Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 148 of 190
Found at i:43530027 original size:8 final size:8
Alignment explanation
Indices: 43530014--43530042 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
43530004 ACCCGAGACT
43530014 CACTGTAA
1 CACTGTAA
43530022 CACTGTAA
1 CACTGTAA
43530030 CACTGTAA
1 CACTGTAA
43530038 CACTG
1 CACTG
43530043 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:43530179 original size:17 final size:17
Alignment explanation
Indices: 43530147--43530184 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
43530137 ATTTTCCTTC
43530147 CACATTCAATATTAATT
1 CACATTCAATATTAATT
43530164 CACATATCAATA-TAATT
1 CACAT-TCAATATTAATT
43530181 CACA
1 CACA
43530185 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (17 bp):
CACATTCAATATTAATT
Found at i:43537130 original size:21 final size:21
Alignment explanation
Indices: 43537106--43537200 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 21
43537096 TCCCGAAGTT
* *
43537106 TAAACAGAAGCACATAAGTGC
1 TAAACAGAAGCCCATAAGGGC
* * *
43537127 TAAACAAAAACCCATAAGGGT
1 TAAACAGAAGCCCATAAGGGC
* * * *
43537148 TGAATAGAAGCTCATAAGAGC
1 TAAACAGAAGCCCATAAGGGC
* * *
43537169 TGAACAGAAACCCATAAGGGT
1 TAAACAGAAGCCCATAAGGGC
43537190 TAAACAGAAGC
1 TAAACAGAAGC
43537201 TCAAAAGAGC
Statistics
Matches: 55, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (21 bp):
TAAACAGAAGCCCATAAGGGC
Found at i:43537212 original size:42 final size:42
Alignment explanation
Indices: 43537105--43537232 Score: 166
Period size: 42 Copynumber: 3.0 Consensus size: 42
43537095 ATCCCGAAGT
* * * *
43537105 TTAAACAGAAGCACATAAGTGCTAAACAAAAACCCATAAGGG
1 TTAAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGG
* *
43537147 TTGAATAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGG
1 TTAAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGG
* * * *
43537189 TTAAACAGAAGCTCAAAAGAGCTGATCGGAAACCCATTAGGG
1 TTAAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGG
43537231 TT
1 TT
43537233 GAACGAAAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (42 bp):
TTAAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGG
Found at i:43537483 original size:45 final size:45
Alignment explanation
Indices: 43537428--43537520 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
43537418 CTTCAAATTC
* * *
43537428 ATAATTTAACAATATTCCATTTTTCAACAACATGCTAAATACATA
1 ATAATCTAACAATATTACATTTTTCAACAACATACTAAATACATA
*
43537473 ATAATCTAACAATATTACATTTTTCAACAACATATTAAATACATA
1 ATAATCTAACAATATTACATTTTTCAACAACATACTAAATACATA
43537518 ATA
1 ATA
43537521 TCATTCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.35
Consensus pattern (45 bp):
ATAATCTAACAATATTACATTTTTCAACAACATACTAAATACATA
Found at i:43539810 original size:20 final size:22
Alignment explanation
Indices: 43539785--43539826 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
43539775 CGAATACGTA
43539785 ACACTGTT-TTTAC-TGTTCCT
1 ACACTGTTCTTTACGTGTTCCT
*
43539805 ACACTGTTCTTTGCGTGTTCCT
1 ACACTGTTCTTTACGTGTTCCT
43539827 GTTGCTGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 7 0.37
ACGTcount: A:0.12, C:0.26, G:0.14, T:0.48
Consensus pattern (22 bp):
ACACTGTTCTTTACGTGTTCCT
Found at i:43541077 original size:16 final size:16
Alignment explanation
Indices: 43541054--43541109 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
43541044 CATTTGGTTC
43541054 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* * *
43541070 GATGTAATTGAATAAA
1 GCTGTAATGGAATAGA
43541086 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
43541102 GCTGTAAT
1 GCTGTAAT
43541110 AAGTAATTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:43541181 original size:44 final size:46
Alignment explanation
Indices: 43541091--43541185 Score: 124
Period size: 44 Copynumber: 2.1 Consensus size: 46
43541081 ATAAAGCTGT
* * *
43541091 AATGGAATAGAGCTGTAATAAGTAATTCAATTGTTTGGTTGAATGG
1 AATGAAATAGACCTGTAATAAGTAATTCAATTGTTTAGTTGAATGG
*
43541137 AATGAAATAGACCTGTAATAA-T-ATTC-TTGTGTTTAGTTGAATGG
1 AATGAAATAGACCTGTAATAAGTAATTCAAT-TGTTTAGTTGAATGG
43541181 AATGA
1 AATGA
43541186 TGTTGTAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 1 0.02
46 19 0.43
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (46 bp):
AATGAAATAGACCTGTAATAAGTAATTCAATTGTTTAGTTGAATGG
Found at i:43543693 original size:2 final size:2
Alignment explanation
Indices: 43543688--43543717 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
43543678 AGCCACATGC
*
43543688 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43543718 TGCATATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43553463 original size:27 final size:27
Alignment explanation
Indices: 43553433--43553485 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
43553423 TGAGGGATTA
43553433 AATTGTAAAATTTGTAAAAATT-AGGGT
1 AATTGTAAAATTT-TAAAAATTGAGGGT
**
43553460 AATTGTGTAATTTTAAAAATTGAGGG
1 AATTGTAAAATTTTAAAAATTGAGGG
43553486 GTATTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.38
Consensus pattern (27 bp):
AATTGTAAAATTTTAAAAATTGAGGGT
Found at i:43553880 original size:24 final size:25
Alignment explanation
Indices: 43553797--43553908 Score: 147
Period size: 25 Copynumber: 4.6 Consensus size: 25
43553787 TCGTTCTGTG
*
43553797 GCAAATGATGAATTGACGGTAAAAT
1 GCAAAGGATGAATTGACGGTAAAAT
* *
43553822 GCAAAGGATGAATTAATGGTAAAAT
1 GCAAAGGATGAATTGACGGTAAAAT
**
43553847 GCAAAGGATGAATTGACGGT-CTAT
1 GCAAAGGATGAATTGACGGTAAAAT
* *
43553871 GCAAATGATGAATTGACGGT-ATAT
1 GCAAAGGATGAATTGACGGTAAAAT
43553895 GCAAAGGATGAATT
1 GCAAAGGATGAATT
43553909 CATGGCAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 37 0.48
25 40 0.52
ACGTcount: A:0.41, C:0.08, G:0.26, T:0.25
Consensus pattern (25 bp):
GCAAAGGATGAATTGACGGTAAAAT
Found at i:43557492 original size:2 final size:2
Alignment explanation
Indices: 43557442--43557481 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
43557432 AGCAGAACTG
43557442 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
43557482 TGTAGATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43558860 original size:4 final size:4
Alignment explanation
Indices: 43558851--43558878 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
43558841 TCTATAAACC
43558851 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
43558879 GTTGTCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:43560123 original size:17 final size:18
Alignment explanation
Indices: 43560097--43560130 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43560087 AATGAACACA
*
43560097 AATAATCAAT-CAATACC
1 AATAAGCAATACAATACC
43560114 AATAAGCAATACAATAC
1 AATAAGCAATACAATAC
43560131 ACATGAGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAGCAATACAATACC
Found at i:43560584 original size:3 final size:3
Alignment explanation
Indices: 43560576--43560636 Score: 61
Period size: 3 Copynumber: 19.3 Consensus size: 3
43560566 ATAACCAAAT
* *
43560576 ATA ATA ATA AT- ATCA ATA ATA ATA AGA GTA ATA ATA ATA ATAA ATAA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A
43560623 ATA ATAA ATA ATA A
1 ATA AT-A ATA ATA A
43560637 AAAAATTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 2 0.04
3 36 0.72
4 12 0.24
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:43560594 original size:15 final size:14
Alignment explanation
Indices: 43560576--43560636 Score: 72
Period size: 15 Copynumber: 4.3 Consensus size: 14
43560566 ATAACCAAAT
43560576 ATAATAATAATATCA
1 ATAATAATAATAT-A
*
43560591 ATAATAATAAGAGTA
1 ATAATAATAATA-TA
43560606 ATAATAATAATA-A
1 ATAATAATAATATA
43560619 ATAAATAATAA-ATA
1 AT-AATAATAATATA
43560633 ATAA
1 ATAA
43560637 AAAAATTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 6 0.15
14 11 0.27
15 23 0.56
16 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (14 bp):
ATAATAATAATATA
Found at i:43564638 original size:20 final size:19
Alignment explanation
Indices: 43564594--43564653 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 19
43564584 CTTTTCTTTA
*
43564594 ATTTTT-ATAATATTTGAAT
1 ATTTTTAATAAAATTT-AAT
*
43564613 AATTTTAATAAAATTTATAT
1 ATTTTTAATAAAATTTA-AT
43564633 ATTTTTCTAAATAAAATTTAA
1 A-TTTT-T-AATAAAATTTAA
43564654 CTTCTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 6 0.18
20 11 0.33
21 3 0.09
22 2 0.06
23 11 0.33
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTTTTAATAAAATTTAAT
Found at i:43571793 original size:26 final size:26
Alignment explanation
Indices: 43571740--43571811 Score: 126
Period size: 26 Copynumber: 2.7 Consensus size: 26
43571730 TAAAAAAATA
43571740 ATCAAAATATTATAACTTTTTTTTATTT
1 ATCAAAATATTATAA--TTTTTTTATTT
43571768 ATCAAAATATTATAATTTTTTTATTT
1 ATCAAAATATTATAATTTTTTTATTT
43571794 ATCAAAATATTATAATTT
1 ATCAAAATATTATAATTT
43571812 AAAAAAAACA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
26 29 0.66
28 15 0.34
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (26 bp):
ATCAAAATATTATAATTTTTTTATTT
Found at i:43572496 original size:18 final size:19
Alignment explanation
Indices: 43572473--43572559 Score: 99
Period size: 18 Copynumber: 4.7 Consensus size: 19
43572463 AGAATTCTAA
43572473 TTAA-TTAATAACTCTATT
1 TTAATTTAATAACTCTATT
*
43572491 TTAATTTAATAA-ACTATT
1 TTAATTTAATAACTCTATT
* *
43572509 CTCATTTAATAACTCTATT
1 TTAATTTAATAACTCTATT
*
43572528 TTAATTTAATAA-ACTATT
1 TTAATTTAATAACTCTATT
* *
43572546 CTCATTTAATAACT
1 TTAATTTAATAACT
43572560 NNNNNNNNNN
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
18 34 0.61
19 22 0.39
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATTTAATAACTCTATT
Found at i:43572519 original size:37 final size:37
Alignment explanation
Indices: 43572477--43572559 Score: 166
Period size: 37 Copynumber: 2.2 Consensus size: 37
43572467 TTCTAATTAA
43572477 TTAATAACTCTATTTTAATTTAATAAACTATTCTCAT
1 TTAATAACTCTATTTTAATTTAATAAACTATTCTCAT
43572514 TTAATAACTCTATTTTAATTTAATAAACTATTCTCAT
1 TTAATAACTCTATTTTAATTTAATAAACTATTCTCAT
43572551 TTAATAACT
1 TTAATAACT
43572560 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (37 bp):
TTAATAACTCTATTTTAATTTAATAAACTATTCTCAT
Found at i:43572802 original size:27 final size:27
Alignment explanation
Indices: 43572717--43572793 Score: 136
Period size: 27 Copynumber: 2.9 Consensus size: 27
43572707 TTTTAGTCCT
*
43572717 TTGGCACCATTGATGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
43572744 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
*
43572771 TTGGCACCTTTGGTGCCGCCAAT
1 TTGGCACCATTGGTGCCGCCAAT
43572794 GTGATTGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCACA
Found at i:43572901 original size:27 final size:28
Alignment explanation
Indices: 43572847--43572912 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
43572837 TATTTTTTGG
*
43572847 ATATTTTGGTAAATAAAAAAAAATTTATA
1 ATATTTTGGTAAAT-AAAAAAAAGTTATA
43572876 ATATTTTGGTAAAT-AAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
43572903 ATATTTTGGT
1 ATATTTTGGT
43572913 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 22 0.61
29 14 0.39
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:43574490 original size:9 final size:9
Alignment explanation
Indices: 43574476--43574501 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
43574466 GAATTTAGAA
43574476 AAAATAAAT
1 AAAATAAAT
43574485 AAAATAAAT
1 AAAATAAAT
43574494 AAAATAAA
1 AAAATAAA
43574502 ATCAGGACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:43578672 original size:18 final size:17
Alignment explanation
Indices: 43578649--43578685 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
43578639 AATTATTATT
43578649 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
43578665 AAATATATGATTTAATA
1 AAATATATGATTTAATA
43578682 AAAT
1 AAAT
43578686 TATTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:43578683 original size:59 final size:58
Alignment explanation
Indices: 43578607--43578784 Score: 177
Period size: 59 Copynumber: 3.0 Consensus size: 58
43578597 CTCAAATCAT
43578607 AATATATGATACTATAAAATATAATTTAAGATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATTAA
* * * *
43578666 AATATATGAT-TTAATAAAAT-T-ATTAATAATCAA-TATTATTATATGA-ATTTCCTAAAATCA
1 AATATATGATACT-ATAAAATATAATTTA-AAT-AATTATTATTAAAT-ATATTT--T--AATTA
*
43578726 T
58 A
*
43578727 AATATATGATAGTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATTA
43578785 TATGAATTTG
Statistics
Matches: 96, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
57 20 0.21
58 6 0.06
59 22 0.23
61 22 0.23
62 5 0.05
63 20 0.21
64 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATTAA
Found at i:43578694 original size:120 final size:120
Alignment explanation
Indices: 43578549--43578784 Score: 404
Period size: 120 Copynumber: 2.0 Consensus size: 120
43578539 ATTTTTTAAC
* *
43578549 ATATATTTAATAATAATTATTAATAATCAATATTGTTATATGAATTTACTCAAATCATAATATAT
1 ATATATTTAATAATAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATAT
43578614 GATACTATAAAATATAATTT-AAGATAATTATTATTAAATATATTTTAATTAAAAT
66 GATACTATAAAATATAATTTGAA-ATAATTATTATTAAATATATTTTAATTAAAAT
*
43578669 ATATGATTTAATAA-AATTATTAATAATCAATATTATTATATGAATTTCCTAAAATCATAATATA
1 ATAT-ATTTAATAATAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATA
*
43578733 TGATAGTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTA
65 TGATACTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTA
43578785 TATGAATTTG
Statistics
Matches: 110, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
120 99 0.90
121 11 0.10
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (120 bp):
ATATATTTAATAATAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATAT
GATACTATAAAATATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAAT
Found at i:43578772 original size:26 final size:25
Alignment explanation
Indices: 43578743--43578834 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 25
43578733 TGATAGTATA
43578743 AAATATAATTTGAAATAATTATTATT
1 AAATATAATTT-AAATAATTATTATT
* * *
43578769 AAATAT-ATTTTAATTA-TATGAATT
1 AAATATAATTTAAATAATTAT-TATT
**
43578793 -TGTATAATTTAATATAATTATTATT
1 AAATATAATTTAA-ATAATTATTATT
43578818 AAATATAATTT-AATAAT
1 AAATATAATTTAAATAAT
43578835 AATATATAAC
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
23 6 0.12
24 17 0.33
25 11 0.22
26 17 0.33
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
AAATATAATTTAAATAATTATTATT
Found at i:43578824 original size:16 final size:16
Alignment explanation
Indices: 43578757--43578827 Score: 51
Period size: 16 Copynumber: 4.4 Consensus size: 16
43578747 ATAATTTGAA
43578757 ATAATTATTATTAAAT
1 ATAATTATTATTAAAT
43578773 AT-ATT-TTAATT--AT
1 ATAATTATT-ATTAAAT
* *
43578786 ATGAATTTGTATAATTTAAT
1 AT-AA--T-TATTATTAAAT
43578806 ATAATTATTATTAAAT
1 ATAATTATTATTAAAT
43578822 ATAATT
1 ATAATT
43578828 TAATAATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
13 4 0.09
14 2 0.05
15 7 0.16
16 17 0.40
17 2 0.05
18 4 0.09
19 3 0.07
20 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATAATTATTATTAAAT
Found at i:43578877 original size:91 final size:91
Alignment explanation
Indices: 43578782--43579095 Score: 574
Period size: 91 Copynumber: 3.5 Consensus size: 91
43578772 TATATTTTAA
* * * * *
43578782 TTATATGAATTTGTATAATTTAATATAATTATTATTAAATATAATTTAATAATAATATATAACTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
43578847 CATCAAATTCTTGATAATAAATTTTC
66 CATCAAATTCTTGATAATAAATTTTC
43578873 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
43578938 CATCAAATTCTTGATAATAAATTTTC
66 CATCAAATTCTTGATAATAAATTTTC
43578964 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
*
43579029 CATAAAATTCTTGATAATAAATTTTC
66 CATCAAATTCTTGATAATAAATTTTC
43579055 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATA
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATA
43579096 NNNNNNNNNN
Statistics
Matches: 217, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 217 1.00
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
CATCAAATTCTTGATAATAAATTTTC
Found at i:43578979 original size:47 final size:46
Alignment explanation
Indices: 43578837--43579075 Score: 210
Period size: 47 Copynumber: 5.2 Consensus size: 46
43578827 TTAATAATAA
*
43578837 TATATAACTTCATCAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATATAATTTCAT-AAATTCTTGATAATAAATTTTCTTATATGAATT
** * * * *
43578884 TATATAATTT-A-AAATAATTAATATTAAATATAAT-TTA-AT-AATGA
1 TATATAATTTCATAAATTCTTGATAATAAAT-T-TTCTTATATGAAT-T
43578928 TATATAATTTCATCAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATATAATTTCAT-AAATTCTTGATAATAAATTTTCTTATATGAATT
** * * * *
43578975 TATATAATTT-A-AAATAATTAATATTAAATATAAT-TTA-AT-AATGA
1 TATATAATTTCATAAATTCTTGATAATAAAT-T-TTCTTATATGAAT-T
43579019 TATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATATAATTTCAT-AAATTCTTGATAATAAATTTTCTTATATGAATT
43579066 TATATAATTT
1 TATATAATTT
43579076 AAAATAATTA
Statistics
Matches: 149, Mismatches: 25, Indels: 36
0.71 0.12 0.17
Matches are distributed among these distances:
43 6 0.04
44 52 0.35
45 12 0.08
46 12 0.08
47 61 0.41
48 6 0.04
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (46 bp):
TATATAATTTCATAAATTCTTGATAATAAATTTTCTTATATGAATT
Found at i:43592831 original size:52 final size:52
Alignment explanation
Indices: 43592769--43592874 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
43592759 GTGTAACAGA
43592769 AAGGAATGTTTTGTAGACTTCAATGAGCAATTGTAGACAATGTGAAGCTAGG
1 AAGGAATGTTTTGTAGACTTCAATGAGCAATTGTAGACAATGTGAAGCTAGG
43592821 AAGGAATGTTTTGTAGACTTCAATGAGCAATTGTAGACAATGTGAAGCTAGG
1 AAGGAATGTTTTGTAGACTTCAATGAGCAATTGTAGACAATGTGAAGCTAGG
43592873 AA
1 AA
43592875 ATGATGCTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.28
Consensus pattern (52 bp):
AAGGAATGTTTTGTAGACTTCAATGAGCAATTGTAGACAATGTGAAGCTAGG
Found at i:43598167 original size:44 final size:44
Alignment explanation
Indices: 43598100--43598193 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
43598090 GTCTCGACTT
* *
43598100 TCATTTTCATATGCTTATCAAATATAAGTATTATATTAATCAAC
1 TCATTTTCATATGCTTATCAAATATAAGTATTACATTAATCAAA
* *
43598144 TCATTTTCATATGCTTATTAAATATAAGTATTGCATTAATCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTACATTAATCAAA
43598188 TCATTT
1 TCATTT
43598194 ATTGAATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (44 bp):
TCATTTTCATATGCTTATCAAATATAAGTATTACATTAATCAAA
Found at i:43598821 original size:13 final size:13
Alignment explanation
Indices: 43598803--43598849 Score: 94
Period size: 13 Copynumber: 3.6 Consensus size: 13
43598793 ACACTCAAAT
43598803 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
43598816 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
43598829 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
43598842 TTCTCAAA
1 TTCTCAAA
43598850 GTCTCCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.38, C:0.30, G:0.06, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:43602998 original size:18 final size:17
Alignment explanation
Indices: 43602976--43603024 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
43602966 CCATTGTTAT
*
43602976 TATTTTTAGAATTTTTA
1 TATTTTTAAAATTTTTA
43602993 TGATTTTTATAAATTTTTA
1 T-ATTTTTA-AAATTTTTA
*
43603012 -ATTTTTATAATTT
1 TATTTTTAAAATTT
43603025 GAACCATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 5 0.18
17 8 0.29
18 7 0.25
19 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TATTTTTAAAATTTTTA
Found at i:43603015 original size:17 final size:18
Alignment explanation
Indices: 43602985--43603021 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
43602975 TTATTTTTAG
43602985 AATTTTTATGATTTTTATA
1 AATTTTTA-GATTTTTATA
43603004 AATTTTTA-ATTTTTATA
1 AATTTTTAGATTTTTATA
43603021 A
1 A
43603022 TTTGAACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
AATTTTTAGATTTTTATA
Found at i:43607737 original size:2 final size:2
Alignment explanation
Indices: 43607732--43607761 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43607722 ATAACCGAGC
43607732 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
43607762 GTTAAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43607899 original size:23 final size:22
Alignment explanation
Indices: 43607869--43607914 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
43607859 TCAACTGCAT
*
43607869 ATTTATATGTAGATACTTCTCA
1 ATTTATATGTAGATACTTATCA
43607891 ATTTCATATGTAGATACTTATCA
1 ATTT-ATATGTAGATACTTATCA
43607914 A
1 A
43607915 ATACATATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTTATATGTAGATACTTATCA
Found at i:43607921 original size:23 final size:23
Alignment explanation
Indices: 43607873--43607922 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
43607863 CTGCATATTT
* * *
43607873 ATATGTAGATACTTCTCAATTTC
1 ATATGTAGATACTTATCAAATAC
43607896 ATATGTAGATACTTATCAAATAC
1 ATATGTAGATACTTATCAAATAC
43607919 ATAT
1 ATAT
43607923 ACTGAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATGTAGATACTTATCAAATAC
Found at i:43608240 original size:42 final size:42
Alignment explanation
Indices: 43608151--43608337 Score: 263
Period size: 41 Copynumber: 4.5 Consensus size: 42
43608141 TGATTCAGTA
* * *
43608151 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGTTT
1 CACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
*
43608192 CACCGGCATTAAGCCTGCTAGACGTAAAGTTTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
* * *
43608234 CACCGGCATTAAG-CTGCTAGACGTAAAGTCTAAAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
43608275 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
* *
43608317 CACTGGCAATAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
43608338 GCGCTAAGCC
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.02
41 65 0.50
42 63 0.48
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (42 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
Found at i:43608288 original size:83 final size:83
Alignment explanation
Indices: 43608151--43608337 Score: 279
Period size: 83 Copynumber: 2.3 Consensus size: 83
43608141 TGATTCAGTA
* * *
43608151 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTTTCACCGGCATTAAGCCTGCTAGAC
1 CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTAAAATATTTCACCGGCATTAAGCCTGCTAGAC
*
43608215 GTAAAGTTTGATATTGTTT
65 GTAAAGTCTGATATTGTTT
*
43608234 CACCGGCATTAAG-CTGCTAGACGTAAAGTCTAAAATTATTTCACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTAAAA-TATTTCACCGGCATTAAGCCTGCTAGAC
43608298 GTAAAGTCTGATATTGTTT
65 GTAAAGTCTGATATTGTTT
* *
43608317 CACTGGCAATAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
43608338 GCGCTAAGCC
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
82 21 0.22
83 66 0.70
84 7 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (83 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTAAAATATTTCACCGGCATTAAGCCTGCTAGACG
TAAAGTCTGATATTGTTT
Found at i:43609129 original size:2 final size:2
Alignment explanation
Indices: 43609117--43609156 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
43609107 ATATGGATAC
43609117 TA TA CTA 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 T
43609157 GCCATTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43609306 original size:4 final size:4
Alignment explanation
Indices: 43609297--43609350 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
43609287 AATACAATAG
43609297 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
43609345 ACAT AC
1 ACAT AC
43609351 TAATTTAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:43610438 original size:4 final size:4
Alignment explanation
Indices: 43610422--43610451 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
43610412 GGTTGTTACA
*
43610422 TAAC TAGC TAAC TAAC TAAC TAAC TAAC TA
1 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TA
43610452 TTAGTTACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (4 bp):
TAAC
Found at i:43611620 original size:32 final size:32
Alignment explanation
Indices: 43611579--43611647 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
43611569 ATTGCAACTT
* * * *
43611579 TTCTATTCTCATTTTCATCAATTGGTTGTTTC
1 TTCTCTTCTCATCTTCATCAATTGATTGCTTC
* *
43611611 TTCTCTTCTCGTCTTCATCAGTTGATTGCTTC
1 TTCTCTTCTCATCTTCATCAATTGATTGCTTC
43611643 TTCTC
1 TTCTC
43611648 CATCTGTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.12, C:0.25, G:0.10, T:0.54
Consensus pattern (32 bp):
TTCTCTTCTCATCTTCATCAATTGATTGCTTC
Found at i:43614178 original size:52 final size:46
Alignment explanation
Indices: 43614160--43614505 Score: 485
Period size: 46 Copynumber: 7.3 Consensus size: 46
43614150 GACAAGTGGG
* *
43614160 AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
43614206 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
43614252 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
43614298 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC------A
43614350 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC------A
** *
43614402 AAGTGATAAGTGATAGCTTCGGCTATGCTTATCTGATCAAGAGACA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
** *
43614448 AAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
43614494 AAGTGATAAGTG
1 AAGTGATAAGTG
43614506 GCTACACTTA
Statistics
Matches: 282, Mismatches: 12, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
46 189 0.67
52 93 0.33
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (46 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
Found at i:43614259 original size:39 final size:41
Alignment explanation
Indices: 43614165--43614597 Score: 210
Period size: 46 Copynumber: 9.8 Consensus size: 41
43614155 GTGGGAAGTG
*
43614165 ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAA
1 ATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--A
43614208 GTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAA
1 ---ATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--A
43614254 GTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAA
1 ---ATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--A
* *
43614300 GTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ---ATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--------A
*
43614352 GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAA
1 ---ATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--------A
* *
43614404 GTGATAAGTGATAGCTTCGGCTATGCTTATCTGATCAAGAGACAAA
1 ---ATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--A
** * *
43614450 GTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-
1 ---ATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
* **
43614493 A-AAGTGATAAG--T-GGCTACACTTATCTGATCAAGAAAC-
1 ATAAGTGAT-AGCTTCGGCTATACTTATCTGATCAAGTGACA
* **
43614530 A-AAGTGATAAG--T-GGCTACACTTATCTGATCAAGAAAC-
1 ATAAGTGAT-AGCTTCGGCTATACTTATCTGATCAAGTGACA
* *
43614567 A-AAGTGATAG-GT-GGCTACACTTATCTGATCA
1 ATAAGTGATAGCTTCGGCTATACTTATCTGATCA
43614598 GGGACAAGTG
Statistics
Matches: 365, Mismatches: 14, Indels: 25
0.90 0.03 0.06
Matches are distributed among these distances:
36 2 0.01
37 88 0.24
38 1 0.00
39 7 0.02
40 3 0.01
46 171 0.47
52 93 0.25
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (41 bp):
ATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
Found at i:43614519 original size:37 final size:37
Alignment explanation
Indices: 43614469--43614614 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
43614459 GATAGCTTTA
*
43614469 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
43614506 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
43614543 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
43614580 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
43614615 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:43616870 original size:31 final size:29
Alignment explanation
Indices: 43616830--43616897 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
43616820 GATTGAATTA
* *
43616830 AAATTAAAGTTTCATGGATACATTTGAACC
1 AAATCAAAGTTT-ATGGATACAATTGAACC
* * *
43616860 ACAATCAAAGTTTATGTATATAATTGCACC
1 A-AATCAAAGTTTATGGATACAATTGAACC
43616890 AAATCAAA
1 AAATCAAA
43616898 ATTCATGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 7 0.22
30 15 0.47
31 10 0.31
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (29 bp):
AAATCAAAGTTTATGGATACAATTGAACC
Found at i:43617990 original size:16 final size:16
Alignment explanation
Indices: 43617959--43617988 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43617949 TTTAAAATAT
43617959 ATATTTATATTATTTA
1 ATATTTATATTATTTA
43617975 ATATTTA-ATTATTT
1 ATATTTATATTATTT
43617989 TATTTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATTTATATTATTTA
Found at i:43619197 original size:12 final size:13
Alignment explanation
Indices: 43619169--43619201 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
43619159 ACCACATACC
43619169 CCCTCTTCCCTTGT
1 CCCT-TTCCCTTGT
43619183 CCCTTTCCC-TGT
1 CCCTTTCCCTTGT
43619195 CCCTTTC
1 CCCTTTC
43619202 ATCACCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 5 0.26
14 4 0.21
ACGTcount: A:0.00, C:0.52, G:0.06, T:0.42
Consensus pattern (13 bp):
CCCTTTCCCTTGT
Found at i:43621400 original size:9 final size:9
Alignment explanation
Indices: 43621386--43621434 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
43621376 GTAGTGATTC
43621386 AATTCGGTT
1 AATTCGGTT
43621395 AATTCGGTT
1 AATTCGGTT
43621404 AATTCAGG-T
1 AATTC-GGTT
*
43621413 AATTAGGTT
1 AATTCGGTT
43621422 AATTCGGTT
1 AATTCGGTT
43621431 AATT
1 AATT
43621435 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 2 0.06
9 32 0.89
10 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:43623344 original size:39 final size:39
Alignment explanation
Indices: 43623301--43623381 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
43623291 ATATAGTTTG
43623301 GTTTTGGTATAGTACTCACCTTATTGATTTTTGTGACAT
1 GTTTTGGTATAGTACTCACCTTATTGATTTTTGTGACAT
*
43623340 GTTTTGGTGTAGTACTCACCTTATTGATTTTTGTGACAT
1 GTTTTGGTATAGTACTCACCTTATTGATTTTTGTGACAT
43623379 GTT
1 GTT
43623382 ATGTTAGCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.19, C:0.12, G:0.20, T:0.49
Consensus pattern (39 bp):
GTTTTGGTATAGTACTCACCTTATTGATTTTTGTGACAT
Found at i:43624376 original size:31 final size:32
Alignment explanation
Indices: 43624319--43624378 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
43624309 CGACGGATCA
* *
43624319 ATATTTTGAAACTTTTGCAATTAAAGCATATC
1 ATATTTTGAAACGTTAGCAATTAAAGCATATC
43624351 ATATTTTGAAACGTTAGC-ATTAAAGCAT
1 ATATTTTGAAACGTTAGCAATTAAAGCAT
43624379 TTGTAAGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
ATATTTTGAAACGTTAGCAATTAAAGCATATC
Found at i:43626109 original size:29 final size:27
Alignment explanation
Indices: 43626077--43626144 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
43626067 ATTGGATTTG
43626077 AAATTTAAAAATTGAAAAGTAGAGAAACT-
1 AAATTTAAAAA-T-AAAAGTAGAG-AACTA
*
43626106 AAATTCCTAAAAATAAAAGTATAGAACTA
1 AAATT--TAAAAATAAAAGTAGAGAACTA
43626135 AAATTTAAAA
1 AAATTTAAAA
43626145 TTAAGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 5 0.14
28 4 0.11
29 19 0.54
30 1 0.03
31 6 0.17
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.25
Consensus pattern (27 bp):
AAATTTAAAAATAAAAGTAGAGAACTA
Found at i:43628108 original size:32 final size:31
Alignment explanation
Indices: 43628047--43628108 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
43628037 TCTTTATTTT
*
43628047 TTTTATACACTTATATCATTTTTAGGCTTTG
1 TTTTATACACATATATCATTTTTAGGCTTTG
*
43628078 TTTTATACACATACCTAT-ATTTTTATGCTTT
1 TTTTATACACATA--TATCATTTTTAGGCTTT
43628109 ATCATTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 12 0.44
32 12 0.44
33 3 0.11
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (31 bp):
TTTTATACACATATATCATTTTTAGGCTTTG
Found at i:43628141 original size:2 final size:2
Alignment explanation
Indices: 43628136--43628169 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
43628126 ACACACACAC
*
43628136 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43628170 ATGTTATCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:43628615 original size:109 final size:109
Alignment explanation
Indices: 43628413--43628721 Score: 516
Period size: 109 Copynumber: 2.9 Consensus size: 109
43628403 AAAAAAAACA
43628413 AAAAATTTTATAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTA-AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
43628478 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATTCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
43628523 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
43628588 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * * * *
43628632 AAAAATTTCAAAATATGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* *
43628696 GGTTTCGA--TTTCTCGTTTAACCAAAT
66 GGTGTCGATTTTTCTCGTTCAACCAAAT
43628722 TGCCAAATAT
Statistics
Matches: 191, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
106 17 0.09
108 24 0.13
109 140 0.73
110 10 0.05
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:43632843 original size:42 final size:40
Alignment explanation
Indices: 43632741--43632849 Score: 96
Period size: 40 Copynumber: 2.6 Consensus size: 40
43632731 CAGATCCGAT
*
43632741 TCAAAAAAAAAAGGAAAATGAAAAGAGAGAAAAAATAAAAA
1 TCAAAAAAAAAATGAAAA-GAAAAGAGAGAAAAAATAAAAA
* * * *
43632782 TAAAAACAAAAAAAT-AAAAGAAAA-AGAGAAATCAATCAAAG
1 T-CAAA-AAAAAAATGAAAAGAAAAGAGAGAAA-AAATAAAAA
*
43632823 TCAAAATAAAAATATGAAAAGCAAAGA
1 TCAAAA-AAAAA-ATGAAAAGAAAAGA
43632850 AAAGAAAAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
39 1 0.02
40 15 0.28
41 15 0.28
42 15 0.28
43 8 0.15
ACGTcount: A:0.72, C:0.06, G:0.12, T:0.10
Consensus pattern (40 bp):
TCAAAAAAAAAATGAAAAGAAAAGAGAGAAAAAATAAAAA
Found at i:43633256 original size:20 final size:20
Alignment explanation
Indices: 43633217--43633257 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43633207 AAAGAAAAAG
* **
43633217 ATGAAGAATGAAAATGGAAA
1 ATGAAAAATGAAAAAAGAAA
43633237 ATGAAAAATGAAAAAAGAAA
1 ATGAAAAATGAAAAAAGAAA
43633257 A
1 A
43633258 GAGTAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (20 bp):
ATGAAAAATGAAAAAAGAAA
Found at i:43634704 original size:88 final size:88
Alignment explanation
Indices: 43634488--43634925 Score: 591
Period size: 88 Copynumber: 5.0 Consensus size: 88
43634478 AAGATGGAAA
* *
43634488 ACAAAGCCTTGCCTC-CATCGGTTGT-AGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 ACAAA-CCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTG
* * * *
43634551 CGTTAACAGCGAAGCAGATCGAAAAC
63 CATTGACAGCGAAGCAGGTCGAAGAC
*
43634577 A-AAACCTTGTCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCAT
1 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCAT
43634641 TGACAGCGAAGCAGGTCGAAGAC
66 TGACAGCGAAGCAGGTCGAAGAC
43634664 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCAT
1 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCAT
*
43634729 TGACAGCGAAGCAGGTTGAAGAC
66 TGACAGCGAAGCAGGTCGAAGAC
*
43634752 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCCT-CTGCAT
1 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCAT
* *
43634816 TGACAGCGAAACAGGTCAAAGAC
66 TGACAGCGAAGCAGGTCGAAGAC
* * * * ** * * *
43634839 ACAAACCTTTCCTCTCTCAGTTG-AAGTGGAGCAGGTCAAAGATAGCAGATCTTGCCTTCCTGCG
1 ACAAACCTTGCCTCTCTCGGTTGTGA-TGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCA
* *
43634903 TTAAC-GACGAAGCAGATCGAAGA
65 TTGACAG-CGAAGCAGGTCGAAGA
43634926 AACCAGTCCT
Statistics
Matches: 316, Mismatches: 27, Indels: 13
0.89 0.08 0.04
Matches are distributed among these distances:
86 1 0.00
87 147 0.47
88 167 0.53
89 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCAT
TGACAGCGAAGCAGGTCGAAGAC
Found at i:43634718 original size:44 final size:44
Alignment explanation
Indices: 43634582--43634811 Score: 199
Period size: 44 Copynumber: 5.2 Consensus size: 44
43634572 AAAACAAAAC
*
43634582 CTTGTCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGAT
** * * * * *
43634626 CTTGCCT-TC-CTGCAT-TGACAGCGAAGCAGGTCGAAGAC-ACAAAC
1 CTTGCCTCTCTC-GGTTGTGA-TG-G-AGCTGGTTGAAGACAACAGAT
43634670 CTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGAT
** * * * *
43634714 CTTGCCT-TC-CTGCAT-TGACAGCGAAGCAGGTTGAAGAC-ACAAAC
1 CTTGCCTCTCTC-GGTTGTGA-TG-G-AGCTGGTTGAAGACAACAGAT
43634758 CTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGAT
43634802 CTTGCC-CTCT
1 CTTGCCTCTCT
43634812 GCATTGACAG
Statistics
Matches: 143, Mismatches: 27, Indels: 33
0.70 0.13 0.16
Matches are distributed among these distances:
42 8 0.06
43 39 0.27
44 53 0.37
45 35 0.24
46 8 0.06
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (44 bp):
CTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAACAGAT
Found at i:43634816 original size:175 final size:175
Alignment explanation
Indices: 43634488--43634923 Score: 637
Period size: 175 Copynumber: 2.5 Consensus size: 175
43634478 AAGATGGAAA
43634488 ACAAAGCCTTGCCTC-CATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGC
1 ACAAA-CCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGC
* *
43634552 GTTAACAGCGAAGCAGATCGAAAACAAAACCTTGTCTCTCTCGGTTGTGATGGAGCTGGTTGAAG
64 ATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAG
* * *
43634617 ACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
129 ACAACAGATCTTGCCCTCCTGCATTGACAGCGAAACAGGTCAAAGAC
* *
43634664 ACAAACCTTGCCTCTCTCGGTTGT-GATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCA
1 ACAAACCTTGCCTCTCTCGGTTGTAG-TGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCA
* * * *
43634728 TTGACAGCGAAGCAGGTTGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAG
65 TTAACAGCGAAGCAGATCGAAAACA-AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAG
43634793 ACAACAGATCTTGCCCT-CTGCATTGACAGCGAAACAGGTCAAAGAC
129 ACAACAGATCTTGCCCTCCTGCATTGACAGCGAAACAGGTCAAAGAC
* * * * ** *
43634839 ACAAACCTTTCCTCTCTCAGTTGAAGTGGAGCAGGTCAAAGATAGCAGATCTTGCCTTCCTGCGT
1 ACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCAT
43634904 TAAC-GACGAAGCAGATCGAA
66 TAACAG-CGAAGCAGATCGAA
43634924 GAAACCAGTC
Statistics
Matches: 232, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
174 2 0.01
175 169 0.73
176 61 0.26
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (175 bp):
ACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCAT
TAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGAC
AACAGATCTTGCCCTCCTGCATTGACAGCGAAACAGGTCAAAGAC
Found at i:43637094 original size:109 final size:109
Alignment explanation
Indices: 43636892--43637200 Score: 507
Period size: 109 Copynumber: 2.9 Consensus size: 109
43636882 AAAAAAAACA
43636892 AAAAATTTTATAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTA-AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
43636957 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATTCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
43637002 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
43637067 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * * * * *
43637111 AAAAATTTCAAAATATGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTTCCCTAATGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* *
43637175 GGTTTCGA--TTTCTCGTTTAACCAAAT
66 GGTGTCGATTTTTCTCGTTCAACCAAAT
43637201 TGCCAAATAT
Statistics
Matches: 190, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
106 17 0.09
108 23 0.12
109 140 0.74
110 10 0.05
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:43640295 original size:26 final size:26
Alignment explanation
Indices: 43640237--43640296 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
43640227 GTATCGATAT
* *
43640237 ATGGCTCTTTGTGAGCTTCTCGATTA
1 ATGGCTCTTTGTGAGCTTCCCAATTA
**
43640263 AAAGCTCTTTGTGAGCTTCCCAATTA
1 ATGGCTCTTTGTGAGCTTCCCAATTA
43640289 ATGGCTCT
1 ATGGCTCT
43640297 CCGGAGCTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
ATGGCTCTTTGTGAGCTTCCCAATTA
Found at i:43640399 original size:24 final size:24
Alignment explanation
Indices: 43640386--43640439 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
43640376 TACCTGCTAT
43640386 TGGCTCGCATGAGCTCCCTGAATA
1 TGGCTCGCATGAGCTCCCTGAATA
43640410 TGGCTCGCATGAGCTCCCTGAATA
1 TGGCTCGCATGAGCTCCCTGAATA
43640434 TGGCTC
1 TGGCTC
43640440 TTATAAGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.19, C:0.30, G:0.26, T:0.26
Consensus pattern (24 bp):
TGGCTCGCATGAGCTCCCTGAATA
Found at i:43640448 original size:24 final size:24
Alignment explanation
Indices: 43640386--43640448 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
43640376 TACCTGCTAT
*
43640386 TGGCTCGCATGAGCTCCCTGAATA
1 TGGCTCGCATAAGCTCCCTGAATA
*
43640410 TGGCTCGCATGAGCTCCCTGAATA
1 TGGCTCGCATAAGCTCCCTGAATA
**
43640434 TGGCTCTTATAAGCT
1 TGGCTCGCATAAGCT
43640449 TCCTATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.29
Consensus pattern (24 bp):
TGGCTCGCATAAGCTCCCTGAATA
Found at i:43642584 original size:83 final size:83
Alignment explanation
Indices: 43642445--43642610 Score: 278
Period size: 83 Copynumber: 2.0 Consensus size: 83
43642435 GAAATGTCTA
* *
43642445 TTCGGAGAGTTGATTGATAGAAACGACAAGACTACCGTATATTGTGATAGTCAAAGTGCCATACA
1 TTCGGAGAGCTGATTGATAGAAACGACAAGACTACCATATATTGTGATAGTCAAAGTGCCATACA
* *
43642510 TCTTACTAAAGTACAAAG
66 TCTCACGAAAGTACAAAG
* *
43642528 TTCGGAGAGCTGATTGATAGAAATGACAAGACTACCATATATTGTGATAGTCAAAGTGTCATACA
1 TTCGGAGAGCTGATTGATAGAAACGACAAGACTACCATATATTGTGATAGTCAAAGTGCCATACA
43642593 TCTCACGAAAGTACAAAG
66 TCTCACGAAAGTACAAAG
43642611 CACTCTAGCT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (83 bp):
TTCGGAGAGCTGATTGATAGAAACGACAAGACTACCATATATTGTGATAGTCAAAGTGCCATACA
TCTCACGAAAGTACAAAG
Found at i:43643867 original size:18 final size:18
Alignment explanation
Indices: 43643844--43643884 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
43643834 TCAAGTTGCT
43643844 TGTATGATTTATATTTGA
1 TGTATGATTTATATTTGA
43643862 TGTATGATTTATATTTGA
1 TGTATGATTTATATTTGA
43643880 TGTAT
1 TGTAT
43643885 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (18 bp):
TGTATGATTTATATTTGA
Found at i:43643890 original size:18 final size:18
Alignment explanation
Indices: 43643844--43643890 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
43643834 TCAAGTTGCT
*
43643844 TGTATGATTTATATTTGA
1 TGTATCATTTATATTTGA
*
43643862 TGTATGATTTATATTTGA
1 TGTATCATTTATATTTGA
*
43643880 TGTATCTTTTA
1 TGTATCATTTA
43643891 GAAATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (18 bp):
TGTATCATTTATATTTGA
Found at i:43644114 original size:30 final size:31
Alignment explanation
Indices: 43644067--43644124 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
43644057 ATCTTTATGG
43644067 TTTTTAAAAAGACTAAATTAAAATTTTAATA
1 TTTTTAAAAAGACTAAATTAAAATTTTAATA
* *
43644098 TTTTT-AAAAGATTAAATTATAATTTTA
1 TTTTTAAAAAGACTAAATTAAAATTTTA
43644125 CCATATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (31 bp):
TTTTTAAAAAGACTAAATTAAAATTTTAATA
Found at i:43644289 original size:20 final size:20
Alignment explanation
Indices: 43644264--43644303 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43644254 CGTAAAATCA
*
43644264 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
43644284 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
43644304 GAAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:43644293 original size:34 final size:34
Alignment explanation
Indices: 43644249--43644314 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
43644239 CAGTAAAATA
*
43644249 TTTTCCGTAAAATCATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATCATTTACT-GAAAATATTTTAC
* *
43644283 TTTTCTGTAAAATGATTTACTGAAAATATTTT
1 TTTTCCGTAAAATCATTTACTGAAAATATTTT
43644315 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (34 bp):
TTTTCCGTAAAATCATTTACTGAAAATATTTTAC
Found at i:43644379 original size:32 final size:32
Alignment explanation
Indices: 43644294--43644380 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
43644284 TTTCTGTAAA
* **
43644294 ATGATTTACTGAAAATATTTTCTGGTGTTTGG
1 ATGATTTTCTGAAAATATTTTCTACTGTTTGG
* * *
43644326 ATGAATCTGTGTAAAATATTTTCTACTGTTTGG
1 ATGATTTTCTG-AAAATATTTTCTACTGTTTGG
43644359 CA-GATTTTCTGAAAATATTTTC
1 -ATGATTTTCTGAAAATATTTTC
43644381 CTGAAAAGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
32 18 0.41
33 25 0.57
34 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (32 bp):
ATGATTTTCTGAAAATATTTTCTACTGTTTGG
Found at i:43644425 original size:20 final size:18
Alignment explanation
Indices: 43644402--43644445 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
43644392 TTTTTACATA
43644402 TATATATT-AATAAATTTT
1 TATATATTAAAT-AATTTT
*
43644420 TATATATTAAATTATTTT
1 TATATATTAAATAATTTT
43644438 TATATATT
1 TATATATT
43644446 GTTTTTACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATATTAAATAATTTT
Found at i:43644439 original size:42 final size:42
Alignment explanation
Indices: 43644392--43644531 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 42
43644382 TGAAAAGTTG
43644392 TTTTTACATATATATATTAATAAATTTTTATATATTAAATTA
1 TTTTTACATATATATATTAATAAATTTTTATATATTAAATTA
* * * * ** *** *
43644434 TTTTTATATAT-TGTTTTTACATATA-TTGCA-ATGATTTTGTTG
1 TTTTTACATATAT-ATATTA-ATAAATTTTTATAT-ATTAAATTA
*
43644476 TTTTTACATAATATATATTAATAAATTTTTATATTTTAAATTA
1 TTTTTACAT-ATATATATTAATAAATTTTTATATATTAAATTA
43644519 TTTTTACATATAT
1 TTTTTACATATAT
43644532 TGCAATGATT
Statistics
Matches: 70, Mismatches: 21, Indels: 14
0.67 0.20 0.13
Matches are distributed among these distances:
41 3 0.04
42 38 0.54
43 26 0.37
44 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (42 bp):
TTTTTACATATATATATTAATAAATTTTTATATATTAAATTA
Found at i:43644664 original size:34 final size:32
Alignment explanation
Indices: 43644616--43644678 Score: 108
Period size: 34 Copynumber: 1.9 Consensus size: 32
43644606 TGAAAACAAC
43644616 TAATATCAATATTTGTAATTGTGTTAAAATAA
1 TAATATCAATATTTGTAATTGTGTTAAAATAA
43644648 TAATACTCAATTATTTGTAATTGTGTTAAAA
1 TAATA-TCAA-TATTTGTAATTGTGTTAAAA
43644679 ACAATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 5 0.17
33 4 0.14
34 20 0.69
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (32 bp):
TAATATCAATATTTGTAATTGTGTTAAAATAA
Found at i:43646255 original size:12 final size:12
Alignment explanation
Indices: 43646238--43646263 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43646228 AAACCAGATC
43646238 AAGGGAGAACGA
1 AAGGGAGAACGA
43646250 AAGGGAGAACGA
1 AAGGGAGAACGA
43646262 AA
1 AA
43646264 CCAGATCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.38, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACGA
Found at i:43647713 original size:7 final size:7
Alignment explanation
Indices: 43647701--43647729 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
43647691 GGGGAGGATG
43647701 ACATGAA
1 ACATGAA
43647708 ACATGAA
1 ACATGAA
43647715 ACATGAA
1 ACATGAA
43647722 ACATGAA
1 ACATGAA
43647729 A
1 A
43647730 ATCAACCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (7 bp):
ACATGAA
Found at i:43652231 original size:16 final size:18
Alignment explanation
Indices: 43652201--43652234 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
43652191 CTTAAAAGTG
43652201 TTTTTTATTCTAAAAATA
1 TTTTTTATTCTAAAAATA
43652219 TTTTTT-TTC-AAAAATA
1 TTTTTTATTCTAAAAATA
43652235 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTTATTCTAAAAATA
Found at i:43656960 original size:19 final size:19
Alignment explanation
Indices: 43656917--43656963 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
43656907 TTATATGAAG
43656917 ATATTTTATATAGTATAGT
1 ATATTTTATATAGTATAGT
*
43656936 ACTATTTTATACA-TATA-T
1 A-TATTTTATATAGTATAGT
*
43656954 ATATATTATA
1 ATATTTTATA
43656964 CTATTGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 8 0.32
18 2 0.08
19 5 0.20
20 10 0.40
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
ATATTTTATATAGTATAGT
Found at i:43659810 original size:30 final size:31
Alignment explanation
Indices: 43659747--43659810 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
43659737 ATGATTGAAT
* *
43659747 GTTTCATGTATATATTTGAATCACAATCAAA
1 GTTTAATGTATATAATTGAATCACAATCAAA
* * *
43659778 GTTTAATGTGTATAATTGATTCA-AATTAAA
1 GTTTAATGTATATAATTGAATCACAATCAAA
43659808 GTT
1 GTT
43659811 CACGTATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (31 bp):
GTTTAATGTATATAATTGAATCACAATCAAA
Found at i:43667759 original size:27 final size:27
Alignment explanation
Indices: 43667727--43667781 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
43667717 TTGACGGTAA
43667727 AAAGGATCTAGCCCGGATGGTGATCCT
1 AAAGGATCTAGCCCGGATGGTGATCCT
43667754 AAAGGATCTAGCCCGGATGGTGATCCT
1 AAAGGATCTAGCCCGGATGGTGATCCT
43667781 A
1 A
43667782 TCCTGATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (27 bp):
AAAGGATCTAGCCCGGATGGTGATCCT
Found at i:43668615 original size:20 final size:20
Alignment explanation
Indices: 43668592--43668635 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
43668582 AAAAAGCGTG
*
43668592 GAAAGTAAAGAAATGCAAAT
1 GAAAGTAAAGAAATGAAAAT
*
43668612 GAAAATAAAGAAATGAAAAT
1 GAAAGTAAAGAAATGAAAAT
43668632 -AAAG
1 GAAAG
43668636 AAATTATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.66, C:0.02, G:0.18, T:0.14
Consensus pattern (20 bp):
GAAAGTAAAGAAATGAAAAT
Found at i:43668627 original size:14 final size:14
Alignment explanation
Indices: 43668608--43668639 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
43668598 AAAGAAATGC
43668608 AAATGAAAATAAAG
1 AAATGAAAATAAAG
43668622 AAATGAAAATAAAG
1 AAATGAAAATAAAG
43668636 AAAT
1 AAAT
43668640 TATCAAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (14 bp):
AAATGAAAATAAAG
Found at i:43676103 original size:16 final size:16
Alignment explanation
Indices: 43676072--43676118 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
43676062 AAGTTATGAA
* *
43676072 ATATATATAAAAAAAT
1 ATATATATATATAAAT
* *
43676088 ATATGTATGTATAAAT
1 ATATATATATATAAAT
43676104 ATATATATATATAAA
1 ATATATATATATAAA
43676119 ACATTAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (16 bp):
ATATATATATATAAAT
Found at i:43676205 original size:27 final size:28
Alignment explanation
Indices: 43676175--43676232 Score: 100
Period size: 27 Copynumber: 2.1 Consensus size: 28
43676165 TGCAGGTATG
43676175 TATTATAAAAATGTATG-TGTATATATA
1 TATTATAAAAATGTATGATGTATATATA
43676202 TATTATAAAAATGTATGAATGTATATATA
1 TATTATAAAAATGTATG-ATGTATATATA
43676231 TA
1 TA
43676233 ACAAAATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 17 0.59
29 12 0.41
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (28 bp):
TATTATAAAAATGTATGATGTATATATA
Found at i:43676238 original size:27 final size:26
Alignment explanation
Indices: 43676181--43676238 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
43676171 TATGTATTAT
*
43676181 AAAAATGTATGTGTATATATATATTAT
1 AAAAATGTATGTGTATATATATA-TAC
43676208 AAAAATGTATGAATGTATATATATA-AC
1 AAAAATGTATG--TGTATATATATATAC
43676235 AAAA
1 AAAA
43676239 TTTGAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 16 0.57
29 12 0.43
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (26 bp):
AAAAATGTATGTGTATATATATATAC
Found at i:43676273 original size:3 final size:3
Alignment explanation
Indices: 43676265--43676301 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
43676255 TATAAATGAG
43676265 TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43676302 AAAAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:43676289 original size:11 final size:11
Alignment explanation
Indices: 43676265--43676301 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
43676255 TATAAATGAG
43676265 TAATAATAATAA
1 TAATAATAA-AA
43676277 TAATAATAAAA
1 TAATAATAAAA
43676288 TAATAATAAAA
1 TAATAATAAAA
43676299 TAA
1 TAA
43676302 AAAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:43676291 original size:8 final size:8
Alignment explanation
Indices: 43676269--43676311 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
43676259 AATGAGTAAT
43676269 AATAATAA
1 AATAATAA
43676277 TAATAATAA
1 -AATAATAA
43676286 AATAATAA
1 AATAATAA
43676294 TAA-AATAA
1 -AATAATAA
*
43676302 AAAAATAA
1 AATAATAA
43676310 AA
1 AA
43676312 AATTAGTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 2 0.06
8 20 0.62
9 10 0.31
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:43678623 original size:16 final size:16
Alignment explanation
Indices: 43678586--43678625 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
43678576 TTAATAAAAT
* *
43678586 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
43678602 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
43678618 TAAAATTA
1 TAAAATTA
43678626 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:43678625 original size:22 final size:22
Alignment explanation
Indices: 43678558--43678610 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
43678548 TAATTAAAAT
* * *
43678558 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
43678580 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
43678602 TAAAATTAA
1 TAAAATTAA
43678611 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:43678684 original size:66 final size:59
Alignment explanation
Indices: 43678628--43678747 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
43678618 TAAAATTATC
* * *
43678628 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
43678686 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
43678745 AAA
1 AAA
43678748 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:43678854 original size:20 final size:22
Alignment explanation
Indices: 43678818--43678857 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43678808 ATAAACTTAA
43678818 AATAAAAAACTATTATATTTTT
1 AATAAAAAACTATTATATTTTT
43678840 AATAAAAAA-TA-TATATTT
1 AATAAAAAACTATTATATTT
43678858 AATATTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAAAACTATTATATTTTT
Found at i:43681204 original size:35 final size:34
Alignment explanation
Indices: 43681125--43681205 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 34
43681115 ATGTGGATAC
*
43681125 ATATATATGTATATGAATTGTAAAATATACGAAAA
1 ATATATATGTATATGAATTATAAAATATAC-AAAA
*
43681160 ATATGTATGTATTTATGAATTATAAAATATA-AAAA
1 ATATATATGTA--TATGAATTATAAAATATACAAAA
*
43681195 CTATATATGTA
1 ATATATATGTA
43681206 AAAGAGGTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
35 23 0.57
37 17 0.43
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.38
Consensus pattern (34 bp):
ATATATATGTATATGAATTATAAAATATACAAAA
Found at i:43683684 original size:23 final size:23
Alignment explanation
Indices: 43683648--43683691 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
43683638 GAAAAATATT
43683648 AAATATATA-TTTTTTATTTTTA
1 AAATATATATTTTTTTATTTTTA
43683670 AAATATAATATTTTTTTATTTT
1 AAATAT-ATATTTTTTTATTTT
43683692 AAGTTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
AAATATATATTTTTTTATTTTTA
Found at i:43683821 original size:59 final size:59
Alignment explanation
Indices: 43683758--43683936 Score: 241
Period size: 68 Copynumber: 2.9 Consensus size: 59
43683748 TCAAGTTTGT
*
43683758 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
43683817 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATATAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAC---------AATTAATAATTTGAT
43683882 AAA
57 AAA
* * *
43683885 TTTACTAATCAAATATTAGATTTTATTACAACAATTAATACAACTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
43683937 AATAATTTGA
Statistics
Matches: 107, Mismatches: 4, Indels: 18
0.83 0.03 0.14
Matches are distributed among these distances:
59 49 0.46
68 58 0.54
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.40
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:43683865 original size:68 final size:68
Alignment explanation
Indices: 43683788--43683958 Score: 292
Period size: 68 Copynumber: 2.5 Consensus size: 68
43683778 TTTTGTTACA
*
43683788 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATATTAGATTTTATTACAACAATT
43683853 AAT
66 AAT
*
43683856 ACAATTAATATAATTAATAATTTGATAAATTTACTAATCAAATATTAGATTTTATTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATATTAGATTTTATTACAACAATT
43683921 AAT
66 AAT
* *
43683924 ACAACT-A-ACAATTAATAATTTGATAATTTTACTAA
1 ACAATTAATACAATTAATAATTTGATAAATTTACTAA
43683959 CAATTAATTT
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
66 26 0.27
67 1 0.01
68 71 0.72
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (68 bp):
ACAATTAATACAATTAATAATTTGATAAATTTACTAATCAAATATTAGATTTTATTACAACAATT
AAT
Found at i:43683968 original size:16 final size:16
Alignment explanation
Indices: 43683947--43683988 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
43683937 AATAATTTGA
*
43683947 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
43683963 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
43683979 TAGTTTTAAT
1 TAATTTTAAT
43683989 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:43683987 original size:22 final size:22
Alignment explanation
Indices: 43683962--43684023 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
43683952 TTACTAACAA
* * *
43683962 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
43683984 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
43684006 TTAATTTTAATTAAAAAT
1 TTAATTTTAATAAAAAAT
43684024 GGGCCGAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:43689579 original size:14 final size:14
Alignment explanation
Indices: 43689562--43689601 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
43689552 AAAATTTTAA
43689562 TAAATAAAAATTAT
1 TAAATAAAAATTAT
**
43689576 TAAATATTAATTAT
1 TAAATAAAAATTAT
43689590 TAAATTAAAAAT
1 TAAA-TAAAAAT
43689602 ATGAATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATAAAAATTAT
Found at i:43689691 original size:18 final size:19
Alignment explanation
Indices: 43689645--43689692 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
43689635 AATAGACTTA
43689645 AAATATTCTATA-AAATTG
1 AAATATTCTATATAAATTG
* *
43689663 AGAGATT-TATATAAATT-
1 AAATATTCTATATAAATTG
43689680 AAATATTCTATAT
1 AAATATTCTATAT
43689693 TTTTCGTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (19 bp):
AAATATTCTATATAAATTG
Found at i:43701074 original size:45 final size:45
Alignment explanation
Indices: 43701013--43701128 Score: 169
Period size: 45 Copynumber: 2.6 Consensus size: 45
43701003 CAGGCACTTA
* * * * *
43701013 TGTGCCGACTATTGTTACTGTTACTGTTACTGATTCGATACTTTG
1 TGTGTCGAATATTGTTACTGTTACTGTTACAGATTCAACACTTTG
43701058 TGTGTCGAATATTGTTACTGTTACTGTTACAGATTCAACACTTTG
1 TGTGTCGAATATTGTTACTGTTACTGTTACAGATTCAACACTTTG
* *
43701103 TGTGTTGAATACTGTTACTGTTACTG
1 TGTGTCGAATATTGTTACTGTTACTG
43701129 CTACCGTTAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.44
Consensus pattern (45 bp):
TGTGTCGAATATTGTTACTGTTACTGTTACAGATTCAACACTTTG
Found at i:43703058 original size:29 final size:29
Alignment explanation
Indices: 43702958--43703061 Score: 86
Period size: 29 Copynumber: 3.5 Consensus size: 29
43702948 TTTTCTTTTT
*
43702958 TGGTCACTCAATTATGAAAAGTTACAAAA
1 TGGTCACTCAACTATGAAAAGTTACAAAA
* * * ****
43702987 TGGTCACCCAACTATAATTAAACTT-CTTTTT
1 TGGTCACTCAACTATGA--AAAGTTAC-AAAA
43703018 TGGTCAAC-CAACTATGAAAAGTTACAAAA
1 TGGTC-ACTCAACTATGAAAAGTTACAAAA
43703047 TGGTCACTCAACTAT
1 TGGTCACTCAACTAT
43703062 TCAATTTTGT
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
28 2 0.04
29 31 0.56
30 2 0.04
31 18 0.33
32 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (29 bp):
TGGTCACTCAACTATGAAAAGTTACAAAA
Found at i:43703075 original size:60 final size:57
Alignment explanation
Indices: 43702947--43703079 Score: 169
Period size: 60 Copynumber: 2.2 Consensus size: 57
43702937 CCAATTATTT
*
43702947 TTTTTCTTTTTTGGTCACTCAATTATGAAAAGTTACAAAATGGTCACCCAACTATAA
1 TTTTTCTTTTTTGGTCACTCAACTATGAAAAGTTACAAAATGGTCACCCAACTATAA
* *
43703004 TTAAACTTCTTTTTTGGTCAAC-CAACTATGAAAAGTTACAAAATGGTCACTCAACTATTCAA
1 TT---TTTCTTTTTTGGTC-ACTCAACTATGAAAAGTTACAAAATGGTCACCCAACTA-T-AA
43703066 TTTTGTCTTTTTTG
1 TTTT-TCTTTTTTG
43703080 TAATGTCTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
57 2 0.03
59 1 0.02
60 55 0.85
61 3 0.05
62 4 0.06
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (57 bp):
TTTTTCTTTTTTGGTCACTCAACTATGAAAAGTTACAAAATGGTCACCCAACTATAA
Found at i:43706866 original size:2 final size:2
Alignment explanation
Indices: 43706859--43706904 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
43706849 ATGTATTTGA
43706859 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
43706901 AT AT
1 AT AT
43706905 TCAGCTTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43707765 original size:18 final size:18
Alignment explanation
Indices: 43707738--43707772 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43707728 ATAAATAAAC
*
43707738 ATAATAACTTACAATATT
1 ATAATAACTTAAAATATT
*
43707756 ATAATCACTTAAAATAT
1 ATAATAACTTAAAATAT
43707773 ATCATCTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATAACTTAAAATATT
Found at i:43709863 original size:25 final size:25
Alignment explanation
Indices: 43709785--43710035 Score: 122
Period size: 25 Copynumber: 10.2 Consensus size: 25
43709775 ACACACCATA
* *
43709785 GCTCTTATGAGCGTCCCAATACT-TG
1 GCTCTTATGAGCTTCCCGATA-TATG
* * * * * *
43709810 GCTCTCACGAGCTTTCCGTTATTTA
1 GCTCTTATGAGCTTCCCGATATATG
*
43709835 GCTCTTATGAGCATCCCGATATATG
1 GCTCTTATGAGCTTCCCGATATATG
**
43709860 GCTCACATGAGCTTCCCGAT-TAATG
1 GCTCTTATGAGCTTCCCGATAT-ATG
*
43709885 GCTCTT-CGAAGCTTCCCGATAT-TG
1 GCTCTTATG-AGCTTCCCGATATATG
* ** * * *
43709909 ACTCGCATAAGCTTCTCGA-ATTTG
1 GCTCTTATGAGCTTCCCGATATATG
* * * *
43709933 GTTCCCT-TGAGCTGCCCG-TTTATG
1 GCT-CTTATGAGCTTCCCGATATATG
*
43709957 GCTCGTATGAGCTTCCCGATA-ATTG
1 GCTCTTATGAGCTTCCCGATATA-TG
** * * *
43709982 GCTCGCAAGAGCTTCCCGTTACATG
1 GCTCTTATGAGCTTCCCGATATATG
** *
43710007 GCTCACATGAGCTTCCCGTTATATG
1 GCTCTTATGAGCTTCCCGATATATG
43710032 GCTC
1 GCTC
43710036 GAAAGAGCTT
Statistics
Matches: 169, Mismatches: 45, Indels: 24
0.71 0.19 0.10
Matches are distributed among these distances:
23 4 0.02
24 44 0.26
25 119 0.70
26 2 0.01
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGATATATG
Found at i:43709889 original size:50 final size:50
Alignment explanation
Indices: 43709785--43710035 Score: 153
Period size: 50 Copynumber: 5.1 Consensus size: 50
43709775 ACACACCATA
* * * * * * *
43709785 GCTCTTATGAGCGTCCCAATACT-TGGCTCTCACGAGCTTTCCG-TTATTTA
1 GCTCTTATGAGCTTCCCGATA-TATGGCTCACATGAGCTTCCCGATTA-ATG
*
43709835 GCTCTTATGAGCATCCCGATATATGGCTCACATGAGCTTCCCGATTAATG
1 GCTCTTATGAGCTTCCCGATATATGGCTCACATGAGCTTCCCGATTAATG
* * * * *
43709885 GCTCTT-CGAAGCTTCCCGATAT-TGACTCGCATAAGCTTCTCGAATT--TG
1 GCTCTTATG-AGCTTCCCGATATATGGCTCACATGAGCTTCCCG-ATTAATG
* * * * **
43709933 GTTCCCT-TGAGCTGCCCG-TTTATGGCTCGTATGAGCTTCCCGA-TAATTG
1 GCT-CTTATGAGCTTCCCGATATATGGCTCACATGAGCTTCCCGATTAA-TG
** * * *
43709982 GCTCGCAAGAGCTTCCCGTTACATGGCTCACATGAGCTTCCCG-TTATATG
1 GCTCTTATGAGCTTCCCGATATATGGCTCACATGAGCTTCCCGATTA-ATG
43710032 GCTC
1 GCTC
43710036 GAAAGAGCTT
Statistics
Matches: 157, Mismatches: 31, Indels: 26
0.73 0.14 0.12
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 29 0.18
49 34 0.22
50 86 0.55
51 4 0.03
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (50 bp):
GCTCTTATGAGCTTCCCGATATATGGCTCACATGAGCTTCCCGATTAATG
Found at i:43710036 original size:50 final size:50
Alignment explanation
Indices: 43709941--43710057 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
43709931 TGGTTCCCTT
* * ** *
43709941 GAGCTGCCCGTT-TATGGCTCGTATGAGCTTCCCGATAATTGGCTCGCAA
1 GAGCTTCCCGTTACATGGCTCACATGAGCTTCCCGATAATTGGCTCGAAA
*
43709990 GAGCTTCCCGTTACATGGCTCACATGAGCTTCCCG-TTATATGGCTCGAAA
1 GAGCTTCCCGTTACATGGCTCACATGAGCTTCCCGATAAT-TGGCTCGAAA
*
43710040 GAGCTTCCTGATTACATG
1 GAGCTTCCCG-TTACATG
43710058 CTCGCACGGG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 14 0.24
50 37 0.64
51 7 0.12
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (50 bp):
GAGCTTCCCGTTACATGGCTCACATGAGCTTCCCGATAATTGGCTCGAAA
Found at i:43710043 original size:25 final size:25
Alignment explanation
Indices: 43709941--43710047 Score: 112
Period size: 25 Copynumber: 4.3 Consensus size: 25
43709931 TGGTTCCCTT
* * *
43709941 GAGCTGCCCGTT-TATGGCTCGTAT
1 GAGCTTCCCGTTATATGGCTCGAAA
* *
43709965 GAGCTTCCCGATA-ATTGGCTCGCAA
1 GAGCTTCCCGTTATA-TGGCTCGAAA
* *
43709990 GAGCTTCCCGTTACATGGCTC-ACAT
1 GAGCTTCCCGTTATATGGCTCGA-AA
43710015 GAGCTTCCCGTTATATGGCTCGAAA
1 GAGCTTCCCGTTATATGGCTCGAAA
43710040 GAGCTTCC
1 GAGCTTCC
43710048 TGATTACATG
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
24 11 0.16
25 56 0.81
26 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCGAAA
Found at i:43710060 original size:25 final size:25
Alignment explanation
Indices: 43709941--43710061 Score: 106
Period size: 25 Copynumber: 4.9 Consensus size: 25
43709931 TGGTTCCCTT
* * * *
43709941 GAGCTGCCCGTT-TATGGCTCGTAT
1 GAGCTTCCCGTTACATGGCTCGAAA
* *
43709965 GAGCTTCCCGATA-ATTGGCTCGCAA
1 GAGCTTCCCGTTACA-TGGCTCGAAA
*
43709990 GAGCTTCCCGTTACATGGCTC-ACAT
1 GAGCTTCCCGTTACATGGCTCGA-AA
*
43710015 GAGCTTCCCGTTATATGGCTCGAAA
1 GAGCTTCCCGTTACATGGCTCGAAA
*
43710040 GAGCTTCCTGATTACAT-GCTCG
1 GAGCTTCCCG-TTACATGGCTCG
43710062 CACGGGCATA
Statistics
Matches: 80, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
24 11 0.14
25 62 0.77
26 7 0.09
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCGAAA
Found at i:43711472 original size:105 final size:101
Alignment explanation
Indices: 43711379--43711576 Score: 272
Period size: 105 Copynumber: 1.9 Consensus size: 101
43711369 TACATTTGTA
* * *
43711379 GTGCCATAACCTAGTTATGGTCTTATCATTAGAATGT-CATAGCCCAGCTATGGTCTTACACATG
1 GTGCCATAACCCAGTTATGGTCTTATCATTAAAAT-TCCATAGCCCAGCTATAGTCTT--ACAT-
* *
43711443 TATATATACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
62 T-TAAACACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
* * *
43711484 GTGTCATAACCCAGTTATGGTCTTTTCATTAAAATTCCATAGCTCAGCTATAGTCTTACATTTAA
1 GTGCCATAACCCAGTTATGGTCTTATCATTAAAATTCCATAGCCCAGCTATAGTCTTACATTTAA
43711549 ACACTGCCATGGTCCAACCATGGTCTTA
66 ACACTGCCATGGTCCAACCATGGTCTTA
43711577 TCCGTCAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
101 29 0.35
102 1 0.01
103 4 0.05
104 1 0.01
105 49 0.58
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (101 bp):
GTGCCATAACCCAGTTATGGTCTTATCATTAAAATTCCATAGCCCAGCTATAGTCTTACATTTAA
ACACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
Found at i:43724856 original size:21 final size:21
Alignment explanation
Indices: 43724831--43724886 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
43724821 CACCGATGTT
*
43724831 TCTAACCTCACCGCTACAA-TA
1 TCTAATCTCACCGCTA-AAGTA
*
43724852 TCTAATCTCACCACTAAAGTA
1 TCTAATCTCACCGCTAAAGTA
*
43724873 ACTAATCTCACCGC
1 TCTAATCTCACCGC
43724887 CACTGTTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.34, C:0.36, G:0.05, T:0.25
Consensus pattern (21 bp):
TCTAATCTCACCGCTAAAGTA
Found at i:43727293 original size:29 final size:30
Alignment explanation
Indices: 43727261--43727321 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
43727251 TTTTATAAAT
*
43727261 AATTAATA-TTTAT-TAATTAAAATATTTAC
1 AATTAATATTTTATAT-ATTAAAATATTAAC
*
43727290 AATTTATATTTTATATATTAAAATATTAAC
1 AATTAATATTTTATATATTAAAATATTAAC
43727320 AA
1 AA
43727322 CAAGTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 7 0.25
30 20 0.71
31 1 0.04
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (30 bp):
AATTAATATTTTATATATTAAAATATTAAC
Found at i:43727507 original size:13 final size:13
Alignment explanation
Indices: 43727491--43727543 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
43727481 TTTAAACCAA
43727491 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
43727504 ACTTCTCAAAATC
1 ACTTTTCAAAAGC
* *
43727517 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
43727530 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
43727543 A
1 A
43727544 ATGAAGAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:43728587 original size:12 final size:12
Alignment explanation
Indices: 43728566--43728595 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43728556 TGTGCCTTCT
*
43728566 TGTAATAGTTTA
1 TGTAACAGTTTA
43728578 TGTAACAGTTTA
1 TGTAACAGTTTA
43728590 TGTAAC
1 TGTAAC
43728596 GACCCGATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (12 bp):
TGTAACAGTTTA
Found at i:43733068 original size:14 final size:14
Alignment explanation
Indices: 43733049--43733076 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43733039 TATATTTTTA
43733049 CTTAGTTTTTAATC
1 CTTAGTTTTTAATC
43733063 CTTAGTTTTTAATC
1 CTTAGTTTTTAATC
43733077 ATTTTTAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (14 bp):
CTTAGTTTTTAATC
Found at i:43736950 original size:20 final size:21
Alignment explanation
Indices: 43736913--43736954 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
43736903 AGAGTTGATT
43736913 TAATGAAAATGTAAAATTAAC
1 TAATGAAAATGTAAAATTAAC
* *
43736934 TAAT-AAAATTTACAATTAAC
1 TAATGAAAATGTAAAATTAAC
43736954 T
1 T
43736955 TTCATCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (21 bp):
TAATGAAAATGTAAAATTAAC
Found at i:43744341 original size:3 final size:3
Alignment explanation
Indices: 43744333--43744361 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
43744323 AGAAGGATGA
43744333 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
43744362 GCTTTTGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Done.