Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 49 of 52
Found at i:7947726 original size:18 final size:18
Alignment explanation
Indices: 7947703--7947737 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7947693 TAATTTTAAG
*
7947703 ATTTAAATTTTTTTAAAA
1 ATTTAAATTATTTTAAAA
7947721 ATTTAAATTATTTTAAA
1 ATTTAAATTATTTTAAA
7947738 TTTTATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTAAATTATTTTAAAA
Found at i:7947748 original size:21 final size:20
Alignment explanation
Indices: 7947724--7947776 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
7947714 TTTAAAAATT
7947724 TAAATTATTTTAAATTTTATA
1 TAAATTATTTTAAATTTTA-A
* *
7947745 TAAAGTAATTT-AATTTTAA
1 TAAATTATTTTAAATTTTAA
*
7947764 TATATT-TTTTAAA
1 TAAATTATTTTAAA
7947777 AATTTTTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 3 0.12
19 7 0.27
20 7 0.27
21 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TAAATTATTTTAAATTTTAA
Found at i:7947794 original size:16 final size:17
Alignment explanation
Indices: 7947769--7947801 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7947759 TTTAATATAT
*
7947769 TTTTTAAAAATTTTTAA
1 TTTTTAAAAATATTTAA
7947786 TTTTT-AAAATATTTAA
1 TTTTTAAAAATATTTAA
7947802 AATTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTAAAAATATTTAA
Found at i:7948354 original size:27 final size:27
Alignment explanation
Indices: 7948304--7948360 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
7948294 TATTACCTTA
*
7948304 TTAAAATTTTTTATTTATATTTATT-T
1 TTAAAATTTTTTATTAATATTTATTAT
7948330 TTAAAATGTTTTTATGTAATA-TTATTAT
1 TTAAAAT-TTTTTAT-TAATATTTATTAT
7948358 TTA
1 TTA
7948361 GTTCATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 7 0.26
27 12 0.44
28 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
TTAAAATTTTTTATTAATATTTATTAT
Found at i:7949419 original size:6 final size:6
Alignment explanation
Indices: 7949400--7949454 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
7949390 ACTTTGTTAG
* *
7949400 ATTTAA ATTT-A TTTTAA TTTTAA ATTTAAAA ATTTAAA ATTT-A ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT--AA ATTT-AA ATTTAA ATTTAA
7949449 ATTTAA
1 ATTTAA
7949455 TCAAGTGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 9 0.21
6 21 0.49
7 7 0.16
8 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:7949631 original size:21 final size:19
Alignment explanation
Indices: 7949575--7949653 Score: 59
Period size: 21 Copynumber: 3.9 Consensus size: 19
7949565 AAAAATTTTG
* *
7949575 ATTAATTTTAATAAATCTAAA
1 ATTAATTTTAA-ATAT-TTAA
*
7949596 ATAAATATTTAAATATTTAA
1 ATTAAT-TTTAAATATTTAA
**
7949616 ATTTAATTTTATAATAAATAA
1 A-TTAATTTTA-AATATTTAA
*
7949637 ATTAAATTTAAATATTT
1 ATTAATTTTAAATATTT
7949654 CATTAATCTA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
19 5 0.11
20 16 0.35
21 20 0.43
22 5 0.11
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAATTTTAAATATTTAA
Found at i:7949772 original size:22 final size:23
Alignment explanation
Indices: 7949719--7949777 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
7949709 ATTTATGTAT
7949719 ACTTTAAT-TTAAAAAATTTTAA
1 ACTTTAATATTAAAAAATTTTAA
* *
7949741 AATTTAAATATTAAAATA-TTTAA
1 ACTTT-AATATTAAAAAATTTTAA
*
7949764 ACTTTAATAATAAA
1 ACTTTAATATTAAA
7949778 TCAATCAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 12 0.39
23 12 0.39
24 7 0.23
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (23 bp):
ACTTTAATATTAAAAAATTTTAA
Found at i:7950039 original size:14 final size:15
Alignment explanation
Indices: 7950010--7950055 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
7950000 AAAAAATTAA
7950010 TTTTATAAATAAATT
1 TTTTATAAATAAATT
*
7950025 TTTTATAAA-ATA-T
1 TTTTATAAATAAATT
*
7950038 TTTT-TAAATTAATT
1 TTTTATAAATAAATT
7950052 TTTT
1 TTTT
7950056 TTACGTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
14 7 0.27
15 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTATAAATAAATT
Found at i:7950054 original size:13 final size:13
Alignment explanation
Indices: 7950003--7950055 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
7949993 ATTTTGAAAA
* *
7950003 AAATTAATTTTAT
1 AAATAAATTTTTT
7950016 AAATAAATTTTTT
1 AAATAAATTTTTT
7950029 ATAA-AATATTTTTT
1 A-AATAA-ATTTTTT
*
7950043 AAATTAATTTTTT
1 AAATAAATTTTTT
7950056 TTACGTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 23 0.68
14 11 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AAATAAATTTTTT
Found at i:7950213 original size:8 final size:8
Alignment explanation
Indices: 7950200--7950233 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
7950190 ATAATGATAT
7950200 TTTTTTAA
1 TTTTTTAA
7950208 TTTTTTAGA
1 TTTTTTA-A
7950217 TTTTTTAA
1 TTTTTTAA
*
7950225 TTTGTTAA
1 TTTTTTAA
7950233 T
1 T
7950234 ATAAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (8 bp):
TTTTTTAA
Found at i:7950343 original size:33 final size:35
Alignment explanation
Indices: 7950271--7950341 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 35
7950261 TAATTTCTTA
* *
7950271 TTTTATTAAAAATAATAGTAATAAATACTTTTTAT
1 TTTTATTAAAAATAATAGTAATAAATACTATTAAT
*
7950306 TTTTA-TAAAAAT-ATAGTAATTAATA-TATTAAT
1 TTTTATTAAAAATAATAGTAATAAATACTATTAAT
7950338 TTTT
1 TTTT
7950342 TAATATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 9 0.27
33 12 0.36
34 7 0.21
35 5 0.15
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TTTTATTAAAAATAATAGTAATAAATACTATTAAT
Found at i:7950388 original size:22 final size:21
Alignment explanation
Indices: 7950333--7950392 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
7950323 AATTAATATA
7950333 TTAATTTT-TTAATATAATTTTT
1 TTAATTTTATTAA-AT-ATTTTT
* * *
7950355 TAAACTTAATTAAATATTATTT
1 TTAATTTTATTAAATATT-TTT
7950377 TTAATTTTATTAAATA
1 TTAATTTTATTAAATA
7950393 ATAATAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 3 0.10
22 23 0.77
23 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAATTTTATTAAATATTTTT
Found at i:7950459 original size:37 final size:35
Alignment explanation
Indices: 7950417--7950565 Score: 123
Period size: 34 Copynumber: 4.3 Consensus size: 35
7950407 AATAAATCTT
7950417 TTTTAATTTAATTTTTTATTTTAAAAAATAATTAATA
1 TTTTAATTTAA-TTTTTATTTT-AAAAATAATTAATA
* **
7950454 TTTTAATTT-ATTAATATAATTTTTAAAGTTAATTAA-A
1 TTTTAATTTAATT--T-TTA-TTTTAAAAATAATTAATA
* * * * *
7950491 TATTATTTTAA--TTT-TCTTAAAAATAA-TAGTT
1 TTTTAATTTAATTTTTATTTTAAAAATAATTAATA
7950522 TTTTAATTTAATTTTTATTTTAAAAA-AATTAATA
1 TTTTAATTTAATTTTTATTTTAAAAATAATTAATA
7950556 TTTTAATTTA
1 TTTTAATTTA
7950566 TTAATATAAG
Statistics
Matches: 86, Mismatches: 16, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
30 2 0.02
31 18 0.21
33 6 0.07
34 22 0.26
35 2 0.02
36 1 0.01
37 18 0.21
38 13 0.15
39 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (35 bp):
TTTTAATTTAATTTTTATTTTAAAAATAATTAATA
Found at i:7950752 original size:18 final size:18
Alignment explanation
Indices: 7950715--7950767 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
7950705 TAAAAAATAA
* *
7950715 TAATTAATATATTATTATT
1 TAATTAATTTATTA-AATT
*
7950734 T-ATTAAATTTTTTAAATT
1 TAATT-AATTTATTAAATT
7950752 TAATTAATTTATTAAA
1 TAATTAATTTATTAAA
7950768 AAATTACGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATTAATTTATTAAATT
Found at i:7951644 original size:6 final size:6
Alignment explanation
Indices: 7951635--7951692 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
7951625 GCGAGAAGCT
** ** * *
7951635 GAAGAA GAAGAA GTTGAA GAAGAA GAAGTT GAAGAA GAAGAT GAAGGA
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
*
7951683 GAAGGA GAAG
1 GAAGAA GAAG
7951693 TTGAAGGTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.38, T:0.09
Consensus pattern (6 bp):
GAAGAA
Found at i:7951652 original size:15 final size:15
Alignment explanation
Indices: 7951628--7951698 Score: 88
Period size: 15 Copynumber: 4.7 Consensus size: 15
7951618 GGTGATAGCG
*
7951628 AGAAGCTGAAGAAGA
1 AGAAGTTGAAGAAGA
7951643 AGAAGTTGAAGAAGA
1 AGAAGTTGAAGAAGA
7951658 AGAAGTTGAAGAAGA
1 AGAAGTTGAAGAAGA
* ** * *
7951673 AGATGAAGGAGAAGG
1 AGAAGTTGAAGAAGA
7951688 AGAAGTTGAAG
1 AGAAGTTGAAG
7951699 GTTTATTAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.51, C:0.01, G:0.37, T:0.11
Consensus pattern (15 bp):
AGAAGTTGAAGAAGA
Found at i:7951686 original size:18 final size:18
Alignment explanation
Indices: 7951650--7951699 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
7951640 AGAAGAAGTT
* **
7951650 GAAGAAGAAGAAGTTGAA
1 GAAGAAGATGAAGGAGAA
7951668 GAAGAAGATGAAGGAGAA
1 GAAGAAGATGAAGGAGAA
* *
7951686 GGAGAAGTTGAAGG
1 GAAGAAGATGAAGG
7951700 TTTATTAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.40, T:0.10
Consensus pattern (18 bp):
GAAGAAGATGAAGGAGAA
Found at i:7952234 original size:2 final size:2
Alignment explanation
Indices: 7952227--7952264 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7952217 ACGTTAAAAG
7952227 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7952265 TACAGAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7952894 original size:16 final size:18
Alignment explanation
Indices: 7952853--7952897 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
7952843 AAATTAAATG
7952853 AAATATTATTATTATTTT
1 AAATATTATTATTATTTT
7952871 ATAA-ATTATTA-T-TTTT
1 A-AATATTATTATTATTTT
7952887 AAATATTATTA
1 AAATATTATTA
7952898 AAATTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.08
16 12 0.48
17 1 0.04
18 8 0.32
19 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AAATATTATTATTATTTT
Found at i:7952921 original size:28 final size:26
Alignment explanation
Indices: 7952863--7952923 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
7952853 AAATATTATT
7952863 ATTATT-TTATAAATTATTATTTTTA
1 ATTATTATTATAAATTATTATTTTTA
*
7952888 AATATTATTA-AAATTATTAATTTATGTA
1 ATTATTATTATAAATTATT-ATTT-T-TA
7952916 ATTATTAT
1 ATTATTAT
7952924 CATATATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 13 0.43
26 7 0.23
27 1 0.03
28 9 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTATTATTATAAATTATTATTTTTA
Found at i:7953883 original size:21 final size:21
Alignment explanation
Indices: 7953859--7953899 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7953849 TATTTTTAAT
7953859 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
7953880 TAAATATTAATATAAAATAT
1 TAAATATTAATATAAAATAT
7953900 TTTAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:7956464 original size:30 final size:30
Alignment explanation
Indices: 7956445--7956507 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
7956435 TTATATCTAT
*
7956445 ATTAAAGATTAAAAATTTATTTAAATACAA
1 ATTAAAAATTAAAAATTTATTTAAATACAA
* *
7956475 ATTAAAAATTAAAAATTTATTTAAGTATAA
1 ATTAAAAATTAAAAATTTATTTAAATACAA
7956505 ATT
1 ATT
7956508 TAAACTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (30 bp):
ATTAAAAATTAAAAATTTATTTAAATACAA
Found at i:7956874 original size:14 final size:13
Alignment explanation
Indices: 7956837--7956885 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
7956827 TAAAACCCTA
7956837 ATTATTCTTATAAAT
1 ATTATT-TT-TAAAT
*
7956852 ATTATTTTTTAAT
1 ATTATTTTTAAAT
7956865 ATTAATTTTTAAAT
1 ATT-ATTTTTAAAT
7956879 ATATATT
1 AT-TATT
7956886 ATCAACTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 7 0.23
14 16 0.53
15 7 0.23
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTATTTTTAAAT
Found at i:7957028 original size:21 final size:21
Alignment explanation
Indices: 7956999--7957089 Score: 60
Period size: 21 Copynumber: 4.2 Consensus size: 21
7956989 GAAACACATA
*
7956999 TTATAATTATTAATTTTAATT
1 TTATTATTATTAATTTTAATT
*
7957020 TTATTATTA-AAATATTTAATT
1 TTATTATTATTAAT-TTTAATT
* * *
7957041 TAATCATTACTTTAATTAATTTA-T
1 TTATTATTA--TTAATT--TTAATT
* *
7957065 TTGTTATTATTATTTTTAATT
1 TTATTATTATTAATTTTAATT
7957086 TTAT
1 TTAT
7957090 CAAAATCAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
20 6 0.12
21 26 0.51
22 5 0.10
23 1 0.02
24 10 0.20
25 3 0.06
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (21 bp):
TTATTATTATTAATTTTAATT
Found at i:7957582 original size:24 final size:25
Alignment explanation
Indices: 7957555--7957622 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 25
7957545 TGGATAAAAT
*
7957555 TATTAATT-ATTTTATTTAA-AATAA
1 TATTAATTAATTTTATTAAATAAT-A
*
7957579 TATT-ATTAATATTA-TAAATAATA
1 TATTAATTAATTTTATTAAATAATA
7957602 TATTAATTAATTTTA-TAAATA
1 TATTAATTAATTTTATTAAATA
7957623 TCCTAAAAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 11 0.29
24 27 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTAATTAATTTTATTAAATAATA
Found at i:7957781 original size:2 final size:2
Alignment explanation
Indices: 7957770--7957836 Score: 66
Period size: 2 Copynumber: 34.5 Consensus size: 2
7957760 TTTGTGATCA
* * *
7957770 AT AT -T AT AT AT AT AT AT AT AC AC AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
7957811 AT AC AT AT TT AT AT -T AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7957837 AGCCCTAGCT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7958580 original size:24 final size:23
Alignment explanation
Indices: 7958545--7958618 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 23
7958535 TTGAATTATT
*
7958545 ATTTAATAATAAAAAATTATTTAA
1 ATTTAATTATAAAAAATT-TTTAA
*
7958569 ATTTAATTAT-AAAAATTTATAA
1 ATTTAATTATAAAAAATTTTTAA
*
7958591 ATAATAA-TATAAAAATATTTTTAA
1 AT-TTAATTATAAAAA-ATTTTTAA
7958615 ATTT
1 ATTT
7958619 TTAAATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 9 0.21
23 15 0.36
24 18 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTTAATTATAAAAAATTTTTAA
Found at i:7958591 original size:22 final size:23
Alignment explanation
Indices: 7958545--7958606 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
7958535 TTGAATTATT
* *
7958545 ATTTAATAATAAAAAATTATTTAA
1 ATTTAATTAT-AAAAATTATATAA
7958569 ATTTAATTATAAAAATT-TATAA
1 ATTTAATTATAAAAATTATATAA
*
7958591 ATAATAA-TATAAAAAT
1 AT-TTAATTATAAAAAT
7958607 ATTTTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 15 0.44
23 10 0.29
24 9 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTTAATTATAAAAATTATATAA
Found at i:7958615 original size:46 final size:42
Alignment explanation
Indices: 7958548--7958650 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 42
7958538 AATTATTATT
7958548 TAATAATA-AAAAATTATTTAAATTTAATTATAAAAATTTATAAA
1 TAATAATATAAAAATTATTTAAATTT--TTA-AAAAATTTATAAA
* *
7958592 TAATAATATAAAAATATTTTTAAATTTTTAAATAATTTATAAA
1 TAATAATATAAAAAT-TATTTAAATTTTTAAAAAATTTATAAA
* * *
7958635 CAATAAAATTAAAATT
1 TAATAATATAAAAATT
7958651 TTAAATCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
42 1 0.02
43 24 0.46
44 11 0.21
45 6 0.12
46 10 0.19
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (42 bp):
TAATAATATAAAAATTATTTAAATTTTTAAAAAATTTATAAA
Found at i:7959160 original size:22 final size:22
Alignment explanation
Indices: 7959125--7959168 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
7959115 AGATTGTCCA
7959125 AATCCACCACATTTTTTTTTTC
1 AATCCACCACATTTTTTTTTTC
7959147 AATCACACCA-ATTTTTTTTTTC
1 AATC-CACCACATTTTTTTTTTC
7959169 TAGAGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (22 bp):
AATCCACCACATTTTTTTTTTC
Found at i:7959684 original size:21 final size:22
Alignment explanation
Indices: 7959651--7959694 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
7959641 TTCATTATTG
**
7959651 ATTTCAATCTTATTTTTATAAT
1 ATTTCAATCTTATCGTTATAAT
*
7959673 ATTT-AATTTTATCGTTATAAT
1 ATTTCAATCTTATCGTTATAAT
7959694 A
1 A
7959695 ATAAATCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTCAATCTTATCGTTATAAT
Found at i:7959712 original size:21 final size:21
Alignment explanation
Indices: 7959656--7959713 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
7959646 TATTGATTTC
* * *
7959656 AATCTTATTTTTATAATATTT
1 AATCTTATTGTTATAATAATA
* *
7959677 AATTTTATCGTTATAATAATA
1 AATCTTATTGTTATAATAATA
*
7959698 AATCTTATTGATATAA
1 AATCTTATTGTTATAA
7959714 CTATTTTCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (21 bp):
AATCTTATTGTTATAATAATA
Found at i:7959993 original size:21 final size:22
Alignment explanation
Indices: 7959949--7959994 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7959939 TAAAATTTCA
* *
7959949 TTTATTATTTATAATTATAATT
1 TTTATAATTTATAAATATAATT
7959971 TTTATAATTTATAAATA-AATT
1 TTTATAATTTATAAATATAATT
7959992 TTT
1 TTT
7959995 CTCATGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTATAATTTATAAATATAATT
Found at i:7961067 original size:18 final size:18
Alignment explanation
Indices: 7961030--7961068 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7961020 TTTAATTTGA
* *
7961030 TTAAATAATAAATATTTT
1 TTAAATAATAAAGATATT
*
7961048 TTAATTAATAAAGATATT
1 TTAAATAATAAAGATATT
7961066 TTA
1 TTA
7961069 TTCTTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTAAATAATAAAGATATT
Found at i:7961529 original size:2 final size:2
Alignment explanation
Indices: 7961522--7961570 Score: 80
Period size: 2 Copynumber: 24.0 Consensus size: 2
7961512 AAATTACTAA
*
7961522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT CAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
7961565 AT AT AT
1 AT AT AT
7961571 TTTTAACTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 43 0.98
3 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7963031 original size:22 final size:22
Alignment explanation
Indices: 7962991--7963033 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7962981 AGATTTTCAT
*
7962991 ATATTTTTATTTTTTAAAATTA
1 ATATTTTTATTTTTAAAAATTA
7963013 ATATTTTT-TTTTATAAAAATT
1 ATATTTTTATTTT-TAAAAATT
7963034 CACTAACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATATTTTTATTTTTAAAAATTA
Found at i:7963220 original size:19 final size:20
Alignment explanation
Indices: 7963198--7963237 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7963188 GTAAACCATC
7963198 ACTTTCTATTTTATT-TTTA
1 ACTTTCTATTTTATTATTTA
* *
7963217 ACTTTTTTTTTTATTATTTA
1 ACTTTCTATTTTATTATTTA
7963237 A
1 A
7963238 AAAATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
ACTTTCTATTTTATTATTTA
Found at i:7964050 original size:14 final size:15
Alignment explanation
Indices: 7964031--7964060 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7964021 CATTTTAATA
7964031 TAAAATTTA-AATTT
1 TAAAATTTATAATTT
7964045 TAAAATTTATAATTT
1 TAAAATTTATAATTT
7964060 T
1 T
7964061 TTTATTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAAATTTATAATTT
Found at i:7965050 original size:6 final size:6
Alignment explanation
Indices: 7965041--7965076 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
7965031 ATCAATTACA
*
7965041 ATAAAT ATAAAT AATAAAT ATAAAA ATAAAT ATAAA
1 ATAAAT ATAAAT -ATAAAT ATAAAT ATAAAT ATAAA
7965077 AAATTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
ATAAAT
Found at i:7965056 original size:13 final size:12
Alignment explanation
Indices: 7965040--7965078 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
7965030 AATCAATTAC
7965040 AATAAATATAAA
1 AATAAATATAAA
7965052 TAATAAATATAAA
1 -AATAAATATAAA
7965065 AATAAATATAAA
1 AATAAATATAAA
7965077 AA
1 AA
7965079 ATTATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAAATATAAA
Found at i:7965069 original size:19 final size:18
Alignment explanation
Indices: 7965041--7965076 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7965031 ATCAATTACA
*
7965041 ATAAATATAAATAATAAAT
1 ATAAAAATAAAT-ATAAAT
7965060 ATAAAAATAAATATAAA
1 ATAAAAATAAATATAAA
7965077 AAATTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAATAAATATAAAT
Found at i:7965075 original size:21 final size:22
Alignment explanation
Indices: 7965034--7965087 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
7965024 TATTTTAATC
* *
7965034 AATTACAATAAATATAAATAATA
1 AATTATAA-AAATATAAATAAAA
7965057 AA-TATAAAAATA-AATATAAAA
1 AATTATAAAAATATAA-ATAAAA
7965078 AATTATAAAA
1 AATTATAAAA
7965088 TAATGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.07
21 12 0.44
22 11 0.41
23 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AATTATAAAAATATAAATAAAA
Found at i:7965079 original size:13 final size:13
Alignment explanation
Indices: 7965040--7965080 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
7965030 AATCAATTAC
*
7965040 AATAAATATAAAT
1 AATAAATATAAAA
7965053 AATAAATAT-AAA
1 AATAAATATAAAA
7965065 AATAAATATAAAA
1 AATAAATATAAAA
7965078 AAT
1 AAT
7965081 TATAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAAATATAAAA
Found at i:7965365 original size:17 final size:19
Alignment explanation
Indices: 7965333--7965370 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
7965323 TTTCAAGCAT
*
7965333 ATTGAAAATGTTAAATTTA
1 ATTGAAAATGTTAAATATA
7965352 ATTG-AAAT-TTAAATATA
1 ATTGAAAATGTTAAATATA
7965369 AT
1 AT
7965371 AATTGAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 4 0.22
19 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
ATTGAAAATGTTAAATATA
Found at i:7970720 original size:2 final size:2
Alignment explanation
Indices: 7970713--7970743 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7970703 CTATTGAGAG
7970713 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7970744 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7974654 original size:23 final size:22
Alignment explanation
Indices: 7974628--7974682 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
7974618 AATACGATAC
7974628 AAATATATATT-TTAAAATTTATA
1 AAATATATATTATT--AATTTATA
* *
7974651 AAATATAAATTATTAATTTATT
1 AAATATATATTATTAATTTATA
*
7974673 AAATTTATAT
1 AAATATATAT
7974683 AAATATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 15 0.56
23 10 0.37
24 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATATATTATTAATTTATA
Found at i:7975123 original size:34 final size:34
Alignment explanation
Indices: 7975055--7975237 Score: 260
Period size: 34 Copynumber: 5.4 Consensus size: 34
7975045 ATTAAGGAAG
* * *
7975055 TGTTGATTAAAT-GGTGATTTGGTAGTTTATCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
7975088 TGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
7975122 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
7975156 TGTTGATTAAATGGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
7975190 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
7975224 TGTTGATTAAATGG
1 TGTTGATTAAATGG
7975238 TGGTTTTTAC
Statistics
Matches: 133, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
33 11 0.08
34 122 0.92
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:7975185 original size:102 final size:101
Alignment explanation
Indices: 7975055--7975237 Score: 312
Period size: 102 Copynumber: 1.8 Consensus size: 101
7975045 ATTAAGGAAG
*
7975055 TGTTGATTAAATGGTGATTTGGTAGTTTATCATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 TGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
7975120 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
66 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
7975156 TGTTGATTAAATGGGTGATTTGGTGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGC
1 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTTAC
7975221 CATTGTTGATTAAATGG
65 CATTGTTGATTAAATGG
7975238 TGGTTTTTAC
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 12 0.16
102 64 0.84
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.40
Consensus pattern (101 bp):
TGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:7975598 original size:19 final size:19
Alignment explanation
Indices: 7975542--7975604 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
7975532 TGGTTGTCGA
**
7975542 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
7975561 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
7975580 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
7975599 GTTACT
1 GGTACT
7975605 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:7979736 original size:34 final size:34
Alignment explanation
Indices: 7979670--7979854 Score: 273
Period size: 34 Copynumber: 5.5 Consensus size: 34
7979660 AAGTGGGAGA
* *
7979670 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
7979703 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
7979737 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
7979771 ATTGTTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
7979805 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
7979839 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
7979855 TGGTTTTTAC
Statistics
Matches: 136, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 13 0.10
34 123 0.90
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:7979845 original size:102 final size:101
Alignment explanation
Indices: 7979670--7979854 Score: 325
Period size: 102 Copynumber: 1.8 Consensus size: 101
7979660 AAGTGGGAGA
7979670 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTTA
7979735 CCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
7979771 ATTGTTGATTAAATGGGTGATTTGGTGGTTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTT
*
7979836 GCCATTGTTGATTAAATGG
65 ACCATTGTTGATTAAATGG
7979855 TGGTTTTTAC
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 14 0.18
102 65 0.82
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGACTAAATGGGAAATTTGGTAGCTTA
CCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:7992488 original size:53 final size:54
Alignment explanation
Indices: 7992413--7992516 Score: 156
Period size: 53 Copynumber: 1.9 Consensus size: 54
7992403 ACTCACTAAA
* *
7992413 AAAAGAAAAGTAAAGTGAGGGCTGTGGCTTGAAAAATTAACTTAAAAAAAGCTT
1 AAAAGAAAAGTAAAGCGAGGGCTGTGGCGTGAAAAATTAACTTAAAAAAAGCTT
* * *
7992467 AAAA-AAAAGTAAAGCGGGGGCTGTGGCGTGAAAAATTGACTTAGAAAAAG
1 AAAAGAAAAGTAAAGCGAGGGCTGTGGCGTGAAAAATTAACTTAAAAAAAG
7992517 TTTAGGATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 41 0.91
54 4 0.09
ACGTcount: A:0.47, C:0.08, G:0.26, T:0.19
Consensus pattern (54 bp):
AAAAGAAAAGTAAAGCGAGGGCTGTGGCGTGAAAAATTAACTTAAAAAAAGCTT
Found at i:7993577 original size:34 final size:33
Alignment explanation
Indices: 7993530--7993599 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
7993520 AAATAAAATA
* *
7993530 AATTTAAATTATTTTACAAATAAATTTTTATATT
1 AATTTAAATTA-TTTAAAAATAAATTTTTATAAT
**
7993564 AATTT-AATCTATTTAAAAATTTATTTTTATAAT
1 AATTTAAAT-TATTTAAAAATAAATTTTTATAAT
7993597 AAT
1 AAT
7993600 CAAATAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (33 bp):
AATTTAAATTATTTAAAAATAAATTTTTATAAT
Found at i:7993688 original size:28 final size:28
Alignment explanation
Indices: 7993604--7993703 Score: 71
Period size: 28 Copynumber: 3.6 Consensus size: 28
7993594 AATAATCAAA
* * * *
7993604 TAAAGATAAATTTATTCATAATCAAAA-T
1 TAAATATAAATTTAATAATAA-AAAAATT
* * *
7993632 TAAATTTAAA-TAAAAAATAAAAAAATT
1 TAAATATAAATTTAATAATAAAAAAATT
* **
7993659 TAAA-ATTAATTTCAATAATAAAAACTTT
1 TAAATATAAATTT-AATAATAAAAAAATT
7993687 TAAATATAAATTTAATA
1 TAAATATAAATTTAATA
7993704 TTTATCTATT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
26 7 0.13
27 12 0.22
28 28 0.52
29 7 0.13
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (28 bp):
TAAATATAAATTTAATAATAAAAAAATT
Found at i:7993799 original size:25 final size:25
Alignment explanation
Indices: 7993768--7993842 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
7993758 ATATAAAAAT
7993768 AATTTTATAATAAAAATTTATTAAA
1 AATTTTATAATAAAAATTTATTAAA
**
7993793 AATTTTA-AA-AATAATATAAATTAAA
1 AATTTTATAATAA-AA-ATTTATTAAA
* **
7993818 AATTATATAATATTAA-TTATTAAA
1 AATTTTATAATAAAAATTTATTAAA
7993842 A
1 A
7993843 TTAAAATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
23 2 0.05
24 11 0.28
25 22 0.56
26 3 0.08
27 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATTTTATAATAAAAATTTATTAAA
Found at i:7993818 original size:16 final size:17
Alignment explanation
Indices: 7993797--7993833 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
7993787 ATTAAAAATT
7993797 TTAAAAATAATATAA-A
1 TTAAAAATAATATAATA
*
7993813 TTAAAAATTATATAATA
1 TTAAAAATAATATAATA
7993830 TTAA
1 TTAA
7993834 TTATTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATAATATAATA
Found at i:7993828 original size:21 final size:22
Alignment explanation
Indices: 7993803--7993845 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7993793 AATTTTAAAA
7993803 ATAATATAAATTA-AAAATTAT
1 ATAATATAAATTATAAAATTAT
*
7993824 ATAATATTAATTATTAAAATTA
1 ATAATATAAATTA-TAAAATTA
7993846 AAATTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAATATAAATTATAAAATTAT
Found at i:7999553 original size:27 final size:28
Alignment explanation
Indices: 7999523--7999584 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
7999513 AGTTTAAATT
* *
7999523 ATTATTTAATAAAAATATTTATAT-TTA
1 ATTATTTAATAAAAATATTAATATATAA
** *
7999550 ATTATAAAATATAAATATTAATATATAA
1 ATTATTTAATAAAAATATTAATATATAA
7999578 ATTATTT
1 ATTATTT
7999585 TTTATTTTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTATTTAATAAAAATATTAATATATAA
Found at i:7999560 original size:21 final size:21
Alignment explanation
Indices: 7999525--7999584 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
7999515 TTTAAATTAT
7999525 TATTTAA-TA-AAAATATTTA
1 TATTTAATTATAAAATATTTA
**
7999544 TATTTAATTATAAAATATAAA
1 TATTTAATTATAAAATATTTA
*
7999565 TA-TTAATATATAAATTATTT
1 TATTTAAT-TATAAAATATTT
7999585 TTTATTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 7 0.21
20 7 0.21
21 19 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTTAATTATAAAATATTTA
Found at i:8000530 original size:16 final size:15
Alignment explanation
Indices: 8000504--8000539 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
8000494 TAAATTAAAA
8000504 TTAAA-TTTATCTGAT
1 TTAAATTTTATC-GAT
8000519 TTAAATTTTATCGAT
1 TTAAATTTTATCGAT
8000534 TTAAAT
1 TTAAAT
8000540 CAAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (15 bp):
TTAAATTTTATCGAT
Found at i:8000719 original size:19 final size:22
Alignment explanation
Indices: 8000692--8000743 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 22
8000682 ATCCATTTGA
*
8000692 TTTATTAATTTTTTAAA-A-AT
1 TTTACTAATTTTTTAAAGATAT
*
8000712 TTTA-TAATATTTTAAAGATAT
1 TTTACTAATTTTTTAAAGATAT
8000733 TTTACTAATTT
1 TTTACTAATTT
8000744 AAATATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 11 0.41
20 5 0.19
21 6 0.22
22 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTACTAATTTTTTAAAGATAT
Found at i:8000809 original size:21 final size:23
Alignment explanation
Indices: 8000783--8000835 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
8000773 AAAATAAAAA
8000783 TTAATTAAAAATTAAAT-AT-AT
1 TTAATTAAAAATTAAATCATAAT
**
8000804 TTAATTAGTAATTAAATCATAAT
1 TTAATTAAAAATTAAATCATAAT
*
8000827 TAAATTAAA
1 TTAATTAAA
8000836 TCCAATAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 15 0.60
22 2 0.08
23 8 0.32
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TTAATTAAAAATTAAATCATAAT
Found at i:8001698 original size:27 final size:28
Alignment explanation
Indices: 8001652--8001711 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
8001642 AATAAAAAAT
8001652 TAAT-TAAAAATAATATAAAATATGATA
1 TAATATAAAAATAATATAAAATATGATA
8001679 TAATATAAAAATAATA-AAAATATGATA
1 TAATATAAAAATAATATAAAATATGATA
8001706 TGAATA
1 T-AATA
8001712 CATAAATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 16 0.52
28 15 0.48
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (28 bp):
TAATATAAAAATAATATAAAATATGATA
Found at i:8001718 original size:28 final size:28
Alignment explanation
Indices: 8001657--8001718 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
8001647 AAAATTAATT
*
8001657 AAAAATAATATAAAATATGATATAATAT
1 AAAAATAATATAAAATATGATATAATAC
8001685 AAAAATAATA-AAAATATGATATGAATAC
1 AAAAATAATATAAAATATGATAT-AATAC
*
8001713 ATAAAT
1 AAAAAT
8001719 GTATTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (28 bp):
AAAAATAATATAAAATATGATATAATAC
Found at i:8005162 original size:15 final size:15
Alignment explanation
Indices: 8005112--8005162 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 15
8005102 ACACGATTTA
8005112 ATTTAATTAATTAAT
1 ATTTAATTAATTAAT
8005127 A--TAATT-ATT-AT
1 ATTTAATTAATTAAT
*
8005138 TTTTAA--AATTAAT
1 ATTTAATTAATTAAT
8005151 ATTTAATTAATT
1 ATTTAATTAATT
8005163 TAAAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
11 2 0.07
12 6 0.21
13 15 0.54
15 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTAATTAATTAAT
Found at i:8005429 original size:2 final size:2
Alignment explanation
Indices: 8005422--8005449 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8005412 AATAGTGAAG
8005422 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8005450 TTGGGTCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8010671 original size:25 final size:25
Alignment explanation
Indices: 8010619--8010672 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
8010609 TAAATTTGCA
* *
8010619 AAAATTATATTTATAAATGATGAAT
1 AAAATTATATTTAAAAATAATGAAT
*
8010644 AAAATTATA-TTAAAAATAATTGATT
1 AAAATTATATTTAAAAATAA-TGAAT
8010669 AAAA
1 AAAA
8010673 ATTAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (25 bp):
AAAATTATATTTAAAAATAATGAAT
Found at i:8012331 original size:7 final size:8
Alignment explanation
Indices: 8012293--8012341 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 8
8012283 TTTTAAAAAA
8012293 TAATA-TT
1 TAATATTT
8012300 TAATAATTT
1 TAAT-ATTT
8012309 TAA-ATTT
1 TAATATTT
8012316 TAA-ATTT
1 TAATATTT
8012323 TAATATTT
1 TAATATTT
8012331 ATAATTATTT
1 -TAA-TATTT
8012341 T
1 T
8012342 TTTCATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
7 18 0.49
8 5 0.14
9 9 0.24
10 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TAATATTT
Found at i:8012331 original size:14 final size:15
Alignment explanation
Indices: 8012293--8012336 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
8012283 TTTTAAAAAA
8012293 TAATATTTAATAATTT
1 TAATATTT-ATAATTT
8012309 TAA-ATTT-TAAATTT
1 TAATATTTAT-AATTT
8012323 TAATATTTATAATT
1 TAATATTTATAATT
8012337 ATTTTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.04
14 8 0.32
15 12 0.48
16 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATATTTATAATTT
Found at i:8012573 original size:24 final size:22
Alignment explanation
Indices: 8012533--8012583 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
8012523 ATTTAGAAAT
8012533 AATATGAAAAAAATAATAAAAA
1 AATATGAAAAAAATAATAAAAA
*
8012555 AATATGATATAAAAATAATATAAA
1 AATATGA-A-AAAAATAATAAAAA
*
8012579 TATAT
1 AATAT
8012584 AAATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.28
23 1 0.04
24 17 0.68
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (22 bp):
AATATGAAAAAAATAATAAAAA
Found at i:8012620 original size:22 final size:21
Alignment explanation
Indices: 8012578--8012629 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
8012568 AATAATATAA
*
8012578 ATATATAAATATATTTAAATTT
1 ATATA-AAATAAATTTAAATTT
*
8012600 ATATAAAATAAATTATTAATTT
1 ATATAAAATAAATT-TAAATTT
8012622 AT-TAAAAT
1 ATATAAAAT
8012630 TTTTATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATAAAATAAATTTAAATTT
Found at i:8012637 original size:32 final size:33
Alignment explanation
Indices: 8012569--8012643 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
8012559 TGATATAAAA
* *
8012569 ATAATATAAATATATAAATATATTTAAATTTAT
1 ATAAAATAAATATATAAATATATTAAAATTTAT
* * *
8012602 ATAAAATAAAT-TATTAATTTATTAAAATTTTT
1 ATAAAATAAATATATAAATATATTAAAATTTAT
8012634 ATAAATATAA
1 ATAAA-ATAA
8012644 TATTTTATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 22 0.61
33 14 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATAAAATAAATATATAAATATATTAAAATTTAT
Found at i:8013399 original size:22 final size:24
Alignment explanation
Indices: 8013357--8013405 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
8013347 GTTATTTATA
*
8013357 TAATATAAAAAATAATTAAAATAT
1 TAATATAAAAAATAATAAAAATAT
8013381 TAATAT-AAAAAT-ATAAAAATAT
1 TAATATAAAAAATAATAAAAATAT
8013403 TAA
1 TAA
8013406 ATTTTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 12 0.50
23 6 0.25
24 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
TAATATAAAAAATAATAAAAATAT
Found at i:8013426 original size:37 final size:37
Alignment explanation
Indices: 8013373--8013457 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
8013363 AAAAAATAAT
*
8013373 TAAAATATTAATATAAAA-ATATAAAAATATTAAATTTTA
1 TAAAATA-TAAAATAAAATAT-TAAAAA-ATTAAATTTTA
* * *
8013412 T-AAATATAAAATAAATTATTAATAAATTAAATTTTT
1 TAAAATATAAAATAAAATATTAAAAAATTAAATTTTA
8013448 TAAAATATAA
1 TAAAATATAA
8013458 TATATTAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
36 11 0.28
37 21 0.52
38 7 0.17
39 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (37 bp):
TAAAATATAAAATAAAATATTAAAAAATTAAATTTTA
Found at i:8013428 original size:20 final size:21
Alignment explanation
Indices: 8013403--8013442 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8013393 ATAAAAATAT
8013403 TAAATT-TT-ATAAATATAAAA
1 TAAATTATTAATAAAT-TAAAA
8013423 TAAATTATTAATAAATTAAA
1 TAAATTATTAATAAATTAAA
8013443 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTATTAATAAATTAAAA
Found at i:8014628 original size:15 final size:15
Alignment explanation
Indices: 8014596--8014652 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
8014586 CATTTATATG
*
8014596 ATATAAAAATAATTAAA
1 ATATAAATATAA--AAA
*
8014613 ATATTAATATAAAAA
1 ATATAAATATAAAAA
*
8014628 ATATAAATATATAAAT
1 ATATAAATATA-AAAA
8014644 ATATCAAAT
1 ATAT-AAAT
8014653 TTTATATGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 13 0.38
16 7 0.21
17 14 0.41
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAAATATAAAAA
Found at i:8014652 original size:23 final size:22
Alignment explanation
Indices: 8014596--8014646 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
8014586 CATTTATATG
*
8014596 ATAT-AAAAATAATTAAAATATTA
1 ATATAAAAAAT-A-TAAAATATAA
8014619 ATATAAAAAATATAAATATATAA
1 ATATAAAAAATATAAA-ATATAA
8014642 ATATA
1 ATATA
8014647 TCAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 4 0.16
23 15 0.60
24 6 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATAAAAAATATAAAATATAA
Found at i:8016774 original size:20 final size:20
Alignment explanation
Indices: 8016731--8016787 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
8016721 AATTAAATGT
* * *
8016731 TTATTTATTAAATTTAAT-A
1 TTATTTTTTAATTTTATTGA
*
8016750 TTATTTTTTGATTTTATTGA
1 TTATTTTTTAATTTTATTGA
8016770 TTATTTTTTAATTTTATT
1 TTATTTTTTAATTTTATT
8016788 TTCTCTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (20 bp):
TTATTTTTTAATTTTATTGA
Found at i:8017345 original size:13 final size:14
Alignment explanation
Indices: 8017327--8017359 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8017317 CATTATCATC
8017327 TTCTCTT-TTTTTT
1 TTCTCTTCTTTTTT
8017340 TTCTCTTCTTTTTT
1 TTCTCTTCTTTTTT
8017354 TATCTC
1 T-TCTC
8017360 AAATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (14 bp):
TTCTCTTCTTTTTT
Found at i:8018214 original size:32 final size:31
Alignment explanation
Indices: 8018162--8018226 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 31
8018152 CAAGGCTTTA
8018162 TTTTTTATAATAAATTAATTAAATATATAAAT
1 TTTTTTATAATAAA-TAATTAAATATATAAAT
* *
8018194 TTTTTTATAAGTTAAA-AATTAATTTTATAAAT
1 TTTTTTATAA--TAAATAATTAAATATATAAAT
8018226 T
1 T
8018227 AAAATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 25 0.86
34 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (31 bp):
TTTTTTATAATAAATAATTAAATATATAAAT
Found at i:8018221 original size:20 final size:21
Alignment explanation
Indices: 8018196--8018236 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
8018186 ATATAAATTT
*
8018196 TTTTATAAGTTAAAA-ATTAA
1 TTTTATAAATTAAAATATTAA
8018216 TTTTATAAATTAAAATATTAA
1 TTTTATAAATTAAAATATTAA
8018237 CTATAATCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTTATAAATTAAAATATTAA
Found at i:8018742 original size:24 final size:24
Alignment explanation
Indices: 8018715--8018760 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8018705 AGTTGTTTTT
8018715 TTATTTATAAAAAATGGTGACTTG
1 TTATTTATAAAAAATGGTGACTTG
* * *
8018739 TTATTTGTCAAAATTGGTGACT
1 TTATTTATAAAAAATGGTGACT
8018761 AATTTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (24 bp):
TTATTTATAAAAAATGGTGACTTG
Found at i:8022708 original size:30 final size:30
Alignment explanation
Indices: 8022672--8022732 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
8022662 TGATTTAGAC
*
8022672 AAGCGTCGATCAACTATTGGTTATGTTTTT
1 AAGCGTCGATCAACTATTGATTATGTTTTT
8022702 AAGCGTCGATCAACTATTGATTATGTTTTT
1 AAGCGTCGATCAACTATTGATTATGTTTTT
8022732 A
1 A
8022733 CTCTTGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (30 bp):
AAGCGTCGATCAACTATTGATTATGTTTTT
Found at i:8024164 original size:38 final size:40
Alignment explanation
Indices: 8024121--8024199 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
8024111 TGTTATAATT
* *
8024121 AAATTAACT-TCAAA-TTAAATT-AATGTTAATTAATTCAA
1 AAATT-ACTGTCAAACTAAAATTGAATGTAAATTAATTCAA
* *
8024159 AAATTAGTGTCAAACTAAAATTGAGTGTAAATTAATTCAA
1 AAATTACTGTCAAACTAAAATTGAATGTAAATTAATTCAA
8024199 A
1 A
8024200 TGCGAGTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
37 2 0.06
38 10 0.29
39 6 0.18
40 16 0.47
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (40 bp):
AAATTACTGTCAAACTAAAATTGAATGTAAATTAATTCAA
Found at i:8026784 original size:25 final size:25
Alignment explanation
Indices: 8026731--8026802 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 25
8026721 ATAAATTTAC
* * *
8026731 AAAAATTATATTTATAAATGATGAAT
1 AAAAATTATA-TTAAAAATAATTAAT
8026757 -AAAATTATATTAAAAATAATTAATT
1 AAAAATTATATTAAAAATAATTAA-T
*
8026782 AAAAATTA-ATGAAAAA-AATTA
1 AAAAATTATATTAAAAATAATTA
8026803 GATTTTTCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 16 0.40
25 17 0.43
26 7 0.17
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAAATTATATTAAAAATAATTAAT
Found at i:8026791 original size:15 final size:15
Alignment explanation
Indices: 8026759--8026787 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8026749 TGATGAATAA
8026759 AATTATATTAAAAAT
1 AATTATATTAAAAAT
8026774 AATTA-ATTAAAAAT
1 AATTATATTAAAAAT
8026788 TAATGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTATATTAAAAAT
Found at i:8027015 original size:2 final size:2
Alignment explanation
Indices: 8027008--8027061 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
8026998 GTGTGATCCA
8027008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8027050 AT AT AT AT AT AT
1 AT AT AT AT AT AT
8027062 GAGAATAAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8028114 original size:2 final size:2
Alignment explanation
Indices: 8028107--8028137 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8028097 AAAGTTATTG
8028107 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
8028138 CACTTAAAAT
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:8029282 original size:15 final size:15
Alignment explanation
Indices: 8029262--8029293 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8029252 CATAACTCCA
8029262 TAACTCCACAACTTT
1 TAACTCCACAACTTT
8029277 TAACTCCACAACTTT
1 TAACTCCACAACTTT
8029292 TA
1 TA
8029294 TTCCCAGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (15 bp):
TAACTCCACAACTTT
Found at i:8029492 original size:24 final size:23
Alignment explanation
Indices: 8029447--8029515 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
8029437 TATGATATAA
8029447 AAATAATATAAATATATTAATTT
1 AAATAATATAAATATATTAATTT
*
8029470 AAAT-ATATAATTATATTAAAATTT
1 AAATAATATAAATATATT--AATTT
* *
8029494 ATATAAAATAAAT-TATTAATTT
1 AAATAATATAAATATATTAATTT
8029516 TATCAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 17 0.44
23 4 0.10
24 12 0.31
25 6 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATAATATAAATATATTAATTT
Found at i:8029506 original size:33 final size:34
Alignment explanation
Indices: 8029469--8029538 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
8029459 TATATTAATT
*
8029469 TAAA-TATATAATTATAT-TAAAATTTATATAAA-A
1 TAAATTAT-TAATTATATCAAAAATTT-TATAAATA
*
8029502 TAAATTATTAATTTTATCAAAAATTTTATAAATA
1 TAAATTATTAATTATATCAAAAATTTTATAAATA
8029536 TAA
1 TAA
8029539 TATTTTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
33 18 0.56
34 14 0.44
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (34 bp):
TAAATTATTAATTATATCAAAAATTTTATAAATA
Found at i:8029821 original size:16 final size:16
Alignment explanation
Indices: 8029796--8029847 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
8029786 AATTTTACGA
8029796 TTAAAATTAAAATAAT
1 TTAAAATTAAAATAAT
*
8029812 TTAAATTTAAAATAAT
1 TTAAAATTAAAATAAT
* * *
8029828 ATAAAA-TCAGATAAT
1 TTAAAATTAAAATAAT
8029843 TTAAA
1 TTAAA
8029848 TAATTTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
TTAAAATTAAAATAAT
Found at i:8031562 original size:4 final size:4
Alignment explanation
Indices: 8031553--8031579 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8031543 CCTTGCTGAC
8031553 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
8031580 AAGCCCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:8032327 original size:3 final size:3
Alignment explanation
Indices: 8032319--8032343 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8032309 CAAGATCAGT
8032319 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
8032344 GAAGCCTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:8033791 original size:2 final size:2
Alignment explanation
Indices: 8033784--8033835 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
8033774 ATCTAGCTTT
8033784 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
8033825 TA CA TA -A TA TA
1 TA TA TA TA TA TA
8033836 AAAATAAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8038944 original size:19 final size:19
Alignment explanation
Indices: 8038920--8038956 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8038910 TTATTAAAAT
8038920 TTTTTATTA-TAAAATAATA
1 TTTTTATTAGT-AAATAATA
8038939 TTTTTATTAGTAAATAAT
1 TTTTTATTAGTAAATAAT
8038957 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTTATTAGTAAATAATA
Found at i:8039922 original size:15 final size:17
Alignment explanation
Indices: 8039902--8039934 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
8039892 AAACATATAT
8039902 ATTTAT-TTTAAA-AAA
1 ATTTATGTTTAAATAAA
8039917 ATTTATGTTTAAATAAA
1 ATTTATGTTTAAATAAA
8039934 A
1 A
8039935 GATTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTTATGTTTAAATAAA
Found at i:8039990 original size:17 final size:16
Alignment explanation
Indices: 8039955--8039998 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
8039945 ATATTATATC
* *
8039955 ATATATTTATATTTAA
1 ATATATTTAAATATAA
8039971 ATATATATTAAATATAA
1 ATATAT-TTAAATATAA
*
8039988 ATATTTTTAAA
1 ATATATTTAAA
8039999 AAATCATAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATTTAAATATAA
Found at i:8040915 original size:22 final size:21
Alignment explanation
Indices: 8040847--8040924 Score: 63
Period size: 22 Copynumber: 3.8 Consensus size: 21
8040837 ATTTTATAAA
*
8040847 ATTATTAAAAAATTA-TTTTT
1 ATTATTAAAAAATAATTTTTT
* * *
8040867 A-TATTAATAAAT-ATTATTA
1 ATTATTAAAAAATAATTTTTT
*
8040886 AATATTTAAAAAATAATTTTTT
1 ATTA-TTAAAAAATAATTTTTT
*
8040908 ATTATTTAAACAATAAT
1 ATTA-TTAAAAAATAAT
8040925 AATTGTGATG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.02
19 14 0.30
20 3 0.07
21 8 0.17
22 20 0.43
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTATTAAAAAATAATTTTTT
Found at i:8041787 original size:16 final size:16
Alignment explanation
Indices: 8041756--8041797 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
8041746 CATGTTGAAC
8041756 TTATTATAATTAAATTAA
1 TTATTA-AATTAAATT-A
*
8041774 TT-TTAAATTTAATTA
1 TTATTAAATTAAATTA
8041789 TTATTAAAT
1 TTATTAAAT
8041798 AATCTAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 14 0.64
17 3 0.14
18 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTAAATTAAATTA
Found at i:8042425 original size:17 final size:19
Alignment explanation
Indices: 8042387--8042425 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
8042377 AATTTTTTAA
8042387 TATATAAAAAACTATTCAT
1 TATATAAAAAACTATTCAT
*
8042406 TATA-AAAAAATTATTC-T
1 TATATAAAAAACTATTCAT
8042423 TAT
1 TAT
8042426 TTTTTCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
TATATAAAAAACTATTCAT
Found at i:8043315 original size:5 final size:5
Alignment explanation
Indices: 8043305--8043336 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
8043295 ACATCAAAAC
8043305 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
8043337 GATTGATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:8047245 original size:6 final size:6
Alignment explanation
Indices: 8047234--8047272 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
8047224 TATGGATGTT
*
8047234 TATAAA TATAAA TATAAA TATAAA TATAAA TATATA TAT
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TAT
8047273 TTTCAATCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TATAAA
Found at i:8048886 original size:22 final size:22
Alignment explanation
Indices: 8048851--8048892 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
8048841 ATTTTGTATT
8048851 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
8048873 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
8048893 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:8054305 original size:16 final size:16
Alignment explanation
Indices: 8054286--8054318 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8054276 AAATTTAAAT
8054286 ATAAATATTAAATATA
1 ATAAATATTAAATATA
*
8054302 ATAAATATTCAATATA
1 ATAAATATTAAATATA
8054318 A
1 A
8054319 ATTTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAAATATTAAATATA
Found at i:8054335 original size:10 final size:10
Alignment explanation
Indices: 8054316--8054368 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 10
8054306 ATATTCAATA
8054316 TAAATTTTTT
1 TAAATTTTTT
8054326 T-AATTTTTT
1 TAAATTTTTT
8054335 TAAATTTTTT
1 TAAATTTTTT
* *
8054345 TATA-TATTT
1 TAAATTTTTT
*
8054354 AAATATTTTTT
1 TAA-ATTTTTT
8054365 TAAA
1 TAAA
8054369 ATTATATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 14 0.41
10 14 0.41
11 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TAAATTTTTT
Found at i:8054340 original size:19 final size:18
Alignment explanation
Indices: 8054316--8054364 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
8054306 ATATTCAATA
* *
8054316 TAAATTTTTTTAATTTTTT
1 TAAATTTTTTT-ATATATT
8054335 TAAATTTTTTTATATATT
1 TAAATTTTTTTATATATT
8054353 TAAATATTTTTT
1 TAAAT-TTTTTT
8054365 TAAAATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TAAATTTTTTTATATATT
Found at i:8058892 original size:28 final size:29
Alignment explanation
Indices: 8058832--8058892 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
8058822 TTAATGAATC
* *
8058832 TTAAAAATTAAATATTAATAATTATATTT
1 TTAAAAAATAAATATTAATAATTATATTG
*
8058861 TTAAAAAAT-AATATTAAATAATTTTA-TG
1 TTAAAAAATAAATATT-AATAATTATATTG
8058889 TTAA
1 TTAA
8058893 TGTATAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
TTAAAAAATAAATATTAATAATTATATTG
Found at i:8059087 original size:2 final size:2
Alignment explanation
Indices: 8059080--8059126 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
8059070 ACTATTAATG
*
8059080 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TA
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8059122 TC TC T
1 TC TC T
8059127 TAGCTGTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:8059504 original size:11 final size:12
Alignment explanation
Indices: 8059488--8059531 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
8059478 AATATTAAAA
8059488 ATTATTTTT-TT
1 ATTATTTTTATT
8059499 ATTATTTTTATT
1 ATTATTTTTATT
*
8059511 A-TATTTTTATA
1 ATTATTTTTATT
*
8059522 ATTATATTTA
1 ATTATTTTTA
8059532 AATATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTATTTTTATT
Found at i:8059548 original size:17 final size:18
Alignment explanation
Indices: 8059526--8059559 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8059516 TTTATAATTA
8059526 TATTTAAAT-ATAAATAT
1 TATTTAAATAATAAATAT
*
8059543 TATTTAATTAATAAATA
1 TATTTAAATAATAAATA
8059560 ATAATATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAAATAATAAATAT
Found at i:8059932 original size:24 final size:23
Alignment explanation
Indices: 8059905--8059961 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
8059895 ATTAAAATTA
8059905 TATATATATATATATTTCAAATAT
1 TATATATATATATATTTCAAA-AT
* *
8059929 TATAT-TAATTATATTTTTTAAAAT
1 TATATAT-A-TATATATTTCAAAAT
8059953 TATATATAT
1 TATATATAT
8059962 TTTTAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
23 2 0.07
24 14 0.50
25 12 0.43
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TATATATATATATATTTCAAAAT
Found at i:8060415 original size:16 final size:16
Alignment explanation
Indices: 8060396--8060428 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8060386 TTTTTAAATA
8060396 TTTTTA-AATTTATTAT
1 TTTTTATAATTT-TTAT
8060412 TTTTTATAATTTTTAT
1 TTTTTATAATTTTTAT
8060428 T
1 T
8060429 CACGTGAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTATAATTTTTAT
Found at i:8060601 original size:26 final size:28
Alignment explanation
Indices: 8060536--8060603 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 28
8060526 AAATATAGTC
* *
8060536 AAAAATTTTA-TATTCAAAGTTAAAATT
1 AAAATTTTTATTATTCAAAATTAAAATT
* * *
8060563 AATATATTAATTATT-AAAATT-AAATT
1 AAAATTTTTATTATTCAAAATTAAAATT
8060589 AAAATTTTTATTATT
1 AAAATTTTTATTATT
8060604 TTTATCTTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 17 0.53
27 11 0.34
28 4 0.12
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
AAAATTTTTATTATTCAAAATTAAAATT
Found at i:8061195 original size:13 final size:13
Alignment explanation
Indices: 8061139--8061234 Score: 76
Period size: 13 Copynumber: 7.5 Consensus size: 13
8061129 TTGAAAAAAA
*
8061139 TAATTAAATTTAGT
1 TAATT-AATTTAAT
8061153 TAAATTAATTTAAT
1 T-AATTAATTTAAT
* * *
8061167 TTATTTATTT-TT
1 TAATTAATTTAAT
8061179 TAATTAATTT-AT
1 TAATTAATTTAAT
8061191 ATAATTAATTTAAT
1 -TAATTAATTTAAT
**
8061205 TAATTAATTCGAT
1 TAATTAATTTAAT
8061218 TAATT--TTTAAT
1 TAATTAATTTAAT
8061229 T-ATTAA
1 TAATTAA
8061235 AATATAAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
10 3 0.05
11 5 0.08
12 10 0.15
13 33 0.50
14 11 0.17
15 4 0.06
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (13 bp):
TAATTAATTTAAT
Found at i:8061257 original size:22 final size:21
Alignment explanation
Indices: 8061230--8061284 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
8061220 ATTTTTAATT
8061230 ATTAAAATATAAAATTAAATAA
1 ATTAAAATATAAAATTAAAT-A
* *
8061252 ATTAAAATAATTAAATTTAATA
1 ATTAAAAT-ATAAAATTAAATA
*
8061274 TTTAAAATATA
1 ATTAAAATATA
8061285 TTTCATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.07
22 16 0.57
23 10 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTAAAATATAAAATTAAATA
Found at i:8061351 original size:23 final size:23
Alignment explanation
Indices: 8061302--8061352 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
8061292 AAATATAAAT
* *
8061302 TTAAATTTAAACTAAAAATCTAT
1 TTAAACTTAAACTAAAAATCTAA
* * *
8061325 TTAAACTTAAATTAAAACTTTAA
1 TTAAACTTAAACTAAAAATCTAA
8061348 TTAAA
1 TTAAA
8061353 AAATAATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (23 bp):
TTAAACTTAAACTAAAAATCTAA
Found at i:8061376 original size:19 final size:18
Alignment explanation
Indices: 8061345--8061428 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 18
8061335 ATTAAAACTT
*
8061345 TAATTAAAAAATAATAAAAC
1 TAATT-AAAAA-AATAAAAA
*
8061365 TCAATTAAAATAAA-AAATA
1 T-AATTAAAA-AAATAAAAA
8061384 TAAATTAAATAAAATAAAAA
1 T-AATTAAA-AAAATAAAAA
8061404 TAATTCAAAAAAATAAAAA
1 TAATT-AAAAAAATAAAAA
8061423 -AATTAA
1 TAATTAA
8061429 TCAAATTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.04
18 4 0.07
19 28 0.51
20 16 0.29
21 5 0.09
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (18 bp):
TAATTAAAAAAATAAAAA
Found at i:8061485 original size:32 final size:31
Alignment explanation
Indices: 8061438--8061539 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 31
8061428 ATCAAATTAA
* *
8061438 TTAACTTTAATATCAATTCAATTATTTTAATT
1 TTAAATTTAAAATCAATT-AATTATTTTAATT
* *
8061470 TTAAATTTAAAATCAATTAATT-TAATCAATT
1 TTAAATTTAAAATCAATTAATTAT-TTTAATT
*
8061501 TTAATATTT-AAATTAATTAAATTAATTTTTAA-T
1 TTAA-ATTTAAAATCAATT-AATT-A-TTTTAATT
8061534 TTAAAT
1 TTAAAT
8061540 AAATTAAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
30 1 0.02
31 21 0.37
32 26 0.46
33 5 0.09
34 3 0.05
35 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (31 bp):
TTAAATTTAAAATCAATTAATTATTTTAATT
Found at i:8061504 original size:31 final size:31
Alignment explanation
Indices: 8061443--8061548 Score: 89
Period size: 31 Copynumber: 3.5 Consensus size: 31
8061433 ATTAATTAAC
* * *
8061443 TTTAATATCAATTCAATTATTTTAATTTTAA-A
1 TTTAA-ATCAATTAAATTA-ATCAATTTTAATA
*
8061475 TTTAAAATCAATTAATTTAATCAATTTTAATA
1 TTT-AAATCAATTAAATTAATCAATTTTAATA
*
8061507 TTTAAATTAATTAAATTAAT---TTTT-A-A
1 TTTAAATCAATTAAATTAATCAATTTTAATA
*
8061533 TTTAAATAAATTAAAT
1 TTTAAATCAATTAAAT
8061549 CAATTAAACT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
26 16 0.25
27 1 0.02
28 4 0.06
31 24 0.37
32 18 0.28
33 2 0.03
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (31 bp):
TTTAAATCAATTAAATTAATCAATTTTAATA
Done.