Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 115 of 204
Found at i:35046730 original size:23 final size:21
Alignment explanation
Indices: 35046694--35046759 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 21
35046684 ACAGAAATTC
* *
35046694 AAATGAAGTAAAAAGTGAAATG
1 AAATGAAATTAAAA-TGAAATG
35046716 AAAATGAAATTAAAATTGGAAATG
1 -AAATGAAATTAAAA-T-GAAATG
35046740 AAATGAAATTAAAATGAAAT
1 AAATGAAATTAAAATGAAAT
35046760 TATATTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 5 0.13
22 1 0.03
23 27 0.69
24 6 0.15
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.23
Consensus pattern (21 bp):
AAATGAAATTAAAATGAAATG
Found at i:35046760 original size:11 final size:11
Alignment explanation
Indices: 35046687--35046761 Score: 71
Period size: 11 Copynumber: 6.6 Consensus size: 11
35046677 TAATTCAACA
*
35046687 GAAATTCAAAT
1 GAAATTAAAAT
* *
35046698 GAAGTAAAAAGT
1 GAAATTAAAA-T
*
35046710 GAAATGAAAAT
1 GAAATTAAAAT
35046721 GAAATTAAAATT
1 GAAATTAAAA-T
*
35046733 GGAAA-TGAAAT
1 -GAAATTAAAAT
35046744 GAAATTAAAAT
1 GAAATTAAAAT
35046755 GAAATTA
1 GAAATTA
35046762 TATTTAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
10 4 0.08
11 30 0.58
12 14 0.27
13 4 0.08
ACGTcount: A:0.59, C:0.01, G:0.16, T:0.24
Consensus pattern (11 bp):
GAAATTAAAAT
Found at i:35046843 original size:22 final size:22
Alignment explanation
Indices: 35046813--35046881 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
35046803 GCACGTTTTT
*
35046813 ATTGAAATGAAATGAAATTAAA
1 ATTGGAATGAAATGAAATTAAA
*
35046835 ATTGGAATGAAATGAAATTCAA
1 ATTGGAATGAAATGAAATTAAA
*
35046857 ATT-GAATAGAAATTGAAATGAAA
1 ATTGGAAT-GAAA-TGAAATTAAA
35046880 AT
1 AT
35046882 ATAATTAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
21 4 0.10
22 27 0.66
23 10 0.24
ACGTcount: A:0.55, C:0.01, G:0.16, T:0.28
Consensus pattern (22 bp):
ATTGGAATGAAATGAAATTAAA
Found at i:35046847 original size:11 final size:11
Alignment explanation
Indices: 35046813--35046879 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
35046803 GCACGTTTTT
35046813 ATTGAAATGAA
1 ATTGAAATGAA
*
35046824 A-TGAAATTAAA
1 ATTGAAA-TGAA
*
35046835 ATTGGAATGAA
1 ATTGAAATGAA
*
35046846 A-TGAAATTCAA
1 ATTGAAA-TGAA
35046857 ATTG-AATAGAA
1 ATTGAAAT-GAA
35046868 ATTGAAATGAA
1 ATTGAAATGAA
35046879 A
1 A
35046880 ATATAATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
10 10 0.23
11 25 0.57
12 9 0.20
ACGTcount: A:0.55, C:0.01, G:0.16, T:0.27
Consensus pattern (11 bp):
ATTGAAATGAA
Found at i:35046862 original size:17 final size:17
Alignment explanation
Indices: 35046822--35046879 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
35046812 TATTGAAATG
*
35046822 AAATGAAATTA-AAATTG
1 AAATGAAA-TAGAAATTC
*
35046839 GAATGAAAT-GAAATTC
1 AAATGAAATAGAAATTC
*
35046855 AAATTG-AATAGAAATTG
1 AAA-TGAAATAGAAATTC
35046872 AAATGAAA
1 AAATGAAA
35046880 ATATAATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.57, C:0.02, G:0.16, T:0.26
Consensus pattern (17 bp):
AAATGAAATAGAAATTC
Found at i:35047584 original size:35 final size:37
Alignment explanation
Indices: 35047545--35047619 Score: 95
Period size: 35 Copynumber: 2.1 Consensus size: 37
35047535 AACTTTGATT
* * *
35047545 TGAAAAATTTTAAA-GAG-AAAAAAATTTAACTTAAA
1 TGAAAAATTTAAAATGAGAAAAAAAATTTAAATAAAA
35047580 TG--AAATTTAAAATGAGAAAAAAAATTTAAATAAAA
1 TGAAAAATTTAAAATGAGAAAAAAAATTTAAATAAAA
35047615 TGAAA
1 TGAAA
35047620 TTTAATTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
33 9 0.27
34 3 0.09
35 20 0.61
37 1 0.03
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (37 bp):
TGAAAAATTTAAAATGAGAAAAAAAATTTAAATAAAA
Found at i:35047620 original size:35 final size:34
Alignment explanation
Indices: 35047553--35047647 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 34
35047543 TTTGAAAAAT
* *
35047553 TTTAAA-GAG-AAAAAAATTTAACTTAAATGAAA
1 TTTAAATGAGAAAAAAAATTTAAATAAAATGAAA
35047585 TTTAAAATGAGAAAAAAAATTTAAATAAAATGAAA
1 TTT-AAATGAGAAAAAAAATTTAAATAAAATGAAA
*
35047620 TTTAATTGAAGAAGAAAAAATTTGAAAT
1 TTTAAATG-AGAA-AAAAAATTT-AAAT
35047648 TCAAATAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
32 3 0.06
33 3 0.06
34 7 0.13
35 28 0.52
36 9 0.17
37 4 0.07
ACGTcount: A:0.60, C:0.01, G:0.11, T:0.28
Consensus pattern (34 bp):
TTTAAATGAGAAAAAAAATTTAAATAAAATGAAA
Found at i:35047622 original size:16 final size:16
Alignment explanation
Indices: 35047566--35047624 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
35047556 AAAGAGAAAA
* *
35047566 AAATTTAACTTAAATG
1 AAATTTAAATAAAATG
**
35047582 AAATTTAAAATGAGAAAAA
1 AAATTT-AAAT-A-AAATG
35047601 AAATTTAAATAAAATG
1 AAATTTAAATAAAATG
35047617 AAATTTAA
1 AAATTTAA
35047625 TTGAAGAAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 17 0.50
17 4 0.12
18 4 0.12
19 9 0.26
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (16 bp):
AAATTTAAATAAAATG
Found at i:35047786 original size:39 final size:39
Alignment explanation
Indices: 35047743--35047817 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
35047733 AGTTTTAACT
* *
35047743 AAAAAAAGTGAA-ATTGAAATAAAATTGAAATGAAATTAG
1 AAAAAAAATGAATA-TGAAAAAAAATTGAAATGAAATTAG
35047782 AAAAAAAATGAATATGAAAAAAAATTGAAATGAAAT
1 AAAAAAAATGAATATGAAAAAAAATTGAAATGAAAT
35047818 GAATTGTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 32 0.97
40 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.21
Consensus pattern (39 bp):
AAAAAAAATGAATATGAAAAAAAATTGAAATGAAATTAG
Found at i:35047790 original size:17 final size:18
Alignment explanation
Indices: 35047770--35047812 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
35047760 AATAAAATTG
35047770 AAATGAAATTA-GAAAAA
1 AAATGAAATTATGAAAAA
35047787 AAATG-AA-TATGAAAAA
1 AAATGAAATTATGAAAAA
35047803 AAATTGAAAT
1 AAA-TGAAAT
35047813 GAAATGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.09
16 11 0.50
17 7 0.32
18 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (18 bp):
AAATGAAATTATGAAAAA
Found at i:35047805 original size:56 final size:56
Alignment explanation
Indices: 35047743--35047861 Score: 161
Period size: 56 Copynumber: 2.1 Consensus size: 56
35047733 AGTTTTAACT
35047743 AAAAAAAGTGAAATTGAAATAAAAT-TGAAATGAAATTAGAAA-AAAAATGAATATGA
1 AAAAAAAGTGAAA-TGAAATAAAATGTGAAATGAAATTAGAAACAAAAATGAA-ATGA
* * * * *
35047799 AAAAAAATTGAAATGAAATGAATTGTGAAATGAAATTAGAAACTAAATTGAAATGA
1 AAAAAAAGTGAAATGAAATAAAATGTGAAATGAAATTAGAAACAAAAATGAAATGA
35047855 AAAAAAA
1 AAAAAAA
35047862 AAGTGACAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
55 9 0.16
56 40 0.71
57 7 0.12
ACGTcount: A:0.63, C:0.01, G:0.14, T:0.22
Consensus pattern (56 bp):
AAAAAAAGTGAAATGAAATAAAATGTGAAATGAAATTAGAAACAAAAATGAAATGA
Found at i:35047840 original size:12 final size:11
Alignment explanation
Indices: 35047751--35047856 Score: 76
Period size: 11 Copynumber: 9.5 Consensus size: 11
35047741 CTAAAAAAAG
35047751 TGAAATTGAAA
1 TGAAATTGAAA
*
35047762 TAAAATTGAAA
1 TGAAATTGAAA
35047773 TGAAATTAGAAA
1 TGAAATT-GAAA
* *
35047785 -AAAAATGAATA
1 TGAAATTGAA-A
**
35047796 TGAAA-AAAAA
1 TGAAATTGAAA
35047806 TTGAAA-TGAAA
1 -TGAAATTGAAA
*
35047817 TGAATTGTGAAA
1 TGAAAT-TGAAA
35047829 TGAAATTAGAAA
1 TGAAATT-GAAA
35047841 CT-AAATTGAAA
1 -TGAAATTGAAA
35047852 TGAAA
1 TGAAA
35047857 AAAAAAAGTG
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
10 9 0.12
11 39 0.52
12 26 0.35
13 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.15, T:0.25
Consensus pattern (11 bp):
TGAAATTGAAA
Found at i:35048162 original size:10 final size:10
Alignment explanation
Indices: 35048149--35048202 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
35048139 TCATCGCCAT
35048149 TCACCGTCGA
1 TCACCGTCGA
*
35048159 TCACTGTCGA
1 TCACCGTCGA
35048169 TCACC-TCCGA
1 TCACCGT-CGA
* *
35048179 TCACCATCGT
1 TCACCGTCGA
*
35048189 TCACCGCCGA
1 TCACCGTCGA
35048199 TCAC
1 TCAC
35048203 TCAATGGATC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 1 0.03
10 34 0.94
11 1 0.03
ACGTcount: A:0.20, C:0.43, G:0.15, T:0.22
Consensus pattern (10 bp):
TCACCGTCGA
Found at i:35050500 original size:89 final size:90
Alignment explanation
Indices: 35050365--35050597 Score: 276
Period size: 90 Copynumber: 2.6 Consensus size: 90
35050355 TTAATAAAAC
* * * *
35050365 AAATATATAATTTGAAA-AA-AAATAATACGCAAC-AAATGAAATTTACAGATACAAGAAAATAA
1 AAATATAAAATTT-AAACAACAAATAATAC-AAACTAAATTAAATTTACAGATACAACAAAATAA
* * *
35050427 AAACA-TTCTATAATATTAATACACGA
64 AAACAGATCGATAAAATTAATACACGA
** *
35050453 AAATATAAAATTTAAACAACAAATAATACAAACTAAATTAAATTTACAGACCCAACAAAATACAA
1 AAATATAAAATTTAAACAACAAATAATACAAACTAAATTAAATTTACAGATACAACAAAATAAAA
* *
35050518 ACAGATGGGTAAAATTAATACACGA
66 ACAGATCGATAAAATTAATACACGA
** **
35050543 AAATATAAAATTCGAACAACAAATAATACAAACTAAATTTGATTTACAGATACAA
1 AAATATAAAATTTAAACAACAAATAATACAAACTAAATTAAATTTACAGATACAA
35050598 AAATAATACA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
87 3 0.02
88 17 0.14
89 38 0.31
90 65 0.53
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.24
Consensus pattern (90 bp):
AAATATAAAATTTAAACAACAAATAATACAAACTAAATTAAATTTACAGATACAACAAAATAAAA
ACAGATCGATAAAATTAATACACGA
Found at i:35052950 original size:17 final size:16
Alignment explanation
Indices: 35052871--35052951 Score: 56
Period size: 17 Copynumber: 4.8 Consensus size: 16
35052861 ATTTATAATT
*
35052871 TGAATATGAAATGAAA
1 TGAAAATGAAATGAAA
35052887 TTG-AAATGAGAATGAGAA
1 -TGAAAATGA-AATGA-AA
** *
35052905 TGAAAATGCGGATGATA
1 TGAAAATG-AAATGAAA
35052922 TGAAAATGGAAATGAATA
1 TGAAAAT-GAAATGAA-A
*
35052940 TGAATATGAAAT
1 TGAAAATGAAAT
35052952 CGATTGTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
16 5 0.10
17 26 0.52
18 19 0.38
ACGTcount: A:0.51, C:0.01, G:0.23, T:0.25
Consensus pattern (16 bp):
TGAAAATGAAATGAAA
Found at i:35055497 original size:27 final size:27
Alignment explanation
Indices: 35055459--35055512 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
35055449 TATACAATCC
* *
35055459 TTACACATTAAAATATGAATTTTAAAA
1 TTACACATTAAAACATAAATTTTAAAA
35055486 TTACACATTAAAACATAAATTTTAAAA
1 TTACACATTAAAACATAAATTTTAAAA
35055513 ACTTATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (27 bp):
TTACACATTAAAACATAAATTTTAAAA
Found at i:35059818 original size:20 final size:18
Alignment explanation
Indices: 35059771--35059819 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
35059761 CAAGATAAAC
35059771 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
35059788 ATT-AATATAATCACTTTAAT
1 ATTAAAT-TAAT-A-TTTAAT
35059808 ATTAAATTAATA
1 ATTAAATTAATA
35059820 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.11
17 6 0.22
19 2 0.07
20 13 0.48
21 3 0.11
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:35059831 original size:25 final size:26
Alignment explanation
Indices: 35059783--35059843 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
35059773 TAAATTAAAT
*
35059783 TTAATATTAATATAATCACTTTAATA
1 TTAATATTAATAAAATCACTTTAATA
*
35059809 TTAA-ATTAATAAAAT-ACTATTAAGA
1 TTAATATTAATAAAATCACT-TTAATA
*
35059834 TAAATATTAA
1 TTAATATTAA
35059844 ATTTAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 3 0.10
25 18 0.60
26 9 0.30
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (26 bp):
TTAATATTAATAAAATCACTTTAATA
Found at i:35066248 original size:12 final size:12
Alignment explanation
Indices: 35066233--35066257 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35066223 TCAGTTACCT
35066233 TTTCAAATTTGG
1 TTTCAAATTTGG
35066245 TTTCAAATTTGG
1 TTTCAAATTTGG
35066257 T
1 T
35066258 GAACATTTCT
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:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTCAAATTTGG
Found at i:35070711 original size:188 final size:183
Alignment explanation
Indices: 35070375--35070729 Score: 593
Period size: 188 Copynumber: 1.9 Consensus size: 183
35070365 GAAGGAGTTG
*
35070375 ATACTTTAATGTCACTTTCCATAGTTTGTTTAAAGATGAATAAAGTTGCATACCCCAATTCCAAC
1 ATACTTTAATGTCACTTTCCATAGTTTGTTTAAAGATGAATAAAGTTGCATACCCAAATTCCAAC
**
35070440 TTGACTCTCTTTGCAATATACTCTCAAAATCATTATAATCAAACCCAACTAGAAAGTTCCTCCCC
66 TCAACTCTCTTTGCAATATACTCTCAAAATCATTATAATCAAACCCAACTAGAAAGTTCCTCCCC
* *
35070505 GCCAAACCATAGAACAAAAAAAGAGAAAAAAAGAAAATATTGAAAAAACTTTT
131 GCCAAACCACAAAACAAAAAAAGAGAAAAAAAGAAAATATTGAAAAAACTTTT
35070558 ATACTTTAATGTCACTTTCCATAGTTTGTTTAAAGATGAATAAAGTTGCATACCCAAATTCCAAC
1 ATACTTTAATGTCACTTTCCATAGTTTGTTTAAAGATGAATAAAGTTGCATACCCAAATTCCAAC
* *
35070623 TCAACAATCTTCTCTCTGCAATATGCTCTCAAAATCATTATAATCAAACCTAACTAGAAAGTTCC
66 TCAAC--TC-TCT-T-TGCAATATACTCTCAAAATCATTATAATCAAACCCAACTAGAAAGTTCC
*
35070688 TCCCCGCCAAACTACAAAACAAAAAAAGAGAAAAAAAGAAAA
126 TCCCCGCCAAACCACAAAACAAAAAAAGAGAAAAAAAGAAAA
35070730 AGAAAAAATT
Statistics
Matches: 159, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
183 67 0.42
185 2 0.01
186 3 0.02
187 1 0.01
188 86 0.54
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (183 bp):
ATACTTTAATGTCACTTTCCATAGTTTGTTTAAAGATGAATAAAGTTGCATACCCAAATTCCAAC
TCAACTCTCTTTGCAATATACTCTCAAAATCATTATAATCAAACCCAACTAGAAAGTTCCTCCCC
GCCAAACCACAAAACAAAAAAAGAGAAAAAAAGAAAATATTGAAAAAACTTTT
Found at i:35073877 original size:14 final size:14
Alignment explanation
Indices: 35073858--35073888 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
35073848 GAGAACTTTG
35073858 TTTAGGCTTATGTT
1 TTTAGGCTTATGTT
35073872 TTTAGGCTTATGTT
1 TTTAGGCTTATGTT
35073886 TTT
1 TTT
35073889 GGATTGCTTG
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:0.13, C:0.06, G:0.19, T:0.61
Consensus pattern (14 bp):
TTTAGGCTTATGTT
Found at i:35080584 original size:17 final size:18
Alignment explanation
Indices: 35080564--35080597 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35080554 TTTTGTTCCT
*
35080564 TTTTTTCTTTTT-ATTTG
1 TTTTTCCTTTTTCATTTG
35080581 TTTTTCCTTTTTCATTT
1 TTTTTCCTTTTTCATTT
35080598 TCCATCCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTCCTTTTTCATTTG
Found at i:35087206 original size:1 final size:1
Alignment explanation
Indices: 35087200--35087266 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
35087190 GTGCAGATTC
* * * * * * * *
35087200 AAAAAAAAAACAAAAAACAAAAAAAACAAACAAAAAAAACAAAAAAAAAACAAAAAGAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
35087265 AA
1 AA
35087267 CCTCTACATG
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:35087225 original size:20 final size:20
Alignment explanation
Indices: 35087199--35087266 Score: 102
Period size: 20 Copynumber: 3.4 Consensus size: 20
35087189 AGTGCAGATT
35087199 CAAAAAAAAAACAAAAAACAA
1 CAAAAAAAAAACAAAAAA-AA
*
35087220 -AAAAAACAAACAAAAAAAA
1 CAAAAAAAAAACAAAAAAAA
35087239 CAAAAAAAAAACAAAAAGAAA
1 CAAAAAAAAAACAAAAA-AAA
35087260 CAAAAAA
1 CAAAAAA
35087267 CCTCTACATG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.05
20 31 0.72
21 10 0.23
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (20 bp):
CAAAAAAAAAACAAAAAAAA
Found at i:35087240 original size:29 final size:30
Alignment explanation
Indices: 35087202--35087266 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
35087192 GCAGATTCAA
*
35087202 AAAAAAAACAAAAAACAAA-AAAAACAAAC
1 AAAAAAAACAAAAAAAAAACAAAAACAAAC
*
35087231 AAAAAAAACAAAAAAAAAACAAAAAGAAAC
1 AAAAAAAACAAAAAAAAAACAAAAACAAAC
35087261 AAAAAA
1 AAAAAA
35087267 CCTCTACATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (30 bp):
AAAAAAAACAAAAAAAAAACAAAAACAAAC
Found at i:35087785 original size:34 final size:32
Alignment explanation
Indices: 35087737--35087800 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
35087727 TTGGGTCGCA
*
35087737 AAAAAAAGAGTGAAAAAATAAAAAATGGAAAACT
1 AAAAAAAGAATG--AAAATAAAAAATGGAAAACT
* *
35087771 AAAAAATGAATGAAAATGAAAAATGGAAAA
1 AAAAAAAGAATGAAAATAAAAAATGGAAAA
35087801 AGTAAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 17 0.63
34 10 0.37
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.12
Consensus pattern (32 bp):
AAAAAAAGAATGAAAATAAAAAATGGAAAACT
Found at i:35089251 original size:127 final size:128
Alignment explanation
Indices: 35089024--35089275 Score: 425
Period size: 127 Copynumber: 2.0 Consensus size: 128
35089014 CCGGTAAAAC
* * * * *
35089024 TTCAGTCTTATCTTCCTGAAGATTGTAGTGGAGCAGGCAGAAGAAATCAATCCTATCTCCCTGAA
1 TTCAGTCTTATCTCCCTGAAGATTGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTAAA
* * *
35089089 GTTGCAGCGGAGTGGATTAACATCTAGATCTTATCTTTCTGAGGTTTCAGAGAGCAGATCGCA
66 GTTGCAGCGGAGTGCATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCA
35089152 TTCAGTCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTAAA
1 TTCAGTCTTATCTCCCTGAAGATTGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTAAA
35089216 GTTGCAGCGGAGTGCATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATC
66 GTTGCAGCGGAGTGCATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATC
35089276 TAATAGAGGG
Statistics
Matches: 116, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
127 96 0.83
128 20 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (128 bp):
TTCAGTCTTATCTCCCTGAAGATTGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTAAA
GTTGCAGCGGAGTGCATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCA
Found at i:35091115 original size:127 final size:127
Alignment explanation
Indices: 35090889--35092131 Score: 1966
Period size: 127 Copynumber: 9.8 Consensus size: 127
35090879 AAACCAATCC
*
35090889 TATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
* * * * *
35090954 GAGCGGATCAACATTCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAAATCACATCTAGTCT
66 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
* * *
35091016 TATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTAAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
* *
35091081 GAGCAGATTAACATCCAAATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
66 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
*
35091143 TATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
* *
35091208 GAGCGGATCAACATTCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
66 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
* ** *
35091270 TATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAAATTAATCCTATCTCCCCGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
* ** * *
35091335 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTACAGAGAGCAGATCATATTCGGTCT
66 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
* * *
35091397 TATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAACCAATTCTATCTCCCTGAAGTTGTAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
35091462 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
66 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
*
35091524 TATCTCCCTGAAGTTGCAGTAGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
* * ** * *
35091589 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTACAGAAAGCAGATCATATTCGGTCT
66 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
* * * * *
35091651 TATCTCCCTAAAGTTACAGTGGAGCAGACAGAAGAAACCAATTCTATCTCCCTAAAGTTGTAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
35091716 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
66 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
35091778 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
* *
35091843 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGTAGATCACATCCAGTCT
66 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
* * *
35091905 TATCTCCCTGAAGTTGTAATGGAGCAGACAGAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
* * *
35091970 GAGCGGATTAACATCCAAATCTTATTTTTCTGAGGCTGCAGAGAGCAGATCGCATCCAGTCT
66 GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
* * * * *
35092032 TATTTCCTTGAAGTTGCAGTGGAGCAGGCAGAAGTAAA-TAATCCTATCTCCCTGAGGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAG-AAACCAATCCTATCTCCCTGAAGTTGCAGT
* * *
35092096 GGAGTGGATCAAACCATGCAGATCTTATCTTTCTGA
65 GGAGCGGAT-TAA-CATCCAGATCTTATCTTTCTGA
35092132 AATTGCAGCA
Statistics
Matches: 1022, Mismatches: 91, Indels: 4
0.91 0.08 0.00
Matches are distributed among these distances:
127 998 0.98
128 5 0.00
129 19 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTG
GAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATCCAGTCT
Found at i:35091147 original size:40 final size:40
Alignment explanation
Indices: 35090829--35092050 Score: 339
Period size: 44 Copynumber: 28.9 Consensus size: 40
35090819 ACTCGTATCA
*
35090829 AGATCGCATTCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCA---GAG-AG-C
* * * * *
35090874 AGA-AGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCAGAC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGC-A--GAG-AG-C
* * * * * *
35090918 AGA-AGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAG-AGAGC
* * * ** *
35090958 GGATCAACATTCAGATCTTATCTTTCTGAGGTTGCAGAGAGC
1 AGATC-GCATCCAG-TCTTATCTCCCTGAAGTTGCAGAGAGC
* * * *
35091000 AAATCACATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCA---GAG-AG-C
* * * * * *
35091045 AGA-AGAAAT-CAATCCTATCTCCCTAAAGTTGCAGTGGAGC
1 AGATCG-CATCCAGTCTTATCTCCCTGAAGTTGCAG-AGAGC
** * ** *
35091085 AGATTAACATCCAAATCTTATCTTTCTGAGGTTGCAGAGAGC
1 AGA-TCGCATCC-AGTCTTATCTCCCTGAAGTTGCAGAGAGC
*
35091127 AGATCGCATCCAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGAC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCA---GAG-AG-C
* * * * * *
35091172 AGA-AGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAG-AGAGC
* * * ** *
35091212 GGATCAACATTCAGATCTTATCTTTCTGAGGTTGCAGAGAGC
1 AGATC-GCATCCAG-TCTTATCTCCCTGAAGTTGCAGAGAGC
35091254 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTAGAGC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAG-AGAGC
* * * * * *
35091295 AGA-CAGAAGAAAT-TAATCCTATCTCCCCGAAGTTGCAGTGGAGC
1 AGATC----G-CATCCAGTCTTATCTCCCTGAAGTTGCAG-AGAGC
* ** ** * *
35091339 GGATTAACATCCAGATCTTATCTTTCTGAGGTTACAGAGAGC
1 AGA-TCGCATCCAG-TCTTATCTCCCTGAAGTTGCAGAGAGC
** * * *
35091381 AGATCATATTCGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGAC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCA---GAG-AG-C
* * * * * *
35091426 AGA-AGAAACCAAT-TCTATCTCCCTGAAGTTGTAGTGGAGC
1 AGATCGCATCCAGTCT-TATCTCCCTGAAGTTGCAG-AGAGC
* ** ** *
35091466 GGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGC
1 AGA-TCGCATCCAG-TCTTATCTCCCTGAAGTTGCAGAGAGC
35091508 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTAGAGC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAG-AGAGC
* * * * *
35091549 AGA-CAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATC----GCATCCAGTCTTATCTCCCTGAAGTTGCAG-AGAGC
* ** ** * * *
35091593 GGATTAACATCCAGATCTTATCTTTCTGAGGTTACAGAAAGC
1 AGA-TCGCATCCAG-TCTTATCTCCCTGAAGTTGCAGAGAGC
** * * * *
35091635 AGATCATATTCGGTCTTATCTCCCTAAAGTTACAGTGGAGCAGAC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCA---GAG-AG-C
* * * * * * *
35091680 AGA-AGAAACCAAT-TCTATCTCCCTAAAGTTGTAGTGGAGC
1 AGATCGCATCCAGTCT-TATCTCCCTGAAGTTGCAG-AGAGC
* ** ** *
35091720 GGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGC
1 AGA-TCGCATCCAG-TCTTATCTCCCTGAAGTTGCAGAGAGC
35091762 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCA---GAG-AG-C
* * * * * *
35091807 AGA-AGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAG-AGAGC
* ** ** * *
35091847 GGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGT
1 AGA-TCGCATCCAG-TCTTATCTCCCTGAAGTTGCAGAGAGC
* *
35091889 AGATCACATCCAGTCTTATCTCCCTGAAGTTGTAATGGAGCAGAC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTG-CA--GAG-AG-C
* * * * * * *
35091934 AGA-AGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAG-AGAGC
* ** * * ** * *
35091974 GGATTAACATCCAAATCTTATTTTTCTGAGGCTGCAGAGAGC
1 AGA-TCGCATCC-AGTCTTATCTCCCTGAAGTTGCAGAGAGC
* *
35092016 AGATCGCATCCAGTCTTATTTCCTTGAAGTTGCAG
1 AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAG
35092051 TGGAGCAGGC
Statistics
Matches: 855, Mismatches: 239, Indels: 171
0.68 0.19 0.14
Matches are distributed among these distances:
40 184 0.22
41 103 0.12
42 94 0.11
43 176 0.21
44 268 0.31
45 30 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (40 bp):
AGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGAGAGC
Found at i:35092841 original size:17 final size:18
Alignment explanation
Indices: 35092815--35092848 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35092805 TTCTGTTCCT
*
35092815 TTTTTTCTTTTT-ATTTG
1 TTTTTCCTTTTTCATTTG
35092832 TTTTTCCTTTTTCATTT
1 TTTTTCCTTTTTCATTT
35092849 TCCATCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTCCTTTTTCATTTG
Found at i:35095656 original size:14 final size:14
Alignment explanation
Indices: 35095607--35095643 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
35095597 ATTTTACCCT
35095607 AAACCTTGAA-CTC
1 AAACCTTGAACCTC
*
35095620 AAATCTTGAACCTC
1 AAACCTTGAACCTC
35095634 AAACCTTGAA
1 AAACCTTGAA
35095644 TCTCGAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (14 bp):
AAACCTTGAACCTC
Found at i:35097920 original size:17 final size:18
Alignment explanation
Indices: 35097900--35097971 Score: 67
Period size: 18 Copynumber: 4.0 Consensus size: 18
35097890 GTATTCAAAA
35097900 TTATTATTTT-AATTTTT
1 TTATTATTTTAAATTTTT
35097917 TTATTATTTTAAATTTTT
1 TTATTATTTTAAATTTTT
* * *
35097935 ATATCT-TTTTAGATTGTT
1 TTAT-TATTTTAAATTTTT
**
35097953 TTAGAACTTTTAAATTTTT
1 TTATTA-TTTTAAATTTTT
35097972 AACTATTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 10 0.23
18 22 0.51
19 11 0.26
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (18 bp):
TTATTATTTTAAATTTTT
Found at i:35097935 original size:16 final size:17
Alignment explanation
Indices: 35097900--35097936 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
35097890 GTATTCAAAA
*
35097900 TTATTATTTTAATTTTT
1 TTATTATTTTAATATTT
35097917 TTATTATTTTAA-ATTT
1 TTATTATTTTAATATTT
35097933 TTAT
1 TTAT
35097937 ATCTTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTATTTTAATATTT
Found at i:35097980 original size:16 final size:16
Alignment explanation
Indices: 35097957--35097990 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
35097947 ATTGTTTTAG
35097957 AACTTTTAAAT-TTTT
1 AACTTTTAAATATTTT
35097972 AACTATTTAAATATTTT
1 AACT-TTTAAATATTTT
35097989 AA
1 AA
35097991 AAAATTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 7 0.41
17 6 0.35
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
AACTTTTAAATATTTT
Found at i:35099035 original size:21 final size:21
Alignment explanation
Indices: 35098995--35099035 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
35098985 CTCATAGGAA
*
35098995 AAGAGAAGAGAAAATAAGAGT
1 AAGAGAAGAGAAAAGAAGAGT
35099016 AAGAG-AGAGAAAAGAGAGAG
1 AAGAGAAGAGAAAAGA-AGAG
35099036 ACAATGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.34, T:0.05
Consensus pattern (21 bp):
AAGAGAAGAGAAAAGAAGAGT
Found at i:35102286 original size:6 final size:6
Alignment explanation
Indices: 35102275--35102302 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
35102265 AGTTTCACAT
35102275 ATTTTA ATTTTA ATTTTA ATTTTA ATTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTT
35102303 AGTATATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTA
Found at i:35103904 original size:13 final size:13
Alignment explanation
Indices: 35103886--35103918 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
35103876 TAGCACAATT
35103886 GGGAAATCAGCAA
1 GGGAAATCAGCAA
*
35103899 GGGAAATCAGTAA
1 GGGAAATCAGCAA
35103912 GGGAAAT
1 GGGAAAT
35103919 GGGAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.45, C:0.09, G:0.33, T:0.12
Consensus pattern (13 bp):
GGGAAATCAGCAA
Found at i:35106507 original size:20 final size:20
Alignment explanation
Indices: 35106482--35106519 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35106472 GCCCCGTTTC
*
35106482 ACTAAAGCTTTTATACGCCT
1 ACTAAAGCTTCTATACGCCT
35106502 ACTAAAGCTTCTATACGC
1 ACTAAAGCTTCTATACGC
35106520 ACCGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (20 bp):
ACTAAAGCTTCTATACGCCT
Found at i:35115645 original size:11 final size:11
Alignment explanation
Indices: 35115631--35115671 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
35115621 TGTTTTCTCC
35115631 CTATTTTGCTA
1 CTATTTTGCTA
*
35115642 CTATTTTACTA
1 CTATTTTGCTA
* *
35115653 TTATGTTGCTA
1 CTATTTTGCTA
35115664 CTATTTTG
1 CTATTTTG
35115672 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:35115742 original size:30 final size:30
Alignment explanation
Indices: 35115708--35115769 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
35115698 ACTTATTTTA
*
35115708 TTGTTAATTTTGTTATTATTTTAAAAGAAT
1 TTGTTAATTTTATTATTATTTTAAAAGAAT
* *
35115738 TTGTTAATTTTATTATTATTTTAGAAGCAT
1 TTGTTAATTTTATTATTATTTTAAAAGAAT
35115768 TT
1 TT
35115770 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAAGAAT
Found at i:35115908 original size:11 final size:11
Alignment explanation
Indices: 35115892--35115922 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
35115882 TATATATATT
35115892 TAAAAATTATA
1 TAAAAATTATA
*
35115903 TAAAAATAATA
1 TAAAAATTATA
35115914 TAAAAATTA
1 TAAAAATTA
35115923 ATACCAGAGG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:35120260 original size:20 final size:21
Alignment explanation
Indices: 35120227--35120290 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 21
35120217 TAGCTCCTTT
* *
35120227 AGCTCGTTTCAGCTCCAA-TC
1 AGCTCATTTGAGCTCCAATTC
35120247 AGCTCATTTGAGCT-CAATTC
1 AGCTCATTTGAGCTCCAATTC
* *
35120267 AGCTCATTCGAGCT-CAATTT
1 AGCTCATTTGAGCTCCAATTC
35120287 AGCT
1 AGCT
35120291 TTCTATCAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 3 0.08
20 36 0.92
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (21 bp):
AGCTCATTTGAGCTCCAATTC
Found at i:35120281 original size:30 final size:30
Alignment explanation
Indices: 35120224--35120290 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
35120214 TTCTAGCTCC
**
35120224 TTTAGCTCGTTTCAGCTCCAATCAGCTC-A
1 TTTAGCTCAATTCAGCTCCAATCAGCTCAA
*
35120253 TTTGAGCTCAATTCAGCT-CATTCGAGCTCAA
1 TTT-AGCTCAATTCAGCTCCAATC-AGCTCAA
35120284 TTTAGCT
1 TTTAGCT
35120291 TTCTATCAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 7 0.22
30 21 0.66
31 4 0.12
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (30 bp):
TTTAGCTCAATTCAGCTCCAATCAGCTCAA
Found at i:35124033 original size:18 final size:19
Alignment explanation
Indices: 35124010--35124058 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
35124000 AAGTTTTATT
*
35124010 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
35124028 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
35124047 TTTAATTTTTAT
1 TTT-ATTTTTAT
35124059 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:35124035 original size:22 final size:22
Alignment explanation
Indices: 35124001--35124058 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
35123991 CAAGTTATAA
* *
35124001 AGTTTTATTTTTATTTTTATTT
1 AGTTTAATTTTTATTTTTACTT
*
35124023 A-TTTATTTATTTATTTTTACTT
1 AGTTTAATT-TTTATTTTTACTT
35124045 AGTTTAATTTTTAT
1 AGTTTAATTTTTAT
35124059 GTAAATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 19 0.63
23 6 0.20
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (22 bp):
AGTTTAATTTTTATTTTTACTT
Found at i:35127750 original size:18 final size:19
Alignment explanation
Indices: 35127727--35127775 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
35127717 AAGTTTTATT
*
35127727 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
35127745 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
35127764 TTTAATTTTTAT
1 TTT-ATTTTTAT
35127776 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:35127752 original size:22 final size:22
Alignment explanation
Indices: 35127718--35127775 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
35127708 CAAGTTATAA
* *
35127718 AGTTTTATTTTTATTTTTATTT
1 AGTTTAATTTTTATTTTTACTT
*
35127740 A-TTTATTTATTTATTTTTACTT
1 AGTTTAATT-TTTATTTTTACTT
35127762 AGTTTAATTTTTAT
1 AGTTTAATTTTTAT
35127776 GTAAATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 19 0.63
23 6 0.20
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (22 bp):
AGTTTAATTTTTATTTTTACTT
Found at i:35128714 original size:4 final size:4
Alignment explanation
Indices: 35128707--35128761 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
35128697 CCGTGCGTGA
** *
35128707 CTTT CTTT CTCC CTTT CTTT -TCTT -TTT CTTT CTTT TTTT CTTT CTTTT
1 CTTT CTTT CTTT CTTT CTTT CT-TT CTTT CTTT CTTT CTTT CTTT C-TTT
35128755 CTTT CTT
1 CTTT CTT
35128762 AATTTGCATG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 3 0.07
4 35 0.83
5 4 0.10
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:35128742 original size:9 final size:9
Alignment explanation
Indices: 35128719--35128761 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
35128709 TTCTTTCTCC
35128719 CTTTCTTTT
1 CTTTCTTTT
*
35128728 CTTTTTCTTT
1 CTTTCT-TTT
35128738 CTTT-TTTT
1 CTTTCTTTT
35128746 CTTTCTTTT
1 CTTTCTTTT
35128755 CTTTCTT
1 CTTTCTT
35128762 AATTTGCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 7 0.23
9 17 0.55
10 7 0.23
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:35132959 original size:27 final size:27
Alignment explanation
Indices: 35132911--35132962 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
35132901 AAAAACATTT
*
35132911 ATATACATGATATCAATTTATTCAAAA
1 ATATACATGATATCAATATATTCAAAA
35132938 ATATACATGATATTC-ATATATTCAA
1 ATATACATGATA-TCAATATATTCAA
35132963 TATATATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (27 bp):
ATATACATGATATCAATATATTCAAAA
Found at i:35139630 original size:16 final size:14
Alignment explanation
Indices: 35139593--35139635 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
35139583 TTTTATGTTA
*
35139593 TTTTTGTTTCTTTCT
1 TTTTTG-TTGTTTCT
35139608 TTTTTGTTGTTTCT
1 TTTTTGTTGTTTCT
35139622 TTGTCTTGTTGTTT
1 TT-T-TTGTTGTTT
35139636 GCTACAGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 9 0.36
15 7 0.28
16 9 0.36
ACGTcount: A:0.00, C:0.09, G:0.14, T:0.77
Consensus pattern (14 bp):
TTTTTGTTGTTTCT
Found at i:35140125 original size:18 final size:18
Alignment explanation
Indices: 35140082--35140116 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
35140072 AATTTTGAAC
35140082 AAATA-ATATGAAAAAAT
1 AAATATATATGAAAAAAT
35140099 AAATATATAT-AAAAAAT
1 AAATATATATGAAAAAAT
35140116 A
1 A
35140117 TACATTATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATATATATGAAAAAAT
Found at i:35140309 original size:2 final size:2
Alignment explanation
Indices: 35140302--35140344 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
35140292 ATTTATAAAA
35140302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35140344 A
1 A
35140345 ACGTACTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35155424 original size:22 final size:22
Alignment explanation
Indices: 35155399--35155441 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
35155389 ACACCAAAAC
*
35155399 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
35155421 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
35155442 AGCGCAGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:35155461 original size:18 final size:18
Alignment explanation
Indices: 35155438--35155494 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
35155428 TAGCGGCGCT
35155438 TTTTAGCGCAGCAAATAC
1 TTTTAGCGCAGCAAATAC
35155456 TTTTAGCG-ACGC---T--
1 TTTTAGCGCA-GCAAATAC
*
35155469 TTTTAGCGCTGCAAATAC
1 TTTTAGCGCAGCAAATAC
35155487 TTTTAGCG
1 TTTTAGCG
35155495 GCGCTTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
13 10 0.32
15 1 0.03
16 1 0.03
17 1 0.03
18 18 0.58
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (18 bp):
TTTTAGCGCAGCAAATAC
Found at i:35155469 original size:31 final size:31
Alignment explanation
Indices: 35155426--35155501 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
35155416 TTTTTAGGCC
35155426 TTTAGCGGCGCTTTTTAGCGCAGCAAATACT
1 TTTAGCGGCGCTTTTTAGCGCAGCAAATACT
* *
35155457 TTTAGCGACGCTTTTTAGCGCTGCAAATACT
1 TTTAGCGGCGCTTTTTAGCGCAGCAAATACT
35155488 TTTAGCGGCGCTTT
1 TTTAGCGGCGCTTT
35155502 GAAAAGCGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (31 bp):
TTTAGCGGCGCTTTTTAGCGCAGCAAATACT
Found at i:35155652 original size:43 final size:45
Alignment explanation
Indices: 35155605--35155825 Score: 160
Period size: 43 Copynumber: 5.1 Consensus size: 45
35155595 ACCTTTAGTG
35155605 GCGTTTGTGGTCGAAA-CGCCGCTATAGATCAGGGTCTTTTA-CA
1 GCGTTTGTGGTCGAAAGCGCCGCTATAGATCAGGGTCTTTTAGCA
* * * * * **
35155648 GCGTTTGTGG-GGAAAGCGCCGCTAAAGGTTAGGTTC-TTTAGTG
1 GCGTTTGTGGTCGAAAGCGCCGCTATAGATCAGGGTCTTTTAGCA
*
35155691 GCGTTTGTGGTC-AAAGCGCCGCTATAGATCAGGGTC-TTTAGCG
1 GCGTTTGTGGTCGAAAGCGCCGCTATAGATCAGGGTCTTTTAGCA
* * * * *
35155734 GCGTTT-TTG-CGGCAAGCGCCACTAAAGATTAGGGTC-TTTAGC-
1 GCGTTTGTGGTC-GAAAGCGCCGCTATAGATCAGGGTCTTTTAGCA
* ** * * * *
35155776 GACGTTTCT-CCCTAAAGCGCCGCTAAAGATTAGGGTC-TTTAGCG
1 G-CGTTTGTGGTCGAAAGCGCCGCTATAGATCAGGGTCTTTTAGCA
35155820 GCGTTT
1 GCGTTT
35155826 CTCCCTAAAA
Statistics
Matches: 147, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 11 0.07
43 132 0.90
44 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
GCGTTTGTGGTCGAAAGCGCCGCTATAGATCAGGGTCTTTTAGCA
Found at i:35155694 original size:86 final size:86
Alignment explanation
Indices: 35155597--35155825 Score: 275
Period size: 86 Copynumber: 2.7 Consensus size: 86
35155587 AGACTATGAC
*
35155597 CTTTAGTGGCGTTTGTGGTCGAAA-CGCCGCTATAGATCAGGGTCTTTTA-CAGCGTTTGTGGGG
1 CTTTAGTGGCGTTTGTGGTC-AAAGCGCCGCTATAGATCAGGGTC-TTTAGCAGCGTTTGTGCGG
* * *
35155660 AAAGCGCCGCTAAAGGTTAGGTT
64 AAAGCGCCACTAAAGATTAGGGT
* * *
35155683 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTGCGGCA
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTTTAGCAGCGTTTGTGCGGAA
35155748 AGCGCCACTAAAGATTAGGGT
66 AGCGCCACTAAAGATTAGGGT
* * * ** * * *
35155769 CTTTAGCGACGTTTCT-CCCTAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTT
1 CTTTAGTGGCGTTTGTGGTC-AAAGCGCCGCTATAGATCAGGGTCTTTAGCAGCGTTT
35155826 CTCCCTAAAA
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
85 8 0.06
86 118 0.94
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (86 bp):
CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTTTAGCAGCGTTTGTGCGGAA
AGCGCCACTAAAGATTAGGGT
Found at i:35155826 original size:43 final size:43
Alignment explanation
Indices: 35155660--35155847 Score: 207
Period size: 43 Copynumber: 4.4 Consensus size: 43
35155650 GTTTGTGGGG
* * * * **
35155660 AAAGCGCCGCTAAAGGTTAGGTTCTTTAGTGGCGTTTGT-GGT
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTCTCCCT
* * * * **
35155702 CAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTGCGG
1 -AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTCTCCCT
* * *
35155746 CAAGCGCCACTAAAGATTAGGGTCTTTAGCGACGTTTCTCCCT
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTCTCCCT
35155789 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTCTCCCT
1 AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTCTCCCT
* *
35155832 AAAACGCCGCAAAAGA
1 AAAGCGCCGCTAAAGA
35155848 CCCTGATCTA
Statistics
Matches: 122, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 121 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTCTCCCT
Found at i:35155880 original size:43 final size:43
Alignment explanation
Indices: 35155833--35156011 Score: 135
Period size: 43 Copynumber: 4.2 Consensus size: 43
35155823 TTTCTCCCTA
* * *
35155833 AAACGCCGCAAAAGACCCTGATCTATAGTGGCTC-TTCGACCAC
1 AAACGCCGCAAAAGACCATGATCTATAGCGGCGCTTTC-ACCAC
** * * * *
35155876 AAACGCAACTAAAGAACATAATCTATAGCGGCGCTTTCCCCAC
1 AAACGCCGCAAAAGACCATGATCTATAGCGGCGCTTTCACCAC
* * * **
35155919 AAACGCCGCGAAAGACCATGATCTTTAGAGGCGCTTTTTCCAC
1 AAACGCCGCAAAAGACCATGATCTATAGCGGCGCTTTCACCAC
** * * * * * * *
35155962 AAACGCTACTAAAGAACGTTATCTTTAGCGGCGCTTTTACCAA
1 AAACGCCGCAAAAGACCATGATCTATAGCGGCGCTTTCACCAC
35156005 AAACGCC
1 AAACGCC
35156012 ACTAAAGGCC
Statistics
Matches: 107, Mismatches: 28, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
43 104 0.97
44 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (43 bp):
AAACGCCGCAAAAGACCATGATCTATAGCGGCGCTTTCACCAC
Found at i:35155905 original size:86 final size:86
Alignment explanation
Indices: 35155815--35156011 Score: 229
Period size: 86 Copynumber: 2.3 Consensus size: 86
35155805 TTAGGGTCTT
* * *
35155815 TAGCGGCG-TTTCTCCCTAAAACGCCGCAAAAGACCCTGATCTATAGTGGCTCTTCGACCACAAA
1 TAGCGGCGCTTTCTCCC-AAAACGCCGCAAAAGACCATGATCTATAGAGGCGCTTCGACCACAAA
35155879 CGCAACTAAAGAACATAATCTA
65 CGCAACTAAAGAACATAATCTA
* * ***
35155901 TAGCGGCGCTTTC-CCCACAAACGCCGCGAAAGACCATGATCTTTAGAGGCGCTTTTTCCACAAA
1 TAGCGGCGCTTTCTCCCA-AAACGCCGCAAAAGACCATGATCTATAGAGGCGCTTCGACCACAAA
* * * *
35155965 CGCTACTAAAGAACGTTATCTT
65 CGCAACTAAAGAACATAATCTA
*
35155987 TAGCGGCGCTTT-TACCAAAAACGCC
1 TAGCGGCGCTTTCT-CCCAAAACGCC
35156012 ACTAAAGGCC
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
85 1 0.01
86 86 0.91
87 7 0.07
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (86 bp):
TAGCGGCGCTTTCTCCCAAAACGCCGCAAAAGACCATGATCTATAGAGGCGCTTCGACCACAAAC
GCAACTAAAGAACATAATCTA
Found at i:35156016 original size:43 final size:43
Alignment explanation
Indices: 35155871--35156018 Score: 170
Period size: 43 Copynumber: 3.4 Consensus size: 43
35155861 TGGCTCTTCG
* * *
35155871 ACCACAAACGCAACTAAAGAACATAATCTATAGCGGCGCTTTC
1 ACCACAAACGCCACTAAAGAACATAATCTTTAGCGGCGCTTTT
* * * * * *
35155914 CCCACAAACGCCGCGAAAGACCATGATCTTTAGAGGCGCTTTT
1 ACCACAAACGCCACTAAAGAACATAATCTTTAGCGGCGCTTTT
* * * *
35155957 TCCACAAACGCTACTAAAGAACGTTATCTTTAGCGGCGCTTTT
1 ACCACAAACGCCACTAAAGAACATAATCTTTAGCGGCGCTTTT
*
35156000 ACCAAAAACGCCACTAAAG
1 ACCACAAACGCCACTAAAG
35156019 GCCAACACCT
Statistics
Matches: 85, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.21
Consensus pattern (43 bp):
ACCACAAACGCCACTAAAGAACATAATCTTTAGCGGCGCTTTT
Found at i:35156031 original size:86 final size:86
Alignment explanation
Indices: 35155872--35156043 Score: 209
Period size: 86 Copynumber: 2.0 Consensus size: 86
35155862 GGCTCTTCGA
* * *
35155872 CCACAAACGCAACTAAAGAACATAATCTATAGCGGCGCTTTCCCCACAAACGCCGCGAAAGACCA
1 CCACAAACGCAACTAAAGAACATAATCTATAGCGGCGCTTTCACCAAAAACGCCACGAAAGACCA
** *
35155937 TGATCTTTAGAGGCGCTTTTT
66 ACACCTTTAGAGGCGCTTTTT
* * * * * * *
35155958 CCACAAACGCTACTAAAGAACGTTATCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAGGCCA
1 CCACAAACGCAACTAAAGAACATAATCTATAGCGGCGCTTTCACCAAAAACGCCACGAAAGACCA
* *
35156023 ACACCTTTAGTGGCGTTTTTT
66 ACACCTTTAGAGGCGCTTTTT
35156044 TGAAAAACGC
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (86 bp):
CCACAAACGCAACTAAAGAACATAATCTATAGCGGCGCTTTCACCAAAAACGCCACGAAAGACCA
ACACCTTTAGAGGCGCTTTTT
Found at i:35156398 original size:21 final size:21
Alignment explanation
Indices: 35156369--35156481 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
35156359 TTTGACGCTG
*
35156369 CTCTACTTCCTTCGCTGCAGC
1 CTCTGCTTCCTTCGCTGCAGC
**
35156390 CTCTGCTTCCCTT-GCTTTAGC
1 CTCTGCTT-CCTTCGCTGCAGC
* *
35156411 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCTTCGCTGCAGC
* * * *
35156432 CTATACTT-CTCTCACTGCCGC
1 CTCTGCTTCCT-TCGCTGCAGC
*
35156453 CTCTGCTTCTCTT-GCTGCCGC
1 CTCTGCTTC-CTTCGCTGCAGC
*
35156474 ATCTGCTT
1 CTCTGCTT
35156482 TAAGCTGCTG
Statistics
Matches: 72, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
20 4 0.06
21 61 0.85
22 5 0.07
23 2 0.03
ACGTcount: A:0.07, C:0.41, G:0.15, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCCTTCGCTGCAGC
Found at i:35156542 original size:66 final size:66
Alignment explanation
Indices: 35156452--35156617 Score: 210
Period size: 66 Copynumber: 2.5 Consensus size: 66
35156442 CTCACTGCCG
* * *
35156452 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
35156515 GAA
64 GAA
* * *
35156518 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
35156583 A
66 A
* * * *
35156584 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
35156618 TTGTGTAATT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 82 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:35165928 original size:8 final size:10
Alignment explanation
Indices: 35165905--35165941 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
35165895 NNNNNTATAT
35165905 ATATATATCC
1 ATATATATCC
*
35165915 ATATATATTC
1 ATATATATCC
35165925 ATATATATCC
1 ATATATATCC
35165935 ATATATA
1 ATATATA
35165942 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:35168453 original size:41 final size:43
Alignment explanation
Indices: 35168406--35168645 Score: 221
Period size: 41 Copynumber: 5.8 Consensus size: 43
35168396 TAAAAGCCAC
* *
35168406 AGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACTA-
1 AGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGATACCAG
* * * * *
35168448 A-CATTAGCGGCGCTTAGAAAAAAAGGCCGCTAAAG--GCCAG
1 AGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGATACCAG
* *
35168488 AGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATA-C-G
1 AGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGATACCAG
* * * * *
35168529 AACATTAGCGGCGCTTAGAGAAAAACGCCGCTAAAG--GCCAG
1 AGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGATACCAG
* *
35168570 AGCATTAGTGGCGCTCAGATAAAAACCCCGCTAAAGAT--CGG
1 AGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGATACCAG
* * * * *
35168611 ACCATTAGCGGCGCTAAAACAAAAACGCCGCTAAA
1 AGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAA
35168646 CGTTTAAAAA
Statistics
Matches: 157, Mismatches: 33, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 151 0.96
42 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (43 bp):
AGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGATACCAG
Found at i:35168506 original size:82 final size:82
Alignment explanation
Indices: 35168386--35168645 Score: 389
Period size: 82 Copynumber: 3.2 Consensus size: 82
35168376 GCTTACCTAT
* * * *
35168386 AAAATGCCGCTAAAAGCCACAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACTAACA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
35168451 TTAGCGGCGCTTAGAAA
66 TTAGCGGCGCTTAGAAA
* *
35168468 AAAAGGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
*
35168533 TTAGCGGCGCTTAGAGA
66 TTAGCGGCGCTTAGAAA
* * *
35168550 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACCCCGCTAAAGAT-CGGACC
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATAC-GAAC
*
35168614 ATTAGCGGCGC-TAAAACA
65 ATTAGCGGCGCTTAGAA-A
35168632 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
35168646 CGTTTAAAAA
Statistics
Matches: 163, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
81 4 0.02
82 159 0.98
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (82 bp):
AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
TTAGCGGCGCTTAGAAA
Found at i:35187847 original size:128 final size:128
Alignment explanation
Indices: 35187616--35187868 Score: 425
Period size: 128 Copynumber: 2.0 Consensus size: 128
35187606 TGCATGCTTC
* *
35187616 CTTAATCGCCAACACTTTTTCACTAGAGGCATCGACATTAACTTCAACACTCCTGAATATGGTAC
1 CTTAATCGCCAACACTTTTGCACTAGAGGCATCAACATTAACTTCAACACTCCTGAATATGGTAC
* *
35187681 ACTCTATCGAGCCGAAGGCCTCACCCTTTTATATTTTTTCTTCAATCTAAAACAATTAGAAAA
66 ACTCTATCGAGCCAAAGGCCTCACCCTTTTATACTTTTTCTTCAATCTAAAACAATTAGAAAA
* * * * *
35187744 CTTAATTGCCAACACTTTTGCACTGGAGGCATCAACATTAACTTCAACACTCCTGATTGTGGTGC
1 CTTAATCGCCAACACTTTTGCACTAGAGGCATCAACATTAACTTCAACACTCCTGAATATGGTAC
35187809 ACTCTATCGAGCCAAAGGCCTCACCCTTTTATACTTTTTCTTCAATCTAAAACAATTAGA
66 ACTCTATCGAGCCAAAGGCCTCACCCTTTTATACTTTTTCTTCAATCTAAAACAATTAGA
35187869 GAATCTGGAA
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 116 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (128 bp):
CTTAATCGCCAACACTTTTGCACTAGAGGCATCAACATTAACTTCAACACTCCTGAATATGGTAC
ACTCTATCGAGCCAAAGGCCTCACCCTTTTATACTTTTTCTTCAATCTAAAACAATTAGAAAA
Found at i:35188384 original size:31 final size:31
Alignment explanation
Indices: 35188346--35188417 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
35188336 ATATTAAAAC
35188346 TATACATGAACTTTGAACTAATGTTG-AATGT
1 TATACATGAACTTTGAACTAATG-TGCAATGT
*
35188377 TATACATGAACTTTGAACTAATGTGCAATTT
1 TATACATGAACTTTGAACTAATGTGCAATGT
*
35188408 TATATATGAA
1 TATACATGAA
35188418 ATTTAGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 2 0.05
31 36 0.95
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (31 bp):
TATACATGAACTTTGAACTAATGTGCAATGT
Found at i:35208095 original size:43 final size:42
Alignment explanation
Indices: 35207998--35208102 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
35207988 GGTTTGAGAT
** *
35207998 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TTACGTGTAAGACCATGTCTAAGACAGTGGCATCGTATATGA
* * *
35208040 TTACGTGTAAGACCCTGTCTAAGACAGTGGCATCATTATTTGA
1 TTACGTGTAAGACCATGTCTAAGACAGTGGCATC-GTATATGA
* *
35208083 TTACATGTAAGACCACGTCT
1 TTACGTGTAAGACCATGTCT
35208103 GGGACGTTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 30 0.57
43 23 0.43
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTAAGACAGTGGCATCGTATATGA
Found at i:35208114 original size:43 final size:42
Alignment explanation
Indices: 35207951--35208115 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 42
35207941 TTCTGATATG
* *
35207951 TGATTTCGTGTAAGACCACGTCTGGGACGATGGCATCGGTT-TGA
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC--TTAT-A
* * *
35207995 -GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 TGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCATCTTATA
** *
35208037 TGATTACGTGTAAGACC-CTGTCTAAGACAG-TGGCATCATTATT
1 TGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC-TTATA
*
35208080 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
35208116 TATTCGAGCT
Statistics
Matches: 99, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
42 31 0.31
43 37 0.37
44 31 0.31
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
TGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCTTATA
Found at i:35212956 original size:52 final size:52
Alignment explanation
Indices: 35212871--35212971 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
35212861 CATGCACATA
* * * *
35212871 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGTTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAAAGAGATCTTAAGCTGCTGTCCATTATTG
35212923 TTTGAGCTTCAACCGAGCTAGAAAAGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAAAGAGATCTTAAGCTGCTGTCCATTA
35212972 CGTTTCCTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAAAGAGATCTTAAGCTGCTGTCCATTATTG
Found at i:35213694 original size:49 final size:48
Alignment explanation
Indices: 35213597--35213701 Score: 113
Period size: 49 Copynumber: 2.1 Consensus size: 48
35213587 GCATGAGATC
* * *
35213597 AAACTAGATAGTAAAATATTCAAAAATAAAATAAAAATTATAAAACTTA
1 AAACTA-ATAATAAAAAATTCAAAAATAAAATAAAAATCATAAAACTTA
* * *
35213646 AAACTAATAATAAAAAATTCAAAAAATGAAACT-TAAATCATAATACTTA
1 AAACTAATAATAAAAAATTC-AAAAAT-AAAATAAAAATCATAAAACTTA
*
35213695 TAACTAA
1 AAACTAA
35213702 CACCACAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 12 0.26
49 31 0.66
50 4 0.09
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.27
Consensus pattern (48 bp):
AAACTAATAATAAAAAATTCAAAAATAAAATAAAAATCATAAAACTTA
Found at i:35217489 original size:51 final size:51
Alignment explanation
Indices: 35217413--35217596 Score: 214
Period size: 51 Copynumber: 3.6 Consensus size: 51
35217403 GATGAACACG
*
35217413 TGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGATAAATA-ATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACT-GATAAA-ACTTGGTCACA
* * * **
35217464 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACTGA-AAAGATTTGGTCATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACTGATAAA-ACTTGGTCACA
* * *
35217515 TATGTAGTACTATGTGAAGGCTACTACGTGGACTG-TAAAACTTGATCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACTGATAAAACTTGGTCACA
* *
35217565 TGTGTAGTACTATGTGAAGACTACTATGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
35217597 TCGAATGATA
Statistics
Matches: 112, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 39 0.35
51 72 0.64
52 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.33
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACTGATAAAACTTGGTCACA
Found at i:35217493 original size:26 final size:26
Alignment explanation
Indices: 35217413--35217495 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
35217403 GATGAACACG
*
35217413 TGTGTAGTACTATGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
* *
35217439 CGTGTA-T-CGATAAAT-AATGG-TCAC-A
1 TGTGTAGTAC--TAAGTGAA-GGCT-ACTA
35217464 TGTGTAGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
35217490 TGTGTA
1 TGTGTA
35217496 CTGAAAAGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 18
0.65 0.08 0.27
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 23 0.53
27 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGAAGGCTACTA
Found at i:35218622 original size:2 final size:2
Alignment explanation
Indices: 35218615--35218665 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
35218605 TGTAATGTGG
35218615 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35218657 TA TA TA TA T
1 TA TA TA TA T
35218666 TGTTTGACTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35220329 original size:5 final size:5
Alignment explanation
Indices: 35220321--35220351 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
35220311 GAGATGGAAT
35220321 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
35220352 ATATTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:35221024 original size:9 final size:9
Alignment explanation
Indices: 35221010--35221046 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
35221000 TATAGTTTGA
35221010 TATTCGAAT
1 TATTCGAAT
35221019 TATTCGAAT
1 TATTCGAAT
*
35221028 TATTCGAGT
1 TATTCGAAT
35221037 TATTCGAAT
1 TATTCGAAT
35221046 T
1 T
35221047 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:35222285 original size:82 final size:82
Alignment explanation
Indices: 35222147--35222308 Score: 279
Period size: 82 Copynumber: 2.0 Consensus size: 82
35222137 TCACCCAAAT
* * *
35222147 GAGTATTGCTATTCAGTTGGTGCTTGTGCACACTATTTAGAGTGCTCGAGTATTTTTCATGTATT
1 GAGTACTGCTATTCACTTGGTGCTTGTGCACACTATTTAGAGTGCTCGAGTATTTTTCATGTATC
35222212 CGTTCATTGTTTCATTG
66 CGTTCATTGTTTCATTG
* *
35222229 GAGTACTGCTATTCACTTGGTGCTTGTGCACACTATTTAGAGTGTTCGAGTGTTTTTCATGTATC
1 GAGTACTGCTATTCACTTGGTGCTTGTGCACACTATTTAGAGTGCTCGAGTATTTTTCATGTATC
35222294 CGTTCATTGTTTCAT
66 CGTTCATTGTTTCAT
35222309 GTTCGTTAAC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (82 bp):
GAGTACTGCTATTCACTTGGTGCTTGTGCACACTATTTAGAGTGCTCGAGTATTTTTCATGTATC
CGTTCATTGTTTCATTG
Found at i:35227364 original size:25 final size:25
Alignment explanation
Indices: 35227334--35227386 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
35227324 GAACATAGAA
*
35227334 GCTAAGAGCTGTTGACGGAGTATAG
1 GCTAAGAGCTGGTGACGGAGTATAG
35227359 GCTAAGAGCTGGTGACGGAGTATAG
1 GCTAAGAGCTGGTGACGGAGTATAG
35227384 GCT
1 GCT
35227387 TAGTATTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.38, T:0.23
Consensus pattern (25 bp):
GCTAAGAGCTGGTGACGGAGTATAG
Found at i:35227764 original size:3 final size:3
Alignment explanation
Indices: 35227756--35227791 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
35227746 GCATCCCATA
35227756 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
35227792 AGTTGTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:35232715 original size:24 final size:25
Alignment explanation
Indices: 35232626--35232722 Score: 69
Period size: 24 Copynumber: 3.9 Consensus size: 25
35232616 AGACTCTTTC
*
35232626 ATGAGCTTCCCGATTAATTGACTC-T
1 ATGAGCTTCCCGATT-ATTGGCTCGT
* *
35232651 CTGGAGCCTCCCGA-TATTGGCTCGCT
1 AT-GAGCTTCCCGATTATTGGCTCG-T
* *
35232677 -TGAACCTT-CCTATTATTGGCTCGT
1 ATG-AGCTTCCCGATTATTGGCTCGT
*
35232701 ATGAGCTTCCC-ATTAATGGCTC
1 ATGAGCTTCCCGATTATTGGCTC
35232723 TCCGGAGCTT
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
24 26 0.46
25 20 0.35
26 11 0.19
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCGATTATTGGCTCGT
Found at i:35232805 original size:25 final size:25
Alignment explanation
Indices: 35232727--35232794 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
35232717 TGGCTCTCCG
* **
35232727 GAGCTTCTGGTTACATGGCTC-ACAT
1 GAGCTTCTAGTTATGTGGCTCGA-AT
*
35232752 GAGCTTCTAGTTATGTGGCTCGAAA
1 GAGCTTCTAGTTATGTGGCTCGAAT
*
35232777 GAGCTTCTCATTTATGTG
1 GAGCTTCT-AGTTATGTG
35232795 CTTGTATGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 27 0.75
26 9 0.25
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (25 bp):
GAGCTTCTAGTTATGTGGCTCGAAT
Found at i:35234597 original size:30 final size:30
Alignment explanation
Indices: 35234545--35234608 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
35234535 TTAATTTCCG
* *
35234545 AGTTTTGGGGCAAAAGTGTAATTATGTAAA
1 AGTTTAGGGGCAAAAGTATAATTATGTAAA
* *
35234575 AGTTTAGGGGCAAAA-TCATAATTTTGTCAA
1 AGTTTAGGGGCAAAAGT-ATAATTATGTAAA
35234605 AGTT
1 AGTT
35234609 AGAGTCGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (30 bp):
AGTTTAGGGGCAAAAGTATAATTATGTAAA
Found at i:35235025 original size:50 final size:50
Alignment explanation
Indices: 35234947--35235087 Score: 174
Period size: 50 Copynumber: 2.8 Consensus size: 50
35234937 ATTTGGGTAA
* * * *
35234947 AGAGGTCCCGTGTAAGACCATTTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATG
* * * *
35234997 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATG
** * *
35235047 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGC
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGC
35235088 TGTACAAGAA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATG
Found at i:35235136 original size:49 final size:50
Alignment explanation
Indices: 35234952--35235137 Score: 169
Period size: 50 Copynumber: 3.7 Consensus size: 50
35234942 GGTAAAGAGG
* * * * * * * **
35234952 TCCCGTGTAAGACCATTTTTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAAC
* * *
35235002 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAAC
* * * **
35235052 TCTCATGTAAGACCATATCTGGGATATGGCATTGGC-TGTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAAC
* * *
35235100 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35235138 TGTTATATTC
Statistics
Matches: 111, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
48 3 0.03
49 35 0.32
50 73 0.66
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTACAAGAGAAC
Found at i:35236667 original size:3 final size:3
Alignment explanation
Indices: 35236661--35236689 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
35236651 TTTTGTACTG
35236661 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35236690 TCTTCTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:35245411 original size:25 final size:24
Alignment explanation
Indices: 35245356--35245597 Score: 84
Period size: 25 Copynumber: 9.8 Consensus size: 24
35245346 CATGTAAATT
* * *
35245356 GGAAGCTCTTTTGAGACAT-ATCA
1 GGAAGCTCATATGAGCCATAATCA
35245379 CGGAAAGCTCATATGAGCCATGTAAT-A
1 -GG-AAGCTCATATGAGCCA--TAATCA
* **
35245406 GTAAGCTCATAAAAGCCATAATCA
1 GGAAGCTCATATGAGCCATAATCA
* *
35245430 GGAAGCTCATGTGAGCCA-ATATCG
1 GGAAGCTCATATGAGCCATA-ATCA
* ** * **
35245454 GGAAGATCCGAAGAGCCATTAATTT
1 GGAAGCTCATATGAGCCA-TAATCA
* *
35245479 GGAAGCTCATGA-GAGCCATTTATCG
1 GGAAGCTCAT-ATGAGCCA-TAATCA
* * *
35245504 GGAAGCTC-TAGAGAGCTAATTATCA
1 GGAAGCTCATA-TGAGC-CATAATCA
* * *
35245529 AGAAGCTCATACGAGCCATAAAC-
1 GGAAGCTCATATGAGCCATAATCA
* *
35245552 GGAAAGCTCA-AGAGAGCCATTAATCG
1 GG-AAGCTCATA-TGAGCCA-TAATCA
* *
35245578 GGAAGCTCTTAAGAGCCATA
1 GGAAGCTCATATGAGCCATA
35245598 TAACGATATG
Statistics
Matches: 165, Mismatches: 35, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
23 8 0.05
24 53 0.32
25 91 0.55
26 9 0.05
27 2 0.01
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (24 bp):
GGAAGCTCATATGAGCCATAATCA
Found at i:35253691 original size:3 final size:3
Alignment explanation
Indices: 35253683--35253752 Score: 99
Period size: 3 Copynumber: 23.7 Consensus size: 3
35253673 AAGGTTACCT
*
35253683 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TCTA
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC
*
35253732 TTC TT- TTC TT- TTC TTT TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TT
35253753 AATAAACTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
2 4 0.07
3 54 0.90
4 2 0.03
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:35260410 original size:20 final size:20
Alignment explanation
Indices: 35260373--35260413 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35260363 TAAAAAGGCA
* *
35260373 TATAATTATTCATCTAATAT
1 TATAACTATTCAACTAATAT
*
35260393 TATAACTATTCAAGTAATAT
1 TATAACTATTCAACTAATAT
35260413 T
1 T
35260414 GTTTGAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (20 bp):
TATAACTATTCAACTAATAT
Found at i:35262171 original size:22 final size:22
Alignment explanation
Indices: 35262123--35262182 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
35262113 AAATGGTAGT
*
35262123 AAAATAATGAAAAAAACAAGAAG
1 AAAATAAT-AAAAAAACAAGAAA
35262146 AAAATAATAAAAAAAC-AGCAAA
1 AAAATAATAAAAAAACAAG-AAA
35262168 AAAAGT-ATAAAAAAA
1 AAAA-TAATAAAAAAA
35262183 AAGTAGGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 2 0.06
22 23 0.68
23 9 0.26
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (22 bp):
AAAATAATAAAAAAACAAGAAA
Found at i:35272943 original size:21 final size:21
Alignment explanation
Indices: 35272919--35272962 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
35272909 GAAAAAGATA
35272919 CAATTTTTGAGTTTAACAAAG
1 CAATTTTTGAGTTTAACAAAG
35272940 CAATTTTTGAGTTTAACAAAG
1 CAATTTTTGAGTTTAACAAAG
35272961 CA
1 CA
35272963 TGTTTAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
CAATTTTTGAGTTTAACAAAG
Found at i:35273521 original size:27 final size:27
Alignment explanation
Indices: 35273490--35273543 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
35273480 TCATGAAATG
35273490 CCATGGTTTGCTGATTATGCAAATTAT
1 CCATGGTTTGCTGATTATGCAAATTAT
35273517 CCATGGTTTGCTGATTATGCAAATTAT
1 CCATGGTTTGCTGATTATGCAAATTAT
35273544 TTAGCATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (27 bp):
CCATGGTTTGCTGATTATGCAAATTAT
Found at i:35285612 original size:16 final size:16
Alignment explanation
Indices: 35285588--35285624 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
35285578 GGTGTGACTT
*
35285588 TTAACACCAAACAAAA
1 TTAAGACCAAACAAAA
35285604 TTAAGACCAAACAAAA
1 TTAAGACCAAACAAAA
35285620 TTAAG
1 TTAAG
35285625 TCTATGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.19, G:0.05, T:0.16
Consensus pattern (16 bp):
TTAAGACCAAACAAAA
Found at i:35291749 original size:29 final size:27
Alignment explanation
Indices: 35291716--35291770 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
35291706 GTGATTAAAT
35291716 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
35291745 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
35291771 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:35293755 original size:22 final size:21
Alignment explanation
Indices: 35293704--35293776 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
35293694 TCTCTCTCGC
*
35293704 TTTCATTTTC-GCATTTTTCAT
1 TTTCATTTTCTTC-TTTTTCAT
35293725 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCTTCTTTTTCA-T
* *
35293747 TTT-ATTTT-TCTCTTCTTCTT
1 TTTCATTTTCT-TCTTTTTCAT
*
35293767 TTTCTTTTTC
1 TTTCATTTTC
35293777 CTCACTTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.12
21 33 0.77
22 5 0.12
ACGTcount: A:0.08, C:0.21, G:0.01, T:0.70
Consensus pattern (21 bp):
TTTCATTTTCTTCTTTTTCAT
Found at i:35295797 original size:29 final size:27
Alignment explanation
Indices: 35295764--35295818 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
35295754 GTGATTAAAT
35295764 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
35295793 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
35295819 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:35299859 original size:44 final size:44
Alignment explanation
Indices: 35299690--35299904 Score: 143
Period size: 45 Copynumber: 4.8 Consensus size: 44
35299680 TTCCGAAGTG
* * * * *
35299690 ATGCCATAGTATCTTTCAACTATAGTATTATTCGCA-TCGGA-TTTA
1 ATGCCATAGTATCTTT-AACTATGGT-CT-TTCTCATTCCGAGTATA
* *** *
35299735 ATGCCATAGTATCTTTCAACTATGGTCTTAT-ACATTTATAGAATA
1 ATGCCATAGTATCTTT-AACTATGGTCTT-TCTCATTCCGAGTATA
* * *
35299780 ATACCTTAGTATCTTTCAACTATGGTCTTAT-TCATTCCG-GTTTA
1 ATGCCATAGTATCTTT-AACTATGGTCTT-TCTCATTCCGAGTATA
* *
35299824 ATGCCATAGTATCTTTAAACTGTGGTCTTTCTCATTTCGAGTATA
1 ATGCCATAGTATCTTT-AACTATGGTCTTTCTCATTCCGAGTATA
* * * *
35299869 ATTCCATCGTACCTTTCACTCATGGTCTTTCTCATT
1 ATGCCATAGTATCTTTAACT-ATGGTCTTTCTCATT
35299905 TCTCAATCCA
Statistics
Matches: 137, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
43 4 0.03
44 42 0.31
45 91 0.66
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (44 bp):
ATGCCATAGTATCTTTAACTATGGTCTTTCTCATTCCGAGTATA
Found at i:35299870 original size:89 final size:89
Alignment explanation
Indices: 35299693--35299897 Score: 229
Period size: 89 Copynumber: 2.3 Consensus size: 89
35299683 CGAAGTGATG
* * *
35299693 CCATAGTATCTTTCAACTATAGTATTATTCGCATCGGATTTAATGCCATAGTATCTTTCAACTAT
1 CCATAGTATCTTTCAACTATGGTCTTATTC-CATCGGATTTAATGCCATAGTATCTTTAAACTAT
*
35299758 GGTCTTATACATTTATAGAATAATA
65 GGTCTTATACATTTAGAGAATAATA
* *
35299783 CCTTAGTATCTTTCAACTATGGTCTTATT-CATTCCGG-TTTAATGCCATAGTATCTTTAAACTG
1 CCATAGTATCTTTCAACTATGGTCTTATTCCA-T-CGGATTTAATGCCATAGTATCTTTAAACTA
* * * *
35299846 TGGTCTT-TCTCATTTCGAGTATAATT
64 TGGTCTTAT-ACATTTAGAGAATAATA
* *
35299872 CCATCGTACCTTTC-ACTCATGGTCTT
1 CCATAGTATCTTTCAACT-ATGGTCTT
35299898 TCTCATTTCT
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
88 6 0.06
89 63 0.64
90 29 0.30
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (89 bp):
CCATAGTATCTTTCAACTATGGTCTTATTCCATCGGATTTAATGCCATAGTATCTTTAAACTATG
GTCTTATACATTTAGAGAATAATA
Found at i:35300148 original size:17 final size:17
Alignment explanation
Indices: 35300115--35300148 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35300105 ATTTTAATTC
*
35300115 AATTAACCATTTAAAAT
1 AATTAACCAATTAAAAT
*
35300132 AATTAACCAATTCAAAT
1 AATTAACCAATTAAAAT
35300149 TATGTATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (17 bp):
AATTAACCAATTAAAAT
Found at i:35307169 original size:296 final size:302
Alignment explanation
Indices: 35306826--35307585 Score: 919
Period size: 315 Copynumber: 2.5 Consensus size: 302
35306816 CAATAAAAAA
* * * * * *
35306826 TTAAATAATAGTA-AGGTATAAAACTAATGGAGATAATAAATTGTGCATATTAAAA-TAAAATTG
1 TTAAATAATAGTATAGATATACAATTATTGGAAATAAT-AA-TGTGCATAATAAAATTAAAA-TG
* * * * * * * * *
35306889 TATAAAATATATCAAAATGAAGCTTTGGCTAAGTAGTAAGTTTAAGGTTTTACTAATCCAATTGA
63 TATAAAA-ATATTAAAATGAAGGTTTAGCTGAGTGGTAAGTTAAAGATATTACTAATGCAATTGA
*** * * *
35306954 TGT-GGGTTCAAATCTCACTATATG-TA-TA-TTTTT-AT-TGA-TTAT-TGTTAAAATGAAAAG
127 T-TCAAATTCAAACCTCACTATATGATATTATTTTTTAATAAGACTTATCTCTTAAAATGAAAAG
* *
35307011 ACTAAAATATCCTCAAATAACATAACTTATTTTAATTATGAAAGGGTGGTTATGTAATTTACCTA
191 ACTAAAATATCCTCAAATAACATAACCTATTTTAATTATAAAAGGGTGGTTATGTAATTTACCTA
35307076 ATCGAGTTGGTACCCGATTAACTCATGACACCAACATAGTTAGGAGC
256 ATCGAGTTGGTACCCGATTAACTCATGACACCAACATAGTTAGGAGC
35307123 TTAAATAATAGTATAGATATACAATTATTGGAAATAATAATGTGCATAATAAAATTAAAATGTAT
1 TTAAATAATAGTATAGATATACAATTATTGGAAATAATAATGTGCATAATAAAATTAAAATGTAT
* * *
35307188 AAAAAATATTAAAATGAAGGTTTAGCTGAGTGGTAAATTAAAGACATTACTATTGCAATTGATTC
66 -AAAAATATTAAAATGAAGGTTTAGCTGAGTGGTAAGTTAAAGATATTACTAATGCAATTGATTC
*
35307253 AAATTCAAACCTTACTATATGCATATTTCTATTGTTTTTTAAAATAAAAAGACTTATCTCTTAAA
130 AAATTCAAACCTCACTATATG-ATA--T-TA---TTTTTT--AAT---AAGACTTATCTCTTAAA
** *
35307318 ATGAAAAGACTAAAATATCCTCAAATAACATAACCTATTTTAATTATAAAATTGTGGTTCTGTAA
183 ATGAAAAGACTAAAATATCCTCAAATAACATAACCTATTTTAATTATAAAAGGGTGGTTATGTAA
* * * * ** *
35307383 TTTACCTAATCGAGTTTGTACTCGGTTGACTGGTGACACCAACTTAGTTAGGAGC
248 TTTACCTAATCGAGTTGGTACCCGATTAACTCATGACACCAACATAGTTAGGAGC
* *
35307438 TTAAATAATAGTATAGATATACAATTATTGAAAATAATAATGTGCACAATAAAATTAAAATGTAT
1 TTAAATAATAGTATAGATATACAATTATTGGAAATAATAATGTGCATAATAAAATTAAAATGTAT
*
35307503 AAAAATATTAAAATAAAGGTTTAGCTGAGTGGTAAGTTAAAGATATTACTAATGCAATTGATTCA
66 AAAAATATTAAAATGAAGGTTTAGCTGAGTGGTAAGTTAAAGATATTACTAATGCAATTGATTCA
*
35307568 AATTCAAACCTTACTATA
131 AATTCAAACCTCACTATA
35307586 AGCATATTTC
Statistics
Matches: 397, Mismatches: 43, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
295 1 0.00
296 80 0.20
297 24 0.06
298 21 0.05
302 2 0.01
306 5 0.01
309 2 0.01
313 2 0.01
314 83 0.21
315 177 0.45
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (302 bp):
TTAAATAATAGTATAGATATACAATTATTGGAAATAATAATGTGCATAATAAAATTAAAATGTAT
AAAAATATTAAAATGAAGGTTTAGCTGAGTGGTAAGTTAAAGATATTACTAATGCAATTGATTCA
AATTCAAACCTCACTATATGATATTATTTTTTAATAAGACTTATCTCTTAAAATGAAAAGACTAA
AATATCCTCAAATAACATAACCTATTTTAATTATAAAAGGGTGGTTATGTAATTTACCTAATCGA
GTTGGTACCCGATTAACTCATGACACCAACATAGTTAGGAGC
Found at i:35307824 original size:17 final size:18
Alignment explanation
Indices: 35307802--35307838 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
35307792 TTAAAACAAG
35307802 TTTTTTA-AAACAAT-TTA
1 TTTTTTACAAA-AATATTA
35307819 TTTTTTACAAAAATATTA
1 TTTTTTACAAAAATATTA
35307837 TT
1 TT
35307839 AAAATTTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTACAAAAATATTA
Found at i:35310107 original size:40 final size:40
Alignment explanation
Indices: 35309998--35310128 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
35309988 AATTATTGAA
* * *
35309998 TGATTGCACTTACATGCCCTTGTTTGTACTT-GGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCC
* *
35310037 TGATTGCAC-TACGTGTCCCTGTTTGTACTTCGATACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCC
**
35310076 TGATTGCACTTTTGTGCCCCTGTTTGTACTTC-AGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGA-TACCCC
35310116 TGATTGCACTTAC
1 TGATTGCACTTAC
35310129 ATACTCCGAA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 18 0.23
39 25 0.32
40 35 0.45
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGATACCCC
Found at i:35310126 original size:20 final size:19
Alignment explanation
Indices: 35310025--35310126 Score: 78
Period size: 20 Copynumber: 5.2 Consensus size: 19
35310015 CCTTGTTTGT
*
35310025 ACTTGGTACCCCTGATTGC
1 ACTTCGTACCCCTGATTGC
* ** * *
35310044 ACTACGTGTCCCTGTTTGT
1 ACTTCGTACCCCTGATTGC
*
35310063 ACTTCGATACCCTTGATTGC
1 ACTTCG-TACCCCTGATTGC
* * * *
35310083 ACTTTTGTGCCCCTGTTTGT
1 AC-TTCGTACCCCTGATTGC
35310103 ACTTCAGTACCCCTGATTGC
1 ACTTC-GTACCCCTGATTGC
35310123 ACTT
1 ACTT
35310127 ACATACTCCG
Statistics
Matches: 59, Mismatches: 21, Indels: 5
0.69 0.25 0.06
Matches are distributed among these distances:
19 20 0.34
20 36 0.61
21 3 0.05
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (19 bp):
ACTTCGTACCCCTGATTGC
Found at i:35312416 original size:22 final size:22
Alignment explanation
Indices: 35312388--35312456 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
35312378 CGAAGTCTAG
35312388 GTTACATGCAAACCCTATATAT
1 GTTACATGCAAACCCTATATAT
** **
35312410 GTTACATGTGAATTCTATACATAT
1 GTTACATGCAAACCCTAT--ATAT
* *
35312434 GTTATATACAAACCCTATATAT
1 GTTACATGCAAACCCTATATAT
35312456 G
1 G
35312457 ATATATGCGA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
22 19 0.54
24 16 0.46
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (22 bp):
GTTACATGCAAACCCTATATAT
Found at i:35312469 original size:22 final size:22
Alignment explanation
Indices: 35312388--35312469 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 22
35312378 CGAAGTCTAG
*
35312388 GTTACATGCAAACCCTATATAT
1 GTTATATGCAAACCCTATATAT
* ** **
35312410 GTTACATGTGAATTCTATACATAT
1 GTTATATGCAAACCCTAT--ATAT
*
35312434 GTTATATACAAACCCTATATAT
1 GTTATATGCAAACCCTATATAT
* *
35312456 GATATATGCGAACC
1 GTTATATGCAAACC
35312470 ATCATACATG
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
22 29 0.64
24 16 0.36
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (22 bp):
GTTATATGCAAACCCTATATAT
Found at i:35319428 original size:2 final size:2
Alignment explanation
Indices: 35319421--35319448 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35319411 TTTTGGCCAT
35319421 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
35319449 TGAAGTCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:35327781 original size:7 final size:7
Alignment explanation
Indices: 35327769--35327805 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
35327759 ATTATTTTAC
35327769 TTTTAAT
1 TTTTAAT
35327776 TTTTAAT
1 TTTTAAT
35327783 TTTTAAT
1 TTTTAAT
*
35327790 TTTTTAT
1 TTTTAAT
*
35327797 TTTTTAT
1 TTTTAAT
35327804 TT
1 TT
35327806 AATAATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTAAT
Found at i:35327793 original size:15 final size:15
Alignment explanation
Indices: 35327751--35327802 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
35327741 TTATGCTCCC
35327751 ATTTTATAATTATTTT-
1 ATTTT-TAATT-TTTTA
*
35327767 ACTTTTAA-TTTTTA
1 ATTTTTAATTTTTTA
35327781 ATTTTTAATTTTTTA
1 ATTTTTAATTTTTTA
*
35327796 TTTTTTA
1 ATTTTTA
35327803 TTTAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 4 0.13
14 8 0.26
15 15 0.48
16 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTTAATTTTTTA
Found at i:35327799 original size:6 final size:7
Alignment explanation
Indices: 35327763--35327805 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
35327753 TTTATAATTA
*
35327763 TTTTACT
1 TTTTATT
*
35327770 TTTAATT
1 TTTTATT
*
35327777 TTTAATT
1 TTTTATT
*
35327784 TTTAATT
1 TTTTATT
35327791 TTTTATT
1 TTTTATT
35327798 TTTTATT
1 TTTTATT
35327805 T
1 T
35327806 AATAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTATT
Found at i:35327811 original size:29 final size:30
Alignment explanation
Indices: 35327751--35327812 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
35327741 TTATGCTCCC
*
35327751 ATTTTATAATTATTTTACTTTTAATTTTTA
1 ATTTTATAATTATTTTACTTTTAATTTATA
* *
35327781 ATTTT-TAATT-TTTTATTTTTTATTTAATA
1 ATTTTATAATTATTTTACTTTTAATTT-ATA
35327810 ATT
1 ATT
35327813 AAACTTGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 13 0.46
29 10 0.36
30 5 0.18
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (30 bp):
ATTTTATAATTATTTTACTTTTAATTTATA
Found at i:35329122 original size:27 final size:27
Alignment explanation
Indices: 35329083--35329160 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
35329073 TAGTATTGGC
*
35329083 GCCTATCTCAGAGGCGCCAATGGTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
* * *
35329110 GCCTATCTGAGAGGTGCCATTAGTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
*
35329137 GCC-ATGTTGAGAGGCGCCAATGGT
1 GCCTAT-CTGAGAGGCGCCAATGGT
35329161 ATTATTTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.19, C:0.22, G:0.35, T:0.24
Consensus pattern (27 bp):
GCCTATCTGAGAGGCGCCAATGGTGGT
Found at i:35329245 original size:15 final size:16
Alignment explanation
Indices: 35329225--35329261 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
35329215 ACAAAATCAA
35329225 ATAAAA-TTACATAAT
1 ATAAAAGTTACATAAT
*
35329240 ATAAAAGTTACATTAT
1 ATAAAAGTTACATAAT
35329256 ATAAAA
1 ATAAAA
35329262 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAGTTACATAAT
Found at i:35329509 original size:19 final size:19
Alignment explanation
Indices: 35329485--35330019 Score: 210
Period size: 19 Copynumber: 27.2 Consensus size: 19
35329475 ATTATAAAAT
35329485 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
35329504 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
35329526 ATATTACAATATTCATACAA
1 A-ATTACAATATTCATACAA
*
35329546 AATTACAA-AAT--TACAA
1 AATTACAATATTCATACAA
* **
35329562 TATT-C-ATATAAAATTACAA
1 AATTACAATAT-TCA-TACAA
35329581 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
35329603 ATATTACAATATTCATACAA
1 A-ATTACAATATTCATACAA
*
35329623 AATTACAA-AAT--TACAA
1 AATTACAATATTCATACAA
* **
35329639 TATT-C-ATATAAAATTACAA
1 AATTACAATAT-TCA-TACAA
35329658 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC--A-A
35329680 ATATTACAATATTCATACAAACA
1 A-ATTACAATATTCATAC--A-A
35329703 ATATTACAATATTCATACAA
1 A-ATTACAATATTCATACAA
*
35329723 AATTACAA-AAT--TACAA
1 AATTACAATATTCATACAA
* **
35329739 TATT-C-ATATAAAATTACAA
1 AATTACAATAT-TCA-TACAA
* *
35329758 TATTACAATATTCATACCA
1 AATTACAATATTCATACAA
35329777 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* * *
35329796 AA-TACTA-ATCCAAAACTATA
1 AATTACAATATTC-ATAC-A-A
*
35329816 AA-TACAAAATTAATT-ATAAAA
1 AATTAC--AA-T-ATTCATACAA
35329837 TAATTACAATATTCATACAA
1 -AATTACAATATTCATACAA
* *
35329857 AA-TACTAATCA--AAAACTATA
1 AATTAC-AAT-ATTCATAC-A-A
*
35329877 AA-TACAAAATTAATT-ATAAAA
1 AATTAC--AA-T-ATTCATACAA
*
35329898 TAATTACACTATTCATACAA
1 -AATTACAATATTCATACAA
35329918 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* *
35329937 AA-TAC--TAATCA-AAAA
1 AATTACAATATTCATACAA
*
35329952 ATATAAATACAAAATTAATT-ATAAAA
1 A-AT---TAC--AA-T-ATTCATACAA
35329978 TAATTACAATATTCATACAA
1 -AATTACAATATTCATACAA
35329998 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
35330017 AAT
1 AAT
35330020 ACTAATCAAA
Statistics
Matches: 403, Mismatches: 44, Indels: 138
0.69 0.08 0.24
Matches are distributed among these distances:
14 3 0.01
15 10 0.02
16 30 0.07
17 3 0.01
18 22 0.05
19 150 0.37
20 46 0.11
21 27 0.07
22 15 0.04
23 84 0.21
25 4 0.01
26 8 0.02
27 1 0.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:35329536 original size:8 final size:8
Alignment explanation
Indices: 35329523--35329769 Score: 113
Period size: 8 Copynumber: 32.0 Consensus size: 8
35329513 ATTCATACAA
35329523 ACAATATT
1 ACAATATT
35329531 ACAATATTCAT
1 ACAATA-T--T
*
35329542 ACAAAATT
1 ACAATATT
*
35329550 ACAAAATT
1 ACAATATT
35329558 ACAATATT
1 ACAATATT
35329566 -C-ATA-T
1 ACAATATT
35329571 A-AA-ATT
1 ACAATATT
*
35329577 ACAAAATT
1 ACAATATT
35329585 ACAATATT
1 ACAATATT
**
35329593 -C-ATACAA
1 ACAATA-TT
35329600 ACAATATT
1 ACAATATT
35329608 ACAATATTCAT
1 ACAATA-T--T
*
35329619 ACAAAATT
1 ACAATATT
*
35329627 ACAAAATT
1 ACAATATT
35329635 ACAATATT
1 ACAATATT
35329643 -C-ATA-T
1 ACAATATT
35329648 A-AA-ATT
1 ACAATATT
*
35329654 ACAAAATT
1 ACAATATT
35329662 ACAATATT
1 ACAATATT
**
35329670 -C-ATACAA
1 ACAATA-TT
35329677 ACAATATT
1 ACAATATT
35329685 ACAATATT
1 ACAATATT
**
35329693 -C-ATACAA
1 ACAATA-TT
35329700 ACAATATT
1 ACAATATT
35329708 ACAATATTCAT
1 ACAATA-T--T
*
35329719 ACAAAATT
1 ACAATATT
*
35329727 ACAAAATT
1 ACAATATT
35329735 ACAATATT
1 ACAATATT
35329743 -C-ATA-T
1 ACAATATT
35329748 A-AA-ATT
1 ACAATATT
35329754 ACAATATT
1 ACAATATT
35329762 ACAATATT
1 ACAATATT
35329770 CATACCAAAT
Statistics
Matches: 186, Mismatches: 20, Indels: 66
0.68 0.07 0.24
Matches are distributed among these distances:
5 6 0.03
6 27 0.15
7 12 0.06
8 108 0.58
9 12 0.06
10 3 0.02
11 18 0.10
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (8 bp):
ACAATATT
Found at i:35329561 original size:27 final size:27
Alignment explanation
Indices: 35329499--35329784 Score: 379
Period size: 27 Copynumber: 11.2 Consensus size: 27
35329489 ACAATATTCA
35329499 TACAAAATTACAATATTCATAC--AA-
1 TACAAAATTACAATATTCATACAAAAT
*
35329523 -ACAATATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
*
35329549 TACAAAATTACAATATTCATATAAAAT
1 TACAAAATTACAATATTCATACAAAAT
35329576 TACAAAATTACAATATTCATAC--AA-
1 TACAAAATTACAATATTCATACAAAAT
*
35329600 -ACAATATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
*
35329626 TACAAAATTACAATATTCATATAAAAT
1 TACAAAATTACAATATTCATACAAAAT
35329653 TACAAAATTACAATATTCATAC--AA-
1 TACAAAATTACAATATTCATACAAAAT
*
35329677 -ACAATATTACAATATTCATAC--AA-
1 TACAAAATTACAATATTCATACAAAAT
*
35329700 -ACAATATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
*
35329726 TACAAAATTACAATATTCATATAAAAT
1 TACAAAATTACAATATTCATACAAAAT
* *
35329753 TACAATATTACAATATTCATACCAAAT
1 TACAAAATTACAATATTCATACAAAAT
35329780 TACAA
1 TACAA
35329785 TATTCATACA
Statistics
Matches: 236, Mismatches: 14, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
23 83 0.35
25 10 0.04
27 143 0.61
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (27 bp):
TACAAAATTACAATATTCATACAAAAT
Found at i:35329585 original size:77 final size:77
Alignment explanation
Indices: 35329499--35329784 Score: 472
Period size: 77 Copynumber: 3.7 Consensus size: 77
35329489 ACAATATTCA
35329499 TACAAAATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATA
1 TACAAAATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATA
35329564 TTCATATAAAAT
66 TTCATATAAAAT
35329576 TACAAAATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATA
1 TACAAAATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATA
35329641 TTCATATAAAAT
66 TTCATATAAAAT
*
35329653 TACAAAATTACAATATTCATACAAACAATATTACAATATTCATAC--AA--ACAATATTACAATA
1 TACAAAATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATA
*
35329714 TTCATACAAAAT
66 TTCATATAAAAT
* *
35329726 TACAAAATTACAATATTCATATAAAATTACAATATTACAATATTCATACCAAATTACAA
1 TACAAAATTACAATATTC--ATACAA--ACAATATTACAATATTCATACAAAATTACAA
35329785 TATTCATACA
Statistics
Matches: 198, Mismatches: 3, Indels: 12
0.93 0.01 0.06
Matches are distributed among these distances:
73 42 0.21
75 7 0.04
77 143 0.72
79 2 0.01
81 4 0.02
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (77 bp):
TACAAAATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATA
TTCATATAAAAT
Found at i:35329701 original size:100 final size:99
Alignment explanation
Indices: 35329485--35329796 Score: 457
Period size: 100 Copynumber: 3.2 Consensus size: 99
35329475 ATTATAAAAT
*
35329485 AATTACAATATTCATAC--A-AA-ATTACAATATTCATAC--AA--ACAATATTACAATATTCAT
1 AATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATATTCAT
* *
35329542 ACAAAATTACAAAATTACAATATTCATATAAAATTACAA
66 ATAAAATTACAAAATTACAATATTC--ATACAA--AC-A
35329581 AATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATATTCAT
1 AATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATATTCAT
35329646 ATAAAATTACAAAATTACAATATTCATACAAACA
66 ATAAAATTACAAAATTACAATATTCATACAAACA
35329680 ATATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATATTCA
1 A-ATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATATTCA
*
35329745 TATAAAATTACAATATTACAATATTCATAC---CA
65 TATAAAATTACAAAATTACAATATTCATACAAACA
35329777 AATTACAATATTCATACAAA
1 AATTACAATATTCATACAAA
35329797 ATACTAATCC
Statistics
Matches: 203, Mismatches: 4, Indels: 18
0.90 0.02 0.08
Matches are distributed among these distances:
96 36 0.18
97 3 0.01
98 1 0.00
99 4 0.02
100 110 0.54
102 7 0.03
104 42 0.21
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (99 bp):
AATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTACAAAATTACAATATTCAT
ATAAAATTACAAAATTACAATATTCATACAAACA
Found at i:35329821 original size:100 final size:98
Alignment explanation
Indices: 35329523--35329827 Score: 355
Period size: 100 Copynumber: 3.0 Consensus size: 98
35329513 ATTCATACAA
* * * *
35329523 ACAATATTACAATATTCATACAAAATTACAAAATTACAATATTCATATAAAATTACAAAATTACA
1 ACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTC--AT---A-CACAATATTACA
* * **
35329588 ATATTCATACAAACAATATTACAATATTCATACAAAATT
60 ATATTCATACAAACAATATCAAAATATAAATACAAAATT
35329627 ACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACAAACAATATTACAATAT
1 ACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATAC--ACAATATTACAATAT
* * **
35329692 TCATACAAACAATATTACAATATTCATACAAAATT
64 TCATACAAACAATATCAAAATATAAATACAAAATT
*
35329727 ACAAAATTACAATATTCATATAAAATTACAATATTACAATATTCATAC-CAA-ATTACAATATTC
1 ACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACACAATATTACAATATTC
35329790 ATACAAA-ATACTAATCCAAAACTATAAATACAAAATT
66 ATACAAACA-A-T-AT-CAAAA-TATAAATACAAAATT
35329827 A
1 A
35329828 ATTATAAAAT
Statistics
Matches: 185, Mismatches: 9, Indels: 18
0.87 0.04 0.08
Matches are distributed among these distances:
95 1 0.01
96 20 0.11
97 4 0.02
98 2 0.01
99 4 0.02
100 110 0.59
102 2 0.01
104 42 0.23
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (98 bp):
ACAAAATTACAATATTCATATAAAATTACAAAATTACAATATTCATACACAATATTACAATATTC
ATACAAACAATATCAAAATATAAATACAAAATT
Done.