Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 28 of 402
Found at i:6164994 original size:17 final size:18
Alignment explanation
Indices: 6164957--6165000 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
6164947 AATTAAAAAT
* *
6164957 AAATAAAATTAAATTATA
1 AAATAAAATAAAATTAAA
6164975 AAAT-AAATAAAATTAAA
1 AAATAAAATAAAATTAAA
6164992 AAATTAAAA
1 AAA-TAAAA
6165001 AAGAAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 14 0.64
18 5 0.23
19 3 0.14
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATAAAATAAAATTAAA
Found at i:6165008 original size:22 final size:22
Alignment explanation
Indices: 6164944--6165002 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
6164934 AATAATTAAG
6164944 AAAAATTAAAAATAAATAAAATTA
1 AAAAATT-AAAA-AAATAAAATTA
**
6164968 AATTA-TAAAATAAATAAAATTA
1 AAAAATTAAAA-AAATAAAATTA
6164990 AAAAATTAAAAAA
1 AAAAATTAAAAAA
6165003 GAAAAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 21 0.70
23 6 0.20
24 3 0.10
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAAATTAAAAAAATAAAATTA
Found at i:6168099 original size:22 final size:22
Alignment explanation
Indices: 6168058--6168100 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6168048 GTTAAAAATA
*
6168058 TGTTATCACAAAGCATATCAAT
1 TGTTATCACAAAGCAAATCAAT
6168080 TGTTATCACCAAA-CAAATCAA
1 TGTTATCA-CAAAGCAAATCAA
6168101 ACAAAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (22 bp):
TGTTATCACAAAGCAAATCAAT
Found at i:6172665 original size:21 final size:21
Alignment explanation
Indices: 6172639--6172694 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
6172629 TTGGTTAAGG
6172639 GGGTGATCGATCCCCTACATA
1 GGGTGATCGATCCCCTACATA
*
6172660 GGGTGATCGATCTCCTACATA
1 GGGTGATCGATCCCCTACATA
6172681 GGGTGATCGATCCC
1 GGGTGATCGATCCC
6172695 TTCTGGCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (21 bp):
GGGTGATCGATCCCCTACATA
Found at i:6173764 original size:15 final size:15
Alignment explanation
Indices: 6173744--6173779 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
6173734 AATAATAAAA
6173744 AATAATAGTAATAGT
1 AATAATAGTAATAGT
6173759 AATAATAGTAATAGT
1 AATAATAGTAATAGT
6173774 -ATAATA
1 AATAATA
6173780 CACTATACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (15 bp):
AATAATAGTAATAGT
Found at i:6175391 original size:14 final size:14
Alignment explanation
Indices: 6175372--6175411 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
6175362 AATGTCTATC
*
6175372 ATGATGTAAATGCA
1 ATGATGCAAATGCA
6175386 ATGATGCAAATGCA
1 ATGATGCAAATGCA
*
6175400 ATGATGGAAATG
1 ATGATGCAAATG
6175412 TCTTTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.25
Consensus pattern (14 bp):
ATGATGCAAATGCA
Found at i:6176098 original size:22 final size:22
Alignment explanation
Indices: 6176072--6176116 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
6176062 TCTTGATTAT
6176072 TTACTTTAATATAATTCAAAAC
1 TTACTTTAATATAATTCAAAAC
*
6176094 TTACTTTAATATGATTCAAAAC
1 TTACTTTAATATAATTCAAAAC
6176116 T
1 T
6176117 ATCATTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.42
Consensus pattern (22 bp):
TTACTTTAATATAATTCAAAAC
Found at i:6177391 original size:24 final size:23
Alignment explanation
Indices: 6177356--6177403 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
6177346 ACGTGGACCA
*
6177356 AGGGTTTTTTAGAAAAATAATTT
1 AGGGTTTTTTAGAAAAACAATTT
6177379 AGGGTTGTTTTAGAAAAACAATTT
1 AGGGTT-TTTTAGAAAAACAATTT
6177403 A
1 A
6177404 AGGCATTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (23 bp):
AGGGTTTTTTAGAAAAACAATTT
Found at i:6184303 original size:52 final size:51
Alignment explanation
Indices: 6184148--6184303 Score: 197
Period size: 52 Copynumber: 3.0 Consensus size: 51
6184138 TATAACCATA
* * * ** *
6184148 CAAACTTGCCCATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCCCTTT-CTCTTAGAATTCTTCTTTTGCAAGT
*
6184200 CAAACTTACCTATTAAGAATCCCTTTTCTCTTAGAATTCTT-TTCTTACAAGT
1 CAAACTTACCTATTAAGAATCCC-TTTCTCTTAGAATTCTTCTT-TTGCAAGT
*
6184252 CAAACTTACCTATTAAAAATCTCCTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATC-CCTTTCTCTTAGAATTCTTCTTTTGCAAGT
6184304 TTTCTTGTCC
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
51 1 0.01
52 83 0.91
53 7 0.08
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (51 bp):
CAAACTTACCTATTAAGAATCCCTTTCTCTTAGAATTCTTCTTTTGCAAGT
Found at i:6184360 original size:11 final size:11
Alignment explanation
Indices: 6184325--6184360 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
6184315 TAAAGCAATA
*
6184325 TCTAATAAATC
1 TCTAACAAATC
*
6184336 TCAAACAAATC
1 TCTAACAAATC
6184347 TCTAACAAATC
1 TCTAACAAATC
6184358 TCT
1 TCT
6184361 TATGGGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (11 bp):
TCTAACAAATC
Found at i:6184649 original size:25 final size:25
Alignment explanation
Indices: 6184594--6184675 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
6184584 TCTTAAACCA
* *
6184594 AGCTCTTCCCATATCTCGAA-CTGTC
1 AGCTCTTCCCATGTCTCGAACCT-TT
*
6184619 AACTCTTCCCATGTCTCGAACCTTT
1 AGCTCTTCCCATGTCTCGAACCTTT
* * * *
6184644 GGCTCTTCCTATGTTTTGAACCTTT
1 AGCTCTTCCCATGTCTCGAACCTTT
6184669 AGCTCTT
1 AGCTCTT
6184676 TCTACATTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 45 0.96
26 2 0.04
ACGTcount: A:0.17, C:0.32, G:0.12, T:0.39
Consensus pattern (25 bp):
AGCTCTTCCCATGTCTCGAACCTTT
Found at i:6184685 original size:25 final size:25
Alignment explanation
Indices: 6184636--6184724 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 25
6184626 CCCATGTCTC
** * *
6184636 GAACCTTTGGCTCTTCCTATGTTTT
1 GAACCTTCAGCTCTTTCTACGTTTT
* *
6184661 GAACCTTTAGCTCTTTCTACATTTT
1 GAACCTTCAGCTCTTTCTACGTTTT
* * *
6184686 GAATCTTCAACTC-TTCTCACGTTTC
1 GAACCTTCAGCTCTTTCT-ACGTTTT
6184711 GAACCTTCAGCTCT
1 GAACCTTCAGCTCT
6184725 GATACCACTT
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 4 0.08
25 47 0.92
ACGTcount: A:0.18, C:0.28, G:0.11, T:0.43
Consensus pattern (25 bp):
GAACCTTCAGCTCTTTCTACGTTTT
Found at i:6186466 original size:52 final size:53
Alignment explanation
Indices: 6186388--6186531 Score: 161
Period size: 52 Copynumber: 2.8 Consensus size: 53
6186378 ATATTTTCCC
* * * *
6186388 ATTAAGAATCTCTTTCCTCTTAAAATTCTTTTTCTGTAAGGT-AAATTTGCTT
1 ATTAAGAATCTCTTTTCTCTTAAAATTCTTTTTCTGTAAGGTAAAACTTACCT
* * *
6186440 ATTAAGAATCTCTTTTCTTTTAAAATTC-TTTTCT-AACAAGTAAAACTTACCT
1 ATTAAGAATCTCTTTTCTCTTAAAATTCTTTTTCTGTA-AGGTAAAACTTACCT
* *
6186492 ATTAAGAATCTTTTTTCTCTTAGAATTCTTCTTT-TGTAAG
1 ATTAAGAATCTCTTTTCTCTTAAAATTCTT-TTTCTGTAAG
6186532 TCTTCTTGTC
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
50 1 0.01
51 9 0.12
52 58 0.77
53 3 0.04
54 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (53 bp):
ATTAAGAATCTCTTTTCTCTTAAAATTCTTTTTCTGTAAGGTAAAACTTACCT
Found at i:6186570 original size:11 final size:11
Alignment explanation
Indices: 6186554--6186589 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
6186544 TAAAGCAATA
6186554 TCTAACAAATC
1 TCTAACAAATC
6186565 TCTAACAAATC
1 TCTAACAAATC
*
6186576 TCAAACAAATC
1 TCTAACAAATC
6186587 TCT
1 TCT
6186590 TATGGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (11 bp):
TCTAACAAATC
Found at i:6187591 original size:52 final size:49
Alignment explanation
Indices: 6187509--6187646 Score: 168
Period size: 49 Copynumber: 2.8 Consensus size: 49
6187499 ATAACCATAC
* * * *** *
6187509 AAACTTGCCCATTAAGAATCCCTTTCCTCTTAGAATTCTTTTCTTGTAAGTT
1 AAACTTGCCTATTAAGAATCTCTTTTCTCTTAGAATTC--TTC-AACAAGTA
6187561 AAACTTGCCTATTAAGAATCTCTTTTCTCTTAGAATTCTTCAACAAGTA
1 AAACTTGCCTATTAAGAATCTCTTTTCTCTTAGAATTCTTCAACAAGTA
* *
6187610 AAACTTACCTATTAAAAATCTCTTTTCTCTTAGAATT
1 AAACTTGCCTATTAAGAATCTCTTTTCTCTTAGAATT
6187647 ATTCTTTTGC
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
49 39 0.51
50 3 0.04
52 35 0.45
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (49 bp):
AAACTTGCCTATTAAGAATCTCTTTTCTCTTAGAATTCTTCAACAAGTA
Found at i:6187703 original size:11 final size:10
Alignment explanation
Indices: 6187681--6187727 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
6187671 ATAAAGTAAT
6187681 ATCT-AACAA
1 ATCTCAACAA
6187690 ATCTCAAGCAA
1 ATCTCAA-CAA
6187701 ATCTCTAACAA
1 ATCTC-AACAA
*
6187712 ATTTCAAACAA
1 ATCTC-AACAA
6187723 ATCTC
1 ATCTC
6187728 TTATAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 4 0.12
10 2 0.06
11 24 0.75
12 2 0.06
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (10 bp):
ATCTCAACAA
Found at i:6187707 original size:22 final size:22
Alignment explanation
Indices: 6187682--6187728 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
6187672 TAAAGTAATA
*
6187682 TCTAACAAATCTCAAGCAAATC
1 TCTAACAAATCTCAAACAAATC
*
6187704 TCTAACAAATTTCAAACAAATC
1 TCTAACAAATCTCAAACAAATC
6187726 TCT
1 TCT
6187729 TATAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.28
Consensus pattern (22 bp):
TCTAACAAATCTCAAACAAATC
Found at i:6198002 original size:37 final size:37
Alignment explanation
Indices: 6197952--6198025 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
6197942 GGTGCCTGCT
6197952 CCTTAACCACTCCTCTGCATATAATGGAAGAATCTGG
1 CCTTAACCACTCCTCTGCATATAATGGAAGAATCTGG
6197989 CCTTAACCACTCCTCTGCATATAATGGAAGAATCTGG
1 CCTTAACCACTCCTCTGCATATAATGGAAGAATCTGG
6198026 TTGCTCTGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (37 bp):
CCTTAACCACTCCTCTGCATATAATGGAAGAATCTGG
Found at i:6203210 original size:20 final size:21
Alignment explanation
Indices: 6203185--6203227 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
6203175 ATTATATTAT
6203185 TTTTAATACATTTTTACT-TA
1 TTTTAATACATTTTTACTGTA
*
6203205 TTTTAATATATTTTTACTGTA
1 TTTTAATACATTTTTACTGTA
6203226 TT
1 TT
6203228 AATTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTAATACATTTTTACTGTA
Found at i:6203803 original size:21 final size:21
Alignment explanation
Indices: 6203761--6203807 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6203751 AACGATCACA
* * * *
6203761 TCAATATTGTCAATAGCTACG
1 TCAACATTGTCAACAACCACG
6203782 TCAACATTGTCAACAACCACG
1 TCAACATTGTCAACAACCACG
6203803 TCAAC
1 TCAAC
6203808 TATTTAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.26
Consensus pattern (21 bp):
TCAACATTGTCAACAACCACG
Found at i:6213878 original size:11 final size:11
Alignment explanation
Indices: 6213862--6213888 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6213852 CCTATCAATG
6213862 ATATTCTAGTA
1 ATATTCTAGTA
6213873 ATATTCTAGTA
1 ATATTCTAGTA
6213884 ATATT
1 ATATT
6213889 TTATACCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (11 bp):
ATATTCTAGTA
Found at i:6213967 original size:12 final size:12
Alignment explanation
Indices: 6213923--6213974 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
6213913 AATATTTTAG
6213923 ATTGATTTA-AT
1 ATTGATTTAGAT
*
6213934 ATTGATTTAGAG
1 ATTGATTTAGAT
*
6213946 AAT-A-TTAGAT
1 ATTGATTTAGAT
6213956 ATTGATTTAGAT
1 ATTGATTTAGAT
6213968 ATTGATT
1 ATTGATT
6213975 AGGTGATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 7 0.21
11 11 0.32
12 16 0.47
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (12 bp):
ATTGATTTAGAT
Found at i:6223387 original size:33 final size:33
Alignment explanation
Indices: 6223345--6223413 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
6223335 TTAGCTTTAG
*
6223345 TTTTAACTAGAAAAGAACTTTGTATATCTATTA
1 TTTTAACTAGAAAAGAACTTTGTATATCAATTA
6223378 TTTTAACTAGAAAAGAACTTTGTATATCAATTA
1 TTTTAACTAGAAAAGAACTTTGTATATCAATTA
6223411 TTT
1 TTT
6223414 GATAGTAGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (33 bp):
TTTTAACTAGAAAAGAACTTTGTATATCAATTA
Found at i:6240738 original size:31 final size:31
Alignment explanation
Indices: 6240684--6240756 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
6240674 ATAACCTATA
*
6240684 AACATTTTTATTTACACTAAAATAAACCCTT
1 AACATTTTAATTTACACTAAAATAAACCCTT
** * **
6240715 AACATTTTAATTTGTACTTAAATAAGTCCTT
1 AACATTTTAATTTACACTAAAATAAACCCTT
6240746 AAC-TTTTAATT
1 AACATTTTAATT
6240757 CATATCTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 8 0.22
31 28 0.78
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (31 bp):
AACATTTTAATTTACACTAAAATAAACCCTT
Found at i:6240767 original size:30 final size:31
Alignment explanation
Indices: 6240684--6240769 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 31
6240674 ATAACCTATA
* * * * **
6240684 AACATTTTTATTTACACTAAAATAAACCCTT
1 AACATTTTAATTCATACTTAAATAAGTCCTT
**
6240715 AACATTTTAATTTGTACTTAAATAAGTCCTT
1 AACATTTTAATTCATACTTAAATAAGTCCTT
6240746 AAC-TTTTAATTCATA-TCTAAATAA
1 AACATTTTAATTCATACT-TAAATAA
6240770 ACTTTTAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 1 0.02
30 17 0.37
31 28 0.61
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.42
Consensus pattern (31 bp):
AACATTTTAATTCATACTTAAATAAGTCCTT
Found at i:6243823 original size:13 final size:13
Alignment explanation
Indices: 6243801--6243839 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
6243791 TTAATTTTTA
*
6243801 ATTTTTATATATT
1 ATTTTAATATATT
**
6243814 ATTTTAATATAAA
1 ATTTTAATATATT
6243827 ATTTTAATATATT
1 ATTTTAATATATT
6243840 TAAGTAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:6243900 original size:19 final size:20
Alignment explanation
Indices: 6243876--6243919 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
6243866 TTTTTTATTT
6243876 TATAAAAA-TAAAAAATATA
1 TATAAAAATTAAAAAATATA
6243895 TATAAAAATTAAAAAATATA
1 TATAAAAATTAAAAAATATA
6243915 TATAA
1 TATAA
6243920 TTCGATTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TATAAAAATTAAAAAATATA
Found at i:6244080 original size:7 final size:8
Alignment explanation
Indices: 6244057--6244082 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6244047 CTATTTCTAA
6244057 TTAATTTT
1 TTAATTTT
6244065 TTAATTTT
1 TTAATTTT
6244073 TTAATTTT
1 TTAATTTT
6244081 TT
1 TT
6244083 TCTCTCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTAATTTT
Found at i:6244195 original size:23 final size:25
Alignment explanation
Indices: 6244169--6244214 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
6244159 TATAATTTGA
6244169 TTTTTATT-ATTTT-TATTTTTAAT
1 TTTTTATTCATTTTATATTTTTAAT
*
6244192 TTTTTATTCCTTTTATATTTTTA
1 TTTTTATTCATTTTATATTTTTA
6244215 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 4 0.20
25 8 0.40
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTTATTCATTTTATATTTTTAAT
Found at i:6244338 original size:18 final size:18
Alignment explanation
Indices: 6244315--6244365 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
6244305 ATATAAATAT
6244315 AATTTAATAATTTATAAC
1 AATTTAATAATTTATAAC
* *
6244333 AATTTATTAATTTTATAAT
1 AATTTAATAA-TTTATAAC
* *
6244352 TATTGAATAATTTA
1 AATTTAATAATTTA
6244366 AAATTTTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
AATTTAATAATTTATAAC
Found at i:6244487 original size:20 final size:19
Alignment explanation
Indices: 6244454--6244493 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
6244444 CACTATCATC
6244454 ATTATTTTTATATT-TAAA
1 ATTATTTTTATATTATAAA
6244472 ATTATATTTTATTATTATAAA
1 ATTAT-TTTTA-TATTATAAA
6244493 A
1 A
6244494 ATAAATCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 4 0.21
21 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATTTTTATATTATAAA
Found at i:6248791 original size:33 final size:33
Alignment explanation
Indices: 6248753--6248834 Score: 114
Period size: 32 Copynumber: 2.5 Consensus size: 33
6248743 AATGACTTAA
6248753 AAGTAAGAGCCTTTAAAGTCTTCCACTGATTAT
1 AAGTAAGAGCCTTTAAAGTCTTCCACTGATTAT
* * *
6248786 AAGTAAGAACCTTTGAA-TCTTCCACTTATTAT
1 AAGTAAGAGCCTTTAAAGTCTTCCACTGATTAT
*
6248818 AAGTAAAAGCC-TTAAAG
1 AAGTAAGAGCCTTTAAAG
6248835 GCCCATTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
31 4 0.10
32 23 0.55
33 15 0.36
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (33 bp):
AAGTAAGAGCCTTTAAAGTCTTCCACTGATTAT
Found at i:6249504 original size:3 final size:3
Alignment explanation
Indices: 6249498--6249525 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6249488 TAATGATCTT
6249498 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6249526 AGGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6252021 original size:31 final size:31
Alignment explanation
Indices: 6251964--6252025 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
6251954 TCGAAAATGA
**
6251964 TTTTTTCTTGAGTAATTTTTAGAGATCTTGG
1 TTTTTTCTTGAGTAATTTCGAGAGATCTTGG
*
6251995 TTTTTTCTTGAGTAGTTCTCGA-AGATCTTGG
1 TTTTTTCTTGAGTAATT-TCGAGAGATCTTGG
6252026 ACTACTACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.18, C:0.10, G:0.21, T:0.52
Consensus pattern (31 bp):
TTTTTTCTTGAGTAATTTCGAGAGATCTTGG
Found at i:6256369 original size:19 final size:21
Alignment explanation
Indices: 6256345--6256390 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
6256335 GCATATGAAA
6256345 GTTTTTCATTT-TTTGG-TTT
1 GTTTTTCATTTGTTTGGCTTT
*
6256364 GTTTTTTATTTGTTTGGCTTT
1 GTTTTTCATTTGTTTGGCTTT
*
6256385 TTTTTT
1 GTTTTT
6256391 ATTGAAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 5 0.22
21 8 0.35
ACGTcount: A:0.04, C:0.04, G:0.15, T:0.76
Consensus pattern (21 bp):
GTTTTTCATTTGTTTGGCTTT
Found at i:6256379 original size:20 final size:20
Alignment explanation
Indices: 6256345--6256393 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
6256335 GCATATGAAA
*
6256345 GTTTTTCATTTTTTGG-TTT
1 GTTTTTTATTTTTTGGCTTT
6256364 GTTTTTTATTTGTTTGGCTTT
1 GTTTTTTATTT-TTTGGCTTT
6256385 -TTTTTTATT
1 GTTTTTTATT
6256394 GAAAGTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 10 0.37
20 14 0.52
21 3 0.11
ACGTcount: A:0.06, C:0.04, G:0.14, T:0.76
Consensus pattern (20 bp):
GTTTTTTATTTTTTGGCTTT
Found at i:6258738 original size:11 final size:11
Alignment explanation
Indices: 6258698--6258751 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
6258688 AACTGAACCG
6258698 AAAAAATAAAA
1 AAAAAATAAAA
6258709 AATAAAA-AAAA
1 AA-AAAATAAAA
6258720 AGAAAAATAAAA
1 A-AAAAATAAAA
*
6258732 AAAAAATAATA
1 AAAAAATAAAA
*
6258743 CAAAAATAA
1 AAAAAATAA
6258752 TGGTTACACC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.85, C:0.02, G:0.02, T:0.11
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:6258747 original size:16 final size:14
Alignment explanation
Indices: 6258698--6258748 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
6258688 AACTGAACCG
*
6258698 AAAAAATAAAAAAT
1 AAAAAAAAAAAAAT
6258712 AAAAAAAAAGAAAAAT
1 -AAAAAAAA-AAAAAT
*
6258728 AAAAAAAAAATAAT
1 AAAAAAAAAAAAAT
6258742 ACAAAAA
1 A-AAAAA
6258749 TAATGGTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 6 0.19
15 20 0.62
16 6 0.19
ACGTcount: A:0.86, C:0.02, G:0.02, T:0.10
Consensus pattern (14 bp):
AAAAAAAAAAAAAT
Found at i:6258748 original size:17 final size:16
Alignment explanation
Indices: 6258698--6258737 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6258688 AACTGAACCG
*
6258698 AAAAAATAAAAAATAA
1 AAAAAAAAAAAAATAA
*
6258714 AAAAAAAGAAAAATAA
1 AAAAAAAAAAAAATAA
6258730 AAAAAAAA
1 AAAAAAAA
6258738 TAATACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (16 bp):
AAAAAAAAAAAAATAA
Found at i:6265497 original size:24 final size:24
Alignment explanation
Indices: 6265470--6265525 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
6265460 CAACTATGAA
*
6265470 CAGTGGAAGCACCAAAAGCAGCCG
1 CAGTGGAAGCACCAAAAGCAGCAG
* * **
6265494 CAGTAGCAGCACCAGTAGCAGCAG
1 CAGTGGAAGCACCAAAAGCAGCAG
6265518 CAGCTGGA
1 CAG-TGGA
6265526 GGAGCATCAG
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.34, C:0.29, G:0.30, T:0.07
Consensus pattern (24 bp):
CAGTGGAAGCACCAAAAGCAGCAG
Found at i:6266563 original size:13 final size:13
Alignment explanation
Indices: 6266545--6266569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6266535 CCGATTTTAT
6266545 ATAAAAAAAAGAA
1 ATAAAAAAAAGAA
6266558 ATAAAAAAAAGA
1 ATAAAAAAAAGA
6266570 CTTTACCTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
ATAAAAAAAAGAA
Found at i:6266743 original size:11 final size:11
Alignment explanation
Indices: 6266719--6266781 Score: 69
Period size: 11 Copynumber: 5.7 Consensus size: 11
6266709 TTCTCTACTT
6266719 TTTTTATTCT-A
1 TTTTTATT-TAA
*
6266730 TTTTTATTAAA
1 TTTTTATTTAA
6266741 TTTATT-TTTAA
1 TTT-TTATTTAA
6266752 TTTTTAATTTAA
1 TTTTT-ATTTAA
6266764 -TTTTATTTAA
1 TTTTTATTTAA
6266774 TTTTTATT
1 TTTTTATT
6266782 AAATAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
10 8 0.18
11 30 0.67
12 7 0.16
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTTATTTAA
Found at i:6266756 original size:22 final size:21
Alignment explanation
Indices: 6266720--6266785 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
6266710 TCTCTACTTT
6266720 TTTTATTCT-ATTTTTATTAAA
1 TTTTATT-TAATTTTTATTAAA
* *
6266741 TTTATTTTTAATTTTTAATTTAA
1 TTT-TATTTAATTTTT-ATTAAA
6266764 TTTTATTTAATTTTTATTAAA
1 TTTTATTTAATTTTTATTAAA
6266785 T
1 T
6266786 AAATTTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
21 10 0.26
22 20 0.53
23 8 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTATTTAATTTTTATTAAA
Found at i:6267876 original size:32 final size:32
Alignment explanation
Indices: 6267815--6267876 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
6267805 TCTTTTTTGG
**
6267815 TTTTTATGTTATTTTTATTAAATTTATTTTTA
1 TTTTTATGTTATTTTTATTAAATAAATTTTTA
*
6267847 TTTTTAT-TTAATTTTTATTAGATAAATTTT
1 TTTTTATGTT-ATTTTTATTAAATAAATTTT
6267877 GTAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (32 bp):
TTTTTATGTTATTTTTATTAAATAAATTTTTA
Found at i:6268124 original size:15 final size:15
Alignment explanation
Indices: 6268106--6268137 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6268096 ATTTTCTTTA
6268106 TTTTTTAAAGTTTTT
1 TTTTTTAAAGTTTTT
6268121 TTTTTTAAAGTTTTT
1 TTTTTTAAAGTTTTT
6268136 TT
1 TT
6268138 ATTAGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (15 bp):
TTTTTTAAAGTTTTT
Found at i:6268530 original size:17 final size:19
Alignment explanation
Indices: 6268496--6268543 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
6268486 CCTAAAATTA
*
6268496 ATAAAATATTAAATTATTTAAT
1 ATAAAATATT--ATT-TTAAAT
6268518 ATAAAATATTATTTTAAAT
1 ATAAAATATTATTTTAAAT
6268537 ATAAAAT
1 ATAAAAT
6268544 TAAATAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 12 0.48
20 3 0.12
22 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAAATATTATTTTAAAT
Found at i:6268545 original size:17 final size:16
Alignment explanation
Indices: 6268488--6268592 Score: 88
Period size: 16 Copynumber: 6.3 Consensus size: 16
6268478 TGTTTCGACC
6268488 TAAAATTA-ATAAAATA
1 TAAAATTATAT-AAATA
* *
6268504 TTAAATTAT-TTAATA
1 TAAAATTATATAAATA
*
6268519 TAAAATATTATTTTAAATA
1 T-AAA-ATTA-TATAAATA
*
6268538 TAAAATTAAATAAATA
1 TAAAATTATATAAATA
*
6268554 TAAAAGATATATAAATA
1 TAAAA-TTATATAAATA
*
6268571 TAAAATTAAATAAATAA
1 TAAAATTATATAAAT-A
6268588 TAAAA
1 TAAAA
6268593 AAATCATATA
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
15 5 0.07
16 29 0.40
17 28 0.39
18 4 0.06
19 6 0.08
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (16 bp):
TAAAATTATATAAATA
Found at i:6268553 original size:16 final size:16
Alignment explanation
Indices: 6268532--6268592 Score: 86
Period size: 17 Copynumber: 3.7 Consensus size: 16
6268522 AATATTATTT
6268532 TAAATATAAAATTAAA
1 TAAATATAAAATTAAA
* *
6268548 TAAATATAAAAGATATA
1 TAAATATAAAA-TTAAA
6268565 TAAATATAAAATTAAA
1 TAAATATAAAATTAAA
6268581 TAAATAATAAAA
1 TAAAT-ATAAAA
6268593 AAATCATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
16 19 0.49
17 20 0.51
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
TAAATATAAAATTAAA
Found at i:6269886 original size:19 final size:19
Alignment explanation
Indices: 6269864--6269901 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6269854 CATTTAGCTA
* *
6269864 TTTTATAATTTTCTTTGTT
1 TTTTAAAATTTTATTTGTT
6269883 TTTTAAAATTTTATTTGTT
1 TTTTAAAATTTTATTTGTT
6269902 AGATAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTAAAATTTTATTTGTT
Found at i:6271301 original size:15 final size:15
Alignment explanation
Indices: 6271271--6271309 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6271261 TATACAAAAA
*
6271271 ATATATTTTATTATTT
1 ATATAATTT-TTATTT
*
6271287 ATTTAATTTTTATTT
1 ATATAATTTTTATTT
6271302 ATATAATT
1 ATATAATT
6271310 ATATCATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATAATTTTTATTT
Found at i:6276727 original size:15 final size:16
Alignment explanation
Indices: 6276695--6276732 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6276685 TTCAAAAAAC
*
6276695 TTTCTTTTCCTTCTCT
1 TTTCTTTTACTTCTCT
*
6276711 TTTCTTTTATTTC-CT
1 TTTCTTTTACTTCTCT
6276726 TTTCTTT
1 TTTCTTT
6276733 ATAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTTTACTTCTCT
Found at i:6279865 original size:173 final size:173
Alignment explanation
Indices: 6279576--6279918 Score: 677
Period size: 173 Copynumber: 2.0 Consensus size: 173
6279566 CTAATAAGTC
6279576 TAAGCAATATTAATTTATTTAAATTTGAAAAGGCAATTAAAATTTTCCTTAAGAAAATTAGTTAC
1 TAAGCAATATTAATTTATTTAAATTTGAAAAGGCAATTAAAATTTTCCTTAAGAAAATTAGTTAC
*
6279641 ATGCTTAATAACTGAAAGCATGAACTATCATGGGGCTTAACTAGGCATTTCCAACAATTGGACAT
66 ATGCTTAATAACTGAAAGCATGAACTATCATGAGGCTTAACTAGGCATTTCCAACAATTGGACAT
6279706 AACCATTTCATAAACAAAGACAATCAAAAGATTATTAACCGTA
131 AACCATTTCATAAACAAAGACAATCAAAAGATTATTAACCGTA
6279749 TAAGCAATATTAATTTATTTAAATTTGAAAAGGCAATTAAAATTTTCCTTAAGAAAATTAGTTAC
1 TAAGCAATATTAATTTATTTAAATTTGAAAAGGCAATTAAAATTTTCCTTAAGAAAATTAGTTAC
6279814 ATGCTTAATAACTGAAAGCATGAACTATCATGAGGCTTAACTAGGCATTTCCAACAATTGGACAT
66 ATGCTTAATAACTGAAAGCATGAACTATCATGAGGCTTAACTAGGCATTTCCAACAATTGGACAT
6279879 AACCATTTCATAAACAAAGACAATCAAAAGATTATTAACC
131 AACCATTTCATAAACAAAGACAATCAAAAGATTATTAACC
6279919 CCTAAGCTTA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 169 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (173 bp):
TAAGCAATATTAATTTATTTAAATTTGAAAAGGCAATTAAAATTTTCCTTAAGAAAATTAGTTAC
ATGCTTAATAACTGAAAGCATGAACTATCATGAGGCTTAACTAGGCATTTCCAACAATTGGACAT
AACCATTTCATAAACAAAGACAATCAAAAGATTATTAACCGTA
Found at i:6283075 original size:3 final size:3
Alignment explanation
Indices: 6283069--6283094 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6283059 CACCAATTTC
6283069 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
6283095 TTCTTCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:6283099 original size:3 final size:3
Alignment explanation
Indices: 6283093--6283132 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
6283083 ATCATCATCA
*
6283093 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
6283133 TAGCATCGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:6290650 original size:13 final size:13
Alignment explanation
Indices: 6290632--6290661 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6290622 ATTATAAATT
*
6290632 TTATTATTTATTA
1 TTATTAATTATTA
6290645 TTATTAATTATTA
1 TTATTAATTATTA
6290658 TTAT
1 TTAT
6290662 AAAACAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTAATTATTA
Found at i:6305839 original size:28 final size:28
Alignment explanation
Indices: 6305783--6305840 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
6305773 ACTACTTACT
* *
6305783 TTCATCAAATTTAATAAGTAACCGCGTA
1 TTCATCAAATTTAATAAATAACAGCGTA
*
6305811 TTCATCAAATTTAATAAATAACAGTGTA
1 TTCATCAAATTTAATAAATAACAGCGTA
6305839 TT
1 TT
6305841 AACATTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (28 bp):
TTCATCAAATTTAATAAATAACAGCGTA
Found at i:6310953 original size:7 final size:7
Alignment explanation
Indices: 6310941--6310972 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
6310931 TCTGGTATAC
6310941 TGATGAG
1 TGATGAG
6310948 TGATGAG
1 TGATGAG
6310955 TGATGAG
1 TGATGAG
*
6310962 TGAAGAG
1 TGATGAG
6310969 TGAT
1 TGAT
6310973 AAATTTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.41, T:0.28
Consensus pattern (7 bp):
TGATGAG
Found at i:6318194 original size:18 final size:19
Alignment explanation
Indices: 6318171--6318206 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6318161 GAAAATTTAA
6318171 TAAAATTA-ATAATTAAAT
1 TAAAATTATATAATTAAAT
*
6318189 TAAAATTATCTAATTAAA
1 TAAAATTATATAATTAAA
6318207 ATAATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATTATATAATTAAAT
Found at i:6320616 original size:238 final size:239
Alignment explanation
Indices: 6320178--6320628 Score: 592
Period size: 238 Copynumber: 1.9 Consensus size: 239
6320168 ATATTGAAAT
* *
6320178 TTTGAAAAAAAAAAAAATTTAATTATATTGAAGATTTTCTATAAATATTTCAATACGGTGGTAAT
1 TTTGAAAAAAAAAAAAATTTAATTATATTGAAGATTTTCTATAAATATTTCAACACAGTGGTAAT
* * * * *
6320243 ATTTTATAAAAAATCTTCTCACCTAGAAATTTCTTAAAGTATCTCTACTCGGAATACTTTTAGAA
66 ATTTTACAAAAAATCTTCTCACCTAGAAATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAA
* * * * *
6320308 TCTCATCATTGGATTAAATTTCTTTTCTTCTCATTTTTATTACTTATTTTTAATATATTAATCAA
131 TCTCATCATCGGATAAAATTTCTTTTCTTCACATTTTTATTACTTAGTATTAATATATTAATCAA
6320373 TTTTTAT-T-TATTATTTAAAAAAAAGAAATTTTTATTTAAAAA
196 TTTTTATATATATTATTTAAAAAAAAGAAATTTTTATTTAAAAA
** * *
6320415 TTTGAAGAAAAATGAAAATTTTATTATATTGAAGATTTTCTATAAATATTTCAACACATTGGTAA
1 TTTGAA-AAAAAAAAAAATTTAATTATATTGAAGATTTTCTATAAATATTTCAACACAGTGGTAA
* * *
6320480 TATTTTACAAAAATTCTTCTCACCTAGAGATTTCGT-AGGCATCACTACTCGGAATACCTTTA-A
65 TATTTTACAAAAAATCTTCTCACCTAGAAATTTCGTAAAGCATCACTACTCGGAATACCTTTAGA
* *
6320543 ATCTCATCGTCGGATAAAAATTTCTTTTTCTT-ACATTTTTTATTAGTTTAGTATT-AT-TATTA
130 ATCTCATCATCGGAT-AAAATTTC-TTTTCTTCACA-TTTTTATTA-CTTAGTATTAATATATT-
**
6320605 AATTTATTTTTATATATATTATTT
190 AATCAATTTTTATATATATTATTT
6320629 TGTTTTTAAA
Statistics
Matches: 183, Mismatches: 23, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
236 14 0.08
237 41 0.22
238 113 0.62
239 7 0.04
240 8 0.04
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.45
Consensus pattern (239 bp):
TTTGAAAAAAAAAAAAATTTAATTATATTGAAGATTTTCTATAAATATTTCAACACAGTGGTAAT
ATTTTACAAAAAATCTTCTCACCTAGAAATTTCGTAAAGCATCACTACTCGGAATACCTTTAGAA
TCTCATCATCGGATAAAATTTCTTTTCTTCACATTTTTATTACTTAGTATTAATATATTAATCAA
TTTTTATATATATTATTTAAAAAAAAGAAATTTTTATTTAAAAA
Found at i:6321798 original size:20 final size:20
Alignment explanation
Indices: 6321773--6321817 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
6321763 TTTTTTTTTC
6321773 ATTTTTTTATAT-TATTTCAT
1 ATTTTTTTAT-TGTATTTCAT
6321793 ATTTTTTTATTGTATTTCAT
1 ATTTTTTTATTGTATTTCAT
6321813 ATTTT
1 ATTTT
6321818 ATACTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (20 bp):
ATTTTTTTATTGTATTTCAT
Found at i:6321828 original size:20 final size:20
Alignment explanation
Indices: 6321769--6321828 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
6321759 TGTTTTTTTT
*
6321769 TTTCATTTTTTTATA-T-TA
1 TTTCATATTTTTATATTATA
* *
6321787 TTTCATATTTTTTTATTGTA
1 TTTCATATTTTTATATTATA
6321807 TTTCATA-TTTTATACTTATA
1 TTTCATATTTTTATA-TTATA
6321827 TT
1 TT
6321829 ATATATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 13 0.37
19 7 0.20
20 15 0.43
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTCATATTTTTATATTATA
Found at i:6322137 original size:49 final size:48
Alignment explanation
Indices: 6322012--6322338 Score: 359
Period size: 49 Copynumber: 6.9 Consensus size: 48
6322002 TTAAAATCTA
* * * *
6322012 AAAAAGACTCCTCTTAGCAGAGGCTCAACAACTTTAAAAAT-TTTATCTTG
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCT-T-TGG
* * *
6322062 AAAAAGGTTCCTCTCAGCAGAAGCTCAACAACTTTGAAATCTCGTTTGG
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC-TTTGG
* * *
6322111 AAAAGGGCCCCTTTCAGCAGAGGCTCAACAACTTTAAAA--TC-TT-G
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCTTTGG
* * *
6322155 AAAAAGACTCCTATCAGCAGAGGCTCAACGACTTTAAAATCTCATTTGG
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC-TTTGG
* *
6322204 -AAAAGAGCTCATCTCAGCAGAGGCTCAACAATTTTAAAA--TC-TT-G
1 AAAAAG-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCTTTGG
*
6322248 AAAAAGGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCTCATTTGG
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC-TTTGG
* *
6322297 AAAAAGGCTCCTCTCAACAGAGGTTCAACAACTTTAAAATCT
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCT
6322339 TGAAAAAGGC
Statistics
Matches: 234, Mismatches: 29, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
44 66 0.28
45 9 0.04
46 4 0.02
47 4 0.02
48 9 0.04
49 108 0.46
50 33 0.14
51 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (48 bp):
AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCTTTGG
Found at i:6322347 original size:93 final size:93
Alignment explanation
Indices: 6322012--6322350 Score: 464
Period size: 93 Copynumber: 3.6 Consensus size: 93
6322002 TTAAAATCTA
* * *
6322012 AAAAAGACTCCTCTTAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTGAAAAAGGTTCCTCTC
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT--AAA----ATCTTGAAAAAGGCTCCTCTC
* * * *
6322077 AGCAGAAGCTCAACAACTTTGAAATCTCGTTTGG
60 AGCAGAGGCTCAACGACTTTAAAATCTCATTTGG
* * * * *
6322111 AAAAGGGCCCCTTTCAGCAGAGGCTCAACAACTTTAAAATCTTGAAAAAGACTCCTATCAGCAGA
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTTGAAAAAGGCTCCTCTCAGCAGA
6322176 GGCTCAACGACTTTAAAATCTCATTTGG
66 GGCTCAACGACTTTAAAATCTCATTTGG
* *
6322204 -AAAAGAGCTCATCTCAGCAGAGGCTCAACAATTTTAAAATCTTGAAAAAGGCTCCTCTCAGCAG
1 AAAAAG-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTTGAAAAAGGCTCCTCTCAGCAG
6322268 AGGCTCAACGACTTTAAAATCTCATTTGG
65 AGGCTCAACGACTTTAAAATCTCATTTGG
* *
6322297 AAAAAGGCTCCTCTCAACAGAGGTTCAACAACTTTAAAATCTTGAAAAAGGCTC
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTTGAAAAAGGCTC
6322351 GCTCAACAAT
Statistics
Matches: 215, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
92 4 0.02
93 173 0.80
94 5 0.02
97 3 0.01
99 30 0.14
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (93 bp):
AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTTGAAAAAGGCTCCTCTCAGCAGA
GGCTCAACGACTTTAAAATCTCATTTGG
Found at i:6322461 original size:169 final size:176
Alignment explanation
Indices: 6322012--6322699 Score: 624
Period size: 169 Copynumber: 3.8 Consensus size: 176
6322002 TTAAAATCTA
* * * *
6322012 AAAAAGACTCCTCTTAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTGAAAAAGGTTCCTCTC
1 AAAAAGACTCATCTCAGCAGAGGCTCAACGACTTT--AAA----ATCTTGAAAAAGGCTCCTCTC
* * * * * * * * *
6322077 AGCAGAAGCTCAACAACTTTGAAATCTCGTTTGGAAAAGGGCCCCTTTCAGCAGAGGCTCAACAA
60 AGCAGAGGCTCAACGACTTTAAAATCTCATTTGGAAAAAGGCTCCTCTCAACAGAGGATCAACAA
* *
6322142 CTTTAAAATC-T-TGAAAAAGACTCCTATCAGCAGAGGCTCAACGACTTTAAAATCTCATTTG
125 CTTTAAAATCATCTGAAAAAG-C-GC--T-A-C--A-GCTCAACAACTTTAAAATC-C-TTTG
* * *
6322203 GAAAAGAGCTCATCTCAGCAGAGGCTCAACAATTTTAAAATCTTGAAAAAGGCTCCTCTCAGCAG
1 AAAAAGA-CTCATCTCAGCAGAGGCTCAACGACTTTAAAATCTTGAAAAAGGCTCCTCTCAGCAG
*
6322268 AGGCTCAACGACTTTAAAATCTCATTTGGAAAAAGGCTCCTCTCAACAGAGGTTCAACAACTTTA
65 AGGCTCAACGACTTTAAAATCTCATTTGGAAAAAGGCTCCTCTCAACAGAGGATCAACAACTTTA
*
6322333 AAATC-T-TGAAAAAG-GCT-C-GCTCAACAATTTTAAAAT-C-TTG
130 AAATCATCTGAAAAAGCGCTACAGCTCAACAACTTTAAAATCCTTTG
* * *
6322373 AAAAAGACTCATCTCAGCAGAGGCTCAACGACTTTAAAATCTTGAAAAAAGCTCATCTCAACAGA
1 AAAAAGACTCATCTCAGCAGAGGCTCAACGACTTTAAAATCTTGAAAAAGGCTCCTCTCAGCAGA
* * * *
6322438 GGCTCAACGACTTTAAAATCTCATCTTGG-AAATGACTCCTCTTAGCAGAGGATCAACAACTTTA
66 GGCTCAACGACTTTAAAATCTCAT-TTGGAAAAAGGCTCCTCTCAACAGAGGATCAACAACTTT-
*
6322502 AAAATCTCATCTGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAATCCATTTTG
129 AAAA--TCATCTGAAAAAG---CGCT--AC--A-GCTCAACAACTTTAAAATCC--TTTG
* * * * *
6322562 AAAAGGGCTCCTATCAGCAGAGGCTCAACGACTTTAAAATCTCATCTTAAAAATGGGCTCCTCTC
1 AAAAAGACTCATCTCAGCAGAGGCTCAACGACTTTAAAA--TC-T-TGAAAAA--GGCTCCTCTC
* * * *
6322627 AGCAGAGGCTCAACGATTTTAAAATC-CATTTTGAAAAGGGCTCCTCTCAACAGAGGCTCAACAA
60 AGCAGAGGCTCAACGACTTTAAAATCTCATTTGGAAAAAGGCTCCTCTCAACAGAGGATCAACAA
6322691 CTTTAAAAT
125 CTTTAAAAT
6322700 TTTATCTTGA
Statistics
Matches: 423, Mismatches: 45, Indels: 58
0.80 0.09 0.11
Matches are distributed among these distances:
169 106 0.25
170 17 0.04
172 3 0.01
173 1 0.00
174 24 0.06
178 3 0.01
181 2 0.00
183 1 0.00
185 17 0.04
186 96 0.23
189 38 0.09
190 3 0.01
191 9 0.02
192 26 0.06
193 13 0.03
194 32 0.08
195 32 0.08
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (176 bp):
AAAAAGACTCATCTCAGCAGAGGCTCAACGACTTTAAAATCTTGAAAAAGGCTCCTCTCAGCAGA
GGCTCAACGACTTTAAAATCTCATTTGGAAAAAGGCTCCTCTCAACAGAGGATCAACAACTTTAA
AATCATCTGAAAAAGCGCTACAGCTCAACAACTTTAAAATCCTTTG
Found at i:6322465 original size:125 final size:123
Alignment explanation
Indices: 6322226--6322458 Score: 373
Period size: 125 Copynumber: 1.9 Consensus size: 123
6322216 CTCAGCAGAG
* *
6322226 GCTCAACAATTTTAAAATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCTC
1 GCTCAACAATTTTAAAATCTTGAAAAAGACTCATCTCAGCAGAGGCTCAACGACTTTAAAA-CTC
* * *
6322291 ATTTGGAAAAAGGCTCCTCTCAACAGAGGTTCAACAACTTTAAAATCTTGAAAAAGGCTC
65 A-TTGGAAAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCTTGAAAAAGGCTC
6322351 GCTCAACAATTTTAAAATCTTGAAAAAGACTCATCTCAGCAGAGGCTCAACGACTTTAAAA-TC-
1 GCTCAACAATTTTAAAATCTTGAAAAAGACTCATCTCAGCAGAGGCTCAACGACTTTAAAACTCA
*
6322414 TT-GAAAAAAGCTCATCTCAACAGAGGCTCAACGACTTTAAAATCT
66 TTGGAAAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCT
6322459 CATCTTGGAA
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
120 39 0.38
121 2 0.02
123 2 0.02
125 59 0.58
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (123 bp):
GCTCAACAATTTTAAAATCTTGAAAAAGACTCATCTCAGCAGAGGCTCAACGACTTTAAAACTCA
TTGGAAAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCTTGAAAAAGGCTC
Found at i:6322651 original size:98 final size:95
Alignment explanation
Indices: 6322351--6322804 Score: 485
Period size: 98 Copynumber: 4.8 Consensus size: 95
6322341 AAAAAGGCTC
* * * * *
6322351 GCTCAACAATTTTAAAAT-C---TTGAAAAAGACTCATCTCAGCAGAGGCTCAACGACTTTAAAA
1 GCTCAACAACTTTAAAATCCATTTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
** *
6322412 TCT--T-GAAAAAAGCTCATCTCAACAGAG
66 TCTCATCTTAAAAAGCTCCTCTCAACAGAG
* * * * * * *
6322439 GCTCAACGACTTTAAAATCTCATCTTGGAAATGACTCCTCTTAGCAGAGGATCAACAACTTTAAA
1 GCTCAACAACTTTAAAATC-CATTTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AA
* *
6322504 AATCTCATCTGAAAAAGCTCCTCTCAACAAAG
64 AATCTCATCTTAAAAAGCTCCTCTCAACAGAG
* *
6322536 GCTCAACAACTTTAAAATCCATTTTGAAAAGGGCTCCTATCAGCAGAGGCTCAACGACTTTAAAA
1 GCTCAACAACTTTAAAATCCATTTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
*
6322601 TCTCATCTTAAAAATGGGCTCCTCTCAGCAGAG
66 TCTCATCTTAAAAA---GCTCCTCTCAACAGAG
* * *
6322634 GCTCAACGATTTTAAAATCCATTTTGAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
1 GCTCAACAACTTTAAAATCCATTTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
* * *
6322699 TTTTATCTTGAAAAAGCTCCTCTCAGCAGAG
66 TCTCATCTT-AAAAAGCTCCTCTCAACAGAG
* * * *
6322730 GTTCAACAACTTTAAAAATTTCATCTTGGAAAA--GCTCCTCTCAGCAGAGGCTTAACAACTTTA
1 GCTCAACAACTTT-AAAA-TCCAT-TTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTA
*
6322793 AAATTTCATCTT
63 AAATCTCATCTT
6322805 TTCTCAAACT
Statistics
Matches: 311, Mismatches: 39, Indels: 23
0.83 0.10 0.06
Matches are distributed among these distances:
88 16 0.05
90 1 0.00
93 32 0.10
94 7 0.02
95 17 0.05
96 61 0.20
97 80 0.26
98 85 0.27
99 12 0.04
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (95 bp):
GCTCAACAACTTTAAAATCCATTTTGAAAAGGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
TCTCATCTTAAAAAGCTCCTCTCAACAGAG
Found at i:6322694 original size:146 final size:140
Alignment explanation
Indices: 6322351--6322796 Score: 492
Period size: 145 Copynumber: 3.1 Consensus size: 140
6322341 AAAAAGGCTC
* * * *
6322351 GCTCAACAATTTTAAAAT-C--TTGAAAAAGACTCATCTCAGCAGAGGCTCAACGACTTTAAAAT
1 GCTCAACAATTTTAAAATCCATTTG-AAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAT
* * * *
6322413 C--TTGAAAAAAGCTCATCTCAACAGAGGCTCAACGACTTTAAAATCTCATCTTGGAAATGACTC
65 CATTTG-AAAAAGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCTCATCTTGAAAATGGCTC
*
6322476 CTCTTAGCAGAG
129 CTCTCAGCAGAG
* * * * *
6322488 GATCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAA
1 GCTCAACAA-TTTTAAAATC-CATTTGAAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
* * *
6322553 TCCATTTTGAAAAGGGCTCCTATCAGCAGAGGCTCAACGACTTTAAAATCTCATCTTAAAAATGG
64 T-CA-TTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCTCATCTTGAAAAT-G
6322618 GCTCCTCTCAGCAGAG
125 GCTCCTCTCAGCAGAG
*
6322634 GCTCAACGATTTTAAAATCCATTTTGAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
1 GCTCAACAATTTTAAAATCCA-TTTGAAAA-GGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
* * * *
6322699 TTTTATCTTGAAAAAGCTCCTCTCAGCAGAGGTTCAACAACTTTAAAAATTTCATCTTGGAAAA-
64 --TCAT-TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACGACTTT-AAAATCTCATCTT-GAAAAT
6322763 -GCTCCTCTCAGCAGAG
124 GGCTCCTCTCAGCAGAG
* *
6322779 GCTTAACAACTTTAAAAT
1 GCTCAACAATTTTAAAAT
6322797 TTCATCTTTT
Statistics
Matches: 258, Mismatches: 33, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
137 8 0.03
138 8 0.03
140 1 0.00
141 33 0.13
142 3 0.01
144 6 0.02
145 93 0.36
146 81 0.31
147 20 0.08
148 5 0.02
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (140 bp):
GCTCAACAATTTTAAAATCCATTTGAAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATC
ATTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCTCATCTTGAAAATGGCTCCT
CTCAGCAGAG
Found at i:6322804 original size:48 final size:48
Alignment explanation
Indices: 6322367--6322804 Score: 462
Period size: 48 Copynumber: 9.1 Consensus size: 48
6322357 CAATTTTAAA
* *
6322367 ATCTTGAAAAAGACTCATCTCAGCAGAGGCTCAACGACTTT-AAA----
1 ATCTTGAAAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTC
* * * *
6322411 ATCTTGAAAAAAGCTCATCTCAACAGAGGCTCAACGACTTTAAAATCTC
1 ATCTTG-AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTC
* * * * *
6322460 ATCTTGGAAATGACTCCTCTTAGCAGAGGATCAACAACTTTAAAAATCTC
1 ATCTTGAAAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATTTC
* * *
6322510 ATC-TGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTTAAAA-TCC
1 ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTC
* * * * *
6322556 ATTTTGAAAAGGGCTCCTATCAGCAGAGGCTCAACGACTTTAAAATCTC
1 ATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTC
* * *
6322605 ATCTT-AAAAATGGGCTCCTCTCAGCAGAGGCTCAACGATTTTAAAA-TCC
1 ATCTTGAAAAA---GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTC
* * * *
6322654 ATTTTGAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTT
1 ATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTC
*
6322703 ATCTTGAAAAAGCTCCTCTCAGCAGAGGTTCAACAACTTTAAAAATTTC
1 ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATTTC
* *
6322752 ATCTTGGAAAAGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAATTTC
1 ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTC
6322800 ATCTT
1 ATCTT
6322805 TTCTCAAACT
Statistics
Matches: 331, Mismatches: 45, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
44 33 0.10
45 9 0.03
46 3 0.01
47 10 0.03
48 131 0.40
49 99 0.30
50 46 0.14
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (48 bp):
ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTC
Found at i:6331696 original size:10 final size:9
Alignment explanation
Indices: 6331671--6331695 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6331661 AAAAAAAATA
6331671 TTTTTTTAT
1 TTTTTTTAT
6331680 TTTTTTTAT
1 TTTTTTTAT
6331689 TTTTTTT
1 TTTTTTT
6331696 TTGTTCTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:6333202 original size:19 final size:18
Alignment explanation
Indices: 6333163--6333228 Score: 96
Period size: 19 Copynumber: 3.6 Consensus size: 18
6333153 ATTTATTATT
**
6333163 TTTAAAAAAGAAATTTTA
1 TTTAAAAATTAAATTTTA
6333181 TTTAAAAATTAAATTTTAA
1 TTTAAAAATTAAATTTT-A
6333200 TTTAAAAATTAAATTTTTA
1 TTTAAAAATTAAA-TTTTA
6333219 TTTAAAAATT
1 TTTAAAAATT
6333229 TGAAGAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
18 15 0.34
19 25 0.57
20 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTAAAAATTAAATTTTA
Found at i:6334620 original size:10 final size:10
Alignment explanation
Indices: 6334603--6334657 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
6334593 TGTTCTATTC
6334603 TATTTTTTT-
1 TATTTTTTTA
6334612 TATTTTTTTA
1 TATTTTTTTA
* *
6334622 TATTATTTCA
1 TATTTTTTTA
*
6334632 TATTATTTTA
1 TATTTTTTTA
*
6334642 T-TATATTTTA
1 TAT-TTTTTTA
6334652 TATTTT
1 TATTTT
6334658 ATACTTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
9 10 0.26
10 28 0.72
11 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (10 bp):
TATTTTTTTA
Found at i:6334640 original size:20 final size:20
Alignment explanation
Indices: 6334612--6334668 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
6334602 CTATTTTTTT
*
6334612 TATTTTTTTA-TATTATTTCA
1 TATTATTTTATTA-TATTTCA
*
6334632 TATTATTTTATTATATTTTA
1 TATTATTTTATTATATTTCA
*
6334652 TATT-TTATACTTATATT
1 TATTATTTTA-TTATATT
6334669 ACGTATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 4 0.12
20 26 0.81
21 2 0.06
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTATTTTATTATATTTCA
Found at i:6342233 original size:2 final size:2
Alignment explanation
Indices: 6342228--6342257 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6342218 TGAATGTTTA
6342228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6342258 CTACACTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6370563 original size:67 final size:67
Alignment explanation
Indices: 6370455--6370588 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
6370445 GAAGACCAAC
* *
6370455 AAGTAATAATCGGAAACCTAAACTAAAGCACTGTAGAAGAATGGTATTTAAATGATTATATTTCG
1 AAGTAATAATCGGAAACCAAAACTAAAGCACTGTAAAAGAATGGTATTTAAATGATTATATTTCG
6370520 TA
66 TA
*
6370522 AAGTAATAATCGGGAACCAAAACTAAAGCACTGTAAAAGAATGGTATTTAAATGATTATATTTCG
1 AAGTAATAATCGGAAACCAAAACTAAAGCACTGTAAAAGAATGGTATTTAAATGATTATATTTCG
6370587 TA
66 TA
6370589 GTGTTAGAAC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.29
Consensus pattern (67 bp):
AAGTAATAATCGGAAACCAAAACTAAAGCACTGTAAAAGAATGGTATTTAAATGATTATATTTCG
TA
Found at i:6373802 original size:29 final size:29
Alignment explanation
Indices: 6373753--6373826 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
6373743 AAGTATTAAA
**
6373753 AATA-TTATTT-ATAATTTAAATTTAATT
1 AATATTTATTTAATAATAGAAATTTAATT
* *
6373780 GATATTTATTTAATAATAGAAATTTTATT
1 AATATTTATTTAATAATAGAAATTTAATT
* *
6373809 AATATTTATCTAAAAATA
1 AATATTTATTTAATAATA
6373827 TATATCAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 3 0.08
28 6 0.16
29 29 0.76
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (29 bp):
AATATTTATTTAATAATAGAAATTTAATT
Found at i:6376853 original size:216 final size:216
Alignment explanation
Indices: 6376474--6376906 Score: 758
Period size: 216 Copynumber: 2.0 Consensus size: 216
6376464 AAATTTTGGA
*
6376474 TATTGGATTATGGAATTATGGAATCCTGGAATTTGAGAGGAGGTCTAAAAAAATTTCCAAGGTTT
1 TATTGGATTATGGAATTATGGAATCCTAGAATTTGAGAGGAGGTCTAAAAAAATTTCCAAGGTTT
* * * *
6376539 GGATCTTGTTTGAGGGAAATTGTGATTTTTGGACTTGTTTGAATTTTTTAGAAGTTAGTACTTTG
66 AGATCTTGTTTGAGGGAAATTGTGATTTCTAGACTTGTTTGAATTTTTTAGAAGTTAATACTTTG
6376604 ATTCTCAGTTTATAGTTTGGATTATGAAATTATGAGATTTAGAGTTTTGATTTCTAGCTTTGGGT
131 ATTCTCAGTTTATAGTTTGGATTATGAAATTATGAGATTTAGAGTTTTGATTTCTAGCTTTGGGT
* *
6376669 CTGGGATTTTCTCTTTGGATT
196 CTGGGATTTTCTCATTAGATT
* *
6376690 TATTGGATTATGGAATTATGGAATCCTAGAATTTGAGAGGGGGTCTAAAAAAATTTTCAAGGTTT
1 TATTGGATTATGGAATTATGGAATCCTAGAATTTGAGAGGAGGTCTAAAAAAATTTCCAAGGTTT
6376755 AGATCTTGTTTGAGGGAAATTGTGATTTCTAGACTTGTTTGAATTTTTTAGAAGTTAATACTTTG
66 AGATCTTGTTTGAGGGAAATTGTGATTTCTAGACTTGTTTGAATTTTTTAGAAGTTAATACTTTG
* *
6376820 ATTCTCAGTTTATAGTTTGGATTATGGAATTATGAGATTTAGAGTTTTGATTTCTAGGTTTGGGT
131 ATTCTCAGTTTATAGTTTGGATTATGAAATTATGAGATTTAGAGTTTTGATTTCTAGCTTTGGGT
*
6376885 TTGGGATTTTCTCATTAGATT
196 CTGGGATTTTCTCATTAGATT
6376906 T
1 T
6376907 TGGTTTTCGA
Statistics
Matches: 205, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
216 205 1.00
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (216 bp):
TATTGGATTATGGAATTATGGAATCCTAGAATTTGAGAGGAGGTCTAAAAAAATTTCCAAGGTTT
AGATCTTGTTTGAGGGAAATTGTGATTTCTAGACTTGTTTGAATTTTTTAGAAGTTAATACTTTG
ATTCTCAGTTTATAGTTTGGATTATGAAATTATGAGATTTAGAGTTTTGATTTCTAGCTTTGGGT
CTGGGATTTTCTCATTAGATT
Found at i:6376953 original size:17 final size:17
Alignment explanation
Indices: 6376918--6376956 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6376908 GGTTTTCGAA
*
6376918 TTTGATTTTAGATTTGT
1 TTTGATTTTAGATTAGT
* *
6376935 TTTGATTTTGGGTTAGT
1 TTTGATTTTAGATTAGT
6376952 TTTGA
1 TTTGA
6376957 GAATGTTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (17 bp):
TTTGATTTTAGATTAGT
Found at i:6377474 original size:20 final size:20
Alignment explanation
Indices: 6377415--6377465 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
6377405 TTTCTCTTTT
*
6377415 TTTTTATTTTCTAA-TT-TGA
1 TTTTT-TTTTCTAATTTCTTA
6377434 TTTTTTTTTCTAATTTCTTA
1 TTTTTTTTTCTAATTTCTTA
6377454 TTTTTTTTTCTA
1 TTTTTTTTTCTA
6377466 TTTTTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 8 0.28
19 7 0.24
20 14 0.48
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTTTTTTCTAATTTCTTA
Found at i:6377651 original size:21 final size:22
Alignment explanation
Indices: 6377626--6377713 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 22
6377616 CACATAATAT
6377626 TTTATATTA-ATTGCATGATAA
1 TTTATATTATATTGCATGATAA
*
6377647 TTTATTTATTATATTATTGCATGATAG
1 TTTA--TA-T-TA-TATTGCATGATAA
* *
6377674 CTTATGTT-TATTGCATGAT-A
1 TTTATATTATATTGCATGATAA
6377694 TATTATATTATTATTGCATG
1 T-TTATATTA-TATTGCATG
6377714 TTATTATTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
21 21 0.40
23 12 0.23
24 2 0.04
25 3 0.06
27 14 0.27
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (22 bp):
TTTATATTATATTGCATGATAA
Found at i:6377678 original size:23 final size:22
Alignment explanation
Indices: 6377656--6377713 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
6377646 ATTTATTTAT
*
6377656 TATATTATTGCATGATAGCTTA
1 TATATTATTGCATGATAGATTA
* *
6377678 TGT-TTATTGCATGATATATTA
1 TATATTATTGCATGATAGATTA
6377699 TATTATTATTGCATG
1 TA-TATTATTGCATG
6377714 TTATTATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 17 0.57
22 3 0.10
23 10 0.33
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (22 bp):
TATATTATTGCATGATAGATTA
Found at i:6377888 original size:16 final size:17
Alignment explanation
Indices: 6377864--6377899 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6377854 TGAAGCACTT
6377864 AATAAA-TTTTTAAAAA
1 AATAAATTTTTTAAAAA
*
6377880 AATATATTTTTTAAAAA
1 AATAAATTTTTTAAAAA
6377897 AAT
1 AAT
6377900 CTTACCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAAATTTTTTAAAAA
Found at i:6377927 original size:37 final size:38
Alignment explanation
Indices: 6377876--6377964 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
6377866 TAAATTTTTA
* *
6377876 AAAAAATATATTTTTTA-AAAAAATCTTACCAACAGATT
1 AAAAGATA-ATTTTTGACAAAAAATCTTACCAACAGATT
* *
6377914 AAAAGATAATTTTTGACAGAAAATCTTACTAACAGATT
1 AAAAGATAATTTTTGACAAAAAATCTTACCAACAGATT
6377952 AAAAGAT-ATTTTT
1 AAAAGATAATTTTT
6377965 AAGAATAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
37 13 0.28
38 33 0.72
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (38 bp):
AAAAGATAATTTTTGACAAAAAATCTTACCAACAGATT
Found at i:6379706 original size:34 final size:33
Alignment explanation
Indices: 6379664--6379727 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
6379654 TACAAAATAC
* *
6379664 ATTTATTCATAAGTACTTAGATTCATGAATTTG
1 ATTTATTCACAAATACTTAGATTCATGAATTTG
* *
6379697 ATTTAATTCACAAATAGTTAGATTCGTGAAT
1 ATTT-ATTCACAAATACTTAGATTCATGAAT
6379728 AATTAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 4 0.15
34 22 0.85
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (33 bp):
ATTTATTCACAAATACTTAGATTCATGAATTTG
Found at i:6380487 original size:20 final size:20
Alignment explanation
Indices: 6380462--6380510 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
6380452 CAGCATGGAT
6380462 GGGATCGATCCCCTCTAAAA
1 GGGATCGATCCCCTCTAAAA
6380482 GGGATCGATCCCCTCTAAAA
1 GGGATCGATCCCCTCTAAAA
6380502 GGGATCGAT
1 GGGATCGAT
6380511 TGGTTTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (20 bp):
GGGATCGATCCCCTCTAAAA
Found at i:6384781 original size:16 final size:16
Alignment explanation
Indices: 6384757--6384807 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
6384747 CTTGATGACA
*
6384757 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
6384773 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
6384789 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
6384805 TAT
1 TAT
6384808 GAGTTTGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:6387523 original size:17 final size:18
Alignment explanation
Indices: 6387501--6387555 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
6387491 ATGCCATGTA
*
6387501 TTTATTTT-TTATTTTAT
1 TTTATTTTATAATTTTAT
6387518 TTTATTTTATAATTTTA-
1 TTTATTTTATAATTTTAT
* *
6387535 TATATTTTATAAATTT-T
1 TTTATTTTATAATTTTAT
6387552 TTTA
1 TTTA
6387556 GATATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 25 0.78
18 7 0.22
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTTATAATTTTAT
Found at i:6388294 original size:21 final size:21
Alignment explanation
Indices: 6388270--6388346 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 21
6388260 CGCCCTCAGG
6388270 TTATATATAAATATATATTTA
1 TTATATATAAATATATATTTA
*
6388291 TTATTTATTTAATTATATATATTCTA
1 TTA--TATATAA--ATATATATT-TA
6388317 TTA-ATA-AAAT-TATTATTTA
1 TTATATATAAATATA-TATTTA
*
6388336 ATATAT-TAAAT
1 TTATATATAAAT
6388347 TAATAAATCC
Statistics
Matches: 45, Mismatches: 3, Indels: 17
0.69 0.05 0.26
Matches are distributed among these distances:
19 6 0.13
20 12 0.27
21 3 0.07
22 2 0.04
23 8 0.18
25 9 0.20
26 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATATATAAATATATATTTA
Found at i:6388660 original size:11 final size:11
Alignment explanation
Indices: 6388646--6388678 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6388636 TAATATATTT
6388646 TATTTATTATA
1 TATTTATTATA
6388657 TATTTA-TATA
1 TATTTATTATA
*
6388667 TATGTATTATA
1 TATTTATTATA
6388678 T
1 T
6388679 TAATAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
TATTTATTATA
Found at i:6388933 original size:16 final size:15
Alignment explanation
Indices: 6388914--6388952 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 15
6388904 GGCACCCATA
6388914 TTATTTTTTTCCTTTT
1 TTATTTTTTT-CTTTT
6388930 TTATATTTTTTCTTTT
1 TTAT-TTTTTTCTTTT
6388946 TTCATTT
1 TT-ATTT
6388953 ATTGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTTTTCTTTT
Found at i:6392516 original size:21 final size:21
Alignment explanation
Indices: 6392492--6392533 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6392482 TATGATTGCA
6392492 AGAA-CCAACAAAATTAAATTC
1 AGAATCCAA-AAAATTAAATTC
* *
6392513 AGAATTCAAAAAATTATATTC
1 AGAATCCAAAAAATTAAATTC
6392534 TTTCCTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (21 bp):
AGAATCCAAAAAATTAAATTC
Found at i:6392688 original size:25 final size:25
Alignment explanation
Indices: 6392653--6392704 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6392643 TTAGACAAAG
6392653 ATTTGTCAAGTTTTTAATCTGAATT
1 ATTTGTCAAGTTTTTAATCTGAATT
*
6392678 ATTTGTTAAGTTTTTAATCTGAATT
1 ATTTGTCAAGTTTTTAATCTGAATT
6392703 AT
1 AT
6392705 CCTACTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.54
Consensus pattern (25 bp):
ATTTGTCAAGTTTTTAATCTGAATT
Found at i:6393992 original size:13 final size:13
Alignment explanation
Indices: 6393974--6394025 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
6393964 AAAATATTTT
6393974 TATTAAATTAATA
1 TATTAAATTAATA
* *
6393987 TCTTAAATTAAAA
1 TATTAAATTAATA
6394000 TATTAAA-TAATA
1 TATTAAATTAATA
* *
6394012 AATT-TATTAATA
1 TATTAAATTAATA
6394024 TA
1 TA
6394026 ATAGATATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
11 1 0.03
12 13 0.42
13 17 0.55
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTAAATTAATA
Found at i:6394422 original size:41 final size:41
Alignment explanation
Indices: 6394365--6394449 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
6394355 TTGCAGCATA
6394365 TGAGTGCCCGTATTCAATTAGAATAAAATTTAATTTGTAAT
1 TGAGTGCCCGTATTCAATTAGAATAAAATTTAATTTGTAAT
6394406 TGAGTGCCCGTATTCAATTAGAATAAAATTTAATTTGTAAT
1 TGAGTGCCCGTATTCAATTAGAATAAAATTTAATTTGTAAT
6394447 TGA
1 TGA
6394450 TTGACATTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (41 bp):
TGAGTGCCCGTATTCAATTAGAATAAAATTTAATTTGTAAT
Found at i:6395062 original size:35 final size:36
Alignment explanation
Indices: 6394994--6395064 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
6394984 ATTGAAATAC
* *
6394994 TTATAAATTTTTGTTTGAAAAAATAAAAATATAAAA
1 TTATAAACTTTGGTTTGAAAAAATAAAAATATAAAA
*
6395030 TTATAAACTTTGGTTTGAAAAAAT-AAAGTATAAAA
1 TTATAAACTTTGGTTTGAAAAAATAAAAATATAAAA
6395065 AAAGTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 10 0.31
36 22 0.69
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (36 bp):
TTATAAACTTTGGTTTGAAAAAATAAAAATATAAAA
Found at i:6395067 original size:15 final size:14
Alignment explanation
Indices: 6395047--6395088 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
6395037 CTTTGGTTTG
6395047 AAAAAATAAAGTATA
1 AAAAAATAAAG-ATA
6395062 AAAAAAGTTAAA-ATA
1 AAAAAA--TAAAGATA
6395077 AAAAAATAAAGA
1 AAAAAATAAAGA
6395089 AACTCAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.17
14 1 0.04
15 15 0.62
17 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (14 bp):
AAAAAATAAAGATA
Found at i:6396064 original size:23 final size:22
Alignment explanation
Indices: 6396034--6396085 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
6396024 TAACTCAAGT
*
6396034 AAAAAAAAAGTTT-TAT-CTAAA
1 AAAAAAAAAATTTCTATAC-AAA
6396055 CAAAAAAAAAATTTCTATACAAA
1 -AAAAAAAAAATTTCTATACAAA
6396078 AAAAAAAA
1 AAAAAAAA
6396086 GCCAGCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 20 0.74
23 6 0.22
24 1 0.04
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAAAAAAATTTCTATACAAA
Found at i:6397125 original size:120 final size:117
Alignment explanation
Indices: 6396831--6397289 Score: 442
Period size: 118 Copynumber: 4.0 Consensus size: 117
6396821 TAAAATAATT
* * *
6396831 ATAAAATCACAAGTGGTAATTTTATTAAAAATATTTGCATAAAGAAATTTTCTAAAATATTCTAA
1 ATAAAATCACAAGTGGTAGTTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAATATTCTAA
* * * * * **
6396896 AAGTGTTATAAGTATTTTAGAATTTTTCAAGCATAAAAAATTATTAATAACT
66 AAGTGTTAGAAATATTTTAAAAATTTTCAAACATAAAAAATTATTAATAAAA
* *
6396948 ATAAAATCACAAGTGGT-GATTTTATTAAAAAATATTTACACAAAGAGATTTTCTAAAATACTCT
1 ATAAAATCACAAGTGGTAG-TTTTATT-AAAAATATTTACACAAAGAAATTTTCTAAAATATTCT
6397012 AAAAGTGTTAGAAATATTTTAAAAATTTTCAAACATGAAAAAAATTATTAATAAAAA
64 AAAAGTGTTAGAAATATTTTAAAAATTTTCAAACAT--AAAAAATTATTAAT-AAAA
* *
6397069 ATAAAATTACAAGTGGTAGTTTTATTAAAAATATTTACACAAAGAAATTTTTTAAAATATTCT--
1 ATAAAATCACAAGTGGTAGTTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAATATTCTAA
* *
6397132 AA-----AG---TATTTT-AGAATTTTGCAAA-AAAAAAATATTATTAATAAAAA
66 AAGTGTTAGAAATATTTTAAAAATTTT-CAAACATAAAAA-ATTATTAAT-AAAA
* * * * * * * * * *
6397177 ATAAAGTCACAAATGATAATTTTATTAAAAATATTCATATAAAGAAACTTTCT-AAGTATTTTAA
1 ATAAAATCACAAGTGGTAGTTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAATATTCTAA
* * ** * * *
6397241 AAGTCTTAAAAATAACTTAGAATTTTTCAAACACAAAAAATTTATTAAT
66 AAGTGTTAGAAATATTTTAAAAATTTTCAAACATAAAAAA-TTATTAAT
6397290 GGGATAGTAA
Statistics
Matches: 284, Mismatches: 37, Indels: 41
0.78 0.10 0.11
Matches are distributed among these distances:
107 12 0.04
108 57 0.20
109 10 0.04
110 10 0.04
113 2 0.01
114 1 0.00
117 33 0.12
118 85 0.30
120 48 0.17
121 25 0.09
122 1 0.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (117 bp):
ATAAAATCACAAGTGGTAGTTTTATTAAAAATATTTACACAAAGAAATTTTCTAAAATATTCTAA
AAGTGTTAGAAATATTTTAAAAATTTTCAAACATAAAAAATTATTAATAAAA
Found at i:6409152 original size:35 final size:35
Alignment explanation
Indices: 6409101--6409192 Score: 103
Period size: 35 Copynumber: 2.6 Consensus size: 35
6409091 TTTACCTTTT
* *
6409101 TTTATATTTTATTTTTTCAAACCAAAGTTTAAAAG
1 TTTAAATTTTATTTTTTCAAACCAAAGTATAAAAG
* * *
6409136 TTTAAATTTTATTTTTTCATACCTAAGTATACAAG
1 TTTAAATTTTATTTTTTCAAACCAAAGTATAAAAG
** *
6409171 TATTTCATTTTTTTTTTTCAAA
1 T-TTAAATTTTATTTTTTCAAA
6409193 AAATCAATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 31 0.66
36 16 0.34
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (35 bp):
TTTAAATTTTATTTTTTCAAACCAAAGTATAAAAG
Found at i:6411673 original size:104 final size:104
Alignment explanation
Indices: 6411558--6411770 Score: 399
Period size: 104 Copynumber: 2.0 Consensus size: 104
6411548 TTTTAGAATA
6411558 TATAAATGCTTTAGATCTCTTATATATTTTATTTTTTAGATTTTTGGTATGTAGTATATTACTAA
1 TATAAATGCTTTAGATCTCTTATATATTTTATTTTTTAGATTTTTGGTATGTAGTATATTACTAA
*
6411623 TCATGAGATTTGTTAAAATTCTCTTTATGTTTGCATCTT
66 TAATGAGATTTGTTAAAATTCTCTTTATGTTTGCATCTT
*
6411662 TATAAATGCTTTAGATCTCTTATATATTTTATTTTTTTGATTTTTGGTATGTAGTATATTACTAA
1 TATAAATGCTTTAGATCTCTTATATATTTTATTTTTTAGATTTTTGGTATGTAGTATATTACTAA
*
6411727 TAATGAGATTTGTTAAAATTCTCTTTATGTTTGCATTTT
66 TAATGAGATTTGTTAAAATTCTCTTTATGTTTGCATCTT
6411766 TATAA
1 TATAA
6411771 TTTTTTATTT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.54
Consensus pattern (104 bp):
TATAAATGCTTTAGATCTCTTATATATTTTATTTTTTAGATTTTTGGTATGTAGTATATTACTAA
TAATGAGATTTGTTAAAATTCTCTTTATGTTTGCATCTT
Found at i:6413142 original size:3 final size:3
Alignment explanation
Indices: 6413136--6413197 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
6413126 CTTGATGATT
6413136 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6413184 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
6413198 TCAATAATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6413739 original size:10 final size:9
Alignment explanation
Indices: 6413723--6413757 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
6413713 TAATTTTGTT
6413723 AATAAAAAA
1 AATAAAAAA
6413732 AATAAAAAA
1 AATAAAAAA
6413741 AAT--AAAA
1 AATAAAAAA
6413748 AATAAAAAA
1 AATAAAAAA
6413757 A
1 A
6413758 TATGTAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
9 17 0.71
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AATAAAAAA
Found at i:6413740 original size:8 final size:8
Alignment explanation
Indices: 6413727--6413759 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
6413717 TTTGTTAATA
6413727 AAAAAAAT
1 AAAAAAAT
6413735 AAAAAAA-
1 AAAAAAAT
6413742 ATAAAAAAT
1 A-AAAAAAT
6413751 AAAAAAAT
1 AAAAAAAT
6413759 A
1 A
6413760 TGTAGTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.04
8 21 0.91
9 1 0.04
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:6418498 original size:15 final size:15
Alignment explanation
Indices: 6418480--6418508 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6418470 AGATAAAAAA
6418480 AAAATAAAGAAAAGT
1 AAAATAAAGAAAAGT
6418495 AAAATAAAGAAAAG
1 AAAATAAAGAAAAG
6418509 AGAGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (15 bp):
AAAATAAAGAAAAGT
Found at i:6418892 original size:11 final size:11
Alignment explanation
Indices: 6418878--6418946 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 11
6418868 ATGAAAAATG
6418878 AGAAAAAGAAA
1 AGAAAAAGAAA
6418889 AG--AAAGATAA
1 AGAAAAAGA-AA
6418899 A-AAAAAGAAA
1 AGAAAAAGAAA
*
6418909 A-AAAAAGGAA
1 AGAAAAAGAAA
*
6418919 A-AAAATGAAAA
1 AGAAAAAG-AAA
6418930 ATGAAAAAG-AA
1 A-GAAAAAGAAA
6418941 AGAAAA
1 AGAAAA
6418947 TGAAGACTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
9 5 0.10
10 25 0.52
11 13 0.27
13 5 0.10
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:6418907 original size:26 final size:25
Alignment explanation
Indices: 6418878--6418946 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
6418868 ATGAAAAATG
6418878 AGAAAAAGAAAAGAAAGATAAA-AAAA
1 AGAAAAAGAAAAGAAA-A-AAAGAAAA
6418904 AGAAAAA-AAAAGGAAAAAAATGAAAA
1 AGAAAAAGAAAA-GAAAAAAA-GAAAA
6418930 ATGAAAAAG-AAAGAAAA
1 A-GAAAAAGAAAAGAAAA
6418947 TGAAGACTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
24 3 0.08
25 5 0.13
26 21 0.55
27 9 0.24
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (25 bp):
AGAAAAAGAAAAGAAAAAAAGAAAA
Found at i:6418946 original size:16 final size:16
Alignment explanation
Indices: 6418886--6418950 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
6418876 TGAGAAAAAG
6418886 AAAAGAAAGATAAA--A
1 AAAAGAAAGA-AAATGA
* *
6418901 AAAAGAAAAAAAAAGGA
1 AAAAG-AAAGAAAATGA
*
6418918 AAAA-AATGAAAAATGA
1 AAAAGAAAG-AAAATGA
6418934 AAAAGAAAGAAAATGA
1 AAAAGAAAGAAAATGA
6418950 A
1 A
6418951 GACTCAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 10 0.25
16 22 0.55
17 8 0.20
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (16 bp):
AAAAGAAAGAAAATGA
Found at i:6420114 original size:21 final size:21
Alignment explanation
Indices: 6420085--6420230 Score: 105
Period size: 21 Copynumber: 6.5 Consensus size: 21
6420075 CTGAATCCTC
*
6420085 AAATAAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* *
6420106 AAATGAGAATCTTTAAGACATTTT
1 AAATGAGAATCTTT--GA-GTCTT
* *
6420130 CAAATGAAAACCTTTGAGTCTT
1 -AAATGAGAATCTTTGAGTCTT
* *
6420152 AAATGAGAATCTTTAAGATATTTT
1 AAATGAGAATCTTT--GA-GTCTT
*
6420176 CAAATAAGAA-CATTTGAGTCTT
1 -AAATGAGAATC-TTTGAGTCTT
*
6420198 AAATGAGAATCTTTGAGTTTTTT
1 AAATGAGAATCTTTGAG--TCTT
6420221 AAATGAGAAT
1 AAATGAGAAT
6420231 TTTTAAGACG
Statistics
Matches: 97, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
21 39 0.40
22 7 0.07
23 21 0.22
24 7 0.07
25 23 0.24
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:6420145 original size:46 final size:46
Alignment explanation
Indices: 6420083--6420211 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
6420073 TCCTGAATCC
*
6420083 TCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTT
1 TCAAATAAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGACATTT
*
6420129 TCAAATGAA-AACCTTTGAGTCTTAAATGAGAATCTTTAAGATATTT
1 TCAAAT-AAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGACATTT
*
6420175 TCAAATAAGAACATTTGAGTCTTAAATGAGAATCTTT
1 TCAAATAAGAACCTTTGAGTCTTAAATGAGAATCTTT
6420212 GAGTTTTTTA
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
45 2 0.03
46 74 0.95
47 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (46 bp):
TCAAATAAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGACATTT
Found at i:6420245 original size:69 final size:70
Alignment explanation
Indices: 6420150--6420281 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 70
6420140 CCTTTGAGTC
* *
6420150 TTAAATGAGAATCTTTAAGATATTTTCAAATAAGAACATTTGAG-TCTTAAATGAGAATCTTTGA
1 TTAAATGAGAATCTTTAAGACATTTTCAAATAAGAACATTTGAGATCTTAAATGAGAAACTTTGA
6420214 GTTTT
66 GTTTT
* * * * * *
6420219 TTAAATGAGAATTTTTAAGACGTTTTCAAATATGAACCTTTGAGATTTTAAATGTGAAACTTT
1 TTAAATGAGAATCTTTAAGACATTTTCAAATAAGAACATTTGAGATCTTAAATGAGAAACTTT
6420282 AAGATTTATA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
69 39 0.72
70 15 0.28
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (70 bp):
TTAAATGAGAATCTTTAAGACATTTTCAAATAAGAACATTTGAGATCTTAAATGAGAAACTTTGA
GTTTT
Found at i:6420271 original size:22 final size:23
Alignment explanation
Indices: 6420241--6420307 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 23
6420231 TTTTAAGACG
*
6420241 TTTTCAAATATGAACCTTTGAGA
1 TTTTAAAATATGAACCTTTGAGA
* * *
6420264 TTTT-AAATGTGAAACTTTAAGA
1 TTTTAAAATATGAACCTTTGAGA
*
6420286 TTTATAAAATATGAGCCTTTGA
1 TTT-TAAAATATGAACCTTTGA
6420308 ACTCAAATGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
22 18 0.51
23 5 0.14
24 12 0.34
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
TTTTAAAATATGAACCTTTGAGA
Found at i:6420283 original size:47 final size:47
Alignment explanation
Indices: 6420208--6420307 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
6420198 AAATGAGAAT
* ** *
6420208 CTTTGAGTTTTTTAAATGAGAATTTTTAAGACGTTT-TCAAATATGAAC
1 CTTTGAGTATTTTAAATGAGAAACTTTAAGA--TTTATAAAATATGAAC
* *
6420256 CTTTGAG-ATTTTAAATGTGAAACTTTAAGATTTATAAAATATGAGC
1 CTTTGAGTATTTTAAATGAGAAACTTTAAGATTTATAAAATATGAAC
6420302 CTTTGA
1 CTTTGA
6420308 ACTCAAATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 3 0.07
46 16 0.36
47 19 0.42
48 7 0.16
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (47 bp):
CTTTGAGTATTTTAAATGAGAAACTTTAAGATTTATAAAATATGAAC
Found at i:6420307 original size:115 final size:112
Alignment explanation
Indices: 6420082--6420327 Score: 289
Period size: 115 Copynumber: 2.2 Consensus size: 112
6420072 GTCCTGAATC
*
6420082 CTCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAAAACCTTTGA
1 CTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAAAACCTTTGA
* * * *
6420147 GTCTTAAATGAGAATCTTTAAGATATTTTCAAATAAGAACATTTGAGT
66 GTCTTAAATGAGAAACTTTAAGATATTATAAAATAAGAACATTTGA-A
* * * * *
6420195 CTTAAATGAGAATCTTTGAGTTTTTTAAATGAGAATTTTTAAGACGTTTTCAAAT-ATGAACCTT
1 CTCAAATGAGAATCTTTGAG--TCTTAAATGAGAATCTTTAAGACATTTTCAAATGA-AAACCTT
* * * * *
6420259 TGAGATTTTAAATGTGAAACTTTAAGAT-TTATAAAATATGAGCCTTTGAA
63 TGAG-TCTTAAATGAGAAACTTTAAGATATTATAAAATAAGAACATTTGAA
*
6420309 CTCAAATGAGAAGCTTTGA
1 CTCAAATGAGAATCTTTGA
6420328 ACTTTTGGAT
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
113 18 0.16
114 18 0.16
115 56 0.50
116 20 0.18
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (112 bp):
CTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAAAACCTTTGA
GTCTTAAATGAGAAACTTTAAGATATTATAAAATAAGAACATTTGAA
Found at i:6420791 original size:41 final size:41
Alignment explanation
Indices: 6420727--6420875 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
6420717 GTTGAGGAGT
* *
6420727 TTTATTTTT-CAAAGTTATGGAGCCTCTAATTAGAGGAGCA
1 TTTATTTTTCCAAAGTTGTTGAGCCTCTAATTAGAGGAGCA
* * * *
6420767 TTTATTTTTCCAAAATCGTTGAGCCTTTTATTAGAGGAGCA
1 TTTATTTTTCCAAAGTTGTTGAGCCTCTAATTAGAGGAGCA
* * *
6420808 TTTATTTTT-CAAAGTTGTTGTGCCTCTATTTAGAAGAGCA
1 TTTATTTTTCCAAAGTTGTTGAGCCTCTAATTAGAGGAGCA
6420848 TTTATTTTTCCAAAGTTGTTGAGCCTCT
1 TTTATTTTTCCAAAGTTGTTGAGCCTCT
6420876 GTTTGGAGGA
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
40 42 0.45
41 51 0.55
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (41 bp):
TTTATTTTTCCAAAGTTGTTGAGCCTCTAATTAGAGGAGCA
Found at i:6420885 original size:81 final size:81
Alignment explanation
Indices: 6420727--6420887 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 81
6420717 GTTGAGGAGT
*
6420727 TTTATTTTTCAAAGTTATGGAGCCTCTAATTAGAGGAGCATTTATTTTTCCAAAATCGTTGAGCC
1 TTTATTTTTCAAAGTTATGGAGCCTCTAATTAGAAGAGCATTTATTTTTCCAAAATCGTTGAGCC
*
6420792 TTTTATTAGAGGAGCA
66 TTGTATTAGAGGAGCA
* * * * * *
6420808 TTTATTTTTCAAAGTTGTTGTGCCTCTATTTAGAAGAGCATTTATTTTTCCAAAGTTGTTGAGCC
1 TTTATTTTTCAAAGTTATGGAGCCTCTAATTAGAAGAGCATTTATTTTTCCAAAATCGTTGAGCC
*
6420873 TCTGT-TTGGAGGAGC
66 T-TGTATTAGAGGAGC
6420888 CTTGTTCATT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
81 68 0.97
82 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.42
Consensus pattern (81 bp):
TTTATTTTTCAAAGTTATGGAGCCTCTAATTAGAAGAGCATTTATTTTTCCAAAATCGTTGAGCC
TTGTATTAGAGGAGCA
Found at i:6420972 original size:43 final size:42
Alignment explanation
Indices: 6420911--6421152 Score: 208
Period size: 43 Copynumber: 5.7 Consensus size: 42
6420901 TAGCCTTTGA
*
6420911 TTAAATGAGCTTT-TTTATTTTTCAAAGTCATTGAACCTTTGT
1 TTAAA-GAGCTTTATTTATTTTTCAAAGTCATTGAACCTCTGT
* ** * *
6420953 TTAGAAGAGCATTATTTATTTTTTTAAGT-TTTTAAGCCTCTGT
1 TTA-AAGAGCTTTATTTATTTTTCAAAGTCATTGAA-CCTCTGT
* * *
6420996 TTAAAGGAGTTTTATTTATTTTTCAAAGTCGTTGAACCTTTGT
1 TTAAA-GAGCTTTATTTATTTTTCAAAGTCATTGAACCTCTGT
* * * *
6421039 TTATAGGAGC-CT-TTTATTTTTCAAAGT--TGTCAAGCCTCTGA
1 TTA-AAGAGCTTTATTTATTTTTCAAAGTCAT-TGAA-CCTCTGT
*
6421080 TTAAATGAGCTTTATTTATTTTTTAAAGTCATTGAACCTCTGT
1 TTAAA-GAGCTTTATTTATTTTTCAAAGTCATTGAACCTCTGT
* *
6421123 TTAGAGGAGCTTTGTTTACTTTTTCAAAGT
1 TTA-AAGAGCTTTATTTA-TTTTTCAAAGT
6421153 TTTAGAGCCT
Statistics
Matches: 158, Mismatches: 27, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
39 1 0.01
40 4 0.03
41 27 0.17
42 17 0.11
43 89 0.56
44 19 0.12
45 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.48
Consensus pattern (42 bp):
TTAAAGAGCTTTATTTATTTTTCAAAGTCATTGAACCTCTGT
Found at i:6421094 original size:84 final size:86
Alignment explanation
Indices: 6420902--6421153 Score: 330
Period size: 84 Copynumber: 3.0 Consensus size: 86
6420892 TTCATTTTTT
* *
6420902 AGCCTTTGATTAAATGAGCTTT-TTTATTTTTCAAAGTCATTGAACCTTTGTTTAGAAGAGCATT
1 AGCCTCTGATTAAATGAGCTTTATTTATTTTTCAAAGTCATTGAACCTTTGTTTAGAGGAGCATT
** * *
6420966 ATTTATTTTTTTAAGTTTTTA
66 ATTTATTTTTCAAAGTTGTCA
* * * * * *
6420987 AGCCTCTGTTTAAAGGAGTTTTATTTATTTTTCAAAGTCGTTGAACCTTTGTTTATAGGAGC-CT
1 AGCCTCTGATTAAATGAGCTTTATTTATTTTTCAAAGTCATTGAACCTTTGTTTAGAGGAGCATT
6421051 -TTTATTTTTCAAAGTTGTCA
66 ATTTATTTTTCAAAGTTGTCA
* * *
6421071 AGCCTCTGATTAAATGAGCTTTATTTATTTTTTAAAGTCATTGAACCTCTGTTTAGAGGAGCTTT
1 AGCCTCTGATTAAATGAGCTTTATTTATTTTTCAAAGTCATTGAACCTTTGTTTAGAGGAGCATT
*
6421136 GTTTACTTTTTCAAAGTT
66 ATTTA-TTTTTCAAAGTT
6421154 TTAGAGCCTC
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
84 71 0.50
85 20 0.14
86 40 0.28
87 12 0.08
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (86 bp):
AGCCTCTGATTAAATGAGCTTTATTTATTTTTCAAAGTCATTGAACCTTTGTTTAGAGGAGCATT
ATTTATTTTTCAAAGTTGTCA
Found at i:6421182 original size:84 final size:82
Alignment explanation
Indices: 6420726--6421178 Score: 301
Period size: 84 Copynumber: 5.5 Consensus size: 82
6420716 TGTTGAGGAG
** * * * * *
6420726 TTTTATTTTTCAAAGTTATGGAGCCTCTAATTAGAGGAG--CATTTATTTTTCCAAAATCGTTGA
1 TTTTATTTTTCAAAGTT-TTAAGCCTCTATTTAAAGGAGTTTATTTATTTTT-CAAAGTCATTGA
*
6420789 GCCTTT-TATTAGAGGAGC-
64 ACCTTTGT-TTAGAGGAGCT
* ** * **
6420807 ATTTATTTTTCAAAGTTGTTGTGCCTCTATTTAGAA-GAG--CATTTATTTTTCCAAAGTTGTTG
1 TTTTATTTTTCAAAGTT-TTAAGCCTCTATTTA-AAGGAGTTTATTTATTTTT-CAAAGTCATTG
* * *
6420869 AGCCTCTGTTTGGAGGAGC-
63 AACCTTTGTTTAGAGGAGCT
* * * * * *
6420888 ----CTTGTTC--ATTTTTTAGCCTTTGA-TTAAATGAGCTTT-TTTATTTTTCAAAGTCATTGA
1 TTTTATTTTTCAAAGTTTTAAGCCTCT-ATTTAAAGGAG-TTTATTTATTTTTCAAAGTCATTGA
*
6420945 ACCTTTGTTTAGAAGAGCAT
64 ACCTTTGTTTAGAGGAGC-T
** * *
6420965 TATTTATTTTTTTAAGTTTTTAAGCCTCTGTTTAAAGGAGTTTTATTTATTTTTCAAAGTCGTTG
1 T-TTTATTTTTCAAAG-TTTTAAGCCTCTATTTAAAGGAG-TTTATTTATTTTTCAAAGTCATTG
* *
6421030 AACCTTTGTTTATAGGAGCC
63 AACCTTTGTTTAGAGGAGCT
* * *
6421050 TTTTATTTTTCAAAGTTGTCAAGCCTCTGA-TTAAATGAGCTTTATTTATTTTTTAAAGTCATTG
1 TTTTATTTTTCAAAGTT-TTAAGCCTCT-ATTTAAAGGAG-TTTATTTATTTTTCAAAGTCATTG
*
6421114 AACCTCTGTTTAGAGGAGCTT
63 AACCTTTGTTTAGAGGAGC-T
*
6421135 TGTTTACTTTTTCAAAGTTTTAGAGCCTCTATTTAGAGGAGTTT
1 T-TTTA-TTTTTCAAAGTTTTA-AGCCTCTATTTAAAGGAGTTT
6421179 TTATGTTATG
Statistics
Matches: 296, Mismatches: 50, Indels: 47
0.75 0.13 0.12
Matches are distributed among these distances:
73 2 0.01
74 13 0.04
75 28 0.09
76 9 0.03
77 5 0.02
81 67 0.23
82 6 0.02
83 2 0.01
84 69 0.23
85 23 0.08
86 46 0.16
87 26 0.09
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.46
Consensus pattern (82 bp):
TTTTATTTTTCAAAGTTTTAAGCCTCTATTTAAAGGAGTTTATTTATTTTTCAAAGTCATTGAAC
CTTTGTTTAGAGGAGCT
Found at i:6421808 original size:13 final size:13
Alignment explanation
Indices: 6421787--6421821 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
6421777 TAAATTTAAA
6421787 AAAAT-AAAAAAT
1 AAAATAAAAAAAT
6421799 AAAATAAAAAAAT
1 AAAATAAAAAAAT
6421812 AAAATAAAAA
1 AAAATAAAAA
6421822 TTTGAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:6430070 original size:12 final size:12
Alignment explanation
Indices: 6430053--6430125 Score: 58
Period size: 12 Copynumber: 5.8 Consensus size: 12
6430043 TGCTTGAAAT
6430053 AAAAAAAAAAAG
1 AAAAAAAAAAAG
6430065 AAAAAAAATGAAAATG
1 -AAAAAAA--AAAA-G
** *
6430081 AAAATGAAAATG
1 AAAAAAAAAAAG
*
6430093 AAAAAATAAAA-
1 AAAAAAAAAAAG
*
6430104 AAAGAAAAAAAG
1 AAAAAAAAAAAG
6430116 AAAAAAAAAA
1 AAAAAAAAAA
6430126 GTGAATGAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
11 9 0.20
12 17 0.37
13 10 0.22
15 9 0.20
16 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:6431251 original size:43 final size:42
Alignment explanation
Indices: 6431140--6431423 Score: 290
Period size: 43 Copynumber: 6.6 Consensus size: 42
6431130 TCAATGAGTA
* * *
6431140 ATTTATTTTTCAAAGTTG-TGATGCCTCTGTTTAGAGGAG--TA
1 ATTTA-TTTTCAAAGTCGTTGA-GCCTCTGATTAGAGGAGCTTT
** *
6431181 ATTTATTTTCAAAAGTTTTTTAGCCTCTGATTAGAGGAGCTTT
1 ATTTATTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
*
6431224 GTTTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
1 -ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * * *
6431267 ATTCATTTTCAAAGTCGTTGAACCTCTTATTAGAGAAGCTTT
1 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* *
6431309 ATTTATGTTTTTCAAAGGCGTTGAGCCTCTGATTAGAGGAGCCTT
1 ATTTA---TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* *
6431354 ATTTATTTTTCAAAGTCGTTGAGCCTTTAATTAGAGGAGCTTT
1 ATTTA-TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* *
6431397 GTTT-TTGTTTATAA-TCGTTGAGCCTCT
1 ATTTATT-TTCA-AAGTCGTTGAGCCTCT
6431424 ACTTAGAAGA
Statistics
Matches: 207, Mismatches: 26, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
40 5 0.02
41 29 0.14
42 58 0.28
43 69 0.33
44 9 0.04
45 37 0.18
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (42 bp):
ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
Done.