:20
Alignment explanation
Indices: 24823672--24823717 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
24823662 AAAGTAAGCT
24823672 TTCAAAAGCTTAGTAAGCCA
1 TTCAAAAGCTTAGTAAGCCA
24823692 TTCAAAAGCTTAGTAAGCCA
1 TTCAAAAGCTTAGTAAGCCA
24823712 TTCAAA
1 TTCAAA
24823718 GTAAATAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCAAAAGCTTAGTAAGCCA
Found at i:24823978 original size:43 final size:43
Alignment explanation
Indices: 24823930--24824086 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
24823920 AGCTCGTACA
* *
24823930 ATGCCAACGTCCCATACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
* * * *
24823973 ATGCC-ACTGTCCCAAACAG-GGCCTTACCCGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
* * *
24824015 ATGCCAACGTCCTAGACGTGGTCTCACACGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCG
*
24824059 ATGTCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
24824087 TGAAAAAACA
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 24 0.26
43 37 0.40
44 30 0.33
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:24827717 original size:92 final size:92
Alignment explanation
Indices: 24827556--24827729 Score: 267
Period size: 92 Copynumber: 1.9 Consensus size: 92
24827546 AATATTAACT
* *
24827556 AAAGATGACATTTTGTACATTGAAATAGCTACAAAGTAATCATTAACCATACCATGATTAACCCA
1 AAAGATGACATTTTGTACATTAAAATAGCTACAAAGTAATCATTAACCATACCATAATTAACCCA
* *
24827621 AACAATAAAGATTTCACCTTTGCATAA
66 AACAACAAAGACTTCACCTTTGCATAA
* * * * *
24827648 AAAGATGTCATTTTGTACATTAAAATAGCTATAAAGTAATCATTAGCCATACTATAATTAACCCT
1 AAAGATGACATTTTGTACATTAAAATAGCTACAAAGTAATCATTAACCATACCATAATTAACCCA
24827713 AACAACAAAGACTTCAC
66 AACAACAAAGACTTCAC
24827730 ATTCACCTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (92 bp):
AAAGATGACATTTTGTACATTAAAATAGCTACAAAGTAATCATTAACCATACCATAATTAACCCA
AACAACAAAGACTTCACCTTTGCATAA
Found at i:24850046 original size:17 final size:17
Alignment explanation
Indices: 24850024--24850074 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
24850014 GACTAATCCC
*
24850024 TATACATCACTTAGGTA
1 TATACATTACTTAGGTA
*
24850041 TATACATTACCTAGGTA
1 TATACATTACTTAGGTA
*
24850058 TGTACATTACTTAGGTA
1 TATACATTACTTAGGTA
24850075 CATGCCACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (17 bp):
TATACATTACTTAGGTA
Found at i:24850859 original size:41 final size:40
Alignment explanation
Indices: 24850752--24850862 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 40
24850742 TCGGATAGTT
* *
24850752 CGAAGCAATAGTTGACACCCAGTGTCTCATCG-GCCAAGC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
** ** * * *
24850791 CGAAGT-A-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
24850829 CGAAGTAATAGTATGACACCCAGTGTCTCATCGA
1 CGAAGTAATAGT-TGACACCCAGTGTCTCATCGA
24850863 CTCAAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
37 19 0.35
38 10 0.18
39 6 0.11
40 3 0.05
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGAACCAAGC
Found at i:24855134 original size:21 final size:21
Alignment explanation
Indices: 24855109--24855152 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
24855099 ATTGGGCTGT
* *
24855109 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
24855130 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
24855151 TA
1 TA
24855153 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:24859922 original size:21 final size:21
Alignment explanation
Indices: 24859896--24859936 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24859886 ATCTGCTCAA
* *
24859896 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
24859917 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
24859937 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:24868027 original size:6 final size:6
Alignment explanation
Indices: 24868005--24868038 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
24867995 GATTAATACT
* *
24868005 AAATCA AATTTA AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
24868039 TGATTTTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (6 bp):
AAATCA
Found at i:24870408 original size:103 final size:103
Alignment explanation
Indices: 24870229--24870438 Score: 393
Period size: 103 Copynumber: 2.0 Consensus size: 103
24870219 GAGGCATATC
*
24870229 TTTGACATAGCTATGTATTTTTCTAAGTTAACCTAGTATACGTAACCTGCCTCTGTGTTTGATTG
1 TTTGAAATAGCTATGTATTTTTCTAAGTTAACCTAGTATACGTAACCTGCCTCTGTGTTTGATTG
24870294 TCTCTGACTCCAATATGTTGCGTATAAACCCGTTTGAG
66 TCTCTGACTCCAATATGTTGCGTATAAACCCGTTTGAG
*
24870332 TTTGAAATAGCTATGTATTTTTCTAATTTAACCTAGTATACGTAACCTGCCTCTGTGTTTGATTG
1 TTTGAAATAGCTATGTATTTTTCTAAGTTAACCTAGTATACGTAACCTGCCTCTGTGTTTGATTG
*
24870397 TCTCTGACTCCAATATGTTGCGTATAAACTCGTTTGAG
66 TCTCTGACTCCAATATGTTGCGTATAAACCCGTTTGAG
24870435 TTTG
1 TTTG
24870439 TTTATCACTT
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.41
Consensus pattern (103 bp):
TTTGAAATAGCTATGTATTTTTCTAAGTTAACCTAGTATACGTAACCTGCCTCTGTGTTTGATTG
TCTCTGACTCCAATATGTTGCGTATAAACCCGTTTGAG
Found at i:24871614 original size:22 final size:22
Alignment explanation
Indices: 24871589--24871632 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
24871579 ATTTTTTAAA
*
24871589 ATTTTTTAGAATAATAAATTAT
1 ATTTATTAGAATAATAAATTAT
* * *
24871611 ATTTATTATATTAATAATTTAT
1 ATTTATTAGAATAATAAATTAT
24871633 TATATGACTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTTATTAGAATAATAAATTAT
Found at i:24876564 original size:22 final size:22
Alignment explanation
Indices: 24876509--24876574 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
24876499 TTGATCAAGG
* *
24876509 AAGTCTTGAGACAATCTAACTT
1 AAGTCTCGAGACAATGTAACTT
*
24876531 AAGTCTCAAGACAATGTAACTT
1 AAGTCTCGAGACAATGTAACTT
** * *
24876553 TTGTTTCGAGACAATGTCACTT
1 AAGTCTCGAGACAATGTAACTT
24876575 CGAAGCTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (22 bp):
AAGTCTCGAGACAATGTAACTT
Found at i:24877383 original size:11 final size:11
Alignment explanation
Indices: 24877336--24877383 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
24877326 GTTTTTTCAC
24877336 TATTTTGCTAT
1 TATTTTGCTAT
* *
24877347 CATTTTACTAT
1 TATTTTGCTAT
* *
24877358 TATGTTGCTAC
1 TATTTTGCTAT
*
24877369 TATTTTGCTGT
1 TATTTTGCTAT
24877380 TATT
1 TATT
24877384 ATTTGGATAT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.58
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:24878359 original size:28 final size:28
Alignment explanation
Indices: 24878319--24878374 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
24878309 GAAAATGAAA
24878319 TGAAAAATGTGGCTATAAGGTGCATAAT
1 TGAAAAATGTGGCTATAAGGTGCATAAT
24878347 TGAAAAATGTGGCTATAAGGTGCATAAT
1 TGAAAAATGTGGCTATAAGGTGCATAAT
24878375 CTAAATAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (28 bp):
TGAAAAATGTGGCTATAAGGTGCATAAT
Found at i:24878548 original size:22 final size:21
Alignment explanation
Indices: 24878495--24878550 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
24878485 TGAAGTTACG
* *
24878495 AAAATAAAATGTATGATACAT
1 AAAAGAAAATGTTTGATACAT
*
24878516 AAAAGAGAATGTTTGTATACAT
1 AAAAGAAAATGTTTG-ATACAT
* *
24878538 ATATGAAAATGTT
1 AAAAGAAAATGTT
24878551 AAGAAACTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.50, C:0.04, G:0.14, T:0.32
Consensus pattern (21 bp):
AAAAGAAAATGTTTGATACAT
Found at i:24880542 original size:26 final size:24
Alignment explanation
Indices: 24880508--24880556 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
24880498 TAAATAAAAA
* *
24880508 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
24880534 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
24880557 TTAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:24880675 original size:23 final size:23
Alignment explanation
Indices: 24880649--24880695 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
24880639 ATTAAAATTG
*
24880649 AAAAT-AAAATATAAATATGATTT
1 AAAATAAAAATAAAAATAT-ATTT
24880672 AAAATAAAAATAAAAATATATTT
1 AAAATAAAAATAAAAATATATTT
24880695 A
1 A
24880696 GTATATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATAAAAATAAAAATATATTT
Found at i:24893887 original size:20 final size:19
Alignment explanation
Indices: 24893872--24893931 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
24893862 AGAAAAAAAC
24893872 TATAAAAATCATAAAAATA
1 TATAAAAATCATAAAAATA
* *
24893891 TATTAAAAAAT-ATAAAATTT
1 TA-T-AAAAATCATAAAAATA
24893911 TATAAAAATCATAAAAATA
1 TATAAAAATCATAAAAATA
24893930 TA
1 TA
24893932 AAATGCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 6 0.18
19 12 0.35
20 10 0.29
21 6 0.18
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAAATCATAAAAATA
Found at i:24893892 original size:17 final size:17
Alignment explanation
Indices: 24893866--24893944 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 17
24893856 AAAATTAGAA
24893866 AAAAACTATAAAAATCAT
1 AAAAA-TATAAAAATCAT
24893884 AAAAATATATTAAAAAAT-AT
1 -AAAA-ATA-T-AAAAATCAT
*
24893904 AAAATTTTATAAAAATCAT
1 AAAA--ATATAAAAATCAT
24893923 AAAAATAT-AAAATGCAT
1 AAAAATATAAAAAT-CAT
24893940 AAAAA
1 AAAAA
24893945 GAACTTTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.10
17 11 0.21
18 6 0.12
19 17 0.33
20 7 0.13
21 6 0.12
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (17 bp):
AAAAATATAAAAATCAT
Found at i:24894155 original size:8 final size:9
Alignment explanation
Indices: 24894141--24894316 Score: 56
Period size: 9 Copynumber: 18.6 Consensus size: 9
24894131 CTTTTTACGA
24894141 ATTTTATAT
1 ATTTTATAT
24894150 -TTTTATAT
1 ATTTTATAT
24894158 ATTTT-TAT
1 ATTTTATAT
* *
24894166 AATTTTCTTACG
1 -ATTTT-ATA-T
* *
24894178 ACTTTATAAA
1 ATTTTAT-AT
24894188 ATTTTATATT
1 ATTTTATA-T
* *
24894198 TTTTTCTAT
1 ATTTTATAT
24894207 ATTTTATACT
1 ATTTTATA-T
*
24894217 -TTTTTTAT
1 ATTTTATAT
24894225 AATTTTTATAT
1 -A-TTTTATAT
* *
24894236 ATTTTTTTT
1 ATTTTATAT
*
24894245 AATTTTTAGTAA
1 -A-TTTTA-TAT
*
24894257 ATTTTAAAT
1 ATTTTATAT
24894266 ATTTT-TAT
1 ATTTTATAT
*
24894274 ATTTTTATTAA
1 A-TTTTA-TAT
*
24894285 AATTTA-AT
1 ATTTTATAT
*
24894293 AATTTTATAA
1 -ATTTTATAT
*
24894303 ATTTTATAA
1 ATTTTATAT
24894312 ATTTT
1 ATTTT
24894317 TAAATGTGAT
Statistics
Matches: 123, Mismatches: 25, Indels: 38
0.66 0.13 0.20
Matches are distributed among these distances:
8 16 0.13
9 58 0.47
10 26 0.21
11 22 0.18
12 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
ATTTTATAT
Found at i:24894158 original size:10 final size:10
Alignment explanation
Indices: 24894145--24894279 Score: 79
Period size: 10 Copynumber: 13.8 Consensus size: 10
24894135 TTACGAATTT
24894145 TATATTTTTA
1 TATATTTTTA
24894155 TATATTTTTA
1 TATATTTTTA
24894165 TA-ATTTTCT-
1 TATATTTT-TA
* *
24894174 TACGA-CTTTA
1 TA-TATTTTTA
* *
24894184 TAAAATTTTA
1 TATATTTTTA
* *
24894194 TATTTTTTTC
1 TATATTTTTA
24894204 TATA-TTTTA
1 TATATTTTTA
*
24894213 TACTTTTTTTA
1 TA-TATTTTTA
24894224 TA-ATTTTTA
1 TATATTTTTA
24894233 TATATTTTT-
1 TATATTTTTA
*
24894242 TTTAATTTTTA
1 TAT-ATTTTTA
*
24894253 GTA-AATTTTA
1 -TATATTTTTA
*
24894263 AATATTTTTA
1 TATATTTTTA
24894273 TAT-TTTT
1 TATATTTT
24894280 ATTAAAATTT
Statistics
Matches: 96, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
9 30 0.31
10 57 0.59
11 8 0.08
12 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (10 bp):
TATATTTTTA
Found at i:24894162 original size:39 final size:38
Alignment explanation
Indices: 24894119--24894281 Score: 118
Period size: 39 Copynumber: 4.2 Consensus size: 38
24894109 TGGTACAATA
24894119 ATTTTTATAATTCTTTTTACGAATTTTATATTTTTATAT
1 ATTTTTATAATT-TTTTTACGAATTTTATATTTTTATAT
* * * *
24894158 ATTTTTATAATTTTCTTACGACTTTATAAAATTTTATAT
1 ATTTTTATAATTTTTTTACGAATTT-TATATTTTTATAT
* * * ***
24894197 TTTTTTCT-ATATTTTATACTTTTTTTATAATTTTTATAT
1 ATTTTTATAAT-TTTTTTACGAATTTTAT-ATTTTTATAT
* * *
24894236 ATTTTTTTTAATTTTTAGTA--AATTTTAAATATTTT-TAT
1 A-TTTTTATAATTTTT-TTACGAATTTTATAT-TTTTATAT
24894274 ATTTTTAT
1 ATTTTTAT
24894282 TAAAATTTAA
Statistics
Matches: 97, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
37 6 0.06
38 21 0.22
39 56 0.58
40 10 0.10
41 4 0.04
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (38 bp):
ATTTTTATAATTTTTTTACGAATTTTATATTTTTATAT
Found at i:24894212 original size:19 final size:19
Alignment explanation
Indices: 24894187--24894250 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 19
24894177 GACTTTATAA
24894187 AATTTTATATTTTTTTCTAT
1 AATTTTATATTTTTTT-TAT
*
24894207 -ATTTTATACTTTTTTTAT
1 AATTTTATATTTTTTTTAT
24894225 AATTTTTATATATTTTTTT-T
1 AA-TTTTATAT-TTTTTTTAT
24894245 AATTTT
1 AATTTT
24894251 TAGTAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.08
19 19 0.49
20 10 0.26
21 7 0.18
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
AATTTTATATTTTTTTTAT
Found at i:24894222 original size:11 final size:11
Alignment explanation
Indices: 24894208--24894251 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
24894198 TTTTTCTATA
*
24894208 TTTTATACTTT
1 TTTTATAATTT
24894219 TTTTATAATTT
1 TTTTATAATTT
*
24894230 TTATAT-ATTT
1 TTTTATAATTT
24894240 TTTT-TAATTT
1 TTTTATAATTT
24894250 TT
1 TT
24894252 AGTAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 1 0.03
10 13 0.45
11 15 0.52
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:24894231 original size:20 final size:19
Alignment explanation
Indices: 24894142--24894289 Score: 88
Period size: 20 Copynumber: 7.6 Consensus size: 19
24894132 TTTTTACGAA
*
24894142 TTTTAT-ATTTTTATATAT
1 TTTTATAATTTTTATATTT
***
24894160 TTTTATAATTTTCT-TACGA
1 TTTTATAATTTT-TATATTT
* *
24894179 CTTTATAAAATTTTATATTT
1 TTTTAT-AATTTTTATATTT
*
24894199 TTTTCT-ATATTTTATACTTT
1 TTTTATAAT-TTTTATA-TTT
24894219 TTTTATAATTTTTATATATT
1 TTTTATAATTTTTATAT-TT
* **
24894239 TTTTTTAATTTTTAGTA-AA
1 TTTTATAATTTTTA-TATTT
*
24894258 TTTTAAATATTTTTATATTT
1 TTTTATA-ATTTTTATATTT
*
24894278 TTATTAAAATTT
1 TT-TTATAATTT
24894290 AATAATTTTA
Statistics
Matches: 99, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
18 7 0.07
19 28 0.28
20 55 0.56
21 9 0.09
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTATATTT
Found at i:24894271 original size:28 final size:28
Alignment explanation
Indices: 24894218--24894321 Score: 88
Period size: 28 Copynumber: 3.6 Consensus size: 28
24894208 TTTTATACTT
* * *
24894218 TTTTTATAATTTTTATATATTTTTTTTAA
1 TTTTTATAAATTTTAAATA-ATTTTTTAA
24894247 TTTTTAGTAAATTTTAAAT-A-TTTTTATA
1 TTTTTA-TAAATTTTAAATAATTTTTTA-A
* *
24894275 TTTTTATTAAAATTT-AATAATTTTATAA
1 TTTTTA-TAAATTTTAAATAATTTTTTAA
*
24894303 ATTTTATAAATTTTTAAAT
1 TTTTTATAAA-TTTTAAAT
24894322 GTGATTGTGG
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
27 13 0.21
28 24 0.39
29 14 0.23
30 10 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTTTATAAATTTTAAATAATTTTTTAA
Found at i:24894306 original size:17 final size:17
Alignment explanation
Indices: 24894284--24894321 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
24894274 ATTTTTATTA
24894284 AAATTTAAT-AATTTTAT
1 AAATTTAATAAATTTT-T
*
24894301 AAATTTTATAAATTTTT
1 AAATTTAATAAATTTTT
24894318 AAAT
1 AAAT
24894322 GTGATTGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTTAATAAATTTTT
Found at i:24894316 original size:38 final size:39
Alignment explanation
Indices: 24894219--24894318 Score: 116
Period size: 38 Copynumber: 2.6 Consensus size: 39
24894209 TTTATACTTT
* * ** *
24894219 TTTTATAATTTTTATATATTTTTTTTAATTTTTAGTAAA
1 TTTTATAAATTTTATATATTTTTATTAAAATTTAATAAA
24894258 TTTTA-AATATTTT-TATATTTTTATTAAAATTTAAT-AA
1 TTTTATAA-ATTTTATATATTTTTATTAAAATTTAATAAA
*
24894295 TTTTATAAATTTTATAAATTTTTA
1 TTTTATAAATTTTATATATTTTTA
24894319 AATGTGATTG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
37 12 0.23
38 31 0.60
39 9 0.17
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTTATAAATTTTATATATTTTTATTAAAATTTAATAAA
Found at i:24894320 original size:8 final size:9
Alignment explanation
Indices: 24894219--24894321 Score: 61
Period size: 9 Copynumber: 11.1 Consensus size: 9
24894209 TTTATACTTT
*
24894219 TTTTATAAT
1 TTTTATAAA
*
24894228 TTTTATATATT
1 TTTTATA-A-A
* *
24894239 TTTTTTAAT
1 TTTTATAAA
24894248 TTTTAGTAAA
1 TTTTA-TAAA
24894258 TTTTA-AATA
1 TTTTATAA-A
*
24894267 TTTT-TATAT
1 TTTTATA-AA
24894276 TTTTATTAAA
1 TTTTA-TAAA
*
24894286 ATTTA-ATAA
1 TTTTATA-AA
24894295 TTTTATAAA
1 TTTTATAAA
24894304 TTTTATAAA
1 TTTTATAAA
24894313 TTTT-TAAA
1 TTTTATAAA
24894321 T
1 T
24894322 GTGATTGTGG
Statistics
Matches: 77, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
8 8 0.10
9 43 0.56
10 17 0.22
11 9 0.12
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTATAAA
Found at i:24903590 original size:11 final size:11
Alignment explanation
Indices: 24903574--24903628 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
24903564 AAGAAAAAAA
24903574 TTATTGTTTTC
1 TTATTGTTTTC
24903585 TTATTGTTTTC
1 TTATTGTTTTC
** *
24903596 CCATTATTTTAC
1 TTATTGTTTT-C
24903608 -TATTGTTTT-
1 TTATTGTTTTC
*
24903617 TTGTTGTTTTC
1 TTATTGTTTTC
24903628 T
1 T
24903629 CACTATTTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
10 8 0.23
11 26 0.74
12 1 0.03
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (11 bp):
TTATTGTTTTC
Found at i:24903636 original size:32 final size:33
Alignment explanation
Indices: 24903575--24903637 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
24903565 AGAAAAAAAT
*
24903575 TATTGTTTTCTTATTGTTTTCCCATTATTTTAC
1 TATTGTTTTCTTATTGTTTTCCCACTATTTTAC
* *
24903608 TATTGTTTT-TTGTTGTTTTCTCACTATTTT
1 TATTGTTTTCTTATTGTTTTCCCACTATTTT
24903638 GTTACCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (33 bp):
TATTGTTTTCTTATTGTTTTCCCACTATTTTAC
Found at i:24906576 original size:2 final size:2
Alignment explanation
Indices: 24906569--24906594 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24906559 TGAGCACTCC
24906569 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
24906595 ATACACACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:24917107 original size:33 final size:32
Alignment explanation
Indices: 24917012--24917107 Score: 81
Period size: 33 Copynumber: 2.9 Consensus size: 32
24917002 TAAAATAAAA
*
24917012 ATTTTAAATATTTTTAAGTAATAAATATT-AATTAT
1 ATTTTAAATA--TTTAAAT-AT-AATATTAAATTAT
* * *
24917047 -TTATAAA-ATTTAATTAGAATATATAAATTAT
1 ATTTTAAATATTTAAATATAATAT-TAAATTAT
24917078 ATTTTAAATATTTAAATATAACTATTAAAT
1 ATTTTAAATATTTAAATATAA-TATTAAAT
24917108 ATTTGTAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
29 5 0.10
30 2 0.04
31 12 0.24
32 6 0.12
33 16 0.32
34 9 0.18
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (32 bp):
ATTTTAAATATTTAAATATAATATTAAATTAT
Found at i:24922122 original size:16 final size:16
Alignment explanation
Indices: 24922101--24922132 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24922091 TCTTTCATGA
*
24922101 TTCCCAGTGGAATAGC
1 TTCCCAATGGAATAGC
24922117 TTCCCAATGGAATAGC
1 TTCCCAATGGAATAGC
24922133 AAATTTGACC
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:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (16 bp):
TTCCCAATGGAATAGC
Found at i:24935248 original size:109 final size:109
Alignment explanation
Indices: 24935107--24935374 Score: 466
Period size: 109 Copynumber: 2.4 Consensus size: 109
24935097 AGCTCAGTAA
*
24935107 GTTAGGGCACGATTTTTTCGAATTTTCTAAATACGAAATATTGCCTTTATTATTGAAAGTTTAAA
1 GTTAGGGCACG-TTTTCTCGAATTTTCTAAATACGAAATATTGCCTTTATTATTGAAAGTTTAAA
24935172 AGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCAC
65 AGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCAC
24935217 GTTAGGGCACGTTTTCTCGAATTTTCTAAATACGAAATATTGCCTTTATTATTGAAAGTTTAAAA
1 GTTAGGGCACGTTTTCTCGAATTTTCTAAATACGAAATATTGCCTTTATTATTGAAAGTTTAAAA
24935282 GGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCAC
66 GGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCAC
* ** *
24935326 GTTAGGGCACGTTTTCTCGAACTTTCCT-AACGCGAAATATTGCTTTTAT
1 GTTAGGGCACGTTTTCTCGAA-TTTTCTAAATACGAAATATTGCCTTTAT
24935375 GAAAGAATTG
Statistics
Matches: 152, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
109 136 0.89
110 16 0.11
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (109 bp):
GTTAGGGCACGTTTTCTCGAATTTTCTAAATACGAAATATTGCCTTTATTATTGAAAGTTTAAAA
GGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCAC
Found at i:24935594 original size:15 final size:15
Alignment explanation
Indices: 24935574--24935603 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24935564 AATAATAATT
24935574 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
24935589 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
24935604 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:24935682 original size:3 final size:3
Alignment explanation
Indices: 24935674--24935746 Score: 92
Period size: 3 Copynumber: 23.3 Consensus size: 3
24935664 ACTAAAGAAA
*
24935674 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT GGAGAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --A-AT AAT AAT
* *
24935722 AAT AAT AAT GAT ACT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
24935747 TAAATAAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
3 57 0.93
4 1 0.02
5 1 0.02
6 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24935752 original size:12 final size:11
Alignment explanation
Indices: 24935672--24935758 Score: 57
Period size: 12 Copynumber: 7.1 Consensus size: 11
24935662 GCACTAAAGA
24935672 AAAATAATAAT
1 AAAATAATAAT
24935683 AATAATAATAAT
1 AA-AATAATAAT
*
24935695 AATAATAATAGT
1 AA-AATAATAAT
24935707 AATGGAGATAATAAT
1 AA---A-ATAATAAT
*
24935722 AATAATAATGAT
1 AA-AATAATAAT
*
24935734 ACTAATAATAAT
1 A-AAATAATAAT
*
24935746 ATAAATAAAAAT
1 A-AAATAATAAT
24935758 A
1 A
24935759 TAAACAACAA
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
11 2 0.03
12 48 0.79
13 1 0.02
14 1 0.02
15 9 0.15
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:24943948 original size:31 final size:31
Alignment explanation
Indices: 24943913--24943971 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
24943903 AAATTATTAT
24943913 TTTAGAATATTT-TTAAAATTTTTATATATTC
1 TTTAGAAT-TTTCTTAAAATTTTTATATATTC
*
24943944 TTTAGAATTTTCTTAAAATTTTTTTATA
1 TTTAGAATTTTCTTAAAATTTTTATATA
24943972 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TTTAGAATTTTCTTAAAATTTTTATATATTC
Found at i:24944016 original size:27 final size:25
Alignment explanation
Indices: 24943965--24944025 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
24943955 CTTAAAATTT
*
24943965 TTTTATAATTTTTAAAAAATATAAA
1 TTTTAAAATTTTTAAAAAATATAAA
* *
24943990 TTTTGAAATTTTTAAAAATATTTTAAA
1 TTTTAAAATTTTTAAAAA-A-TATAAA
24944017 TTTTAAAAT
1 TTTTAAAAT
24944026 CTATTTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.53
26 1 0.03
27 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTAAAATTTTTAAAAAATATAAA
Found at i:24944030 original size:19 final size:20
Alignment explanation
Indices: 24943989--24944035 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
24943979 AAAAATATAA
24943989 ATTTTGAAATTTTTAAAAAT
1 ATTTTGAAATTTTTAAAAAT
*
24944009 ATTTT-AAA-TTTTAAAATCT
1 ATTTTGAAATTTTTAAAA-AT
24944028 ATTTTGAA
1 ATTTTGAA
24944036 TATCTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 9 0.38
20 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAAAT
Found at i:24946006 original size:39 final size:40
Alignment explanation
Indices: 24945963--24946044 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 40
24945953 AAACATTATT
* *
24945963 TAATAAAATATTTATTATATTTAT--TTGTGTTTTTTAATA
1 TAATAAAACATTTATTATATTTATGGTAGTG-TTTTTAATA
*
24946002 TAATAAAGCATTTATTATATTTATGGTAGTGTTTTTAATA
1 TAATAAAACATTTATTATATTTATGGTAGTGTTTTTAATA
24946042 TAA
1 TAA
24946045 ACACTTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 22 0.58
40 12 0.32
41 4 0.11
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.54
Consensus pattern (40 bp):
TAATAAAACATTTATTATATTTATGGTAGTGTTTTTAATA
Found at i:24951574 original size:9 final size:9
Alignment explanation
Indices: 24951562--24951610 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
24951552 AATTTAGCTT
*
24951562 TTTTAAAAA
1 TTTTAAATA
*
24951571 TTTTAAAAAA
1 TTTT-AAATA
*
24951581 TTTTAATTA
1 TTTTAAATA
*
24951590 TTTTAAATT
1 TTTTAAATA
24951599 TTTTAAATA
1 TTTTAAATA
24951608 TTT
1 TTT
24951611 AATGACATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
9 25 0.74
10 9 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTTAAATA
Found at i:24955945 original size:22 final size:22
Alignment explanation
Indices: 24955889--24955946 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
24955879 TTATTTGTTG
* *
24955889 TTATTTTATTATTATATTATTA
1 TTATTTTATTATTATATAACTA
* * *
24955911 TTATTTGGA-TATTGTATAACTC
1 TTATTT-TATTATTATATAACTA
24955933 TTATTTTATTATTA
1 TTATTTTATTATTA
24955947 ATTTTGCTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (22 bp):
TTATTTTATTATTATATAACTA
Found at i:24958086 original size:15 final size:15
Alignment explanation
Indices: 24958063--24958093 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24958053 ATGTTATTTT
*
24958063 TTTGGAAGGTGGATG
1 TTTGAAAGGTGGATG
24958078 TTTGAAAGGTGGATG
1 TTTGAAAGGTGGATG
24958093 T
1 T
24958094 AGAGGGGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (15 bp):
TTTGAAAGGTGGATG
Found at i:24975650 original size:17 final size:17
Alignment explanation
Indices: 24975628--24975661 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24975618 ATCCACTAAT
*
24975628 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
24975645 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
24975662 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:24980289 original size:17 final size:17
Alignment explanation
Indices: 24980267--24980300 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24980257 ATCCACTAAT
*
24980267 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
24980284 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
24980301 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:24983995 original size:20 final size:21
Alignment explanation
Indices: 24983958--24983996 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
24983948 TTCATTTGGA
* *
24983958 AAAAAGTATTTTTGAAAAGCC
1 AAAAAGTATTCTTCAAAAGCC
24983979 AAAAAGT-TTCTTCAAAAG
1 AAAAAGTATTCTTCAAAAG
24983997 TTGTTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (21 bp):
AAAAAGTATTCTTCAAAAGCC
Found at i:24986466 original size:35 final size:35
Alignment explanation
Indices: 24986420--24986488 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
24986410 ACTTCAATAT
*
24986420 TATTAATAATTATAATATAGTATGTATTGTAGATA
1 TATTAATAATTATAAAATAGTATGTATTGTAGATA
*
24986455 TATTATTAATTATAAAATAGTATGTATTGTAGAT
1 TATTAATAATTATAAAATAGTATGTATTGTAGAT
24986489 TAATGAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (35 bp):
TATTAATAATTATAAAATAGTATGTATTGTAGATA
Found at i:24988355 original size:23 final size:23
Alignment explanation
Indices: 24988325--24988370 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
24988315 TCCATGCCGC
24988325 TTGATTGATTAAAAAAGTGAAGA
1 TTGATTGATTAAAAAAGTGAAGA
24988348 TTGATTGATTAAAAAAGTGAAGA
1 TTGATTGATTAAAAAAGTGAAGA
24988371 GATTAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (23 bp):
TTGATTGATTAAAAAAGTGAAGA
Found at i:24994580 original size:11 final size:11
Alignment explanation
Indices: 24994564--24994597 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
24994554 CAAGGAGAGA
24994564 AGGGAGAGGAG
1 AGGGAGAGGAG
24994575 AGGGAGAGGGAG
1 AGGGAGA-GGAG
*
24994587 AGGCAGAGGAG
1 AGGGAGAGGAG
24994598 GTGGTGCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.35, C:0.03, G:0.62, T:0.00
Consensus pattern (11 bp):
AGGGAGAGGAG
Found at i:24995441 original size:18 final size:18
Alignment explanation
Indices: 24995418--24995452 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24995408 AGTATGTTGT
24995418 GTTTTTATTATCTTTTTG
1 GTTTTTATTATCTTTTTG
* *
24995436 GTTTTTTTTTTCTTTTT
1 GTTTTTATTATCTTTTT
24995453 TGAGAAATAC
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:0.06, C:0.06, G:0.09, T:0.80
Consensus pattern (18 bp):
GTTTTTATTATCTTTTTG
Found at i:24998408 original size:123 final size:124
Alignment explanation
Indices: 24998189--24998532 Score: 557
Period size: 130 Copynumber: 2.7 Consensus size: 124
24998179 AAGCATTGCC
24998189 ATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTG
1 ATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTG
*
24998254 CCAAACATCAAATCTCATCTTCGTTTAAGGGATTTT-TTGAATGGAATTTCGAAG-GAAA
66 CCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAATGAATGGAATTTCGAAGAG-AA
* *
24998312 ATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGTCACGATTTCGCGAATTG
1 ATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTG
24998377 CCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGAAATGAATGGAATTTCGAAGAGAA
66 CCAAACATCAAATCTCATCTTCGTTTAAGGGATTTT------AATGAATGGAATTTCGAAGAGAA
24998442 ATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTG
1 ATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTG
* * *
24998507 CCGAACATCAAATTTCGTCTTCGTTT
66 CCAAACATCAAATCTCATCTTCGTTT
24998533 TGAAGAATTT
Statistics
Matches: 205, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
123 99 0.48
130 105 0.51
131 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (124 bp):
ATTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTG
CCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAATGAATGGAATTTCGAAGAGAA
Found at i:24998586 original size:130 final size:123
Alignment explanation
Indices: 24998191--24998550 Score: 442
Period size: 123 Copynumber: 2.9 Consensus size: 123
24998181 GCATTGCCAT
24998191 TTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCC
1 TTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCC
* * * *
24998256 AAACATCAAATCTCATCTTCGTTTAAGGGATTTT--TTGAATGGAATTTCGAAG-GAAAA-T
66 AAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAT-AAT-GAA-TGC-AAGTTAAAAGA
* *
24998314 TTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGTCACGATTTCGCGAATTGCC
1 TTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCC
* * * *
24998379 AAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGAAATGAATGGAATTTCGAAGAGAAA
66 AAACATCAAATCTCATCTTCGTTTAAGGGATTTT-AAA-TAATGAATGCAAGTT--AA-A-AGA
24998443 TTTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGC
1 -TTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGC
* * * *
24998508 CGAACATCAAATTTCGTCTTCGTTTTGAA-GAATTTTAAATAAT
65 CAAACATCAAATCTCATCTTCG-TTT-AAGGGATTTTAAATAAT
24998551 CGTAAAGCTA
Statistics
Matches: 208, Mismatches: 16, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
123 99 0.48
124 1 0.00
125 3 0.01
126 5 0.02
127 1 0.00
128 1 0.00
129 3 0.01
130 84 0.40
131 9 0.04
132 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (123 bp):
TTGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCC
AAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAATAATGAATGCAAGTTAAAAGA
Found at i:25016417 original size:60 final size:59
Alignment explanation
Indices: 25016344--25016462 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 59
25016334 CAAAAAGCAA
25016344 GACTCCTTATAGCCAAAGAAGGATATTTAATAACGATGTTTTGATTGTCCTCTTATCCTG
1 GACTCCTTATAGCCAAAGAAGGATATTTAATAACGATGTTTTG-TTGTCCTCTTATCCTG
25016404 GACTCCTTATAGCCAAAGAAGGATATTTAATAACGATGTTTTGTTGTCCTCTTATCCTG
1 GACTCCTTATAGCCAAAGAAGGATATTTAATAACGATGTTTTGTTGTCCTCTTATCCTG
25016463 AGGCCTAGAC
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 16 0.27
60 43 0.73
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (59 bp):
GACTCCTTATAGCCAAAGAAGGATATTTAATAACGATGTTTTGTTGTCCTCTTATCCTG
Found at i:25025150 original size:46 final size:46
Alignment explanation
Indices: 25025098--25025417 Score: 516
Period size: 46 Copynumber: 7.0 Consensus size: 46
25025088 AGTGTGCTCT
25025098 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25025144 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25025190 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25025236 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25025282 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
25025328 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
25025374 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
25025418 TCACGTCAAA
Statistics
Matches: 260, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 259 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:25028282 original size:17 final size:18
Alignment explanation
Indices: 25028258--25028302 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
25028248 TAAATTCTTT
25028258 TAAATTCACACAAATCTC
1 TAAATTCACACAAATCTC
* *
25028276 T-AATTCA-AAAAATTTC
1 TAAATTCACACAAATCTC
25028292 TAAATTCACAC
1 TAAATTCACAC
25028303 TTGACTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 8 0.36
17 12 0.55
18 2 0.09
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATTCACACAAATCTC
Found at i:25036547 original size:17 final size:18
Alignment explanation
Indices: 25036514--25036557 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
25036504 TTAAAAAATA
25036514 TATAAAATTTGGAATTTT
1 TATAAAATTTGGAATTTT
25036532 TATAAATATTT-G-ATTTT
1 TATAAA-ATTTGGAATTTT
*
25036549 TAAAAAATT
1 TATAAAATT
25036558 ATTTTGAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 10 0.42
18 7 0.29
19 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TATAAAATTTGGAATTTT
Found at i:25036593 original size:17 final size:18
Alignment explanation
Indices: 25036567--25036607 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
25036557 TATTTTGAAC
25036567 TTTT-TTTTGG-ATTTTT
1 TTTTGTTTTGGAATTTTT
25036583 TTTTGTTTTGGAATTTTT
1 TTTTGTTTTGGAATTTTT
25036601 TTTTGTT
1 TTTTGTT
25036608 GAGAGAGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.17
17 6 0.26
18 13 0.57
ACGTcount: A:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (18 bp):
TTTTGTTTTGGAATTTTT
Found at i:25037128 original size:22 final size:24
Alignment explanation
Indices: 25037103--25037146 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
25037093 GATTTTAGTC
25037103 TTTA-TATTTTTA-TTTTTAAAAA
1 TTTATTATTTTTACTTTTTAAAAA
*
25037125 TTTATTTTTTTTACTTTTTAAA
1 TTTATTATTTTTACTTTTTAAA
25037147 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTATTATTTTTACTTTTTAAAAA
Found at i:25039482 original size:20 final size:18
Alignment explanation
Indices: 25039453--25039497 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
25039443 TAATGGTTAT
*
25039453 ATTTTAATATTTAAAATATA
1 ATTTTTATA-TTAAAATA-A
*
25039473 ATTTTTATATTCAAATAA
1 ATTTTTATATTAAAATAA
25039491 ATTTTTA
1 ATTTTTA
25039498 CAAATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 7 0.30
20 8 0.35
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTATATTAAAATAA
Found at i:25041332 original size:3 final size:3
Alignment explanation
Indices: 25041324--25041365 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
25041314 GTTCAAACCT
25041324 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
25041366 ACCAACCATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:25043488 original size:27 final size:27
Alignment explanation
Indices: 25043458--25043510 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
25043448 TGAACTATTC
*
25043458 TATTTATGTTCTTAATTA-TATTAATTA
1 TATTTATATT-TTAATTATTATTAATTA
*
25043485 TATTTATATTTTATTTATTATTAATT
1 TATTTATATTTTAATTATTATTAATT
25043511 TAGGGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TATTTATATTTTAATTATTATTAATTA
Found at i:25046635 original size:31 final size:30
Alignment explanation
Indices: 25046600--25046663 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
25046590 TTTTTTTAAA
25046600 TATATATTTTTT-AAAATTTTATATAACTTTT
1 TATATATTTTTTGAAAA-TTTATATAA-TTTT
* *
25046631 TATATTTTTTTTGAAAATTTATGTAATTTT
1 TATATATTTTTTGAAAATTTATATAATTTT
25046661 TAT
1 TAT
25046664 TTTTATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 19 0.63
32 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (30 bp):
TATATATTTTTTGAAAATTTATATAATTTT
Found at i:25050935 original size:2 final size:2
Alignment explanation
Indices: 25050930--25050956 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25050920 AATGAAAAAA
25050930 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
25050957 AAAGGGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25051214 original size:2 final size:2
Alignment explanation
Indices: 25051207--25051241 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25051197 TTTGCACAGG
25051207 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
25051242 GCAATGATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:25051453 original size:18 final size:19
Alignment explanation
Indices: 25051419--25051455 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25051409 CTATATAATT
*
25051419 AAATTTATAACTTATTTAA
1 AAATTAATAACTTATTTAA
25051438 AAATTAATAA-TTATTTAA
1 AAATTAATAACTTATTTAA
25051456 TATATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATTAATAACTTATTTAA
Found at i:25057326 original size:14 final size:14
Alignment explanation
Indices: 25057309--25057335 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25057299 ATGCAAAAAA
25057309 AAAAAAAAAAAAGC
1 AAAAAAAAAAAAGC
25057323 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
25057336 GAAGTTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGC
Found at i:25061682 original size:43 final size:43
Alignment explanation
Indices: 25061634--25061719 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
25061624 ATGTAAACGA
25061634 CATTCATAACAAGAGTATGATCCTTCTTTATCAAAAAATTAAC
1 CATTCATAACAAGAGTATGATCCTTCTTTATCAAAAAATTAAC
25061677 CATTCATAACAAGAGTATGATCCTTCTTTATCAAAAAATTAAC
1 CATTCATAACAAGAGTATGATCCTTCTTTATCAAAAAATTAAC
25061720 TTTCTAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (43 bp):
CATTCATAACAAGAGTATGATCCTTCTTTATCAAAAAATTAAC
Found at i:25061800 original size:51 final size:53
Alignment explanation
Indices: 25061727--25061827 Score: 152
Period size: 51 Copynumber: 1.9 Consensus size: 53
25061717 AACTTTCTAA
25061727 AAAACCCAGAATTAATTCAATCAAAATTAAATAAAAAA-AAGGCCAAAACAAC
1 AAAACCCAGAATTAATTCAATCAAAATTAAATAAAAAAGAAGGCCAAAACAAC
* * * *
25061779 AAAACCCAGAA-TAATTGAATCAAAGTTGAATAAAAAAGAAGGGCAAAAC
1 AAAACCCAGAATTAATTCAATCAAAATTAAATAAAAAAGAAGGCCAAAAC
25061828 TGCAAGCAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 23 0.52
52 21 0.48
ACGTcount: A:0.59, C:0.15, G:0.11, T:0.15
Consensus pattern (53 bp):
AAAACCCAGAATTAATTCAATCAAAATTAAATAAAAAAGAAGGCCAAAACAAC
Found at i:25062568 original size:27 final size:29
Alignment explanation
Indices: 25062512--25062580 Score: 99
Period size: 27 Copynumber: 2.4 Consensus size: 29
25062502 CATTTTATTT
25062512 TTTTATTTAAAAAATTAGATAAATTAATCA
1 TTTTATTTAAAAAA-TAGATAAATTAATCA
*
25062542 TTTTATTTAAAAAA-A-ATAAATTGATCA
1 TTTTATTTAAAAAATAGATAAATTAATCA
25062569 TTTTA-TTAAAAA
1 TTTTATTTAAAAA
25062581 TTTTATCTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
26 7 0.18
27 16 0.42
28 1 0.03
30 14 0.37
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
TTTTATTTAAAAAATAGATAAATTAATCA
Found at i:25071533 original size:3 final size:3
Alignment explanation
Indices: 25071525--25071568 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
25071515 ATTACATCCA
25071525 AAT AAT AAT AAT CAA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25071569 AACATGTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:25075907 original size:3 final size:3
Alignment explanation
Indices: 25075899--25075936 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
25075889 ATTACATCCA
25075899 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25075937 AACATGTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25085491 original size:3 final size:3
Alignment explanation
Indices: 25085483--25085514 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
25085473 GCCCAGATTT
25085483 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
25085515 TCTCTTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:25086319 original size:17 final size:17
Alignment explanation
Indices: 25086297--25086330 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25086287 ATCCACTAAT
*
25086297 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
25086314 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
25086331 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:25090958 original size:17 final size:17
Alignment explanation
Indices: 25090936--25090969 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25090926 ATCCACTAAT
*
25090936 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
25090953 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
25090970 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:25095597 original size:17 final size:17
Alignment explanation
Indices: 25095575--25095608 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25095565 ATCCACTAAT
*
25095575 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
25095592 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
25095609 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:25100236 original size:17 final size:17
Alignment explanation
Indices: 25100214--25100247 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25100204 ATCCACTAAT
*
25100214 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
25100231 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
25100248 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:25104946 original size:19 final size:19
Alignment explanation
Indices: 25104917--25104969 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
25104907 GCACATCAAT
*
25104917 AAATATTTAAAAATTTAA-A
1 AAAT-TTTAAAAATTAAATA
25104936 AAATTTCT-AAAATTAAATA
1 AAATTT-TAAAAATTAAATA
25104955 AAATTTTAAAAATTA
1 AAATTTTAAAAATTA
25104970 TTTAAAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTTTAAAAATTAAATA
Found at i:25104949 original size:18 final size:18
Alignment explanation
Indices: 25104914--25104965 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
25104904 GGCGCACATC
* *
25104914 AATAAATATTTAAAAATTT
1 AATAAA-ATTTTAAAATTA
25104933 AA-AAAATTTCTAAAATTA
1 AATAAAATTT-TAAAATTA
25104951 AATAAAATTTTAAAA
1 AATAAAATTTTAAAA
25104966 ATTATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 16 0.55
19 9 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAAAATTTTAAAATTA
Found at i:25104975 original size:19 final size:19
Alignment explanation
Indices: 25104917--25104976 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
25104907 GCACATCAAT
*
25104917 AAATATTTAAAAATT-TAAA
1 AAAT-TTTAAAAATTATATA
*
25104936 AAATTTCT-AAAATTAAATA
1 AAATTT-TAAAAATTATATA
*
25104955 AAATTTTAAAAATTATTTA
1 AAATTTTAAAAATTATATA
25104974 AAA
1 AAA
25104977 CATATAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 9 0.26
19 25 0.74
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTTTAAAAATTATATA
Found at i:25105703 original size:207 final size:211
Alignment explanation
Indices: 25105343--25105813 Score: 754
Period size: 207 Copynumber: 2.2 Consensus size: 211
25105333 TTTAATGCTG
* * *
25105343 CATATTTCATCCAGATAAAGTATGTATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAA
1 CATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAA
*
25105408 TTATAAAACAATATGTTATTTGGAAATTAACTATTATTGTAATGAGATACATGTTTTATTAGGTA
66 TTATAAAACAATATGTTATTTGGAAATTAACAATTATTGTAATGAGATACATGTTTTATTAGGTA
25105473 TAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGC-G-TA-ATATAT-ATATAATCATATT
131 TAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGCAGATATATATATAATATAATCATATT
* * *
25105534 AGTGAATCTGTTAATG
196 ACTGAATCTGCTAATA
* **
25105550 CGTACTTCATCCGGATAAAGTACACATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAA
1 CATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAA
* *
25105615 TTATAAAATAATATGTTATTTGAGAAA-TACCAATTATTGTAATGAGATACATGTTTTATTAGGT
66 TTATAAAACAATATGTTATTTG-GAAATTAACAATTATTGTAATGAGATACATGTTTTATTAGGT
25105679 ATAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGCATGTATATATATATAAATATAATCA
130 ATAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGCA-G-ATATATATAT-AATATAATCA
25105744 TATTACTGAATCTGCTAATA
192 TATTACTGAATCTGCTAATA
*
25105764 CATACTTCATCCGGATAAAATATGCATTATTAAAATTAAATTAAAATATT
1 CATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATT
25105814 TTTTAAAAAC
Statistics
Matches: 240, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
207 155 0.65
208 4 0.02
209 1 0.00
211 2 0.01
212 6 0.03
214 72 0.30
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.39
Consensus pattern (211 bp):
CATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAA
TTATAAAACAATATGTTATTTGGAAATTAACAATTATTGTAATGAGATACATGTTTTATTAGGTA
TAAGTATTTAAAATTTTATTTTTGTAATGTGATACATGCAGATATATATATAATATAATCATATT
ACTGAATCTGCTAATA
Found at i:25106280 original size:31 final size:31
Alignment explanation
Indices: 25106241--25106328 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
25106231 GATTAATTTA
*
25106241 TATT-TTATA-TATAATTATTTAGATATCATT
1 TATTATTATATTA-AATTATTTAAATATCATT
* *
25106271 TATTATTATATTAAATTATTTAAATCTTATT
1 TATTATTATATTAAATTATTTAAATATCATT
*
25106302 TATTATTATATTGAAATT-TTAAAATAT
1 TATTATTATATT-AAATTATTTAAATAT
25106329 TTTAGATATC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
30 4 0.08
31 39 0.78
32 7 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
TATTATTATATTAAATTATTTAAATATCATT
Found at i:25109802 original size:24 final size:23
Alignment explanation
Indices: 25109762--25109809 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
25109752 ATTTGAAATG
25109762 TTTTATAATATTATTTTTTAAAA
1 TTTTATAATATTATTTTTTAAAA
*
25109785 TTTTA-AATATATATTTTTTTAAA
1 TTTTATAATAT-TATTTTTTAAAA
25109808 TT
1 TT
25109810 ATTTTTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATAATATTATTTTTTAAAA
Found at i:25109893 original size:28 final size:28
Alignment explanation
Indices: 25109827--25109897 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
25109817 ACTAATATAA
25109827 AATA-TTTAAATGTATTATTAGTTTTAT
1 AATATTTTAAATGTATTATTAGTTTTAT
* ** * *
25109854 GACCTTTCAAATTTATTATTAGTTTTAT
1 AATATTTTAAATGTATTATTAGTTTTAT
25109882 AATATTTTAAATGTAT
1 AATATTTTAAATGTAT
25109898 ATTTTAGATA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (28 bp):
AATATTTTAAATGTATTATTAGTTTTAT
Found at i:25109932 original size:14 final size:14
Alignment explanation
Indices: 25109922--25109952 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25109912 TAATTTTATA
25109922 TATAATTTTTTAAT
1 TATAATTTTTTAAT
*
25109936 TATGATTTTTTAAT
1 TATAATTTTTTAAT
25109950 TAT
1 TAT
25109953 TTTTAAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TATAATTTTTTAAT
Found at i:25109956 original size:11 final size:14
Alignment explanation
Indices: 25109926--25109952 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25109916 TTTATATATA
25109926 ATTTTTTAATTATG
1 ATTTTTTAATTATG
25109940 ATTTTTTAATTAT
1 ATTTTTTAATTAT
25109953 TTTTAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
ATTTTTTAATTATG
Found at i:25112740 original size:30 final size:30
Alignment explanation
Indices: 25112704--25112834 Score: 124
Period size: 30 Copynumber: 4.4 Consensus size: 30
25112694 GTCGTAGAGC
25112704 AGTTCATATCACCCGGACATGGGCGGTTCA
1 AGTTCATATCACCCGGACATGGGCGGTTCA
* * * *
25112734 AGTTC--ATCACCCGAAAATGAGCGGCTT-G
1 AGTTCATATCACCCGGACATGGGCGG-TTCA
** *
25112762 AGTTCATATCACTTGGACATGGGCGGTTCG
1 AGTTCATATCACCCGGACATGGGCGGTTCA
* * *
25112792 AGTTCATATCACCCAGACATAGGCGATTCA
1 AGTTCATATCACCCGGACATGGGCGGTTCA
* *
25112822 AGTTTATTTCACC
1 AGTTCATATCACC
25112835 GATATCAACC
Statistics
Matches: 80, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
28 21 0.26
29 4 0.05
30 55 0.69
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATGGGCGGTTCA
Found at i:25116962 original size:46 final size:46
Alignment explanation
Indices: 25116907--25117082 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
25116897 TATTTGGGCA
* *
25116907 TCCGTACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACG
*** * * * *
25116953 TCCGAACTCGTTGAGTTGAGTCCGAA-TTCGAAAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCC-AAGTTC-ACTTATGGATACGA-ACG
* * *
25117000 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACG
* * *
25117046 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGG
25117083 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
46 71 0.68
47 34 0.32
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACG
Found at i:25128507 original size:19 final size:19
Alignment explanation
Indices: 25128483--25128521 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
25128473 GATATTATGT
25128483 TTCTGTTTCTTCTACTTGA
1 TTCTGTTTCTTCTACTTGA
25128502 TTCTGTTTCTTCTACTTGA
1 TTCTGTTTCTTCTACTTGA
25128521 T
1 T
25128522 GTTTCATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.21, G:0.10, T:0.59
Consensus pattern (19 bp):
TTCTGTTTCTTCTACTTGA
Found at i:25128524 original size:16 final size:17
Alignment explanation
Indices: 25128486--25128526 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
25128476 ATTATGTTTC
25128486 TGTTTCTTCTACTTGATT
1 TGTTTCTTCTACTTGA-T
25128504 CTGTTTCTTCTACTTGA-
1 -TGTTTCTTCTACTTGAT
25128521 TGTTTC
1 TGTTTC
25128527 ATGTGATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.27
19 16 0.73
ACGTcount: A:0.10, C:0.20, G:0.12, T:0.59
Consensus pattern (17 bp):
TGTTTCTTCTACTTGAT
Found at i:25128734 original size:15 final size:15
Alignment explanation
Indices: 25128695--25128774 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
25128685 GTATCTTGGG
*
25128695 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
25128710 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
25128725 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
25128740 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
25128755 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
25128769 TTTCTT
1 TTTCTT
25128775 ATTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:25128764 original size:30 final size:30
Alignment explanation
Indices: 25128686--25128773 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
25128676 CATAGTATCG
* * *
25128686 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
25128716 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
25128746 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
25128774 TATTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:25135994 original size:21 final size:22
Alignment explanation
Indices: 25135961--25136003 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
25135951 CTCCACCAAA
*
25135961 TAAAATATTAATTTTTAAAATT
1 TAAAATATTAATTTTAAAAATT
25135983 TAAAAT-TTAATTTTAAAAATT
1 TAAAATATTAATTTTAAAAATT
25136004 GTTTGAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAAATATTAATTTTAAAAATT
Found at i:25136294 original size:21 final size:21
Alignment explanation
Indices: 25136262--25136314 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
25136252 TTTTATATTA
25136262 TTAAAAAT-ATATTTAAAATT
1 TTAAAAATAATATTTAAAATT
25136282 TTAAAAATAATATTTAAAATT
1 TTAAAAATAATATTTAAAATT
25136303 TTAAAAA-AATAT
1 TTAAAAATAATAT
25136315 ATTTGAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAAATAATATTTAAAATT
Found at i:25136351 original size:23 final size:26
Alignment explanation
Indices: 25136320--25136369 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
25136310 AATATATTTG
25136320 AAAGATAAAT-AA-AAAAACTTAAAA
1 AAAGATAAATAAATAAAAACTTAAAA
25136344 AAAG-TAAATAAATAAAAACTTAAAA
1 AAAGATAAATAAATAAAAACTTAAAA
25136369 A
1 A
25136370 GAAACAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 5 0.21
24 6 0.25
25 13 0.54
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAGATAAATAAATAAAAACTTAAAA
Found at i:25137204 original size:152 final size:150
Alignment explanation
Indices: 25137033--25137357 Score: 526
Period size: 152 Copynumber: 2.2 Consensus size: 150
25137023 TATAAAATCT
*
25137033 AGATTCGAAAATTTTAAAAATACAAACAAATGGACAAAATTA-AGGTTATTTAATAAATTAATAT
1 AGATTCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGA-GTTATTTAATAAATTAATAT
* * *
25137097 AAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATATTGTAAAAGAATAAAATAGG
65 -AAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA-AATAAAATAAG
25137162 AAAATAGTATATTTTAAAAAATA
128 AAAATAGTATATTTTAAAAAATA
* *
25137185 AGATCCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGAGTTATTTACTAAATTAATATA
1 AGATTCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGAGTTATTTAATAAATTAATATA
*
25137250 AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATAATAAA
66 AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATAAGAAA
*
25137315 ATAGTGTATTTTAAAAAATA
131 ATAGTATATTTTAAAAAATA
* *
25137335 AAATTCAAAAATTTTAAAAATAC
1 AGATTCGAAAATTTTAAAAATAC
25137358 GAAATTTTTT
Statistics
Matches: 161, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
150 51 0.32
151 50 0.31
152 59 0.37
153 1 0.01
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (150 bp):
AGATTCGAAAATTTTAAAAATACAAACAAAGGGACAAAATTAGAGTTATTTAATAAATTAATATA
AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATAAGAAA
ATAGTATATTTTAAAAAATA
Found at i:25137794 original size:25 final size:25
Alignment explanation
Indices: 25137763--25137823 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
25137753 ATTTTAGTGT
25137763 TTCTTGCTTCCCGAGTTGCTGCTTC
1 TTCTTGCTTCCCGAGTTGCTGCTTC
*
25137788 TTCTTGCTTCCCGAGTTGTTGCTTC
1 TTCTTGCTTCCCGAGTTGCTGCTTC
*
25137813 TTTTTGCTTCC
1 TTCTTGCTTCC
25137824 AAAACTAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.03, C:0.30, G:0.18, T:0.49
Consensus pattern (25 bp):
TTCTTGCTTCCCGAGTTGCTGCTTC
Found at i:25137936 original size:17 final size:18
Alignment explanation
Indices: 25137903--25137947 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
25137893 ACACAATCCC
*
25137903 ATTTTTTTTCAACTTTTT
1 ATTTTTTTTCAACTTTTA
*
25137921 ATTTTTTTTC-ATTTTTA
1 ATTTTTTTTCAACTTTTA
*
25137938 ATTATTTTTC
1 ATTTTTTTTC
25137948 TTTAACAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTTTTCAACTTTTA
Found at i:25142974 original size:44 final size:44
Alignment explanation
Indices: 25142911--25143000 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
25142901 GTTCTCCAGC
25142911 CAACAAACCTGAATATGGCTTCATCCCTCTTGGAAACAAATCAT
1 CAACAAACCTGAATATGGCTTCATCCCTCTTGGAAACAAATCAT
25142955 CAACAAACCTGAATATGGCTTCATCCCTCTTGGAAACAAATCAT
1 CAACAAACCTGAATATGGCTTCATCCCTCTTGGAAACAAATCAT
25142999 CA
1 CA
25143001 GCTGATGATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.24
Consensus pattern (44 bp):
CAACAAACCTGAATATGGCTTCATCCCTCTTGGAAACAAATCAT
Found at i:25144024 original size:20 final size:20
Alignment explanation
Indices: 25143999--25144036 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25143989 TATATATATT
* *
25143999 TATATATGCATGTATGCACC
1 TATATATACATATATGCACC
25144019 TATATATACATATATGCA
1 TATATATACATATATGCA
25144037 AAACAAACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
TATATATACATATATGCACC
Found at i:25162453 original size:34 final size:33
Alignment explanation
Indices: 25162414--25162482 Score: 111
Period size: 34 Copynumber: 2.1 Consensus size: 33
25162404 TCAACATTTA
25162414 AAAAACAAAACATTATCACAAAAGGTGAAAAACT
1 AAAAACAAAACATTATCACAAAAGGTG-AAAACT
* *
25162448 AAAAACAGAACATTATCACAGAAGGTGAAAACT
1 AAAAACAAAACATTATCACAAAAGGTGAAAACT
25162481 AA
1 AA
25162483 TACTTACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
33 8 0.24
34 25 0.76
ACGTcount: A:0.59, C:0.14, G:0.12, T:0.14
Consensus pattern (33 bp):
AAAAACAAAACATTATCACAAAAGGTGAAAACT
Found at i:25163827 original size:14 final size:15
Alignment explanation
Indices: 25163808--25163839 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
25163798 ATACCATAAA
25163808 TTAATTAAT-AATGT
1 TTAATTAATAAATGT
25163822 TTAATTAATAAATGT
1 TTAATTAATAAATGT
25163837 TTA
1 TTA
25163840 CATAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
TTAATTAATAAATGT
Found at i:25175274 original size:24 final size:24
Alignment explanation
Indices: 25175247--25175295 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
25175237 TGAAATTTAT
*
25175247 GATAATGAGATCGTATGAATAAAG
1 GATAATGAGATCATATGAATAAAG
25175271 GATAATGAGATCATATGAATAAAG
1 GATAATGAGATCATATGAATAAAG
25175295 G
1 G
25175296 GTTGATGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.24
Consensus pattern (24 bp):
GATAATGAGATCATATGAATAAAG
Found at i:25178385 original size:19 final size:19
Alignment explanation
Indices: 25178361--25178400 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
25178351 ACCATCTCAC
*
25178361 TTAACTCCCGTGATTTTTA
1 TTAACTCCCGTGATTTCTA
25178380 TTAACTCCCGTGATTTCTA
1 TTAACTCCCGTGATTTCTA
25178399 TT
1 TT
25178401 TGGTAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.47
Consensus pattern (19 bp):
TTAACTCCCGTGATTTCTA
Found at i:25188676 original size:28 final size:29
Alignment explanation
Indices: 25188606--25188677 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 29
25188596 CAATTTCTTT
*
25188606 AAAAA-AATTATTTTATATTATTATTTAC
1 AAAAATAATCATTTTATATTATTATTTAC
** *
25188634 TGAAATAGTCGATTTT-T-TTATTATTTACC
1 AAAAATAATC-ATTTTATATTATTATTTA-C
25188663 AAAAATAATCATTTT
1 AAAAATAATCATTTT
25188678 CCCTGAGAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
28 18 0.53
29 11 0.32
30 5 0.15
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (29 bp):
AAAAATAATCATTTTATATTATTATTTAC
Done.