Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 106 of 130
Found at i:20788848 original size:17 final size:17
Alignment explanation
Indices: 20788826--20788878 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
20788816 TACAAAATTT
20788826 ATTTAATAAAAAATAAA
1 ATTTAATAAAAAATAAA
20788843 ATTTAA-AAGTAAAA-AAA
1 ATTTAATAA--AAAATAAA
*
20788860 TTTTAATAAAAAATAAA
1 ATTTAATAAAAAATAAA
20788877 AT
1 AT
20788879 AAAAGCAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 6 0.20
17 18 0.60
18 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
ATTTAATAAAAAATAAA
Found at i:20788892 original size:34 final size:33
Alignment explanation
Indices: 20788827--20788893 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
20788817 ACAAAATTTA
*
20788827 TTTAATAAAAAATAAAATTTAAAAGTAAAAAAAT
1 TTTAATAAAAAATAAAA-TTAAAAGAAAAAAAAT
20788861 TTTAATAAAAAATAAAA-TAAAAGCAACAAAAAA
1 TTTAATAAAAAATAAAATTAAAAG-AA-AAAAAA
20788894 AATAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 6 0.20
33 1 0.03
34 23 0.77
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (33 bp):
TTTAATAAAAAATAAAATTAAAAGAAAAAAAAT
Found at i:20788910 original size:19 final size:18
Alignment explanation
Indices: 20788888--20788928 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
20788878 TAAAAGCAAC
*
20788888 AAAAAAAATAAAAATTTA
1 AAAAAAAATAAAAAATTA
*
20788906 AAAAACAATAAAAAATTA
1 AAAAAAAATAAAAAATTA
20788924 AAAAA
1 AAAAA
20788929 GCCATGCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAAAAATAAAAAATTA
Found at i:20790412 original size:2 final size:2
Alignment explanation
Indices: 20790405--20790445 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
20790395 ATGACTCATT
20790405 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
20790446 CCCAACACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20790651 original size:22 final size:22
Alignment explanation
Indices: 20790626--20790692 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
20790616 AATATTTTAG
20790626 TTTTATATTTTTTAATTATTAA
1 TTTTATATTTTTTAATTATTAA
* * **
20790648 TTTTAATATATTTAAAAGA-TAA
1 TTTT-ATATTTTTTAATTATTAA
**
20790670 AATTATATTTTTTAATTATTAA
1 TTTTATATTTTTTAATTATTAA
20790692 T
1 T
20790693 ACTAAGTAGC
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
21 10 0.31
22 12 0.38
23 10 0.31
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (22 bp):
TTTTATATTTTTTAATTATTAA
Found at i:20791603 original size:66 final size:66
Alignment explanation
Indices: 20791491--20791728 Score: 237
Period size: 66 Copynumber: 3.6 Consensus size: 66
20791481 CTTGGTCATC
* * *
20791491 CGATCTTGGCTTAGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAATCCCAGTCACCTATT
1 CGATATTGGCTCAGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAATCCCGGTCACCTATT
20791556 T
66 T
* * * * * * * *
20791557 CGATTTTGGCCCAGTCTAGATCATTTTATTTTTCTTGACTTGCAGCTTAGTCCTGGTCATCTATT
1 CGATATTGGCTCAGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAATCCCGGTCACCTATT
20791622 T
66 T
* * * * * ** *
20791623 CAATATTGGCTTAGTCCAAATCATTTTATTTTTCCTGACTTACGGCTCAATTTCGGTTACCTATT
1 CGATATTGGCTCAGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAATCCCGGTCACCTATT
20791688 T
66 T
* * * * * *
20791689 -GATCTCGACTCAATATAGATCATTTTATTTTTC-TGACTTA
1 CGATATTGGCTCAGTCTAAATCATTTTATTTTTCTTGACTTA
20791729 TGGCTCAGTC
Statistics
Matches: 137, Mismatches: 35, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
64 7 0.05
65 24 0.18
66 106 0.77
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (66 bp):
CGATATTGGCTCAGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAATCCCGGTCACCTATT
T
Found at i:20791754 original size:132 final size:132
Alignment explanation
Indices: 20791496--20791738 Score: 310
Period size: 132 Copynumber: 1.9 Consensus size: 132
20791486 TCATCCGATC
* *
20791496 TTGGCTTAGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAATCCCAGTCACCTATTTCGAT
1 TTGGCTTAGTCCAAATCATTTTATTTTTCCTGACTTACAGCTCAATCCCAGTCACCTATTTCGAT
* * * * * * * *
20791561 TTTGGCCCAGTCTAGATCATTTTATTTTTCTTGACTTGCAGCTTAGTCCTGGTCATCTATTTCAA
66 CTCGACCCAATATAGATCATTTTATTTTTCTTGACTTACAGCTCAGTCCTGATCATCTATTTCAA
20791626 TA
131 TA
* ** * *
20791628 TTGGCTTAGTCCAAATCATTTTATTTTTCCTGACTTACGGCTCAATTTCGGTTACCTATTT-GAT
1 TTGGCTTAGTCCAAATCATTTTATTTTTCCTGACTTACAGCTCAATCCCAGTCACCTATTTCGAT
* **
20791692 CTCGACTCAATATAGATCATTTTATTTTTC-TGACTTATGGCTCAGTC
66 CTCGACCCAATATAGATCATTTTATTTTTCTTGACTTACAGCTCAGTC
20791739 ACTATCACTT
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
130 13 0.14
131 27 0.29
132 54 0.57
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44
Consensus pattern (132 bp):
TTGGCTTAGTCCAAATCATTTTATTTTTCCTGACTTACAGCTCAATCCCAGTCACCTATTTCGAT
CTCGACCCAATATAGATCATTTTATTTTTCTTGACTTACAGCTCAGTCCTGATCATCTATTTCAA
TA
Found at i:20792393 original size:13 final size:12
Alignment explanation
Indices: 20792367--20792464 Score: 54
Period size: 13 Copynumber: 7.8 Consensus size: 12
20792357 CGATCGTAGG
*
20792367 TTTTTTTTTCTT
1 TTTTTTTTTATT
20792379 TTTTCTTTTTATT
1 TTTT-TTTTTATT
* *
20792392 TTTTAATTTTA-A
1 TTTT-TTTTTATT
**
20792404 TTTTAATTTATT
1 TTTTTTTTTATT
* * *
20792416 TTATATTTTAAAT
1 TT-TTTTTTTATT
*
20792429 TTTTTTATTATT
1 TTTTTTTTTATT
*
20792441 TTTATTTTTAGTT
1 TTTTTTTTTA-TT
20792454 TTTTTATTTTA
1 TTTTT-TTTTA
20792465 CTGATTTTTA
Statistics
Matches: 63, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
11 5 0.08
12 24 0.38
13 29 0.46
14 5 0.08
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTATT
Found at i:20792440 original size:18 final size:17
Alignment explanation
Indices: 20792397--20792447 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
20792387 TTATTTTTTA
20792397 ATTTTA-ATTTTAATTT
1 ATTTTATATTTTAATTT
20792413 ATTTTATATTTTAAATTT
1 ATTTTATATTTT-AATTT
*
20792431 -TTTTATTATTTTTATTT
1 ATTTTA-TATTTTAATTT
20792448 TTAGTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 6 0.19
17 14 0.45
18 11 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTATATTTTAATTT
Found at i:20792448 original size:15 final size:16
Alignment explanation
Indices: 20792430--20792491 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 16
20792420 ATTTTAAATT
20792430 TTTTTA-TTATTTTTA
1 TTTTTACTTATTTTTA
*
20792445 TTTTTAGTT-TTTTTA
1 TTTTTACTTATTTTTA
*
20792460 -TTTTACTGATTTTTA
1 TTTTTACTTATTTTTA
* *
20792475 TTATATATTTATTTTTA
1 TT-TTTACTTATTTTTA
20792492 CTGAGCTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 6 0.16
15 18 0.47
16 3 0.08
17 11 0.29
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTACTTATTTTTA
Found at i:20792462 original size:39 final size:40
Alignment explanation
Indices: 20792414--20792491 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 40
20792404 TTTTAATTTA
*
20792414 TTTTATATTTTA-AATTTTT-TTATTATTTTTATTTTTAGT
1 TTTTATATTTTACAATTTTTATTA-TATATTTATTTTTAGT
* *
20792453 TTTTTTATTTTACTGATTTTTATTATATATTTATTTTTA
1 TTTTATATTTTAC-AATTTTTATTATATATTTATTTTTA
20792492 CTGAGCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 11 0.33
41 19 0.58
42 3 0.09
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (40 bp):
TTTTATATTTTACAATTTTTATTATATATTTATTTTTAGT
Found at i:20792463 original size:6 final size:6
Alignment explanation
Indices: 20792378--20792456 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
20792368 TTTTTTTTCT
* * * * *
20792378 TTTTTC TTTTTA TTTTTTA ATTTTA ATTTTA -ATTTA TTTTATA TTTTAAA
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTT-TA
*
20792428 TTTTT- TTATTA TTTTTA TTTTTA GTTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTT
20792457 TTATTTTACT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
5 8 0.13
6 29 0.48
7 23 0.38
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:20792471 original size:24 final size:22
Alignment explanation
Indices: 20792384--20792474 Score: 83
Period size: 24 Copynumber: 3.9 Consensus size: 22
20792374 TTCTTTTTTC
* *
20792384 TTTTTATTTTTTAATTTTAATT
1 TTTTTATTTTATATTTTTAATT
*
20792406 TTAATTTATTTTATATTTTAAATT
1 TT--TTTATTTTATATTTTTAATT
* *
20792430 TTTTTATTATTTTTATTTTTAGTT
1 TTTTTA-T-TTTATATTTTTAATT
20792454 TTTTTATTTTACTGATTTTTA
1 TTTTTATTTTA-T-ATTTTTA
20792475 TTATATATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
22 9 0.16
23 3 0.05
24 44 0.79
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTATTTTATATTTTTAATT
Found at i:20792674 original size:6 final size:6
Alignment explanation
Indices: 20792663--20792703 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
20792653 CAAAAAGAAT
* *
20792663 ATAAAA ATAAAA ATAAAA GTAAAA ATAAAA A-CAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
20792704 TAATTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:20792685 original size:18 final size:17
Alignment explanation
Indices: 20792663--20792703 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
20792653 CAAAAAGAAT
*
20792663 ATAAAAATAAAAATAAA
1 ATAAAAATAAAAACAAA
20792680 AGTAAAAATAAAAACAAA
1 A-TAAAAATAAAAACAAA
20792698 ATAAAA
1 ATAAAA
20792704 TAATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (17 bp):
ATAAAAATAAAAACAAA
Found at i:20802184 original size:18 final size:17
Alignment explanation
Indices: 20802163--20802201 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
20802153 ATAAAGCAAC
*
20802163 AAAAAAAATAAAATTTA
1 AAAAAAAATAAAAATTA
*
20802180 AAAAACAATAAAAATTA
1 AAAAAAAATAAAAATTA
20802197 AAAAA
1 AAAAA
20802202 GCCATGCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAAAATAAAAATTA
Found at i:20802186 original size:23 final size:23
Alignment explanation
Indices: 20802144--20802199 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
20802134 AATTTTTAAT
*
20802144 AAAAATAAAATAAAGCAACAA-A
1 AAAAATAAAATAAAGAAACAATA
20802166 AAAAATAAAATTTAAA-AAACAATA
1 AAAAATAAAA--TAAAGAAACAATA
*
20802190 AAAATTAAAA
1 AAAAATAAAA
20802200 AAGCCATGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 10 0.34
23 5 0.17
24 14 0.48
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAAATAAAATAAAGAAACAATA
Found at i:20803687 original size:2 final size:2
Alignment explanation
Indices: 20803680--20803720 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
20803670 ATGACTCATT
20803680 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
20803721 CCCAACACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20804857 original size:66 final size:66
Alignment explanation
Indices: 20804779--20804949 Score: 216
Period size: 66 Copynumber: 2.6 Consensus size: 66
20804769 ATCTTGGCTT
* *
20804779 AGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAATCCCAGTCACCTATTTCGATTTTGGCC
1 AGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAATCCCAGTCACCTATTTCAATATTGGCC
20804844 C
66 C
* * * * ** * *
20804845 AGTCTAGATCATTTTATTTTTCTTGACTTGCAGCTTAGTCCTGGTCATCTATTTCAATATTGGCT
1 AGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAATCCCAGTCACCTATTTCAATATTGGCC
*
20804910 T
66 C
* * *
20804911 AGTCCAAATCATTTTATTTTTCCTGACTTACGGCTCAAT
1 AGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAAT
20804950 TTCGGTTACC
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 87 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.43
Consensus pattern (66 bp):
AGTCTAAATCATTTTATTTTTCTTGACTTACAGCTCAATCCCAGTCACCTATTTCAATATTGGCC
C
Found at i:20805683 original size:18 final size:17
Alignment explanation
Indices: 20805661--20805715 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
20805651 TTTTTTTTTC
*
20805661 TTTTTATTTTTTGATTT
1 TTTTTATTTTTTAATTT
* *
20805678 TATTTTATATTTTAAATT
1 T-TTTTATTTTTTAATTT
*
20805696 TTTTTATTATTTTTATTT
1 TTTTTATT-TTTTAATTT
20805714 TT
1 TT
20805716 AGTTTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 7 0.23
18 23 0.77
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTAATTT
Found at i:20805690 original size:25 final size:24
Alignment explanation
Indices: 20805645--20805730 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
20805635 CGATCGTAGA
* * *
20805645 TTTTTCTTTTTTTTTCTTTTTATT
1 TTTTTATTTTATTTTATTTTTATT
*
20805669 TTTTGATTTTATTTTATATTTTAAATT
1 TTTTTATTTTATTTTAT-TTTT--ATT
*
20805696 TTTTTATTAT-TTTTATTTTTAGTT
1 TTTTTATTTTATTTTATTTTTA-TT
20805720 TTTTTATTTTA
1 TTTTTATTTTA
20805731 CTGATTTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
23 1 0.02
24 24 0.48
25 8 0.16
26 6 0.12
27 11 0.22
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (24 bp):
TTTTTATTTTATTTTATTTTTATT
Found at i:20805696 original size:19 final size:19
Alignment explanation
Indices: 20805664--20805710 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
20805654 TTTTTTCTTT
**
20805664 TTATTTTTTGATTTTATT-
1 TTATTTTTAAATTTTATTA
*
20805682 TTATATTTTAAATTTTTTTA
1 TTAT-TTTTAAATTTTATTA
20805702 TTATTTTTA
1 TTATTTTTA
20805711 TTTTTAGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTATTTTTAAATTTTATTA
Found at i:20805714 original size:15 final size:16
Alignment explanation
Indices: 20805696--20805757 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 16
20805686 ATTTTAAATT
20805696 TTTTTA-TTATTTTTA
1 TTTTTACTTATTTTTA
*
20805711 TTTTTAGTT-TTTTTA
1 TTTTTACTTATTTTTA
*
20805726 -TTTTACTGATTTTTA
1 TTTTTACTTATTTTTA
* *
20805741 TTATATATTTATTTTTA
1 TT-TTTACTTATTTTTA
20805758 CTGAGCTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 6 0.16
15 18 0.47
16 3 0.08
17 11 0.29
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTACTTATTTTTA
Found at i:20805723 original size:9 final size:8
Alignment explanation
Indices: 20805645--20805729 Score: 59
Period size: 8 Copynumber: 10.2 Consensus size: 8
20805635 CGATCGTAGA
*
20805645 TTTTTCTT
1 TTTTTATT
20805653 TTTTT-TT
1 TTTTTATT
20805660 CTTTTTATT
1 -TTTTTATT
*
20805669 TTTTGATTT
1 TTTTTA-TT
20805678 TATTTTATAT
1 T-TTTTAT-T
**
20805688 TTTAAATT
1 TTTTTATT
20805696 TTTTTATT
1 TTTTTATT
20805704 ATTTTTA--
1 -TTTTTATT
20805711 TTTTTAGTT
1 TTTTTA-TT
20805720 TTTTTATT
1 TTTTTATT
20805728 TT
1 TT
20805730 ACTGATTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
6 6 0.10
7 2 0.03
8 26 0.42
9 22 0.35
10 6 0.10
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTTATT
Found at i:20805737 original size:24 final size:22
Alignment explanation
Indices: 20805675--20805740 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 22
20805665 TATTTTTTGA
*
20805675 TTTTATTTTATATTTTAAATTT
1 TTTTATTTTATATTTTTAATTT
* *
20805697 TTTTATTATTTTTATTTTTAGTTT
1 TTTTA-T-TTTATATTTTTAATTT
20805721 TTTTATTTTACTGATTTTTA
1 TTTTATTTTA-T-ATTTTTA
20805741 TTATATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 8 0.22
23 3 0.08
24 25 0.69
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (22 bp):
TTTTATTTTATATTTTTAATTT
Found at i:20805850 original size:29 final size:27
Alignment explanation
Indices: 20805816--20805878 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
20805806 AAAAAAATAA
* *
20805816 AAATAAGAAAAACAAAAAAAAATCTTTTT
1 AAATAAG--AAACAAAAAAAAATATTTTC
* *
20805845 AAATAAGTAAGAAAAAAAAATATTTTC
1 AAATAAGAAACAAAAAAAAATATTTTC
20805872 AAATAAG
1 AAATAAG
20805879 TTTATGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.77
29 7 0.23
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAAGAAACAAAAAAAAATATTTTC
Found at i:20805947 original size:6 final size:6
Alignment explanation
Indices: 20805936--20805982 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
20805926 CAAAAAGAAT
* *
20805936 ATAAAA ATAAAAA ATAAAA GTAAAA ATAAAA ACAAAA ATAAAA ATAA
1 ATAAAA AT-AAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA
20805983 TTTTTATCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:20805972 original size:18 final size:18
Alignment explanation
Indices: 20805936--20805982 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
20805926 CAAAAAGAAT
20805936 ATAAAAATAAAAA-ATAAA
1 ATAAAAATAAAAACA-AAA
20805954 AGTAAAAATAAAAACAAAA
1 A-TAAAAATAAAAACAAAA
20805973 ATAAAAATAA
1 ATAAAAATAA
20805983 TTTTTATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.37
19 16 0.59
20 1 0.04
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (18 bp):
ATAAAAATAAAAACAAAA
Found at i:20812900 original size:8 final size:8
Alignment explanation
Indices: 20812868--20812910 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
20812858 TAAAAATCAC
20812868 TTTATTAT
1 TTTATTAT
*
20812876 TCTTATTTT
1 T-TTATTAT
20812885 TTTA-TAT
1 TTTATTAT
20812892 TTTATTAT
1 TTTATTAT
*
20812900 TTGATTAT
1 TTTATTAT
20812908 TTT
1 TTT
20812911 GTACATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 6 0.21
8 16 0.55
9 7 0.24
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (8 bp):
TTTATTAT
Found at i:20812910 original size:24 final size:25
Alignment explanation
Indices: 20812868--20812919 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
20812858 TAAAAATCAC
* *
20812868 TTTATTATTCTTATTTTTT-TATAT
1 TTTATTATTCTGATTTTTTGTACAT
20812892 TTTATTATT-TGATTATTTTGTACAT
1 TTTATTATTCTGATT-TTTTGTACAT
20812917 TTT
1 TTT
20812920 TTTAAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.17
24 13 0.54
25 7 0.29
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (25 bp):
TTTATTATTCTGATTTTTTGTACAT
Found at i:20815637 original size:17 final size:17
Alignment explanation
Indices: 20815615--20815667 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
20815605 TACAAAATTT
20815615 ATTTAATAAAAAATAAA
1 ATTTAATAAAAAATAAA
20815632 ATTTAA-AAGTAAAA-AAA
1 ATTTAATAA--AAAATAAA
*
20815649 TTTTAATAAAAAATAAA
1 ATTTAATAAAAAATAAA
20815666 AT
1 AT
20815668 AAAAGCAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
16 6 0.20
17 18 0.60
18 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
ATTTAATAAAAAATAAA
Found at i:20815681 original size:34 final size:33
Alignment explanation
Indices: 20815616--20815682 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
20815606 ACAAAATTTA
*
20815616 TTTAATAAAAAATAAAATTTAAAAGTAAAAAAAT
1 TTTAATAAAAAATAAAA-TTAAAAGAAAAAAAAT
20815650 TTTAATAAAAAATAAAA-TAAAAGCAACAAAAAA
1 TTTAATAAAAAATAAAATTAAAAG-AA-AAAAAA
20815683 AATAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 6 0.20
33 1 0.03
34 23 0.77
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (33 bp):
TTTAATAAAAAATAAAATTAAAAGAAAAAAAAT
Found at i:20815699 original size:19 final size:18
Alignment explanation
Indices: 20815677--20815717 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
20815667 TAAAAGCAAC
*
20815677 AAAAAAAATAAAAATTTA
1 AAAAAAAATAAAAAATTA
*
20815695 AAAAACAATAAAAAATTA
1 AAAAAAAATAAAAAATTA
20815713 AAAAA
1 AAAAA
20815718 GCCATGCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAAAAATAAAAAATTA
Found at i:20818187 original size:61 final size:59
Alignment explanation
Indices: 20818092--20818215 Score: 135
Period size: 61 Copynumber: 2.1 Consensus size: 59
20818082 CAGTAGAATA
* ** *
20818092 TTTTAGTTTTATATTTTTTAATTATTAATTTTAATATATT-TAAAAGATAAAA-TTATTTT
1 TTTTAGTTTTATATTTTTAAATTATTAAAATTAATA-ATTAAAAAAGATAAAACTT-TTTT
* * *
20818151 TTTTATTTTTTTATCTTTTAAATCTATTAAAATTAATAATTAAAAAATATAAAACTTTTTT
1 TTTTAGTTTTATAT-TTTTAAAT-TATTAAAATTAATAATTAAAAAAGATAAAACTTTTTT
20818212 TTTT
1 TTTT
20818216 GTATAACTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
59 12 0.22
60 10 0.19
61 30 0.56
62 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (59 bp):
TTTTAGTTTTATATTTTTAAATTATTAAAATTAATAATTAAAAAAGATAAAACTTTTTT
Found at i:20818322 original size:31 final size:31
Alignment explanation
Indices: 20818287--20818349 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
20818277 AAAGGTGGAT
20818287 TTGAACAGAAATAACCTAACTCCTCCCGAGG
1 TTGAACAGAAATAACCTAACTCCTCCCGAGG
* *
20818318 TTGAACAGAAGTAACCTAACTCCTGCCGAGG
1 TTGAACAGAAATAACCTAACTCCTCCCGAGG
20818349 T
1 T
20818350 CCACTCATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (31 bp):
TTGAACAGAAATAACCTAACTCCTCCCGAGG
Found at i:20823051 original size:3 final size:3
Alignment explanation
Indices: 20823043--20823070 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
20823033 GTCCTAATTA
20823043 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
20823071 GCAATTTTCC
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:20825080 original size:22 final size:22
Alignment explanation
Indices: 20825020--20825085 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
20825010 TTTAATTTAA
*
20825020 TAAAAAA-AACTACATTTATAT
1 TAAAAAATAAATACATTTATAT
* *
20825041 ATAATTAAAT-GATA-ATTTATAT
1 -TAA-AAAATAAATACATTTATAT
20825063 TAAAAAATAAATACATTTATAT
1 TAAAAAATAAATACATTTATAT
20825085 T
1 T
20825086 TGTCTATATG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
20 4 0.11
21 6 0.17
22 20 0.57
23 5 0.14
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAAAATAAATACATTTATAT
Found at i:20826918 original size:16 final size:17
Alignment explanation
Indices: 20826897--20826937 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
20826887 GTTTTGGCTA
20826897 AAAGAGAGAAA-AAAAG
1 AAAGAGAGAAATAAAAG
*
20826913 AAAGAG-GAAATGAAAG
1 AAAGAGAGAAATAAAAG
20826929 AAATGAGAG
1 AAA-GAGAG
20826938 GAAGGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 13 0.62
17 3 0.14
18 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (17 bp):
AAAGAGAGAAATAAAAG
Found at i:20827117 original size:20 final size:20
Alignment explanation
Indices: 20827081--20827118 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20827071 GAAATATGAG
*
20827081 AAAAAGAAAGAATGAAAAGT
1 AAAAAGAAAGAAAGAAAAGT
20827101 AAAAA-AAAGAAAAGAAAA
1 AAAAAGAAAG-AAAGAAAA
20827119 ATGTTTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAAAGAAAGAAAGAAAAGT
Found at i:20830324 original size:15 final size:15
Alignment explanation
Indices: 20830280--20830328 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
20830270 TTTCATGATT
20830280 TTAAATATAAAAAATAA
1 TTAAATAT-AAAAA-AA
**
20830297 AAAAATCATAAAAAAA
1 TTAAAT-ATAAAAAAA
20830313 TTAAATATAAAAAAA
1 TTAAATATAAAAAAA
20830328 T
1 T
20830329 AAAAGAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 10 0.37
16 6 0.22
17 9 0.33
18 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (15 bp):
TTAAATATAAAAAAA
Found at i:20832087 original size:2 final size:2
Alignment explanation
Indices: 20832080--20832144 Score: 87
Period size: 2 Copynumber: 33.0 Consensus size: 2
20832070 TTTATATTTA
* * *
20832080 AT AT AT AT AT GT AT AT AT AT TT A- AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
20832121 AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
20832145 TCTACACAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20832834 original size:20 final size:20
Alignment explanation
Indices: 20832806--20832847 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
20832796 TATTAATTAA
*
20832806 TAAATTTATGATTAAA-ATTT
1 TAAAATTAT-ATTAAATATTT
20832826 TAAAATTATATTAAATATTT
1 TAAAATTATATTAAATATTT
20832846 TA
1 TA
20832848 TTATAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TAAAATTATATTAAATATTT
Found at i:20832838 original size:19 final size:19
Alignment explanation
Indices: 20832773--20832840 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
20832763 ATTTTAAATT
20832773 AATTATATTAAAA--ATAA
1 AATTATATTAAAATTATAA
20832790 ACATTATATT--AATTAATAA
1 A-ATTATATTAAAATT-ATAA
* *
20832809 ATTTATGATTAAAATTTTAA
1 AATTAT-ATTAAAATTATAA
20832829 AATTATATTAAA
1 AATTATATTAAA
20832841 TATTTTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
16 2 0.05
17 1 0.02
18 12 0.29
19 14 0.34
20 8 0.20
21 4 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (19 bp):
AATTATATTAAAATTATAA
Found at i:20834744 original size:13 final size:13
Alignment explanation
Indices: 20834726--20834750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20834716 TACAAAACAA
20834726 CAAGAAAGAAAAG
1 CAAGAAAGAAAAG
20834739 CAAGAAAGAAAA
1 CAAGAAAGAAAA
20834751 AATTTGTTAG
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:0.72, C:0.08, G:0.20, T:0.00
Consensus pattern (13 bp):
CAAGAAAGAAAAG
Found at i:20837139 original size:6 final size:6
Alignment explanation
Indices: 20837128--20837156 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
20837118 AAGCCGTTAG
20837128 GGTCTT GGTCTT GGTCTT GGTCTT GGTCT
1 GGTCTT GGTCTT GGTCTT GGTCTT GGTCT
20837157 ATGTCGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.34, T:0.48
Consensus pattern (6 bp):
GGTCTT
Found at i:20839247 original size:11 final size:11
Alignment explanation
Indices: 20839231--20839261 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
20839221 TTACCTTCTT
20839231 TTTATTTTTGG
1 TTTATTTTTGG
*
20839242 TTTATTTTTGT
1 TTTATTTTTGG
20839253 TTTATTTTT
1 TTTATTTTT
20839262 TTCTCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81
Consensus pattern (11 bp):
TTTATTTTTGG
Found at i:20841256 original size:18 final size:17
Alignment explanation
Indices: 20841235--20841357 Score: 85
Period size: 18 Copynumber: 7.1 Consensus size: 17
20841225 TTTGAGCATA
20841235 ATTATACTTATAAATAAT
1 ATTATA-TTATAAATAAT
20841253 ATTATATTAATAAATAAT
1 ATTATATT-ATAAATAAT
* *
20841271 ATTTTATGAATAAATAAT
1 ATTATAT-TATAAATAAT
20841289 A-TACTATTA-AAATAAT
1 ATTA-TATTATAAATAAT
20841305 A-TATTAATATATAAATAAT
1 ATTA-T-AT-TATAAATAAT
* * *
20841324 ATTTTATGAATAAATATT
1 ATTATAT-TATAAATAAT
*
20841342 ATTA-ATT-TAATTAAT
1 ATTATATTATAAATAAT
20841357 A
1 A
20841358 AAATAACATA
Statistics
Matches: 85, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
15 7 0.08
16 11 0.13
17 8 0.09
18 49 0.58
19 9 0.11
20 1 0.01
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTATATTATAAATAAT
Found at i:20841494 original size:20 final size:20
Alignment explanation
Indices: 20841421--20841496 Score: 65
Period size: 18 Copynumber: 4.0 Consensus size: 20
20841411 TTATTTTAAG
20841421 TATTTTTT-ATATTAAT-AT
1 TATTTTTTAATATTAATAAT
* *
20841439 AATATTTTAATATTAA-ATAT
1 TATTTTTTAATATTAATA-AT
* *
20841459 TA-TTATTAA-AAT-ATAAT
1 TATTTTTTAATATTAATAAT
20841476 TATTTTTTAATATTAATAAT
1 TATTTTTTAATATTAATAAT
20841496 T
1 T
20841497 TTAATAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
17 5 0.12
18 15 0.35
19 14 0.33
20 9 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTTTAATATTAATAAT
Found at i:20841523 original size:26 final size:26
Alignment explanation
Indices: 20841490--20841553 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
20841480 TTTTAATATT
20841490 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
* *
20841515 AATATATTTTAATAATAAATATTTTT
1 AATATATTTTAATAATAAATAATTTC
*
20841541 TA-ATATTTTAATA
1 AATATATTTTAATA
20841554 GTTATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:20841540 original size:16 final size:15
Alignment explanation
Indices: 20841433--20841539 Score: 53
Period size: 15 Copynumber: 6.9 Consensus size: 15
20841423 TTTTTTATAT
20841433 TAATATAATATTTTAA
1 TAATA-AATATTTTAA
*
20841449 TATTAAATATTATTATTA
1 TAATAAATATT-TTA--A
*
20841467 AAATATAATTATTTTTTAA
1 TAATA-AA-TA--TTTTAA
*
20841486 T-ATTAATAATTTTAA
1 TAATAAAT-ATTTTAA
*
20841501 TAATAAATAATTT--
1 TAATAAATATTTTAA
*
20841514 CAAT--ATATTTTAA
1 TAATAAATATTTTAA
20841527 TAATAAATATTTT
1 TAATAAATATTTT
20841540 TTAATATTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 27
0.65 0.10 0.26
Matches are distributed among these distances:
11 6 0.09
13 6 0.09
15 24 0.35
16 13 0.19
17 3 0.04
18 6 0.09
19 3 0.04
20 2 0.03
21 3 0.04
22 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATAAATATTTTAA
Found at i:20848725 original size:20 final size:20
Alignment explanation
Indices: 20848678--20848725 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
20848668 TTATTTTAAT
20848678 ATTAT-TTTTAATATGTGTA
1 ATTATATTTTAATATGTGTA
* *
20848697 AATAAATTTTAATATGAT-TA
1 ATTATATTTTAATATG-TGTA
20848717 ATTATATTT
1 ATTATATTT
20848726 ATTTTATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.13
20 19 0.83
21 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (20 bp):
ATTATATTTTAATATGTGTA
Found at i:20850163 original size:22 final size:21
Alignment explanation
Indices: 20850127--20850176 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
20850117 ATTCGAAATT
20850127 AATATAAT-ATTATTTTTTAA
1 AATATAATAATTATTTTTTAA
20850147 AATATAATAAATTATTTTTTAA
1 AATATAAT-AATTATTTTTTAA
*
20850169 TATA-AATA
1 AATATAATA
20850177 TAAAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 3 0.11
22 15 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATAATAATTATTTTTTAA
Found at i:20850188 original size:12 final size:12
Alignment explanation
Indices: 20850171--20850230 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
20850161 TTTTTTAATA
20850171 TAAATATAAAAT
1 TAAATATAAAAT
*
20850183 TAAATATATACA-
1 TAAATATA-AAAT
20850195 TAAATAT---A-
1 TAAATATAAAAT
20850203 TAAATATAAAAT
1 TAAATATAAAAT
20850215 TAAATA-AATAAT
1 TAAATATAA-AAT
20850227 TAAA
1 TAAA
20850231 AATTTTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
8 8 0.20
11 3 0.07
12 28 0.68
13 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:20850191 original size:20 final size:20
Alignment explanation
Indices: 20850167--20850234 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
20850157 ATTATTTTTT
20850167 AATAT-AAATATAAA-AT-TA
1 AATATAAAAT-TAAATATATA
*
20850185 AATATATACA-TAAATATATA
1 AATATA-AAATTAAATATATA
*
20850205 AATATAAAATTAAATAAATA
1 AATATAAAATTAAATATATA
*
20850225 ATTA-AAAATT
1 AATATAAAATT
20850235 TTTTTTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
18 9 0.22
19 10 0.24
20 22 0.54
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (20 bp):
AATATAAAATTAAATATATA
Found at i:20853125 original size:2 final size:2
Alignment explanation
Indices: 20853086--20853116 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20853076 AAGAATATCA
20853086 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20853117 CACATATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20854793 original size:3 final size:3
Alignment explanation
Indices: 20854785--20854828 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
20854775 TTTTCAAAGT
20854785 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
20854829 CTATAAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:20857768 original size:15 final size:15
Alignment explanation
Indices: 20857748--20857789 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
20857738 TTAAGAAATT
*
20857748 AAATAAATATAAATA
1 AAATAAATATAAACA
* *
20857763 ATATAAATAAAAACA
1 AAATAAATATAAACA
20857778 AAATAAATATAA
1 AAATAAATATAA
20857790 CTAAAACAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATATAAACA
Found at i:20857788 original size:21 final size:19
Alignment explanation
Indices: 20857758--20857806 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 19
20857748 AAATAAATAT
20857758 AAATAATATAAATAAAAACA
1 AAATAATATAAAT-AAAACA
*
20857778 AAATAAATATAACTAAAACA
1 AAAT-AATATAAATAAAACA
20857798 AAATTAATA
1 AAA-TAATA
20857807 AAACATAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAATATAAATAAAACA
Found at i:20857795 original size:15 final size:15
Alignment explanation
Indices: 20857748--20857795 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
20857738 TTAAGAAATT
*
20857748 AAATAAATATAAATA
1 AAATAAATATAACTA
* *
20857763 ATATAAATAAAAAC-A
1 AAATAAAT-ATAACTA
20857778 AAATAAATATAACTA
1 AAATAAATATAACTA
20857793 AAA
1 AAA
20857796 CAAAATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 4 0.15
15 19 0.73
16 3 0.12
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAATATAACTA
Found at i:20859261 original size:17 final size:18
Alignment explanation
Indices: 20859237--20859285 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
20859227 TAAATTTCAA
20859237 AGAAAAATGTGATTTATG
1 AGAAAAATGTGATTTATG
* * *
20859255 A-AAAAATATGA-ATCTG
1 AGAAAAATGTGATTTATG
20859271 AGAAAAATGTGATTT
1 AGAAAAATGTGATTT
20859286 TTCATAGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
16 4 0.17
17 18 0.75
18 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.31
Consensus pattern (18 bp):
AGAAAAATGTGATTTATG
Found at i:20859410 original size:337 final size:329
Alignment explanation
Indices: 20858748--20859416 Score: 907
Period size: 337 Copynumber: 2.0 Consensus size: 329
20858738 TTTTTGCTGC
* * * *
20858748 CAATTATTGGGTGTAATTACTGTTTATTGTAATTTTTTTGCTAGTGGAATTTTAATATTTATATT
1 CAATTATTGGGTGTAATTACTGCTTATTATAATTTTTTTGCTAGTGGAATTGTAATATTGATATT
20858813 GATTAAAGGGTAAAATAATCATTTTACAATACTGAACATATGTCAAAAGTTTAATCTCATTTGGT
66 GATTAAAGGGTAAAATAATCATTTTACAATACTGAACATATGTCAAAAGTTTAATCTCATTTGGT
* * * *
20858878 TCACGAAATCTTAGATTTCAGAGACAAATGTGATCTTTAAAAAAGTGTAAATCTAAAAAAAAGTG
131 TCACGAAATCTTAAATTTCAAAGAAAAATGTGATCTTTAAAAAAGTATAAATCTAAAAAAAAGTG
* *
20858943 TAATTTTTCATAGCATCCCATTTTTAGATTCTTGTATTTAATTAAAAGGAATATGAGATTATTTA
196 TAATTTTTCATAGCATCCCATTTTTAAATTCTTGTATTTAATTAAAAGGAATATGAGATTACTTA
* *
20859008 ATCTTATATTTTTATTATAATGTCATTCCCCACATAACAAACACATTAATTATTCAATTAAATAA
261 ATCTTATATTTTTACTATAATGTCATTCCCCACATAACAAACACATTAATTATTCAATAAAATAA
20859073 TGGA
326 TGGA
*
20859077 CAATTATTGGGTGTAATTACTGCTTATTATAATTTTTTTTGCTAGTGGAATTGTAATATTGATGT
1 CAATTATTGGGTGTAATTACTGCTTATTATAA-TTTTTTTGCTAGTGGAATTGTAATATTGATAT
*
20859142 TGATTAAAGGGTAAAATAATCATTTTACAATATTGAACATATGTCAAAAGTTTAATCCTTAGGGG
65 TGATTAAAGGGTAAAATAATCATTTTACAATACTGAACATATGTCAAAAGTTTAAT-C-T-----
* ** *
20859207 ATATTTGGTTCGTGAAATCTTAAATTTCAAAGAAAAATGTGAT-TTATGAAAAAA-TATGAATCT
123 -CATTTGGTTCACGAAATCTTAAATTTCAAAGAAAAATGTGATCTT-T-AAAAAAGTATAAATCT
* * * * * ***
20859270 GAGAAAAA-TGTGATTTTTCATAGCAT-CCAGTTTTTAAATTCTTGTGTTTAGTT-TGGGAGAAT
185 AAAAAAAAGTGTAATTTTTCATAGCATCCCA-TTTTTAAATTCTTGTATTTAATTAAAAG-GAAT
* * **
20859332 CTGAGATTACTTAGTCTTATATTTTTACTATAATGTCATTCCTTACATAACAAACACATTAATTA
248 ATGAGATTACTTAATCTTATATTTTTACTATAATGTCATTCCCCACATAACAAACACATTAATTA
*
20859397 TTTAATAAAATAATGGA
313 TTCAATAAAATAATGGA
20859414 CAA
1 CAA
20859417 ATAATGCAGT
Statistics
Matches: 296, Mismatches: 31, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
329 30 0.10
330 84 0.28
331 1 0.00
332 1 0.00
336 4 0.01
337 120 0.41
338 50 0.17
339 6 0.02
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (329 bp):
CAATTATTGGGTGTAATTACTGCTTATTATAATTTTTTTGCTAGTGGAATTGTAATATTGATATT
GATTAAAGGGTAAAATAATCATTTTACAATACTGAACATATGTCAAAAGTTTAATCTCATTTGGT
TCACGAAATCTTAAATTTCAAAGAAAAATGTGATCTTTAAAAAAGTATAAATCTAAAAAAAAGTG
TAATTTTTCATAGCATCCCATTTTTAAATTCTTGTATTTAATTAAAAGGAATATGAGATTACTTA
ATCTTATATTTTTACTATAATGTCATTCCCCACATAACAAACACATTAATTATTCAATAAAATAA
TGGA
Found at i:20859538 original size:63 final size:63
Alignment explanation
Indices: 20859462--20859834 Score: 261
Period size: 63 Copynumber: 5.9 Consensus size: 63
20859452 AAAAAAAATT
* ** * *
20859462 AACACAATAATTGATTGTTTGCA-AAAAATTACAATGATCAATTATTGCGTTATAAAACAAAGC
1 AACACAAAAATTGATCATTTG-ATAAAAATTACAATTATCAATTATTGCGTTATAAAACAAAGA
* * * *
20859525 AACACAAAAATTGATCATTTGATTAAAATTACTATTATCAATTATTGTGTTATAAAATAAA-A
1 AACACAAAAATTGATCATTTGATAAAAATTACAATTATCAATTATTGCGTTATAAAACAAAGA
* * * ** * * * * *
20859587 TAACACAACATTTAATTGTTTTA-AAATAATTACATTTATCAATTACTGCCTTTTAAAACAAAGA
1 -AACACAAAAATTGATCATTTGATAAA-AATTACAATTATCAATTATTGCGTTATAAAACAAAGA
* * ** * *
20859651 AACACAAATAATTGATCATTTGATTAAAATTAAAATTATCAATTATTGAATTATAAAATAAAGT
1 AACACAAA-AATTGATCATTTGATAAAAATTACAATTATCAATTATTGCGTTATAAAACAAAGA
* ** * ** * * * * *
20859715 AATACAGTAATTGGTTGTTTTA-AAATAATTA-AATTTATTAATTATTGCATTTTCAAACAAAGA
1 AACACAAAAATTGATCATTTGATAAA-AATTACAA-TTATCAATTATTGCGTTATAAAACAAAGA
* * * * * * * *
20859778 AATATAATAATTTATCATTTGATTAAATTTAAAATTATCAATTATTGCATTATAAAA
1 AACACAAAAATTGATCATTTGATAAAAATTACAATTATCAATTATTGCGTTATAAAA
20859835 TGAAGTAACA
Statistics
Matches: 236, Mismatches: 64, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
62 7 0.03
63 179 0.76
64 48 0.20
65 2 0.01
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (63 bp):
AACACAAAAATTGATCATTTGATAAAAATTACAATTATCAATTATTGCGTTATAAAACAAAGA
Found at i:20859852 original size:63 final size:63
Alignment explanation
Indices: 20859659--20859855 Score: 209
Period size: 63 Copynumber: 3.1 Consensus size: 63
20859649 GAAACACAAA
* * *
20859659 TAATTGATCATTTGATTAAAATTAAAATTATCAATTATTGAATTATAAAATAAAGTAATACAG
1 TAATTGATCATTTGATTAAATTTAAAATTATCAATTATTGCATTATAAAATAAAGTAATATAG
* ** * * * * * * * *
20859722 TAATTGGTTGTTT--TAAAATAATTAAATTTATTAATTATTGCATTTTCAAACAAAGAAATATAA
1 TAATTGATCATTTGATTAAAT--TTAAAATTATCAATTATTGCATTATAAAATAAAGTAATATAG
* * *
20859785 TAATTTATCATTTGATTAAATTTAAAATTATCAATTATTGCATTATAAAATGAAGTAACATAG
1 TAATTGATCATTTGATTAAATTTAAAATTATCAATTATTGCATTATAAAATAAAGTAATATAG
20859848 TAATTGAT
1 TAATTGAT
20859856 TGTTTTAGAA
Statistics
Matches: 101, Mismatches: 29, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
61 4 0.04
63 92 0.91
65 5 0.05
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (63 bp):
TAATTGATCATTTGATTAAATTTAAAATTATCAATTATTGCATTATAAAATAAAGTAATATAG
Found at i:20859877 original size:63 final size:61
Alignment explanation
Indices: 20859676--20859884 Score: 184
Period size: 63 Copynumber: 3.3 Consensus size: 61
20859666 TCATTTGATT
* * * *
20859676 AAAATTAAAATTATCAATTATTGAATTATAAAATAAAGTAATACAGTAATTGGTTGTTTTA
1 AAAAATAAAATTATCAATTATTGCATTATAAAATAAAGTAATATAGTAATTGATTGTTTTA
* * * * * * * * ** *
20859737 AAATAATTAAATTTATTAATTATTGCATTTTCAAACAAAGAAATATAATAATTTATCATTTGATT
1 AAA-AA-TAAAATTATCAATTATTGCATTATAAAATAAAGTAATATAGTAATTGATTGTTT--TA
** * *
20859802 AAATTTAAAATTATCAATTATTGCATTATAAAATGAAGTAACATAGTAATTGATTGTTTTA
1 AAAAATAAAATTATCAATTATTGCATTATAAAATAAAGTAATATAGTAATTGATTGTTTTA
*
20859863 GAACAATAACAATTATCAATTA
1 -AAAAATAA-AATTATCAATTA
20859885 CTACATTTAG
Statistics
Matches: 109, Mismatches: 33, Indels: 10
0.72 0.22 0.07
Matches are distributed among these distances:
61 4 0.04
62 6 0.06
63 95 0.87
65 4 0.04
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (61 bp):
AAAAATAAAATTATCAATTATTGCATTATAAAATAAAGTAATATAGTAATTGATTGTTTTA
Found at i:20859892 original size:126 final size:127
Alignment explanation
Indices: 20859452--20859892 Score: 494
Period size: 126 Copynumber: 3.5 Consensus size: 127
20859442 ATATATTGTA
* * * * * * * * * *
20859452 AAAAAAAATTAACACAATAATTGATTGTTTGCAAAA-AATTACAATGATCAATTATTGCGTTATA
1 AAAATAAAGTAACACAGTAATTGATTGTTT-TAAAATAATAACATTTATCAATTACTGCATTTTA
* ** **
20859516 AAACAAAGCAACACAAA-AATTGATCATTTGATTAAAATTACTATTATCAATTATTGTGTTAT
65 AAACAAAGAAACACAAATAATTGATCATTTGATTAAAATTAAAATTATCAATTATTGAATTAT
* ** * * * *
20859578 AAAATAAAATAACACAACATTTAATTGTTTTAAAATAATTACATTTATCAATTACTGCCTTTTAA
1 AAAATAAAGTAACACAGTAATTGATTGTTTTAAAATAATAACATTTATCAATTACTGCATTTTAA
20859643 AACAAAGAAACACAAATAATTGATCATTTGATTAAAATTAAAATTATCAATTATTGAATTAT
66 AACAAAGAAACACAAATAATTGATCATTTGATTAAAATTAAAATTATCAATTATTGAATTAT
* * * * *
20859705 AAAATAAAGTAATACAGTAATTGGTTGTTTTAAAATAATTAA-ATTTATTAATTATTGCATTTTC
1 AAAATAAAGTAACACAGTAATTGATTGTTTTAAAATAA-TAACATTTATCAATTACTGCATTTTA
* * * * *
20859769 AAACAAAGAAATA-TAATAATTTATCATTTGATTAAATTTAAAATTATCAATTATTGCATTAT
65 AAACAAAGAAACACAAATAATTGATCATTTGATTAAAATTAAAATTATCAATTATTGAATTAT
* * * * * *
20859831 AAAATGAAGTAACATAGTAATTGATTGTTTTAGAACAATAACAATTATCAATTACTACATTT
1 AAAATAAAGTAACACAGTAATTGATTGTTTTAAAATAATAACATTTATCAATTACTGCATTT
20859893 AGAAAAAACA
Statistics
Matches: 268, Mismatches: 43, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
125 7 0.03
126 157 0.59
127 102 0.38
128 2 0.01
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (127 bp):
AAAATAAAGTAACACAGTAATTGATTGTTTTAAAATAATAACATTTATCAATTACTGCATTTTAA
AACAAAGAAACACAAATAATTGATCATTTGATTAAAATTAAAATTATCAATTATTGAATTAT
Found at i:20860224 original size:90 final size:90
Alignment explanation
Indices: 20860123--20860287 Score: 269
Period size: 90 Copynumber: 1.8 Consensus size: 90
20860113 AGATCTCATT
*
20860123 AAGGCAGCCTTTAAAAGGTAAAACTTTAAAGCTACTTTGAAGTTTGAAGACGAA-TACACCGCAT
1 AAGGCAGCCTTTAAAAGGTAAAACTTTAAAGCTACTTTAAAGTTTGAAG-CGAACTACACCGCAT
20860187 GGTAATCAAGCCTCGTGTCAAACAAG
65 GGTAATCAAGCCTCGTGTCAAACAAG
** **
20860213 AAGGCAGCCTTTAAAAGGTAAAACTTTAAAGCTACTTTAAAGTTTGAAGTTAACTACATGGCATG
1 AAGGCAGCCTTTAAAAGGTAAAACTTTAAAGCTACTTTAAAGTTTGAAGCGAACTACACCGCATG
20860278 GTAATCAAGC
66 GTAATCAAGC
20860288 ATTCTATCAA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
89 2 0.03
90 67 0.97
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (90 bp):
AAGGCAGCCTTTAAAAGGTAAAACTTTAAAGCTACTTTAAAGTTTGAAGCGAACTACACCGCATG
GTAATCAAGCCTCGTGTCAAACAAG
Found at i:20863739 original size:29 final size:29
Alignment explanation
Indices: 20863675--20863739 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
20863665 TATAATTTTT
*
20863675 TAATAT-AAACTAATAAAAATAAAGCAAAA
1 TAATATAAAAATAATAAAAATAAA-CAAAA
* *
20863704 TATTATAAAAATAATAAAATTAAA-AAAA
1 TAATATAAAAATAATAAAAATAAACAAAA
20863732 TAGATATA
1 TA-ATATA
20863740 GTACTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 6 0.20
29 9 0.30
30 15 0.50
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (29 bp):
TAATATAAAAATAATAAAAATAAACAAAA
Found at i:20873129 original size:7 final size:7
Alignment explanation
Indices: 20873117--20873141 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20873107 TGATTGAGGT
20873117 TTTATTA
1 TTTATTA
20873124 TTTATTA
1 TTTATTA
20873131 TTTATTA
1 TTTATTA
20873138 TTTA
1 TTTA
20873142 ATTAAGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:20873544 original size:17 final size:17
Alignment explanation
Indices: 20873509--20873553 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
20873499 AACCCATTAT
* *
20873509 TTTTATT-TTTATTTTA
1 TTTTATTATTTATATAA
20873525 TTTTATTATTTATATAA
1 TTTTATTATTTATATAA
*
20873542 TTTTATAATTTA
1 TTTTATTATTTA
20873554 ATATTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATTATTTATATAA
Found at i:20874697 original size:14 final size:14
Alignment explanation
Indices: 20874657--20874708 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 14
20874647 GGTTTAGGTA
* *
20874657 ATTTTATATTTTTT
1 ATTTTTTATTATTT
20874671 GATTTTTTA-TATTT
1 -ATTTTTTATTATTT
20874685 ATTTTTTATTA-TT
1 ATTTTTTATTATTT
20874698 ATTTTGTTATT
1 ATTTT-TTATT
20874709 TAGTTTCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 15 0.45
14 11 0.33
15 7 0.21
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (14 bp):
ATTTTTTATTATTT
Found at i:20875988 original size:3 final size:3
Alignment explanation
Indices: 20875967--20876006 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
20875957 CATATGGGCC
*
20875967 TAT TTT TAT T-T TCAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T
20876007 TGGTTTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.88
4 2 0.06
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:20877046 original size:59 final size:59
Alignment explanation
Indices: 20876954--20877372 Score: 434
Period size: 59 Copynumber: 6.9 Consensus size: 59
20876944 AAAAGGTTTA
* *
20876954 AAAAAAT-ATTTTTAGAGAAATGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTTT
1 AAAAAATAATTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTTT
** *
20877013 AAAAAATAATTTTGAGGAAAAGTTGAAAGTATCAA-TTTCTCTTGAAAATAAAAAGATTTA
1 AAAAAATAATTTTGAGGAAAAGTTGAAAGTATCAATTTTC-CTTGAAAAT-AAAATTTTTT
* * * *
20877073 AAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATAAATTTTTCTTGAAAATAAAATTTTTTT
1 AAAAAATA-ATTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA-TTTTTT
* * * *
20877135 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTTG
1 AAAAAATAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTTT
* * * **
20877194 AAAAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAAGGTTTTAA
1 AAAAAATAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAA--TTTTTT
* ***
20877256 AAAAAATATTTTTGAAGG-AAAGTTGAAAGTATCAA-TTTCACTTGAAAATAAAAAGGTTT
1 AAAAAATAATTTTG-AGGAAAAGTTGAAAGTATCAATTTTC-CTTGAAAATAAAATTTTTT
* * * * *
20877315 AAAAATATTATTTTTAGGAAAAATTTGAAAGTATCAATTTT-TTTTAAAAGTAAAATTT
1 AAAAA-ATAATTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAAATTT
20877373 CTAAAATAAA
Statistics
Matches: 304, Mismatches: 39, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
58 4 0.01
59 93 0.31
60 71 0.23
61 48 0.16
62 82 0.27
63 6 0.02
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (59 bp):
AAAAAATAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTTT
Found at i:20877133 original size:19 final size:19
Alignment explanation
Indices: 20877097--20877132 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20877087 TAGGAAAAAG
*
20877097 TTGAAAGTATAAATTTTTC
1 TTGAAAATATAAATTTTTC
20877116 TTGAAAATA-AAATTTTT
1 TTGAAAATATAAATTTTT
20877133 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (19 bp):
TTGAAAATATAAATTTTTC
Found at i:20877242 original size:181 final size:176
Alignment explanation
Indices: 20876950--20877554 Score: 627
Period size: 181 Copynumber: 3.3 Consensus size: 176
20876940 AATAAAAAGG
* * * * *
20876950 TTTAAAAAAATATTTTTAGAGAAATGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTTTAA
1 TTTAAAAATATATTTTTAG-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTTAAA
*
20877015 AAAATAATTTTGAGGAAAAGTTGAAAGTATCAA-TTTCTCTTGAAAATAAAAAGATTTAAAAAAA
65 AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATAAAAAGATTTAAAAAAA
* *
20877079 AATATTTTTAGGAAAAAGTTGAAAGTATAAATTTTTCTTGAAAATAAAA
129 AATATTTTT-GGAAAAAGTTGAAAGTATCAATTTTACTTGAAAATAAAA
20877128 TTTTTTTAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
1 ----TTTAAAAATATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
* * * *
20877192 TGAAAAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAAGGTTTTAAA
61 TAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAAGATTTAAAA
*
20877257 AAAAATATTTTT-GAAGGAAAGTTGAAAGTATCAATTTCACTTGAAAATAAAAA
126 AAAAATATTTTTGGAA--AAAGTTGAAAGTATCAATTTTACTTGAAAAT-AAAA
* * *
20877310 GGTTTAAAAATATTATTTTTAGGAAAAATTTGAAAGTATCAATTTTTTTTAAAAGTAAAATTTCT
1 --TTTAAAAATA-TATTTTTAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAA--T-T
* * * *
20877375 AAAATAAAAATTAAAAAAAACATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCG-AAAT-T
59 ----T-----TT-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAA
* * * * * *
20877438 AAA-ATTTCAAAAAAAAAAATTTTTGGGAAAAGTTGGAAGTACCAATTTTCCTTAAAAATAAAA
114 AAAGATTT-AAAAAAAAATATTTTTGGAAAAAGTTGAAAGTATCAATTTTACTTGAAAATAAAA
20877501 ---AAAAATATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAA
1 TTTAAAAATATAT-TTTT-AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAA
20877555 ACTCCCAAAT
Statistics
Matches: 364, Mismatches: 34, Indels: 47
0.82 0.08 0.11
Matches are distributed among these distances:
179 3 0.01
180 8 0.02
181 144 0.40
182 59 0.16
184 1 0.00
185 12 0.03
186 35 0.10
187 3 0.01
189 1 0.00
191 4 0.01
192 29 0.08
193 17 0.05
194 8 0.02
195 40 0.11
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.36
Consensus pattern (176 bp):
TTTAAAAATATATTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTTAAAA
AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAAGATTTAAAAAAAAA
TATTTTTGGAAAAAGTTGAAAGTATCAATTTTACTTGAAAATAAAA
Found at i:20877379 original size:59 final size:59
Alignment explanation
Indices: 20876950--20877554 Score: 431
Period size: 59 Copynumber: 9.9 Consensus size: 59
20876940 AATAAAAAGG
* *
20876950 TTTAAAAAAATATTTTTA-GAGAAATGTTGAAAGTATCAATTTTCCTTGAAAATAAAA-TT
1 TTTAAAAAAATATTTTTAGGA-AAAAGTTGAAAGTATCAATTTT-TTTGAAAATAAAAGTT
* * *
20877009 TTTTAAAAAATAATTTTGAGG-AAAAGTTGAAAGTATCAATTTCTCTTGAAAATAAAAAGATT
1 TTTAAAAAAAT-ATTTTTAGGAAAAAGTTGAAAGTATCAATTT-TTTTGAAAAT-AAAAG-TT
** * *
20877071 TAAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATAAATTTTTCTTGAAAATAAAATTT
1 TTTAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTT-TTGAAAATAAAAGTT
* *
20877131 TTTTAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAA-TT
1 TTTAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTT-TTGAAAATAAAAGTT
* *
20877190 TTTGAAAAAATATTTTTGAGG-GAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAAGGTT
1 TTTAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTT-TTTGAAAAT-AAAA-GTT
* ** *
20877252 TTAAAAAAAATATTTTT--GAAGGAAAGTTGAAAGTATCAATTTCACTTGAAAATAAAAAG-G
1 TTTAAAAAAATATTTTTAGGAA--AAAGTTGAAAGTATCAATTT-TTTTGAAAAT-AAAAGTT
* * * *
20877312 TTTAAAAATATTATTTTTAGGAAAAATTTGAAAGTATCAATTTTTTTTAAAAGTAAAATTTCT
1 TTTAAAAA-AATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTTTGAAAA-TAAAA-GT-T
* * *
20877375 AAAATAAAAATTAAAAAAAACATTTTT-GAGAAAAAGTTGAAAGTATCAATTTTCTTCGAAATTA
1 ----T-----TT-AAAAAAATATTTTTAG-GAAAAAGTTGAAAGTATCAATTTT-TTTGAAAATA
20877439 AAA-TT
54 AAAGTT
** * * * * * *
20877444 TCAAAAAAAAAAATTTTT-GGGAAAAGTTGGAAGTACCAATTTTCCTTAAAAATAAAA---
1 T-TTAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTT-TTTGAAAATAAAAGTT
*
20877501 ---AAAAATATATATTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAA
1 TTTAAAAA-A-ATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTT-TTGAAAATAAAA
20877555 ACTCCCAAAT
Statistics
Matches: 452, Mismatches: 54, Indels: 85
0.76 0.09 0.14
Matches are distributed among these distances:
53 5 0.01
54 10 0.02
55 28 0.06
56 2 0.00
59 121 0.27
60 97 0.21
61 46 0.10
62 88 0.19
63 3 0.01
65 1 0.00
67 1 0.00
69 1 0.00
70 1 0.00
71 1 0.00
72 37 0.08
73 10 0.02
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.36
Consensus pattern (59 bp):
TTTAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAAAGTT
Found at i:20877389 original size:72 final size:72
Alignment explanation
Indices: 20877324--20877458 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 72
20877314 TAAAAATATT
* * * * *
20877324 ATTTTT-AGGAAAAATTTGAAAGTATCAATTTTTTTTAAAAGTAAAATTTCTAAAATAAAAATTA
1 ATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCTTCAAAAGTAAAATTTCAAAAAAAAAAATTA
20877388 AAAAAAAC
65 AAAAAAAC
* *
20877396 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAATTTCAAAAAAAAAAATT
1 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAGTAAAATTTCAAAAAAAAAAATT
20877459 TTTGGGAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 54 0.98
73 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (72 bp):
ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAGTAAAATTTCAAAAAAAAAAATTAA
AAAAAAC
Found at i:20877429 original size:55 final size:56
Alignment explanation
Indices: 20877370--20877555 Score: 184
Period size: 55 Copynumber: 3.3 Consensus size: 56
20877360 AAAAGTAAAA
* *
20877370 TTTC-TAAAATAAAAATTAAAAAAAACATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTCTTAAAATAAAAATTAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * *
20877425 TTTCTTCGAAATTAAAATTTCAAAAAAAAAAATTTTTG-GGAAAAGTTGGAAGTACCAAT
1 TTTCTT--AAAATAAAAATT--AAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * *
20877484 TTTCCTTAAAA-ATAAA--AAAAAATATATATTTTAAGGAAAAGTTGAAAGTATCAATT
1 TTT-CTTAAAATAAAAATTAAAAAAAAAAT-TTTTGAGGAAAAGTTGAAAGTATCAA-T
20877540 TTTCTTAAAATAAAAA
1 TTTCTTAAAATAAAAA
20877556 CTCCCAAATG
Statistics
Matches: 106, Mismatches: 15, Indels: 19
0.76 0.11 0.14
Matches are distributed among these distances:
53 9 0.08
54 4 0.04
55 29 0.27
56 9 0.08
57 3 0.03
58 13 0.12
59 21 0.20
60 18 0.17
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (56 bp):
TTTCTTAAAATAAAAATTAAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:20888084 original size:19 final size:18
Alignment explanation
Indices: 20888047--20888089 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
20888037 TACTATGCTT
20888047 AAAAAAAAAGAAAAAAAA
1 AAAAAAAAAGAAAAAAAA
*
20888065 AGAAAAAAGAGAAAGGAAAAA
1 A-AAAAAAAAGAAA--AAAAA
20888086 AAAA
1 AAAA
20888090 GAACTAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 3 0.14
21 6 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAA
Found at i:20888088 original size:24 final size:25
Alignment explanation
Indices: 20888047--20888112 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
20888037 TACTATGCTT
20888047 AAAA-AAAAA-GAAAAAAAAAGAA-
1 AAAAGAAAAAGGAAAAAAAAAGAAC
*
20888069 AAAAGAGAAAGGAAAAAAAAAGAAC
1 AAAAGAAAAAGGAAAAAAAAAGAAC
*
20888094 TAAATGAAAAAGGAAAAAA
1 -AAAAGAAAAAGGAAAAAA
20888113 TAAAAGGAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 4 0.11
23 4 0.11
24 13 0.35
26 16 0.43
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.03
Consensus pattern (25 bp):
AAAAGAAAAAGGAAAAAAAAAGAAC
Found at i:20889194 original size:44 final size:44
Alignment explanation
Indices: 20889126--20889404 Score: 328
Period size: 44 Copynumber: 6.3 Consensus size: 44
20889116 GATTTTCAAA
* * *
20889126 GAGCCTTGTTTATTTTTTCAAAGTCATTGAGCTTCTGTTTAGAG
1 GAGCCTTGTTTATTTTTCCAAAGTCGTTGAGCTTCTGATTAGAG
* *
20889170 GAGCTTTGTTTATTTTTCCAAAGTCGTTGAG-TCTCTGATTAGAA
1 GAGCCTTGTTTATTTTTCCAAAGTCGTTGAGCT-TCTGATTAGAG
* * * * * *
20889214 GAGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAAAA
1 GAGCCTTGTTTATTTTTCCAAAGTCGTTGAGCTTCTGATTAGAG
* *
20889258 GAGCTTTGTTTATTTTTCCAAAGTTGTTGAGCCTT-TGATTAGAG
1 GAGCCTTGTTTATTTTTCCAAAGTCGTTGAG-CTTCTGATTAGAG
* * * *
20889302 AAGCCTTGTTTATTTTTCCAAAGTTGTTGAGCCTCTGTTTAGAG
1 GAGCCTTGTTTATTTTTCCAAAGTCGTTGAGCTTCTGATTAGAG
* *
20889346 GAGCCTTGTTTATTTTTTCAAAGTCGTTGACCTTCTGATTAGAG
1 GAGCCTTGTTTATTTTTCCAAAGTCGTTGAGCTTCTGATTAGAG
* * *
20889390 AAGCTTTATTTATTT
1 GAGCCTTGTTTATTT
20889405 GCCTAAAGTT
Statistics
Matches: 199, Mismatches: 32, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
43 3 0.02
44 194 0.97
45 2 0.01
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (44 bp):
GAGCCTTGTTTATTTTTCCAAAGTCGTTGAGCTTCTGATTAGAG
Found at i:20889273 original size:88 final size:88
Alignment explanation
Indices: 20889127--20889404 Score: 398
Period size: 88 Copynumber: 3.2 Consensus size: 88
20889117 ATTTTCAAAG
* * *
20889127 AGCCTTGTTTATTTTTTCAAAGTCATTGAGCTTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAA
1 AGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAA
*
20889192 GTCGTTGAGTCTCTGATTAGA-A
66 GTCGTTGAGCCTCTGATTAGAGA
* *
20889214 GAGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAAAAGAGCTTTGTTTATTTTTCCAA
1 -AGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAA
* *
20889279 AGTTGTTGAGCCTTTGATTAGAGA
65 AGTCGTTGAGCCTCTGATTAGAGA
* * * * *
20889303 AGCCTTGTTTATTTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTGTTTATTTTTTCAAA
1 AGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAA
20889368 GTCGTTGA-CCTTCTGATTAGAGA
66 GTCGTTGAGCC-TCTGATTAGAGA
*
20889391 AGCTTTATTTATTT
1 AGCCTTATTTATTT
20889405 GCCTAAAGTT
Statistics
Matches: 169, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 2 0.01
88 166 0.98
89 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (88 bp):
AGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAA
GTCGTTGAGCCTCTGATTAGAGA
Found at i:20889360 original size:132 final size:132
Alignment explanation
Indices: 20889123--20889375 Score: 382
Period size: 132 Copynumber: 1.9 Consensus size: 132
20889113 CATGATTTTC
* * * *
20889123 AAAGAGCCTTGTTTATTTTTTCAAAGTCATTGAGCTTCTGTTTAGAGGAGCTTTGTTTATTTTTC
1 AAAGAGCCTTGTTTATTTTTCCAAAGTCATTGAGCTTCTGATTAGAGAAGCCTTGTTTATTTTTC
*
20889188 CAAAGTCGTTGAGTCTCTGATTAGAAGAGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTT
66 CAAAGTCGTTGAGCCTCTGATTAGAAGAGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTT
20889253 TA
131 TA
* **
20889255 AAAGAGCTTTGTTTATTTTTCCAAAGTTGTTGAGCCTT-TGATTAGAGAAGCCTTGTTTATTTTT
1 AAAGAGCCTTGTTTATTTTTCCAAAGTCATTGAG-CTTCTGATTAGAGAAGCCTTGTTTATTTTT
* * * *
20889319 CCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTGTTTATTTTTTCAAAGTCGTTGA
65 CCAAAGTCGTTGAGCCTCTGATTAGAAGAGCCTTATTTATTTTTTCAAAGTCGTTGA
20889376 CCTTCTGATT
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
132 105 0.97
133 3 0.03
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.44
Consensus pattern (132 bp):
AAAGAGCCTTGTTTATTTTTCCAAAGTCATTGAGCTTCTGATTAGAGAAGCCTTGTTTATTTTTC
CAAAGTCGTTGAGCCTCTGATTAGAAGAGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTT
TA
Found at i:20889395 original size:132 final size:132
Alignment explanation
Indices: 20889123--20889404 Score: 381
Period size: 132 Copynumber: 2.1 Consensus size: 132
20889113 CATGATTTTC
* * * * *
20889123 AAAGAGCCTTGTTTATTTTTTCAAAGTCATTGAGCTTCTGTTTAGAGGAGCTTTGTTTATTTTTC
1 AAAGAGCTTTGTTTATTTTTCCAAAGTCATTGAGCTTCTGATTAGAGAAGCCTTGTTTATTTTTC
* *
20889188 CAAAGTCGTTGAGTCTCTGATTAGAAGAGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTT
66 CAAAGTCGTTGAGCCTCTGATTAGAAGAGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGAT
20889253 TA
131 TA
**
20889255 AAAGAGCTTTGTTTATTTTTCCAAAGTTGTTGAGCCTT-TGATTAGAGAAGCCTTGTTTATTTTT
1 AAAGAGCTTTGTTTATTTTTCCAAAGTCATTGAG-CTTCTGATTAGAGAAGCCTTGTTTATTTTT
* * * *
20889319 CCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTGTTTATTTTTTCAAAGTCGTTGA-CCTTCTG
65 CCAAAGTCGTTGAGCCTCTGATTAGAAGAGCCTTATTTATTTTTTCAAAGTCGTTGAGCC-TCTG
20889383 ATT-
129 ATTA
* *
20889386 AGAGAAGCTTTATTTATTT
1 AAAG-AGCTTTGTTTATTT
20889405 GCCTAAAGTT
Statistics
Matches: 132, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
131 5 0.04
132 124 0.94
133 3 0.02
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (132 bp):
AAAGAGCTTTGTTTATTTTTCCAAAGTCATTGAGCTTCTGATTAGAGAAGCCTTGTTTATTTTTC
CAAAGTCGTTGAGCCTCTGATTAGAAGAGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGAT
TA
Found at i:20889413 original size:88 final size:87
Alignment explanation
Indices: 20889152--20889437 Score: 330
Period size: 88 Copynumber: 3.3 Consensus size: 87
20889142 TTCAAAGTCA
* *
20889152 TTGAGCTTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAAGTCGTTGA-GTCTCTGATTAGA-AG
1 TTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAAGTCGTTGACCT-TCTGATTAGAGA-
** *
20889215 AGCCTTATTTATTTTTTCAAAGTCG
64 AGCCTTATTTATTTCCT-AAAGTTG
* * *
20889240 TTGAGCCTCTGTTTAAAAGAGCTTTGTTTATTTTTCCAAAGTTGTTGAGCCTT-TGATTAGAGAA
1 TTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAAGTCGTTGA-CCTTCTGATTAGAGAA
*
20889304 GCCTTGTTTATTTTTCC-AAAGTTG
65 GCCTTATTTA--TTTCCTAAAGTTG
* *
20889328 TTGAGCCTCTGTTTAGAGGAGCCTTGTTTATTTTTTCAAAGTCGTTGACCTTCTGATTAGAGAAG
1 TTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAAGTCGTTGACCTTCTGATTAGAGAAG
*
20889393 CTTTATTTATTTGCCTAAAGTT-
66 CCTTATTTATTT-CCTAAAGTTG
* **
20889415 TTGTTGCCTCCATTTAGAGGAGC
1 TTG-AGCCTCTGTTTAGAGGAGC
20889438 AATTTATTTT
Statistics
Matches: 170, Mismatches: 19, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
86 3 0.02
87 9 0.05
88 152 0.89
89 2 0.01
90 4 0.02
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (87 bp):
TTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAAGTCGTTGACCTTCTGATTAGAGAAG
CCTTATTTATTTCCTAAAGTTG
Found at i:20889450 original size:88 final size:87
Alignment explanation
Indices: 20889127--20889457 Score: 285
Period size: 88 Copynumber: 3.8 Consensus size: 87
20889117 ATTTTCAAAG
* ** ** * ** * *
20889127 AGCCTTGTTTATTTTTTCAAAGTCATTGAGCTTCTGTTTAGAGGAGCTTTGTTTATTTTTCCAAA
1 AGCCTTATTTATTTTGCCAAAGTTGTTGAGCCTCCATTTAGAGGAGCATTG-TTATTTTTTCAAA
* *
20889192 GTCGTTGAGTCTCTGATTAGA-A
65 GTCGTTGAGCCTTTGATTAGAGA
** * ** * * * *
20889214 GAGCCTTATTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAAAAGAGCTTTGTTTATTTTTCCAA
1 -AGCCTTATTTATTTTGCCAAAGTTGTTGAGCCTCCATTTAGAGGAGCATTG-TTATTTTTTCAA
*
20889279 AGTTGTTGAGCCTTTGATTAGAGA
64 AGTCGTTGAGCCTTTGATTAGAGA
* * ** *
20889303 AGCCTTGTTTATTTTTCCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTGTTTATTTTTTCAAA
1 AGCCTTATTTATTTTGCCAAAGTTGTTGAGCCTCCATTTAGAGGAGCATTG-TTATTTTTTCAAA
20889368 GTCGTTGA-CCTTCTGATTAGAGA
65 GTCGTTGAGCCTT-TGATTAGAGA
* * *
20889391 AGCTTTATTTA-TTTGCCTAAAGTT-TTGTTGCCTCCATTTAGAGGAGCAAT-TTATTTTTTTCA
1 AGCCTTATTTATTTTGCC-AAAGTTGTTG-AGCCTCCATTTAGAGGAGCATTGTTA-TTTTTTCA
20889453 AAGTC
63 AAGTC
20889458 ATGTTACCTC
Statistics
Matches: 214, Mismatches: 24, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
86 3 0.01
87 25 0.12
88 185 0.86
89 1 0.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (87 bp):
AGCCTTATTTATTTTGCCAAAGTTGTTGAGCCTCCATTTAGAGGAGCATTGTTATTTTTTCAAAG
TCGTTGAGCCTTTGATTAGAGA
Found at i:20889727 original size:3 final size:3
Alignment explanation
Indices: 20889719--20889751 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
20889709 TTTTATTTTC
20889719 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20889752 TTTGGTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:20889736 original size:21 final size:20
Alignment explanation
Indices: 20889711--20889796 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 20
20889701 GGGCCCTTTT
20889711 TTATTTTCATTATTATTATTA
1 TTATTTT-ATTATTATTATTA
*
20889732 TTATTATTATTATTATTATTT
1 TTATT-TTATTATTATTATTA
** *
20889753 TTGGTTTATCTATTATCAATT-
1 TTATTTTAT-TATTAT-TATTA
*
20889774 TTGTTTTAATTATTATTATTA
1 TTATTTT-ATTATTATTATTA
20889795 TT
1 TT
20889797 TATATATGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
20 7 0.13
21 40 0.74
22 7 0.13
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (20 bp):
TTATTTTATTATTATTATTA
Found at i:20890768 original size:59 final size:58
Alignment explanation
Indices: 20890686--20891222 Score: 509
Period size: 59 Copynumber: 8.9 Consensus size: 58
20890676 AAAGGGTTTT
*
20890686 AAAAAAATATTTTT-AGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTAA
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTT-A
* * * *
20890745 AAAAAAATATTTTTGAGGGAAAGTTGAAAATATCAATTTTCCTTGAAAATAAAATTTTT
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA-TTTA
* * *
20890804 AAAAAAATACTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAAAAGGTTT-
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAA--TTTA
* * **
20890864 AGAAAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTCCCTTGAAAATAAAAAGGTTTA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAA--TTTA
* * *
20890925 AAAAAAGTATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTTTT
1 AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAA-ATTTA
* *
20890984 TAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAGTAAAATTTCTAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA-TT-T-A
* * *
20891045 AATAAAAATTTTAAAAAAATATTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAA
1 AA-AAAAA---T------AT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
20891110 TTTCCAA
55 TTT---A
* * *
20891117 AAAAAAATATTTTTGGGGAAAAGTTGGAAGTACCAATTTTTCTT----A-AAAA--TA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTA
* * *
20891168 AAAAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAAAAA
1 AAAAAAATAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
20891223 ACTCCCAAAT
Statistics
Matches: 407, Mismatches: 41, Indels: 62
0.80 0.08 0.12
Matches are distributed among these distances:
51 11 0.03
52 30 0.07
54 1 0.00
56 5 0.01
57 4 0.01
59 146 0.36
60 70 0.17
61 76 0.19
62 7 0.02
65 1 0.00
68 1 0.00
70 1 0.00
71 9 0.02
72 45 0.11
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTA
Found at i:20891077 original size:72 final size:73
Alignment explanation
Indices: 20890970--20891124 Score: 233
Period size: 72 Copynumber: 2.2 Consensus size: 73
20890960 ATTTTTCTTG
** * * *
20890970 AAAATAAATTTTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAGTA
1 AAAATAAAAATTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAAGTA
*
20891035 AAATTTCT
66 AAATTTCC
*
20891043 AAAATAAAAATTTTAAAAAAATA-TTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTA
1 AAAATAAAAATTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAAGTA
20891107 AAATTTCC
66 AAATTTCC
20891115 AAAA-AAAAAT
1 AAAATAAAAAT
20891125 ATTTTTGGGG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
71 6 0.08
72 49 0.65
73 20 0.27
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (73 bp):
AAAATAAAAATTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAAGTA
AAATTTCC
Found at i:20891122 original size:192 final size:186
Alignment explanation
Indices: 20890849--20891212 Score: 459
Period size: 192 Copynumber: 1.9 Consensus size: 186
20890839 ATTTTCCTTG
* * * *
20890849 AAAATAAAAAGGTTTAGAAAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTCCCTTGAAAAT
1 AAAATAAAAAGGTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTCCCTCGAAAAT
* * *
20890914 AAAAAGGTTTAAAAAAAGTATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAT
66 AAAAA-GTTTAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAA-
*
20890979 TTTTTTAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAGTAAAATTTCT
129 ------AAAAATATA-TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAGTAAAATTTCT
* **
20891043 AAAATAAAAA-TTTTAAAAAAATA-TTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCG-AAAT
1 AAAATAAAAAGGTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTCCCTCGAAAAT
* * *
20891105 TAAAA-TTTCCAAAAAAAAATATTTTTGGGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAA
66 AAAAAGTTT---AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAA
20891169 AAAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
128 AAAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
20891213 AAAAAAAAAA
Statistics
Matches: 152, Mismatches: 14, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
185 38 0.25
186 3 0.02
189 3 0.02
191 8 0.05
192 79 0.52
193 11 0.07
194 10 0.07
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.35
Consensus pattern (186 bp):
AAAATAAAAAGGTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTCCCTCGAAAAT
AAAAAGTTTAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAA
AAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAGTAAAATTTCT
Found at i:20891131 original size:61 final size:53
Alignment explanation
Indices: 20891057--20891266 Score: 150
Period size: 52 Copynumber: 3.8 Consensus size: 53
20891047 TAAAAATTTT
*
20891057 AAAAAAATA-TTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCCAA
1 AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTC----TTAAAA-AT---A
** * *
20891117 AAAAAAATATTTTTGGGGAAAAGTTGGAAGTACCAA-TTTT-TCTTAAAAATA
1 AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCTTAAAAATA
20891168 AAAAAAATATATTTT-AAGGAAAAGTTGAAAGTATCAA-TTTT-TCTTAAAAA-A
1 AAAAAAATAT-TTTTGAA-GAAAAGTTGAAAGTATCAATTTTTCTCTTAAAAATA
*
20891219 AAAAACTCCCAA-ATGCTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCT
1 AAAAA-----AATAT-TTTTGAA-GAAAAGTTGAAAGTATCAATTTTTCT
20891267 TGTACAAAAG
Statistics
Matches: 129, Mismatches: 11, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
51 17 0.13
52 34 0.26
54 1 0.01
55 33 0.26
56 6 0.05
57 1 0.01
59 2 0.02
60 13 0.10
61 22 0.17
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (53 bp):
AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCTTAAAAATA
Found at i:20891148 original size:133 final size:134
Alignment explanation
Indices: 20890909--20891170 Score: 359
Period size: 133 Copynumber: 2.0 Consensus size: 134
20890899 ATTTCCCTTG
* * *
20890909 AAAATAAAAAGGTTTAAAAAAAGTATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAA
1 AAAATAAAAAGGTTTAAAAAAAGTATTTTGAGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAAA
**** * * *
20890974 TAAATTTTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAGTAAAAT
66 TAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAT
20891039 TTCT
131 TTCT
* *
20891043 AAAATAAAAA-TTTTAAAAAAA-TATTTTGA-AGAAAAGTTGAAAGTATCAATTTTTCTCGAAAT
1 AAAATAAAAAGGTTTAAAAAAAGTATTTTGAGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAAA
* *
20891105 TAAAATTTCCAAAAAAAAATATTTTTGGGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATAAA
66 T-AAATTT-CAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAA
20891170 A
129 A
20891171 AAAATATATT
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
131 31 0.28
132 13 0.12
133 58 0.52
134 10 0.09
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (134 bp):
AAAATAAAAAGGTTTAAAAAAAGTATTTTGAGAGAAAAGTTGAAAGTATCAATTTTTCTCGAAAA
TAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAT
TTCT
Found at i:20891190 original size:52 final size:50
Alignment explanation
Indices: 20891057--20891267 Score: 183
Period size: 55 Copynumber: 3.9 Consensus size: 50
20891047 TAAAAATTTT
*
20891057 AAAAAAATATTTTGAA-GAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCCAA
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAA-TTTT-TC----TTAAAA-----AA
** * *
20891117 AAAAAAATATTTTTGGGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAATA
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAA-A
20891168 AAAAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAA
1 AAAAAAATAT-TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAA
*
20891219 AAAAACTCCCAA-ATGCTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAA-----AATAT-TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
20891268 GTACAAAAGT
Statistics
Matches: 132, Mismatches: 11, Indels: 21
0.80 0.07 0.13
Matches are distributed among these distances:
50 1 0.01
51 17 0.13
52 35 0.27
55 41 0.31
56 2 0.02
59 2 0.02
60 17 0.13
61 17 0.13
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (50 bp):
AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAA
Found at i:20891246 original size:55 final size:52
Alignment explanation
Indices: 20891116--20891267 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 52
20891106 AAAATTTCCA
* ** * *
20891116 AAAAAAAATAT-TTTTGGGGAAAAGTTGGAAGTACCAATTTTTCTTAAAAAT
1 AAAAAAAATATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
*
20891167 AAAAAAAATATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAA-
1 AAAAAAAATATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
*
20891218 AAAAAACTCCCAA-ATGCTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAA-----AATATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
20891268 GTACAAAAGT
Statistics
Matches: 89, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
51 17 0.19
52 35 0.39
55 35 0.39
56 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (52 bp):
AAAAAAAATATACTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
Found at i:20891351 original size:13 final size:14
Alignment explanation
Indices: 20891333--20891365 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
20891323 TCATTATATC
20891333 TCTTTTT-TTTATT
1 TCTTTTTATTTATT
*
20891346 TCTTTTTATTTTTT
1 TCTTTTTATTTATT
20891360 TCTTTT
1 TCTTTT
20891366 GTTGAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (14 bp):
TCTTTTTATTTATT
Found at i:20899222 original size:2 final size:2
Alignment explanation
Indices: 20899215--20899240 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20899205 GACGATCAAC
20899215 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20899241 GAATACGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20899512 original size:63 final size:63
Alignment explanation
Indices: 20899413--20899538 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
20899403 ATCTAAAGTT
20899413 GATTCATTTATATGCCTTAATTCAAAGAGATATGTATTACTTTAGTGGGTCAAACATTTGTCA
1 GATTCATTTATATGCCTTAATTCAAAGAGATATGTATTACTTTAGTGGGTCAAACATTTGTCA
* *
20899476 GATTCATTTATATGCCTTAATTCATAGAGATATGTATTACTTTAGTGGGTCAGACATTTGTCA
1 GATTCATTTATATGCCTTAATTCAAAGAGATATGTATTACTTTAGTGGGTCAAACATTTGTCA
20899539 AAATGATAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (63 bp):
GATTCATTTATATGCCTTAATTCAAAGAGATATGTATTACTTTAGTGGGTCAAACATTTGTCA
Found at i:20902110 original size:3 final size:3
Alignment explanation
Indices: 20902102--20902137 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
20902092 TCACAATTAA
20902102 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20902138 GATATATGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20908287 original size:12 final size:13
Alignment explanation
Indices: 20908260--20908288 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20908250 ATATAGCTTG
20908260 TATAAATATATAT
1 TATAAATATATAT
20908273 TATAAATAT-TAT
1 TATAAATATATAT
20908285 TATA
1 TATA
20908289 TATAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAAATATATAT
Found at i:20909161 original size:63 final size:63
Alignment explanation
Indices: 20909062--20909189 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
20909052 CAACCTTAAG
20909062 CAGATTCATTTATATGCCTTAATTCAAAGAGATATGTATTACTTTAGTGGGTCAGACATTTGT
1 CAGATTCATTTATATGCCTTAATTCAAAGAGATATGTATTACTTTAGTGGGTCAGACATTTGT
* *
20909125 CAGATTCATTTGTATGCCTTAATTCACAGAGATATGTATTACTTTAGTGGGTCAGACATTTGT
1 CAGATTCATTTATATGCCTTAATTCAAAGAGATATGTATTACTTTAGTGGGTCAGACATTTGT
20909188 CA
1 CA
20909190 AAATGATAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (63 bp):
CAGATTCATTTATATGCCTTAATTCAAAGAGATATGTATTACTTTAGTGGGTCAGACATTTGT
Found at i:20913221 original size:19 final size:18
Alignment explanation
Indices: 20913172--20913223 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 18
20913162 TATTTAATAT
20913172 TAAAATACATAAAAAATAAA
1 TAAAATA-A-AAAAAATAAA
20913192 TGAAAGCATAAAAAAATATAAA
1 T-AAA--ATAAAAAAA-ATAAA
20913214 TAAAATAAAA
1 TAAAATAAAA
20913224 TTTACCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 6 0.21
20 1 0.04
21 11 0.39
22 7 0.25
23 3 0.11
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (18 bp):
TAAAATAAAAAAAATAAA
Found at i:20916107 original size:52 final size:52
Alignment explanation
Indices: 20916004--20916107 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 52
20915994 TATAACCATA
* * * * * * *
20916004 TAAACTTGCTTATTAAGAATATCTTTCCTTTTAGAATTCTATTTTTGCAAGT
1 TAAACTTACCTATTAAAAATATATTTCCTCTTAAAATTCTATTTTTACAAGT
*
20916056 TAAACTTACCTATTAAAAATCTATTTCCTCTTAAAATTCT-TTTTCTACAAGT
1 TAAACTTACCTATTAAAAATATATTTCCTCTTAAAATTCTATTTT-TACAAGT
20916108 CTTCTTGTCC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 4 0.09
52 39 0.91
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.46
Consensus pattern (52 bp):
TAAACTTACCTATTAAAAATATATTTCCTCTTAAAATTCTATTTTTACAAGT
Found at i:20918441 original size:2 final size:2
Alignment explanation
Indices: 20918434--20918468 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
20918424 TATCTTTCAT
*
20918434 TA TA TA TA TC 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 TA TA TA T
20918469 GAATACGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20922508 original size:2 final size:2
Alignment explanation
Indices: 20922501--20922597 Score: 61
Period size: 2 Copynumber: 48.5 Consensus size: 2
20922491 ACATGTGACC
* * * * * *
20922501 TA TA TA TA TA TA TA TA TA TA TA TA CA CA CA CA CA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * ** *
20922543 TA TA TA TA TG TA CA -A CA TG TGA CC TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
20922585 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
20922598 TACAATTGTT
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
1 1 0.01
2 76 0.99
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.41
Consensus pattern (2 bp):
TA
Found at i:20923337 original size:29 final size:29
Alignment explanation
Indices: 20923289--20923372 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
20923279 TTCTACTTTT
* * *
20923289 ATTAAAAGTAGTCCTCTTAAAGAAATAAG
1 ATTAAAAGTACTCTTCTTAAAGAAATAAA
*
20923318 ATTAAAAGTACTCTTATTAAAGAAATAAA
1 ATTAAAAGTACTCTTCTTAAAGAAATAAA
20923347 ATTAAAAAGTACT-TTCTTATAAGAAA
1 ATT-AAAAGTACTCTTCTTA-AAGAAA
20923373 CAACTCGTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 33 0.69
30 15 0.31
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (29 bp):
ATTAAAAGTACTCTTCTTAAAGAAATAAA
Found at i:20924246 original size:39 final size:37
Alignment explanation
Indices: 20924161--20924246 Score: 93
Period size: 39 Copynumber: 2.3 Consensus size: 37
20924151 ATTTTATTTA
20924161 TATTT-TAAATAATTAAATTTAAATAAAAATAATTAT
1 TATTTATAAATAATTAAATTTAAATAAAAATAATTAT
* * * * *
20924197 TATATGATAAATGATTACTATTTGAATATAAATAGATTAT
1 TAT-TTATAAATAATTA-AATTTAAATAAAAATA-ATTAT
20924237 TATTTATAAA
1 TATTTATAAA
20924247 CGTCATGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
36 3 0.08
37 1 0.03
38 9 0.22
39 19 0.47
40 8 0.20
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (37 bp):
TATTTATAAATAATTAAATTTAAATAAAAATAATTAT
Found at i:20926171 original size:17 final size:17
Alignment explanation
Indices: 20926143--20926188 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
20926133 TAAAAGAATA
* *
20926143 AAAATAATAAAATTAAAT
1 AAAATAA-AAAATCAAAG
*
20926161 CAAATAAAAAATCAAAG
1 AAAATAAAAAATCAAAG
20926178 AAAATAAAAAA
1 AAAATAAAAAA
20926189 AATGATTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAATAAAAAATCAAAG
Found at i:20926178 original size:39 final size:37
Alignment explanation
Indices: 20926107--20926179 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 37
20926097 TATGAATATT
*
20926107 AAATAATAAATTAATCAAAATATAAATAAAAGAATAA
1 AAATAATAAATTAATCAAAATAAAAATAAAAGAATAA
*
20926144 AAATAATAAAATTAAATC-AAATAAAAAATCAAAGAA
1 AAATAAT-AAATT-AATCAAAAT-AAAAATAAAAGAA
20926180 AATAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 7 0.23
38 9 0.29
39 15 0.48
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (37 bp):
AAATAATAAATTAATCAAAATAAAAATAAAAGAATAA
Found at i:20931672 original size:23 final size:23
Alignment explanation
Indices: 20931646--20931695 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
20931636 GGCATCATAA
*
20931646 TGAGTGAATAGATGATGGATCAT
1 TGAGTGAACAGATGATGGATCAT
20931669 TGAGTGAACAGATGATGGATCAT
1 TGAGTGAACAGATGATGGATCAT
20931692 TGAG
1 TGAG
20931696 GCATCTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.06, G:0.32, T:0.28
Consensus pattern (23 bp):
TGAGTGAACAGATGATGGATCAT
Found at i:20935391 original size:18 final size:18
Alignment explanation
Indices: 20935338--20935392 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
20935328 AATGAAAACC
20935338 ATAAAACAAAGTGAAT-AA
1 ATAAAACAAA-TGAATAAA
*
20935356 AT-AAACAATTATGCATAAA
1 ATAAAACAA--ATGAATAAA
20935375 ATAAAACAAATGAATAAA
1 ATAAAACAAATGAATAAA
20935393 CAATCAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 6 0.19
18 14 0.45
19 5 0.16
20 6 0.19
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.20
Consensus pattern (18 bp):
ATAAAACAAATGAATAAA
Found at i:20936144 original size:42 final size:42
Alignment explanation
Indices: 20936060--20936227 Score: 214
Period size: 42 Copynumber: 4.0 Consensus size: 42
20936050 TTTTAAAGAA
* *
20936060 AAAAT-AACAAAGCTTCTCTAAATAGAGGCTCAATGACTTTTG
1 AAAATAAACAAAGCTTCTCTAAACAGAGGCTCAACGAC-TTTG
* *
20936102 AAAATAAACAAAGCTTCTCTAAATAGAGGCTCAACAACTTTG
1 AAAATAAACAAAGCTTCTCTAAACAGAGGCTCAACGACTTTG
* * *
20936144 AAAATAAATAAAGC-TCATCTAGACAGAGGCTCAACGACTTTA
1 AAAATAAACAAAGCTTC-TCTAAACAGAGGCTCAACGACTTTG
* * *
20936186 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAATGACTTTG
1 AAAATAAACAAAGCTTCTCTAAACAGAGGCTCAACGACTTTG
20936228 GAAAGCAAAT
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.02
42 77 0.70
43 31 0.28
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (42 bp):
AAAATAAACAAAGCTTCTCTAAACAGAGGCTCAACGACTTTG
Found at i:20936371 original size:42 final size:42
Alignment explanation
Indices: 20936198--20936467 Score: 246
Period size: 42 Copynumber: 6.5 Consensus size: 42
20936188 AATAAACAAA
* * * * * *
20936198 GCTCCTCTAAACAAAGGCTCAATGAC-TTTGGAAAGCAAATT
1 GCTCCTCTAAATAGAGGCACCATAACTTTTGGAAAGTAAATT
* *
20936239 GCTCCTCTAAATAAAGGCACCACAAC-TTT-GAAAGTAAATT
1 GCTCCTCTAAATAGAGGCACCATAACTTTTGGAAAGTAAATT
* * * *
20936279 ACTCCTCCAAACAGAGGCACCACAACTTTT-GAAAGTAAATT
1 GCTCCTCTAAATAGAGGCACCATAACTTTTGGAAAGTAAATT
*
20936320 GCTCCTCTAAATAGAGGCACCGTAACTTTTGGAAAGTAAATT
1 GCTCCTCTAAATAGAGGCACCATAACTTTTGGAAAGTAAATT
* * * *
20936362 GCTCTTCTAAACAGAGGTACC-TCAACTTTTGAAAAGTAAATT
1 GCTCCTCTAAATAGAGGCACCAT-AACTTTTGGAAAGTAAATT
* * * * * *
20936404 TCTCTTCTAAATAGAGGTAACCATGAC-TTTGAAAAATAAATT
1 GCTCCTCTAAATAGAGG-CACCATAACTTTTGGAAAGTAAATT
* * *
20936446 ACTCTTCTAAATAGAGGTACCA
1 GCTCCTCTAAATAGAGGCACCA
20936468 CGACTTTAAA
Statistics
Matches: 198, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
40 32 0.16
41 68 0.34
42 92 0.46
43 5 0.03
44 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (42 bp):
GCTCCTCTAAATAGAGGCACCATAACTTTTGGAAAGTAAATT
Found at i:20936444 original size:84 final size:81
Alignment explanation
Indices: 20936222--20936492 Score: 308
Period size: 84 Copynumber: 3.3 Consensus size: 81
20936212 AGGCTCAATG
* * * * * * *
20936222 ACTTTGGAAAGCAAATTGCTCCTCTAAATAAAGGCACCACAACTTTGAAAGTAAATTACTCCTCC
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGAACCATAACTTTGAAAGTAAATTACTCTTCT
*
20936287 AAACAGAGGCACCACA
66 AAACAGAGGTACCACA
* * *
20936303 ACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCACCGTAACTTTTGGAAAGTAAATTGCTCTT
1 ACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGAACCATAAC-TTT-GAAAGTAAATTACTCTT
*
20936368 CTAAACAGAGGTACCTCA
64 CTAAACAGAGGTACCACA
* * * *
20936386 ACTTTTGAAAAGTAAATTTCTCTTCTAAATAGAGGTAACCATGACTTTGAAAAATAAATTACTCT
1 ACTTTTG-AAAGTAAATTGCTCCTCTAAATAGAGG-AACCATAACTTTG-AAAGTAAATTACTCT
* *
20936451 TCTAAATAGAGGTACCACG
63 TCTAAACAGAGGTACCACA
** *
20936470 ACTTTAAAAAATAAATTGCTCCT
1 ACTTTTGAAAGTAAATTGCTCCT
20936493 TAACATTCAT
Statistics
Matches: 160, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
81 38 0.24
82 3 0.02
83 51 0.32
84 62 0.39
85 6 0.04
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (81 bp):
ACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGAACCATAACTTTGAAAGTAAATTACTCTTCT
AAACAGAGGTACCACA
Found at i:20937081 original size:22 final size:23
Alignment explanation
Indices: 20937056--20937114 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 23
20937046 GGTTTCATTC
20937056 CTCAAAAATTCTCATTTTGAG-A
1 CTCAAAAATTCTCATTTTGAGTA
* *
20937078 CTCAAAGATTCTCA-TTTGAGTT
1 CTCAAAAATTCTCATTTTGAGTA
20937100 CTCAAAAATTCTCAT
1 CTCAAAAATTCTCAT
20937115 CAAAATATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.37
Consensus pattern (23 bp):
CTCAAAAATTCTCATTTTGAGTA
Found at i:20937561 original size:62 final size:62
Alignment explanation
Indices: 20937481--20937608 Score: 159
Period size: 61 Copynumber: 2.1 Consensus size: 62
20937471 GCACTAATAA
** * *
20937481 ATTTCAGAACAAGTTTCATCCACCATCACTGGGTCACTACTCATAGGTGTCTTAACATTAACC
1 ATTTCAGAACAAACTTCATCCACCATCACTAGGTCAC-ACTCATAGGTGTCTTAACACTAACC
** * * *
20937544 ATTTC-GAACAAACTTCATCGTCCATCACTAGGTTACACTCATAGGTTTCTTAACCCTAACC
1 ATTTCAGAACAAACTTCATCCACCATCACTAGGTCACACTCATAGGTGTCTTAACACTAACC
20937605 ATTT
1 ATTT
20937609 TATCCACTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 26 0.46
62 25 0.45
63 5 0.09
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (62 bp):
ATTTCAGAACAAACTTCATCCACCATCACTAGGTCACACTCATAGGTGTCTTAACACTAACC
Found at i:20938285 original size:21 final size:22
Alignment explanation
Indices: 20938259--20938318 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
20938249 TTGAGTGTTC
20938259 TTTTTTCCTCCTTTCATC-TTT
1 TTTTTTCCTCCTTTCATCATTT
* * *
20938280 TTTTTTTCACCTTTCACCATTT
1 TTTTTTCCTCCTTTCATCATTT
* *
20938302 TTTTCTCAT-CTTTCATC
1 TTTTTTCCTCCTTTCATC
20938319 CATTGTTGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTCCTCCTTTCATCATTT
Found at i:20947708 original size:162 final size:160
Alignment explanation
Indices: 20947124--20948409 Score: 1052
Period size: 162 Copynumber: 8.0 Consensus size: 160
20947114 ATCAAATATG
* * * * * * * *
20947124 AAAGTTATCGTTTATATCCATTTAGCAC-TTTTTGTGTCATTAAATGG-CAAAAATTTAAATATG
1 AAAGTTATCGTTTATGT-CTTTTAG-ACTTTTTTATGCCGTTAAAAGGTC-AAAATGTAAATTTG
* * * * * * * * * *
20947187 TAGTTATTTTTTTATTTTAACAATTTGGATAGCTTCAATACATTATATTAAATTTTTTTGAATGA
63 CATTTATTATTTTATTTTAACAGTTTAGATAGCTTAAATACATAATATTAAACTTGTTCGAATGA
*
20947252 TTGAACTTGGTTTGCACG-TTGATATGTGTG-A
128 TTGAACTTGGTTTTCACGATTGATATGTGTGAA
* * * * * *
20947283 AAAGTTATCATTTATATCTTGTTAGGACTTTGTTTGTGCTGTTAAAAGGT-AAAAAGTTAATTTT
1 AAAGTTATCGTTTATGTCTT-TTA-GACTTT-TTTATGCCGTTAAAAGGTCAAAATG-TAAATTT
* * * * *
20947347 GCAGTTA-TATTTTTGTTTTAACAATTTAGATAGCTTAAATACATGATATTAAACTTG-TCTAAA
62 GCATTTATTA-TTTTATTTTAACAGTTTAGATAGCTTAAATACATAATATTAAACTTGTTC-GAA
*
20947410 TGATTAAACTTGGTTTTCACGATTGATA--TGTGAA
125 TGATTGAACTTGGTTTTCACGATTGATATGTGTGAA
* * *
20947444 AAAGTTATTGTTTATGTCTGTTTAG-CATTTTTTGTGCCGTTAAGAGGTCAAAATGTAAATTTGC
1 AAAGTTATCGTTTATGTCT-TTTAGAC-TTTTTTATGCCGTTAAAAGGTCAAAATGTAAATTTGC
* ** * * * *
20947508 TTTTATTATTCCATTTTAATATTTTAGATAGCTTTAATAAATAATATTAAACTTGTTCGAATGAT
64 ATTTATTATTTTATTTTAACAGTTTAGATAGCTTAAATACATAATATTAAACTTGTTCGAATGAT
* * * *
20947573 TGAACTTAGTTTGCATGGTTGATATGTGTGAA
129 TGAACTTGGTTTTCACGATTGATATGTGTGAA
* * * * **
20947605 AAATGTTATCGTTTATATCTATTTCAGA-TTTTTTATGCTGTTAAAGGGCCAAAATACAAATTTG
1 AAA-GTTATCGTTTATGTCT-TTT-AGACTTTTTTATGCCGTTAAAAGGTCAAAATGTAAATTTG
* * * * * *
20947669 CATTTATTATTTTGTTTCAACAGTTTAGATAGTTTTAATACTTAATATTAAACTTG-TCTGAATA
63 CATTTATTATTTTATTTTAACAGTTTAGATAGCTTAAATACATAATATTAAACTTGTTC-GAATG
* * *
20947733 ATTGAACTTGGTTTCCACAATTGATATGTGCGAA
127 ATTGAACTTGGTTTTCACGATTGATATGTGTGAA
* * * * * *
20947767 AAAGTTATCGTTTATATCTTTTTAGGACTTTTTTATGCCATTAAAAGATAAAAATGTTATTTTGC
1 AAAGTTATCGTTTATGTC-TTTTA-GACTTTTTTATGCCGTTAAAAGGTCAAAATGTAAATTTGC
* * * * * * * * *
20947832 AATT-TTATTTAAGTTTTAATAGTTTAGATGGCTTAAATATATGATATTAAAATTTTTCAAATGA
64 ATTTATTATTTTA-TTTTAACAGTTTAGATAGCTTAAATACATAATATTAAACTTGTTCGAATGA
*
20947896 TTGAACTTGGTTTTCACGATTGATATGTGTAAA
128 TTGAACTTGGTTTTCACGATTGATATGTGTGAA
* * * *** * * * *
20947929 AAAGTTACCATTTATGTTTGTTTAGCACTTTTTTGCACCGTTAAAAAGCCAAAATGCAAATTTGT
1 AAAGTTATCGTTTATGTCT-TTTAG-ACTTTTTTATGCCGTTAAAAGGTCAAAATGTAAATTTGC
* * * * * * * *
20947994 ATTTATTATTCTA-TTTAATAGTTTTGATTGCTTCAATACATGATATTAAACTTG-TCTAAATAA
64 ATTTATTATTTTATTTTAACAGTTTAGATAGCTTAAATACATAATATTAAACTTGTTC-GAATGA
* *
20948057 TTGAACTTAG-TTTCTACGATTGTTATGTGTGAA
128 TTGAACTTGGTTTTC-ACGATTGATATGTGTGAA
* * * * *
20948090 AATA-TTA-CCTTGTATGTCTTTTTAGGACTTTGTTACGCCGTTAAAAGGTAAAAATATAAATTT
1 AA-AGTTATCGTT-TATGTC-TTTTA-GACTTTTTTATGCCGTTAAAAGGTCAAAATGTAAATTT
** * * * * * *
20948153 ATAATTA-TATTTATGTTTTAACAGTTTAGATAGCGTAAATACATAATATTAAATTTTTTTGAAT
62 GCATTTATTATTT-TATTTTAACAGTTTAGATAGCTTAAATACATAATATTAAACTTGTTCGAAT
20948217 GATTGAACTTGGTTTTCACGATTGATATGT-T-AA
126 GATTGAACTTGGTTTTCACGATTGATATGTGTGAA
* *
20948250 AAAGTTA-CTGTTTATGTCTGTTTAGCACTTTTTTATGTCGTTAAAAGGTCAAAATGTAAATTTT
1 AAAGTTATC-GTTTATGTCT-TTTAG-ACTTTTTTATGCCGTTAAAAGGTCAAAATGTAAATTTG
** * * * * **
20948314 TGTTTATTATTTTATTTTAATAGTTTAGATAGCTTCAATACATAATATTAAACTTGTCCAAAAAA
63 CATTTATTATTTTATTTTAACAGTTTAGATAGCTTAAATACATAATATTAAACTTGTTCGAATGA
*
20948379 TTGAATTTGGTTTTCAC-AGTTGATATGTGTG
128 TTGAACTTGGTTTTCACGA-TTGATATGTGTG
20948410 TAAATATTAC
Statistics
Matches: 902, Mismatches: 178, Indels: 91
0.77 0.15 0.08
Matches are distributed among these distances:
158 2 0.00
159 117 0.13
160 161 0.18
161 268 0.30
162 339 0.38
163 15 0.02
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (160 bp):
AAAGTTATCGTTTATGTCTTTTAGACTTTTTTATGCCGTTAAAAGGTCAAAATGTAAATTTGCAT
TTATTATTTTATTTTAACAGTTTAGATAGCTTAAATACATAATATTAAACTTGTTCGAATGATTG
AACTTGGTTTTCACGATTGATATGTGTGAA
Found at i:20948181 original size:323 final size:320
Alignment explanation
Indices: 20947197--20949028 Score: 1409
Period size: 323 Copynumber: 5.8 Consensus size: 320
20947187 TAGTTATTTT
* * * *
20947197 TTTA-TTTTAACAATTTGGATAGCTTCAATACATTATATTAAATTTTTTTGAATGATTGAACTTG
1 TTTAGTTTTAAC-ATTTAGATAGCTTAAATACATGATATTAAATTTTTTCGAATGATTGAACTTG
* * * * * *
20947261 GTTTGCACG-TTGATATGTGTGAAAAGTTATCATTTATATCT-TGTTAGGACTTTGTTTGTGCTG
65 GTTTTCACGATTGATATGTGTAAAAAGTTACCGTTTATGTCTGT-TTAGCACTTT-TTTGTGCTG
* * * * * * * * * *
20947324 TTAAAAGG-TAAAAAGTTAATTTTGCAGTTATATTTTTGT-TTTAACAATTTAGATAGCTTAAAT
128 TTAAAAGGCCAAAATG-CAAATTTGTA-TT-TATTATTCTATTTAATAGTTTAGATAGCTTCAAT
* *
20947387 ACATGATATTAAACTTGTCTAAATGATTAAACTTGGTTTTCACGATTGATA--TGTGAAAA-AGT
190 ACATGATATTAAACTTGTCTAAATAATTGAACTTGGTTTTCACGATTGATATGTGTGAAAATA-T
* * * ** * * * *
20947449 TA--TTGTTTATGTCTGTTTAGCA-TTTTTTGTGCCGTTAAGAGGTCAAAATGTAAATTTGCT-T
254 TACCTTG--TATGTCTTTTTAGGACTTTGTTACGCCGTTAAAAGGTAAAAATGTAAATTT-ATAA
20947510 TTATTA
316 TTA-TA
* * * * * * *
20947516 TTCCA-TTTTAATATTTTAGATAGCTTTAATAAATAATATTAAACTTGTTCGAATGATTGAACTT
1 TT-TAGTTTTAACA-TTTAGATAGCTTAAATACATGATATTAAATTTTTTCGAATGATTGAACTT
* * * * * * * *
20947580 AGTTTGCATGGTTGATATGTGTGAAAAATGTTATCGTTTATATCTATTTCAG-A-TTTTTTATGC
64 GGTTTTCACGATTGATATGTGT-AAAAA-GTTACCGTTTATGTCTGTTT-AGCACTTTTTTGTGC
* * * * * * * *
20947643 TGTTAAAGGGCCAAAATACAAATTTGCATTTATTATTTTGTTTCAACAGTTTAGATAGTTTTAAT
126 TGTTAAAAGGCCAAAATGCAAATTTGTATTTATTATTCTATTT-AATAGTTTAGATAGCTTCAAT
* * * * * *
20947708 ACTTAATATTAAACTTGTCTGAATAATTGAACTTGGTTTCCACAATTGATATGTGCGAAAA-AGT
190 ACATGATATTAAACTTGTCTAAATAATTGAACTTGGTTTTCACGATTGATATGTGTGAAAATA-T
* * * * * * * * **
20947772 TATCGTT-TATATCTTTTTAGGACTTTTTTATGCCATTAAAAGATAAAAATGTTATTTTGCAATT
254 TA-CCTTGTATGTCTTTTTAGGACTTTGTTACGCCGTTAAAAGGTAAAAATGTAAATTTATAATT
*
20947836 TTA
318 ATA
* * * * *
20947839 TTTAAGTTTTAATAGTTTAGATGGCTTAAATATATGATATTAAAATTTTTCAAATGATTGAACTT
1 TTT-AGTTTTAACA-TTTAGATAGCTTAAATACATGATATTAAATTTTTTCGAATGATTGAACTT
* * ** *
20947904 GGTTTTCACGATTGATATGTGTAAAAAAGTTACCATTTATGTTTGTTTAGCACTTTTTTGCACCG
64 GGTTTTCACGATTGATATGTGT-AAAAAGTTACCGTTTATGTCTGTTTAGCACTTTTTTGTGCTG
* * *
20947969 TTAAAAAGCCAAAATGCAAATTTGTATTTATTATTCTATTTAATAGTTTTGATTGCTTCAATACA
128 TTAAAAGGCCAAAATGCAAATTTGTATTTATTATTCTATTTAATAGTTTAGATAGCTTCAATACA
* *
20948034 TGATATTAAACTTGTCTAAATAATTGAACTTAG-TTTCTACGATTGTTATGTGTGAAAATATTAC
193 TGATATTAAACTTGTCTAAATAATTGAACTTGGTTTTC-ACGATTGATATGTGTGAAAATATTAC
*
20948098 CTTGTATGTCTTTTTAGGACTTTGTTACGCCGTTAAAAGGTAAAAATATAAATTTATAATTATA
257 CTTGTATGTCTTTTTAGGACTTTGTTACGCCGTTAAAAGGTAAAAATGTAAATTTATAATTATA
* * *
20948162 TTTATGTTTTAACAGTTTAGATAGCGTAAATACATAATATTAAATTTTTTTGAATGATTGAACTT
1 TTTA-GTTTTAACA-TTTAGATAGCTTAAATACATGATATTAAATTTTTTCGAATGATTGAACTT
* *
20948227 GGTTTTCACGATTGATATGT-TAAAAAGTTACTGTTTATGTCTGTTTAGCACTTTTTTATG-TCG
64 GGTTTTCACGATTGATATGTGTAAAAAGTTACCGTTTATGTCTGTTTAGCACTTTTTTGTGCT-G
* * * * *
20948290 TTAAAAGGTCAAAATGTAAATTTTTGTTTATTATTTTATTTTAATAGTTTAGATAGCTTCAATAC
128 TTAAAAGGCCAAAATGCAAATTTGTATTTATTATTCTA-TTTAATAGTTTAGATAGCTTCAATAC
* * * * *
20948355 ATAATATTAAACTTGTCCAAAAAATTGAATTTGGTTTTCAC-AGTTGATATGTGTGTAAATATTA
192 ATGATATTAAACTTGTCTAAATAATTGAACTTGGTTTTCACGA-TTGATATGTGTGAAAATATTA
* * *
20948419 CCGTGTATG-CTTTTTTATGACTTTGTTACGCCATT-AAAGG-----A--T--A---A-AA--AT
256 CCTTGTATGTC-TTTTTAGGACTTTGTTACGCCGTTAAAAGGTAAAAATGTAAATTTATAATTAT
20948467 A
320 A
* * * * *
20948468 --TA-----AA-TTTTAGATAGCTTAAATATATGGTATTAAACTTTTTTTGAATGATTGAACTTA
1 TTTAGTTTTAACATTTAGATAGCTTAAATACATGATATTAAA-TTTTTTCGAATGATTGAACTTG
*** **
20948525 GTTTTCACGATTGATAAAAGTAAAAAGTTATTGTTTATGTCTGTTTAGCACTTTTTTTGTGCTGT
65 GTTTTCACGATTGATATGTGTAAAAAGTTACCGTTTATGTCTGTTTAGCAC-TTTTTTGTGCTGT
* * * *
20948590 TTAAAGGCCAAAATGCAAATTTATCTTTATTATTCCATTTTAATAGTTTAGATAGCTTCAATACA
129 TAAAAGGCCAAAATGCAAATTTGTATTTATTATTCTA-TTTAATAGTTTAGATAGCTTCAATACA
* * * * *
20948655 TGATATTAAACATGTAC-AAATAATTGAACTTAGTTTTCATGACTGATATGTGTAAAAATATTAC
193 TGATATTAAACTTGT-CTAAATAATTGAACTTGGTTTTCACGATTGATATGTGTGAAAATATTAC
* * * * ** * * * *
20948719 CGTT-TATGTCTTTTTAGGATTTTATTACGCTGTTAAAGGGTAAAAATGTAGTTTTGTAGTAATT
257 C-TTGTATGTCTTTTTAGGACTTTGTTACGCCGTTAAAAGGTAAAAATGTAAATTTATAATTATA
* * * * ** *
20948783 TTTATGTTTTTACTATTTAGATAACTTCAATACATGATATTAAA-CTCATCTAAATGATTGAACT
1 TTTA-GTTTTAAC-ATTTAGATAGCTTAAATACATGATATTAAATTTTTTC-GAATGATTGAACT
* * * * * * * *
20948847 T-GATTTCTATGATTGATATATGTGAAAAAGGTACCGTTTATATCT-TTTCTGAACTTTATTGTG
63 TGGTTTTC-ACGATTGATATGTGT-AAAAAGTTACCGTTTATGTCTGTTT-AGCACTTTTTTGTG
** * * * *
20948910 CCATT-AAAGGCAAAAATG-TAATTTTTCAGTTA-TATT-TATGTTTAATAGTTTA-AGTAGCTT
125 CTGTTAAAAGGCCAAAATGCAAATTTGT-ATTTATTATTCTA--TTTAATAGTTTAGA-TAGCTT
* * * * * * *
20948970 AAATACATGATATTAAATTTATCCAAATTATTGAACTTTGTTTTCACAATTTGATATGT
186 CAATACATGATATTAAACTTGTCTAAATAATTGAACTTGGTTTTCACGA-TTGATATGT
20949029 AAGAATAAAT
Statistics
Matches: 1228, Mismatches: 212, Indels: 142
0.78 0.13 0.09
Matches are distributed among these distances:
296 25 0.02
297 37 0.03
298 32 0.03
299 143 0.12
300 9 0.01
304 2 0.00
305 1 0.00
306 3 0.00
307 1 0.00
308 2 0.00
309 1 0.00
312 1 0.00
313 1 0.00
314 1 0.00
315 2 0.00
316 1 0.00
317 2 0.00
319 10 0.01
320 63 0.05
321 172 0.14
322 192 0.16
323 290 0.24
324 190 0.15
325 45 0.04
326 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (320 bp):
TTTAGTTTTAACATTTAGATAGCTTAAATACATGATATTAAATTTTTTCGAATGATTGAACTTGG
TTTTCACGATTGATATGTGTAAAAAGTTACCGTTTATGTCTGTTTAGCACTTTTTTGTGCTGTTA
AAAGGCCAAAATGCAAATTTGTATTTATTATTCTATTTAATAGTTTAGATAGCTTCAATACATGA
TATTAAACTTGTCTAAATAATTGAACTTGGTTTTCACGATTGATATGTGTGAAAATATTACCTTG
TATGTCTTTTTAGGACTTTGTTACGCCGTTAAAAGGTAAAAATGTAAATTTATAATTATA
Found at i:20949026 original size:161 final size:162
Alignment explanation
Indices: 20948627--20949015 Score: 416
Period size: 162 Copynumber: 2.4 Consensus size: 162
20948617 TATTATTCCA
* * * *
20948627 TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAACATGTACAAATAATTGAACTTAGTTTT
1 TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAACTTATCCAAATAATTGAACTTTGTTTT
* * * * * * **
20948692 CATGACTGATATGTGTAAAAATATTACCGTTTATGTCTTTTTAGGATTTTATTACGCTGTTAAAG
66 CATGATTGATATATGTAAAAATAGTACCGTTTATATCTTTTTAGAACTTTATTACGCCATTAAAG
* * *
20948757 GGTAAAAATGTAGTTTTGTAGTAATTTTTATG
131 GGCAAAAATGTAATTTTGTAGTAATATTTATG
* * * * * *
20948789 TTTTTACTA-TTTAGATAACTTCAATACATGATATTAAACTCATCTAAATGATTGAAC-TTGATT
1 -TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAACTTATCCAAATAATTGAACTTTGTTT
* **
20948852 TCTATGATTGATATATGTGAAAAA-GGTACCGTTTATATCTTTTCT-GAACTTTATTGTGCCATT
65 TC-ATGATTGATATATGT-AAAAATAGTACCGTTTATATCTTTT-TAGAACTTTATTACGCCATT
*
20948915 AAA-GGCAAAAATGTAATTTT-TCAGTTATATTTATG
127 AAAGGGCAAAAATGTAATTTTGT-AGTAATATTTATG
* * *
20948950 -TTTAATAGTTTA-AGTAGCTTAAATACATGATATTAAATTTATCCAAATTATTGAACTTTGTTT
1 TTTTAATAGTTTAGA-TAGCTTCAATACATGATATTAAACTTATCCAAATAATTGAACTTTGTTT
20949013 TCA
65 TCA
20949016 CAATTTGATA
Statistics
Matches: 186, Mismatches: 33, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
159 7 0.04
160 42 0.23
161 39 0.21
162 85 0.46
163 13 0.07
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (162 bp):
TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAACTTATCCAAATAATTGAACTTTGTTTT
CATGATTGATATATGTAAAAATAGTACCGTTTATATCTTTTTAGAACTTTATTACGCCATTAAAG
GGCAAAAATGTAATTTTGTAGTAATATTTATG
Found at i:20949305 original size:87 final size:87
Alignment explanation
Indices: 20949158--20949331 Score: 321
Period size: 87 Copynumber: 2.0 Consensus size: 87
20949148 CATGTGTCTA
* *
20949158 ATCATTATTGCCACACTTGATACACATAAATAAGTTATGGTTGATGTGTGTTTAATAATAATAGT
1 ATCATTATTGCCACACTTGATACACATAAATAAGTTATGGTTGAAGTGTGTTTAACAATAATAGT
20949223 GTTTTTTATATAGGAGATTGAG
66 GTTTTTTATATAGGAGATTGAG
20949245 ATCATTATTGCCACACTTGATACACATAAATAAGTTATGGTTGAAGTGTGTTTAACAATAATAGT
1 ATCATTATTGCCACACTTGATACACATAAATAAGTTATGGTTGAAGTGTGTTTAACAATAATAGT
*
20949310 GTTTTTTATGTAGGAGATTGAG
66 GTTTTTTATATAGGAGATTGAG
20949332 TTGGGTGAAA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (87 bp):
ATCATTATTGCCACACTTGATACACATAAATAAGTTATGGTTGAAGTGTGTTTAACAATAATAGT
GTTTTTTATATAGGAGATTGAG
Done.