Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 112 of 120
Found at i:32679718 original size:6 final size:6
Alignment explanation
Indices: 32679707--32679740 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
32679697 AAATCGACAT
32679707 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
32679741 CTCTAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:32679893 original size:50 final size:47
Alignment explanation
Indices: 32679780--32679899 Score: 132
Period size: 47 Copynumber: 2.5 Consensus size: 47
32679770 TGAACTCTAT
* * * * *
32679780 ATATAATTTTCGTGATCTTAATTCAGTTCTAACTAAAAAATATATAG
1 ATATAATTTTCATAATCCTAATTCAATTCTAACTAAAAAATATATAA
* * * *
32679827 ATATAATTTTCCTAATCCTAATTCAATTCTAGCTAATATATATTTATAAA
1 ATATAATTTTCATAATCCTAATTCAATTCTAACTAA-A-AAATATAT-AA
32679877 ATATAATTTTCATAATCCTAATT
1 ATATAATTTTCATAATCCTAATT
32679900 AAGTTATGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 31 0.51
48 1 0.02
49 6 0.10
50 23 0.38
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.43
Consensus pattern (47 bp):
ATATAATTTTCATAATCCTAATTCAATTCTAACTAAAAAATATATAA
Found at i:32680204 original size:30 final size:31
Alignment explanation
Indices: 32680158--32680234 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
32680148 TTTGAATAGG
* * *
32680158 TTTTATCGACTTTTAAAAA-ATTAAATTA-AA
1 TTTTATC-ATTTTTAAAAAGACTAAAGTATAA
32680188 TTTTTATCATTTTTAAAAAGACTAAAGTATAA
1 -TTTTATCATTTTTAAAAAGACTAAAGTATAA
*
32680220 TTTTATCATTATTAA
1 TTTTATCATTTTTAA
32680235 TTTAACATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 10 0.25
31 28 0.70
32 2 0.05
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (31 bp):
TTTTATCATTTTTAAAAAGACTAAAGTATAA
Found at i:32685162 original size:3 final size:3
Alignment explanation
Indices: 32685154--32685191 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
32685144 TGTAAAATTG
32685154 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32685192 TTAACATTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:32692690 original size:26 final size:26
Alignment explanation
Indices: 32692621--32692703 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
32692611 GCGACCCAAT
*
32692621 ATCGGGAAGCTC-CGGAGAGCCATTA
1 ATCGGGAAGCTCACGAAGAGCCATTA
** * * *
32692646 ATTAGGAAGTTCACAAAGAGCCTTTA
1 ATCGGGAAGCTCACGAAGAGCCATTA
*
32692672 ATCGGGAAGCTCATGAAGAGCCATATA
1 ATCGGGAAGCTCACGAAGAGCCAT-TA
32692699 A-CGGG
1 ATCGGG
32692704 GCGCTCATAA
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
25 9 0.20
26 32 0.73
27 3 0.07
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (26 bp):
ATCGGGAAGCTCACGAAGAGCCATTA
Found at i:32695726 original size:26 final size:25
Alignment explanation
Indices: 32695697--32695777 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 25
32695687 CGCATTTGGG
32695697 TAATATATATTGTAGTTATAGATATA
1 TAATATATATTG-AGTTATAGATATA
*
32695723 TAATAAATATTGAGTT-T--ATATA
1 TAATATATATTGAGTTATAGATATA
*
32695745 TAATAT-TA--GACTTATAGCA-ATA
1 TAATATATATTGAGTTATAG-ATATA
32695767 TAATATATATT
1 TAATATATATT
32695778 ATTAATTTCG
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
19 4 0.09
20 1 0.02
21 2 0.04
22 19 0.42
23 3 0.07
24 1 0.02
25 4 0.09
26 11 0.24
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (25 bp):
TAATATATATTGAGTTATAGATATA
Found at i:32700991 original size:32 final size:32
Alignment explanation
Indices: 32700950--32701013 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
32700940 CCGATACACA
32700950 CCCAAGTATCATATTTTACGTAAAGTATCAGT
1 CCCAAGTATCATATTTTACGTAAAGTATCAGT
*
32700982 CCCAAGTATCGTATTTTACGTAAAGTATCAGT
1 CCCAAGTATCATATTTTACGTAAAGTATCAGT
32701014 GCCTTGAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (32 bp):
CCCAAGTATCATATTTTACGTAAAGTATCAGT
Found at i:32701789 original size:18 final size:18
Alignment explanation
Indices: 32701766--32701803 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
32701756 TTCAATTAAG
*
32701766 TCTTTCATT-AAGTGTTTT
1 TCTTTC-TTCAAGTATTTT
32701784 TCTTTCTTCAAGTATTTT
1 TCTTTCTTCAAGTATTTT
32701802 TC
1 TC
32701804 ATCTAGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (18 bp):
TCTTTCTTCAAGTATTTT
Found at i:32701889 original size:12 final size:12
Alignment explanation
Indices: 32701841--32701923 Score: 60
Period size: 12 Copynumber: 6.8 Consensus size: 12
32701831 TACCAAGTTT
*
32701841 TTTTTTATCAAG
1 TTTTTCATCAAG
* *
32701853 TTTTGCAGCAAG
1 TTTTTCATCAAG
* *
32701865 TTCTTT-TTAAAG
1 TT-TTTCATCAAG
32701877 TTTTTCATCAAG
1 TTTTTCATCAAG
* *
32701889 TCTTTTCATAAAA
1 T-TTTTCATCAAG
*
32701902 TTTTCCATCAAG
1 TTTTTCATCAAG
*
32701914 TTTTTAATCA
1 TTTTTCATCA
32701924 TTTCGTTTTT
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
11 3 0.06
12 37 0.71
13 12 0.23
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.49
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:32701900 original size:25 final size:23
Alignment explanation
Indices: 32701850--32701918 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
32701840 TTTTTTTATC
* *
32701850 AAGTTTTGCAGCAAGTTCTTTTTA
1 AAGTTTTCCATCAAG-TCTTTTTA
*
32701874 AAGTTTTTCATCAAGTCTTTTCATA
1 AAGTTTTCCATCAAGTCTTTT--TA
*
32701899 AAATTTTCCATCAAGT-TTTT
1 AAGTTTTCCATCAAGTCTTTT
32701919 AATCATTTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.15
24 17 0.44
25 16 0.41
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (23 bp):
AAGTTTTCCATCAAGTCTTTTTA
Found at i:32705656 original size:13 final size:13
Alignment explanation
Indices: 32705638--32705668 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
32705628 TATTAAGCAG
32705638 TTTTCTTTTTGAC
1 TTTTCTTTTTGAC
32705651 TTTTCTTTTTGAC
1 TTTTCTTTTTGAC
32705664 TTTTC
1 TTTTC
32705669 CTTGTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTTCTTTTTGAC
Found at i:32706770 original size:24 final size:25
Alignment explanation
Indices: 32706732--32706781 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
32706722 GTACTTAACT
32706732 AAGACAAAAAAAAAATCAATTTTAA
1 AAGACAAAAAAAAAATCAATTTTAA
32706757 AAGACAAAAAAAAAATCAATTTTAA
1 AAGACAAAAAAAAAATCAATTTTAA
32706782 GTACTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.68, C:0.08, G:0.04, T:0.20
Consensus pattern (25 bp):
AAGACAAAAAAAAAATCAATTTTAA
Found at i:32708691 original size:20 final size:20
Alignment explanation
Indices: 32708676--32708719 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
32708666 AATTTTAGTC
32708676 CTTT-ATTTTATTTTTTACT
1 CTTTAATTTTATTTTTTACT
* *
32708695 TTTTAATTTTATTTTTAAC-
1 CTTTAATTTTATTTTTTACT
32708714 CTTTAA
1 CTTTAA
32708720 ACTTGTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (20 bp):
CTTTAATTTTATTTTTTACT
Found at i:32708718 original size:19 final size:19
Alignment explanation
Indices: 32708646--32708719 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
32708636 AGTATAATGA
32708646 TTTA-TTTT-ACCTTTTAA-
1 TTTATTTTTAACC-TTTAAT
* *
32708663 TTTAATTTTAGTCCTTT-AT
1 TTTATTTTTA-ACCTTTAAT
* *
32708682 TTTATTTTTTACTTTTTAAT
1 TTTATTTTTAAC-CTTTAAT
32708702 TTTATTTTTAACCTTTAA
1 TTTATTTTTAACCTTTAA
32708720 ACTTGTATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
17 4 0.09
18 6 0.14
19 19 0.43
20 15 0.34
ACGTcount: A:0.23, C:0.09, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTATTTTTAACCTTTAAT
Found at i:32710007 original size:72 final size:72
Alignment explanation
Indices: 32709908--32710126 Score: 366
Period size: 72 Copynumber: 3.0 Consensus size: 72
32709898 GAAGGGTTTC
* * * *
32709908 GGTTTGTAAATAGGAACCGGCGGTGGAAGCGGCTTCTTATAAACCGGCACCGGATGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTGTAGACCGGCACCGGATGAGGCTTATA
32709973 AACCGGT
66 AACCGGT
32709980 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTGTAGACCGGCACCGGATGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTGTAGACCGGCACCGGATGAGGCTTATA
32710045 AACCGGT
66 AACCGGT
* * * *
32710052 GGTTTGTAGACAGGAACCGGCGGAGGGAGTGGTTTCTTGTAGACCGGCACCGGATGAGGCTTATA
1 GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTGTAGACCGGCACCGGATGAGGCTTATA
32710117 AACCGGT
66 AACCGGT
32710124 GGT
1 GGT
32710127 GGAAGAGGTT
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 139 1.00
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.22
Consensus pattern (72 bp):
GGTTTGTAGACAGGAACCGGCGGTGGAAGCGGCTTCTTGTAGACCGGCACCGGATGAGGCTTATA
AACCGGT
Found at i:32711397 original size:18 final size:17
Alignment explanation
Indices: 32711355--32711397 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
32711345 TTTTTAAGTT
*
32711355 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
32711372 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
32711390 TATAATTT
1 TATAATTT
32711398 AGAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:32723111 original size:59 final size:58
Alignment explanation
Indices: 32723048--32723167 Score: 195
Period size: 59 Copynumber: 2.1 Consensus size: 58
32723038 ATCAGGTTTG
* * * *
32723048 TTTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATATAATTAATAATTTGATAA
1 TTTTACTAATCAAATGTTAGATTTTGTCACAACAATTAATACAATTAACAA-TTAATAA
32723107 TTTTACTAATCAAATGTTAGATTTTGTCACAACAATTAATACAATTAACAATTAATAA
1 TTTTACTAATCAAATGTTAGATTTTGTCACAACAATTAATACAATTAACAATTAATAA
32723165 TTT
1 TTT
32723168 GATAATTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 9 0.16
59 48 0.84
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (58 bp):
TTTTACTAATCAAATGTTAGATTTTGTCACAACAATTAATACAATTAACAATTAATAA
Found at i:32723195 original size:22 final size:22
Alignment explanation
Indices: 32723161--32723221 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
32723151 TTAACAATTA
32723161 ATAATTTGATAATTTTACTAACAAT
1 ATAATTT--TAATTTTACTAA-AAT
* *
32723186 -TAGTTTTAATTTTATTAAAAT
1 ATAATTTTAATTTTACTAAAAT
32723207 ATAATTTTAATTTTA
1 ATAATTTTAATTTTA
32723222 ATTAAAAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 3 0.09
22 24 0.75
24 5 0.16
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (22 bp):
ATAATTTTAATTTTACTAAAAT
Found at i:32737303 original size:13 final size:13
Alignment explanation
Indices: 32737283--32737348 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
32737273 AGTTCTTTAT
32737283 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
32737296 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
32737309 TGCTCTGGAAAAG
1 TGCTTTTGAAAAG
32737322 TGCTTTTGAGAAA-
1 TGCTTTTGA-AAAG
32737335 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
32737348 T
1 T
32737349 TTGGTTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
12 3 0.07
13 39 0.87
14 3 0.07
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:32744032 original size:29 final size:32
Alignment explanation
Indices: 32743999--32744102 Score: 85
Period size: 31 Copynumber: 3.4 Consensus size: 32
32743989 GATTTAATTG
*
32743999 AAATTTTGCGA-GATTT-A-TAAAAATTTTCA
1 AAATTTTGAGAGGATTTAATTAAAAATTTTCA
* *
32744028 AAA-TTTGAGAGGATTTAATTAAAATTTTTTA
1 AAATTTTGAGAGGATTTAATTAAAAATTTTCA
** * * *
32744059 AAATTTAAAGAGG-CTTAATTAAATATTTTTA
1 AAATTTTGAGAGGATTTAATTAAAAATTTTCA
*
32744090 ATATTTTGA-AGGA
1 AAATTTTGAGAGGA
32744103 AAATTTCTCA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 6 0.10
29 8 0.14
30 4 0.07
31 34 0.58
32 7 0.12
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (32 bp):
AAATTTTGAGAGGATTTAATTAAAAATTTTCA
Found at i:32744089 original size:31 final size:30
Alignment explanation
Indices: 32744018--32744095 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
32744008 GAGATTTATA
* * *
32744018 AAAATTTTCAAAATTTGAGAGGATTTAATT
1 AAAATTTTTAAAATTTAAGAGGACTTAATT
32744048 AAAATTTTTTAAAATTTAAAGAGG-CTTAATT
1 AAAA-TTTTTAAAATTT-AAGAGGACTTAATT
*
32744079 AAATATTTTTAATATTT
1 AAA-ATTTTTAAAATTT
32744096 TGAAGGAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 4 0.10
31 31 0.76
32 6 0.15
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.45
Consensus pattern (30 bp):
AAAATTTTTAAAATTTAAGAGGACTTAATT
Found at i:32744614 original size:18 final size:16
Alignment explanation
Indices: 32744577--32744615 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
32744567 AGGTTTGAGA
*
32744577 TAAAATAATAAAATAT
1 TAAAATAAAAAAATAT
32744593 TAAAATGAAAAAAATCAT
1 TAAAAT-AAAAAAAT-AT
32744611 TAAAA
1 TAAAA
32744616 GATTGGAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 7 0.35
18 7 0.35
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
TAAAATAAAAAAATAT
Found at i:32746474 original size:12 final size:12
Alignment explanation
Indices: 32746457--32746481 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32746447 CTCATAGGGT
32746457 CCTTTTTAAATC
1 CCTTTTTAAATC
32746469 CCTTTTTAAATC
1 CCTTTTTAAATC
32746481 C
1 C
32746482 AACTTGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
CCTTTTTAAATC
Found at i:32748947 original size:41 final size:40
Alignment explanation
Indices: 32748908--32748990 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 40
32748898 AATATATTTA
32748908 TTTTTT-AATTTTTT-AATTTTAAAATATTTTTAAAATAT
1 TTTTTTAAATTTTTTAAATTTTAAAATATTTTTAAAATAT
*
32748946 TTTTTTAAATTTTTTAAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTT-AAATTTTAAAATATTTTTAAAATAT
32748987 TTTT
1 TTTT
32748991 AAAATTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
38 6 0.15
39 8 0.20
41 27 0.66
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (40 bp):
TTTTTTAAATTTTTTAAATTTTAAAATATTTTTAAAATAT
Found at i:32748950 original size:30 final size:30
Alignment explanation
Indices: 32748916--32749019 Score: 96
Period size: 30 Copynumber: 3.5 Consensus size: 30
32748906 TATTTTTTAA
32748916 TTTTTT-AA-TTTTAAAATATTTTTAAAATAT
1 TTTTTTAAATTTTTAAAA-A-TTTTAAAATAT
*
32748946 TTTTTTAAATTTTTTAAAATTTTAAAATA-
1 TTTTTTAAATTTTTAAAAATTTTAAAATAT
*
32748975 TTTTTAAAATACTTTT-AAAA--TTAAAATACT
1 TTTTTTAAAT--TTTTAAAAATTTTAAAATA-T
32749005 TTTTTT-AATTTTTAA
1 TTTTTTAAATTTTTAA
32749020 TATTTATTAG
Statistics
Matches: 64, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
27 4 0.06
28 9 0.14
29 12 0.19
30 25 0.39
31 7 0.11
32 7 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTTTAAATTTTTAAAAATTTTAAAATAT
Found at i:32748952 original size:13 final size:11
Alignment explanation
Indices: 32748924--32748995 Score: 89
Period size: 11 Copynumber: 6.8 Consensus size: 11
32748914 AATTTTTTAA
32748924 TTTTAAAATAT
1 TTTTAAAATAT
32748935 TTTTAAAATATT
1 TTTTAAAATA-T
*
32748947 TTTTTAAAT-T
1 TTTTAAAATAT
32748957 TTTT-AAA-A-
1 TTTTAAAATAT
32748965 TTTTAAAATAT
1 TTTTAAAATAT
*
32748976 TTTTAAAATAC
1 TTTTAAAATAT
32748987 TTTTAAAAT
1 TTTTAAAAT
32748996 TAAAATACTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
8 4 0.07
9 6 0.11
10 6 0.11
11 29 0.54
12 9 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:32749764 original size:23 final size:22
Alignment explanation
Indices: 32749714--32749764 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
32749704 TGTTTAATCT
32749714 ATTTAAAAATGATGAAATTATA
1 ATTTAAAAATGATGAAATTATA
*
32749736 AGTTAATAAATGAT-AAATTTATA
1 ATTTAA-AAATGATGAAA-TTATA
*
32749759 TTTTAA
1 ATTTAA
32749765 CTTTTTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (22 bp):
ATTTAAAAATGATGAAATTATA
Found at i:32751537 original size:11 final size:11
Alignment explanation
Indices: 32751517--32751573 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
32751507 TAAAAATTAA
32751517 AAAAAGTATTTT
1 AAAAA-TATTTT
32751529 AAAAATATTTT
1 AAAAATATTTT
*
32751540 --AAA-A-TTA
1 AAAAATATTTT
32751547 AAAAATTATTTT
1 AAAAA-TATTTT
32751559 AAAAATATTTT
1 AAAAATATTTT
32751570 AAAA
1 AAAA
32751574 TTAAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
7 2 0.05
8 1 0.03
9 6 0.16
11 17 0.45
12 12 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:32751541 original size:39 final size:38
Alignment explanation
Indices: 32751498--32751662 Score: 166
Period size: 39 Copynumber: 4.4 Consensus size: 38
32751488 GCCCATTTTA
* *
32751498 TTTAAAATTTAAAAATTAAAAAAAGTATTTTAAAAATAT
1 TTTAAAATTAAAAAATTAAAAAAA-TATTTAAAAAATAT
32751537 TTTAAAATTAAAAAATT------AT-TTT-AAAAATAT
1 TTTAAAATTAAAAAATTAAAAAAATATTTAAAAAATAT
* *
32751567 TTTAAAATTAAAAAAATTAAAAAATATATTTTAAAATTAT
1 TTTAAAATT-AAAAAATTAAAAAA-ATATTTAAAAAATAT
* * *
32751607 TTTAAAATTAAAAAAATAAAAAAGTATGTAAAAAATAT
1 TTTAAAATTAAAAAATTAAAAAAATATTTAAAAAATAT
32751645 TTTAAAATTTTAAAAAAT
1 TTTAAAA--TTAAAAAAT
32751663 AAATATATTT
Statistics
Matches: 106, Mismatches: 8, Indels: 23
0.77 0.06 0.17
Matches are distributed among these distances:
30 17 0.16
31 11 0.10
32 1 0.01
33 1 0.01
38 20 0.19
39 32 0.30
40 24 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (38 bp):
TTTAAAATTAAAAAATTAAAAAAATATTTAAAAAATAT
Found at i:32751557 original size:30 final size:29
Alignment explanation
Indices: 32751504--32751605 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 29
32751494 TTTATTTAAA
*
32751504 ATTTAAAAATTAAAAAAAGTATTTTAAAAAT
1 ATTTTAAAATT-AAAAAA-TATTTTAAAAAT
32751535 ATTTTAAAATTAAAAAATTATTTTAAAAAT
1 ATTTTAAAATTAAAAAA-TATTTTAAAAAT
**
32751565 ATTTTAAAATTAAAAAA-ATTAAAAAATAT
1 ATTTTAAAATTAAAAAATATTTTAAAA-AT
32751594 ATTTTAAAATTA
1 ATTTTAAAATTA
32751606 TTTTAAAATT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
28 7 0.11
29 14 0.21
30 35 0.53
31 10 0.15
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (29 bp):
ATTTTAAAATTAAAAAATATTTTAAAAAT
Found at i:32751590 original size:40 final size:39
Alignment explanation
Indices: 32751540--32751662 Score: 176
Period size: 40 Copynumber: 3.1 Consensus size: 39
32751530 AAAATATTTT
32751540 AAAATTAAAAAATTATTTTAAAAATATTTTAAAATTAAA
1 AAAATTAAAAAATTATTTTAAAAATATTTTAAAATTAAA
*
32751579 AAAATTAAAAAATATATTTTAAAATTATTTTAAAATTAAA
1 AAAATTAAAAAAT-TATTTTAAAAATATTTTAAAATTAAA
* * * *
32751619 AAAA-TAAAAAAGTATGTAAAAAATATTTTAAAATTTTAA
1 AAAATTAAAAAATTATTTTAAAAATATTTTAAAA-TTAAA
32751658 AAAAT
1 AAAAT
32751663 AAATATATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
38 18 0.24
39 28 0.37
40 29 0.39
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (39 bp):
AAAATTAAAAAATTATTTTAAAAATATTTTAAAATTAAA
Found at i:32751607 original size:11 final size:11
Alignment explanation
Indices: 32751587--32751616 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
32751577 AAAAAATTAA
32751587 AAAATATATTTT
1 AAAAT-TATTTT
32751599 AAAATTATTTT
1 AAAATTATTTT
32751610 AAAATTA
1 AAAATTA
32751617 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:32752777 original size:30 final size:31
Alignment explanation
Indices: 32752743--32752810 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
32752733 TCTAATTAAA
* *
32752743 AAAAGTTACAATTT-AGTCATTGAACTATTT
1 AAAAGTTACAATTTAAGTCACTGAACTATTC
***
32752773 AAAAGTTTTTATTTAAGTCACTGAACTATTC
1 AAAAGTTACAATTTAAGTCACTGAACTATTC
32752804 AAAAGTT
1 AAAAGTT
32752811 TTTATTCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (31 bp):
AAAAGTTACAATTTAAGTCACTGAACTATTC
Found at i:32752798 original size:31 final size:31
Alignment explanation
Indices: 32752753--32752825 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
32752743 AAAAGTTACA
* *
32752753 ATTT-AGTCATTGAACTATTTAAAAGTTTTT
1 ATTTAAGTCACTGAACTATTCAAAAGTTTTT
32752783 ATTTAAGTCACTGAACTATTCAAAAGTTTTT
1 ATTTAAGTCACTGAACTATTCAAAAGTTTTT
*
32752814 ATTCAAGTCACT
1 ATTTAAGTCACT
32752826 TTACTGTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 4 0.10
31 35 0.90
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (31 bp):
ATTTAAGTCACTGAACTATTCAAAAGTTTTT
Found at i:32759667 original size:17 final size:17
Alignment explanation
Indices: 32759631--32759675 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
32759621 CCGATATAAT
* *
32759631 AAATATATTT-ATTTTT
1 AAATATTTTTAATTTTA
*
32759647 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
32759664 AAATATTTTTAA
1 AAATATTTTTAA
32759676 AATACTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:32759673 original size:11 final size:11
Alignment explanation
Indices: 32759659--32759767 Score: 60
Period size: 11 Copynumber: 10.5 Consensus size: 11
32759649 ATTTTTTTAA
32759659 TTTTAAAATAT
1 TTTTAAAATAT
32759670 TTTTAAAATACTT
1 TTTTAAAATA--T
** *
32759683 TTTTTTATTAT
1 TTTTAAAATAT
32759694 TTTT---A-A-
1 TTTTAAAATAT
32759700 TTTTAAAATAT
1 TTTTAAAATAT
*
32759711 TTTTAAAATACA
1 TTTTAAAATA-T
32759723 TTTTAAAAT-T
1 TTTTAAAATAT
*
32759733 TTTT----TAA
1 TTTTAAAATAT
32759740 TTTTAAAAT-T
1 TTTTAAAATAT
32759750 TTTTAAAATACT
1 TTTTAAAATA-T
32759762 TTTTAA
1 TTTTAA
32759768 TTTTTAAAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 29
0.67 0.07 0.26
Matches are distributed among these distances:
6 5 0.07
7 5 0.07
9 1 0.01
10 14 0.19
11 26 0.35
12 16 0.21
13 8 0.11
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:32759687 original size:41 final size:41
Alignment explanation
Indices: 32759642--32759765 Score: 191
Period size: 41 Copynumber: 3.1 Consensus size: 41
32759632 AATATATTTA
32759642 TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
1 TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
* *
32759683 TTTTT-TATTATTTTTAATTTTAAAATATTTTTAAAATAC-A
1 TTTTTAAATT-TTTTTAATTTTAAAATATTTTTAAAATACTT
*
32759723 TTTTAAAATTTTTTTAATTTTAAAAT-TTTTTAAAATACTT
1 TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
32759763 TTT
1 TTT
32759766 AATTTTTAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
39 12 0.16
40 26 0.35
41 37 0.49
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (41 bp):
TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
Found at i:32759743 original size:29 final size:30
Alignment explanation
Indices: 32759709--32759784 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
32759699 ATTTTAAAAT
*
32759709 ATTTTTAAAATACATTTTAAAAT-TTTTTTA
1 ATTTTTAAAATA-ATTTTAAAATACTTTTTA
*
32759739 A-TTTTAAAAT-TTTTTAAAATACTTTTTA
1 ATTTTTAAAATAATTTTAAAATACTTTTTA
32759767 ATTTTTAAAATAAATTTT
1 ATTTTTAAAAT-AATTTT
32759785 TGGTATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 9 0.23
28 7 0.18
29 18 0.46
30 1 0.03
31 4 0.10
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTTTAAAATAATTTTAAAATACTTTTTA
Found at i:32759755 original size:16 final size:17
Alignment explanation
Indices: 32759693--32759753 Score: 68
Period size: 17 Copynumber: 3.2 Consensus size: 17
32759683 TTTTTTATTA
32759693 TTTTTAATTTTAAAATAT
1 TTTTTAATTTTAAAAT-T
32759711 TTTTAAAATACATTTTAAAATT
1 TTTT----TA-ATTTTAAAATT
32759733 TTTTTAATTTTAAAATT
1 TTTTTAATTTTAAAATT
32759750 TTTT
1 TTTT
32759754 AAAATACTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
17 15 0.39
18 6 0.16
22 7 0.18
23 10 0.26
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTAATTTTAAAATT
Found at i:32759766 original size:12 final size:10
Alignment explanation
Indices: 32759700--32759758 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
32759690 TTATTTTTAA
32759700 TTTTAAAATAT
1 TTTTAAAAT-T
*
32759711 TTTTAAAATACA
1 TTTTAAAAT--T
32759723 TTTTAAAATT
1 TTTTAAAATT
*
32759733 TTTT-TAA--
1 TTTTAAAATT
32759740 TTTTAAAATT
1 TTTTAAAATT
32759750 TTTTAAAAT
1 TTTTAAAAT
32759759 ACTTTTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
7 4 0.10
8 2 0.05
9 2 0.05
10 13 0.33
11 9 0.23
12 9 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:32760932 original size:115 final size:115
Alignment explanation
Indices: 32760728--32760955 Score: 411
Period size: 115 Copynumber: 2.0 Consensus size: 115
32760718 ATGTGATACC
32760728 ATGGAAATTGATCATGGTGGTGATGGAAAAGAGGAGAGGAAACAATGATTTGATGGTCCAGGGCC
1 ATGGAAATTGATCATGGTGGTGATGGAAAAGAGGAGAGGAAACAATGATTTGATGGTCCAGGGCC
*
32760793 CGATCATGGGGACAATGTCTACTCATGCTGCCTTGTGTTACCCTTAATTG
66 CGATCATGGGGACAATGTCCACTCATGCTGCCTTGTGTTACCCTTAATTG
*
32760843 ATGGAAGTTGATCATGGTGGTGATGGAAAAGAGGAGAGGAAACAATGATTTGATGGTCCAGGGCC
1 ATGGAAATTGATCATGGTGGTGATGGAAAAGAGGAGAGGAAACAATGATTTGATGGTCCAGGGCC
* * *
32760908 CGATCATGGGGGCAGTGTCCACTCATGCTGCCTTGTGTTAGCCTTAAT
66 CGATCATGGGGACAATGTCCACTCATGCTGCCTTGTGTTACCCTTAAT
32760956 AGATCGACCC
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 108 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (115 bp):
ATGGAAATTGATCATGGTGGTGATGGAAAAGAGGAGAGGAAACAATGATTTGATGGTCCAGGGCC
CGATCATGGGGACAATGTCCACTCATGCTGCCTTGTGTTACCCTTAATTG
Found at i:32770113 original size:20 final size:21
Alignment explanation
Indices: 32770088--32770127 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32770078 AAATAAACAC
32770088 AAAAAA-AATTTTAAAAATAA
1 AAAAAAGAATTTTAAAAATAA
*
32770108 AAAAAAGTATTTTAAAAATA
1 AAAAAAGAATTTTAAAAATA
32770128 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAAAGAATTTTAAAAATAA
Found at i:32770129 original size:11 final size:11
Alignment explanation
Indices: 32770109--32770138 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
32770099 TAAAAATAAA
32770109 AAAAAGTATTTT
1 AAAAA-TATTTT
32770121 AAAAATATTTT
1 AAAAATATTTT
32770132 AAAAATA
1 AAAAATA
32770139 ACAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:32770175 original size:38 final size:40
Alignment explanation
Indices: 32770100--32770188 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 40
32770090 AAAAAATTTT
32770100 AAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAAAT-A
1 AAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAAATAA
* *
32770139 ACAAATAAAAAAATGTATTTTAAAAATATTTT-AAAATAA
1 AAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAAATAA
32770178 AAAAATAAAAA
1 AAAAATAAAAA
32770189 TAAATATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 5 0.11
39 41 0.89
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (40 bp):
AAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAAATAA
Found at i:32772242 original size:18 final size:17
Alignment explanation
Indices: 32772227--32772260 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32772217 TATATTTATT
*
32772227 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
32772244 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
32772261 AATACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:32772274 original size:48 final size:49
Alignment explanation
Indices: 32772221--32772326 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 49
32772211 AATAAATATA
32772221 TTTATTTTTTAAAATT-TTTTT-AATTTTAAAATATTTTTAAAATACTTT
1 TTTATTTTTTAAAATTATTTTTAAATTTT-AAATATTTTTAAAATACTTT
*** *
32772269 TTTA-TTTTTATTTTTATTTTTAAATTTTAAATTTTTTTAAAATACTTT
1 TTTATTTTTTAAAATTATTTTTAAATTTTAAATATTTTTAAAATACTTT
**
32772317 TAAATTTTTT
1 TTTATTTTTT
32772327 TTAATTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 8 0.16
48 30 0.61
49 11 0.22
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (49 bp):
TTTATTTTTTAAAATTATTTTTAAATTTTAAATATTTTTAAAATACTTT
Found at i:32772317 original size:28 final size:27
Alignment explanation
Indices: 32772286--32772345 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 27
32772276 TTATTTTTAT
32772286 TTTTAAATTTTAAATTT-TTTTAAAATAC
1 TTTTAAATTTT--ATTTATTTTAAAATAC
*
32772314 TTTTAAATTTTTTTTAATTTTAAAATAC
1 TTTTAAATTTTATTT-ATTTTAAAATAC
32772342 TTTT
1 TTTT
32772346 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 3 0.10
28 26 0.90
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTTAAATTTTATTTATTTTAAAATAC
Found at i:32772345 original size:21 final size:21
Alignment explanation
Indices: 32772322--32772361 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
32772312 ACTTTTAAAT
32772322 TTTTTTTAA-TTTTAAAATAC
1 TTTTTTTAATTTTTAAAATAC
32772342 TTTTTTTAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAATA
32772362 AATTTTTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTTAATTTTTAAAATAC
Found at i:32772367 original size:20 final size:20
Alignment explanation
Indices: 32772324--32772368 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
32772314 TTTTAAATTT
**
32772324 TTTTTAATTTTAAAATACTT
1 TTTTTAATTTTAAAATACAA
32772344 TTTTTAATTTTTAAAATA-AA
1 TTTTTAA-TTTTAAAATACAA
32772364 TTTTT
1 TTTTT
32772369 GGTATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAATTTTAAAATACAA
Found at i:32772367 original size:21 final size:20
Alignment explanation
Indices: 32772323--32772368 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
32772313 CTTTTAAATT
**
32772323 TTTTTTAATTTTAAAATACT
1 TTTTTTAATTTTAAAATAAA
32772343 TTTTTTAATTTTTAAAATAAA
1 TTTTTTAA-TTTTAAAATAAA
32772364 TTTTT
1 TTTTT
32772369 GGTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTAATTTTAAAATAAA
Found at i:32774904 original size:17 final size:16
Alignment explanation
Indices: 32774880--32774951 Score: 54
Period size: 17 Copynumber: 4.0 Consensus size: 16
32774870 GAGGATTTTC
32774880 CTCAACAGAAAATATT
1 CTCAACAGAAAATATT
*
32774896 CTGCAACAGTTAGAAAATTTT
1 CT-CAAC----AGAAAATATT
*
32774917 CCTCAACTGAAAAATATT
1 -CTCAACAG-AAAATATT
32774935 CTACAACAGAAAATATT
1 CT-CAACAGAAAATATT
32774952 TTGAAAAAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 15
0.70 0.06 0.24
Matches are distributed among these distances:
16 2 0.05
17 15 0.34
18 12 0.27
21 13 0.30
22 2 0.05
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (16 bp):
CTCAACAGAAAATATT
Found at i:32788190 original size:5 final size:6
Alignment explanation
Indices: 32788175--32788200 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32788165 TTTGTCTTTA
32788175 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
32788201 TACTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:32790643 original size:166 final size:167
Alignment explanation
Indices: 32790323--32790647 Score: 535
Period size: 166 Copynumber: 2.0 Consensus size: 167
32790313 GATTGTTGTC
32790323 CAAGCGATGTTCTGGAAAATGAATAAATTCTTGTTTTTCCAGATGCACCAAGTGATTATTCCAAA
1 CAAGCGATGTTCTGGAAAATGAATAAATTCTTGTTTTTCCAGATGCACCAAGTGATTATTCCAAA
* * *
32790388 AAAAACACGACCAAATCGTGTCACGTTCCTGCAACCTCATCTAACAACAAAGGTTAAAAGAAAAT
66 AAAAACACGACCAAATAGTGTCACGTCCCTGCAACCTCATCTAACAACAAAAGTTAAAAGAAAAT
*
32790453 TAAGACCGAAAAGATTTAGAGAAAAACCATGTGACAG
131 CAAGACCGAAAAGATTTAGAGAAAAACCATGTGACAG
* * *
32790490 CAAGCGATGTTTTGGAAAATGAATAAATTCTTGTTTTTCCAGGTGCACCAAGTGGTTATTCC-AA
1 CAAGCGATGTTCTGGAAAATGAATAAATTCTTGTTTTTCCAGATGCACCAAGTGATTATTCCAAA
* * * *
32790554 AAAGACACGATCAAATAGTGTCACGTCCCTGCAACCTCATGTGACAACAAAAGTTAAAAGAAAAT
66 AAAAACACGACCAAATAGTGTCACGTCCCTGCAACCTCATCTAACAACAAAAGTTAAAAGAAAAT
*
32790619 CAATACCGAAAAGATTTAGAGAAAAACCA
131 CAAGACCGAAAAGATTTAGAGAAAAACCA
32790648 GTATTATTGA
Statistics
Matches: 146, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
166 87 0.60
167 59 0.40
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (167 bp):
CAAGCGATGTTCTGGAAAATGAATAAATTCTTGTTTTTCCAGATGCACCAAGTGATTATTCCAAA
AAAAACACGACCAAATAGTGTCACGTCCCTGCAACCTCATCTAACAACAAAAGTTAAAAGAAAAT
CAAGACCGAAAAGATTTAGAGAAAAACCATGTGACAG
Found at i:32790842 original size:20 final size:21
Alignment explanation
Indices: 32790817--32790862 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
32790807 GTTTTTTACT
*
32790817 AAAATAACACAATAA-ATAAA
1 AAAATAACAAAATAATATAAA
*
32790837 AAAATACCAAAATAATATAAA
1 AAAATAACAAAATAATATAAA
32790858 AAAAT
1 AAAAT
32790863 TATTTACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAATAACAAAATAATATAAA
Found at i:32792317 original size:27 final size:26
Alignment explanation
Indices: 32792274--32792336 Score: 108
Period size: 27 Copynumber: 2.4 Consensus size: 26
32792264 TTTTTTGGTA
*
32792274 TATTTTAGTAAATAATTTTTTTATAT
1 TATTTTGGTAAATAATTTTTTTATAT
32792300 TATTTTGGTAAATAAATTTTTTTATAT
1 TATTTTGGTAAAT-AATTTTTTTATAT
32792327 TATTTTGGTA
1 TATTTTGGTA
32792337 TTTTTTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 12 0.34
27 23 0.66
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (26 bp):
TATTTTGGTAAATAATTTTTTTATAT
Found at i:32792353 original size:21 final size:24
Alignment explanation
Indices: 32792289--32792363 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 24
32792279 TAGTAAATAA
*
32792289 TTTTTTTATATTATTTTG-GTAAATAAA
1 TTTTTTTATATTATTTTGTGT---T-AT
32792316 TTTTTTTATATTATTTTG-G-TAT
1 TTTTTTTATATTATTTTGTGTTAT
*
32792338 TTTTTTTAT-TTCTTTTGTGTTAT
1 TTTTTTTATATTATTTTGTGTTAT
32792361 TTT
1 TTT
32792364 AGTAAAAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.16
22 11 0.25
23 7 0.16
27 19 0.43
ACGTcount: A:0.20, C:0.01, G:0.08, T:0.71
Consensus pattern (24 bp):
TTTTTTTATATTATTTTGTGTTAT
Found at i:32799970 original size:2 final size:2
Alignment explanation
Indices: 32799963--32800030 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
32799953 ACTTCTTACT
32799963 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
32800005 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
32800031 AACTTTATTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:32804188 original size:20 final size:19
Alignment explanation
Indices: 32804160--32804197 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
32804150 GCTAAAAAAA
32804160 TTTGATTAATTCAATCAAAT
1 TTTGATTAA-TCAATCAAAT
*
32804180 TTTGTTTAATCAATCAAA
1 TTTGATTAATCAATCAAA
32804198 ATTAACATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTGATTAATCAATCAAAT
Found at i:32804199 original size:20 final size:21
Alignment explanation
Indices: 32804155--32804200 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
32804145 ATCGAGCTAA
*
32804155 AAAAATTTGATTAATTCAATC
1 AAAATTTTGATTAATTCAATC
*
32804176 -AAATTTTGTTTAA-TCAATC
1 AAAATTTTGATTAATTCAATC
32804195 AAAATT
1 AAAATT
32804201 AACATCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (21 bp):
AAAATTTTGATTAATTCAATC
Found at i:32804359 original size:17 final size:16
Alignment explanation
Indices: 32804333--32804365 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
32804323 CTAAAGTTTT
32804333 AAAAAAAAACTTTAAA
1 AAAAAAAAACTTTAAA
32804349 AAAATAAAAACTTTAAA
1 AAAA-AAAAACTTTAAA
32804366 TAACACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAAAAAACTTTAAA
Found at i:32805660 original size:30 final size:30
Alignment explanation
Indices: 32805626--32805683 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
32805616 CCCTATTGAA
*
32805626 AAAAAACTCATTAAA-CC-CCAAAACTTTTT
1 AAAAAA-TAATTAAACCCTCCAAAACTTTTT
32805655 AAAAAATAATTAAACCCTCCAAAACTTTT
1 AAAAAATAATTAAACCCTCCAAAACTTTT
32805684 AGAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 8 0.31
30 11 0.42
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (30 bp):
AAAAAATAATTAAACCCTCCAAAACTTTTT
Found at i:32808343 original size:16 final size:16
Alignment explanation
Indices: 32808316--32808356 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
32808306 TCAAAGGTGA
* *
32808316 TTTTTTTATTTTT-AT
1 TTTTTTTCTTTTTGAG
32808331 TTTTTTTCTTTTTGAG
1 TTTTTTTCTTTTTGAG
32808347 TTTTTTTCTT
1 TTTTTTTCTT
32808357 CGATTCGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.83
Consensus pattern (16 bp):
TTTTTTTCTTTTTGAG
Found at i:32809081 original size:3 final size:3
Alignment explanation
Indices: 32809073--32809111 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
32809063 TTATTACATC
32809073 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32809112 TGCTTATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:32809944 original size:110 final size:107
Alignment explanation
Indices: 32809692--32810002 Score: 444
Period size: 110 Copynumber: 2.9 Consensus size: 107
32809682 GTTTTTTTAA
* * *
32809692 AAAACGAGGCGATATTTTGCATTTGGAAAGTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGAT
1 AAAACGAGGCAATATTTTGCATTTGGAAACTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
* * *
32809757 TTCTCGTTCAACCAAATAGCCAAGTATCC-TTCCAAAATTTC
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTCAAAAATTTC
*** **
32809798 AAAGTAAGGCAATATTTTGCATTTGGAAGTTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
1 AAAACGAGGCAATATTTTGCATTTGGAAACTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-
* *
32809863 TTTTTTCCGTTCGACCAAATAGCCAAATATCCTTTCAAAAATTTT
65 -TTTCT-CGTTCGACCAAATAGCCAAATATCCTTTCAAAAATTTC
* *
32809908 AAAACGAGGCAATATTTTGCATTTGGAAACTCGAGAAAACGTGCCCTAATGCGCTGGCTTTCGAT
1 AAAACGAGGCAATATTTTGCATTTGGAAACTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
*
32809973 TTCTCGTTGGACCAAATAGCCAAATATCCT
66 TTCTCGTTCGACCAAATAGCCAAATATCCT
32810003 CTTATATCTT
Statistics
Matches: 180, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
106 57 0.32
107 25 0.14
108 8 0.04
109 23 0.13
110 67 0.37
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (107 bp):
AAAACGAGGCAATATTTTGCATTTGGAAACTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAATAGCCAAATATCCTTTCAAAAATTTC
Found at i:32811109 original size:23 final size:22
Alignment explanation
Indices: 32811069--32811112 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
32811059 AAATTATAAA
*
32811069 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
32811091 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
32811113 TGTGAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:32821207 original size:23 final size:23
Alignment explanation
Indices: 32821181--32821256 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
32821171 ATAAGTGCCA
32821181 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32821204 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
32821227 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32821250 CACTGAT
1 CACTGAT
32821257 CAATAACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:32821356 original size:8 final size:8
Alignment explanation
Indices: 32821343--32821371 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
32821333 ACCCGGGACT
32821343 CACTGTAA
1 CACTGTAA
32821351 CACTGTAA
1 CACTGTAA
32821359 CACTGTAA
1 CACTGTAA
32821367 CACTG
1 CACTG
32821372 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:32829896 original size:15 final size:15
Alignment explanation
Indices: 32829876--32829926 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
32829866 AAGATAATGG
32829876 AAAAGAAAGAAAATT
1 AAAAGAAAGAAAATT
* *
32829891 AAAAGAACATAAAA-G
1 AAAAGAA-AGAAAATT
32829906 AAAA-AAAGAAAATT
1 AAAAGAAAGAAAATT
32829920 AAAAGAA
1 AAAAGAA
32829927 CATAAAAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 5 0.17
14 6 0.21
15 13 0.45
16 5 0.17
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (15 bp):
AAAAGAAAGAAAATT
Found at i:32829915 original size:29 final size:29
Alignment explanation
Indices: 32829875--32829941 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
32829865 AAAGATAATG
32829875 GAAAAGAAAGAAAATTAAAAGAACATAAAA
1 GAAAA-AAAGAAAATTAAAAGAACATAAAA
32829905 GAAAAAAAGAAAATTAAAAGAACATAAAA
1 GAAAAAAAGAAAATTAAAAGAACATAAAA
32829934 GAAAAAAA
1 GAAAAAAA
32829942 AATTAAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 32 0.86
30 5 0.14
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (29 bp):
GAAAAAAAGAAAATTAAAAGAACATAAAA
Found at i:32829924 original size:19 final size:20
Alignment explanation
Indices: 32829890--32829942 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
32829880 GAAAGAAAAT
*
32829890 TAAAAGAACATAAAAGAA-A
1 TAAAAGAAAATAAAAGAACA
32829909 -AAAAGAAAATTAAAAGAACA
1 TAAAAGAAAA-TAAAAGAACA
32829929 TAAAAGAAAA-AAAA
1 TAAAAGAAAATAAAA
32829943 ATTAAATTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 8 0.27
19 12 0.40
20 1 0.03
21 9 0.30
ACGTcount: A:0.77, C:0.04, G:0.09, T:0.09
Consensus pattern (20 bp):
TAAAAGAAAATAAAAGAACA
Found at i:32829943 original size:10 final size:10
Alignment explanation
Indices: 32829881--32829942 Score: 67
Period size: 10 Copynumber: 6.3 Consensus size: 10
32829871 AATGGAAAAG
32829881 AAAGAAAATTA
1 AAAGAAAA-TA
*
32829892 AAAGAACATA
1 AAAGAAAATA
32829902 AAAG-AAA-A
1 AAAGAAAATA
32829910 AAAGAAAATTA
1 AAAGAAAA-TA
*
32829921 AAAGAACATA
1 AAAGAAAATA
32829931 AAAGAAAA-A
1 AAAGAAAATA
32829940 AAA
1 AAA
32829943 ATTAAATTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 5 0.11
9 9 0.20
10 15 0.34
11 15 0.34
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAGAAAATA
Found at i:32831486 original size:101 final size:102
Alignment explanation
Indices: 32831371--32831555 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
32831361 AAAGTGATGG
* ** *
32831371 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTTGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-AAATGATAATGGTCACATATGTAGT
32831434 ACTATGTGAAGGCTACTATGCGTACCACATAGTTTCGA
65 ACTATGTGAAGGCTACTATGCGTACCACATAGTTTCGA
* * *
32831472 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAAATGGTAATGGTCACATATGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAATGATAATGGTCACATATGTAGTA
*
32831537 CTATGTGCAGGCTACTATG
66 CTATGTGAAGGCTACTATG
32831556 TGAACCAAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 5 0.07
101 38 0.51
102 31 0.42
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAATGATAATGGTCACATATGTAGTA
CTATGTGAAGGCTACTATGCGTACCACATAGTTTCGA
Found at i:32831491 original size:51 final size:51
Alignment explanation
Indices: 32831424--32831564 Score: 149
Period size: 51 Copynumber: 2.8 Consensus size: 51
32831414 TGATAGGTTG
* *
32831424 CATGTGTAGTACTATGTGAAGGCTACTATGCGTACCACATAGT-TTCGATCA
1 CATGTGTAGTACTATGTGAAGGCTACTATGCGTACCAAATAGTAAT-GATCA
* * * * * * *
32831475 CGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAAATGGTAATGGTCA
1 CATGTGTAGTACTATGTGAAGGCTACTATGCGTACCAAATAGTAATGATCA
* * * *
32831526 CATATGTAGTACTATGTGCAGGCTACTATGTGAACCAAA
1 CATGTGTAGTACTATGTGAAGGCTACTATGCGTACCAAA
32831565 CATCATTGAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
51 73 0.99
52 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGAAGGCTACTATGCGTACCAAATAGTAATGATCA
Found at i:32831615 original size:45 final size:45
Alignment explanation
Indices: 32831564--32831652 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
32831554 TGTGAACCAA
* *
32831564 ACATCATTGATTAGTAAAGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCACCGG
*
32831609 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCACCG
32831653 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:32836049 original size:30 final size:30
Alignment explanation
Indices: 32835989--32836049 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
32835979 TTCTTGTAAA
* * *
32835989 TTTTTAAAAAAGTGGTCTATTTTTATAATT
1 TTTTTAAAAAAGTGGCCTATTTTGAAAATT
*
32836019 TTTTTAAAAAATTGGCCT-TTTATGAAAATT
1 TTTTTAAAAAAGTGGCCTATTT-TGAAAATT
32836049 T
1 T
32836050 AATTTGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (30 bp):
TTTTTAAAAAAGTGGCCTATTTTGAAAATT
Found at i:32837358 original size:136 final size:136
Alignment explanation
Indices: 32837187--32837438 Score: 504
Period size: 136 Copynumber: 1.9 Consensus size: 136
32837177 ATTGATAGTA
32837187 ACCCGAAAATTATTTATAACAATTTGTTATTCGGCTTTTTCAAATTGTAAATTTTAACACCCTAA
1 ACCCGAAAATTATTTATAACAATTTGTTATTCGGCTTTTTCAAATTGTAAATTTTAACACCCTAA
32837252 ATTTGAAAAATCAATTTAGTGAATACCTCAACTCAATTAATTCGAAATTTGTTATTTATAACAAT
66 ATTTGAAAAATCAATTTAGTGAATACCTCAACTCAATTAATTCGAAATTTGTTATTTATAACAAT
32837317 TTTAAC
131 TTTAAC
32837323 ACCCGAAAATTATTTATAACAATTTGTTATTCGGCTTTTTCAAATTGTAAATTTTAACACCCTAA
1 ACCCGAAAATTATTTATAACAATTTGTTATTCGGCTTTTTCAAATTGTAAATTTTAACACCCTAA
32837388 ATTTGAAAAATCAATTTAGTGAATACCTCAACTCAATTAATTCGAAATTTG
66 ATTTGAAAAATCAATTTAGTGAATACCTCAACTCAATTAATTCGAAATTTG
32837439 AATTTGAGAA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 116 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (136 bp):
ACCCGAAAATTATTTATAACAATTTGTTATTCGGCTTTTTCAAATTGTAAATTTTAACACCCTAA
ATTTGAAAAATCAATTTAGTGAATACCTCAACTCAATTAATTCGAAATTTGTTATTTATAACAAT
TTTAAC
Found at i:32839038 original size:31 final size:32
Alignment explanation
Indices: 32838993--32839052 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
32838983 TCATTTCGAC
32838993 TCTTTTTCAAAAGGTTGATGGT-CAAATTTGAT
1 TCTTTTTCAAAAGGTTG-TGGTCCAAATTTGAT
32839025 TCTTTTT-AAAAGGTTGTGGTCCAAATTT
1 TCTTTTTCAAAAGGTTGTGGTCCAAATTT
32839053 AGCTCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 4 0.15
31 16 0.59
32 7 0.26
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (32 bp):
TCTTTTTCAAAAGGTTGTGGTCCAAATTTGAT
Found at i:32841208 original size:30 final size:30
Alignment explanation
Indices: 32841174--32841232 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
32841164 TTTTTTCTAA
32841174 TTTTTAATAAAAAATAAATATTTCTTATAT
1 TTTTTAATAAAAAATAAATATTTCTTATAT
* * * * *
32841204 TTTTTTATTAAAATTTAATATTTTTTATA
1 TTTTTAATAAAAAATAAATATTTCTTATA
32841233 ACTTTTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTTAATAAAAAATAAATATTTCTTATAT
Found at i:32841393 original size:2 final size:2
Alignment explanation
Indices: 32841386--32841417 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32841376 AAGAAAAGAA
32841386 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
32841418 CTTTTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32843362 original size:22 final size:22
Alignment explanation
Indices: 32843336--32843380 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
32843326 AAAATTATAA
* *
32843336 AAATAGAAAAATATATAAGCAT
1 AAATACAAAAATATAAAAGCAT
*
32843358 AAATACAAAAATCTAAAAGCAT
1 AAATACAAAAATATAAAAGCAT
32843380 A
1 A
32843381 TATGACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.09, G:0.07, T:0.20
Consensus pattern (22 bp):
AAATACAAAAATATAAAAGCAT
Found at i:32858876 original size:14 final size:14
Alignment explanation
Indices: 32858857--32858896 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
32858847 TTGATTGCCA
32858857 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
32858871 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
32858885 GAAAAATGTTTT
1 GTAAAATGTTTT
32858897 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:32859034 original size:20 final size:20
Alignment explanation
Indices: 32859009--32859060 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
32858999 GAAAAAGTTG
32859009 TTTTTACATATATT-AATAAA
1 TTTTTACATATATTAAAT-AA
* *
32859029 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATAA
32859047 TTTTTACATATATT
1 TTTTTACATATATT
32859061 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATAA
Found at i:32863266 original size:3 final size:3
Alignment explanation
Indices: 32863258--32863317 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
32863248 GCACTTTTGA
*
32863258 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32863306 ATT ATT ATT ATT
1 ATT ATT ATT ATT
32863318 TAAATGCTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:32863964 original size:17 final size:19
Alignment explanation
Indices: 32863939--32863976 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
32863929 TATAATTTTT
*
32863939 AAATATAT-AATACATCAA
1 AAATATATAAAAACATCAA
32863957 AAAT-TATAAAAACATCAA
1 AAATATATAAAAACATCAA
32863975 AA
1 AA
32863977 TAAATATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATATATAAAAACATCAA
Found at i:32864093 original size:30 final size:30
Alignment explanation
Indices: 32864059--32864117 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
32864049 ACTTAACAAG
32864059 CAAATG-CCTCTAAAATAATAACAAAATTAA
1 CAAATGCCCT-TAAAATAATAACAAAATTAA
32864089 CAAATGCCCTTAAAATAATAACAAAATTA
1 CAAATGCCCTTAAAATAATAACAAAATTA
32864118 TCAATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.56, C:0.17, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCCTTAAAATAATAACAAAATTAA
Found at i:32864179 original size:14 final size:14
Alignment explanation
Indices: 32864144--32864182 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
32864134 TATACAATAT
*
32864144 CAAAATAATAACAA
1 CAAAATAGTAACAA
*
32864158 TAAAATAGTAACAA
1 CAAAATAGTAACAA
32864172 CAAAATAGTAA
1 CAAAATAGTAA
32864183 AATGGTAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (14 bp):
CAAAATAGTAACAA
Found at i:32868027 original size:16 final size:17
Alignment explanation
Indices: 32867995--32868029 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
32867985 CAATTCATAA
32867995 TATAACTAAAATATTTT
1 TATAACTAAAATATTTT
*
32868012 TATAACT-AATTATTTT
1 TATAACTAAAATATTTT
32868028 TA
1 TA
32868030 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAACTAAAATATTTT
Found at i:32870627 original size:18 final size:18
Alignment explanation
Indices: 32870592--32870631 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
32870582 AAATATTTTA
*
32870592 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
32870610 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
32870630 TT
1 TT
32870632 AAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:32882699 original size:5 final size:6
Alignment explanation
Indices: 32882674--32882718 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
32882664 CGAACAAGTA
32882674 AAAAATT AAAAATT AAAAAT -AAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAA-T AAAAA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
32882719 TTCTTTGCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
5 5 0.14
6 20 0.54
7 12 0.32
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:32888966 original size:30 final size:30
Alignment explanation
Indices: 32888926--32889002 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
32888916 GACATAAATG
* *
32888926 GGGTTACCGTGTTCGTCAGTGAGTTGAACC
1 GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
* *
32888956 GGGTTGCCGTGTTCGTCGGTGAGTTGAATA
1 GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
32888986 GGGTTGCCGTGTTCGTC
1 GGGTTGCCGTGTTCGTC
32889003 TCTCAAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.12, C:0.18, G:0.38, T:0.32
Consensus pattern (30 bp):
GGGTTGCCGTGTTCGTCAGTGAGTTGAACA
Found at i:32890037 original size:31 final size:31
Alignment explanation
Indices: 32890002--32890066 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
32889992 ATAACACATG
32890002 AGTGACTTAAATA-AGAACTTTCAAATAATTT
1 AGTGACTTAAATAGA-AACTTTCAAATAATTT
* *
32890033 AGTGACTTAAATGGAAACTTTCTAATAATTT
1 AGTGACTTAAATAGAAACTTTCAAATAATTT
32890064 AGT
1 AGT
32890067 AATCATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (31 bp):
AGTGACTTAAATAGAAACTTTCAAATAATTT
Found at i:32892683 original size:98 final size:98
Alignment explanation
Indices: 32892514--32892711 Score: 396
Period size: 98 Copynumber: 2.0 Consensus size: 98
32892504 TGACATGTCA
32892514 TTTTATGCATTTCAAAACAGTATGCGAGATAATGAACATCACACTTATAGCATATAAACTTACGG
1 TTTTATGCATTTCAAAACAGTATGCGAGATAATGAACATCACACTTATAGCATATAAACTTACGG
32892579 TATCACTCTGGTCTTCCCTCTCTTGTCATATGC
66 TATCACTCTGGTCTTCCCTCTCTTGTCATATGC
32892612 TTTTATGCATTTCAAAACAGTATGCGAGATAATGAACATCACACTTATAGCATATAAACTTACGG
1 TTTTATGCATTTCAAAACAGTATGCGAGATAATGAACATCACACTTATAGCATATAAACTTACGG
32892677 TATCACTCTGGTCTTCCCTCTCTTGTCATATGC
66 TATCACTCTGGTCTTCCCTCTCTTGTCATATGC
32892710 TT
1 TT
32892712 CACGCTTTTC
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 100 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (98 bp):
TTTTATGCATTTCAAAACAGTATGCGAGATAATGAACATCACACTTATAGCATATAAACTTACGG
TATCACTCTGGTCTTCCCTCTCTTGTCATATGC
Found at i:32895635 original size:2 final size:2
Alignment explanation
Indices: 32895630--32895655 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32895620 ATACACACAC
32895630 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
32895656 TCAAAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32899495 original size:27 final size:26
Alignment explanation
Indices: 32899439--32899495 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
32899429 AGCCCGGTCC
* * *
32899439 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTTAAAATAAAAAATAAAAAATA
32899465 ATTTTTAAAAATAAAAAATAAATAAA-A
1 ATTTTT-AAAATAAAAAATAAA-AAATA
32899492 ATTT
1 ATTT
32899496 AATTTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 6 0.23
27 17 0.65
28 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
ATTTTTAAAATAAAAAATAAAAAATA
Found at i:32899534 original size:14 final size:13
Alignment explanation
Indices: 32899512--32899545 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
32899502 AAAGTATTTT
*
32899512 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
32899526 AAAAATAAAAATA
1 AAAAATAAAAATA
32899539 AAAAATA
1 AAAAATA
32899546 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:32899836 original size:23 final size:23
Alignment explanation
Indices: 32899810--32899860 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
32899800 ATTCAACCTA
32899810 TTATTTATTATGATAAGTA-ATTT
1 TTATTTATTATGATAA-TATATTT
**
32899833 TTATTTATTATTTTAATATATTT
1 TTATTTATTATGATAATATATTT
32899856 TTATT
1 TTATT
32899861 GAAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (23 bp):
TTATTTATTATGATAATATATTT
Found at i:32899885 original size:14 final size:14
Alignment explanation
Indices: 32899847--32899887 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
32899837 TTATTATTTT
*
32899847 AATATATTTTTATTG
1 AATA-ATTTTTATTA
32899862 AA-AA-TTTTATTA
1 AATAATTTTTATTA
32899874 AATAATTTTTATTA
1 AATAATTTTTATTA
32899888 TAAAATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 9 0.39
13 3 0.13
14 9 0.39
15 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
AATAATTTTTATTA
Found at i:32900860 original size:31 final size:31
Alignment explanation
Indices: 32900825--32900887 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
32900815 AACTCATTAA
*
32900825 CTTAAATAAAAAATCTCGAATAATTCAGTGG
1 CTTAAATAAAAAATCTCGAATAATTCAATGG
* * *
32900856 CTTAAATAAAAATTTTCGAATAGTTCAATGG
1 CTTAAATAAAAAATCTCGAATAATTCAATGG
32900887 C
1 C
32900888 CATTTTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (31 bp):
CTTAAATAAAAAATCTCGAATAATTCAATGG
Found at i:32901683 original size:30 final size:30
Alignment explanation
Indices: 32901643--32901699 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32901633 TATATAAAAT
32901643 TTTATCATTATATTAAATTATT-TAAATAAA
1 TTTATCATTATATTAAATT-TTGTAAATAAA
*
32901673 TTTATTATTATATTAAATTTTGTAAAT
1 TTTATCATTATATTAAATTTTGTAAAT
32901700 CTTATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTATCATTATATTAAATTTTGTAAATAAA
Found at i:32901716 original size:26 final size:25
Alignment explanation
Indices: 32901669--32901718 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
32901659 ATTATTTAAA
32901669 TAAATTTATTATTATATTAAATTTTG
1 TAAATTTATTATTATA-TAAATTTTG
32901695 TAAATCTTATTTATTATA-AAATTT
1 TAAAT-TTA-TTATTATATAAATTT
32901719 ATTTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 11 0.50
27 3 0.14
28 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
TAAATTTATTATTATATAAATTTTG
Found at i:32903843 original size:19 final size:19
Alignment explanation
Indices: 32903819--32903859 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
32903809 TAATAGCTTA
32903819 TCTAATAAAATGCCAAAAT
1 TCTAATAAAATGCCAAAAT
32903838 TCTAATAAAATGCCAAAAT
1 TCTAATAAAATGCCAAAAT
32903857 TCT
1 TCT
32903860 TGATTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (19 bp):
TCTAATAAAATGCCAAAAT
Found at i:32909439 original size:2 final size:2
Alignment explanation
Indices: 32909432--32909462 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32909422 GTCAATACAT
*
32909432 AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
32909463 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:32909463 original size:12 final size:12
Alignment explanation
Indices: 32909426--32909464 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
32909416 TACATAGTCA
*
32909426 ATACATACACAC
1 ATACACACACAC
*
32909438 ACACACACACAC
1 ATACACACACAC
32909450 ATACACACACAC
1 ATACACACACAC
32909462 ATA
1 ATA
32909465 TATATATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.51, C:0.38, G:0.00, T:0.10
Consensus pattern (12 bp):
ATACACACACAC
Found at i:32912353 original size:15 final size:15
Alignment explanation
Indices: 32912313--32912354 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
32912303 AATTTTACAA
32912313 ATTAAAATATAATTAT
1 ATTAAAA-ATAATTAT
*
32912329 A-AAAAGAATAATTAT
1 ATTAAA-AATAATTAT
32912344 ATTAAAAATAA
1 ATTAAAAATAA
32912355 ATAATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
ATTAAAAATAATTAT
Found at i:32914016 original size:29 final size:30
Alignment explanation
Indices: 32913957--32914014 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32913947 TCCGAGCCTT
*
32913957 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
32913987 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
32914015 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:32914448 original size:50 final size:50
Alignment explanation
Indices: 32914393--32914588 Score: 311
Period size: 50 Copynumber: 3.9 Consensus size: 50
32914383 CCTTGAGATC
32914393 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
32914443 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACACGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * *
32914493 ATGAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** *
32914543 ATGAGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
32914589 TGTTATTATC
Statistics
Matches: 133, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 99 0.74
51 34 0.26
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:32916601 original size:23 final size:22
Alignment explanation
Indices: 32916575--32916623 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
32916565 CTTTCTCTTC
32916575 ATTTCTTTATCT-TTTGCGTATTT
1 ATTTCTTTATCTATTTGC-T-TTT
* *
32916598 ATTTGTTTATTTATTTGCTTTT
1 ATTTCTTTATCTATTTGCTTTT
32916620 ATTT
1 ATTT
32916624 TTATTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 11 0.48
24 5 0.22
ACGTcount: A:0.14, C:0.08, G:0.08, T:0.69
Consensus pattern (22 bp):
ATTTCTTTATCTATTTGCTTTT
Found at i:32921844 original size:41 final size:41
Alignment explanation
Indices: 32921776--32921853 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
32921766 CTTAACTAAT
* *
32921776 TTTTTAAAATTTTAAAAATATTAAAAAATTATAAAAATGTA
1 TTTTTAAAATATTAAAAATATTAAAAAAGTATAAAAATGTA
*
32921817 TTTTTAAAA-ATTAAAAATTATTTAAAAAGTATAAAAA
1 TTTTTAAAATATTAAAAA-TATTAAAAAAGTATAAAAA
32921854 GAATATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 7 0.21
41 26 0.79
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (41 bp):
TTTTTAAAATATTAAAAATATTAAAAAAGTATAAAAATGTA
Found at i:32923889 original size:17 final size:17
Alignment explanation
Indices: 32923855--32923889 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32923845 AAATTCTTTA
*
32923855 AAAATATTTTTATTTTT
1 AAAATATTTTTATGTTT
*
32923872 AAAATATTTTTGTGTTT
1 AAAATATTTTTATGTTT
32923889 A
1 A
32923890 TTAAAAACCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
AAAATATTTTTATGTTT
Found at i:32945704 original size:35 final size:35
Alignment explanation
Indices: 32945656--32945723 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
32945646 ATACACTATC
32945656 TTAGAACTTAATTAGGATTACGAAAATTATATTAG
1 TTAGAACTTAATTAGGATTACGAAAATTATATTAG
*
32945691 TTAGAA-TTGAATTAGGATTATGAAAATTATATT
1 TTAGAACTT-AATTAGGATTACGAAAATTATATT
32945724 TATATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.40
Consensus pattern (35 bp):
TTAGAACTTAATTAGGATTACGAAAATTATATTAG
Found at i:32948351 original size:15 final size:15
Alignment explanation
Indices: 32948331--32948405 Score: 54
Period size: 15 Copynumber: 5.4 Consensus size: 15
32948321 ATATAGTATT
32948331 GGCGCCTATTTGGGA
1 GGCGCCTATTTGGGA
* *
32948346 GGCGCC-A-AT-GGT
1 GGCGCCTATTTGGGA
*
32948358 GGTGCCTATTTGGGA
1 GGCGCCTATTTGGGA
* *
32948373 GGCGCC-A-AT-GGT
1 GGCGCCTATTTGGGA
*
32948385 GGTGCCTATTTGGGA
1 GGCGCCTATTTGGGA
32948400 GGCGCC
1 GGCGCC
32948406 AATAGTGGTG
Statistics
Matches: 42, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
12 14 0.33
13 4 0.10
14 4 0.10
15 20 0.48
ACGTcount: A:0.13, C:0.21, G:0.41, T:0.24
Consensus pattern (15 bp):
GGCGCCTATTTGGGA
Found at i:32948372 original size:27 final size:27
Alignment explanation
Indices: 32948334--32948442 Score: 191
Period size: 27 Copynumber: 4.0 Consensus size: 27
32948324 TAGTATTGGC
32948334 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
32948361 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
*
32948388 GCCTATTTGGGAGGCGCCAATAGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
* *
32948415 GCCTATCTAGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
32948442 G
1 G
32948443 TCATATTAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.17, C:0.19, G:0.39, T:0.25
Consensus pattern (27 bp):
GCCTATTTGGGAGGCGCCAATGGTGGT
Found at i:32948456 original size:27 final size:27
Alignment explanation
Indices: 32948334--32948463 Score: 181
Period size: 27 Copynumber: 4.8 Consensus size: 27
32948324 TAGTATTGGC
*
32948334 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTAGGAGGCGCCAATGGTGGT
*
32948361 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTAGGAGGCGCCAATGGTGGT
* *
32948388 GCCTATTTGGGAGGCGCCAATAGTGGT
1 GCCTATTTAGGAGGCGCCAATGGTGGT
*
32948415 GCCTATCTAGGAGGCGCCAATGGTGGT
1 GCCTATTTAGGAGGCGCCAATGGTGGT
* *
32948442 GTC-ATATTAGAAGGCGCCAATG
1 GCCTAT-TTAGGAGGCGCCAATG
32948464 TTGTGATTTT
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 2 0.02
27 93 0.98
ACGTcount: A:0.19, C:0.19, G:0.37, T:0.25
Consensus pattern (27 bp):
GCCTATTTAGGAGGCGCCAATGGTGGT
Found at i:32948567 original size:18 final size:20
Alignment explanation
Indices: 32948525--32948571 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
32948515 AAAACGGAAG
32948525 AAAGAAGAAGGAAGGAAGCA
1 AAAGAAGAAGGAAGGAAGCA
* *
32948545 GAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAAGGAAGGAAGCA
32948563 AAAGAAGAA
1 AAAGAAGAA
32948572 AAAAATTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.61
19 4 0.17
20 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAGGAAGGAAGCA
Found at i:32948574 original size:22 final size:23
Alignment explanation
Indices: 32948521--32948574 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
32948511 TACAAAAACG
*
32948521 GAAGAAAGAAGAAGGAAGGAAGCA
1 GAAGAAA-AAGAAGGAAGGAAGAA
32948545 GAAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAGGAAGGAAGAA
32948566 GAAGAAAAA
1 GAAGAAAAA
32948575 AATTAGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 2 0.07
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (23 bp):
GAAGAAAAAGAAGGAAGGAAGAA
Found at i:32951921 original size:6 final size:6
Alignment explanation
Indices: 32951897--32951940 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
32951887 AGAATGTAGT
* * * *
32951897 TCTGGG TCTGAC TCTGGC TCCGGC TCTAGC TCTGGC TCTGGC TC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TC
32951941 CGGTGCATGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.05, C:0.34, G:0.30, T:0.32
Consensus pattern (6 bp):
TCTGGC
Found at i:32953700 original size:39 final size:38
Alignment explanation
Indices: 32953646--32953728 Score: 139
Period size: 39 Copynumber: 2.2 Consensus size: 38
32953636 AAAAAGTCAG
32953646 TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTTAA-TTTTT
* *
32953685 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTT
32953723 TTATAA
1 TTATAA
32953729 ACTTTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 11 0.26
39 31 0.74
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATAATTTTTAATTTTT
Found at i:32953911 original size:8 final size:8
Alignment explanation
Indices: 32953898--32954103 Score: 55
Period size: 8 Copynumber: 24.4 Consensus size: 8
32953888 CATACAAAAA
32953898 ATTACAAT
1 ATTACAAT
32953906 ATTACAAT
1 ATTACAAT
* * *
32953914 ATATCCCCAC
1 AT-T-ACAAT
32953924 ATTACAAT
1 ATTACAAT
*
32953932 ATTCATACAAA
1 A-T--TACAAT
32953943 ATTACAAT
1 ATTACAAT
32953951 ATTACAAT
1 ATTACAAT
32953959 ATT-C-AT
1 ATTACAAT
** * *
32953965 ACAAAAAA
1 ATTACAAT
*
32953973 ATTGCAAT
1 ATTACAAT
*
32953981 ATTCATACAAA
1 A-T--TACAAT
*
32953992 ATTATAAT
1 ATTACAAT
32954000 ATTACAAT
1 ATTACAAT
*
32954008 ATTCATACAAC
1 A-T--TACAAT
32954019 ATTACAAT
1 ATTACAAT
32954027 ATT-C-AT
1 ATTACAAT
* *
32954033 A--AAAAA
1 ATTACAAT
*
32954039 ATTATAAT
1 ATTACAAT
*
32954047 ATTCATACAAA
1 A-T--TACAAT
32954058 ATTACAAT
1 ATTACAAT
32954066 ATTACAAT
1 ATTACAAT
*
32954074 ATTCATACAAA
1 A-T--TACAAT
*
32954085 ATTATAAT
1 ATTACAAT
32954093 ATTACAAT
1 ATTACAAT
32954101 ATT
1 ATT
32954104 CATACAAAAA
Statistics
Matches: 140, Mismatches: 35, Indels: 46
0.63 0.16 0.21
Matches are distributed among these distances:
6 8 0.06
7 2 0.01
8 86 0.61
9 7 0.05
10 9 0.06
11 28 0.20
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:32953948 original size:19 final size:19
Alignment explanation
Indices: 32953924--32954378 Score: 150
Period size: 19 Copynumber: 23.2 Consensus size: 19
32953914 ATATCCCCAC
32953924 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
32953943 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
32953959 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
32953973 ATTGCAATATTCATACAAAATTATA
1 ATTACAATATTCATAC---A--A-A
*
32953998 ATATTACAATATTCATACAAC
1 AT--TACAATATTCATACAAA
*
32954019 ATTACAATATTCATAAAAAA
1 ATTACAATATTCAT-ACAAA
*
32954039 ATTATAATATTCATACAAA
1 ATTACAATATTCATACAAA
32954058 ATTACAATA-T--TACAATA
1 ATTACAATATTCATACAA-A
* * *
32954075 TTCATACAAAATT-AT--AAT
1 AT--TACAATATTCATACAAA
32954093 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATAC---AAA
* *
32954115 AATATAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
32954134 ATTACAA-AAT--TACAAT
1 ATTACAATATTCATACAAA
*
32954150 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
32954164 ATTGCAATATTCATACAAAACTATAA
1 ATTACAATATTCAT-----AC-A-AA
32954190 TATTACAATATTCATACAAAAA
1 -ATTACAATATTCATAC--AAA
*
32954212 ATTTATAATATTCATACAAA
1 A-TTACAATATTCATACAAA
32954232 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
* * *
32954253 ATTACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
32954274 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
32954296 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAA
*
32954315 ATTACAATATTCATAAAAAA
1 ATTACAATATTCAT-ACAAA
* *
32954335 ATTATATTATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
32954356 ATTTAAAATATTCATACAAA
1 A-TTACAATATTCATACAAA
32954376 ATT
1 ATT
32954379 CTAATCTAAA
Statistics
Matches: 328, Mismatches: 47, Indels: 122
0.66 0.09 0.25
Matches are distributed among these distances:
14 16 0.05
15 5 0.02
16 35 0.11
17 4 0.01
18 9 0.03
19 84 0.26
20 53 0.16
21 25 0.08
22 54 0.16
23 6 0.02
24 3 0.01
25 6 0.02
26 2 0.01
27 26 0.08
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:32953960 original size:27 final size:26
Alignment explanation
Indices: 32953924--32954242 Score: 284
Period size: 27 Copynumber: 13.1 Consensus size: 26
32953914 ATATCCCCAC
32953924 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
32953951 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
32953973 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
*
32954000 ATTACAATATTCATACAACATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
*
32954027 ATT-C-ATA---A-A-AAAATT-AT-
1 ATTACAATATTCATACAAAATTAAAT
32954044 -----AATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
32954066 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
32954093 ATTACAATATTCATACAAAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
* *
32954116 A-TATAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAT
32954142 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
* *
32954164 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
32954191 ATTACAATATTCATAC-AAA--AAAT
1 ATTACAATATTCATACAAAATTAAAT
*
32954214 -TTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
32954240 ATT
1 ATT
32954243 CATACAAAAA
Statistics
Matches: 245, Mismatches: 13, Indels: 68
0.75 0.04 0.21
Matches are distributed among these distances:
14 3 0.01
17 1 0.00
18 2 0.01
19 6 0.02
20 5 0.02
21 2 0.01
22 62 0.25
23 17 0.07
24 6 0.02
25 9 0.04
26 18 0.07
27 114 0.47
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAT
Done.