Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 58 of 147
Found at i:11148763 original size:24 final size:24
Alignment explanation
Indices: 11148706--11148767 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
11148696 AAATTATATA
*
11148706 TATTTTTATAT-TTTTAAAACTCT
1 TATTTTTATATATTTTAAAACTAT
** * *
11148729 TACATTT-TATATTTTGAAATTAT
1 TATTTTTATATATTTTAAAACTAT
11148752 TATTTTTATATATTTT
1 TATTTTTATATATTTT
11148768 TTACATTTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 3 0.10
23 19 0.63
24 8 0.27
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (24 bp):
TATTTTTATATATTTTAAAACTAT
Found at i:11162070 original size:10 final size:9
Alignment explanation
Indices: 11162047--11162132 Score: 64
Period size: 9 Copynumber: 9.2 Consensus size: 9
11162037 AATAGTTTCA
*
11162047 TTTTTCCTT
1 TTTTTCTTT
11162056 TTTTTCTTT
1 TTTTTCTTT
11162065 TCTTTTCTTT
1 T-TTTTCTTT
*
11162075 TTTTTCCTTC
1 TTTTT-CTTT
11162085 TTTTTCTTT
1 TTTTTCTTT
* **
11162094 TTCTTCGTAC
1 TTTTTC-TTT
* *
11162104 ATTTTCTTC
1 TTTTTCTTT
11162113 TTTTTCTTT
1 TTTTTCTTT
* *
11162122 TCTCTCTTT
1 TTTTTCTTT
11162131 TT
1 TT
11162133 CATCCCATTT
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
9 38 0.63
10 22 0.37
ACGTcount: A:0.02, C:0.21, G:0.01, T:0.76
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:11162076 original size:19 final size:19
Alignment explanation
Indices: 11162042--11162121 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
11162032 TTTTAAATAG
*
11162042 TTTCATTTTTCCTTTTTTTC
1 TTTCA-TTTTCTTTTTTTTC
11162062 TTTTC-TTTTCTTTTTTTTC
1 -TTTCATTTTCTTTTTTTTC
* * *
11162081 CTTCTTTTTCTTTTTCTTC
1 TTTCATTTTCTTTTTTTTC
* * *
11162100 GTACATTTTCTTCTTTTTC
1 TTTCATTTTCTTTTTTTTC
11162119 TTT
1 TTT
11162122 TCTCTCTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
18 3 0.06
19 41 0.85
21 4 0.08
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.75
Consensus pattern (19 bp):
TTTCATTTTCTTTTTTTTC
Found at i:11164661 original size:15 final size:17
Alignment explanation
Indices: 11164631--11164666 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
11164621 TTTTAAATAA
11164631 TTTCATTTTCCTTTTTT
1 TTTCATTTTCCTTTTTT
11164648 TTTC-TTTT-CTTTTTT
1 TTTCATTTTCCTTTTTT
11164663 TTTC
1 TTTC
11164667 CTTCTTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
16 4 0.21
17 4 0.21
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTCATTTTCCTTTTTT
Found at i:11164671 original size:14 final size:15
Alignment explanation
Indices: 11164641--11164684 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
11164631 TTTCATTTTC
*
11164641 CTTTTTTTTTCTTTT
1 CTTTTTTTTTCTCTT
11164656 CTTTTTTTTTC-CTT
1 CTTTTTTTTTCTCTT
**
11164670 CTTTTCCTTTCTCTT
1 CTTTTTTTTTCTCTT
11164685 TCTACATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTTTTTTTTCTCTT
Found at i:11164671 original size:19 final size:19
Alignment explanation
Indices: 11164649--11164708 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
11164639 TCCTTTTTTT
11164649 TTCTTTTCTTTTTTTTTCC
1 TTCTTTTCTTTTTTTTTCC
* *
11164668 TTCTTTTCCTTTCTCTTT-C
1 TTCTTTT-CTTTTTTTTTCC
*
11164687 TACATTTTCTTTTTTTTTCC
1 TTC-TTTTCTTTTTTTTTCC
11164707 TT
1 TT
11164709 GTCTTTCTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (19 bp):
TTCTTTTCTTTTTTTTTCC
Found at i:11164694 original size:29 final size:27
Alignment explanation
Indices: 11164636--11164738 Score: 68
Period size: 29 Copynumber: 3.7 Consensus size: 27
11164626 AATAATTTCA
* * *
11164636 TTTTCCTTTTTTTTTCTTT-TCTTT-TT
1 TTTTCC-TTCTTTTCCTTTCTCTTTCTC
11164662 TTTTCCTTCTTTTCCTTTCTCTTTCTAC
1 TTTTCCTTCTTTTCCTTTCTCTTTCT-C
* * *
11164690 ATTTTCTTTTTTTTTCC-TTGTCTTTCTC
1 -TTTTC-CTTCTTTTCCTTTCTCTTTCTC
11164718 TTTCTCCTTCCTGTTTCCTTT
1 TTT-TCCTT-CT-TTTCCTTT
11164739 TTTAATTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
25 10 0.17
26 11 0.18
27 6 0.10
28 4 0.07
29 19 0.32
30 10 0.17
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTTCCTTCTTTTCCTTTCTCTTTCTC
Found at i:11164741 original size:39 final size:38
Alignment explanation
Indices: 11164652--11164727 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 38
11164642 TTTTTTTTTC
*
11164652 TTTTCTTTTTTTTTCCTTCTTTTCCTTTCTCTTTCTACA
1 TTTTCTTTTTTTTTCCTTCTTTTCCTTTCTCCTTC-ACA
*
11164691 TTTTCTTTTTTTTTCCTTGTCTTTCTCTTTCTCCTTC
1 TTTTCTTTTTTTTTCCTTCT-TTTC-CTTTCTCCTTC
11164728 CTGTTTCCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 19 0.58
40 4 0.12
41 10 0.30
ACGTcount: A:0.03, C:0.26, G:0.01, T:0.70
Consensus pattern (38 bp):
TTTTCTTTTTTTTTCCTTCTTTTCCTTTCTCCTTCACA
Found at i:11169089 original size:13 final size:13
Alignment explanation
Indices: 11169071--11169095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11169061 TCGAACTACG
11169071 TTAAATTATTATA
1 TTAAATTATTATA
11169084 TTAAATTATTAT
1 TTAAATTATTAT
11169096 CTTTTGTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATTATTATA
Found at i:11170372 original size:59 final size:59
Alignment explanation
Indices: 11170308--11170421 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 59
11170298 CTTTTTTCAA
* *
11170308 TTATTTTTCAACAATCACTTTCTCACCTACTTTA-TTTTGTTGGTTTTCATGGATTAAAT
1 TTATTTTTCAACAATAACTTTCTCACCTAC-TCAGTTTTGTTGGTTTTCATGGATTAAAT
* *
11170367 TTATTTTTCAACAATAATTTTCTCACTTACTCAGTTTTGTTGGTTTTCATGGATT
1 TTATTTTTCAACAATAACTTTCTCACCTACTCAGTTTTGTTGGTTTTCATGGATT
11170422 GGATTCTGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 2 0.04
59 48 0.96
ACGTcount: A:0.23, C:0.16, G:0.10, T:0.52
Consensus pattern (59 bp):
TTATTTTTCAACAATAACTTTCTCACCTACTCAGTTTTGTTGGTTTTCATGGATTAAAT
Found at i:11172835 original size:14 final size:14
Alignment explanation
Indices: 11172816--11172852 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11172806 TAAAATTTAA
*
11172816 AATTTTTTAATATT
1 AATTTTTTAACATT
11172830 AATTTTTTAACATT
1 AATTTTTTAACATT
*
11172844 AACTTTTTA
1 AATTTTTTA
11172853 GCCTTTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTTTTAACATT
Found at i:11173030 original size:43 final size:43
Alignment explanation
Indices: 11172931--11173038 Score: 173
Period size: 43 Copynumber: 2.5 Consensus size: 43
11172921 ACATTTCAAA
11172931 CTTAATTATTTATGTTAAAATAATAATTTTTACACTTATTTTTTT
1 CTTAATTATTTATGTTAAAATAATAATTTTTACAC-T-TTTTTTT
*
11172976 CTTAATTATTTATGTTAAAATAATATATTTTTATAC-TTTTTTT
1 CTTAATTATTTATGTTAAAATAATA-ATTTTTACACTTTTTTTT
11173019 CTTAATTATTTATGTTAAAA
1 CTTAATTATTTATGTTAAAA
11173039 GATTTATAAC
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
43 27 0.44
45 25 0.41
46 9 0.15
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (43 bp):
CTTAATTATTTATGTTAAAATAATAATTTTTACACTTTTTTTT
Found at i:11175877 original size:27 final size:26
Alignment explanation
Indices: 11175841--11175917 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 26
11175831 TATAATTAAT
*
11175841 AAATAAATTTTTTATTAAATAATATA
1 AAATATATTTTTTATTAAATAATATA
** * *
11175867 AAATATTATTTTAAATTAATTAAAAT-
1 AAATA-TATTTTTTATTAAATAATATA
*
11175893 AAATATA-TTTTTATTAAAAAATATA
1 AAATATATTTTTTATTAAATAATATA
11175918 TTAATAGATA
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
24 12 0.31
25 2 0.05
26 10 0.26
27 15 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATATATTTTTTATTAAATAATATA
Found at i:11176069 original size:6 final size:6
Alignment explanation
Indices: 11176060--11176111 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
11176050 AAAATTTTAT
*
11176060 TAAATA TAAATA TGAAA-A TAAATA TAATATA TAAATA TATAA-A TAAAAA
1 TAAATA TAAATA T-AAATA TAAATA TAA-ATA TAAATA TA-AATA TAAATA
11176109 TAA
1 TAA
11176112 CAAATATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.12
6 25 0.61
7 11 0.27
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:11176082 original size:12 final size:11
Alignment explanation
Indices: 11176031--11176111 Score: 56
Period size: 12 Copynumber: 6.9 Consensus size: 11
11176021 TTAAATATTT
*
11176031 ATAAAAATAAA
1 ATAAATATAAA
*
11176042 ATAAATTTAAA
1 ATAAATATAAA
**
11176053 AT-TTTATTAAA
1 ATAAATA-TAAA
11176064 TATAAATATGAAA
1 -ATAAATAT-AAA
11176077 ATAAATATAATA
1 ATAAATATAA-A
11176089 TATAAATATATAA
1 -ATAAATATA-AA
*
11176102 ATAAAAATAA
1 ATAAATATAA
11176112 CAAATATTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
10 1 0.02
11 18 0.33
12 20 0.36
13 15 0.27
14 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (11 bp):
ATAAATATAAA
Found at i:11176096 original size:8 final size:8
Alignment explanation
Indices: 11176063--11176104 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
11176053 ATTTTATTAA
11176063 ATATAAAT
1 ATATAAAT
11176071 ATGA-AAAT
1 AT-ATAAAT
*
11176079 AAATATAAT
1 ATATA-AAT
11176088 ATATAAAT
1 ATATAAAT
11176096 ATATAAAT
1 ATATAAAT
11176104 A
1 A
11176105 AAAATAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
7 1 0.03
8 20 0.69
9 8 0.28
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (8 bp):
ATATAAAT
Found at i:11176096 original size:25 final size:25
Alignment explanation
Indices: 11176063--11176111 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11176053 ATTTTATTAA
*
11176063 ATATAAATATGA-AAATAAATATAAT
1 ATATAAATAT-ATAAATAAAAATAAT
11176088 ATATAAATATATAAATAAAAATAA
1 ATATAAATATATAAATAAAAATAA
11176112 CAAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
ATATAAATATATAAATAAAAATAAT
Found at i:11177978 original size:12 final size:13
Alignment explanation
Indices: 11177937--11177983 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 13
11177927 TGTATTTGTA
*
11177937 TTATATAAAATAT
1 TTATATAATATAT
*
11177950 TAATATCAATATAT
1 TTATAT-AATATAT
11177964 TTATATAATAT-T
1 TTATATAATATAT
*
11177976 TTACATAA
1 TTATATAA
11177984 AAATTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 8 0.28
13 10 0.34
14 11 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (13 bp):
TTATATAATATAT
Found at i:11178133 original size:13 final size:12
Alignment explanation
Indices: 11178112--11178148 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
11178102 TACTCGTATC
11178112 ATTTTATATTAT
1 ATTTTATATTAT
11178124 ATTATTATATTAT
1 ATT-TTATATTAT
*
11178137 ATTTTAAATTAT
1 ATTTTATATTAT
11178149 TAAGTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTTATATTAT
Found at i:11194546 original size:19 final size:19
Alignment explanation
Indices: 11194502--11194554 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
11194492 TTTATTGAGG
*
11194502 AAATATAAAAAATTAAATTT
1 AAAT-TAAAAAAATAAATTT
*
11194522 -AGTTAAAAAAATAAATTT
1 AAATTAAAAAAATAAATTT
*
11194540 AAATTAAGAAAATAA
1 AAATTAAAAAAATAA
11194555 TAACACGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (19 bp):
AAATTAAAAAAATAAATTT
Found at i:11200298 original size:17 final size:18
Alignment explanation
Indices: 11200254--11200298 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
11200244 TTTGTTTTTC
11200254 TTTTGTTTTTTGCAAAAT
1 TTTTGTTTTTTGCAAAAT
**
11200272 TTTTCATTTTT-CAAAAT
1 TTTTGTTTTTTGCAAAAT
11200289 TTTTGTTTTT
1 TTTTGTTTTT
11200299 GAAAAATAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTGTTTTTTGCAAAAT
Found at i:11200304 original size:17 final size:17
Alignment explanation
Indices: 11200254--11200305 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
11200244 TTTGTTTTTC
11200254 TTTTGTTTTTTGCAAAAT
1 TTTTG-TTTTTGCAAAAT
*
11200272 TTTTCATTTTT-CAAAAT
1 TTTT-GTTTTTGCAAAAT
*
11200289 TTTTGTTTTTGAAAAAT
1 TTTTGTTTTTGCAAAAT
11200306 AGAAATAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 5 0.17
17 15 0.52
18 9 0.31
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.60
Consensus pattern (17 bp):
TTTTGTTTTTGCAAAAT
Found at i:11206429 original size:18 final size:19
Alignment explanation
Indices: 11206388--11206430 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
11206378 TTTATTAAGG
11206388 AAATATAAAAAATTAAAGTT
1 AAAT-TAAAAAATTAAAGTT
*
11206408 -AATTAAAAAA-TAAATTT
1 AAATTAAAAAATTAAAGTT
11206425 AAATTA
1 AAATTA
11206431 TGAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 12 0.57
19 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATTAAAAAATTAAAGTT
Found at i:11208219 original size:19 final size:19
Alignment explanation
Indices: 11208180--11208245 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
11208170 ATAGTTTCAT
* *
11208180 TTTTTCCTTTTCTT-CTTT
1 TTTTTCTTTTTCTTCCTTC
*
11208198 TCTTTTCATTTTTTTTCCTTC
1 T-TTTTC-TTTTTCTTCCTTC
*
11208219 TTTTTCTTTTTCTTCCTAC
1 TTTTTCTTTTTCTTCCTTC
*
11208238 ATTTTCTT
1 TTTTTCTT
11208246 CCTTTTCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 23 0.59
20 11 0.28
21 4 0.10
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTCTTTTTCTTCCTTC
Found at i:11210744 original size:23 final size:24
Alignment explanation
Indices: 11210718--11210763 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
11210708 AATAATTTCA
*
11210718 TTTTCCCTT-TTTTTCTTT-TCTT
1 TTTTTCCTTCTTTTTCTTTCTCTT
11210740 TTTTTCCTTCTTTTTCTTTCTCTT
1 TTTTTCCTTCTTTTTCTTTCTCTT
11210764 CCTACATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.38
23 9 0.43
24 4 0.19
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTCCTTCTTTTTCTTTCTCTT
Found at i:11210773 original size:19 final size:18
Alignment explanation
Indices: 11210733--11210778 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
11210723 CCTTTTTTTC
* * *
11210733 TTTTCTTTTTTTCCTTCT
1 TTTTCTTTTCTTCCTACA
11210751 TTTTCTTTCTCTTCCTACA
1 TTTTCTTT-TCTTCCTACA
11210770 TTTTCTTTT
1 TTTTCTTTT
11210779 TTTTCTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCTTTTCTTCCTACA
Found at i:11210774 original size:37 final size:40
Alignment explanation
Indices: 11210733--11210806 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 40
11210723 CCTTTTTTTC
*
11210733 TTTTC-TTTTTTTC-CTTCTTTTTCTTTCT-CTTCCTACA
1 TTTTCTTTTTTTTCTCTTCTTTCTCTTTCTCCTTCCTACA
*
11210770 TTTTCTTTTTTTTCTTTTCTTTCTCTTTCTCCTTCCT
1 TTTTCTTTTTTTTCTCTTCTTTCTCTTTCTCCTTCCT
11210807 GTTTCCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 5 0.16
38 8 0.25
39 13 0.41
40 6 0.19
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (40 bp):
TTTTCTTTTTTTTCTCTTCTTTCTCTTTCTCCTTCCTACA
Found at i:11210817 original size:37 final size:37
Alignment explanation
Indices: 11210737--11210824 Score: 90
Period size: 37 Copynumber: 2.4 Consensus size: 37
11210727 TTTTTCTTTT
* * *
11210737 CTTTTTTTC-CTTCTTTTTCTTTCTCTTCCTACATTTTC
1 CTTTTTTTCTTTTCTTTCTCTTTCTCTTCCT--AGTTTC
*
11210775 TTTTTTTTCTTTTCTTTCTCTTTCTCCTTCCT-GTTTC
1 CTTTTTTTCTTTTCTTTCTCTTTCT-CTTCCTAGTTTC
*
11210812 CTTTTTTTATTTT
1 CTTTTTTTCTTTT
11210825 TTATTTTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
37 15 0.36
38 8 0.19
39 13 0.31
40 6 0.14
ACGTcount: A:0.03, C:0.25, G:0.01, T:0.70
Consensus pattern (37 bp):
CTTTTTTTCTTTTCTTTCTCTTTCTCTTCCTAGTTTC
Found at i:11215182 original size:19 final size:21
Alignment explanation
Indices: 11215145--11215183 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11215135 CCGTTTATTT
*
11215145 CATTTTTTTTCCTTATAAATG
1 CATTTTTTTTCATTATAAATG
11215166 CATTTTTTTT-ATT-TAAAT
1 CATTTTTTTTCATTATAAAT
11215184 AAGGTAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.62
Consensus pattern (21 bp):
CATTTTTTTTCATTATAAATG
Found at i:11216843 original size:59 final size:59
Alignment explanation
Indices: 11216776--11216889 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 59
11216766 ACTTTTTCAA
* * * * *
11216776 TTATTTTTCAGCAATGATTTTGTCACCTACTCGGTTTTGT-TGGTTTTCATGGATTAAAT
1 TTATTTTTCAACAATAATTTTCTCACCTACTCAGTTTT-TAAGGTTTTCATGGATTAAAT
* *
11216835 TTATTTTTCAACAATAATTTTCTCACTTACTCAGTTTTTAAGGTTTTGATGGATT
1 TTATTTTTCAACAATAATTTTCTCACCTACTCAGTTTTTAAGGTTTTCATGGATT
11216890 GGATTCTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 1 0.02
59 46 0.98
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (59 bp):
TTATTTTTCAACAATAATTTTCTCACCTACTCAGTTTTTAAGGTTTTCATGGATTAAAT
Found at i:11220552 original size:15 final size:14
Alignment explanation
Indices: 11220532--11220568 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11220522 GTTATTTTTA
*
11220532 AATTTTTTAATATT
1 AATTTTTTAACATT
11220546 AATTTTTTAACATT
1 AATTTTTTAACATT
*
11220560 AACTTTTTA
1 AATTTTTTA
11220569 GCCTTTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTTTTAACATT
Found at i:11220689 original size:38 final size:42
Alignment explanation
Indices: 11220646--11220745 Score: 145
Period size: 38 Copynumber: 2.5 Consensus size: 42
11220636 ACATTGCAAA
11220646 CTTAATTATTTATGTTAAATAATA-A-TTTTACAC-TTATTT
1 CTTAATTATTTATGTTAAATAATATATTTTTACACTTTATTT
* *
11220685 -TTAATTATTTATGTTAAAATAATATATTTTTATACTTTTTTT
1 CTTAATTATTTATGTT-AAATAATATATTTTTACACTTTATTT
11220727 CTTAATTATTTATGTTAAA
1 CTTAATTATTTATGTTAAA
11220746 AGATTTATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
38 15 0.28
39 8 0.15
40 1 0.02
41 7 0.13
42 8 0.15
43 15 0.28
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (42 bp):
CTTAATTATTTATGTTAAATAATATATTTTTACACTTTATTT
Found at i:11220740 original size:43 final size:40
Alignment explanation
Indices: 11220646--11220746 Score: 143
Period size: 43 Copynumber: 2.5 Consensus size: 40
11220636 ACATTGCAAA
11220646 CTTAATTATTTATGTT-AAATAATAATTTTACACTTATTT
1 CTTAATTATTTATGTTAAAATAATAATTTTACACTTATTT
* *
11220685 -TTAATTATTTATGTTAAAATAATATATTTTTATACTTTTTTT
1 CTTAATTATTTATGTTAAAATAATA-A-TTTTACAC-TTATTT
11220727 CTTAATTATTTATGTTAAAA
1 CTTAATTATTTATGTTAAAA
11220747 GATTTATAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
38 15 0.27
39 8 0.15
40 1 0.02
41 7 0.13
42 5 0.09
43 19 0.35
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (40 bp):
CTTAATTATTTATGTTAAAATAATAATTTTACACTTATTT
Found at i:11224246 original size:254 final size:251
Alignment explanation
Indices: 11223875--11224375 Score: 572
Period size: 254 Copynumber: 2.0 Consensus size: 251
11223865 TATTTTTTAA
* * *
11223875 TAAAAATTTTAATTTAATTAAATCTCATTAAAAAGATTTTTTTTGTAAAAACACATCTAAATTCA
1 TAAAAATTCTAATTTAATTAAAACTCATTAAAAAGATTTTTTTTGCAAAAACACATCTAAATTCA
*** * * * *
11223940 GAAGTATGGTTATGTGTGGAGAAATATTAATACTCCACAATACTCGTTAAAAAACAG-TA-TCAA
66 GAAGTACAATTATGTATGGAGAAAGATTAATACTCCACAATACCCATTAAAAAA-AGATACT-AA
* * * * **
11224003 TTAATAACATGTTATCTTTTATTATTTATAACAAATTACCTTAATTTTAAGA-TT-AAAATTTTT
129 TTAATAACATGTTATCATTTATTATTAATAAAAAATGACCTTAATTTTAA-ATTTAAAAATAATT
** * *
11224066 TTTTAAATCCCATTTATTATCATAAAACTCCTTTTTTTGCCATCC-TTTATAGAATTATTT
193 TCCTAAATCCCATTTATTATAATAAAACCCCTTTTTTT-CCATCCATTT-TAGAATTATTT
*
11224126 TAAAAATTCTAATTTAATTAAAACAT-ATTAAAAA-ATCTTTTTGGTATGCAAAAACACATCTAG
1 TAAAAATTCTAATTTAATTAAAAC-TCATTAAAAAGAT-TTTTT--T-TGCAAAAACACATCTAA
* *
11224189 ATTCAAGAA-TACAATTATGTAT-GAGGAAGGATTAATAC-CTCACAATACCCATTAAAAAATGA
61 ATTC-AGAAGTACAATTATGTATGGA-GAAAGATTAATACTC-CACAATACCCATTAAAAAAAGA
*
11224251 TACTAATTAATAACATGTTATCATTTATTATTAATAAAAAATGACTTTAATTTTAAATTTCAAAA
123 TACTAATTAATAACATGTTATCATTTATTATTAATAAAAAATGACCTTAATTTTAAATTT-AAAA
* *
11224316 ATAATTTCCTGAATCTCATTTATTATAATAAAACCCCTTTTTTTCCATCCATTTTAGAAT
187 ATAATTTCCTAAATCCCATTTATTATAATAAAACCCCTTTTTTTCCATCCATTTTAGAAT
11224376 CACTTTATTT
Statistics
Matches: 210, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
250 2 0.01
251 35 0.17
252 1 0.00
253 6 0.03
254 107 0.51
255 17 0.08
256 42 0.20
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.40
Consensus pattern (251 bp):
TAAAAATTCTAATTTAATTAAAACTCATTAAAAAGATTTTTTTTGCAAAAACACATCTAAATTCA
GAAGTACAATTATGTATGGAGAAAGATTAATACTCCACAATACCCATTAAAAAAAGATACTAATT
AATAACATGTTATCATTTATTATTAATAAAAAATGACCTTAATTTTAAATTTAAAAATAATTTCC
TAAATCCCATTTATTATAATAAAACCCCTTTTTTTCCATCCATTTTAGAATTATTT
Found at i:11225255 original size:74 final size:73
Alignment explanation
Indices: 11225141--11225291 Score: 275
Period size: 74 Copynumber: 2.1 Consensus size: 73
11225131 ACTAAAAAAA
11225141 ATATTCACATGTATGCAAATGCATTTTCATTAATTAATTTCATTTCACATTGTTTTAAAAAAATG
1 ATATTCACATGTATGCAAATGCATTTTCATTAATTAATTTCATTTCACATTG-TTTAAAAAAATG
11225206 ATATTTAAT
65 ATATTTAAT
**
11225215 ATATTCACATGTATGCAAATGCATTTTCATTAATTAATTTCATTTCAGGTTGTTTAAAAAAATGA
1 ATATTCACATGTATGCAAATGCATTTTCATTAATTAATTTCATTTCACATTGTTTAAAAAAATGA
11225280 TATTTAAT
66 TATTTAAT
11225288 ATAT
1 ATAT
11225292 GGCTGGATCA
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
73 25 0.33
74 50 0.67
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (73 bp):
ATATTCACATGTATGCAAATGCATTTTCATTAATTAATTTCATTTCACATTGTTTAAAAAAATGA
TATTTAAT
Found at i:11236182 original size:22 final size:22
Alignment explanation
Indices: 11236157--11236203 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11236147 AAAAAATACA
*
11236157 AAATATATAT-TTTTATTTTATT
1 AAATATATATATGTT-TTTTATT
*
11236179 AAATTTATATATGTTTTTTATT
1 AAATATATATATGTTTTTTATT
11236201 AAA
1 AAA
11236204 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
AAATATATATATGTTTTTTATT
Found at i:11239124 original size:92 final size:92
Alignment explanation
Indices: 11239018--11239203 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 92
11239008 AAATTGCAAT
11239018 TTGGCAAATCAATCACAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAAT
1 TTGGCAAATCAATCACAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAAT
11239083 CTCTATAAATAATATCATCCCCATCAA
66 CTCTATAAATAATATCATCCCCATCAA
11239110 TTGGCAAATCAATCACAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAAT
1 TTGGCAAATCAATCACAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAAT
*
11239175 CTCTATAAATAATATCATCCCCGTCAA
66 CTCTATAAATAATATCATCCCCATCAA
11239202 TT
1 TT
11239204 ACAGCATTTA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (92 bp):
TTGGCAAATCAATCACAAAAAGATTACCTTCGGAGTACCAACAGCAATGCTGATATCAATATAAT
CTCTATAAATAATATCATCCCCATCAA
Found at i:11242961 original size:32 final size:31
Alignment explanation
Indices: 11242894--11242967 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
11242884 GACACTTTGA
* * *
11242894 GCTTTGTTTGGGTTCGAAAATCTAGATTTAG
1 GCTTCGTTTGGGCTCAAAAATCTAGATTTAG
11242925 GCTTCGTTTGGGCTCAAAAATCTA-ATGTTTAG
1 GCTTCGTTTGGGCTCAAAAATCTAGA--TTTAG
11242957 GCTTCGTTTGG
1 GCTTCGTTTGG
11242968 CTTTTATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.03
31 21 0.55
32 16 0.42
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.41
Consensus pattern (31 bp):
GCTTCGTTTGGGCTCAAAAATCTAGATTTAG
Found at i:11252878 original size:21 final size:20
Alignment explanation
Indices: 11252849--11252899 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
11252839 TTCTCATCAT
*
11252849 ATTTAATTTAATTTTGTATTAA
1 ATTT-ATTTAATTATGTATT-A
* *
11252871 ATTTATTTAATTATGTGTTG
1 ATTTATTTAATTATGTATTA
11252891 ATTTATTTA
1 ATTTATTTA
11252900 TTTGATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.35
21 13 0.50
22 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (20 bp):
ATTTATTTAATTATGTATTA
Found at i:11254318 original size:14 final size:14
Alignment explanation
Indices: 11254299--11254325 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11254289 TGCGTCTTGA
11254299 TATTTTTTGAACAG
1 TATTTTTTGAACAG
11254313 TATTTTTTGAACA
1 TATTTTTTGAACA
11254326 CTTTACTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (14 bp):
TATTTTTTGAACAG
Found at i:11258102 original size:18 final size:19
Alignment explanation
Indices: 11258061--11258103 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
11258051 TTTATTAAGG
11258061 AAATATAAAAAATTAAAGTT
1 AAAT-TAAAAAATTAAAGTT
*
11258081 -AATTAAAAAA-TAAATTT
1 AAATTAAAAAATTAAAGTT
11258098 AAATTA
1 AAATTA
11258104 TGAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 12 0.57
19 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATTAAAAAATTAAAGTT
Found at i:11258204 original size:16 final size:16
Alignment explanation
Indices: 11258183--11258213 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11258173 ATGTACAAAT
*
11258183 TATATGTATGTATGCA
1 TATATGTATGCATGCA
11258199 TATATGTATGCATGC
1 TATATGTATGCATGC
11258214 CAGCAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (16 bp):
TATATGTATGCATGCA
Found at i:11260325 original size:2 final size:2
Alignment explanation
Indices: 11260318--11260346 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11260308 TTTAAAGAAT
11260318 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11260347 CATGGAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11261894 original size:32 final size:32
Alignment explanation
Indices: 11261819--11261897 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 32
11261809 AAAATGACAC
* * *
11261819 TTTGA-GCTTTGTTTGGGTTCGAAAATCTAGA
1 TTTGAGGCTTCGTTTGGGCTCAAAAATCTAGA
11261850 TTT-AGGCTTCGTTTGGGCTCAAAAATCTA-A
1 TTTGAGGCTTCGTTTGGGCTCAAAAATCTAGA
11261880 TGTTGAGGCTTCGTTTGG
1 T-TTGAGGCTTCGTTTGG
11261898 CTTTTACTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 3 0.07
31 26 0.62
32 13 0.31
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.41
Consensus pattern (32 bp):
TTTGAGGCTTCGTTTGGGCTCAAAAATCTAGA
Found at i:11266796 original size:159 final size:156
Alignment explanation
Indices: 11266195--11266795 Score: 1076
Period size: 156 Copynumber: 3.8 Consensus size: 156
11266185 GTTAGTTGTT
*
11266195 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
11266260 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
11266325 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
11266351 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
11266416 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
*
11266481 CAAGATCAACCAATTAATTAATTATT
131 CAAGATCAACCAATTAATTAATTATC
11266507 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
11266572 AGTATGCAAGAAAAACTACTGTTTTACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAG---AAA
* * *
11266637 AATCAAAATCAGCCAAGTAATTAATTATC
128 AATCAAGATCAACCAATTAATTAATTATC
*
11266666 GGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* *
11266731 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
11266796 AGAAAAAAAT
Statistics
Matches: 431, Mismatches: 10, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
156 276 0.64
157 5 0.01
159 113 0.26
160 37 0.09
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (156 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
CAAGATCAACCAATTAATTAATTATC
Found at i:11266905 original size:5 final size:5
Alignment explanation
Indices: 11266882--11266939 Score: 91
Period size: 5 Copynumber: 11.6 Consensus size: 5
11266872 GCTCGGATCG
*
11266882 CGGCT CGGCT TGG-T GCGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT
1 CGGCT CGGCT CGGCT -CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT
11266932 CGGCT CGG
1 CGGCT CGG
11266940 AAGGGCTGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
4 1 0.02
5 47 0.96
6 1 0.02
ACGTcount: A:0.00, C:0.36, G:0.43, T:0.21
Consensus pattern (5 bp):
CGGCT
Found at i:11267183 original size:19 final size:19
Alignment explanation
Indices: 11267159--11267203 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
11267149 GAACGCCGGT
*
11267159 GCCGGATTCTGGAAAATTC
1 GCCGGAATCTGGAAAATTC
* *
11267178 GCCGGAATCTGGGAATTTC
1 GCCGGAATCTGGAAAATTC
11267197 GCCGGAA
1 GCCGGAA
11267204 ATTGGCCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (19 bp):
GCCGGAATCTGGAAAATTC
Found at i:11267314 original size:31 final size:31
Alignment explanation
Indices: 11267254--11267327 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
11267244 AAACTGGGTC
*
11267254 TGTCGCCGGAAACTTCAAAGTTTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAG-TTCGCCGGAAT
11267286 TGTCGCCGGAAAATTCAAAAG-TCGCCGGAAT
1 TGTCGCCGGAAAATTC-AAAGTTCGCCGGAAT
*
11267317 TTTCGCCGGAA
1 TGTCGCCGGAA
11267328 TCTGGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
31 20 0.51
32 15 0.38
33 4 0.10
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAGTTCGCCGGAAT
Found at i:11267660 original size:12 final size:12
Alignment explanation
Indices: 11267643--11267676 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11267633 CTAGCCCTCC
11267643 AAAATAAAAATT
1 AAAATAAAAATT
11267655 AAAAT-AAAATT
1 AAAATAAAAATT
*
11267666 AAAAAAAAAAT
1 AAAATAAAAAT
11267677 CTAGATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:11267929 original size:13 final size:13
Alignment explanation
Indices: 11267901--11267937 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
11267891 CAAGAGAGAA
11267901 AAAAAAT-AAAAT
1 AAAAAATAAAAAT
11267913 --AAAATAAAAAT
1 AAAAAATAAAAAT
11267924 AAAAAATAAAAAT
1 AAAAAATAAAAAT
11267937 A
1 A
11267938 CGGGTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.23
11 5 0.23
13 12 0.55
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:11268028 original size:20 final size:20
Alignment explanation
Indices: 11267974--11268031 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
11267964 CCATTTGGGG
* *
11267974 CAGGCCCAAATGATCTGGGT
1 CAGGCCCAATTGATCCGGGT
11267994 CAGGCCC-ATTGATCCGGGT
1 CAGGCCCAATTGATCCGGGT
11268013 CAGGCCCAATTGATCCGGG
1 CAGGCCCAATTGATCCGGG
11268032 CCCGGACCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (20 bp):
CAGGCCCAATTGATCCGGGT
Found at i:11268151 original size:1 final size:1
Alignment explanation
Indices: 11268147--11268234 Score: 77
Period size: 1 Copynumber: 88.0 Consensus size: 1
11268137 TCATTTTTGA
* * * ** ** ** *
11268147 TTTTTTTTTATTTTTGTTTTTATTTTTTTTGATTTTTTTGATTTTTTGATTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
11268212 TTTTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
11268235 GGCCAAAGCT
Statistics
Matches: 68, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.06, C:0.00, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:11268159 original size:17 final size:16
Alignment explanation
Indices: 11268134--11268232 Score: 98
Period size: 15 Copynumber: 6.3 Consensus size: 16
11268124 CGACTCGACA
*
11268134 TTTTCATTTTTGATTTT
1 TTTTTATTTTTG-TTTT
11268151 TTTTTATTTTTGTTTT
1 TTTTTATTTTTGTTTT
* *
11268167 TATTT-TTTTTGATTT
1 TTTTTATTTTTGTTTT
* *
11268182 TTTTGATTTTT-TGATT
1 TTTTTATTTTTGT-TTT
*
11268198 TTTTTGTTTTT-TTTT
1 TTTTTATTTTTGTTTT
11268213 TTTTT-TTTTTGTTTT
1 TTTTTATTTTTGTTTT
11268228 TTTTT
1 TTTTT
11268233 TTGGCCAAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
14 5 0.07
15 28 0.41
16 25 0.36
17 11 0.16
ACGTcount: A:0.07, C:0.01, G:0.07, T:0.85
Consensus pattern (16 bp):
TTTTTATTTTTGTTTT
Found at i:11268202 original size:41 final size:41
Alignment explanation
Indices: 11268140--11268217 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
11268130 GACATTTTCA
*
11268140 TTTTTGATTTTTTTTTATTTTTGTTTTTATTTTTTTTGATT
1 TTTTTGATTTTTTATTATTTTTGTTTTTATTTTTTTTGATT
*
11268181 TTTTTGATTTTTTGATT-TTTTTGTTTTTTTTTTTTTT
1 TTTTTGATTTTTT-ATTATTTTTGTTTTTATTTTTTTT
11268218 TTTTTGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (41 bp):
TTTTTGATTTTTTATTATTTTTGTTTTTATTTTTTTTGATT
Found at i:11268416 original size:42 final size:42
Alignment explanation
Indices: 11268242--11268927 Score: 868
Period size: 42 Copynumber: 17.0 Consensus size: 42
11268232 TTTGGCCAAA
* * * *
11268242 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
11268283 GCTCCTCTAAACAGAGGCA--ACGGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTGGAAAAGTAAATT
*
11268323 GCTCCTCTCAACAGAGGCA--ACGGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTGGAAAAGTAAATT
* *
11268363 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
11268405 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
11268446 GCTCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
11268487 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATT
** *
11268527 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
11268569 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATT
*
11268609 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
11268651 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* *
11268692 GCTCCTCTAAACAAAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
11268734 GCTCCTCTAAACA-AGGCACCACGGAACTTT-GAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGGAAAAGTAAATT
*
11268776 GCTCCTCTAAACAGAGGCA--ACGACTTT-G-AAAG-CAA-T
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
*
11268812 GCTCCTCT--A-A-AGGCA--ACGGAAC-TT-G-AAAGCAAATT
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGGAAAAGTAAATT
*
11268847 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
11268889 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAAT
11268928 ACTCCTAGAC
Statistics
Matches: 594, Mismatches: 20, Indels: 63
0.88 0.03 0.09
Matches are distributed among these distances:
32 7 0.01
33 9 0.02
34 5 0.01
35 9 0.02
36 9 0.02
37 3 0.01
38 4 0.01
39 18 0.03
40 170 0.29
41 148 0.25
42 202 0.34
43 10 0.02
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
Found at i:11268479 original size:82 final size:81
Alignment explanation
Indices: 11268242--11268927 Score: 856
Period size: 82 Copynumber: 8.5 Consensus size: 81
11268232 TTTGGCCAAA
* * *
11268242 GCTCCTCTAAACAGAGACTCAACG-ACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
1 GCTCCTCTAAACAGAG--GCAACGAACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
* *
11268304 GGACTTTGGAAAGTAAATT
64 -GACTTTGAAAAATAAATT
* * * *
11268323 GCTCCTCTCAACAGAGGCAACGGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
11268388 CTTTGGAAAAATAAATT
66 CTTT-GAAAAATAAATT
* *
11268405 GCTCCTCTCAACAGAGGCACCACG-ACTTTGGAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCA--ACGAACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
*
11268469 GACTTTGAAAAGTAAATT
64 GACTTTGAAAAATAAATT
11268487 GCTCCTCTAAACAGAGGCAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCACG
*
11268551 ACTTTAAAAAAATAAATT
65 ACTTT-GAAAAATAAATT
11268569 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCACG
11268633 ACTTTGGAAAAATAAATT
65 ACTTT-GAAAAATAAATT
*
11268651 GCTCCTCTAAACAGAGGCACCACG-ACTTT-GAAAAGTAAATTGCTCCTCTAAACAAAGGCACCA
1 GCTCCTCTAAACAGAGGCA--ACGAACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACCA
*
11268714 CGACTTTTGAAAAGTAAATT
63 CGAC-TTTGAAAAATAAATT
*
11268734 GCTCCTCTAAACA-AGGCACCACGGAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCA--A
1 GCTCCTCTAAACAGAGGCA--AC-GAACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCA
**
11268796 CGACTTTG--AAAGCAA-T
63 CGACTTTGAAAAATAAATT
**
11268812 GCTCCTCT--A-A-AGGCAACGGAAC-TT-GAAAGCAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCAAC-GAACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
*
11268871 ACTTTTGAAAAGTAAATT
65 AC-TTTGAAAAATAAATT
11268889 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAA-TAAAT
11268928 ACTCCTAGAC
Statistics
Matches: 547, Mismatches: 29, Indels: 57
0.86 0.05 0.09
Matches are distributed among these distances:
71 27 0.05
72 2 0.00
73 12 0.02
74 4 0.01
75 6 0.01
76 5 0.01
77 9 0.02
78 9 0.02
79 10 0.02
80 49 0.09
81 77 0.14
82 184 0.34
83 109 0.20
84 40 0.07
85 4 0.01
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGAAAAATAAATT
Found at i:11270564 original size:1 final size:1
Alignment explanation
Indices: 11270558--11270584 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
11270548 CCTTTTGTGG
11270558 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
11270585 CAAAAATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11274377 original size:160 final size:156
Alignment explanation
Indices: 11273833--11274434 Score: 1087
Period size: 156 Copynumber: 3.8 Consensus size: 156
11273823 GTTAGTTGTT
*
11273833 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
11273898 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
11273963 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
11273989 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
11274054 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
11274119 CAAGATCAACCAATTAATTAATTATC
131 CAAGATCAACCAATTAATTAATTATC
11274145 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
11274210 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAG----AA
* * *
11274275 AAATCAAAATCAGCCAAGTAATTAATTATC
127 AAATCAAGATCAACCAATTAATTAATTATC
*
11274305 GGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* *
11274370 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
11274435 AGAAAAAAAT
Statistics
Matches: 433, Mismatches: 8, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
156 278 0.64
157 5 0.01
160 114 0.26
161 36 0.08
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (156 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAT
CAAGATCAACCAATTAATTAATTATC
Found at i:11274481 original size:16 final size:15
Alignment explanation
Indices: 11274462--11274503 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 15
11274452 AAAATCAAAG
11274462 TCAAATAAAAAAAAAT
1 TCAAA-AAAAAAAAAT
11274478 TCAAAAAAAAAAAA-
1 TCAAAAAAAAAAAAT
11274492 --AAAAAAAAAAAA
1 TCAAAAAAAAAAAA
11274504 AACCTGGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.46
15 9 0.35
16 5 0.19
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.10
Consensus pattern (15 bp):
TCAAAAAAAAAAAAT
Found at i:11274484 original size:1 final size:1
Alignment explanation
Indices: 11274480--11274505 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
11274470 AAAAAAATTC
11274480 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
11274506 CCTGGAGCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11274544 original size:15 final size:16
Alignment explanation
Indices: 11274513--11274567 Score: 69
Period size: 15 Copynumber: 3.5 Consensus size: 16
11274503 AAACCTGGAG
*
11274513 CGGCTCGGATCGCGGCT
1 CGGCTCGGCT-GCGGCT
*
11274530 CGGCTTGG-TGCGGCT
1 CGGCTCGGCTGCGGCT
11274545 CGGCTCGGCT-CGGCT
1 CGGCTCGGCTGCGGCT
11274560 CGGCTCGG
1 CGGCTCGG
11274568 AAGGGCTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 26 0.74
16 2 0.06
17 7 0.20
ACGTcount: A:0.02, C:0.35, G:0.44, T:0.20
Consensus pattern (16 bp):
CGGCTCGGCTGCGGCT
Found at i:11274548 original size:5 final size:5
Alignment explanation
Indices: 11274525--11274567 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
11274515 GCTCGGATCG
*
11274525 CGGCT CGGCT TGG-T GCGGCT CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT -CGGCT CGGCT CGGCT CGGCT CGGCT CGG
11274568 AAGGGCTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.00, C:0.35, G:0.44, T:0.21
Consensus pattern (5 bp):
CGGCT
Found at i:11274811 original size:19 final size:19
Alignment explanation
Indices: 11274787--11274831 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
11274777 GAACGCCGGT
*
11274787 GCCGGATTCTGGAAAATTC
1 GCCGGAATCTGGAAAATTC
* *
11274806 GCCGGAATCTGGGAATTTC
1 GCCGGAATCTGGAAAATTC
11274825 GCCGGAA
1 GCCGGAA
11274832 ATTGGCCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (19 bp):
GCCGGAATCTGGAAAATTC
Found at i:11274930 original size:31 final size:31
Alignment explanation
Indices: 11274892--11274964 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
11274882 AAACTGGGTC
*
11274892 TGTCGCCGGAAACTTC-AAAGTTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAG-TCGCCGGAAT
11274923 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
*
11274954 TTTCGCCGGAA
1 TGTCGCCGGAA
11274965 TCTGGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 35 0.90
32 4 0.10
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
Found at i:11275297 original size:12 final size:12
Alignment explanation
Indices: 11275280--11275313 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11275270 CTAGCCCTCC
11275280 AAAATAAAAATT
1 AAAATAAAAATT
11275292 AAAAT-AAAATT
1 AAAATAAAAATT
*
11275303 AAAAAAAAAAT
1 AAAATAAAAAT
11275314 CTAGATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:11275663 original size:20 final size:20
Alignment explanation
Indices: 11275609--11275666 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
11275599 CCATTTGGGG
* *
11275609 CAGGCCCAAATGATCTGGGT
1 CAGGCCCAATTGATCCGGGT
11275629 CAGGCCC-ATTGATCCGGGT
1 CAGGCCCAATTGATCCGGGT
11275648 CAGGCCCAATTGATCCGGG
1 CAGGCCCAATTGATCCGGG
11275667 CCCGGACCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (20 bp):
CAGGCCCAATTGATCCGGGT
Found at i:11281895 original size:12 final size:12
Alignment explanation
Indices: 11281880--11281914 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
11281870 TCTATTAATA
11281880 AATTATTTAAAT
1 AATTATTTAAAT
*
11281892 AATT-TTTTAAT
1 AATTATTTAAAT
11281903 AATTATTTAAAT
1 AATTATTTAAAT
11281915 TCAAATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AATTATTTAAAT
Found at i:11281911 original size:11 final size:11
Alignment explanation
Indices: 11281874--11281912 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
11281864 AAATACTCTA
11281874 TTAATAAATTAT
1 TTAAT-AATTAT
*
11281886 TTAAATAATTTT
1 TT-AATAATTAT
11281898 TTAATAATTAT
1 TTAATAATTAT
11281909 TTAA
1 TTAA
11281913 ATTCAAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 12 0.50
12 9 0.38
13 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTAATAATTAT
Found at i:11283482 original size:18 final size:19
Alignment explanation
Indices: 11283441--11283483 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
11283431 TTTATTAAGG
11283441 AAATATAAAAAATTAAAGTT
1 AAAT-TAAAAAATTAAAGTT
*
11283461 -AATTAAAAAA-TAAATTT
1 AAATTAAAAAATTAAAGTT
11283478 AAATTA
1 AAATTA
11283484 TGAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 12 0.57
19 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAATTAAAAAATTAAAGTT
Found at i:11285282 original size:21 final size:21
Alignment explanation
Indices: 11285245--11285285 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11285235 TCATTTTTCC
*
11285245 TTTTTTTCTTTTCTTTTCTTT
1 TTTTTTTCTTCTCTTTTCTTT
11285266 TTTTTTTCCTTCT-TTTTCTT
1 TTTTTTT-CTTCTCTTTTCTT
11285286 CCTACATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTTCTTCTCTTTTCTTT
Found at i:11285302 original size:37 final size:34
Alignment explanation
Indices: 11285260--11285353 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 34
11285250 TTCTTTTCTT
*
11285260 TTCTTTTTTTTTTCCTTCTTTTTCTTCCTACATTTGC
1 TTCTTTTTTTTTTCCTTCTTTTTCATCC--CATTT-C
* *
11285297 TTCTTTTTCTTTT-CTCTCTTTTTCATCCCGTTTC
1 TTCTTTTTTTTTTCCT-TCTTTTTCATCCCATTTC
* *
11285331 TT-TTTTTTTTTTCTTTCATTTTC
1 TTCTTTTTTTTTTCCTTCTTTTTC
11285354 CCCTTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
33 16 0.33
34 4 0.08
35 4 0.08
36 2 0.04
37 23 0.47
ACGTcount: A:0.04, C:0.23, G:0.02, T:0.70
Consensus pattern (34 bp):
TTCTTTTTTTTTTCCTTCTTTTTCATCCCATTTC
Found at i:11286813 original size:191 final size:191
Alignment explanation
Indices: 11286482--11286840 Score: 565
Period size: 191 Copynumber: 1.9 Consensus size: 191
11286472 AGGTATACAG
* * *
11286482 TGTTAGCTTTCTCAACTTGCAAACCATGTAATAAGTATAAATTTAGTTTAGTTACTGATATAATT
1 TGTTAGCTTTCTCAACTTGCAAACCATGTAATAAATATAAATTTAGATTAGTTACTAATATAATT
* * * *
11286547 TAATTAAACTGTATTTCTTTTAAACTTCAACAGAGGTTAATTATATGATCAATATATAAAGTTTA
66 TAATTAAACTGTATCTCTTCTAAACTTCAACAGAAGTTAATTATATGAGCAATATATAAAGTTTA
* * *
11286612 GTAATTTCTCATTATTCATTAAAGGAGAAATGGAGAGAGAAAATTATATATATATATATAA
131 GCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAGAAAATTATATATATATATATAA
* ** *
11286673 TGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATACATTTAGATTAGTTACTAATATAATT
1 TGTTAGCTTTCTCAACTTGCAAACCATGTAATAAATATAAATTTAGATTAGTTACTAATATAATT
* * *
11286738 TAATTAAACTTTATCTCTTCTAATCTTCAATAGAAGTTAATTATATGAGCAATATATAAAGTTTA
66 TAATTAAACTGTATCTCTTCTAAACTTCAACAGAAGTTAATTATATGAGCAATATATAAAGTTTA
11286803 GCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGA
131 GCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGA
11286841 AAACAGATAC
Statistics
Matches: 151, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
191 151 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (191 bp):
TGTTAGCTTTCTCAACTTGCAAACCATGTAATAAATATAAATTTAGATTAGTTACTAATATAATT
TAATTAAACTGTATCTCTTCTAAACTTCAACAGAAGTTAATTATATGAGCAATATATAAAGTTTA
GCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAGAAAATTATATATATATATATAA
Found at i:11288199 original size:620 final size:610
Alignment explanation
Indices: 11286647--11288793 Score: 3801
Period size: 620 Copynumber: 3.5 Consensus size: 610
11286637 AGAAATGGAG
**
11286647 AGAGAAAATTATATATATATATATAATGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
1 AGAGAAAAAAATATATATATATATAATGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
11286712 CATTTAGATTAGTTACTAATATAATTTAATTAAACTTTATCTCTTCTAATCTTCAATAGAAGTTA
66 CATTTAGATTAGTTACTAATATAATTTAATTAAACTTTATCTCTTCTAATCTTCAATAGAAGTTA
11286777 ATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAA
131 ATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAA
11286842 AACAGATACCTCAAGCTCTCCCACTTCTTGGGGAGGAAAATCAAAGACTTGTTCTAATCTATCGC
196 AACAGATACCTCAAGCTCTCCCACTTCTT-GGGAGGAAAATCAAAGACTTGTTCTAATCTATCGC
*
11286907 ACCAAGATATTTCAAGTTTTTGTAGATGCACCAAACTTTGAGCAAGGGGAGTCGAAAAGAGATAT
260 ACCAAGATATTTCAAGTTCTTGTAGATGCACCAAACTTTGAGCAAGGGGAGTCGAAAAGAGATAT
11286972 GCCAGTTG-ATTACACCACCGTATATTCAAAGTCTTAAGACTTTGGAGGTTAACAAGATGGATGG
325 GCCAGTTGCA-TACACCACCGTATATTCAAAGTCTTAAGACTTTGGAGGTTAACAAGATGGATGG
11287036 GCCCTTTCCATATCCACTTCAATTCTGATAATGACTCTAGCTTCAAAGAAGTTAGATTAGAGAGT
389 GCCCTTTCCATATCCACTTCAATTCTGATAATGACTCTAGCTTCAAAGAAGTTAGATTAGAGAGT
11287101 AGCTGTACCTGACATGAATTCATTGATTGAAAACGCAAATAAATATGGATAAAACGTTACATACA
454 AGCTGTACCTGACATGAATTCATTGATTGAAAACGCAAATAAATATGGATAAAACGTTACATACA
11287166 AAGGCAATAATAGTAGTTATTGAATAATATATAATTTAATAAAGAATAAAACAAAAGAGAAAAAA
519 AAGGCAATAATAGTAGTTATTGAATAATATATAATTTAA-AAAGAATAAAA-AAAAGAG-AAAAA
11287231 ATACAATGATTTTATAAAGTGTACTAATAA
581 ATACAATGATTTTATAAAGTGTACTAATAA
11287261 AGAGAAAAAAA-ATATATATATATAATGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
1 AGAGAAAAAAATATATATATATATAATGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
*
11287325 CATTTAGATTAATTACTAATATAATTTAATTAAACTTTATCTCTTCTAATCTTCAATAGAAGTTA
66 CATTTAGATTAGTTACTAATATAATTTAATTAAACTTTATCTCTTCTAATCTTCAATAGAAGTTA
11287390 ATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAA
131 ATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAA
*
11287455 AACAGATACCTCAAGCTCTCCCACTTCTT-GG-GGAAAATCAAAGACTTGTTCTAATCTATTGCA
196 AACAGATACCTCAAGCTCTCCCACTTCTTGGGAGGAAAATCAAAGACTTGTTCTAATCTATCGCA
11287518 CCAAGATATTTCAAGTTCTTGTAGATGCACCAAACTTTGAGCAAGGGGAGTCGAAAAGAGATATG
261 CCAAGATATTTCAAGTTCTTGTAGATGCACCAAACTTTGAGCAAGGGGAGTCGAAAAGAGATATG
11287583 CCAGTTGCATACACCACCGTATATTCAAAGTCTTAAGACTTTGGAGGTTAACAAGATGGATGGGC
326 CCAGTTGCATACACCACCGTATATTCAAAGTCTTAAGACTTTGGAGGTTAACAAGATGGATGGGC
11287648 CCTTTCCATATCCACTTCAATTCTGATAATGACTCTAGCTTCAAAGAAGTTAGATTAGAGAGTAG
391 CCTTTCCATATCCACTTCAATTCTGATAATGACTCTAGCTTCAAAGAAGTTAGATTAGAGAGTAG
11287713 CTGTACCTGACATGAATTCATTGATTGAAAACGCAAATAAATATGGATAAAACGTTACATACAAA
456 CTGTACCTGACATGAATTCATTGATTGAAAACGCAAATAAATATGGATAAAACGTTACATACAAA
11287778 GGCAATAATAGTAGTTATTGAATAATATATAATTTAACAAAGAATAAAAAAAAGAGAAAAAATAC
521 GGCAATAATAGTAGTTATTGAATAATATATAATTTAA-AAAGAATAAAAAAAAGAGAAAAAATAC
11287843 AATGATTTTATAAAGTGTACTAATAA
585 AATGATTTTATAAAGTGTACTAATAA
11287869 AGAGAAAAAAAAAATATATATATATATATATATATAATGTTAGTTTTCTCAACTTGCAAGTCATG
1 AGAG-------AAA-A-A-A-ATATATATATATATAATGTTAGTTTTCTCAACTTGCAAGTCATG
11287934 TAATAAATATACATTTAGATTAGTTACTAATATAATTTAATTAAACTTTATCTCTTCTAATCTTC
55 TAATAAATATACATTTAGATTAGTTACTAATATAATTTAATTAAACTTTATCTCTTCTAATCTTC
11287999 AATAGAAGTTAATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAA
120 AATAGAAGTTAATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAA
11288064 AATGGAGAGAAAACAGATACCTCAAGCTCTCCCACTTCTT-GG-GGAAAATCAAAGACTTGTTCT
185 AATGGAGAGAAAACAGATACCTCAAGCTCTCCCACTTCTTGGGAGGAAAATCAAAGACTTGTTCT
*
11288127 AATCTATCGCACCTAGATATTTCAAGTTCTTGTAGATGCACCAAACTTTGAGCAAGGGGAGTCGA
250 AATCTATCGCACCAAGATATTTCAAGTTCTTGTAGATGCACCAAACTTTGAGCAAGGGGAGTCGA
* *
11288192 AAAGAGATATACCAGTTGC-TCACACCCCCGTATATTCAAAGTCTTAAGACTTTGGAGGTTAACA
315 AAAGAGATATGCCAGTTGCAT-ACACCACCGTATATTCAAAGTCTTAAGACTTTGGAGGTTAACA
* * * * * * *
11288256 AGATGGGTGGGCCCTTTCCATATCCACTTTAGTTCTGGTAATGACTTTAGCTCCAAAGAAGTTAA
379 AGATGGATGGGCCCTTTCCATATCCACTTCAATTCTGATAATGACTCTAGCTTCAAAGAAGTTAG
* * *
11288321 ATTAGAGAGT-GGTCGTACCTGACATGAATTCATTGATTGAAAATGCAAATAAATATGGACAAAA
444 ATTAGAGAGTAGCT-GTACCTGACATGAATTCATTGATTGAAAACGCAAATAAATATGGATAAAA
* * * * *
11288385 CATTATATACAAAGGCAATAACAGTAGTTATTGAATAATATACAATTTAAAAAGAATAAGAAAAA
508 CGTTACATACAAAGGCAATAATAGTAGTTATTGAATAATATATAATTTAAAAAGAATAAAAAAAA
*
11288450 GAGAAAAAATACAATGATTTTATAAAGTGTACTAACAA
573 GAGAAAAAATACAATGATTTTATAAAGTGTACTAATAA
11288488 AGAG-AAAAAATATATATATATATAATGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
1 AGAGAAAAAAATATATATATATATAATGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
11288552 CATTTAGATTAGTTACTAATATAATTTAATTAAACTTTATCTCTTCTAATCTTCAATAGAAGTTA
66 CATTTAGATTAGTTACTAATATAATTTAATTAAACTTTATCTCTTCTAATCTTCAATAGAAGTTA
11288617 ATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAA
131 ATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAA
11288682 AACAGATACCTCAAGCTCTCCCACTTCTTGGGGAGGAAAATCAAAGACTTGTTCTAATCTATCGC
196 AACAGATACCTCAAGCTCTCCCACTTCTT-GGGAGGAAAATCAAAGACTTGTTCTAATCTATCGC
* *
11288747 ACTC-AGATATTTCAAGATCTTGTAGATGCAACAAACTTTGAGCAAGG
260 AC-CAAGATATTTCAAGTTCTTGTAGATGCACCAAACTTTGAGCAAGG
11288794 CAAGGCGGGA
Statistics
Matches: 1485, Mismatches: 29, Indels: 42
0.95 0.02 0.03
Matches are distributed among these distances:
607 214 0.14
608 40 0.03
609 10 0.01
610 411 0.28
611 6 0.00
613 211 0.14
614 9 0.01
615 3 0.00
616 1 0.00
617 1 0.00
618 1 0.00
619 59 0.04
620 519 0.35
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (610 bp):
AGAGAAAAAAATATATATATATATAATGTTAGTTTTCTCAACTTGCAAGTCATGTAATAAATATA
CATTTAGATTAGTTACTAATATAATTTAATTAAACTTTATCTCTTCTAATCTTCAATAGAAGTTA
ATTATATGAGCAATATATAAAGTTTAGCAATTTCTCATTATCCATTAAAGGAAAAATGGAGAGAA
AACAGATACCTCAAGCTCTCCCACTTCTTGGGAGGAAAATCAAAGACTTGTTCTAATCTATCGCA
CCAAGATATTTCAAGTTCTTGTAGATGCACCAAACTTTGAGCAAGGGGAGTCGAAAAGAGATATG
CCAGTTGCATACACCACCGTATATTCAAAGTCTTAAGACTTTGGAGGTTAACAAGATGGATGGGC
CCTTTCCATATCCACTTCAATTCTGATAATGACTCTAGCTTCAAAGAAGTTAGATTAGAGAGTAG
CTGTACCTGACATGAATTCATTGATTGAAAACGCAAATAAATATGGATAAAACGTTACATACAAA
GGCAATAATAGTAGTTATTGAATAATATATAATTTAAAAAGAATAAAAAAAAGAGAAAAAATACA
ATGATTTTATAAAGTGTACTAATAA
Found at i:11288987 original size:174 final size:176
Alignment explanation
Indices: 11288694--11289034 Score: 632
Period size: 174 Copynumber: 1.9 Consensus size: 176
11288684 CAGATACCTC
11288694 AAGCTCTCCCACTTCTTGGGGAGGAAAATCAAAGACTTGTTCTAATCTATCGCACTCAGATATTT
1 AAGCTCTCCCACTTCTT-GGGAGGAAAATCAAAGACTTGTTCTAATCTATCGCACTCAGATATTT
*
11288759 CAAGATCTTGTAGATGCAACAAACTTTGAGCAAGGCAAGGCGGGAAGATGGATTTCAATTCACTG
65 CAAGATCTTGTAGATGCAACAAACTTTGAGAAAGGCAAGGCGGGAAGATGGATTTCAATTCACTG
11288824 CACTTCCGAATGGTTGCATTCTTTAGACTTTGGAGGCTTGCATTTAG
130 CACTTCCGAATGGTTGCATTCTTTAGACTTTGGAGGCTTGCATTTAG
11288871 AAGCTCTCCCACTTCTT-GG-GGAAAATCAAAGACTTGTTCTAATCTATCGCACTCAGATATTTC
1 AAGCTCTCCCACTTCTTGGGAGGAAAATCAAAGACTTGTTCTAATCTATCGCACTCAGATATTTC
* *
11288934 AAGTTTTTGTAGATGCAACAAACTTTGAGAAAGGCAAGGCGGGAAGATGGATTTCAATTCACTGC
66 AAGATCTTGTAGATGCAACAAACTTTGAGAAAGGCAAGGCGGGAAGATGGATTTCAATTCACTGC
11288999 ACTTCCGAATGGTTGCATTCTTTAGACTTTGGAGGC
131 ACTTCCGAATGGTTGCATTCTTTAGACTTTGGAGGC
11289035 CCTCAGGATG
Statistics
Matches: 161, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
174 142 0.88
175 2 0.01
177 17 0.11
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (176 bp):
AAGCTCTCCCACTTCTTGGGAGGAAAATCAAAGACTTGTTCTAATCTATCGCACTCAGATATTTC
AAGATCTTGTAGATGCAACAAACTTTGAGAAAGGCAAGGCGGGAAGATGGATTTCAATTCACTGC
ACTTCCGAATGGTTGCATTCTTTAGACTTTGGAGGCTTGCATTTAG
Found at i:11293593 original size:23 final size:24
Alignment explanation
Indices: 11293567--11293616 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
11293557 AAAAACTTTG
*
11293567 ATTTTAA-TATATATAATATTAAA
1 ATTTTAATTATATATAAAATTAAA
* *
11293590 A-TTTAATTTTGTATAAAATTAAA
1 ATTTTAATTATATATAAAATTAAA
11293613 ATTT
1 ATTT
11293617 CATAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 5 0.23
23 15 0.68
24 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTTAATTATATATAAAATTAAA
Found at i:11294042 original size:59 final size:59
Alignment explanation
Indices: 11293963--11294076 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 59
11293953 CCTTTTTCAA
* * *
11293963 TTATTTTTCAGCAATGATTTTCTCACCTACTCGGTTTTGTTGGTTTTCATGGATTAAAT
1 TTATTTTTCAACAATAATTTTCTCACCTACTCAGTTTTGTTGGTTTTCATGGATTAAAT
* *
11294022 TTATTTTTCAATAATAATTTTCTCACTTACTCAGTTTTGTTGGTTTTCATGGATT
1 TTATTTTTCAACAATAATTTTCTCACCTACTCAGTTTTGTTGGTTTTCATGGATT
11294077 GGATTCTGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (59 bp):
TTATTTTTCAACAATAATTTTCTCACCTACTCAGTTTTGTTGGTTTTCATGGATTAAAT
Found at i:11298503 original size:14 final size:15
Alignment explanation
Indices: 11298479--11298517 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
11298469 TTTTAAAATT
* *
11298479 TTAAATTTTTTAATA
1 TTAACTTTTTTAACA
11298494 TT-ACTTTTTTAACA
1 TTAACTTTTTTAACA
11298508 TTAACTTTTT
1 TTAACTTTTT
11298518 AGCCTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAACTTTTTTAACA
Found at i:11300726 original size:3 final size:3
Alignment explanation
Indices: 11300720--11300747 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11300710 TTTTTGAAGT
11300720 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11300748 AAAATTACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11301966 original size:27 final size:26
Alignment explanation
Indices: 11301936--11302009 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 26
11301926 AATAAATAAG
11301936 TTTTTTATTAAATAATATAAATTATTA
1 TTTTTTATTAAATAATATAAATTA-TA
** * *
11301963 TTTTAAATTAATTAAAATAAA-TATA
1 TTTTTTATTAAATAATATAAATTATA
*
11301988 -TTTTTATTAAA-AATATATATTA
1 TTTTTTATTAAATAATATAAATTA
11302010 ATAGATATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
23 6 0.16
24 10 0.27
25 2 0.05
26 2 0.05
27 17 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTTTTATTAAATAATATAAATTATA
Found at i:11302157 original size:6 final size:6
Alignment explanation
Indices: 11302148--11302206 Score: 57
Period size: 6 Copynumber: 9.2 Consensus size: 6
11302138 AAAATTTTAT
*
11302148 TAAATA TAAATA TGAAA-A TAAATA TAATATA TAAATATA TAAATA AAAATAA
1 TAAATA TAAATA T-AAATA TAAATA TAA-ATA T-AA-ATA TAAATA TAAAT-A
11302200 TAAATA T
1 TAAATA T
11302207 TTTATCTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
5 3 0.07
6 22 0.48
7 14 0.30
8 7 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (6 bp):
TAAATA
Found at i:11302170 original size:12 final size:11
Alignment explanation
Indices: 11302119--11302199 Score: 56
Period size: 12 Copynumber: 6.9 Consensus size: 11
11302109 TTAAATATTT
*
11302119 ATAAAAATAAA
1 ATAAATATAAA
*
11302130 ATAAATTTAAA
1 ATAAATATAAA
**
11302141 AT-TTTATTAAA
1 ATAAATA-TAAA
11302152 TATAAATATGAAA
1 -ATAAATAT-AAA
11302165 ATAAATATAATA
1 ATAAATATAA-A
11302177 TATAAATATATAA
1 -ATAAATATA-AA
*
11302190 ATAAAAATAA
1 ATAAATATAA
11302200 TAAATATTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
10 1 0.02
11 18 0.33
12 20 0.36
13 15 0.27
14 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (11 bp):
ATAAATATAAA
Found at i:11302184 original size:25 final size:25
Alignment explanation
Indices: 11302151--11302201 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
11302141 ATTTTATTAA
*
11302151 ATATAAATATGA-AAATAAATATAAT
1 ATATAAATAT-ATAAATAAAAATAAT
11302176 ATATAAATATATAAATAAAAATAAT
1 ATATAAATATATAAATAAAAATAAT
11302201 A
1 A
11302202 AATATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
ATATAAATATATAAATAAAAATAAT
Found at i:11302202 original size:13 final size:13
Alignment explanation
Indices: 11302153--11302205 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 13
11302143 TTTATTAAAT
*
11302153 ATAAATATGA-AA
1 ATAAATATAATAA
*
11302165 ATAAATATAATAT
1 ATAAATATAATAA
11302178 ATAAATAT-ATAA
1 ATAAATATAATAA
*
11302190 ATAAAAATAATAA
1 ATAAATATAATAA
11302203 ATA
1 ATA
11302206 TTTTATCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
12 19 0.54
13 16 0.46
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (13 bp):
ATAAATATAATAA
Found at i:11305390 original size:23 final size:24
Alignment explanation
Indices: 11305364--11305450 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 24
11305354 TTTATATCTT
11305364 ATATATTTTTATA-TAATTAATAA
1 ATATATTTTTATATTAATTAATAA
*
11305387 ATATATTTTT-TATTAAATAATATA
1 ATATATTTTTATATTAATTAATA-A
*
11305411 A-ATTATTATTTTAGATTAATTAAAATAA
1 ATA-TA-T-TTTTATATTAATT--AATAA
11305439 ATATATTTTTAT
1 ATATATTTTTAT
11305451 TAAAAAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
22 2 0.04
23 19 0.37
24 4 0.08
25 1 0.02
26 9 0.18
27 7 0.14
28 4 0.08
29 5 0.10
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (24 bp):
ATATATTTTTATATTAATTAATAA
Found at i:11305420 original size:27 final size:25
Alignment explanation
Indices: 11305383--11305460 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 25
11305373 TATATAATTA
11305383 ATAAATATATTTTTTATTAAATAAT
1 ATAAATATATTTTTTATTAAATAAT
* *
11305408 ATAAAT-TATTATTTTAGATTAATTAAA
1 ATAAATATATT-TTTT--ATTAAATAAT
*
11305435 ATAAATATA-TTTTTATTAAAAAAT
1 ATAAATATATTTTTTATTAAATAAT
11305459 AT
1 AT
11305461 CTTAATAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
24 13 0.30
25 10 0.23
26 4 0.09
27 15 0.34
28 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
ATAAATATATTTTTTATTAAATAAT
Found at i:11305467 original size:26 final size:25
Alignment explanation
Indices: 11305438--11305495 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
11305428 AATTAAAATA
11305438 AATATATTTTTATTAAAAAATATCTT
1 AATATATTTTTATTAAAAAATATC-T
* * *
11305464 AATAGATATTTATTAAAAATTATCT
1 AATATATTTTTATTAAAAAATATCT
11305489 -ATATATT
1 AATATATT
11305496 CAAATTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
26 21 0.78
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (25 bp):
AATATATTTTTATTAAAAAATATCT
Found at i:11305602 original size:11 final size:12
Alignment explanation
Indices: 11305579--11305634 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
11305569 TTAAATATCT
*
11305579 ATAAAAATTAAA
1 ATAAATATTAAA
11305591 ATAAAT-TTAAA
1 ATAAATATTAAA
**
11305602 ATATTTATTAAA
1 ATAAATATTAAA
*
11305614 TATAAATATAAAA
1 -ATAAATATTAAA
11305627 ATAAATAT
1 ATAAATAT
11305635 AATATAAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
11 9 0.25
12 18 0.50
13 9 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAAATATTAAA
Found at i:11305619 original size:6 final size:6
Alignment explanation
Indices: 11305610--11305668 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 6
11305600 AAATATTTAT
* * *
11305610 TAAATA TAAATA TAAAAA TAAATA TAATATA AAACTATA TAAATA AAAATAA
1 TAAATA TAAATA TAAATA TAAATA TAA-ATA TAA--ATA TAAATA TAAAT-A
11305662 TAAATA T
1 TAAATA T
11305669 TTTATCTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
6 28 0.64
7 10 0.23
8 6 0.14
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:11305633 original size:40 final size:41
Alignment explanation
Indices: 11305562--11305643 Score: 107
Period size: 40 Copynumber: 2.0 Consensus size: 41
11305552 AAAACTACTC
* *
11305562 ATATTTATTAAATATCTATAAAAATTAAAATA-AATTTAAA
1 ATATTTATTAAATATATATAAAAATTAAAATATAATATAAA
11305602 ATATTTATTAAATATAAATATAAAAA-T-AAATATAATATAAA
1 ATATTTATTAAATAT--ATATAAAAATTAAAATATAATATAAA
11305643 A
1 A
11305644 CTATATAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
40 20 0.54
41 9 0.24
42 8 0.22
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (41 bp):
ATATTTATTAAATATATATAAAAATTAAAATATAATATAAA
Found at i:11305648 original size:25 final size:23
Alignment explanation
Indices: 11305612--11305663 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
11305602 ATATTTATTA
*
11305612 AATATAAATATAAAAATAAATAT
1 AATATAAATATAAAAATAAAAAT
*
11305635 AATATAAAACTATATAAATAAAAAT
1 AATAT-AAA-TATAAAAATAAAAAT
11305660 AATA
1 AATA
11305664 AATATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 3 0.12
25 17 0.68
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (23 bp):
AATATAAATATAAAAATAAAAAT
Found at i:11307733 original size:18 final size:18
Alignment explanation
Indices: 11307707--11307767 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 18
11307697 ATAATTTGTG
*
11307707 TATTTATATTATATAAAA
1 TATTAATATTATATAAAA
**
11307725 TATTAATATTTATATATTTA
1 TATTAATA-TTATATA-AAA
*
11307745 TATTATATTTTATATAAAA
1 TATTA-ATATTATATAAAA
11307764 -ATTA
1 TATTA
11307768 TGTGTTGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 11 0.32
19 8 0.24
20 13 0.38
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTAATATTATATAAAA
Found at i:11325944 original size:58 final size:57
Alignment explanation
Indices: 11325841--11326336 Score: 500
Period size: 58 Copynumber: 8.4 Consensus size: 57
11325831 TTGTGCAGGA
* * * *
11325841 AAAATTAATACTTTCAACTTTTCCCCAAAATA--TTTTTTAGAAATTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ACCTTTTTT-GAAAATTTAATTTTAAGG
* * *
11325898 AAAATTGATACTTTTAACTTTTCCTCAAAAACCGTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAATTTAATTTTAAGG
* ** **
11325955 AAAATTGATACTTTCTTTCAACTTTTCCCCAAAAATATTTTTTGGAAAACTTTAATTTCGAGG
1 AAAATTGATA----CTTTCAACTTTTCCTCAAAAACCTTTTTT-GAAAA-TTTAATTTTAAGG
* * *
11326018 AAAATTGATACTTTCAACTTTTCTTCAAAAAAAACCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC---AAAAACCTTTTTTGAAAATTTAATTTTAAGG
* * ** *
11326078 AAAATTCATACTTT-AACTTTTCCCCAAAAAATGTTTTTTTGAAAACTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAA-CCTTTTTTGAAAA-TTTAATTTTAAGG
* *
11326137 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAACCGTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC---AAAAACCTTTTTTGAAAATTTAATTTTAAGG
* *
11326197 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAACTT-ATATTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACC-TTTTTTGAAAATTTAAT-TTTAAGG
** **
11326255 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTGGAAAGCTT-ATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAACCTTTTTT-GAAAATTTAATTTT-AAGG
11326313 AAAATTGATACTTTCAACTTTTCC
1 AAAATTGATACTTTCAACTTTTCC
11326337 CCCAAAATAT
Statistics
Matches: 372, Mismatches: 46, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
56 1 0.00
57 76 0.20
58 99 0.27
59 46 0.12
60 69 0.19
61 39 0.10
62 22 0.06
63 20 0.05
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAATTTAATTTTAAGG
Found at i:11326148 original size:119 final size:119
Alignment explanation
Indices: 11325841--11326352 Score: 677
Period size: 119 Copynumber: 4.3 Consensus size: 119
11325831 TTGTGCAGGA
* * *
11325841 AAAATTAATACTTTCAACTTTTCCCC-AAAATATTTTTTAG-AAATTTTAATTTTGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTAATTTTGAGGAAAATT
*
11325904 GATACTTTTAACTTTTCCTC---AAAAACCGTTTTTGAAAATTTATTTTTAAGG
66 GATACTTTCAACTTTTCCTCAAAAAAAACCGTTTTTGAAAATTTATTTTTAAGG
* *
11325955 AAAATTGATACTTTCTTTCAACTTTTCCCCAAAAATATTTTTTGGAAAACTTTAATTTCGAGGAA
1 AAAATTGATA----CTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTAATTTTGAGGAA
* * *
11326020 AATTGATACTTTCAACTTTTCTTCAAAAAAAACCTTTTTTGAAAATTTATTTTTAAGA
62 AATTGATACTTTCAACTTTTCCTCAAAAAAAACCGTTTTTGAAAATTTATTTTTAAGG
* *
11326078 AAAATTCATACTTT-AACTTTTCCCCAAAAAATGTTTTTTTGAAAACTTTAATTTTGAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCC-AAAAATATTTTTTTGAAAACTTTAATTTTGAGGAAAAT
11326142 TGATACTTTCAACTTTTCCTCAAAAAAAACCGTTTTTGAAAATTTATTTTTAAGG
65 TGATACTTTCAACTTTTCCTCAAAAAAAACCGTTTTTGAAAATTTATTTTTAAGG
* ** * *
11326197 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAAC-TT-ATATTTAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTAAT-TTTGAGGAAAAT
* * * ** *
11326260 TGATACTTTCAACTTTTCC-CTAAAAATA--TTTTTTGGAAAGCTTATTTTCAAGG
65 TGATACTTTCAACTTTTCCTCAAAAAAAACCGTTTTT-GAAAATTTATTTTTAAGG
*
11326313 AAAATTGATACTTTCAACTTTTCCCCCAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
11326353 TGGATTTTAT
Statistics
Matches: 354, Mismatches: 31, Indels: 24
0.87 0.08 0.06
Matches are distributed among these distances:
114 9 0.03
115 5 0.01
116 51 0.14
117 9 0.03
118 58 0.16
119 135 0.38
120 49 0.14
123 38 0.11
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.42
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTAATTTTGAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAAAAACCGTTTTTGAAAATTTATTTTTAAGG
Found at i:11326377 original size:5 final size:5
Alignment explanation
Indices: 11326369--11326457 Score: 58
Period size: 5 Copynumber: 16.8 Consensus size: 5
11326359 TTATTTAAAG
* *
11326369 AAAAT AAAAT --AAT AAAAT AAAAT CAAAGT GAAAAAA AAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT --AAAAT AAAAT AAA-AT
*
11326415 AAAGT AAAAT AAAAAT AAAAAT AAAAT AAAGAT AAAAAT AAAA
1 AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA-AT -AAAAT AAAA
11326458 GAATATTAAC
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
3 3 0.04
5 39 0.57
6 20 0.29
7 6 0.09
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:11326402 original size:17 final size:16
Alignment explanation
Indices: 11326369--11326457 Score: 87
Period size: 17 Copynumber: 5.6 Consensus size: 16
11326359 TTATTTAAAG
11326369 AAAATAAAAT-AA-T-
1 AAAATAAAATAAAGTA
11326382 AAAATAAAATCAAAGTGA
1 AAAATAAAAT-AAAGT-A
*
11326400 AAAAAAAAATAAAG-A
1 AAAATAAAATAAAGTA
* *
11326415 AAAGTAAAATAAAAATA
1 AAAATAAAAT-AAAGTA
11326432 AAAATAAAATAAAGATA
1 AAAATAAAATAAAG-TA
11326449 AAAATAAAA
1 AAAATAAAA
11326458 GAATATTAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
13 10 0.16
15 11 0.18
16 7 0.11
17 25 0.40
18 9 0.15
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAATAAAATAAAGTA
Found at i:11326407 original size:22 final size:21
Alignment explanation
Indices: 11326383--11326457 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 21
11326373 TAAAATAATA
11326383 AAATAAAATCAAAGTGAAAAA-AA
1 AAATAAAA--AAAGT-AAAAATAA
11326406 AAATAAAGAAAAGT-AAAATAA
1 AAATAAA-AAAAGTAAAAATAA
* *
11326427 AAATAAAAATAAAATAAAGATAA
1 AAAT-AAAA-AAAGTAAAAATAA
11326450 AAATAAAA
1 AAATAAAA
11326458 GAATATTAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 4 0.09
21 7 0.16
22 16 0.36
23 17 0.38
24 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (21 bp):
AAATAAAAAAAGTAAAAATAA
Found at i:11326441 original size:32 final size:32
Alignment explanation
Indices: 11326369--11326446 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
11326359 TTATTTAAAG
* * *
11326369 AAAATAAAAT-AATAAAATAAAATCAAAGTGA
1 AAAATAAAATAAAGAAAATAAAATAAAAATGA
*
11326400 AAAAAAAAATAAAGAAAAGTAAAATAAAAAT-A
1 AAAATAAAATAAAGAAAA-TAAAATAAAAATGA
11326432 AAAATAAAATAAAGA
1 AAAATAAAATAAAGA
11326447 TAAAAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
31 9 0.22
32 21 0.52
33 10 0.25
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.15
Consensus pattern (32 bp):
AAAATAAAATAAAGAAAATAAAATAAAAATGA
Found at i:11326482 original size:3 final size:3
Alignment explanation
Indices: 11326474--11326512 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
11326464 TAACCAAATC
11326474 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11326513 ATATATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11327091 original size:26 final size:26
Alignment explanation
Indices: 11327039--11327091 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11327029 ACCAGAATCT
* * *
11327039 AAAAATTTTCCAAAAATTTCTAGAAA
1 AAAAAATTTCCAAAAAATTCTACAAA
* *
11327065 AAAAAATTTGCAAAAAATTCTCCAAA
1 AAAAAATTTCCAAAAAATTCTACAAA
11327091 A
1 A
11327092 TTTCCCACCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (26 bp):
AAAAAATTTCCAAAAAATTCTACAAA
Found at i:11327421 original size:18 final size:18
Alignment explanation
Indices: 11327398--11327436 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11327388 GATAATATAT
*
11327398 TAATTAATAGACAAACAA
1 TAATTAACAGACAAACAA
* *
11327416 TAATTAACAGATAAATAA
1 TAATTAACAGACAAACAA
11327434 TAA
1 TAA
11327437 CATATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (18 bp):
TAATTAACAGACAAACAA
Found at i:11327480 original size:28 final size:28
Alignment explanation
Indices: 11327448--11327514 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
11327438 ATATAAATAT
* *
11327448 ATAAATAAATATATTAAT-ATATTAACA
1 ATAAATAAATACATTAATAATAGTAACA
*
11327475 GATAAA-AACATACATTAATAATAGTAATA
1 -ATAAATAA-ATACATTAATAATAGTAACA
11327504 ATAAATAAATA
1 ATAAATAAATA
11327515 AAATGATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
28 22 0.67
29 9 0.27
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (28 bp):
ATAAATAAATACATTAATAATAGTAACA
Found at i:11327523 original size:16 final size:15
Alignment explanation
Indices: 11327504--11327539 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
11327494 AATAGTAATA
11327504 ATAAATAAATAAAATG
1 ATAAATAAATAAAA-G
*
11327520 ATAAATACATAAAAG
1 ATAAATAAATAAAAG
11327535 ATAAA
1 ATAAA
11327540 GAAAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (15 bp):
ATAAATAAATAAAAG
Found at i:11327570 original size:18 final size:18
Alignment explanation
Indices: 11327549--11327587 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11327539 AGAAAAGAAA
* *
11327549 AAATATATAATATAAAAT
1 AAATATAAAATACAAAAT
11327567 AAATATAAAATACAAAAT
1 AAATATAAAATACAAAAT
11327585 AAA
1 AAA
11327588 AAAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATATAAAATACAAAAT
Found at i:11327890 original size:42 final size:43
Alignment explanation
Indices: 11327786--11328087 Score: 325
Period size: 42 Copynumber: 7.0 Consensus size: 43
11327776 TTTGATCAAG
* * *
11327786 GCTCCTCTAAGT-AGAGGCTTAACGACTTTGAAAAACATAAACAAT
1 GCTCCTCTAA-TCAGAGGCTCAACGACTTTG-AAAA-ATAAATAAA
* *
11327831 GCTCCTCTAATTAGAGGCTCAACGACTTTG-AAAATGAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
11327873 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
* *
11327916 GCTCCTCTAATCAGAGGCTCAACGACTTTGGATTGGAAAATAACT--G
1 GCTCCTCTAATCAGAGGCTCAACGACTTT-GA----AAAATAAATAAA
* * *
11327962 GCTCCTCTAACCAGAGGCTCTACGACTTTTG-AAAATAAAT--G
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATAAA
* * *
11328003 GCTCTTCTAATCCGAGGCTCAACGACTTTTGAAAAAT-AA-AAG
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATAAA
*
11328045 GCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
11328088 TTCTCTAAGT
Statistics
Matches: 225, Mismatches: 19, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
41 48 0.21
42 66 0.29
43 45 0.20
44 3 0.01
45 27 0.12
46 25 0.11
47 3 0.01
48 8 0.04
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (43 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
Found at i:11327958 original size:87 final size:86
Alignment explanation
Indices: 11327786--11328087 Score: 318
Period size: 87 Copynumber: 3.5 Consensus size: 86
11327776 TTTGATCAAG
* * * *
11327786 GCTCCTCTAAGT-AGAGGCTTAACGACTTTGAAAAACATAAACAATGCTCCTCTAATTAGAGGCT
1 GCTCCTCTAA-TCAGAGGCTCAACGACTTTG-AAAA-ATAAATAAAGCTCCTCTAATCAGAGGCT
*
11327850 CAACGACTTTGA---AAATGAATAAA
63 CAACGACTTTGATTGGAA--AATAAA
11327873 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAA
*
11327938 CGACTTTGGATTGGAAAATAACTG
66 CGACTTT-GATTGGAAAATAA--A
* * * * *
11327962 GCTCCTCTAACCAGAGGCTCTACGACTTTTG-AAAATAAAT--GGCTCTTCTAATCCGAGGCTCA
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCA
*
11328024 ACGAC-TT--TTGAAAAATAAAA
65 ACGACTTTGATTGGAAAAT-AAA
*
11328044 GGCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATAAA
1 -GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA
11328088 TTCTCTAAGT
Statistics
Matches: 185, Mismatches: 17, Indels: 28
0.80 0.07 0.12
Matches are distributed among these distances:
82 4 0.02
83 40 0.22
84 2 0.01
85 35 0.19
86 9 0.05
87 56 0.30
89 35 0.19
90 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (86 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAA
CGACTTTGATTGGAAAATAAA
Found at i:11328113 original size:41 final size:40
Alignment explanation
Indices: 11328068--11328206 Score: 120
Period size: 40 Copynumber: 3.4 Consensus size: 40
11328058 AAGGCTCAAC
*
11328068 GACTTTGAAAAATAAATAAATTCTCTAAGTAGAAGCACCAT
1 GACTTTGAAAAATAAAT-AATTCTCTAAATAGAAGCACCAT
* ** * *
11328109 GAC-TTCAAAAATAAATGCTCCTCTAAACA-AAGGCACCAT
1 GACTTTGAAAAATAAATAATTCTCTAAATAGAA-GCACCAT
* * *** *
11328148 AACTTTGAAAAGTAAATTGCTCATCTAAATAGAGGCACCAT
1 GACTTTGAAAAATAAATAATTC-TCTAAATAGAAGCACCAT
11328189 GACTTTGGAAAAATAAAT
1 GACTTT-GAAAAATAAAT
11328207 GGCTCATTAA
Statistics
Matches: 76, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
38 2 0.03
39 17 0.22
40 24 0.32
41 22 0.29
42 11 0.14
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (40 bp):
GACTTTGAAAAATAAATAATTCTCTAAATAGAAGCACCAT
Found at i:11328113 original size:83 final size:83
Alignment explanation
Indices: 11327783--11328211 Score: 284
Period size: 83 Copynumber: 5.1 Consensus size: 83
11327773 AGATTTGATC
* * * * *
11327783 AAGGCTCCTCTAAGT-AGAGGCTTAACGACTTTGAAAAACATAAACAATGCTCCTCTAATTAGAG
1 AAGGCTCCTCTAA-TCAAAGGCTCAACGACTTTG-AAAA-ATAAATAA--CTCATCTAATCAGAG
*
11327847 GCTCAACGAC-TTTG-AAAATGAA
61 GCACAACGACTTTTGAAAAAT-AA
* * *
11327869 TAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAATCAGAGGC
1 -AAGGCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAAT-AA-CTCATCTAATCAGAGGC
* *
11327934 TCAACGACTTTGGATTGGAAAATAA
63 ACAACGAC-TT---TTGAAAAATAA
** * * * ** * * *
11327959 CTGGCTCCTCTAACCAGAGGCTCTACGACTTTTG-AAAATAAATGGCTCTTCTAATCCGAGGCTC
1 AAGGCTCCTCTAATCAAAGGCTCAACGAC-TTTGAAAAATAAATAACTCATCTAATCAGAGGCAC
11328023 AACGACTTTTGAAAAATAA
65 AACGACTTTTGAAAAATAA
* *
11328042 AAGGCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATAAATTC-TCTAAGT-AGAAGCA
1 AAGGCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAAT-AACTCATCTAA-TCAGAGGCA
* * *
11328105 CCATGAC--TTCAAAAAT-A
64 CAACGACTTTTGAAAAATAA
* * * * ** * **
11328122 AATGCTCCTCTAAACAAAGGCACCATAACTTTGAAAAGTAAATTGCTCATCTAAAT-AGAGGCAC
1 AAGGCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATAACTCATCT-AATCAGAGGCAC
* * *
11328186 CATGACTTTGGAAAAATAA
65 AACGACTTTTGAAAAATAA
*
11328205 ATGGCTC
1 AAGGCTC
11328212 ATTAACAATC
Statistics
Matches: 282, Mismatches: 43, Indels: 38
0.78 0.12 0.10
Matches are distributed among these distances:
79 2 0.01
80 54 0.19
81 10 0.04
82 11 0.04
83 63 0.22
84 3 0.01
85 30 0.11
86 9 0.03
87 53 0.19
89 33 0.12
90 9 0.03
91 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (83 bp):
AAGGCTCCTCTAATCAAAGGCTCAACGACTTTGAAAAATAAATAACTCATCTAATCAGAGGCACA
ACGACTTTTGAAAAATAA
Found at i:11328145 original size:39 final size:40
Alignment explanation
Indices: 11328030--11328213 Score: 140
Period size: 41 Copynumber: 4.5 Consensus size: 40
11328020 CTCAACGACT
* * * * * *
11328030 TTTGAAAAATAAAAGGCTCCTCTAATCAAAGGCTCAACGAC
1 TTTGAAAAAT-AAATGCTCATCTAAACAAAGGCACCATGAC
** **
11328071 TTTGAAAAATAAATAAATTC-TCTAAGTAGAA-GCACCATGAC
1 TTTGAAAAATAAAT--GCTCATCTAAACA-AAGGCACCATGAC
* * *
11328112 -TTCAAAAATAAATGCTCCTCTAAACAAAGGCACCATAAC
1 TTTGAAAAATAAATGCTCATCTAAACAAAGGCACCATGAC
* * *
11328151 TTTGAAAAGTAAATTGCTCATCTAAATAGAGGCACCATGAC
1 TTTGAAAAATAAA-TGCTCATCTAAACAAAGGCACCATGAC
11328192 TTTGGAAAAATAAATGGCTCAT
1 TTT-GAAAAATAAAT-GCTCAT
11328214 TAACAATCAT
Statistics
Matches: 113, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
38 4 0.04
39 15 0.13
40 25 0.22
41 50 0.44
42 19 0.17
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (40 bp):
TTTGAAAAATAAATGCTCATCTAAACAAAGGCACCATGAC
Found at i:11330087 original size:31 final size:31
Alignment explanation
Indices: 11330052--11330110 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
11330042 TCAATTTGAA
*
11330052 TCTTTTTTTTATTTTCTC-ATTTTTTCTTCTT
1 TCTTTCTTTT-TTTTCTCTATTTTTTCTTCTT
11330083 TCTTTCTTTTTTTTCTCTATTTTTTCTT
1 TCTTTCTTTTTTTTCTCTATTTTTTCTT
11330111 TTTTTTATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (31 bp):
TCTTTCTTTTTTTTCTCTATTTTTTCTTCTT
Found at i:11330113 original size:38 final size:38
Alignment explanation
Indices: 11330054--11330145 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 38
11330044 AATTTGAATC
* * *
11330054 TTTTTTT-TATTTTCTCATTTTTTCT-TCTTTCTTTCTT
1 TTTTTTTCTATTTTTTCATTTTTTTTATC-ATCTTTCTT
11330091 TTTTTTCTCTATTTTTTC-TTTTTTTTATCATCTTTCTT
1 TTTTTT-TCTATTTTTTCATTTTTTTTATCATCTTTCTT
11330129 TCTTTTTTCTCATTTTT
1 T-TTTTTTCT-ATTTTT
11330146 CATCCATTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
37 6 0.13
38 20 0.43
39 21 0.45
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (38 bp):
TTTTTTTCTATTTTTTCATTTTTTTTATCATCTTTCTT
Found at i:11330114 original size:22 final size:22
Alignment explanation
Indices: 11330071--11330136 Score: 84
Period size: 20 Copynumber: 3.1 Consensus size: 22
11330061 TATTTTCTCA
*
11330071 TTTTT-TCTTCTTTCTTTCTTT
1 TTTTTATCATCTTTCTTTCTTT
* *
11330092 TTTTTCTC-TATTT-TTTCTTT
1 TTTTTATCATCTTTCTTTCTTT
11330112 TTTTTATCATCTTTCTTTCTTT
1 TTTTTATCATCTTTCTTTCTTT
11330134 TTT
1 TTT
11330137 CTCATTTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 14 0.36
21 13 0.33
22 12 0.31
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTATCATCTTTCTTTCTTT
Found at i:11330145 original size:11 final size:10
Alignment explanation
Indices: 11330063--11330136 Score: 62
Period size: 11 Copynumber: 7.2 Consensus size: 10
11330053 CTTTTTTTTA
*
11330063 TTTTCTCATT
1 TTTTCTCTTT
11330073 TTTTCTTCTTT
1 TTTTC-TCTTT
*
11330084 CTTTCT-TTT
1 TTTTCTCTTT
11330093 TTTTCTCTATT
1 TTTTCTCT-TT
*
11330104 TTTTCTTTTT
1 TTTTCTCTTT
11330114 TTTATCATCTTT
1 TTT-TC-TCTTT
*
11330126 CTTTCT-TTT
1 TTTTCTCTTT
11330135 TT
1 TT
11330137 CTCATTTTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
9 12 0.23
10 13 0.25
11 21 0.40
12 6 0.12
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:11330146 original size:20 final size:20
Alignment explanation
Indices: 11330081--11330146 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
11330071 TTTTTTCTTC
11330081 TTTCTTTCTTTTTTTTCTCTATT
1 TTTCTTTC--TTTTTTCTC-ATT
* *
11330104 TTT-TCTT-TTTTTTATCATC
1 TTTCT-TTCTTTTTTCTCATT
11330123 TTTCTTTCTTTTTTCTCATT
1 TTTCTTTCTTTTTTCTCATT
11330143 TTTC
1 TTTC
11330147 ATCCATTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
19 7 0.19
20 23 0.64
22 1 0.03
23 5 0.14
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTCTTTCTTTTTTCTCATT
Found at i:11334346 original size:175 final size:175
Alignment explanation
Indices: 11334040--11334482 Score: 659
Period size: 175 Copynumber: 2.6 Consensus size: 175
11334030 TTGTGCAGGA
* * * **
11334040 AAAATTGATACTTTCAACTTTTCC-CCAAAATA-TTTTTT-AGAAATTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTGA-AAATTTATTTTTAAGGAAAATT
*
11334102 GATACTTTCAACTTTTTCCC-AAAATA--TTTTTGGAAACTTTAATTTTGAAGAAAATTGATACT
65 GATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTAATTTCGAAGAAAATTGATACT
* *
11334164 TTCAACTTTT-CCTCAAAAACCTTTTTT-GAAAATTTATTTTTAAGG
130 TTCAACTTTTCCCT-AAAAACATTTTTTAGAAAATTTATTTTCAAGG
* *
11334209 AAAATTGATGCTTTCAACTTTTCCTTAAAAAAAACTTTTTTGAAAATTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCC-TCAAAAAAACTTTTTTGAAAATTTATTTTTAAGGAAAATT
*
11334274 GATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTAATTTCGAGGAAAATTGATACT
65 GATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTAATTTCGAAGAAAATTGATACT
* *
11334339 TTCAACTTTTCCCTAAAAATATTTTTTAGAAAGTTTATTTTCAAGG
130 TTCAACTTTTCCCTAAAAACATTTTTTAGAAAATTTATTTTCAAGG
* *
11334385 AAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAACTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTGAAAATTTATTTTTAAGGAAAATTG
*
11334450 ATACTTTCAACTTTTCCCCAAAAATATTTTTTT
66 ATACTTTCAACTTTTTCCCAAAAATATTTTTTT
11334483 TGGATTTTAT
Statistics
Matches: 247, Mismatches: 18, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
169 23 0.09
171 5 0.02
172 45 0.18
173 7 0.03
175 125 0.51
176 42 0.17
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.43
Consensus pattern (175 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTGAAAATTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTAATTTCGAAGAAAATTGATACTT
TCAACTTTTCCCTAAAAACATTTTTTAGAAAATTTATTTTCAAGG
Found at i:11334494 original size:58 final size:58
Alignment explanation
Indices: 11334040--11334482 Score: 549
Period size: 58 Copynumber: 7.7 Consensus size: 58
11334030 TTGTGCAGGA
* * *
11334040 AAAATTGATACTTTCAACTTTTCCCC-AAAATATTTTTTAG-AAATTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTCAAGG
* * * *
11334096 AAAATTGATACTTTCAACTTTTTCCC-AAAATA-TTTTTGGAAACTTTAATTTTGAA-G
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTT-ATTTTCAAGG
* ** *
11334152 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTCAAGG
* ** * * *
11334209 AAAATTGATGCTTTCAACTTTTCCTTAAAAAAAACTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCC-CCAAAAATATTTTTTTGAAAATTTATTTTCAAGG
* * * *
11334268 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAAATTTATTTTCAAGG
* * *
11334327 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTAGAAAGTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTCAAGG
* * * *
11334385 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ACCTTTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTATTTTCAAGG
11334443 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
11334483 TGGATTTTAT
Statistics
Matches: 337, Mismatches: 40, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
55 6 0.02
56 68 0.20
57 46 0.14
58 118 0.35
59 99 0.29
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTCAAGG
Found at i:11334507 original size:5 final size:5
Alignment explanation
Indices: 11334494--11334581 Score: 76
Period size: 5 Copynumber: 17.0 Consensus size: 5
11334484 GGATTTTATT
11334494 TAAAA -AAAA TAAAA T--AA TAAAA TAAAA TAAAA GTGAAAA TAAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA -T-AAAA T-AAAA
*
11334539 TAAAGA -AAAG TAAAA TAAAAA TAAAA TAAAGA TAAAAA TAAAA
1 TAAA-A TAAAA TAAAA T-AAAA TAAAA TAAA-A T-AAAA TAAAA
11334582 GAATATTAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 39 0.56
6 17 0.24
7 7 0.10
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:11334519 original size:22 final size:21
Alignment explanation
Indices: 11334494--11334581 Score: 90
Period size: 23 Copynumber: 4.0 Consensus size: 21
11334484 GGATTTTATT
11334494 TAAAA-AAAATAAAATAATAAAA
1 TAAAATAAAATAAAAT-A-AAAA
11334516 TAAAATAAAAGTGAAAATAAAAA
1 TAAAATAAAA-T-AAAATAAAAA
*
11334539 TAAAGA-AAAGTAAAATAAAAA
1 TAAA-ATAAAATAAAATAAAAA
11334560 TAAAATAAAGATAAAAATAAAA
1 TAAAATAAA-AT-AAAATAAAA
11334582 GAATATTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.02
21 17 0.30
22 7 0.12
23 24 0.42
24 3 0.05
25 5 0.09
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (21 bp):
TAAAATAAAATAAAATAAAAA
Found at i:11334540 original size:6 final size:6
Alignment explanation
Indices: 11334498--11334581 Score: 66
Period size: 6 Copynumber: 13.7 Consensus size: 6
11334488 TTTATTTAAA
* * *
11334498 AAAAAT -AAAAT AATAAA- ATAAAAT AAAAGT GAAAAT AAAAAT AAAGAAA
1 AAAAAT AAAAAT AA-AAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAA-AAT
*
11334547 AGTAAAAT AAAAAT -AAAAT AAAGAT AAAAAT AAAA
1 A--AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
11334582 GAATATTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
5 10 0.16
6 39 0.63
7 8 0.13
8 3 0.05
9 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:11334576 original size:17 final size:16
Alignment explanation
Indices: 11334494--11334581 Score: 90
Period size: 17 Copynumber: 5.3 Consensus size: 16
11334484 GGATTTTATT
11334494 TAAAA-AAAATAAAATAA
1 TAAAATAAAAT-AAA-AA
*
11334511 TAAAATAAAATAAAAG
1 TAAAATAAAATAAAAA
*
11334527 TGAAAATAAAAATAAAGA
1 T-AAAAT-AAAATAAAAA
*
11334545 -AAAGTAAAATAAAAA
1 TAAAATAAAATAAAAA
11334560 TAAAATAAAGATAAAAA
1 TAAAATAAA-ATAAAAA
11334577 TAAAA
1 TAAAA
11334582 GAATATTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
15 9 0.15
16 13 0.22
17 25 0.42
18 13 0.22
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:11334611 original size:3 final size:3
Alignment explanation
Indices: 11334603--11334644 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
11334593 AAATCTCATC
11334603 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
11334645 ATATATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Done.