Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 330 of 345
Found at i:110547871 original size:12 final size:11
Alignment explanation
Indices: 110547854--110547912 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 11
110547844 TACTACTATT
110547854 AATAATAATAA
1 AATAATAATAA
110547865 GAATAAT-AT-A
1 -AATAATAATAA
*
110547875 AATAATAGTAA
1 AATAATAATAA
110547886 ATATAATAATATTA
1 A-ATAATAATA--A
*
110547900 AATAATATTAA
1 AATAATAATAA
110547911 AA
1 AA
110547913 GTGATTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 7 0.18
12 14 0.36
13 8 0.21
14 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
AATAATAATAA
Found at i:110547893 original size:15 final size:15
Alignment explanation
Indices: 110547855--110547903 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
110547845 ACTACTATTA
*
110547855 ATAATAATAAGAATAAT
1 ATAATAAT-AGTA-AAT
110547872 ATAAATAATAGTAAAT
1 AT-AATAATAGTAAAT
*
110547888 ATAATAATATTAAAT
1 ATAATAATAGTAAAT
110547903 A
1 A
110547904 ATATTAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 13 0.45
16 5 0.17
17 5 0.17
18 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAATAATAGTAAAT
Found at i:110548466 original size:13 final size:13
Alignment explanation
Indices: 110548450--110548479 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
110548440 CCGTCGCCGG
110548450 CACCTGCGCCCGC
1 CACCTGCGCCCGC
110548463 CACCTGCGCCCGC
1 CACCTGCGCCCGC
110548476 CACC
1 CACC
110548480 GTACACGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.63, G:0.20, T:0.07
Consensus pattern (13 bp):
CACCTGCGCCCGC
Found at i:110549050 original size:23 final size:23
Alignment explanation
Indices: 110549050--110549106 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
110549040 TTTAATGTGT
*
110549050 TGGGTTTTGGGGTTTAATGTAAA
1 TGGGTTTTGGGATTTAATGTAAA
*
110549073 TGGGTTTTGGGATTTAATGTCAA
1 TGGGTTTTGGGATTTAATGTAAA
110549096 TGGGTTTTGGG
1 TGGGTTTTGGG
110549107 GTTGGGCTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.44
Consensus pattern (23 bp):
TGGGTTTTGGGATTTAATGTAAA
Found at i:110574018 original size:25 final size:25
Alignment explanation
Indices: 110573958--110574008 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
110573948 CCTCGAAAGC
110573958 AACTAATTTATGGTATTTAGATTCG
1 AACTAATTTATGGTATTTAGATTCG
110573983 AACTAATTTATGGTATTTAGATTCG
1 AACTAATTTATGGTATTTAGATTCG
110574008 A
1 A
110574009 GTGCGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (25 bp):
AACTAATTTATGGTATTTAGATTCG
Found at i:110582704 original size:6 final size:6
Alignment explanation
Indices: 110582693--110582729 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
110582683 TAACATTGTA
*
110582693 CCATAT CCATAT CCATAT CCATAT CCATAT CTATAT C
1 CCATAT CCATAT CCATAT CCATAT CCATAT CCATAT C
110582730 AAGATCAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (6 bp):
CCATAT
Found at i:110585697 original size:7 final size:7
Alignment explanation
Indices: 110585685--110585718 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
110585675 CTTTCAACAA
110585685 ATTTAAT
1 ATTTAAT
110585692 ATTTAAT
1 ATTTAAT
110585699 ATTTAAT
1 ATTTAAT
110585706 ATTTAAT
1 ATTTAAT
110585713 ATTTAA
1 ATTTAA
110585719 CAAACTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTTAAT
Found at i:110591690 original size:22 final size:21
Alignment explanation
Indices: 110591665--110591735 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 21
110591655 TATTATTAAT
110591665 TTTAAAATTTTTGAAATATATA
1 TTTAAAATTTTT-AAATATATA
110591687 TTTAAAATATTTTATTAATATATA
1 TTTAAAAT-TTTTA--AATATATA
*
110591711 TTTTTTAAA-TTTTAAATATATA
1 --TTTAAAATTTTTAAATATATA
110591733 TTT
1 TTT
110591736 TGAAATTACT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
20 3 0.07
22 17 0.40
23 4 0.09
24 13 0.30
26 6 0.14
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
TTTAAAATTTTTAAATATATA
Found at i:110591704 original size:13 final size:13
Alignment explanation
Indices: 110591671--110591720 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
110591661 TAATTTTAAA
*
110591671 ATTTTTGAAATAT
1 ATTTTTTAAATAT
*
110591684 A-TATTTAAA-AT
1 ATTTTTTAAATAT
110591695 ATTTTATTAATATAT
1 ATTTT-TTAA-ATAT
110591710 ATTTTTTAAAT
1 ATTTTTTAAAT
110591721 TTTAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 3 0.10
12 8 0.27
13 7 0.23
14 5 0.17
15 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
ATTTTTTAAATAT
Found at i:110591726 original size:34 final size:34
Alignment explanation
Indices: 110591687--110591823 Score: 120
Period size: 34 Copynumber: 3.9 Consensus size: 34
110591677 GAAATATATA
110591687 TTTAAA-ATATTTTATTAATATATATTTTTTAAAT
1 TTTAAATATATTTTATTAATAT-TATTTTTTAAAT
*
110591721 TTTAAATATATATTT-TGAA-ATTACTTTTTTAAAT
1 TTTAAATATAT-TTTATTAATATTA-TTTTTTAAAT
* *
110591755 TTTAAATATTATTTTTTTAATATTATTTGTTATTAAT
1 TTTAAATA-TATTTTATTAATATTATTT-TT-TAAAT
* *
110591792 TTTATAATA-ATTTAATTATTATTTAATTTTTT
1 TTTA-AATATATTTTATTAATA-TT-ATTTTTT
110591824 TATACTATTT
Statistics
Matches: 86, Mismatches: 6, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
33 2 0.02
34 29 0.34
35 16 0.19
36 19 0.22
37 12 0.14
38 8 0.09
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (34 bp):
TTTAAATATATTTTATTAATATTATTTTTTAAAT
Found at i:110591731 original size:20 final size:22
Alignment explanation
Indices: 110591701--110591742 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
110591691 AAATATTTTA
*
110591701 TTAATATATAT-TTTTTAAATT
1 TTAATATATATATTTTGAAATT
110591722 TTAA-ATATATATTTTGAAATT
1 TTAATATATATATTTTGAAATT
110591743 ACTTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTAATATATATATTTTGAAATT
Found at i:110591756 original size:21 final size:22
Alignment explanation
Indices: 110591732--110591774 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
110591722 TTAAATATAT
*
110591732 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTACTTTTTTAA
*
110591753 ATTTTAAATATTATTTTTTTAA
1 ATTTTAAATATTACTTTTTTAA
110591775 TATTATTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTAAATATTACTTTTTTAA
Found at i:110591796 original size:16 final size:14
Alignment explanation
Indices: 110591754--110591796 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
110591744 CTTTTTTAAA
*
110591754 TTTTAAATATTATT
1 TTTTTAATATTATT
110591768 TTTTTAATATTATT
1 TTTTTAATATTATT
*
110591782 TGTTATTAATTTTAT
1 T-TT-TTAATATTAT
110591797 AATAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 14 0.56
15 2 0.08
16 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTTTAATATTATT
Found at i:110591849 original size:17 final size:16
Alignment explanation
Indices: 110591829--110591895 Score: 57
Period size: 17 Copynumber: 4.0 Consensus size: 16
110591819 TTTTTTATAC
110591829 TATTTGAAAGTTTAAAA
1 TATTTGAAA-TTTAAAA
110591846 TATTT-AAATATTAAAAA
1 TATTTGAAAT-TT-AAAA
* *
110591863 AAATTGAAATTTTAAAA
1 TATTTGAAA-TTTAAAA
110591880 TATTT-AAATATTAAAA
1 TATTTGAAAT-TTAAAA
110591896 AATAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
15 2 0.05
16 14 0.34
17 19 0.46
18 5 0.12
19 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
TATTTGAAATTTAAAA
Found at i:110591861 original size:16 final size:16
Alignment explanation
Indices: 110591840--110591895 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
110591830 ATTTGAAAGT
110591840 TTAAAATATTTAAATA
1 TTAAAATATTTAAATA
* * *
110591856 TTAAAAAAAATTGAAATT
1 TT--AAAATATTTAAATA
110591874 TTAAAATATTTAAATA
1 TTAAAATATTTAAATA
110591890 TTAAAA
1 TTAAAA
110591896 AATAATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 19 0.59
18 13 0.41
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
TTAAAATATTTAAATA
Found at i:110591877 original size:34 final size:34
Alignment explanation
Indices: 110591832--110591897 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
110591822 TTTATACTAT
110591832 TTGAAAGTTTAAAATATTTAAATATTAAAAAAAA
1 TTGAAAGTTTAAAATATTTAAATATTAAAAAAAA
*
110591866 TTGAAATTTTAAAATATTTAAATATTAAAAAA
1 TTGAAAGTTTAAAATATTTAAATATTAAAAAA
110591898 TAATATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (34 bp):
TTGAAAGTTTAAAATATTTAAATATTAAAAAAAA
Found at i:110591898 original size:18 final size:18
Alignment explanation
Indices: 110591842--110591899 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
110591832 TTGAAAGTTT
110591842 AAAATATTTAAATATTAA
1 AAAATATTTAAATATTAA
* * *
110591860 AAAAAATTGAAAT-TT-T
1 AAAATATTTAAATATTAA
110591876 AAAATATTTAAATATTAA
1 AAAATATTTAAATATTAA
110591894 AAAATA
1 AAAATA
110591900 ATATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 11 0.34
17 4 0.12
18 17 0.53
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAATATTTAAATATTAA
Found at i:110591926 original size:21 final size:22
Alignment explanation
Indices: 110591878--110591918 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
110591868 GAAATTTTAA
110591878 AATATTT-AAATATTAAAAAAT
1 AATATTTAAAATATTAAAAAAT
110591899 AATATTTAAAAT-TTAAAAAA
1 AATATTTAAAATATTAAAAAA
110591919 AGTAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATTTAAAATATTAAAAAAT
Found at i:110591926 original size:52 final size:51
Alignment explanation
Indices: 110591844--110591954 Score: 127
Period size: 52 Copynumber: 2.1 Consensus size: 51
110591834 GAAAGTTTAA
*
110591844 AATATTTAAATATTAAAAAAAATTGAAATTTTAAAATATTTAAATATTAAAAAAT
1 AATATTTAAATATTAAAAAAAA-TGAAATTTCAAAATA--TAAAT-TTAAAAAAT
* * *
110591899 AATATTTAAA-ATTTAAAAAAA-GTAATTTCAAAATATATATTTAAAAAAT
1 AATATTTAAATATTAAAAAAAATGAAATTTCAAAATATAAATTTAAAAAAT
110591948 ATATATT
1 A-ATATT
110591955 AATAAAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
49 10 0.20
50 9 0.18
52 12 0.24
54 10 0.20
55 10 0.20
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.39
Consensus pattern (51 bp):
AATATTTAAATATTAAAAAAAATGAAATTTCAAAATATAAATTTAAAAAAT
Found at i:110591981 original size:22 final size:24
Alignment explanation
Indices: 110591944--110592009 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 24
110591934 TATATTTAAA
*
110591944 AAATATATATTAATAAAATATTTT
1 AAATATATATTAATAAAAAATTTT
110591968 AAATATATA-T-ATAAAAAATTTT
1 AAATATATATTAATAAAAAATTTT
*
110591990 AAA-AT-TAATAATAATAAAAT
1 AAATATATATTAATAA-AAAAT
110592010 AAATAAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 18 0.47
23 6 0.16
24 9 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATATATATTAATAAAAAATTTT
Found at i:110591986 original size:15 final size:14
Alignment explanation
Indices: 110591928--110591986 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 14
110591918 AAGTAATTTC
110591928 AAAATATATATTTAA
1 AAAATATATA-TTAA
110591943 AAAATATATATTAA
1 AAAATATATATTAA
110591957 TAAAATAT-T-TT-A
1 -AAAATATATATTAA
*
110591969 AATATATATA-TAA
1 AAAATATATATTAA
110591982 AAAAT
1 AAAAT
110591987 TTTAAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 6 0.16
12 3 0.08
13 7 0.18
14 5 0.13
15 17 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATATATATTAA
Found at i:110592008 original size:23 final size:25
Alignment explanation
Indices: 110591935--110592010 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 25
110591925 TTCAAAATAT
*
110591935 ATATTTAAAAAATATATATTAATAAA
1 ATATTTAAAATATATATA-TAATAAA
*
110591961 ATATTTTAAATATATATATAA-AAA
1 ATATTTAAAATATATATATAATAAA
110591985 AT-TTTAAAAT-TA-ATAATAATAAA
1 ATATTTAAAATATATAT-ATAATAAA
110592008 ATA
1 ATA
110592011 AATAAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
21 2 0.05
22 6 0.14
23 12 0.27
24 5 0.11
25 3 0.07
26 16 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
ATATTTAAAATATATATATAATAAA
Found at i:110593923 original size:16 final size:17
Alignment explanation
Indices: 110593890--110593931 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
110593880 ATTTTTATTA
*
110593890 AATTATATT-TAATAAT
1 AATTATATTAAAATAAT
110593906 AATTATATTAAAAT-AT
1 AATTATATTAAAATAAT
*
110593922 AATTAAATTA
1 AATTATATTA
110593932 TTTATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTATATTAAAATAAT
Found at i:110593940 original size:26 final size:27
Alignment explanation
Indices: 110593876--110593940 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
110593866 TATTATAGAC
* *
110593876 TATTATTT-TTATTAAATTATATTTAA
1 TATTATTTATTATTAAAATATAATTAA
* *
110593902 TAATAATTA-TATTAAAATATAATTAA
1 TATTATTTATTATTAAAATATAATTAA
110593928 -ATTATTTATTATT
1 TATTATTTATTATT
110593941 TTTTTATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTATTTATTATTAAAATATAATTAA
Found at i:110596450 original size:29 final size:29
Alignment explanation
Indices: 110596394--110596451 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
110596384 ACACCGTTAA
* *
110596394 GTAGCCTAGTAACTTTAAAAGCATTGCTT
1 GTAGCCTAGTAACTTTAAAAACAATGCTT
* *
110596423 GTAGCCTAGTAATTTTAAAAATAATGCTT
1 GTAGCCTAGTAACTTTAAAAACAATGCTT
110596452 ATACATACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (29 bp):
GTAGCCTAGTAACTTTAAAAACAATGCTT
Found at i:110601127 original size:54 final size:54
Alignment explanation
Indices: 110601064--110601231 Score: 156
Period size: 54 Copynumber: 3.1 Consensus size: 54
110601054 TCTCTCATTT
*
110601064 TCATTCTCACCCACACCCACACTCTCATTCTCACCCTTATTCTCGCTCATACTC
1 TCATTCTCACCCACACCCACACTCTCATTCTCACCCTTATTCTCGCTCACACTC
* * * *** *
110601118 TCATTCTCACTCTCGCTTGCACTCTCATTCTCACCCTTATTCTCGCTCGCACTC
1 TCATTCTCACCCACACCCACACTCTCATTCTCACCCTTATTCTCGCTCACACTC
* ** * * * * * * * *
110601172 TTATTCTCATTCTCACTCTCACTCTCACTCTCACTCTTTTTTTCGCTCACATTC
1 TCATTCTCACCCACACCCACACTCTCATTCTCACCCTTATTCTCGCTCACACTC
*
110601226 TTATTC
1 TCATTC
110601232 CCACTCTCAT
Statistics
Matches: 95, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.16, C:0.41, G:0.04, T:0.39
Consensus pattern (54 bp):
TCATTCTCACCCACACCCACACTCTCATTCTCACCCTTATTCTCGCTCACACTC
Found at i:110601196 original size:66 final size:66
Alignment explanation
Indices: 110601114--110601359 Score: 276
Period size: 66 Copynumber: 3.7 Consensus size: 66
110601104 TCTCGCTCAT
* ** * * * * *
110601114 ACTCTCATTCTCACTCTCGCTTGCACTCTCATTCTCACCCTTATTCTCGCTCGCACTCTTATTCT
1 ACTCTCACTCTCACTCTCGCTCACACTCTCATTCTCACTCTCATTCTTGTTCACACTCTTATTCT
110601179 C
66 C
* * * ** * * * * * *
110601180 ATTCTCACTCTCACTCTCACTCTCACTCTTTTTTTCGCTCACATTCTTATTCCCACTCTCATTCT
1 ACTCTCACTCTCACTCTCGCTCACACTCTCATTCTCACTCTCATTCTTGTTCACACTCTTATTCT
110601245 C
66 C
* *
110601246 ACTCTCACTCTCACTCTCGCTCACACTCTCATTCTCACTCTCACTCTTGTTCACAGTCTTATTCT
1 ACTCTCACTCTCACTCTCGCTCACACTCTCATTCTCACTCTCATTCTTGTTCACACTCTTATTCT
110601311 C
66 C
* * *
110601312 ACTCTCATTCTTATTCTCGCTCACACTCTCATTCTCACTCTCATTCTT
1 ACTCTCACTCTCACTCTCGCTCACACTCTCATTCTCACTCTCATTCTT
110601360 ATTTTCACTC
Statistics
Matches: 146, Mismatches: 34, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 146 1.00
ACGTcount: A:0.15, C:0.40, G:0.04, T:0.41
Consensus pattern (66 bp):
ACTCTCACTCTCACTCTCGCTCACACTCTCATTCTCACTCTCATTCTTGTTCACACTCTTATTCT
C
Found at i:110601201 original size:30 final size:30
Alignment explanation
Indices: 110601116--110601388 Score: 170
Period size: 30 Copynumber: 9.1 Consensus size: 30
110601106 TCGCTCATAC
*
110601116 TCTCATTCTCACTCTCGCT-TGCACTCTCAT
1 TCTCATTCTCACTCTCACTCT-CACTCTCAT
** * * * * *
110601146 TCTCACCCTTATTCTCGCTCGCACTCTTAT
1 TCTCATTCTCACTCTCACTCTCACTCTCAT
*
110601176 TCTCATTCTCACTCTCACTCTCACTCTCAC
1 TCTCATTCTCACTCTCACTCTCACTCTCAT
** * * * * * * * *
110601206 TCTTTTTTTCGCTCACATTCTTATTCCCAC
1 TCTCATTCTCACTCTCACTCTCACTCTCAT
**
110601236 TCTCATTCTCACTCTCACTCTCACTCTCGC
1 TCTCATTCTCACTCTCACTCTCACTCTCAT
* * * **
110601266 TCACACTCTCATTCTCACTCTCACTCTTGT
1 TCTCATTCTCACTCTCACTCTCACTCTCAT
* * * * * *
110601296 TCACAGTCTTATTCTCACTCTCATTCTTAT
1 TCTCATTCTCACTCTCACTCTCACTCTCAT
** * *
110601326 TCTCGCTCACACTCTCATTCTCACTCTCAT
1 TCTCATTCTCACTCTCACTCTCACTCTCAT
* * * *
110601356 TCTTATTTTCACTCACACTCTCATTCTCAT
1 TCTCATTCTCACTCTCACTCTCACTCTCAT
110601386 TCT
1 TCT
110601389 TCATCTCCAT
Statistics
Matches: 183, Mismatches: 59, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
30 183 1.00
ACGTcount: A:0.16, C:0.39, G:0.03, T:0.42
Consensus pattern (30 bp):
TCTCATTCTCACTCTCACTCTCACTCTCAT
Found at i:110601207 original size:36 final size:36
Alignment explanation
Indices: 110601083--110601384 Score: 161
Period size: 36 Copynumber: 8.4 Consensus size: 36
110601073 CCCACACCCA
* * **
110601083 CACTCTCATTCTCACCCTTATTCTCGCTCAT-ACTCT
1 CACTCTCATTCTCACTCTCATTCTCATTC-TCACTCT
* * * * *
110601119 CATTCTCACTCTCGCT-TGCACTCTCATTCTCACCCT
1 CACTCTCATTCTCACTCT-CATTCTCATTCTCACTCT
* * ** * *
110601155 TATTCTCGCTCGCACTCTTATTCTCATTCTCACTCT
1 CACTCTCATTCTCACTCTCATTCTCATTCTCACTCT
* ** * * *
110601191 CACTCTCACTCTCACTCTTTTTTTCGCTCACATTCTTATTCC
1 CACTCTCATTCTCACTC--TCATT--CT--CATTCTCACTCT
* * * *
110601233 CACTCTCATTCTCACTCTCACTCTCACTCTCGCTCA
1 CACTCTCATTCTCACTCTCATTCTCATTCTCACTCT
* *
110601269 CACTCTCATTCTCACTCTCA--CTC-TTGT---TCA
1 CACTCTCATTCTCACTCTCATTCTCATTCTCACTCT
* * * * *
110601299 CAGTCTTATTCTCACTCTCATTCTTATTCTCGCTCA
1 CACTCTCATTCTCACTCTCATTCTCATTCTCACTCT
* * *
110601335 CACTCTCATTCTCACTCTCATTCTTATTTTCACTCA
1 CACTCTCATTCTCACTCTCATTCTCATTCTCACTCT
110601371 CACTCTCATTCTCA
1 CACTCTCATTCTCA
110601385 TTCTTCATCT
Statistics
Matches: 208, Mismatches: 43, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
30 21 0.10
32 2 0.01
33 5 0.02
34 3 0.01
35 2 0.01
36 139 0.67
37 1 0.00
38 6 0.03
40 4 0.02
42 25 0.12
ACGTcount: A:0.16, C:0.40, G:0.03, T:0.41
Consensus pattern (36 bp):
CACTCTCATTCTCACTCTCATTCTCATTCTCACTCT
Found at i:110601240 original size:54 final size:54
Alignment explanation
Indices: 110601083--110601384 Score: 243
Period size: 54 Copynumber: 5.8 Consensus size: 54
110601073 CCCACACCCA
* * * *
110601083 CACTCTCATTCTCACCCTTATTCTCGCTCATACTCTCATTCTCACTCTCGCT-T
1 CACTCTCACTCTCACCCTTATTCTCGCTCACACTCTTATTCTCACTCTCACTCT
* * *
110601136 GCACTCTCATTCTCACCCTTATTCTCGCTCGCACTCTTATTCTCATTCTCACTCT
1 -CACTCTCACTCTCACCCTTATTCTCGCTCACACTCTTATTCTCACTCTCACTCT
* * * * * *
110601191 CACTCTCACTCTCACTCTTTTTTTCGCTCACATTCTTATTCCCACTCTCATTCT
1 CACTCTCACTCTCACCCTTATTCTCGCTCACACTCTTATTCTCACTCTCACTCT
*
110601245 CACTCTCACTCTCA--C----TCTCGCTCACACTCTCATTCTCACTCTCACTCT
1 CACTCTCACTCTCACCCTTATTCTCGCTCACACTCTTATTCTCACTCTCACTCT
* * ** * * * * *
110601293 ---TGT---TCACAGTCTTATTCTCACTCTCATTCTTATTCTCGCTCACACTCT
1 CACTCTCACTCTCACCCTTATTCTCGCTCACACTCTTATTCTCACTCTCACTCT
* ** * * *
110601341 CATTCTCACTCTCATTCTTATTTTCACTCACACTCTCATTCTCA
1 CACTCTCACTCTCACCCTTATTCTCGCTCACACTCTTATTCTCA
110601385 TTCTTCATCT
Statistics
Matches: 200, Mismatches: 35, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
42 4 0.02
44 1 0.00
45 2 0.01
48 55 0.28
51 2 0.01
52 1 0.00
54 134 0.67
55 1 0.00
ACGTcount: A:0.16, C:0.40, G:0.03, T:0.41
Consensus pattern (54 bp):
CACTCTCACTCTCACCCTTATTCTCGCTCACACTCTTATTCTCACTCTCACTCT
Found at i:110601388 original size:6 final size:6
Alignment explanation
Indices: 110601083--110601384 Score: 131
Period size: 6 Copynumber: 50.3 Consensus size: 6
110601073 CCCACACCCA
* * * * * *
110601083 CACTCT CATTCT CACCCT TATTCT CGCTCAT -ACTCT CATTCT CACTCT
1 CACTCT CACTCT CACTCT CACTCT CACTC-T CACTCT CACTCT CACTCT
* * * * * * * * *
110601131 CGCT-T GCACTCT CATTCT CACCCT TATTCT CGCTCG CACTCT TATTCT
1 CACTCT -CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT
* *** * * * *
110601179 CATTCT CACTCT CACTCT CACTCT CACTCT TTTTTT CGCTCA CATTCT
1 CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT
* * * * * *
110601227 TATTCC CACTCT CATTCT CACTCT CACTCT CACTCT CGCTCA CACTCT
1 CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT
* *** * * * * *
110601275 CATTCT CACTCT CACTCT TGTTCA CAGTCT TATTCT CACTCT CATTCT
1 CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT
* * * * * * * * * *
110601323 TATTCT CGCTCA CACTCT CATTCT CACTCT CATTCT TATTTT CACTCA
1 CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT CACTCT
*
110601371 CACTCT CATTCT CA
1 CACTCT CACTCT CA
110601385 TTCTTCATCT
Statistics
Matches: 206, Mismatches: 86, Indels: 8
0.69 0.29 0.03
Matches are distributed among these distances:
5 2 0.01
6 202 0.98
7 2 0.01
ACGTcount: A:0.16, C:0.40, G:0.03, T:0.41
Consensus pattern (6 bp):
CACTCT
Found at i:110603141 original size:10 final size:10
Alignment explanation
Indices: 110603126--110603157 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
110603116 TGCACTTTAA
110603126 TTTATAAATT
1 TTTATAAATT
110603136 TTTATAAA--
1 TTTATAAATT
110603144 TTTATAAATT
1 TTTATAAATT
110603154 TTTA
1 TTTA
110603158 ATTTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTATAAATT
Found at i:110606109 original size:18 final size:19
Alignment explanation
Indices: 110606080--110606118 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
110606070 AGTACCTAAA
*
110606080 CAGTAATCAGTAACGATAG
1 CAGTAATCAGTAACAATAG
110606099 CAGTAAT-AGTAACAATAG
1 CAGTAATCAGTAACAATAG
110606117 CA
1 CA
110606119 ATATTCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (19 bp):
CAGTAATCAGTAACAATAG
Found at i:110606628 original size:15 final size:16
Alignment explanation
Indices: 110606600--110606629 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
110606590 TACCACACAT
110606600 ACATATTAAATTATAC
1 ACATATTAAATTATAC
110606616 ACATATT-AATTATA
1 ACATATTAAATTATA
110606630 AAGCTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
ACATATTAAATTATAC
Found at i:110608071 original size:25 final size:23
Alignment explanation
Indices: 110608035--110608082 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
110608025 TTTTAAATTC
*
110608035 CTTTTATTATTATTTATTTTGAA
1 CTTTTATTATTACTTATTTTGAA
110608058 CTTTCTATATATTACTTATTTTGAA
1 CTTT-TAT-TATTACTTATTTTGAA
110608083 ATTATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 3 0.14
25 15 0.68
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.60
Consensus pattern (23 bp):
CTTTTATTATTACTTATTTTGAA
Found at i:110608093 original size:25 final size:24
Alignment explanation
Indices: 110608036--110608094 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
110608026 TTTAAATTCC
* *
110608036 TTTTATTATTATTTATTTTGAACTT
1 TTTTA-TATTACTTATTTTGAAATT
*
110608061 TCTATATATTACTTATTTTGAAATT
1 T-TTTATATTACTTATTTTGAAATT
110608086 ATTTTATAT
1 -TTTTATAT
110608095 ACTCCTTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (24 bp):
TTTTATATTACTTATTTTGAAATT
Found at i:110608217 original size:29 final size:27
Alignment explanation
Indices: 110608151--110608219 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
110608141 ATATATATAT
**
110608151 TTATTTATTTTAAATTATTTTTGTATA
1 TTATTTATTTTAAATTATTTTTACATA
*
110608178 TAATTTATTTTAAATT-TCTCATTTACATA
1 TTATTTATTTTAAATTAT-T--TTTACATA
110608207 TTATTTATTTTAA
1 TTATTTATTTTAA
110608220 GCTCTTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 16 0.46
29 18 0.51
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (27 bp):
TTATTTATTTTAAATTATTTTTACATA
Found at i:110608310 original size:27 final size:26
Alignment explanation
Indices: 110608266--110608362 Score: 74
Period size: 26 Copynumber: 3.7 Consensus size: 26
110608256 TTTACTTTGT
* *
110608266 ATATTATTCATTTTAATTT-ATTTAAC
1 ATATTATTTATTTAAATTTGATTT-AC
* *
110608292 ATATTATTTATTTGAAATTTGCTTTAT
1 ATATTATTTATTT-AAATTTGATTTAC
*
110608319 ATATTATTTTATTTCAAA-TTGA-TTAT
1 ATATTA-TTTATTT-AAATTTGATTTAC
*
110608345 ATTTTATTTATGTTAAAT
1 ATATTATTTAT-TTAAAT
110608363 CTTTTTCACA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
25 8 0.14
26 23 0.39
27 15 0.25
28 13 0.22
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
ATATTATTTATTTAAATTTGATTTAC
Found at i:110609797 original size:20 final size:19
Alignment explanation
Indices: 110609763--110609818 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
110609753 TTTCTGTTTC
* * *
110609763 TTTTCTGTTTGTTTTGCTT
1 TTTTCTTTTTATTTTACTT
110609782 TGTTTCTTTTTATTTTACTT
1 T-TTTCTTTTTATTTTACTT
*
110609802 TTTT-TTGTTATTTTACT
1 TTTTCTTTTTATTTTACT
110609819 ATATTAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 12 0.38
19 4 0.12
20 16 0.50
ACGTcount: A:0.07, C:0.09, G:0.09, T:0.75
Consensus pattern (19 bp):
TTTTCTTTTTATTTTACTT
Found at i:110609962 original size:19 final size:22
Alignment explanation
Indices: 110609916--110609964 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
110609906 AATGTATCCT
110609916 TTAATATAATAATATAATATCAA
1 TTAA-ATAATAATATAATATCAA
110609939 TTAAATAATAATA-AATAT-AA
1 TTAAATAATAATATAATATCAA
110609959 -TAAATA
1 TTAAATA
110609965 TCTATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.23
20 2 0.08
21 5 0.19
22 9 0.35
23 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAATAATAATATAATATCAA
Found at i:110610909 original size:20 final size:20
Alignment explanation
Indices: 110610872--110610909 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
110610862 TGATGGGGAG
*
110610872 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
110610892 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
110610910 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:110612861 original size:46 final size:46
Alignment explanation
Indices: 110612809--110613026 Score: 339
Period size: 46 Copynumber: 4.7 Consensus size: 46
110612799 AGTGTGCTCT
*
110612809 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
110612855 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
110612901 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
110612947 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
110612993 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
110613027 CGCTATGGCA
Statistics
Matches: 161, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 160 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:110617946 original size:29 final size:29
Alignment explanation
Indices: 110617897--110617953 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
110617887 TTATGGAAGA
* * *
110617897 GGTGGAGAACTTGTCTGTTGAGAGTTCGC
1 GGTGAAGAACTTGTCTATTGAGAATTCGC
110617926 GGTGAAGAACTTGT-TCATTGAGAATTCG
1 GGTGAAGAACTTGTCT-ATTGAGAATTCG
110617954 TGTCAATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.32
Consensus pattern (29 bp):
GGTGAAGAACTTGTCTATTGAGAATTCGC
Found at i:110621122 original size:13 final size:14
Alignment explanation
Indices: 110621104--110621137 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
110621094 AAATGAAGGA
110621104 AATAAAAGGA-ATG
1 AATAAAAGGAGATG
110621117 AAT-AAAGGAGATG
1 AATAAAAGGAGATG
110621130 AATAAAAG
1 AATAAAAG
110621138 AAGGGATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.32
13 9 0.47
14 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (14 bp):
AATAAAAGGAGATG
Found at i:110625004 original size:11 final size:10
Alignment explanation
Indices: 110624973--110625000 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
110624963 TTTAGCTCCT
110624973 TAAAAATTGA
1 TAAAAATTGA
110624983 TAAAAATTGA
1 TAAAAATTGA
110624993 TAAAAATT
1 TAAAAATT
110625001 TGATTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (10 bp):
TAAAAATTGA
Found at i:110629133 original size:6 final size:6
Alignment explanation
Indices: 110629122--110629395 Score: 161
Period size: 6 Copynumber: 45.7 Consensus size: 6
110629112 CTTGTCGTGT
* * * * * * *
110629122 TTCTCA TTCTCA TTCTCA CTCACA CTCTCC TTCTCG TTCTCA ATCTCT
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA
* * * *
110629170 TTCTCA TTCTTA TTCTTA TTCTCA CTCTCA TTCTCA TTCTCA CTCTCA
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA
* * * * * * *
110629218 TTCTCA TTCTCG CTCACA CTCTCA CTCTCA CTCTCA TTCTCA TTCTGA
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA
* * * * * * * * *
110629266 TTCTCG CTCACG CTCTCA CTCTCA CTCTCA CTCTCA TTCTCA TTCTGA
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA
* * * * * * * * * * * *
110629314 TTCTCG CTCACG CTCTCA CTCTCA CTCTCA CTCTCA CTCACA CTCTTA
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA
* * * *
110629362 TTCTCA ATCTCA TTTTCA CTCTCA TTCTTA TTCT
1 TTCTCA TTCTCA TTCTCA TTCTCA TTCTCA TTCT
110629396 TGCTCACACT
Statistics
Matches: 218, Mismatches: 50, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 218 1.00
ACGTcount: A:0.16, C:0.39, G:0.03, T:0.42
Consensus pattern (6 bp):
TTCTCA
Found at i:110629155 original size:18 final size:18
Alignment explanation
Indices: 110629123--110629389 Score: 192
Period size: 18 Copynumber: 14.8 Consensus size: 18
110629113 TTGTCGTGTT
110629123 TCTCATTCTCATTCTCAC
1 TCTCATTCTCATTCTCAC
* * * **
110629141 TCACACTCTCCTTCTCGT
1 TCTCATTCTCATTCTCAC
* * *
110629159 TCTCAATCTCTTTCTCAT
1 TCTCATTCTCATTCTCAC
* *
110629177 TCTTATTCTTATTCTCAC
1 TCTCATTCTCATTCTCAC
110629195 TCTCATTCTCATTCTCAC
1 TCTCATTCTCATTCTCAC
*
110629213 TCTCATTCTCATTCTCGC
1 TCTCATTCTCATTCTCAC
* * *
110629231 TCACACTCTCACTCTCAC
1 TCTCATTCTCATTCTCAC
* *
110629249 TCTCATTCTCATTCTGAT
1 TCTCATTCTCATTCTCAC
** * **
110629267 TCTCGCTCACGCTCTCAC
1 TCTCATTCTCATTCTCAC
* * *
110629285 TCTCACTCTCACTCTCAT
1 TCTCATTCTCATTCTCAC
* *
110629303 TCTCATTCTGATTCTCGC
1 TCTCATTCTCATTCTCAC
* ** *
110629321 TCACGCTCTCACTCTCAC
1 TCTCATTCTCATTCTCAC
* * *
110629339 TCTCACTCTCACTCACAC
1 TCTCATTCTCATTCTCAC
* * *
110629357 TCTTATTCTCAATCTCAT
1 TCTCATTCTCATTCTCAC
* *
110629375 TTTCACTCTCATTCT
1 TCTCATTCTCATTCT
110629390 TATTCTTGCT
Statistics
Matches: 189, Mismatches: 60, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 189 1.00
ACGTcount: A:0.16, C:0.39, G:0.03, T:0.42
Consensus pattern (18 bp):
TCTCATTCTCATTCTCAC
Found at i:110629241 original size:48 final size:48
Alignment explanation
Indices: 110629122--110629349 Score: 230
Period size: 48 Copynumber: 5.0 Consensus size: 48
110629112 CTTGTCGTGT
* * * *
110629122 TTCTCATTCTCATTCTCACTCACACTCTC-CTTCTCGTTCTCAATCTCT
1 TTCTCATTCTCATTCTCGCTCACACTCTCAC-TCTCATTCTCACTCTCA
* * *
110629170 TTCTCATTCTTATTCT---T---ATTCTCACTCTCATTCTCATTCTCA
1 TTCTCATTCTCATTCTCGCTCACACTCTCACTCTCATTCTCACTCTCA
*
110629212 CTCTCATTCTCATTCTCGCTCACACTCTCA----C--TCTCACTCTCA
1 TTCTCATTCTCATTCTCGCTCACACTCTCACTCTCATTCTCACTCTCA
* * *
110629254 TTCTCATTCTGATTCTCGCTCACGCTCTCACTCTCACTCTCACTCTCA
1 TTCTCATTCTCATTCTCGCTCACACTCTCACTCTCATTCTCACTCTCA
* * *
110629302 TTCTCATTCTGATTCTCGCTCACGCTCTCACTCTCACTCTCACTCTCA
1 TTCTCATTCTCATTCTCGCTCACACTCTCACTCTCATTCTCACTCTCA
110629350 CTCACACTCT
Statistics
Matches: 155, Mismatches: 12, Indels: 26
0.80 0.06 0.13
Matches are distributed among these distances:
42 70 0.45
43 1 0.01
44 1 0.01
45 2 0.01
46 1 0.01
48 80 0.52
ACGTcount: A:0.15, C:0.40, G:0.04, T:0.41
Consensus pattern (48 bp):
TTCTCATTCTCATTCTCGCTCACACTCTCACTCTCATTCTCACTCTCA
Found at i:110629365 original size:48 final size:48
Alignment explanation
Indices: 110629189--110629366 Score: 257
Period size: 48 Copynumber: 3.7 Consensus size: 48
110629179 TTATTCTTAT
* * ** * *
110629189 TCTCACTCTCATTCTCATTCTCACTCTCATTCTCATTCTCGCTCACAC
1 TCTCACTCTCACTCTCATTCTCACTCTGATTCTCGCTCACGCTCTCAC
*
110629237 TCTCACTCTCACTCTCATTCTCATTCTGATTCTCGCTCACGCTCTCAC
1 TCTCACTCTCACTCTCATTCTCACTCTGATTCTCGCTCACGCTCTCAC
*
110629285 TCTCACTCTCACTCTCATTCTCATTCTGATTCTCGCTCACGCTCTCAC
1 TCTCACTCTCACTCTCATTCTCACTCTGATTCTCGCTCACGCTCTCAC
* * *
110629333 TCTCACTCTCACTCTCACTCACACTCTTATTCTC
1 TCTCACTCTCACTCTCATTCTCACTCTGATTCTC
110629367 AATCTCATTT
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.16, C:0.42, G:0.04, T:0.38
Consensus pattern (48 bp):
TCTCACTCTCACTCTCATTCTCACTCTGATTCTCGCTCACGCTCTCAC
Found at i:110629409 original size:30 final size:30
Alignment explanation
Indices: 110629375--110629435 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
110629365 TCAATCTCAT
110629375 TTTCACTCTCATTCTTATTCTTGCTCACAC
1 TTTCACTCTCATTCTTATTCTTGCTCACAC
110629405 TTTCACTCTCATTCTTATTCTTGCTCACAC
1 TTTCACTCTCATTCTTATTCTTGCTCACAC
110629435 T
1 T
110629436 CTCCTCGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.33, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTCACTCTCATTCTTATTCTTGCTCACAC
Found at i:110629417 original size:42 final size:42
Alignment explanation
Indices: 110629192--110629415 Score: 225
Period size: 42 Copynumber: 5.3 Consensus size: 42
110629182 TTCTTATTCT
* *
110629192 CACTCTCATTCTCATTCTCACTCTCATTCTCATTCTCGCTCA
1 CACTCTCACTCTCACTCTCACTCTCATTCTCATTCTCGCTCA
* *
110629234 CACTCTCACTCTCACTCTCATTCTCATTCTGATTCTCGCTCA
1 CACTCTCACTCTCACTCTCACTCTCATTCTCATTCTCGCTCA
* * *
110629276 CGCTCTCACTCTCACTCTCACTCTCATTCTCATTCT-GATTCT
1 CACTCTCACTCTCACTCTCACTCTCATTCTCATTCTCG-CTCA
* * * * * * * *
110629318 CGCTCACGCTCTCACTCTCACTCTCACTCTCACTCACACTCT
1 CACTCTCACTCTCACTCTCACTCTCATTCTCATTCTCGCTCA
* * * * * * *
110629360 TATTCTCAATCTCATTTTCACTCTCATTCTTATTCTTGCTCA
1 CACTCTCACTCTCACTCTCACTCTCATTCTCATTCTCGCTCA
*
110629402 CACTTTCACTCTCA
1 CACTCTCACTCTCA
110629416 TTCTTATTCT
Statistics
Matches: 145, Mismatches: 35, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
41 1 0.01
42 144 0.99
ACGTcount: A:0.17, C:0.40, G:0.04, T:0.39
Consensus pattern (42 bp):
CACTCTCACTCTCACTCTCACTCTCATTCTCATTCTCGCTCA
Found at i:110629532 original size:17 final size:17
Alignment explanation
Indices: 110629500--110629532 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
110629490 AAGGAGATGA
110629500 TAGAAATGAATGAAAAG
1 TAGAAATGAATGAAAAG
110629517 TAGAAGATGAAT-AAAA
1 TAGAA-ATGAATGAAAA
110629533 CAAAGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (17 bp):
TAGAAATGAATGAAAAG
Found at i:110630385 original size:21 final size:21
Alignment explanation
Indices: 110630312--110630387 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
110630302 TAACTTAATT
110630312 ATTTTAA-ATATTTTATTAACA
1 ATTTTAATA-ATTTTATTAACA
** *
110630333 ATTTT-ATGCTTTT-TATAA-T
1 ATTTTAATAATTTTAT-TAACA
*
110630352 ATTTTTATAAATTTTATTAACA
1 ATTTTAAT-AATTTTATTAACA
110630374 ATTTTAATAATTTT
1 ATTTTAATAATTTT
110630388 CTATATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
19 6 0.14
20 10 0.24
21 18 0.43
22 8 0.19
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (21 bp):
ATTTTAATAATTTTATTAACA
Found at i:110630407 original size:20 final size:20
Alignment explanation
Indices: 110630373--110630426 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
110630363 TTTTATTAAC
* *
110630373 AATTTT-AATAATTTTCTAT
1 AATTTTAAATATTTTTCCAT
*
110630392 ATTTTTAAATATTTTTCCAT
1 AATTTTAAATATTTTTCCAT
110630412 AATTTTAAA-ATTTTT
1 AATTTTAAATATTTTT
110630427 ATTTTTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTAAATATTTTTCCAT
Found at i:110630527 original size:16 final size:18
Alignment explanation
Indices: 110630494--110630541 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
110630484 ATTTTTAATA
110630494 ATTTATATATTTTATTTC
1 ATTTATATATTTTATTTC
110630512 ATTTATA-ATTTT-TTTC
1 ATTTATATATTTTATTTC
110630528 ACTTTTATATATTT
1 A--TTTATATATTT
110630542 ATATAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
18 13 0.48
19 4 0.15
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTATATATTTTATTTC
Found at i:110630593 original size:9 final size:9
Alignment explanation
Indices: 110630549--110630595 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
110630539 TTTATATAAA
110630549 TATTTTTA-
1 TATTTTTAT
110630557 -ATTTTTAT
1 TATTTTTAT
*
110630565 ATATTTGTAT
1 -TATTTTTAT
*
110630575 TATTTGTAT
1 TATTTTTAT
110630584 TATTTTTAT
1 TATTTTTAT
110630593 TAT
1 TAT
110630596 AAAATATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 7 0.21
9 20 0.59
10 7 0.21
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (9 bp):
TATTTTTAT
Found at i:110631487 original size:40 final size:39
Alignment explanation
Indices: 110631442--110631554 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 39
110631432 TTAACTTAAT
**
110631442 TATTTTAAATATTTTATT-ATCAATTTTATGCTTTTTATAA
1 TATTTTAAATATTTTATTAAT-AATTTTAT-AATTTTATAA
* *
110631482 TATTTTGTAA-ATTTTATTAATAATTTTAATAATTTTCTAA
1 TATTTT-AAATATTTTATTAATAATTTT-ATAATTTTATAA
* *
110631522 -ATTTTAAATATTTT-TTCATAATTTTACAATTTT
1 TATTTTAAATATTTTATTAATAATTTTATAATTTT
110631555 TATTTTTTGT
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
37 7 0.11
38 12 0.19
39 10 0.16
40 27 0.44
41 6 0.10
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (39 bp):
TATTTTAAATATTTTATTAATAATTTTATAATTTTATAA
Found at i:110631537 original size:29 final size:30
Alignment explanation
Indices: 110631473--110631546 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
110631463 AATTTTATGC
*
110631473 TTTTTATAAT-ATTTTGTAAATTTTATTAATA
1 TTTTT-TAATAATTTTCTAAATTTTA-TAATA
*
110631504 -ATTTTAATAATTTTCTAAATTTTA-AATA
1 TTTTTTAATAATTTTCTAAATTTTATAATA
*
110631532 TTTTTTCATAATTTT
1 TTTTTTAATAATTTT
110631547 ACAATTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 4 0.11
29 16 0.43
30 17 0.46
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (30 bp):
TTTTTTAATAATTTTCTAAATTTTATAATA
Found at i:110631686 original size:8 final size:8
Alignment explanation
Indices: 110631670--110631740 Score: 56
Period size: 8 Copynumber: 8.2 Consensus size: 8
110631660 TTTTTTGTAC
110631670 TTTTATATA
1 TTTT-TATA
110631679 TTTTTATAAA
1 TTTTTAT--A
*
110631689 TTTATAATA
1 TTT-TTATA
110631698 TTTTTA-A
1 TTTTTATA
110631705 TTTGTATATA
1 TTT-T-TATA
110631715 TTTTTAT-
1 TTTTTATA
110631722 TATTTTATA
1 T-TTTTATA
110631731 TTTTTATA
1 TTTTTATA
110631739 TT
1 TT
110631741 ATTTTTAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
7 5 0.10
8 24 0.46
9 12 0.23
10 8 0.15
11 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (8 bp):
TTTTTATA
Found at i:110631733 original size:26 final size:26
Alignment explanation
Indices: 110631675--110631751 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 26
110631665 TGTACTTTTA
* *
110631675 TATATTTTTATAAATTTATAATATTT
1 TATATTTTTATATATTTTTAATATTT
* *
110631701 T-TAATTTGTATATATTTTTATTATTT
1 TAT-ATTTTTATATATTTTTAATATTT
110631727 TATATTTTTATATTATTTTTAATAT
1 TATATTTTTATA-TATTTTTAATAT
110631752 AAAATATCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
25 1 0.02
26 29 0.69
27 12 0.29
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (26 bp):
TATATTTTTATATATTTTTAATATTT
Found at i:110631740 original size:18 final size:17
Alignment explanation
Indices: 110631675--110631745 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
110631665 TGTACTTTTA
*
110631675 TATATTTTTATAAATTT
1 TATATTTTTATATATTT
110631692 ATAATATTTTTA-AT-TTGT
1 -T-ATATTTTTATATATT-T
110631710 ATATATTTTTAT-TATTT
1 -TATATTTTTATATATTT
110631727 TATATTTTTATATTATTT
1 TATATTTTTATA-TATTT
110631745 T
1 T
110631746 TAATATAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
16 11 0.24
17 13 0.28
18 13 0.28
19 9 0.20
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (17 bp):
TATATTTTTATATATTT
Found at i:110633915 original size:13 final size:11
Alignment explanation
Indices: 110633879--110633909 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
110633869 TAGCCCGTAT
110633879 TAATTTTTATA
1 TAATTTTTATA
*
110633890 TTATTTTTATA
1 TAATTTTTATA
110633901 TAATTTTTA
1 TAATTTTTA
110633910 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:110634067 original size:30 final size:30
Alignment explanation
Indices: 110634033--110634094 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
110634023 CTTAACAAGA
110634033 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
110634063 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
110634093 AA
1 AA
110634095 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:110634149 original size:22 final size:22
Alignment explanation
Indices: 110634124--110634166 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
110634114 TATCCAAACA
110634124 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
110634146 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
110634167 AATAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:110634179 original size:22 final size:22
Alignment explanation
Indices: 110634131--110634179 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
110634121 ACAATAACAA
* *
110634131 TAAAATAGTAGCAACATAATAG
1 TAAAATAGTAGCAAAATAAGAG
*
110634153 TAAAATGGTAGCAAAATAGAGAG
1 TAAAATAGTAGCAAAATA-AGAG
110634176 -AAAA
1 TAAAA
110634180 CAACAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.57, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
TAAAATAGTAGCAAAATAAGAG
Found at i:110634572 original size:32 final size:32
Alignment explanation
Indices: 110634535--110634600 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
110634525 CCATACTTAA
110634535 AATTATTATTCTATAACTCTTAAATTAATAAG
1 AATTATTATTCTATAACTCTTAAATTAATAAG
110634567 AATTATTATTCTATAACTCTTAAATTAATAAG
1 AATTATTATTCTATAACTCTTAAATTAATAAG
110634599 AA
1 AA
110634601 AAGTAATAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (32 bp):
AATTATTATTCTATAACTCTTAAATTAATAAG
Found at i:110643937 original size:3 final size:3
Alignment explanation
Indices: 110643929--110643976 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
110643919 TATGTTCAAA
*
110643929 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AGA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
110643974 AAT
1 AAT
110643977 GTAAATAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 1 0.02
3 39 0.95
4 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:110644066 original size:3 final size:3
Alignment explanation
Indices: 110644055--110644291 Score: 125
Period size: 3 Copynumber: 79.3 Consensus size: 3
110644045 TGATGATAGC
* * *
110644055 AAT ACT AAT AAT -AT AAT AAT AA- AGT AGAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * *
110644099 ACATT AAT AAGT -AT AAT AAT AGT -AT ATT AAT AAT AAC AAT AAT AGAA
1 A-A-T AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * *
110644146 AAT AAT GAT AA- AAT AAT AAT AAT AA- ACT AAGG AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* * * * * **
110644190 ACT AAC AAT AAT -AT AAAT AAT AAT AAA AAT AAC AAG AGA- AAT AGC
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
110644235 AAC AAT AAT AGT AAT AA- AAG AAT AA- AAGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
**
110644279 AGC AAT AAT AAT A
1 AAT AAT AAT AAT A
110644292 GAATTAACAA
Statistics
Matches: 176, Mismatches: 39, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
2 15 0.09
3 146 0.83
4 13 0.07
5 2 0.01
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:110644134 original size:20 final size:20
Alignment explanation
Indices: 110644067--110644139 Score: 60
Period size: 23 Copynumber: 3.6 Consensus size: 20
110644057 TACTAATAAT
* *
110644067 ATAATAATAA-AGTAGA-AA
1 ATAATAATAATAGTACATTA
*
110644085 ATAATAATAATAATACATTA
1 ATAATAATAATAGTACATTA
*
110644105 ATAAGTATAATAATAGTATATTA
1 AT-A--ATAATAATAGTACATTA
*
110644128 ATAATAACAATA
1 ATAATAATAATA
110644140 ATAGAAAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 10 0.23
19 4 0.09
20 11 0.25
21 1 0.02
22 1 0.02
23 17 0.39
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (20 bp):
ATAATAATAATAGTACATTA
Found at i:110644139 original size:23 final size:23
Alignment explanation
Indices: 110644084--110644214 Score: 79
Period size: 23 Copynumber: 5.6 Consensus size: 23
110644074 TAAAGTAGAA
*
110644084 AATAATAATAATAATACATTAAT
1 AATAATAATAATAGTACATTAAT
*
110644107 AAGT-ATAATAATAGTATATTAAT
1 AA-TAATAATAATAGTACATTAAT
* * *
110644130 AATAACAATAATAG-AAAATAAT
1 AATAATAATAATAGTACATTAAT
* * * * *
110644152 GATAAAATAATAATAATAAACTAAGG
1 -A-ATAATAATAATAGTACATTAA-T
* *
110644178 AATAATAATAATACTAACAATAAT
1 AATAATAATAATAGT-ACATTAAT
110644202 -ATAAATAATAATA
1 AAT-AATAATAATA
110644215 AAAATAACAA
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
22 7 0.08
23 33 0.39
24 33 0.39
25 12 0.14
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.30
Consensus pattern (23 bp):
AATAATAATAATAGTACATTAAT
Found at i:110644320 original size:18 final size:18
Alignment explanation
Indices: 110644264--110644314 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
110644254 GAATAAAAGT
*
110644264 AATAATAATAATAA-TAGC
1 AATAATAATAA-AATTAAC
*
110644282 AATAATAATAGAATTAAC
1 AATAATAATAAAATTAAC
110644300 AATAA-AATAAAATTA
1 AATAATAATAAAATTA
110644315 TTCAATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (18 bp):
AATAATAATAAAATTAAC
Found at i:110647241 original size:29 final size:30
Alignment explanation
Indices: 110647191--110647247 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
110647181 ATAATATAAC
110647191 TATTTTTATATTGAAATTTAAAAAAAAAGT
1 TATTTTTATATTGAAATTTAAAAAAAAAGT
110647221 TATTTTTATATTGAAA-TTAAAAAAAAA
1 TATTTTTATATTGAAATTTAAAAAAAAA
110647248 TTAAACTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (30 bp):
TATTTTTATATTGAAATTTAAAAAAAAAGT
Found at i:110648556 original size:64 final size:64
Alignment explanation
Indices: 110648483--110648693 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
110648473 CTGGGCCAGA
*
110648483 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
110648547 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
110648609 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
110648620 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
*
110648684 ACCCATTTCA
1 GCCCATTTCA
110648694 AAATACATGC
Statistics
Matches: 102, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 24 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:110648695 original size:137 final size:137
Alignment explanation
Indices: 110648449--110648735 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
110648439 CATTGGGCCT
**
110648449 AAGCCCATTCAGGTAACAGTGCTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGCTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
110648514 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
110648579 CATATGC
131 CATATGC
*
110648586 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGCTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
110648651 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
110648716 CATATGC
131 CATATGC
110648723 AAGCCCATTTGGG
1 AAGCCCATTTGGG
110648736 GAGACTACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGCTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:110650547 original size:26 final size:26
Alignment explanation
Indices: 110650516--110650623 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
110650506 TGAAATGCCC
* *
110650516 ATCATGGGACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
110650542 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
110650568 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
110650594 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
110650620 ATCA
1 ATCA
110650624 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:110655492 original size:12 final size:12
Alignment explanation
Indices: 110655475--110655505 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
110655465 AGTACTACCT
110655475 CGGCCTCGACCA
1 CGGCCTCGACCA
110655487 CGGCCTCGACCA
1 CGGCCTCGACCA
110655499 CGGCCTC
1 CGGCCTC
110655506 TTCCAGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:110656959 original size:137 final size:137
Alignment explanation
Indices: 110656713--110656999 Score: 511
Period size: 137 Copynumber: 2.1 Consensus size: 137
110656703 CATTGGGCCT
** * * *
110656713 AAGCCCATTCAGGTAACAGTGCTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGCTACTAGGCCAGAGACCTTTTCAAATTACAATAAACTGGGCCTT
*
110656778 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
110656843 CATATGC
131 CATATGC
*
110656850 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGACCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGCTACTAGGCCAGAGACCTTTTCAAATTACAATAAACTGGGCCTT
110656915 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
110656980 CATATGC
131 CATATGC
110656987 AAGCCCATTTGGG
1 AAGCCCATTTGGG
110657000 GAGACTACTC
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 143 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGCTACTAGGCCAGAGACCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:110657284 original size:25 final size:26
Alignment explanation
Indices: 110657247--110657299 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
110657237 TCAAACATGC
110657247 ATTTAGGTCAATTTAACC-CTAGGGGT
1 ATTTAGGTCAATTT-ACCACTAGGGGT
*
110657273 ATTTCGGT-AATTTACCTACTAGGGGT
1 ATTTAGGTCAATTTACC-ACTAGGGGT
110657299 A
1 A
110657300 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (26 bp):
ATTTAGGTCAATTTACCACTAGGGGT
Found at i:110658806 original size:26 final size:26
Alignment explanation
Indices: 110658777--110658884 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
110658767 TGAAATGCCC
*
110658777 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
110658803 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
110658829 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
110658855 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
110658881 ATCA
1 ATCA
110658885 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:110658855 original size:52 final size:52
Alignment explanation
Indices: 110658777--110658884 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
110658767 TGAAATGCCC
110658777 ATCATGGAACATTTACCTAAATCATTATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAATCATTATCATGAAACATTTACCTAACCCATT
* *
110658829 ATCATGGAATATTTACCT-AATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAAT-CATTATCATGAAACATTTACCTAACCCATT
110658881 ATCA
1 ATCA
110658885 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 3 0.06
52 50 0.94
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAATCATTATCATGAAACATTTACCTAACCCATT
Found at i:110660424 original size:12 final size:12
Alignment explanation
Indices: 110660409--110660439 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
110660399 TTGTTATCAT
110660409 TGTTATTATTTA
1 TGTTATTATTTA
110660421 TGTTATTATTTA
1 TGTTATTATTTA
*
110660433 TTTTATT
1 TGTTATT
110660440 TTTCTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (12 bp):
TGTTATTATTTA
Found at i:110667711 original size:27 final size:26
Alignment explanation
Indices: 110667674--110667786 Score: 154
Period size: 27 Copynumber: 4.2 Consensus size: 26
110667664 GCATGGCTGT
* *
110667674 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGGCAGAGCCAC
110667700 CAGATACAGATAATCGTGGCAGAGCCAC
1 CAGA-ACAGATAAT-GTGGCAGAGCCAC
110667728 CAGAACAGATATATGTGGCAGAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
* *
110667755 CAGATCAGATAATTGTGGCAAAGCCAC
1 CAGAACAGATAA-TGTGGCAGAGCCAC
110667782 CAGAA
1 CAGAA
110667787 TGCTTCCTCC
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 5 0.06
27 56 0.72
28 17 0.22
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:110667733 original size:54 final size:54
Alignment explanation
Indices: 110667674--110667786 Score: 174
Period size: 54 Copynumber: 2.1 Consensus size: 54
110667664 GCATGGCTGT
* *
110667674 CAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCAC
1 CAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAAAGCCAC
* *
110667728 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAAAGCCAC
1 CAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAAAGCCAC
110667782 CAGAA
1 CAGAA
110667787 TGCTTCCTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (54 bp):
CAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAAAGCCAC
Found at i:110670310 original size:26 final size:25
Alignment explanation
Indices: 110670258--110670310 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
110670248 TTTACAGTTT
110670258 TACCCCTAGTAGATAAATTACCGAAA
1 TACCCCTAG-AGATAAATTACCGAAA
*
110670284 TACCCCTAG-GATTAAATTGACCTAAA
1 TACCCCTAGAGA-TAAATT-ACCGAAA
110670310 T
1 T
110670311 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGATAAATTACCGAAA
Found at i:110690534 original size:7 final size:7
Alignment explanation
Indices: 110690522--110690546 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
110690512 ATATAATGAC
110690522 TAAATTT
1 TAAATTT
110690529 TAAATTT
1 TAAATTT
110690536 TAAATTT
1 TAAATTT
110690543 TAAA
1 TAAA
110690547 ATAATATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:110694557 original size:10 final size:10
Alignment explanation
Indices: 110694542--110694573 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
110694532 TAAATACATT
110694542 TAATTAAAGA
1 TAATTAAAGA
110694552 TAATTAAAGA
1 TAATTAAAGA
110694562 TAATTAAA-A
1 TAATTAAAGA
110694571 TAA
1 TAA
110694574 AATCTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:110707872 original size:3 final size:3
Alignment explanation
Indices: 110707866--110707897 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
110707856 TCATAATAAT
110707866 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
110707898 ACATACGCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:110713352 original size:189 final size:187
Alignment explanation
Indices: 110713025--110713581 Score: 772
Period size: 189 Copynumber: 2.9 Consensus size: 187
110713015 AAAAGTTTGA
* * *
110713025 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCGAGAGGTCATACAAAGGAATTGATTAAGGAAG
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCGAGAGGTCATA-AAAGGAAATGGTTAAGAAAG
* *
110713090 GTCGTCAAAGGCATGACTCCAGTGAGGGTGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
65 GTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
** *
110713155 GGTGAAGTTCAAAAACGGAAGATTGAGTCAACTAGGAGCCAGAGGAGAGAGAGGGACAT
130 GGTGAAGTTCAAAAA-GGAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT
* *
110713214 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCATAGAAAGGAAATGGTTAAGAAAC
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCGAGAGGTCATA-AAAGGAAATGGTTAAGAAAG
** ** *
110713279 GTCGTCATAGGCACAACTCCAGTGAGGACAACTTTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
65 GTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
* * *
110713344 GATGAAGTTCAAAAAGGAAAGATTGAGTTGACGGGGAGCCAGAGGAGAGAGAGGGCCAT
130 GGTGAAGTTCAAAAAGG-AAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT
* * * *
110713403 GGGTAGTGAATCTGATTCTGATACTGATAGAGTGAGAGGTCGTAAGAAGGAAATGGTTAAGAAAG
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCGAGAGGTCATAA-AAGGAAATGGTTAAGAAAG
* * * * * * * *
110713468 GTCGTCGTACGAATGACTCCAATGAGGATGACTCTGATTCTGATGTTGAGAAGAAAAAGAAGAGA
65 GTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
* *
110713533 GGTGAAGTTCAGAAAGGGAAGATCGAGTTGACTGGGAGCCAGAGGAGAG
130 GGTGAAGTTCA-AAAAGGAAGATTGAGTTGACTGGGAGCCAGAGGAGAG
110713582 GCAGGGATAG
Statistics
Matches: 323, Mismatches: 42, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
188 3 0.01
189 315 0.98
190 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.34, T:0.20
Consensus pattern (187 bp):
GGGTAGTGAATCTGATTCTGATGCTGACAGAGCGAGAGGTCATAAAAGGAAATGGTTAAGAAAGG
TCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGAG
GTGAAGTTCAAAAAGGAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT
Found at i:110714313 original size:39 final size:39
Alignment explanation
Indices: 110714252--110714448 Score: 218
Period size: 39 Copynumber: 5.0 Consensus size: 39
110714242 CCAAAGCTTA
*
110714252 TGGGGAGAATGATGATCAGAATAGGGATGAATATTCTAGG
1 TGGGG-GAAAGATGATCAGAATAGGGATGAATATTCTAGG
* * * *
110714292 TGGGGGAAAGATGACCGGAATAAGCATGAATATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
* * * * *
110714331 TGGGGG-ATGAGTGACCGGAATAAGGG-TGAATACTCTAGA
1 TGGGGGAAAGA-TGATCAGAAT-AGGGATGAATATTCTAGG
*
110714370 TGGGGAAAAGATGATCAGAATAGGGATGAATATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
* * * *
110714409 TGGGAGAAAGATGATCTGAAAAGGGATGATTATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
110714448 T
1 T
110714449 CAGTTAGGTC
Statistics
Matches: 132, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
38 7 0.05
39 115 0.87
40 10 0.08
ACGTcount: A:0.35, C:0.07, G:0.35, T:0.23
Consensus pattern (39 bp):
TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
Found at i:110716380 original size:15 final size:15
Alignment explanation
Indices: 110716360--110716390 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110716350 TTCACTTAAG
*
110716360 AGTGCAGTATATATT
1 AGTGCAATATATATT
110716375 AGTGCAATATATATT
1 AGTGCAATATATATT
110716390 A
1 A
110716391 TCATTGCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (15 bp):
AGTGCAATATATATT
Found at i:110716789 original size:52 final size:53
Alignment explanation
Indices: 110716711--110716814 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 53
110716701 ACTACTCTTA
*
110716711 ATAATAATGTCTTCAATGTTTAAATTTA-AATCTTCACTTAAGAGTGTAATGC
1 ATAATAATGTCTTCAATGTTTAAATTTATAATCTTCACTTAAGAGTGCAATGC
*
110716763 ATAATAATGTCTTCAATGTTTAAATTTATATTCTTCACTTAAGAGTGCAATG
1 ATAATAATGTCTTCAATGTTTAAATTTATAATCTTCACTTAAGAGTGCAATG
110716815 TATATTATCA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 28 0.57
53 21 0.43
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (53 bp):
ATAATAATGTCTTCAATGTTTAAATTTATAATCTTCACTTAAGAGTGCAATGC
Found at i:110728306 original size:47 final size:49
Alignment explanation
Indices: 110728248--110728394 Score: 131
Period size: 49 Copynumber: 3.0 Consensus size: 49
110728238 ATTCAAAAAG
* * *
110728248 AATAAATAATAA-AAAA-GGTCTCAAATAAATAATATATATAAAC-TTA
1 AATAAATAATAATAAAACAGTCTCAAATAAACAATATATAAAAACTTTA
* * *
110728294 AAGTAAATAATAATAAAACAGTTTGAAATAGACAATATATAAAAACTTTA
1 AA-TAAATAATAATAAAACAGTCTCAAATAAACAATATATAAAAACTTTA
* * * * * * *
110728344 AATAAATAACATATAAAATAGTGTTAACTACATAATATATAAAAA-TTTA
1 AATAAATAATA-ATAAAACAGTCTCAAATAAACAATATATAAAAACTTTA
110728393 AA
1 AA
110728395 AATATATGAT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
46 2 0.02
47 10 0.12
48 4 0.05
49 35 0.42
50 32 0.39
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.29
Consensus pattern (49 bp):
AATAAATAATAATAAAACAGTCTCAAATAAACAATATATAAAAACTTTA
Found at i:110728306 original size:50 final size:49
Alignment explanation
Indices: 110728252--110728394 Score: 128
Period size: 50 Copynumber: 2.9 Consensus size: 49
110728242 AAAAAGAATA
* *
110728252 AATAATAAAAAAGGTCTCAAATAAATAATATATATAAAC-TTAAAGTAAAT
1 AATAATAAAAAA-GTCTCAAATAAACAATATATAAAAACTTTAAA-TAAAT
* * * *
110728302 AATAATAAAACAGTTTGAAATAGACAATATATAAAAACTTTAAATAAAT
1 AATAATAAAAAAGTCTCAAATAAACAATATATAAAAACTTTAAATAAAT
* * * * * * *
110728351 AACATATAAAATAGTGTTAACTACATAATATATAAAAA-TTTAAA
1 AATA-ATAAAAAAGTCTCAAATAAACAATATATAAAAACTTTAAA
110728395 AATATATGAT
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
49 35 0.45
50 43 0.55
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (49 bp):
AATAATAAAAAAGTCTCAAATAAACAATATATAAAAACTTTAAATAAAT
Found at i:110728341 original size:49 final size:49
Alignment explanation
Indices: 110728278--110728394 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 49
110728268 TCAAATAAAT
* * *
110728278 AATATATATAAACTTAAAGTAAATAATA-ATAAAACAGT-TTGAAATAGAC
1 AATATATAAAAACTTAAA-TAAATAACATATAAAACAGTGTT-AAATACAC
* * *
110728327 AATATATAAAAACTTTAAATAAATAACATATAAAATAGTGTTAACTACAT
1 AATATATAAAAAC-TTAAATAAATAACATATAAAACAGTGTTAAATACAC
*
110728377 AATATATAAAAATTTAAA
1 AATATATAAAAACTTAAA
110728395 AATATATGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
49 25 0.43
50 31 0.53
51 2 0.03
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.31
Consensus pattern (49 bp):
AATATATAAAAACTTAAATAAATAACATATAAAACAGTGTTAAATACAC
Found at i:110728370 original size:26 final size:24
Alignment explanation
Indices: 110728248--110728394 Score: 115
Period size: 24 Copynumber: 6.1 Consensus size: 24
110728238 ATTCAAAAAG
* *
110728248 AATAAATAATA-A-AAAAGGTCTCA
1 AATAAATAATATATAAAAAGT-TTA
* *
110728271 AATAAATAATATATATAAA-CTTA
1 AATAAATAATATATAAAAAGTTTA
110728294 AAGTAAATAATA-ATAAAACAGTTTGA
1 AA-TAAATAATATATAAAA-AGTTT-A
* * *
110728320 AATAGACAATATATAAAAACTTTA
1 AATAAATAATATATAAAAAGTTTA
*
110728344 AATAAATAACATATAAAATAGTGTTA
1 AATAAATAATATATAAAA-AGT-TTA
* *
110728370 ACTACATAATATATAAAAA-TTTA
1 AATAAATAATATATAAAAAGTTTA
110728393 AA
1 AA
110728395 AATATATGAT
Statistics
Matches: 98, Mismatches: 17, Indels: 18
0.74 0.13 0.14
Matches are distributed among these distances:
23 24 0.24
24 28 0.29
25 19 0.19
26 27 0.28
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.29
Consensus pattern (24 bp):
AATAAATAATATATAAAAAGTTTA
Found at i:110730342 original size:14 final size:14
Alignment explanation
Indices: 110730323--110730353 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
110730313 AATGCTTTAC
110730323 TTTGTTAGGATATT
1 TTTGTTAGGATATT
110730337 TTTGTTAGGATATT
1 TTTGTTAGGATATT
110730351 TTT
1 TTT
110730354 TTTATAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (14 bp):
TTTGTTAGGATATT
Found at i:110730892 original size:20 final size:20
Alignment explanation
Indices: 110730850--110730898 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
110730840 TAAATTACAA
*
110730850 AAAAAAATTGTAAAATTATG
1 AAAAATATTGTAAAATTATG
*
110730870 AAAAATATTTTAAAA-TATAG
1 AAAAATATTGTAAAATTAT-G
*
110730890 AAAAGTATT
1 AAAAATATT
110730899 AAACTTGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
AAAAATATTGTAAAATTATG
Found at i:110731730 original size:14 final size:14
Alignment explanation
Indices: 110731711--110731747 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
110731701 AAAATTATCC
110731711 CTCCTTTTATTCAT
1 CTCCTTTTATTCAT
110731725 CTCC-TTTATTCAT
1 CTCCTTTTATTCAT
*
110731738 -TCCTATTATT
1 CTCCTTTTATT
110731748 TCCTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 14 0.67
14 4 0.19
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (14 bp):
CTCCTTTTATTCAT
Found at i:110733002 original size:34 final size:34
Alignment explanation
Indices: 110732959--110733026 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
110732949 AAAGCAATGT
110732959 GAGGAGTTTTATGAAAAATCTATGCAGTCTTCCA
1 GAGGAGTTTTATGAAAAATCTATGCAGTCTTCCA
110732993 GAGGAGTTTTATGAAAAATCTATGCAGTCTTCCA
1 GAGGAGTTTTATGAAAAATCTATGCAGTCTTCCA
110733027 TCATTCACGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (34 bp):
GAGGAGTTTTATGAAAAATCTATGCAGTCTTCCA
Found at i:110734471 original size:33 final size:33
Alignment explanation
Indices: 110734433--110734499 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
110734423 AGACGTTTAA
110734433 TTTATTTTCCGAAATTAGAGAAGATATTTTCTT
1 TTTATTTTCCGAAATTAGAGAAGATATTTTCTT
110734466 TTTATTTTCCGAAATTAGAGAAGATATTTTCTT
1 TTTATTTTCCGAAATTAGAGAAGATATTTTCTT
110734499 T
1 T
110734500 CTCAATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (33 bp):
TTTATTTTCCGAAATTAGAGAAGATATTTTCTT
Found at i:110738684 original size:14 final size:14
Alignment explanation
Indices: 110738665--110738699 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
110738655 AATCATGCAC
110738665 TTTGCAGTCCAAAT
1 TTTGCAGTCCAAAT
110738679 TTTGCAGTCCAAAT
1 TTTGCAGTCCAAAT
110738693 TTTGCAG
1 TTTGCAG
110738700 CTTACCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (14 bp):
TTTGCAGTCCAAAT
Found at i:110740006 original size:26 final size:26
Alignment explanation
Indices: 110739970--110740025 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
110739960 TGAAATTCCA
110739970 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
110739996 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
110740022 ATCA
1 ATCA
110740026 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:110741496 original size:23 final size:23
Alignment explanation
Indices: 110741439--110741496 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
110741429 CTGTCATTAT
110741439 TATTATTATTATTATTATTAATG
1 TATTATTATTATTATTATTAATG
* * *
110741462 TATTGTTTTTATTCTTATTAATG
1 TATTATTATTATTATTATTAATG
110741485 TATTATTATTAT
1 TATTATTATTAT
110741497 CGTTTTCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (23 bp):
TATTATTATTATTATTATTAATG
Found at i:110741515 original size:3 final size:3
Alignment explanation
Indices: 110741434--110741496 Score: 63
Period size: 3 Copynumber: 19.7 Consensus size: 3
110741424 TACTACTGTC
* * *
110741434 ATT ATT ATT ATT ATT ATT ATT ATT AATGT ATT GTT TTT ATT CTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT ATT
110741481 AATGT ATT ATT ATT AT
1 -AT-T ATT ATT ATT AT
110741497 CGTTTTCTAC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
3 41 0.80
4 8 0.16
5 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:110741667 original size:14 final size:14
Alignment explanation
Indices: 110741648--110741675 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
110741638 ATATTATTAT
110741648 TATTATTACTATTG
1 TATTATTACTATTG
110741662 TATTATTACTATTG
1 TATTATTACTATTG
110741676 CTATACTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TATTATTACTATTG
Found at i:110741667 original size:20 final size:20
Alignment explanation
Indices: 110741642--110741679 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
110741632 TTTAACATAT
*
110741642 TATTATTATTATTACTATTG
1 TATTATTACTATTACTATTG
*
110741662 TATTATTACTATTGCTAT
1 TATTATTACTATTACTAT
110741680 ACTTTCACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (20 bp):
TATTATTACTATTACTATTG
Found at i:110741730 original size:19 final size:16
Alignment explanation
Indices: 110741691--110741738 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 16
110741681 CTTTCACCTA
110741691 TATTT-GTTTTCTTAT
1 TATTTAGTTTTCTTAT
110741706 TATTTAGTTTTCGTTTAT
1 TATTTAGTTTTC--TTAT
*
110741724 CTATTTATTTTTCTT
1 -TATTTAGTTTTCTT
110741739 GCCTACTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 2 0.07
18 4 0.14
19 11 0.39
ACGTcount: A:0.15, C:0.08, G:0.06, T:0.71
Consensus pattern (16 bp):
TATTTAGTTTTCTTAT
Found at i:110741814 original size:26 final size:26
Alignment explanation
Indices: 110741758--110741815 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
110741748 TATCTTTGTT
110741758 ATTA-TTATATTTTAGGTATTATATC
1 ATTATTTATATTTTAGGTATTATATC
*
110741783 -TCTATTTATA-TTTATGTATTAATATC
1 AT-TATTTATATTTTAGGTATT-ATATC
110741809 ATTATTT
1 ATTATTT
110741816 TCCTATTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.04
25 11 0.39
26 15 0.54
27 1 0.04
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (26 bp):
ATTATTTATATTTTAGGTATTATATC
Found at i:110741991 original size:27 final size:26
Alignment explanation
Indices: 110741931--110741991 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
110741921 ATTCCAAATA
* *
110741931 TTTTTTTAGCTTATTTATTATTTCTT
1 TTTTTTTAGCTTATTCATTATTTCAT
* *
110741957 TTTATTTTAGTTTATTCATTTTATTCAT
1 TTT-TTTTAGCTTATTCATTAT-TTCAT
110741985 TTTTTTT
1 TTTTTTT
110741992 TATTTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.10
27 19 0.66
28 7 0.24
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (26 bp):
TTTTTTTAGCTTATTCATTATTTCAT
Found at i:110743891 original size:6 final size:6
Alignment explanation
Indices: 110743882--110743922 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
110743872 ATTAGGGATT
* * *
110743882 GGGAAC GGGAAC GGGAAG GGGAAA GGGAAA GGGAAA GGGAA
1 GGGAAA GGGAAA GGGAAA GGGAAA GGGAAA GGGAAA GGGAA
110743923 TGACTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.41, C:0.05, G:0.54, T:0.00
Consensus pattern (6 bp):
GGGAAA
Found at i:110746345 original size:18 final size:18
Alignment explanation
Indices: 110746322--110746368 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
110746312 GAATATGTAT
*
110746322 GTAATATATATATAAATA
1 GTAATATATATAGAAATA
110746340 GTAATAGTAT-TAGAAATA
1 GTAATA-TATATAGAAATA
*
110746358 -TACTATATATA
1 GTAATATATATA
110746369 ATATTTGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 3 0.12
17 6 0.24
18 13 0.52
19 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (18 bp):
GTAATATATATAGAAATA
Found at i:110746756 original size:30 final size:30
Alignment explanation
Indices: 110746700--110746756 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
110746690 AGTAGTGAAG
*
110746700 ATATATACATGATATGGTATAAAAATAAAA
1 ATATATACATGATATAGTATAAAAATAAAA
110746730 ATATATACATGGA-ATAGTA-AAGAAATA
1 ATATATACAT-GATATAGTATAA-AAATA
110746757 TACAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 2 0.08
30 20 0.83
31 2 0.08
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (30 bp):
ATATATACATGATATAGTATAAAAATAAAA
Found at i:110747055 original size:3 final size:3
Alignment explanation
Indices: 110747047--110747122 Score: 62
Period size: 3 Copynumber: 24.7 Consensus size: 3
110747037 TTATAATAGG
* ** * **
110747047 AAT AAT AAT AAC AAT AAAT AAT AAT AGC AAG AAT AAT AAT AGC AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
110747093 GAT AAT AGAA AAT AAT AAT AAT AAT AAT AA
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA
110747123 AGTAATGAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
3 51 0.91
4 5 0.09
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:110748926 original size:15 final size:15
Alignment explanation
Indices: 110748902--110748931 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
110748892 TGAGTTGATT
*
110748902 TTTGACAAACAGAAA
1 TTTGAAAAACAGAAA
110748917 TTTGAAAAACAGAAA
1 TTTGAAAAACAGAAA
110748932 CTGAAAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (15 bp):
TTTGAAAAACAGAAA
Found at i:110749059 original size:75 final size:76
Alignment explanation
Indices: 110748917--110749225 Score: 232
Period size: 75 Copynumber: 3.9 Consensus size: 76
110748907 CAAACAGAAA
*
110748917 TTTGAAAAACAGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAACTGAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATA
*
110748982 TGAGTTGATATT
65 TGAGTTCATATT
* * *
110748994 TTTGAAAAGCAGAAATTGAAAATTCCTCAGC-GTG-CCCTGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAACTGAAAATACCTCAGCAGTGACCC-GAGGCTCAACTCACCTCTCGCAATA
* *
110749057 TGATTTCATTTT
65 TGAGTTCATATT
* * ** * ** *
110749069 TTTGAAACGTAAATTAAAGAACAAAAAATTGAACATACCTCAGCGTGCCCCGAGGCTCAACTCAC
1 TTTG-AA---AAA-CAGA-AACTGAAAA-T--ACCT-CAGCA--GTGACCCGAGGCTCAACTCAC
* *
110749134 CTCTCGTAATATGAG-TCGATTTT
54 CTCTCGCAATATGAGTTC-ATATT
* * * ** *
110749157 TTTGAAAAACAGAAATTGAAAATGCCTCAAC-GTG-CCCTGAGGCTCAACTCATTTTTCGCAATA
1 TTTGAAAAACAGAAACTGAAAATACCTCAGCAGTGACCC-GAGGCTCAACTCACCTCTCGCAATA
110749220 TGAGTT
65 TGAGTT
110749226 GAATTTTGGA
Statistics
Matches: 182, Mismatches: 32, Indels: 37
0.73 0.13 0.15
Matches are distributed among these distances:
74 5 0.03
75 69 0.38
76 3 0.02
77 28 0.15
78 2 0.01
79 4 0.02
80 2 0.01
81 7 0.04
82 7 0.04
83 2 0.01
84 5 0.03
85 2 0.01
87 4 0.02
88 39 0.21
89 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (76 bp):
TTTGAAAAACAGAAACTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTCATATT
Found at i:110749147 original size:163 final size:163
Alignment explanation
Indices: 110748772--110749225 Score: 564
Period size: 163 Copynumber: 2.8 Consensus size: 163
110748762 AAGTATATTT
*
110748772 TGAAAATACCTCTA-CATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG--ATTTTT
1 TGAAAATACCTC-AGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTT
* * * *
110748834 G-AAACATAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
64 GAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
110748898 GATTTTTGACAAACAGAAATTTGAAAAACAGAAAC
129 CATTTTTGACAAACAGAAATTTGAAAAACAAAAAC
*
110748933 TGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTG
1 TGAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTG
* * *
110748998 AAAAGCAGAAATTGAAAATTCCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGATTT
65 AAAA-CAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*** *
110749063 CATTTTTTTGAAAC-GTAAA-TT-AAAGAACAAAAAAT
129 CATTTTTGACAAACAG-AAATTTGAAA-AAC-AAAAAC
* * * * *
110749098 TGAACATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTCGATTTTTTTGA
1 TGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTG-
* ** *
110749162 AAAACAGAAATTGAAAATGCCTCAACGTGCCCTGAGGCTCAACTCATTTTTCGCAATATGAGTT
65 AAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
110749226 GAATTTTGGA
Statistics
Matches: 257, Mismatches: 27, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
160 1 0.00
161 52 0.20
163 107 0.42
164 13 0.05
165 84 0.33
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (163 bp):
TGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGA
AAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTCA
TTTTTGACAAACAGAAATTTGAAAAACAAAAAC
Found at i:110761206 original size:18 final size:18
Alignment explanation
Indices: 110761183--110761229 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
110761173 GAATATGTAC
*
110761183 GTAATATATATATAAATA
1 GTAATATATATAGAAATA
110761201 GTAATAGTAT-TAGAAATA
1 GTAATA-TATATAGAAATA
*
110761219 -TACTATATATA
1 GTAATATATATA
110761230 ATATTCGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 3 0.12
17 6 0.24
18 13 0.52
19 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (18 bp):
GTAATATATATAGAAATA
Found at i:110761619 original size:30 final size:30
Alignment explanation
Indices: 110761563--110761619 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
110761553 AGTAGTGAAG
*
110761563 ATATATACATGATATGGTATAAAAATAAAA
1 ATATATACATGATATAGTATAAAAATAAAA
110761593 ATATATACATGGA-ATAGTA-AAGAAATA
1 ATATATACAT-GATATAGTATAA-AAATA
110761620 TACAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 2 0.08
30 20 0.83
31 2 0.08
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (30 bp):
ATATATACATGATATAGTATAAAAATAAAA
Found at i:110761676 original size:15 final size:15
Alignment explanation
Indices: 110761617--110761679 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
110761607 TAGTAAAGAA
*
110761617 ATATACAATAAATAAC
1 ATATACAATATAT-AC
* *
110761633 ATA-AAAATATATAT
1 ATATACAATATATAC
* *
110761647 A-ATA-TATATAAAC
1 ATATACAATATATAC
110761660 ATATACAATATATAC
1 ATATACAATATATAC
110761675 ATATA
1 ATATA
110761680 TTAGAGATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
13 8 0.22
14 6 0.17
15 19 0.53
16 3 0.08
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (15 bp):
ATATACAATATATAC
Found at i:110761915 original size:3 final size:3
Alignment explanation
Indices: 110761894--110761978 Score: 53
Period size: 3 Copynumber: 27.7 Consensus size: 3
110761884 GGCAAAACAC
* ** * ** *
110761894 AAT ATT AAT AAT AGG AAT AAT AAT AAC AAT AAAT AAT AAT AGC AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
** * *
110761940 AAT AAT AAT AGC AAT GAT AAT AGAA AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
110761979 AGTAATGAAA
Statistics
Matches: 59, Mismatches: 21, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
3 54 0.92
4 5 0.08
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (3 bp):
AAT
Done.