Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 24 of 213
Found at i:6318321 original size:15 final size:15
Alignment explanation
Indices: 6318293--6318329 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
6318283 TTTTATTATT
6318293 TTAATATTTTAAAAA
1 TTAATATTTTAAAAA
6318308 TTAA-ATTTTAAAAA
1 TTAATATTTTAAAAA
*
6318322 TTATTATT
1 TTAATATT
6318330 ATATAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAATATTTTAAAAA
Found at i:6323945 original size:41 final size:40
Alignment explanation
Indices: 6323788--6324007 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
6323778 GCTACCGCTC
*
6323788 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC-
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
6323827 CATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
6323867 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
6323907 AATGCCTTCGGGACTTAGCTCGGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGC-CCGGATATAGTAACTCGCACA
* * * *
6323948 AATGCCTTCGGGACTTAGCCCGGAAACTAGTCACTAG-GCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
6323988 AATGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
6324008 GGTTATCATC
Statistics
Matches: 163, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 36 0.22
40 81 0.50
41 46 0.28
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:6323959 original size:81 final size:80
Alignment explanation
Indices: 6323788--6324007 Score: 300
Period size: 81 Copynumber: 2.8 Consensus size: 80
6323778 GCTACCGCTC
* *
6323788 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCAC-CATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
* *
6323852 ATAGTAGCTCGCACA
66 ATAATAACTCGCACA
* * *
6323867 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCTCGGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC-CCGGA
*
6323932 TGTAATAACTCGCACA
65 TATAATAACTCGCACA
* * * *
6323948 AATGCCTTCGGGACTTAGCCCGGAAACTAGTCACTAG-GCAAATGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
6324008 GGTTATCATC
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
79 36 0.29
80 19 0.15
81 62 0.50
82 7 0.06
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAATAACTCGCACA
Found at i:6330354 original size:18 final size:19
Alignment explanation
Indices: 6330321--6330358 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6330311 AGACTCCAGG
*
6330321 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
6330340 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
6330358 T
1 T
6330359 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:6354904 original size:13 final size:13
Alignment explanation
Indices: 6354886--6354911 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6354876 AAGTCTTGGT
6354886 ATCCTGCCCAAGC
1 ATCCTGCCCAAGC
6354899 ATCCTGCCCAAGC
1 ATCCTGCCCAAGC
6354912 CATCTCTAAT
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:0.23, C:0.46, G:0.15, T:0.15
Consensus pattern (13 bp):
ATCCTGCCCAAGC
Found at i:6374589 original size:2 final size:2
Alignment explanation
Indices: 6374582--6374607 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6374572 TAATTGAGAA
6374582 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
6374608 TTGTAATTTG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6384685 original size:18 final size:20
Alignment explanation
Indices: 6384648--6384685 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
6384638 AGCGTTAAAT
*
6384648 TTGATAATGATGATGAAGAG
1 TTGATAATGATGACGAAGAG
6384668 TTGAT-ATG-TGACGAAGAG
1 TTGATAATGATGACGAAGAG
6384686 GGCAATGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (20 bp):
TTGATAATGATGACGAAGAG
Found at i:6393582 original size:18 final size:18
Alignment explanation
Indices: 6393548--6393583 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6393538 TAAAAGGAAT
*
6393548 AATAAAATAACACAAAAA
1 AATAAAATAAAACAAAAA
*
6393566 AATAAAATAAAATAAAAA
1 AATAAAATAAAACAAAAA
6393584 TGAGATAATA
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:0.81, C:0.06, G:0.00, T:0.14
Consensus pattern (18 bp):
AATAAAATAAAACAAAAA
Found at i:6393676 original size:15 final size:13
Alignment explanation
Indices: 6393654--6393695 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
6393644 AAAAGCAAGG
6393654 AAAT-AATAATAA
1 AAATAAATAATAA
6393666 ATAGATAAATAATAA
1 A-A-ATAAATAATAA
6393681 AAATAAA-AATAA
1 AAATAAATAATAA
6393693 AAA
1 AAA
6393696 AATCCATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.33
13 6 0.22
14 3 0.11
15 9 0.33
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (13 bp):
AAATAAATAATAA
Found at i:6394608 original size:12 final size:12
Alignment explanation
Indices: 6394593--6394617 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6394583 TTGTTACTAT
6394593 TTTTGTTGTTTC
1 TTTTGTTGTTTC
6394605 TTTTGTTGTTTC
1 TTTTGTTGTTTC
6394617 T
1 T
6394618 GTCTTCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.16, T:0.76
Consensus pattern (12 bp):
TTTTGTTGTTTC
Found at i:6413271 original size:28 final size:28
Alignment explanation
Indices: 6413240--6413299 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
6413230 GTTAAGTTCA
*
6413240 ATTTCTTT-TAATTTTAATATTAAAATTT
1 ATTTCTTTAAAATTTT-ATATTAAAATTT
*
6413268 ATTT-TTTAAAATTTTATATTTAAATTT
1 ATTTCTTTAAAATTTTATATTAAAATTT
6413295 -TTTCT
1 ATTTCT
6413300 AATTTAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 3 0.11
27 15 0.54
28 10 0.36
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (28 bp):
ATTTCTTTAAAATTTTATATTAAAATTT
Found at i:6415099 original size:33 final size:34
Alignment explanation
Indices: 6415046--6415110 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
6415036 TACGGAAAAT
* *
6415046 GCCGCTAAAGATTGAGCATTAGCGGCGTTTTTAC
1 GCCGCTAAAGAATGAGCATTAACGGCGTTTTTAC
*
6415080 GCCGCTAAA-AATGAGCATTAATGGCGTTTTT
1 GCCGCTAAAGAATGAGCATTAACGGCGTTTTT
6415111 CGGAAAAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 19 0.68
34 9 0.32
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (34 bp):
GCCGCTAAAGAATGAGCATTAACGGCGTTTTTAC
Found at i:6415300 original size:42 final size:41
Alignment explanation
Indices: 6415156--6415309 Score: 247
Period size: 41 Copynumber: 3.7 Consensus size: 41
6415146 TTGACCCTTT
6415156 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
* *
6415197 GGGGCTTTAGCGGCGTTTTTGGTAAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
* *
6415238 GGGTCTTTAGCGGCGTTTTT-GATAAAGCGCTGCTAATGCTTA
1 GGGGCTTTAGCGGCGTTTTTGGA-AAAGCGCTGCTAATGC-TC
6415280 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGC
1 GGGGCTTTAGCGGCGTTTTTGGAAAAGCGC
6415310 CGCAAAAAAC
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
40 1 0.01
41 73 0.71
42 27 0.26
43 2 0.02
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.31
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGCTC
Found at i:6415738 original size:7 final size:7
Alignment explanation
Indices: 6415728--6415789 Score: 61
Period size: 7 Copynumber: 8.7 Consensus size: 7
6415718 GATTTAATGT
6415728 TTAGGGG
1 TTAGGGG
6415735 TTAGGGG
1 TTAGGGG
**
6415742 TTAGATG
1 TTAGGGG
6415749 TTAGGGG
1 TTAGGGG
*
6415756 TTAGGAG
1 TTAGGGG
*
6415763 TTAGGAG
1 TTAGGGG
*
6415770 TTAGGGAT
1 TTAGGG-G
*
6415778 TTAGGGT
1 TTAGGGG
6415785 TTAGG
1 TTAGG
6415790 AATTCAGGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
7 41 0.87
8 6 0.13
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:6415753 original size:21 final size:21
Alignment explanation
Indices: 6415728--6415775 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6415718 GATTTAATGT
*
6415728 TTAGGGGTTAGGGGTTA-GATG
1 TTAGGGGTTAGGAGTTAGGA-G
6415749 TTAGGGGTTAGGAGTTAGGAG
1 TTAGGGGTTAGGAGTTAGGAG
6415770 TTAGGG
1 TTAGGG
6415776 ATTTAGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.31
Consensus pattern (21 bp):
TTAGGGGTTAGGAGTTAGGAG
Found at i:6415774 original size:14 final size:14
Alignment explanation
Indices: 6415728--6415800 Score: 67
Period size: 14 Copynumber: 5.1 Consensus size: 14
6415718 GATTTAATGT
*
6415728 TTAGGGGTTAGGGG
1 TTAGGAGTTAGGGG
6415742 TTA-GATGTTAGGGG
1 TTAGGA-GTTAGGGG
*
6415756 TTAGGAGTTAGGAG
1 TTAGGAGTTAGGGG
* *
6415770 TTAGGGATTTAGGGT
1 TTA-GGAGTTAGGGG
*
6415785 TTAGGAATTCAGGGG
1 TTAGGAGTT-AGGGG
6415800 T
1 T
6415801 CAAGTTAAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
13 1 0.02
14 29 0.60
15 18 0.38
ACGTcount: A:0.22, C:0.01, G:0.44, T:0.33
Consensus pattern (14 bp):
TTAGGAGTTAGGGG
Found at i:6416056 original size:22 final size:21
Alignment explanation
Indices: 6416008--6416056 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
6415998 GGATTATGGT
*
6416008 TTAAGG-GTTGTGCTTTAAAG
1 TTAAGGAGTTGTGCTTAAAAG
* *
6416028 TTTAGGAGTTAGTGGTTAAAAG
1 TTAAGGAGTT-GTGCTTAAAAG
6416050 TTAAGGA
1 TTAAGGA
6416057 TTTAAGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.22
21 3 0.13
22 15 0.65
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.37
Consensus pattern (21 bp):
TTAAGGAGTTGTGCTTAAAAG
Found at i:6421886 original size:17 final size:19
Alignment explanation
Indices: 6421864--6421899 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6421854 GTTTTTGGTG
6421864 TTTT-GGGGG-TGATTTTT
1 TTTTGGGGGGATGATTTTT
6421881 TTTTGGGGGGATGATTTTT
1 TTTTGGGGGGATGATTTTT
6421900 CATCTGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.08, C:0.00, G:0.36, T:0.56
Consensus pattern (19 bp):
TTTTGGGGGGATGATTTTT
Found at i:6425640 original size:42 final size:42
Alignment explanation
Indices: 6425586--6425764 Score: 189
Period size: 42 Copynumber: 4.2 Consensus size: 42
6425576 TTAAATGCCG
* * * *
6425586 CTAAAGAACAAGACTTTTAGCGGCGCTTTTTTACAAACGCCA
1 CTAAAGACCAAGACCTTTAGCGACGCTTTTTCACAAACGCCA
* * *
6425628 CTAAAGACCAAGACCTTTAGCGGCGTTTTTTCCACAAACGCCG
1 CTAAAGACCAAGACCTTTAGCGACGCTTTTT-CACAAACGCCA
* * * ** * *
6425671 CTAAAGACTATGACCTTTAGCGACACTTTCCCACAAACGTCG
1 CTAAAGACCAAGACCTTTAGCGACGCTTTTTCACAAACGCCA
*
6425713 CTAAAGA-CAATGACCTTTAGCGACGCTTTTCTCACAAACGCTA
1 CTAAAGACCAA-GACCTTTAGCGACGCTTTT-TCACAAACGCCA
6425756 CTAAAGACC
1 CTAAAGACC
6425765 GTGATCTTTA
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 62 0.55
43 48 0.43
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
CTAAAGACCAAGACCTTTAGCGACGCTTTTTCACAAACGCCA
Found at i:6425690 original size:85 final size:84
Alignment explanation
Indices: 6425582--6425763 Score: 197
Period size: 85 Copynumber: 2.1 Consensus size: 84
6425572 AGAATTAAAT
* * * ***
6425582 GCCGCTAAAGAACAAGACTTTTAGCGGCGCTTTTTTACAAACGCCACTAAAGACCAA-GACCTTT
1 GCCGCTAAAG-ACAAGACCTTTAGCGACACTTTCCCACAAACGCCACTAAAGA-CAATGACCTTT
* *
6425646 AGCGGCG-TTTTTTCCACAAAC
64 AGCGACGCTTTTCT-CACAAAC
* * *
6425667 GCCGCTAAAGACTATGACCTTTAGCGACACTTTCCCACAAACGTCGCTAAAGACAATGACCTTTA
1 GCCGCTAAAGAC-AAGACCTTTAGCGACACTTTCCCACAAACGCCACTAAAGACAATGACCTTTA
6425732 GCGACGCTTTTCTCACAAAC
65 GCGACGCTTTTCTCACAAAC
**
6425752 GCTACTAAAGAC
1 GCCGCTAAAGAC
6425764 CGTGATCTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
84 5 0.06
85 71 0.88
86 5 0.06
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (84 bp):
GCCGCTAAAGACAAGACCTTTAGCGACACTTTCCCACAAACGCCACTAAAGACAATGACCTTTAG
CGACGCTTTTCTCACAAAC
Found at i:6425774 original size:43 final size:43
Alignment explanation
Indices: 6425586--6425774 Score: 186
Period size: 43 Copynumber: 4.4 Consensus size: 43
6425576 TTAAATGCCG
* * * * *
6425586 CTAAAGAACAAGACTTTTAGCGGCGCTTTT-TTACAAACGCCA
1 CTAAAGACCATGACCTTTAGCGACGCTTTTCTCACAAACGCCA
* * * *
6425628 CTAAAGACCAAGACCTTTAGCGGCG-TTTTTTCCACAAACGCCG
1 CTAAAGACCATGACCTTTAGCGACGCTTTTCT-CACAAACGCCA
* * * * *
6425671 CTAAAGACTATGACCTTTAGCGACAC-TTTCCCACAAACGTCG
1 CTAAAGACCATGACCTTTAGCGACGCTTTTCTCACAAACGCCA
* *
6425713 CTAAAGACAATGACCTTTAGCGACGCTTTTCTCACAAACGCTA
1 CTAAAGACCATGACCTTTAGCGACGCTTTTCTCACAAACGCCA
* *
6425756 CTAAAGACCGTGATCTTTA
1 CTAAAGACCATGACCTTTA
6425775 AAAAAATAGC
Statistics
Matches: 123, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
41 4 0.03
42 58 0.47
43 61 0.50
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
CTAAAGACCATGACCTTTAGCGACGCTTTTCTCACAAACGCCA
Found at i:6425774 original size:85 final size:85
Alignment explanation
Indices: 6425618--6425774 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
6425608 GCGCTTTTTT
* * * *
6425618 ACAAACGCCACTAAAGACCAAGACCTTTAGCGGCGTTTTTTCCACAAACGCCGCTAAAGACTATG
1 ACAAACGCCACTAAAGACCAAGACCTTTAGCGACGTTTTCTCCACAAACGCCACTAAAGACCATG
6425683 ACCTTTAGCGACACTTTCCC
66 ACCTTTAGCGACACTTTCCC
* * * *
6425703 ACAAACGTCGCTAAAGA-CAATGACCTTTAGCGACGCTTTTCT-CACAAACGCTACTAAAGACCG
1 ACAAACGCCACTAAAGACCAA-GACCTTTAGCGACG-TTTTCTCCACAAACGCCACTAAAGACCA
*
6425766 TGATCTTTA
64 TGACCTTTA
6425775 AAAAAATAGC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
84 3 0.05
85 53 0.87
86 5 0.08
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (85 bp):
ACAAACGCCACTAAAGACCAAGACCTTTAGCGACGTTTTCTCCACAAACGCCACTAAAGACCATG
ACCTTTAGCGACACTTTCCC
Found at i:6428013 original size:115 final size:115
Alignment explanation
Indices: 6427861--6428101 Score: 448
Period size: 115 Copynumber: 2.1 Consensus size: 115
6427851 GAAGCGACTG
*
6427861 AATCCAGCTCCCCCTGGAAAATAAAAAAGACGAAAAAAAAAACAGCATATGCATACAACACTCAT
1 AATCCAGGTCCCCCTGGAAAATAAAAAAGACGAAAAAAAAAACAGCATATGCATACAACACTCAT
6427926 AGTAACAATTAAAGTAGAAGAAATTAGTGGAAAGGGAAAGATATACCATA
66 AGTAACAATTAAAGTAGAAGAAATTAGTGGAAAGGGAAAGATATACCATA
*
6427976 AATCCAGGTCCCTCTGGAAAATAAAGAAAGACG-AAAAAAAAACAGCATATGCATACAACACTCA
1 AATCCAGGTCCCCCTGGAAAATAAA-AAAGACGAAAAAAAAAACAGCATATGCATACAACACTCA
6428040 TAGTAACAATTAAAGTAGAAGAAATTAGTGGAAAGGGAAAGATATACCATA
65 TAGTAACAATTAAAGTAGAAGAAATTAGTGGAAAGGGAAAGATATACCATA
6428091 AATCCAGGTCC
1 AATCCAGGTCC
6428102 TTTAAAAAAT
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
115 116 0.94
116 7 0.06
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (115 bp):
AATCCAGGTCCCCCTGGAAAATAAAAAAGACGAAAAAAAAAACAGCATATGCATACAACACTCAT
AGTAACAATTAAAGTAGAAGAAATTAGTGGAAAGGGAAAGATATACCATA
Found at i:6430560 original size:148 final size:148
Alignment explanation
Indices: 6430349--6430820 Score: 745
Period size: 148 Copynumber: 3.2 Consensus size: 148
6430339 ATGGCACAAT
*
6430349 TTTTTAAACTAAAATTATTTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTT
1 TTTTTAAAATAAAATTA-TTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTT
* * * * ** * *
6430414 GCAGCGTTTT-TATGTAAAACGCCGCAAAAAATTATTTTATTTGGAATAAAACGATATTGTTTTT
65 GCGGCGTTTTACAT-AAAAATGCCGCAAAAAATTATTACATTTGGAATAAAACGATACTGTTTTG
6430478 CTATGCTAAAAATCTCGCTA
129 CTATGCTAAAAATCTCGCTA
6430498 TTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTTG
1 TTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTTG
*
6430563 CGGCGTTTTACATAAAAATGCCGCAAAAAA-TATTACATTTAGAATAAAACGATACTGTTTTGCT
66 CGGCGTTTTACATAAAAATGCCGCAAAAAATTATTACATTTGGAATAAAACGATACTGTTTTGCT
6430627 ATGCTAAAAATCTCGCTA
131 ATGCTAAAAATCTCGCTA
6430645 TTTTTTAAAATAAAATTATTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTATTGCTCACCTTTT
1 -TTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTT
*
6430709 GCGGCGTTTTACATAAAAAAATGCCGC-AAAAATTATTACATTTGGAATAAAACGACACTGTTTT
65 GCGGCGTTTTACAT--AAAAATGCCGCAAAAAATTATTACATTTGGAATAAAACGATACTGTTTT
6430773 GCTATGCTAAAAATCTCGCTA
128 GCTATGCTAAAAATCTCGCTA
* *
6430794 TTTTTTAAAGAAAATTTATTTTTTGTG
1 TTTTTAAAATAAAA-TTATTTTTTGTG
6430821 AACGCCGCAA
Statistics
Matches: 303, Mismatches: 14, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
147 95 0.31
148 117 0.39
149 91 0.30
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (148 bp):
TTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGCCGCTATTGCTCACCTTTTG
CGGCGTTTTACATAAAAATGCCGCAAAAAATTATTACATTTGGAATAAAACGATACTGTTTTGCT
ATGCTAAAAATCTCGCTA
Found at i:6431679 original size:21 final size:20
Alignment explanation
Indices: 6431648--6431718 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
6431638 CCTAAACTCA
6431648 TAAACCCTTAATACATAACCTT
1 TAAA-CCTTAA-ACATAACCTT
**
6431670 TAAACCTTAAACCCAAGCCTT
1 TAAACCTTAAACATAA-CCTT
* *
6431691 TAAACCATAAACCATAACCTC
1 TAAACCTTAAA-CATAACCTT
6431712 TAAACCT
1 TAAACCT
6431719 ATAATCCATA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.10
21 29 0.73
22 7 0.17
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.25
Consensus pattern (20 bp):
TAAACCTTAAACATAACCTT
Found at i:6432200 original size:115 final size:113
Alignment explanation
Indices: 6431973--6432235 Score: 402
Period size: 115 Copynumber: 2.3 Consensus size: 113
6431963 CTGAGCATTA
*
6431973 GCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCG
1 GCGGCGCTTT-CCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCG
* *
6432038 CAAAATCCCCGAAAGCTCACAAAACGGTGTCGTTGGGCTTAGGTTTTTTTT
65 CAAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTA-G-ATTTTTT
* * *
6432089 GCGGCGCTTTCCTAACAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* * *
6432154 TAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAGATTTTTT
66 AAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGATTTTTT
*
6432202 GC-GCGCTTTCCCAAAAACGCCGCTAAATCCCTGA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGA
6432236 AAGCTCAGAA
Statistics
Matches: 134, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
112 28 0.21
113 8 0.06
114 1 0.01
115 87 0.65
116 10 0.07
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (113 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
AAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGATTTTTT
Found at i:6432253 original size:71 final size:73
Alignment explanation
Indices: 6432130--6432301 Score: 260
Period size: 71 Copynumber: 2.4 Consensus size: 73
6432120 CTGAGCATTA
** *
6432130 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTA-
1 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
6432194 GATTTTTT
66 GATTTTTT
* *
6432202 GC-GCGCTTTCCCAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
*
6432266 GTTTTTTT
66 GATTTTTT
6432274 GCGGCGC-TTCACCAAAAACGCCGCTAAA
1 GCGGCGCTTTC-CCAAAAACGCCGCTAAA
6432302 GACCTGAGCA
Statistics
Matches: 91, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
71 56 0.62
72 14 0.15
73 21 0.23
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (73 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
GATTTTTT
Found at i:6432335 original size:185 final size:187
Alignment explanation
Indices: 6432018--6432421 Score: 600
Period size: 186 Copynumber: 2.2 Consensus size: 187
6432008 AGCATTAGCG
* * * *
6432018 GCGCTTTCTTAAAAACGCCGCAAAATCCCCGAAAGCTCACAAAACGGTGTCGTTGGGCTTAGGTT
1 GCGCTTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTT
* * * *
6432083 TTTTTTGCGGCGCTTTCCTAACAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAA
66 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAA
* *
6432148 CGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTA-GATTTTTTG-C
131 CGCCGCTAAAT-CCCGAAAGCTCAGAAAACGGCGTCGTGTGGCTTAGGATTTTTTGAA
* * *
6432204 GCGCTTTCCCAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAGG-T
1 GCGCTTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTT
*
6432268 TTTTTTGCGGCGC-TTCACCAAAAACGCCGCTAAAGACCTGAGCATTCGCGGCGCTTTCTTAAAA
66 TTTTTTGCGGCGCTTTC-CCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAA
* * *
6432332 ACGCCGCTAAATCCCGAAAGTTCAGAAAACGGTGTCGTGTGGCTTAGGTTTTTTTGAA
130 ACGCCGCTAAATCCCGAAAGCTCAGAAAACGGCGTCGTGTGGCTTAGGATTTTTTGAA
*
6432390 GCGCTTTCTCAAAAACGCCGCTAAAGCCCTGA
1 GCGCTTTCTCAAAAACGCCGCTAAATCCCTGA
6432422 GCATTAGCGG
Statistics
Matches: 196, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
184 34 0.17
185 76 0.39
186 86 0.44
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (187 bp):
GCGCTTTCTCAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTT
TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAA
CGCCGCTAAATCCCGAAAGCTCAGAAAACGGCGTCGTGTGGCTTAGGATTTTTTGAA
Found at i:6432387 original size:113 final size:113
Alignment explanation
Indices: 6432204--6432526 Score: 454
Period size: 113 Copynumber: 2.8 Consensus size: 113
6432194 GATTTTTTGC
** *
6432204 GCGCTTTCCCAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAGGTT
1 GCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
*
6432269 TTTTTGCGGCGCTTCACCAAAAACGCCGCTAAAGACCTGAGCATTCGCG
66 TTTTTGCGGCGCTTC-CCAAAAACGCCGCTAAAGACCTGAGCATTAGCG
* *
6432318 GCGCTTTCTTAAAAACGCCGCTAAATCCC-GAAAGTTCAGAAAACGGTGTCG-TGTGGCTTAGGT
1 GCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTG-GGCTTAGGT
** * *
6432381 TTTTTTGAAGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
65 TTTTTTGCGGCGC-TTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCG
* *
6432431 GCGCTTTCTTAAAAACGCCGCAAAATCCCTGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGG-T
1 GCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
***
6432495 TTTTTGCGGCGCTTTCTGGAAAACGCCGCTAA
66 TTTTTGCGGCGC-TTCCCAAAAACGCCGCTAA
6432527 TGCCTATTTT
Statistics
Matches: 187, Mismatches: 18, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
112 2 0.01
113 126 0.67
114 57 0.30
115 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (113 bp):
GCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
TTTTTGCGGCGCTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCG
Found at i:6449634 original size:127 final size:127
Alignment explanation
Indices: 6449434--6449829 Score: 402
Period size: 131 Copynumber: 3.1 Consensus size: 127
6449424 CTGTAACTTC
* ** * * *
6449434 AGGGAGATAAGACTGGATGCGATCTGCTTTACTATTGA-TT-GAGAGATAAGATTTACAATCTTC
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACT-ACTTAGGGAGATAAGATCTACAATCTTC
* * * * * *** *** *
6449497 AACCTACTCCACTGCTGCTCAAGGAGATAGGATTGGTTTTTTTTGTCTGCTCCGCTACTGCTT
65 GACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
*
6449560 AGGGAGATAAGACTTGATGCGATTTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCG
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCG
*
6449625 ACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTT
66 ACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * * * *
6449687 AGGAAAATGAGA-TTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCAT
1 AGGGAGATAAGACTT-G--A--TGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT
* * * * * * *
6449751 CTTTGACCTGCTCTACTACTGTTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCATTACTGC
61 CTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGC
6449816 TT
126 TT
*
6449818 AGGAAGATAAGA
1 AGGGAGATAAGA
6449830 TTCGCCGTCT
Statistics
Matches: 227, Mismatches: 36, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
125 1 0.00
126 35 0.15
127 81 0.36
129 1 0.00
131 109 0.48
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (127 bp):
AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCG
ACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTCCACTACTGCTT
Found at i:6449718 original size:87 final size:87
Alignment explanation
Indices: 6449542--6450509 Score: 609
Period size: 87 Copynumber: 11.1 Consensus size: 87
6449532 GTTTTTTTTG
* * ** * *
6449542 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATG-C---GATTTGCTCCACTACTACTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGAC-TGCCGTCTTAGATCTGCTCCACTACTGCTTAGG
* * *
6449603 GAGATAAGA-TCTACAATCTTCGA
65 GAGATAGGACTC-GCCATCTTCGA
* * ** * * * *
6449626 CCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTGCCGTCTTAGATCTGCTCCACTACTGCTTAGGG
* *
6449691 AAAT-GAGATTCGCCATCTTCGA
66 AGATAG-GACTCGCCATCTTCGA
* * * * * *
6449713 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCTACTACTGTTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGCCGTCTTAGATCTGCTCCACTACTGCTTAGG
**** **
6449778 GAGATAGGACT-GGTGGCTTAAA
65 GAGATAGGACTCGCCATCTTCGA
* * * * * * * *
6449800 TCTACTTCATTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCAGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACT-GCCGTCTTAGATCTGCTCCACTACTGCTTAGG
**** **
6449865 GAGATAGGACT-GGTGGCTTAAA
65 GAGATAGGACTCGCCATCTTCGA
* * * * * *
6449887 TCTGGTTCACTACTGCTTAGGAAGAT-GAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GACT-GCCGTCTTAGATCTGCTCCACTACTGCTTAG
* *
6449951 GGAGATAGGA-TCTACCATCTTTGA
64 GGAGATAGGACTC-GCCATCTTCGA
* ** * * * * **
6449975 CCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATTTGCTTCACTACTGCTTAGAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTGCCGTCTTAGATCTGCTCCACTACTGCTTAGGG
* * * * *
6450040 AGATAAGATTTGCCGTATTCGA
66 AGATAGGACTCGCCATCTTCGA
* * * * *
6450062 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCATTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGCCGTCTTAGATCTGCTCCACTACTGCTTAGG
* *** **
6450127 GAGATAGGACTGGTGGT-TTAAA
65 GAGATAGGACTCGCCATCTTCGA
* * * * * * *
6450149 TCAGCTTCACTACTGTTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACT-GCCGTCTTAGATCTGCTCCACTACTGCTTAGG
* *
6450214 GAGATAGGAC-CTACCATCTTTGA
65 GAGATAGGACTC-GCCATCTTCGA
* ** * * * *
6450237 CCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCATTACTGCTTA-GG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACTGCCGTCTTAGATCTGCTCCACTACTGCTTAGGG
*
6450301 A-ATATGAGATTCGCCATCTTCGA
66 AGATA-G-GACTCGCCATCTTCGA
* * * * *
6450324 TCTGCTCCACTACTACTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGCCGTCTTAGATCTGCTCCACTACTGCTTAGG
* *** **
6450389 GAGATAGGACTAG-TGGCTTAAA
65 GAGATAGGACTCGCCATCTTCGA
* * * * * * * * *
6450411 TCTGCTTCACCACTGCTTAGGAAAATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGACT-GCCGTCTTAGATCTGCTCCACTACTGCTTAGG
* *
6450476 GAGATAAGA-TCTACCATCTTCGA
65 GAGATAGGACTC-GCCATCTTCGA
* *
6450499 CCTGTTCCACT
1 TCTGCTCCACT
6450510 GTAACCTCAG
Statistics
Matches: 676, Mismatches: 181, Indels: 50
0.75 0.20 0.06
Matches are distributed among these distances:
83 4 0.01
84 28 0.04
85 3 0.00
86 9 0.01
87 463 0.68
88 160 0.24
89 6 0.01
90 3 0.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGACTGCCGTCTTAGATCTGCTCCACTACTGCTTAGGG
AGATAGGACTCGCCATCTTCGA
Found at i:6449760 original size:131 final size:131
Alignment explanation
Indices: 6449579--6449873 Score: 464
Period size: 131 Copynumber: 2.3 Consensus size: 131
6449569 AGACTTGATG
* * *
6449579 CGATTTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTCGACCTGCTCCACTACTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCGACCTGCTCCACTACTGCTT
* *
6449644 AAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAAATGAGATTCGCCATCT
66 AAGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAAATAAGATTCGCCATCT
6449709 T
131 T
* * * *
6449710 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCTACTACTGTTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCGACCTGCTCCACTACTGCTT
* * * *
6449775 AGGGAGATAGGACTGGTGGCTTAAATCTACTTCATTACTGCTTAGGAAGATAAGATTCGCCGTCT
66 AAGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAAATAAGATTCGCCATCT
6449840 T
131 T
*
6449841 CGATCAGCTCCACTACTGCTTAGGGAGATAGGA
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGA
6449874 CTGGTGGCTT
Statistics
Matches: 150, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 150 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (131 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCGACCTGCTCCACTACTGCTT
AAGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAAATAAGATTCGCCATCT
T
Found at i:6449853 original size:218 final size:218
Alignment explanation
Indices: 6449619--6450091 Score: 829
Period size: 218 Copynumber: 2.2 Consensus size: 218
6449609 AGATCTACAA
* *
6449619 TCTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTG
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTG
6449684 CTTAGGAAAATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACC
66 CTTAGGAAAATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACC
* * *
6449749 ATCTTTGACCTGCTCTACTACTGTTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCATTACT
131 ATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACT
*
6449814 GCTTAGGAAGATAAGATTCGCCG
196 GCTTAGAAAGATAAGATTCGCCG
* *
6449837 TCTTCGATCAGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGGTTCACTACTG
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTG
*
6449902 CTTAGGAAGATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACC
66 CTTAGGAAAATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACC
* *
6449967 ATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATTTGCTTCACTACT
131 ATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACT
*
6450032 GCTTAGAAAGATAAGATTTGCCG
196 GCTTAGAAAGATAAGATTCGCCG
*
6450055 TATTCGATCTGCTCCACTACTGCTTAGGGAGATAGGA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGA
6450092 TCTACCATCT
Statistics
Matches: 241, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
218 241 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (218 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTG
CTTAGGAAAATGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACC
ATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACT
GCTTAGAAAGATAAGATTCGCCG
Found at i:6449945 original size:131 final size:131
Alignment explanation
Indices: 6449847--6450509 Score: 1110
Period size: 131 Copynumber: 5.1 Consensus size: 131
6449837 TCTTCGATCA
*
6449847 GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGGTTCACTACTGCTTAGGAAGA
1 GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
*
6449912 TGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
66 TAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
6449977 T
131 T
* *
6449978 GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATTTGCTTCACTACTGCTTAGAAAGA
1 GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
* * *
6450043 TAAGATTTGCCGTATTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
66 TAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
6450108 T
131 T
* * * *
6450109 GCTCCATTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCAGCTTCACTACTGTTTAGGAAGA
1 GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
* *
6450174 TAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACCTACCATCTTTGACC
66 TAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
6450239 T
131 T
* *
6450240 GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCATTACTGCTTAGGAATA
1 GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
* *
6450305 TGAGATTCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAGGATCTACCATCTTTGACC
66 TAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
6450370 T
131 T
* * *
6450371 GCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACCACTGCTTAGGAAAA
1 GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
* * *
6450436 TAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACC
66 TAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
6450501 T
131 T
*
6450502 GTTCCACT
1 GCTCCACT
6450510 GTAACCTCAG
Statistics
Matches: 496, Mismatches: 36, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 496 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (131 bp):
GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGA
TAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
T
Found at i:6449982 original size:262 final size:261
Alignment explanation
Indices: 6449668--6450509 Score: 1075
Period size: 262 Copynumber: 3.2 Consensus size: 261
6449658 GGTGGCTTAA
* * * * *
6449668 ATCTGCTTCACTACTGCTTAGGAAAAT-GAGAT-TCGCCATCTTCGATCTGCTCCACTACTGCTT
1 ATCTGCTCCACTACTGCTTAGGGAGATAG-GATCT-ACCATCTTCGACCTGCTCCACTACTGCTT
***** ** * * * ** *
6449731 AGGGAGATAGGATCTACCATCTTTGACCTGC-TCTACTACTGTTTAGGGAGATAGGACTGGTGGC
64 AGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTC-ACTACTGCTTAGGGAGATAGGATTGCCGTC
** * * * * * * * * * *
6449795 TTAAATCTACTTCATTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGATCAGCTCCACTACTG
127 TTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTTGACCTGCTCCACTACTG
* *
6449859 CTTAGGGAGATAGGACTGGTGGCTTAAATCTGGTTCACTACTGCTTAGGAAGATGAGATTCGCCA
191 CTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCA
6449924 TCTTCG
256 TCTTCG
*
6449930 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* ** * *
6449995 GGAGATAGGACTGGTGGCTTAAATTTGCTTCACTACTGCTTAGAAAGATAAGATTTGCCGTATTC
66 GGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGGAGATAGGA-TTGCCGTCTTC
*
6450060 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCATTACTGCTTA
130 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
* * * *
6450125 GGGAGATAGGACTGGTGGTTTAAATCAGCTTCACTACTGTTTAGGAAGATAAGATTCGCCGTCTT
195 GGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCATCTT
6450190 CG
260 CG
* *
6450192 ATCTGCTCCACTACTGCTTAGGGAGATAGGACCTACCATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* *
6450257 GGAGATAGGACTGGTGGCTTAAATCTGCTTCATTACTGCTTA-GGA-ATATGAGATTCGCCATCT
66 GGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGGAGATA-G-GATT-GCCGTCT
*
6450320 TCGATCTGCTCCACTACTACTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCT
128 TCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCT
* * * *
6450385 TAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACCACTGCTTAGGAAAATAAGATTCGCCATT
193 TAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCATC
6450450 TTCG
258 TTCG
* *
6450454 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGTTCCACT
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACT
6450510 GTAACCTCAG
Statistics
Matches: 507, Mismatches: 65, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
260 3 0.01
261 30 0.06
262 471 0.93
263 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (261 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
GGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGGAGATAGGATTGCCGTCTTCG
ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
GGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCATCTTC
G
Found at i:6450162 original size:218 final size:218
Alignment explanation
Indices: 6449629--6450223 Score: 701
Period size: 218 Copynumber: 2.7 Consensus size: 218
6449619 TCTTCGACCT
* **** * * *
6449629 GCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAAA
1 GCTCCACTACTGCTTAGGGAGATAGGACTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGA
* ** *
6449694 TGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
66 TGAGACTCGCCATCTTAAATCAGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
* * * *
6449759 TGCTCTACTACTGTTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCATTACTGCTTAGGAAG
131 TGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGAAAG
*
6449824 ATAAGATTCGCCGTCTTCGATCA
196 ATAAGATTCGCCGTATTCGATCA
**** * * *
6449847 GCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGGTTCACTACTGCTTAGGAAGA
1 GCTCCACTACTGCTTAGGGAGATAGGACTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGA
* ** *
6449912 TGAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
66 TGAGACTCGCCATCTTAAATCAGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
* *
6449977 TGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATTTGCTTCACTACTGCTTAGAAAG
131 TGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGAAAG
* *
6450042 ATAAGATTTGCCGTATTCGATCT
196 ATAAGATTCGCCGTATTCGATCA
* ** * *
6450065 GCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCATTACTGCTTAGGGAG
1 GCTCCACTACTGCTTAGGGAGATAGGA-CTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAG
* *** * * * * * * *
6450130 AT-AGGACTGGTGGT-TTAAATCAGCTTCACTACTGTTTAGGAAGATAAGAT-TCGCCGTCTTCG
65 ATGA-GACTCGCCATCTTAAATCAGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTTG
*
6450192 ATCTGCTCCACTACTGCTTAGGGAGATAGGAC
128 ACCTGCTCCACTACTGCTTAGGGAGATAGGAC
6450224 CTACCATCTT
Statistics
Matches: 334, Mismatches: 40, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
217 1 0.00
218 301 0.90
219 32 0.10
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (218 bp):
GCTCCACTACTGCTTAGGGAGATAGGACTACCAGCTTAAACCTGCTCCACTACTGCTTAGGAAGA
TGAGACTCGCCATCTTAAATCAGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTGACC
TGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTACTTCACTACTGCTTAGAAAG
ATAAGATTCGCCGTATTCGATCA
Found at i:6450558 original size:46 final size:46
Alignment explanation
Indices: 6450473--6450884 Score: 257
Period size: 44 Copynumber: 9.3 Consensus size: 46
6450463 ACTACTGCTT
* * **
6450473 AGGGAGATAAGATCT-ACCA-TCTTCGACCTGTTCCACTGTAACCTC
1 AGGGAGATAAGATCTGA-AATTCTTCGATCTACTCCACTGTAACCTC
* *
6450518 AGGGAGATAAGATCTGAAATTCTTCGGTTTACTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * ** *
6450564 AGGGAGATAAGACCTG--A---TGCAATCTACTTTACTGTAACTTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * *** * ** *
6450605 AGAGAGATGAGATCTTTTATT-TT-AATCCGCTCCACTGTAACTTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * * * *
6450649 AAGGAGATAGGAT-T--ACTAGC-TCTAATCTGCTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAAT-TCTTC-GATCTACTCCACTGTAACCTC
* *
6450693 AGGGAGATAAGATCTGAAATTTTTCGGTCTACTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * * * * * *
6450739 AGGGAGATAAGA-CTTACA-TATTCAACCTGCCCCACTGTAACTTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * * * *
6450783 AGGGAGATAAGGTTTG---TGGCTTCGATCTGCTCCTCTGTAATCTC
1 AGGGAGATAAGATCTGAAAT-TCTTCGATCTACTCCACTGTAACCTC
* *
6450827 AGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
6450873 AGGGAGATAAGA
1 AGGGAGATAAGA
6450885 CTTGCATATT
Statistics
Matches: 279, Mismatches: 68, Indels: 39
0.72 0.18 0.10
Matches are distributed among these distances:
41 30 0.11
42 1 0.00
43 2 0.01
44 119 0.43
45 23 0.08
46 99 0.35
47 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (46 bp):
AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
Found at i:6450789 original size:44 final size:44
Alignment explanation
Indices: 6450473--6451223 Score: 224
Period size: 44 Copynumber: 17.1 Consensus size: 44
6450463 ACTACTGCTT
* * * * *
6450473 AGGGAGATAAGA-TCTACCATCTTCGACCTGTTCCACTGTAACCTC
1 AGGGAGATAAGACT-TA-CATATTCAATCTGCTCCACTGTAACTTC
* * * ** * * *
6450518 AGGGAGATAAGATCTGAAATTCTTCGGTTTACTCCACTGTAACCTC
1 AGGGAGATAAGA-CTTACA-TATTCAATCTGCTCCACTGTAACTTC
* * **
6450564 AGGGAGATAAGAC---C-TGATGCAATCTACTTTACTGTAACTTC
1 AGGGAGATAAGACTTACAT-ATTCAATCTGCTCCACTGTAACTTC
* * ** * *
6450605 AGAGAGATGAGATCTTTTAT-TTTAATCCGCTCCACTGTAACTTC
1 AGGGAGATAAGA-CTTACATATTCAATCTGCTCCACTGTAACTTC
* * * *
6450649 AAGGAGATAGGA-TTAC-TAGCTCTAATCTGCTCCACTGTAACCTC
1 AGGGAGATAAGACTTACATA-TTC-AATCTGCTCCACTGTAACTTC
* * * ** * *
6450693 AGGGAGATAAGATCTGAAATTTTTCGGTCTACTCCACTGTAACCTC
1 AGGGAGATAAGA-CTTACA-TATTCAATCTGCTCCACTGTAACTTC
* *
6450739 AGGGAGATAAGACTTACATATTCAACCTGCCCCACTGTAACTTC
1 AGGGAGATAAGACTTACATATTCAATCTGCTCCACTGTAACTTC
** ***** * *
6450783 AGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA-TCTC
1 AGGGAGATAAGACTTACATATTCAATCTGCTCCACTGTAACT-TC
* * * ** ** *
6450827 AGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAACCTC
1 AGGGAGATAAGA-CTTACA-TATTCAATCTGCTCCACTGTAACTTC
* * * *
6450873 AGGGAGATAAGACTTGCATATTC-AGCTTGCCCCACTGTAACTTT
1 AGGGAGATAAGACTTACATATTCAATC-TGCTCCACTGTAACTTC
* * * * **
6450917 AGGGAGATAAGGCTT---TATGCGACCTGCTCTGCTGTAACTTC
1 AGGGAGATAAGACTTACATATTCAATCTGCTCCACTGTAACTTC
* * * * * *
6450958 AGAGAGATAGGATCCTT-TAT-TTTAATCCGCTCCACTATAACTTC
1 AGGGAGATAAGA--CTTACATATTCAATCTGCTCCACTGTAACTTC
* * ** * **
6451002 TGGGAGATAGGA--TAGTGTATTCGATCTGCTCTGCTGTAA-TCTC
1 AGGGAGATAAGACTTA-CATATTCAATCTGCTCCACTGTAACT-TC
* *
6451045 AGGGAGATAAGA-TCT-C-TGGCTTCAATCTGCTCCACTGTAACCTC
1 AGGGAGATAAGACT-TACAT--ATTCAATCTGCTCCACTGTAACTTC
* * * * ** *
6451089 AGGGAGATAATATCTAAACTTCTTCGGTCTACTCCACTGTAA-TCTC
1 AGGGAGATAAGA-CT-TACATATTCAATCTGCTCCACTGTAACT-TC
* * * *
6451135 AGGGAGATAAGAC---C-TGATGCGATCTACTCTACTGTAACTTC
1 AGGGAGATAAGACTTACAT-ATTCAATCTGCTCCACTGTAACTTC
* ** * * *
6451176 AGAGAGATAAGATCTTTTAT-TTTAATCCGCTCCACTATAACTTC
1 AGGGAGATAAGA-CTTACATATTCAATCTGCTCCACTGTAACTTC
6451220 AGGG
1 AGGG
6451224 GTGTGGGTAA
Statistics
Matches: 515, Mismatches: 144, Indels: 95
0.68 0.19 0.13
Matches are distributed among these distances:
40 3 0.01
41 85 0.17
42 11 0.02
43 32 0.06
44 222 0.43
45 25 0.05
46 131 0.25
47 4 0.01
48 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAGACTTACATATTCAATCTGCTCCACTGTAACTTC
Found at i:6450789 original size:134 final size:133
Alignment explanation
Indices: 6450636--6451147 Score: 488
Period size: 134 Copynumber: 3.9 Consensus size: 133
6450626 TTAATCCGCT
*
6450636 CCACTGTAACTTCAAGGAGAT-AGGATTACTAGC-TCTAATCTGCTCCACTGTAACCTCAGGGAG
1 CCACTGTAACTTCAGGGAGATAAGGATT-CTAGCTTC-AATCTGCTCCACTGTAACCTCAGGGAG
*
6450699 ATAAGATCTGAAATTTTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTACATATTCAA
64 ATAAGATCT-AAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTACATATTCAA
6450764 CCTGCC
128 CCTGCC
* * * * * *
6450770 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGATTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGAT
* * * *
6450835 AAGATCTGAAATTCTTCGGTCTATTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAGCT
66 AAGATCT-AAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTACATATTCAACC
6450900 TGCC
130 TGCC
* * * * * ** * *
6450904 CCACTGTAACTTTAGGGAGATAAGGCTT-TA--TGCGACCTGCTCTGCTGTAACTTCAGAGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGATTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGAT
* ** ** ** * * * * ** * *
6450966 AGGATCCTTTATT-TT-AATCCGCTCCACTATAACTTCTGGGAGATAGGA--TAGTGTATTCGAT
66 AAGAT-CTAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTA-CATATTCAAC
*
6451027 CTGCT
129 CTGCC
** *
6451032 CTGCTGTAA-TCTCAGGGAGATAA-GATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
1 CCACTGTAACT-TCAGGGAGATAAGGAT-TCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
* *
6451095 ATAATATCTAAACTTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGAC
64 ATAAGATCTAAA-TTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
6451148 CTGATGCGAT
Statistics
Matches: 298, Mismatches: 67, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
127 4 0.01
128 27 0.09
129 25 0.08
130 5 0.02
131 62 0.21
132 4 0.01
133 25 0.08
134 139 0.47
135 7 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (133 bp):
CCACTGTAACTTCAGGGAGATAAGGATTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGAT
AAGATCTAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTACATATTCAACCT
GCC
Found at i:6451136 original size:46 final size:44
Alignment explanation
Indices: 6451035--6451190 Score: 142
Period size: 41 Copynumber: 3.6 Consensus size: 44
6451025 ATCTGCTCTG
*
6451035 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCA
* * * **
6451079 CTGTAACCTCAGGGAGATAATATCTAAACT-TCTTCGGTCTACTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTACTCCA
* * * *
6451125 CTGTAATCTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCTA
1 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCA
*
6451166 CTGTAA-CTTCAGAGAGATAAGATCT
1 CTGTAATC-TCAGGGAGATAAGATCT
6451191 TTTATTTTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 32 0.35
42 1 0.01
44 23 0.25
45 1 0.01
46 32 0.35
47 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCA
Found at i:6451583 original size:69 final size:67
Alignment explanation
Indices: 6451472--6451599 Score: 229
Period size: 69 Copynumber: 1.9 Consensus size: 67
6451462 GACCGACTTC
6451472 TTCAAAGCATCACTTTAATCAGATTGCCCCCACTGTGAAATCCACTAGGACACAAAATTTGTACC
1 TTCAAAGCATCACTTTAATCAGATTGCCCCCACTGTGAAATCCACTAGG--ACAAAATTTGTACC
6451537 ATCA
64 ATCA
*
6451541 TTCAAAGCATCACTTTAGTCAGATTGCCCCCACTGTGAAATCCACTAGGACAAAATTTG
1 TTCAAAGCATCACTTTAATCAGATTGCCCCCACTGTGAAATCCACTAGGACAAAATTTG
6451600 ATGTCTTAGT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
67 10 0.17
69 48 0.83
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.27
Consensus pattern (67 bp):
TTCAAAGCATCACTTTAATCAGATTGCCCCCACTGTGAAATCCACTAGGACAAAATTTGTACCAT
CA
Found at i:6458488 original size:11 final size:10
Alignment explanation
Indices: 6458432--6458526 Score: 61
Period size: 10 Copynumber: 9.1 Consensus size: 10
6458422 ATGTGTATAT
6458432 ATAAGTTTTTA
1 ATAA-TTTTTA
*
6458443 ATTATTATTT-
1 ATAATT-TTTA
6458453 ATAATTTATT-
1 ATAATTT-TTA
*
6458463 ATAATTCTTA
1 ATAATTTTTA
6458473 ATAATTTTTAA
1 ATAATTTTT-A
*
6458484 ATAATTTTTTT
1 ATAA-TTTTTA
*
6458495 CTAATTTTT-
1 ATAATTTTTA
*
6458504 CTAATTATTTA
1 ATAATT-TTTA
6458515 ATAATTATTTA
1 ATAATT-TTTA
6458526 A
1 A
6458527 GAAACTATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
9 9 0.13
10 31 0.44
11 25 0.36
12 5 0.07
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:6459857 original size:26 final size:26
Alignment explanation
Indices: 6459828--6459884 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
6459818 AATAAGAAAG
* * *
6459828 AAAACAACAAAA-ATAAAATCTACTCT
1 AAAA-AACAAAAGAGAAAACCTAATCT
*
6459854 AAAAAAGAAAAGAGAAAACCTAATCT
1 AAAAAACAAAAGAGAAAACCTAATCT
6459880 AAAAA
1 AAAAA
6459885 TGAAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.67, C:0.14, G:0.05, T:0.14
Consensus pattern (26 bp):
AAAAAACAAAAGAGAAAACCTAATCT
Found at i:6459889 original size:26 final size:26
Alignment explanation
Indices: 6459842--6459897 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
6459832 CAACAAAAAT
* * *
6459842 AAAATCTACTCTAAAAAAGAAAAGAG
1 AAAACCTAATCTAAAAAAGAAAAGAA
*
6459868 AAAACCTAATCTAAAAATGAAAAGAA
1 AAAACCTAATCTAAAAAAGAAAAGAA
6459894 AAAA
1 AAAA
6459898 AAAGGAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.66, C:0.11, G:0.09, T:0.14
Consensus pattern (26 bp):
AAAACCTAATCTAAAAAAGAAAAGAA
Found at i:6459905 original size:16 final size:16
Alignment explanation
Indices: 6459880--6459911 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6459870 AACCTAATCT
*
6459880 AAAAATGAAAAGAAAA
1 AAAAAGGAAAAGAAAA
6459896 AAAAAGGAAAAGAAAA
1 AAAAAGGAAAAGAAAA
6459912 CGTAACTTAA
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:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAAGGAAAAGAAAA
Found at i:6462182 original size:43 final size:43
Alignment explanation
Indices: 6462055--6462182 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 43
6462045 AGCTCGTACA
* * *
6462055 ATGCCA-TCGTCCTAGACGTGGTCTTATATGTAATCATATATCG
1 ATGCCACT-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
6462098 ATGCCACTGTCCCAGACAG-GGTCTTACACGTAATCAGATATCG
1 ATGCCACTGTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
* * *
6462141 ATGTCGA-TGTCCCAGACGTGGTCTTACATGAAAACACATATC
1 ATG-CCACTGTCCCAGACGTGGTCTTACATGTAATCACATATC
6462183 AGAGTCCTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 1 0.01
43 67 0.93
44 4 0.06
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:6463109 original size:28 final size:28
Alignment explanation
Indices: 6463069--6463125 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
6463059 TATGTTTGTT
6463069 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
6463097 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
6463125 T
1 T
6463126 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:6466005 original size:17 final size:18
Alignment explanation
Indices: 6465983--6466018 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6465973 GAAAATTATT
*
6465983 AAAATATAT-AATTTTAA
1 AAAATAAATAAATTTTAA
6466000 AAAATAAATAAATTTTAA
1 AAAATAAATAAATTTTAA
6466018 A
1 A
6466019 TTATACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATAAATAAATTTTAA
Found at i:6474089 original size:22 final size:22
Alignment explanation
Indices: 6474047--6474089 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6474037 AAAACTTTAG
* *
6474047 ATCATTATTATTATTACTATTA
1 ATCATCATTATTATTAATATTA
6474069 ATCATCATTAATT-TTAATATT
1 ATCATCATT-ATTATTAATATT
6474090 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
ATCATCATTATTATTAATATTA
Found at i:6474206 original size:33 final size:33
Alignment explanation
Indices: 6474141--6474206 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
6474131 TAACTTCAAA
*
6474141 TTTAGTTTATTATTTCATCATTTGTCTTTTTATT
1 TTTAGTTTATTATTTCAT-ATTTGGCTTTTTATT
6474175 TTTA-TTTATTATTATCAT-TTTGGCTTGTTTAT
1 TTTAGTTTATTATT-TCATATTTGGCTT-TTTAT
6474207 CGTATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 7 0.24
33 14 0.48
34 8 0.28
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (33 bp):
TTTAGTTTATTATTTCATATTTGGCTTTTTATT
Found at i:6476263 original size:15 final size:14
Alignment explanation
Indices: 6476224--6476265 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
6476214 TTTAACAATT
*
6476224 TTCATTTTTATATA
1 TTCATTTTTATTTA
6476238 -TC-TTTTTATTTA
1 TTCATTTTTATTTA
6476250 TTCATTTTTAATTTA
1 TTCATTTTT-ATTTA
6476265 T
1 T
6476266 AAACTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 9 0.38
13 4 0.17
14 5 0.21
15 6 0.25
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCATTTTTATTTA
Found at i:6487063 original size:22 final size:22
Alignment explanation
Indices: 6487021--6487063 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6487011 AAAACTTTAG
* *
6487021 ATCATTATTATTATTACTATTA
1 ATCATCATTATTATTAATATTA
6487043 ATCATCATTAATT-TTAATATT
1 ATCATCATT-ATTATTAATATT
6487064 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
ATCATCATTATTATTAATATTA
Found at i:6487180 original size:33 final size:33
Alignment explanation
Indices: 6487115--6487180 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
6487105 TAACTTCAAA
*
6487115 TTTAGTTTATTATTTCATCATTTGTCTTTTTATT
1 TTTAGTTTATTATTTCAT-ATTTGGCTTTTTATT
6487149 TTTA-TTTATTATTATCAT-TTTGGCTTGTTTAT
1 TTTAGTTTATTATT-TCATATTTGGCTT-TTTAT
6487181 CGTATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 7 0.24
33 14 0.48
34 8 0.28
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (33 bp):
TTTAGTTTATTATTTCATATTTGGCTTTTTATT
Found at i:6489235 original size:15 final size:15
Alignment explanation
Indices: 6489200--6489238 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
6489190 TTTAACAATT
6489200 TTCATTTTTTATATA
1 TTCATTTTTTATATA
*
6489215 -TC-TTTTTTATTTA
1 TTCATTTTTTATATA
6489228 TTCATTTTTTA
1 TTCATTTTTTA
6489239 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 10 0.48
14 4 0.19
15 7 0.33
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCATTTTTTATATA
Found at i:6493241 original size:13 final size:13
Alignment explanation
Indices: 6493223--6493253 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6493213 ACTTCACTTG
*
6493223 AAAAAGAAACGAA
1 AAAAAGAAAAGAA
6493236 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
6493249 AAAAA
1 AAAAA
6493254 AAATAGAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:6498570 original size:12 final size:12
Alignment explanation
Indices: 6498553--6498582 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
6498543 AAGAGGAAAG
6498553 CTTGATTTATGA
1 CTTGATTTATGA
6498565 CTTGATTTATGA
1 CTTGATTTATGA
6498577 CTTGAT
1 CTTGAT
6498583 GAATAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (12 bp):
CTTGATTTATGA
Found at i:6504589 original size:71 final size:71
Alignment explanation
Indices: 6504473--6504617 Score: 245
Period size: 71 Copynumber: 2.0 Consensus size: 71
6504463 ATTTGGGACG
* *
6504473 ATCCTTACCTATGGAAGCATTGCTCCGATCAGGTAATCCGACGGTGTGTAACAGAAACAGAGGTA
1 ATCCTTACCTATGAAAGCAATGCTCCGATCAGGTAATCCGACGGTGTGTAACAGAAACAGAGGTA
6504538 CAGTCT
66 CAGTCT
* * *
6504544 ATCCTTGCCTATGAAAGCAATGCTCTGATCAGGTAATCCGACGGTGTGTAGCAGAAACAGAGGTA
1 ATCCTTACCTATGAAAGCAATGCTCCGATCAGGTAATCCGACGGTGTGTAACAGAAACAGAGGTA
6504609 CAGTCT
66 CAGTCT
6504615 ATC
1 ATC
6504618 TTAACTTTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (71 bp):
ATCCTTACCTATGAAAGCAATGCTCCGATCAGGTAATCCGACGGTGTGTAACAGAAACAGAGGTA
CAGTCT
Found at i:6506080 original size:25 final size:24
Alignment explanation
Indices: 6506024--6506090 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
6506014 AAAAAAACAT
* *
6506024 TTTAATTTTCCTATTATTATTATTA
1 TTTATTTTTACTATT-TTATTATTA
6506049 TTTATTTTTACTATTTTATT-TTA
1 TTTATTTTTACTATTTTATTATTA
6506072 TTTTCATTTTTA-T-TTTTAT
1 -TTT-ATTTTTACTATTTTAT
6506091 AGGAAACATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.24
24 9 0.24
25 20 0.53
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTATTTTTACTATTTTATTATTA
Found at i:6506086 original size:6 final size:6
Alignment explanation
Indices: 6506037--6506090 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
6506027 AATTTTCCTA
* *
6506037 TTATTA TTATTAT TTATTT TTACTATT TTA-TT TTATTT TCATTT TTATTT
1 TTATTT TTATT-T TTATTT TTA-T-TT TTATTT TTATTT TTATTT TTATTT
6506087 TTAT
1 TTAT
6506091 AGGAAACATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
5 5 0.12
6 25 0.61
7 6 0.15
8 5 0.12
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:6506088 original size:18 final size:20
Alignment explanation
Indices: 6506038--6506090 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
6506028 ATTTTCCTAT
*
6506038 TATTATTATTATTTATTTTTAC
1 TATT-TTATT-TTTATTTTCAC
6506060 TATTTTA-TTTTATTTTCA-
1 TATTTTATTTTTATTTTCAC
6506078 T-TTTTATTTTTAT
1 TATTTTATTTTTAT
6506091 AGGAAACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 5 0.17
18 7 0.24
19 9 0.31
20 1 0.03
21 3 0.10
22 4 0.14
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (20 bp):
TATTTTATTTTTATTTTCAC
Found at i:6508881 original size:17 final size:16
Alignment explanation
Indices: 6508856--6508891 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6508846 AACCCTAGTT
* *
6508856 TTTCCCTTTTCTTTTC
1 TTTCCCCTTTCCTTTC
6508872 TTTCCCCTTTCCTTTC
1 TTTCCCCTTTCCTTTC
6508888 TTTC
1 TTTC
6508892 TTTTTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTCCCCTTTCCTTTC
Found at i:6509049 original size:19 final size:20
Alignment explanation
Indices: 6509006--6509042 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
6508996 ATTAATAACC
6509006 AATACATAT-TTTATTATGA
1 AATACATATGTTTATTATGA
6509025 AATACATATGTTTATTAT
1 AATACATATGTTTATTAT
6509043 TATTACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
AATACATATGTTTATTATGA
Found at i:6509142 original size:17 final size:16
Alignment explanation
Indices: 6509122--6509155 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6509112 ATTTATTCCA
6509122 TAATATAATAATATAAT
1 TAATATAA-AATATAAT
*
6509139 TAATATAAATTATAAT
1 TAATATAAAATATAAT
6509155 T
1 T
6509156 TTGTAACACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATATAAAATATAAT
Found at i:6511296 original size:21 final size:21
Alignment explanation
Indices: 6511270--6511309 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6511260 TACCCCCTAA
6511270 ATCCCTTAA-TTAACTCCCCCT
1 ATCCC-TAATTTAACTCCCCCT
*
6511291 ATCCCTAATTTCACTCCCC
1 ATCCCTAATTTAACTCCCC
6511310 AATCGTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCCCTAATTTAACTCCCCCT
Found at i:6517548 original size:15 final size:15
Alignment explanation
Indices: 6517528--6517557 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6517518 ATAATTTAAA
6517528 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
6517543 CTATCTCCTAAACCC
1 CTATCTCCTAAACCC
6517558 TACATCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (15 bp):
CTATCTCCTAAACCC
Found at i:6517652 original size:20 final size:22
Alignment explanation
Indices: 6517629--6517675 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
6517619 ACTAACTCTT
6517629 AACCTCTAACT-CTAACCCC-A
1 AACCTCTAACTACTAACCCCTA
*
6517649 AACCCCTAACTACTAACCCCTA
1 AACCTCTAACTACTAACCCCTA
6517671 AACCT
1 AACCT
6517676 TATTTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 8 0.35
22 5 0.22
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (22 bp):
AACCTCTAACTACTAACCCCTA
Found at i:6518252 original size:41 final size:40
Alignment explanation
Indices: 6518195--6518353 Score: 212
Period size: 41 Copynumber: 3.9 Consensus size: 40
6518185 CAGATAAAAT
6518195 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGTCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG-CTGA
*
6518236 GCATTAGCGGCGCTTTTT-TAAAACGCCGCTAAAAGCATGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGC-TGA
* * * *
6518276 GCATTAGCAGTGCTTTCTAAAAAACGCCGCTAAAAGCCTGA
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAG-CTGA
* * *
6518317 GCATTAGTGGCACTTCTTCAAAAACGCCGCTAAAAGC
1 GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGC
6518354 CCCGAAAGGT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 35 0.34
41 66 0.64
42 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAAGCTGA
Found at i:6521013 original size:35 final size:37
Alignment explanation
Indices: 6520932--6521013 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 37
6520922 AAAGTGATAG
6520932 GTGATAAGTGGCTACACTTATCTGATCAAGAAACAAA
1 GTGATAAGTGGCTACACTTATCTGATCAAGAAACAAA
**
6520969 GTGATAAGTGGCTACACTTATCTGATC-AGGGAC-AA
1 GTGATAAGTGGCTACACTTATCTGATCAAGAAACAAA
6521004 GTGATAAGTG
1 GTGATAAGTG
6521014 ATCATACGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 12 0.28
36 4 0.09
37 27 0.63
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (37 bp):
GTGATAAGTGGCTACACTTATCTGATCAAGAAACAAA
Found at i:6529230 original size:3 final size:3
Alignment explanation
Indices: 6529222--6529246 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6529212 GATAAATGAG
6529222 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
6529247 GAAGTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6529258 original size:21 final size:21
Alignment explanation
Indices: 6529234--6529274 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6529224 TAATAATAAT
*
6529234 AATA-ATAATAATAGAAGTAAA
1 AATATATAA-AATAAAAGTAAA
6529255 AATATATAAAATAAAAGTAA
1 AATATATAAAATAAAAGTAA
6529275 GTAATAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (21 bp):
AATATATAAAATAAAAGTAAA
Found at i:6538202 original size:11 final size:11
Alignment explanation
Indices: 6538179--6538214 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
6538169 AACTAATCCT
6538179 CTCTCATATTTC
1 CTCTCA-ATTTC
6538191 CTCTCAATTTC
1 CTCTCAATTTC
*
6538202 CTCTAAATTTC
1 CTCTCAATTTC
6538213 CT
1 CT
6538215 TCTAAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:6538220 original size:12 final size:11
Alignment explanation
Indices: 6538186--6538220 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6538176 CCTCTCTCAT
*
6538186 ATTTCCTCTCA
1 ATTTCCTCTAA
6538197 ATTTCCTCTAA
1 ATTTCCTCTAA
6538208 ATTTCCTTCTAA
1 ATTTCC-TCTAA
6538220 A
1 A
6538221 ATTCTCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTCCTCTAA
Found at i:6538249 original size:51 final size:51
Alignment explanation
Indices: 6538194--6538317 Score: 203
Period size: 51 Copynumber: 2.4 Consensus size: 51
6538184 ATATTTCCTC
* *
6538194 TCAATTTCCTCTAAATTTCCTTCTAAAATTCTCTCAAAACCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAAACCATATTTAATT
*
6538245 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAAACCATATTTAATT
* *
6538296 TCAATTTGCTTTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
6538318 TTTTAAAATA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.29, C:0.25, G:0.01, T:0.45
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAAACCATATTTAATT
Found at i:6540153 original size:18 final size:18
Alignment explanation
Indices: 6540126--6540165 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
6540116 CAGATGCGTT
*
6540126 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
6540144 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
6540162 TCCT
1 TCCT
6540166 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:6540458 original size:21 final size:21
Alignment explanation
Indices: 6540434--6540490 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
6540424 GAACAACCAG
*
6540434 AATCCCCGTCGGAAGAACAAC
1 AATCCCCGCCGGAAGAACAAC
*
6540455 AATCGCCGCCGGAAGAACAAC
1 AATCCCCGCCGGAAGAACAAC
6540476 AA-CCGCCGCCGGAAG
1 AATCC-CCGCCGGAAG
6540491 CTAGAGAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.35, C:0.35, G:0.25, T:0.05
Consensus pattern (21 bp):
AATCCCCGCCGGAAGAACAAC
Found at i:6540646 original size:25 final size:24
Alignment explanation
Indices: 6540616--6540741 Score: 104
Period size: 25 Copynumber: 5.3 Consensus size: 24
6540606 TATTTTGATA
6540616 TTATTTGATGTAATAAAATAGAAG
1 TTATTTGATGTAATAAAATAGAAG
* *
6540640 TTCATTTGATGTAATAAAATAAAAAAA
1 TT-ATTTGATGTAATAAAAT--AGAAG
** *
6540667 TT-TTTGA-GT--T-ATTTTGATA-
1 TTATTTGATGTAATAAAATAGA-AG
6540686 TTATTTGATGTAATAAAATAGAAG
1 TTATTTGATGTAATAAAATAGAAG
*
6540710 TTTATTTGATGTAATAAAATAGAAA
1 -TTATTTGATGTAATAAAATAGAAG
6540735 TT-TTTGA
1 TTATTTGA
6540742 ATATTTTGAA
Statistics
Matches: 81, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
19 3 0.04
20 6 0.07
21 4 0.05
22 1 0.01
23 7 0.09
24 10 0.12
25 45 0.56
27 5 0.06
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.43
Consensus pattern (24 bp):
TTATTTGATGTAATAAAATAGAAG
Found at i:6540685 original size:70 final size:67
Alignment explanation
Indices: 6540594--6540750 Score: 251
Period size: 70 Copynumber: 2.3 Consensus size: 67
6540584 TTATTTGTAT
6540594 AAATATTTTGAATATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAA
1 AAAT-TTTTGAATATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAA
6540659 TAAAA
65 T--AA
* *
6540664 AAATTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAA
1 AAATTTTTGA-ATATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAA
*
6540729 TAG
65 TAA
6540732 AAATTTTTGAATATTTTGA
1 AAATTTTTGAATATTTTGA
6540751 AAATTTTAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
67 8 0.10
68 11 0.13
69 6 0.07
70 57 0.70
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.45
Consensus pattern (67 bp):
AAATTTTTGAATATTTTGATATTATTTGATGTAATAAAATAGAAGTTCATTTGATGTAATAAAAT
AA
Found at i:6540718 original size:35 final size:35
Alignment explanation
Indices: 6540609--6540719 Score: 86
Period size: 35 Copynumber: 3.2 Consensus size: 35
6540599 TTTTGAATAT
*
6540609 TTTGATATTATTTGATGTAATAAAATAGAAGTTCA
1 TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
* * * ** * *
6540644 TTTGAT-GTA-ATAAAATAAAAAAATTTTTG-AG-TTA
1 TTTGATATTATTTGATGTAATAAAA---TAGAAGTTTA
6540678 TTTTGATATTATTTGATGTAATAAAATAGAAGTTTA
1 -TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
6540714 TTTGAT
1 TTTGAT
6540720 GTAATAAAAT
Statistics
Matches: 53, Mismatches: 15, Indels: 16
0.63 0.18 0.19
Matches are distributed among these distances:
33 9 0.17
34 6 0.11
35 22 0.42
36 7 0.13
37 9 0.17
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.45
Consensus pattern (35 bp):
TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
Found at i:6540849 original size:47 final size:47
Alignment explanation
Indices: 6540795--6541113 Score: 568
Period size: 47 Copynumber: 6.8 Consensus size: 47
6540785 CCATTAATAA
6540795 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
*
6540842 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACTCT-AC
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
*
6540888 CTTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCT-AACCTAATTAAATTGAAAACCCTAAC
* *
6540936 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAGCCCTAAA
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
6540983 CCTAATTAAATTGAAAACCCTAACTCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAAC-CTAATTAAATTGAAAACCCTAAC
*
6541031 CCTAATTAAATTGAAAACCCTAATCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
6541078 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTG
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTG
6541114 CCCTAACCCT
Statistics
Matches: 259, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 22 0.08
47 171 0.66
48 66 0.25
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (47 bp):
CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAC
Found at i:6540850 original size:24 final size:24
Alignment explanation
Indices: 6540795--6541113 Score: 533
Period size: 24 Copynumber: 13.5 Consensus size: 24
6540785 CCATTAATAA
6540795 CCTAATTAAATTGAAAACCCTAA-
1 CCTAATTAAATTGAAAACCCTAAC
6540818 CCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAAC
6540842 CCTAATTAAATTGAAAACCCTAA-
1 CCTAATTAAATTGAAAACCCTAAC
*
6540865 CCTAATTAAATTGAAAACTCT-AC
1 CCTAATTAAATTGAAAACCCTAAC
* *
6540888 CTTAATTAAATTGAAAACCCTAAA
1 CCTAATTAAATTGAAAACCCTAAC
6540912 CCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAAC
6540936 CCTAATTAAATTGAAAACCCTAA-
1 CCTAATTAAATTGAAAACCCTAAC
* *
6540959 CCTAATTAAATTGAAAGCCCTAAA
1 CCTAATTAAATTGAAAACCCTAAC
6540983 CCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAAC
*
6541007 TCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAAC
6541031 CCTAATTAAATTGAAAACCCTAA-
1 CCTAATTAAATTGAAAACCCTAAC
*
6541054 TCTAATTAAATTGAAAACCCTAAC
1 CCTAATTAAATTGAAAACCCTAAC
6541078 CCTAATTAAATTGAAAACCCTAA-
1 CCTAATTAAATTGAAAACCCTAAC
6541101 CCTAATTAAATTG
1 CCTAATTAAATTG
6541114 CCCTAACCCT
Statistics
Matches: 278, Mismatches: 13, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
22 1 0.00
23 119 0.43
24 158 0.57
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (24 bp):
CCTAATTAAATTGAAAACCCTAAC
Found at i:6540980 original size:71 final size:71
Alignment explanation
Indices: 6540795--6541113 Score: 554
Period size: 71 Copynumber: 4.5 Consensus size: 71
6540785 CCATTAATAA
*
6540795 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGAAAAC
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAAC
6540860 CCTAA-
66 CCTAAC
*
6540865 CCTAATTAAATTGAAAACTCT-ACCTTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAA
1 CCTAATTAAATTGAAAACCCTAACC-TAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAA
6540929 CCCTAAC
65 CCCTAAC
*
6540936 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAGCCCTAAACCTAATTAAATTGAAAAC
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAAC
6541001 CCTAAC
66 CCTAAC
* *
6541007 TCTAATTAAATTGAAAACCCTAACCCTAATTAAATTGAAAACCCT-AATCTAATTAAATTGAAAA
1 CCTAATTAAATTGAAAACCCTAA-CCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAA
6541071 CCCTAAC
65 CCCTAAC
6541078 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTG
1 CCTAATTAAATTGAAAACCCTAACCTAATTAAATTG
6541114 CCCTAACCCT
Statistics
Matches: 237, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
69 3 0.01
70 77 0.32
71 134 0.57
72 23 0.10
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (71 bp):
CCTAATTAAATTGAAAACCCTAACCTAATTAAATTGAAAACCCTAAACCTAATTAAATTGAAAAC
CCTAAC
Found at i:6541331 original size:116 final size:117
Alignment explanation
Indices: 6541126--6541341 Score: 380
Period size: 116 Copynumber: 1.9 Consensus size: 117
6541116 CTAACCCTTA
**
6541126 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAATTAATAATTTCATA
1 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAATTAATAATTTCATA
*
6541191 TAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAGTTATTAATTTT
66 TAATTTAATAATTTTACTAACCATTAATACAATTTTTTGAGTTATTAATTTT
* *
6541243 ACATTCACATAATGTTATATTTGGAAAAATG-TTTTGACTGGTACTAACAATTAATAATTTTATA
1 ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAATTAATAATTTCATA
6541307 TAATTTAATAATTTTACTAACCATTAATACAATTT
66 TAATTTAATAATTTTACTAACCATTAATACAATTT
6541342 ATCAATTACT
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
116 64 0.68
117 30 0.32
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (117 bp):
ACATTCACATAATGTTAGATTTGGAAAAATGTTTTTGACTGGTACTAACAATTAATAATTTCATA
TAATTTAATAATTTTACTAACCATTAATACAATTTTTTGAGTTATTAATTTT
Found at i:6544377 original size:12 final size:11
Alignment explanation
Indices: 6544342--6544377 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
6544332 GAATTTTGGA
*
6544342 AGGAAATTTAG
1 AGGAAATTGAG
6544353 AGGAAATTGAG
1 AGGAAATTGAG
6544364 AGGAAATATGAG
1 AGGAAAT-TGAG
6544376 AG
1 AG
6544378 AGGATTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:6547242 original size:24 final size:23
Alignment explanation
Indices: 6547184--6547243 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
6547174 GTAAGAAAAT
*
6547184 ATTATTATAATTTTTATTTTAATG
1 ATTATTAT-ATTTTAATTTTAATG
*
6547208 AATATTA-ATTTTAAGTTGTTAATG
1 ATTATTATATTTTAA-TT-TTAATG
6547232 -TTATTATATTTT
1 ATTATTATATTTT
6547244 TTTTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 6 0.20
23 7 0.23
24 17 0.57
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (23 bp):
ATTATTATATTTTAATTTTAATG
Found at i:6548871 original size:13 final size:14
Alignment explanation
Indices: 6548847--6548876 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6548837 TACAAAATAT
6548847 GTACATATATATAA
1 GTACATATATATAA
6548861 GTACA-ATATATAA
1 GTACATATATATAA
6548874 GTA
1 GTA
6548877 AATTTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (14 bp):
GTACATATATATAA
Found at i:6549023 original size:24 final size:24
Alignment explanation
Indices: 6548988--6549090 Score: 75
Period size: 24 Copynumber: 4.0 Consensus size: 24
6548978 TAATAATTTC
6548988 TAAAAAAT--ATGTATATATATTA
1 TAAAAAATAAATGTATATATATTA
*
6549010 TAAAAAATACATGTATATGTGCATGGATTA
1 TAAAAAATAAATGTATA--T--AT--ATTA
* *
6549040 TAAAATAAGGAAAATGTATATGTATTA
1 TAAAA-AA--TAAATGTATATATATTA
*
6549067 TAAAATATAAATGTATATATATTA
1 TAAAAAATAAATGTATATATATTA
6549091 CATATAACGT
Statistics
Matches: 64, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
22 8 0.12
24 22 0.34
26 2 0.03
27 9 0.14
28 2 0.03
29 1 0.02
30 9 0.14
31 3 0.05
33 8 0.12
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (24 bp):
TAAAAAATAAATGTATATATATTA
Found at i:6553488 original size:27 final size:27
Alignment explanation
Indices: 6553390--6553474 Score: 161
Period size: 27 Copynumber: 3.1 Consensus size: 27
6553380 CTAACTGATT
6553390 GGCGACACCGATGGTGCCATTCCCATG
1 GGCGACACCGATGGTGCCATTCCCATG
6553417 GGCGACACCGATGGTGCCATTCCCATG
1 GGCGACACCGATGGTGCCATTCCCATG
*
6553444 GGCGACACCGATGGTGCCATTCCAATG
1 GGCGACACCGATGGTGCCATTCCCATG
6553471 GGCG
1 GGCG
6553475 GCACTAGTGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.18
Consensus pattern (27 bp):
GGCGACACCGATGGTGCCATTCCCATG
Found at i:6567593 original size:46 final size:46
Alignment explanation
Indices: 6567535--6567627 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
6567525 TTTCGCAAGC
6567535 ATGTTGCATTAGAATGACGATTAATGGACTAATAAAACTTTTACAA
1 ATGTTGCATTAGAATGACGATTAATGGACTAATAAAACTTTTACAA
6567581 ATGTTGCATTAGAATGACGATTAATGGACTAATAAAACTTTTACAA
1 ATGTTGCATTAGAATGACGATTAATGGACTAATAAAACTTTTACAA
6567627 A
1 A
6567628 GGAAGTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (46 bp):
ATGTTGCATTAGAATGACGATTAATGGACTAATAAAACTTTTACAA
Found at i:6568327 original size:50 final size:49
Alignment explanation
Indices: 6568086--6568342 Score: 176
Period size: 50 Copynumber: 5.1 Consensus size: 49
6568076 AGCAGAATAG
** * * * *
6568086 ATTGAAGCTACGACAACGGATCTGGTTTCCCTGATATTGCAATTAAAAA
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTGAACAA
* * * * *** * * *
6568135 GATTGAAGCCACAATGGTGGATCTTACTT-CCTTAGCAGTGCAGTGGAACAG
1 -ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGT-GAACAA
* * * * *
6568186 ATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAA
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTGAACAA
* * *** * **
6568235 GATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCGGTGCAGTGGAACAA
1 -ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGT-GAACAA
6568286 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTTGAACAA
1 ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAG-TGAACAA
6568336 ATTGAAG
1 ATTGAAG
6568343 ATTACAGATC
Statistics
Matches: 147, Mismatches: 52, Indels: 16
0.68 0.24 0.07
Matches are distributed among these distances:
49 11 0.07
50 120 0.82
51 16 0.11
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (49 bp):
ATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAGTGAACAA
Found at i:6568342 original size:100 final size:100
Alignment explanation
Indices: 6568029--6568326 Score: 488
Period size: 100 Copynumber: 3.0 Consensus size: 100
6568019 GGTTGAAAAG
* * ** *
6568029 TAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTTTAGCAGTGCAGCAGAATAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
*
6568094 TACGACAACGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
* *
6568129 TAAAAAGATTGAAGCCACAATGGTGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
6568194 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
* *
6568229 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGTGGAACAAATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
* *
6568294 TACGACGGCGGATCTGGTTTCCCTGACATTGCA
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCA
6568327 GTTGAACAAA
Statistics
Matches: 184, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 184 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
TACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
Found at i:6570091 original size:26 final size:27
Alignment explanation
Indices: 6570062--6570134 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 27
6570052 ACATCATACG
6570062 TTTTATAATACATATACATTTT-TTTA
1 TTTTATAATACATATACATTTTCTTTA
*
6570088 TTTTATAATTC--ATACATTTTCTTTA
1 TTTTATAATACATATACATTTTCTTTA
* * *
6570113 TATTAT-ATACATACAGATTTTC
1 TTTTATAATACATATACATTTTC
6570135 ACACACACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 12 0.31
25 9 0.23
26 18 0.46
ACGTcount: A:0.33, C:0.11, G:0.01, T:0.55
Consensus pattern (27 bp):
TTTTATAATACATATACATTTTCTTTA
Found at i:6570107 original size:24 final size:24
Alignment explanation
Indices: 6570075--6570127 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
6570065 TATAATACAT
* *
6570075 ATACATTTT-TTTATTTTATAATTC
1 ATACATTTTCTTTATATTAT-ATAC
6570099 ATACATTTTCTTTATATTATATAC
1 ATACATTTTCTTTATATTATATAC
6570123 ATACA
1 ATACA
6570128 GATTTTCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (24 bp):
ATACATTTTCTTTATATTATATAC
Found at i:6572333 original size:49 final size:49
Alignment explanation
Indices: 6572273--6572388 Score: 124
Period size: 49 Copynumber: 2.4 Consensus size: 49
6572263 ATGAAACTCG
* * * * ** * *
6572273 AACCCGAGACCGTATAATCACTGTCAATTGGGGGCCTGAGTTATATTTG
1 AACCCGTGACCGTATAACCACTGTCAACTGGGAGCCCAAGTTATACTTC
* * * *
6572322 AACCTGTGACCGCATAACCATTGTTAACTGGGAGCCCAAGTTATACTTC
1 AACCCGTGACCGTATAACCACTGTCAACTGGGAGCCCAAGTTATACTTC
6572371 AACCCGTGACCGTATAAC
1 AACCCGTGACCGTATAAC
6572389 TATCGTGAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (49 bp):
AACCCGTGACCGTATAACCACTGTCAACTGGGAGCCCAAGTTATACTTC
Found at i:6572403 original size:49 final size:49
Alignment explanation
Indices: 6572311--6572412 Score: 114
Period size: 49 Copynumber: 2.1 Consensus size: 49
6572301 TGGGGGCCTG
* * * * * *
6572311 AGTTATATTTGAACCTGTGACCGCATAACCATTGTTAACTGGGAGCCCA
1 AGTTATACTTCAACCCGTGACCGCATAACCATCGTGAAATGGGAGCCCA
* * * *
6572360 AGTTATACTTCAACCCGTGACCGTATAACTATCGTGAAATGGGATCCCG
1 AGTTATACTTCAACCCGTGACCGCATAACCATCGTGAAATGGGAGCCCA
6572409 AGTT
1 AGTT
6572413 GCAATGTGAC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (49 bp):
AGTTATACTTCAACCCGTGACCGCATAACCATCGTGAAATGGGAGCCCA
Found at i:6575524 original size:9 final size:9
Alignment explanation
Indices: 6575512--6575551 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
6575502 CTATTTCTCC
6575512 CTTTTCTTT
1 CTTTTCTTT
6575521 CTTTTC-TT
1 CTTTTCTTT
* *
6575529 CTTTCCCTT
1 CTTTTCTTT
6575538 CTTTTCTTT
1 CTTTTCTTT
6575547 CTTTT
1 CTTTT
6575552 TCTCCATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (9 bp):
CTTTTCTTT
Found at i:6577378 original size:23 final size:23
Alignment explanation
Indices: 6577305--6577380 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
6577295 AGTGTTATTG
6577305 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
6577328 TTCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
6577351 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
6577374 CTCAGTG
1 ATCAGTG
6577381 TGGCTTTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:6581088 original size:13 final size:13
Alignment explanation
Indices: 6581070--6581133 Score: 128
Period size: 13 Copynumber: 4.9 Consensus size: 13
6581060 ACACTCAAAT
6581070 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
6581083 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
6581096 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
6581109 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
6581122 TTCTCAAAAGCA
1 TTCTCAAAAGCA
6581134 ATAAAGAACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.39, C:0.30, G:0.08, T:0.23
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:6597973 original size:11 final size:11
Alignment explanation
Indices: 6597953--6597990 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
6597943 GGCCCAGCCC
6597953 ATATTAAATAT
1 ATATTAAATAT
*
6597964 ATATTTAATAT
1 ATATTAAATAT
*
6597975 ATATAAAATAT
1 ATATTAAATAT
6597986 ATATT
1 ATATT
6597991 TGATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:6598292 original size:3 final size:3
Alignment explanation
Indices: 6598284--6598331 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
6598274 TTATAAAATA
* *
6598284 TAT TAT TAT TGT TAT TAT TGT TAT TA- TAT TAT TA- TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6598329 TAT
1 TAT
6598332 AAATTAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 6 0.16
3 32 0.84
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6598368 original size:29 final size:29
Alignment explanation
Indices: 6598306--6598370 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
6598296 TATTATTGTT
* *
6598306 ATTATATT-ATTATATTATTATATTATAA
1 ATTAAATTGATTATATTATTATATTAGAA
6598334 ATTAAATTGATTATATTATTATATTAGGAA
1 ATTAAATTGATTATATTATTATATTA-GAA
6598364 A-TAAATT
1 ATTAAATT
6598371 AAGAAAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 7 0.21
29 23 0.70
30 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.51
Consensus pattern (29 bp):
ATTAAATTGATTATATTATTATATTAGAA
Found at i:6598821 original size:10 final size:10
Alignment explanation
Indices: 6598803--6598851 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
6598793 AAAGTAAAAT
6598803 AAAAG-AACA
1 AAAAGAAACA
6598812 AAAAGAAACA
1 AAAAGAAACA
*
6598822 AAAAGAAATA
1 AAAAGAAACA
*
6598832 GAAAGAAACA
1 AAAAGAAACA
*
6598842 GAATAGAAAC
1 -AAAAGAAAC
6598852 GAAACACGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
9 5 0.15
10 21 0.64
11 7 0.21
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.04
Consensus pattern (10 bp):
AAAAGAAACA
Found at i:6598844 original size:16 final size:16
Alignment explanation
Indices: 6598799--6598857 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
6598789 AACTAAAGTA
6598799 AAATA-AAAG-AACA-
1 AAATAGAAAGAAACAG
* *
6598812 AAA-AGAAACAAAAAG
1 AAATAGAAAGAAACAG
6598827 AAATAGAAAGAAACAG
1 AAATAGAAAGAAACAG
6598843 -AATAGAAACGAAACA
1 AAATAGAAA-GAAACA
6598858 CGGAGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.03
13 6 0.16
14 3 0.08
15 11 0.30
16 16 0.43
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.05
Consensus pattern (16 bp):
AAATAGAAAGAAACAG
Found at i:6598890 original size:21 final size:20
Alignment explanation
Indices: 6598862--6598901 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
6598852 GAAACACGGA
6598862 GAAAAAG-AAAGACAAGAAAG
1 GAAAAAGAAAAGA-AAGAAAG
6598882 GAAAGAAGAAAAGAAAGAAA
1 GAAA-AAGAAAAGAAAGAAA
6598902 AAGGAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (20 bp):
GAAAAAGAAAAGAAAGAAAG
Found at i:6598902 original size:9 final size:9
Alignment explanation
Indices: 6598864--6598902 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
6598854 AACACGGAGA
6598864 AAAAGAAAG
1 AAAAGAAAG
*
6598873 ACAAGAAAG
1 AAAAGAAAG
*
6598882 GAAAG-AAG
1 AAAAGAAAG
6598890 AAAAGAAAG
1 AAAAGAAAG
6598899 AAAA
1 AAAA
6598903 AGGAGAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:6599090 original size:29 final size:29
Alignment explanation
Indices: 6599049--6599106 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
6599039 TTTTTTAGTA
6599049 GGGTTCATGTTGAATA-AATGATTGAATTAG
1 GGGTTCATGTTG-ATAGAATGATTG-ATTAG
* *
6599079 GGGTTTAT-TTGATAGAATTATTGATTAG
1 GGGTTCATGTTGATAGAATGATTGATTAG
6599107 AATTGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.32
29 10 0.40
30 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.41
Consensus pattern (29 bp):
GGGTTCATGTTGATAGAATGATTGATTAG
Found at i:6599874 original size:38 final size:39
Alignment explanation
Indices: 6599772--6599879 Score: 112
Period size: 38 Copynumber: 2.8 Consensus size: 39
6599762 GACCTCGAGT
* **
6599772 CGATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGATAGAGC
* * *
6599813 CGATGAGATACTGGGTATC-ACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
* *
6599850 CGATGTGACACTGGGTGTCAACTTTGCTTC
1 CGATGAGACACTGGGTGTCAACTTTACTTC
6599880 AAACTATCCG
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
37 16 0.29
38 23 0.41
41 17 0.30
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:6601808 original size:19 final size:20
Alignment explanation
Indices: 6601766--6601808 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
6601756 TCATGCTTTC
* *
6601766 TATTCGCATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
6601786 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
6601804 TATTC
1 TATTC
6601809 CACAATCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:6602009 original size:38 final size:39
Alignment explanation
Indices: 6601962--6602070 Score: 123
Period size: 38 Copynumber: 2.8 Consensus size: 39
6601952 CGGATAGTTT
* *
6601962 GAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAGCC
1 GAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGCC
* * * *
6602000 GAAGTAAAG-TGATACCCAGTATCTCATCGAATCTATCC
1 GAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGCC
*
6602038 GAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 GAAGTAAAGT--TGACACCCAGTGTCTCATCGA
6602071 CTCGAGGTCG
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 18 0.31
38 21 0.36
41 19 0.33
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (39 bp):
GAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGCC
Found at i:6602058 original size:41 final size:38
Alignment explanation
Indices: 6601962--6602070 Score: 121
Period size: 41 Copynumber: 2.8 Consensus size: 38
6601952 CGGATAGTTT
* *
6601962 GAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAGCC
1 GAAGTAAAG-TGACACCCAGTGTCTCATCGAACCTAGCC
* * * *
6602000 GAAGTAAAGTGATACCCAGTATCTCATCGAATCTATCC
1 GAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGCC
6602038 GAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 GAAGT--AA-AGTGACACCCAGTGTCTCATCGA
6602071 CTCGAGGTCG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
37 18 0.31
38 18 0.31
40 2 0.03
41 21 0.36
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (38 bp):
GAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGCC
Found at i:6602783 original size:29 final size:29
Alignment explanation
Indices: 6602735--6602792 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
6602725 TTAATCAATT
6602735 CTAATCAATAATTCTATCAA-ATAAACCC
1 CTAATCAATAATTCTATCAACATAAACCC
* *
6602763 CTAATTCAATCATT-TATTCAACATGAACCC
1 CTAA-TCAATAATTCTA-TCAACATAAACCC
6602793 TACTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.24
29 12 0.48
30 7 0.28
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (29 bp):
CTAATCAATAATTCTATCAACATAAACCC
Found at i:6602991 original size:21 final size:20
Alignment explanation
Indices: 6602932--6602997 Score: 51
Period size: 26 Copynumber: 2.9 Consensus size: 20
6602922 AAAAACCTTA
*
6602932 TTTCTCCCTTTTCTCTCTTT
1 TTTCTCCCTTTTCTTTCTTT
6602952 TCTTCTTTCCCTTCTTTTCTTTCTTT
1 T-TTC--T-CC--CTTTTCTTTCTTT
6602978 TTTCTCCCTGTTTCGTTTCT
1 TTTCTCCCT-TTTC-TTTCT
6602998 ATTCTGTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
20 3 0.08
21 7 0.19
22 7 0.19
23 2 0.05
24 2 0.05
25 3 0.08
26 13 0.35
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTCTCCCTTTTCTTTCTTT
Found at i:6603011 original size:15 final size:16
Alignment explanation
Indices: 6602985--6603028 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
6602975 TTTTTTCTCC
6602985 CTGTTTCGTTTCTATT
1 CTGTTTCGTTTCTATT
6603001 CTGTTTC-TTTCTATT
1 CTGTTTCGTTTCTATT
*
6603016 -TCTTTCTGTTTCT
1 CTGTTTC-GTTTCT
6603029 TTTTATGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 5 0.20
15 8 0.32
16 12 0.48
ACGTcount: A:0.05, C:0.20, G:0.09, T:0.66
Consensus pattern (16 bp):
CTGTTTCGTTTCTATT
Found at i:6603017 original size:10 final size:10
Alignment explanation
Indices: 6602988--6603030 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
6602978 TTTCTCCCTG
6602988 TTTC-GTTTC
1 TTTCTGTTTC
6602997 TATTCTGTTTC
1 T-TTCTGTTTC
*
6603008 TTTCTATTTC
1 TTTCTGTTTC
6603018 TTTCTGTTTC
1 TTTCTGTTTC
6603028 TTT
1 TTT
6603031 TTATGCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 1 0.03
10 23 0.77
11 6 0.20
ACGTcount: A:0.05, C:0.19, G:0.07, T:0.70
Consensus pattern (10 bp):
TTTCTGTTTC
Found at i:6603379 original size:191 final size:192
Alignment explanation
Indices: 6603055--6603420 Score: 671
Period size: 191 Copynumber: 1.9 Consensus size: 192
6603045 TACTTTAGTC
* *
6603055 TAATAATTATTTTTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGTATATGAT
1 TAATAATTATTATTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGCATATGAT
*
6603120 TTATTACACTTGTACTTTACTATCACCATACATTTGTCAACTTATTAATTTGTTCATTAATCTAA
66 TTATTACACTTGTACTTTACTATCACCATACAATTGTCAACTTATTAATTTGTTCATTAATCTAA
*
6603185 TAATATAATATCAATTAAA-AATAATAACAATGATAATTATTATATTATTATATTAACTTAA
131 TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATATTATTATATTAACTTAA
* *
6603246 TAATAATTATTATTTCTTAAATATTAAGTAAATAAATATGTATTTTACAATTGTATGCATATGAT
1 TAATAATTATTATTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGCATATGAT
6603311 TTATTACACTTGTACTTTACTATCACCATACAATTGTCAACTTATTAATTTGTTCATTAATCTAA
66 TTATTACACTTGTACTTTACTATCACCATACAATTGTCAACTTATTAATTTGTTCATTAATCTAA
6603376 TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATA
131 TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATA
6603421 ATAATAACAA
Statistics
Matches: 168, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
191 144 0.86
192 24 0.14
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (192 bp):
TAATAATTATTATTTATTAAATATTAAGTAAATAAATATGTATTTTACAATTATATGCATATGAT
TTATTACACTTGTACTTTACTATCACCATACAATTGTCAACTTATTAATTTGTTCATTAATCTAA
TAATATAATATCAATTAAATAATAATAACAATAATAATTATTATATTATTATATTAACTTAA
Found at i:6603436 original size:24 final size:24
Alignment explanation
Indices: 6603394--6603442 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
6603384 TATCAATTAA
*
6603394 ATAATAATAACAATAATAATTATT
1 ATAATAATAACAATAATAAATATT
6603418 ATAATAATAACAA-ATATAAATATT
1 ATAATAATAACAATA-ATAAATATT
6603442 A
1 A
6603443 CAAATGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAATAATAACAATAATAAATATT
Found at i:6603553 original size:31 final size:31
Alignment explanation
Indices: 6603518--6603590 Score: 76
Period size: 34 Copynumber: 2.3 Consensus size: 31
6603508 TATTTATCAT
*
6603518 ATAAAAATCTTTTACTAATTA-ATAATAAATA
1 ATAAAAATCTTTTACTAACTATAT-ATAAATA
*
6603549 ATAAAATATATTTTTTACTAACTATATATAAATA
1 AT-AAA-A-ATCTTTTACTAACTATATATAAATA
*
6603583 ATACAAAT
1 ATAAAAAT
6603591 GTACTCATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
31 4 0.11
32 4 0.11
33 3 0.09
34 22 0.63
35 2 0.06
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (31 bp):
ATAAAAATCTTTTACTAACTATATATAAATA
Found at i:6606797 original size:3 final size:3
Alignment explanation
Indices: 6606744--6606779 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
6606734 TTTAAATAAA
6606744 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6606780 TCCTTCGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6606967 original size:16 final size:16
Alignment explanation
Indices: 6606927--6606972 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
6606917 TAAATACCTC
**
6606927 TTTTAAAATGAAAATT
1 TTTTAAAATTTAAATT
*
6606943 TTTT--CATTTAAATT
1 TTTTAAAATTTAAATT
6606957 TTTTAAAATTTAAATT
1 TTTTAAAATTTAAATT
6606973 AGTAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 11 0.46
16 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTTTAAAATTTAAATT
Found at i:6607054 original size:15 final size:17
Alignment explanation
Indices: 6607033--6607072 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
6607023 TAATTTTTTA
6607033 AAAATTATTAAAAT-AT
1 AAAATTATTAAAATGAT
6607049 -AAATTATTAAAATGAT
1 AAAATTATTAAAATGAT
6607065 AAAATTAT
1 AAAATTAT
6607073 ATTTTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.59
16 2 0.09
17 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAATTATTAAAATGAT
Found at i:6622040 original size:358 final size:357
Alignment explanation
Indices: 6621381--6622097 Score: 1319
Period size: 358 Copynumber: 2.0 Consensus size: 357
6621371 AAGAATTGAT
*
6621381 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAGTTCACATTCCGCATCA
1 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
* *
6621446 CATAAGAACAACAATCGGGGACCCATGACCATGGGTGCAGTTTGAAAGACAGTCTAGCAAATCAG
66 CATAAGAACAACAATCAGGGACCCATGACCATGGGTGCAGTTTGAAAGACAGCCTAGCAAATCAG
*
6621511 GTAACTATGCTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTTTGTCC
131 GTAACTATGCTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTCC
6621576 CTATCAAGAGAGATTCAAATGAAAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
196 CTATCAAGAGAGATTCAAATGAAAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
6621641 CAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGAA
261 CAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGAA
6621706 CTAAAAGCAAATGCCAAACCATGTTTAATTGCA
326 CTAAAAGC-AATGCCAAACCATGTTTAATTGCA
6621739 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
1 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
6621804 CATAAGAACAACAATCAGGGACCCATGACCGA-GGGTGCAGTTTGAAAGACAGCCTAGCAAATCA
66 CATAAGAACAACAATCAGGGACCCATGACC-ATGGGTGCAGTTTGAAAGACAGCCTAGCAAATCA
*
6621868 GGTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTC
130 GGTAACTATGCTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTC
* *
6621933 CCTATCAAGAGAGATTCAAATGAGAACATTCAAATATCAACCGACTAGTAATCAAGAAATAACCA
195 CCTATCAAGAGAGATTCAAATGAAAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCA
* * *
6621998 ACAATGGTTTCGGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGTAAGCTCTGAACAGGGA
260 ACAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGA
6622063 ACTAAAAGCAATGCCAAACCATGTTTAATTGCA
325 ACTAAAAGCAATGCCAAACCATGTTTAATTGCA
6622096 AT
1 AT
6622098 GGCAAATGAA
Statistics
Matches: 348, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
357 26 0.07
358 321 0.92
359 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (357 bp):
ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAATTCACATTCCGCATCA
CATAAGAACAACAATCAGGGACCCATGACCATGGGTGCAGTTTGAAAGACAGCCTAGCAAATCAG
GTAACTATGCTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATCTATGTCC
CTATCAAGAGAGATTCAAATGAAAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
CAATGATTTCGGAACATTATTTCCAGTGGCAAATATGATTGTAATTGTAAGCTCTGAACAGGGAA
CTAAAAGCAATGCCAAACCATGTTTAATTGCA
Done.