Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 12 of 325
Found at i:3610374 original size:16 final size:18
Alignment explanation
Indices: 3610340--3610380 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
3610330 TGTTTTATAT
3610340 ATATATATTATTATGTTAA
1 ATATATATTA-TATGTTAA
3610359 ATATATATTA-AT-TTAA
1 ATATATATTATATGTTAA
*
3610375 AAATAT
1 ATATAT
3610381 CAACTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
19 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATATATTATATGTTAA
Found at i:3610555 original size:15 final size:15
Alignment explanation
Indices: 3610537--3610600 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
3610527 GTAAATTTGA
3610537 ATATATAAAATAATT
1 ATATATAAAATAATT
* *
3610552 ATATTTGAAATAATT
1 ATATATAAAATAATT
* *
3610567 AT-T-TGAAATATTT
1 ATATATAAAATAATT
*
3610580 CACATATAAAAATAATT
1 -ATATAT-AAAATAATT
3610597 ATAT
1 ATAT
3610601 TTGAGATATT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
13 9 0.24
14 2 0.05
15 16 0.42
16 4 0.11
17 7 0.18
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
ATATATAAAATAATT
Found at i:3610593 original size:30 final size:32
Alignment explanation
Indices: 3610559--3610621 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
3610549 ATTATATTTG
3610559 AAATAA-T-TATTTGAAATATTTCACATATAA
1 AAATAATTATATTTGAAATATTTCACATATAA
* * *
3610589 AAATAATTATATTTGAGATATTTTATATATAA
1 AAATAATTATATTTGAAATATTTCACATATAA
3610621 A
1 A
3610622 TTTAAAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 6 0.21
31 1 0.04
32 21 0.75
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (32 bp):
AAATAATTATATTTGAAATATTTCACATATAA
Found at i:3623169 original size:16 final size:17
Alignment explanation
Indices: 3623141--3623173 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
3623131 AAATAGATTT
3623141 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
3623158 TTAATT-AAAATTTTAA
1 TTAATTAAAAATTTTAA
3623174 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:3625228 original size:28 final size:28
Alignment explanation
Indices: 3625197--3625253 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
3625187 AAAATTATTG
3625197 ATGAAAATAGAAATGGTTAGCATTAATA
1 ATGAAAATAGAAATGGTTAGCATTAATA
*
3625225 ATGAAAATAGAGATGGTTAGCATTAATA
1 ATGAAAATAGAAATGGTTAGCATTAATA
3625253 A
1 A
3625254 GTTAGAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (28 bp):
ATGAAAATAGAAATGGTTAGCATTAATA
Found at i:3626076 original size:30 final size:30
Alignment explanation
Indices: 3626010--3626076 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
3626000 AACTTAAATG
* **
3626010 AAAACTTTTTTGTAGTTCAGTAACCAAATT
1 AAAACTTTTTTGTAGTTAAGTAACCAAACA
**
3626040 GTAACTTTTTT-TAGTTAAGTAACCAAAACA
1 AAAACTTTTTTGTAGTTAAGTAACC-AAACA
3626070 AAAACTT
1 AAAACTT
3626077 ATCAATAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.37
Consensus pattern (30 bp):
AAAACTTTTTTGTAGTTAAGTAACCAAACA
Found at i:3627148 original size:48 final size:48
Alignment explanation
Indices: 3627093--3627190 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
3627083 AGGTTGGTAG
3627093 AATCCTAGTTGAAGTGGTAGAATACAAATAATATTATTTTAATAGAAA
1 AATCCTAGTTGAAGTGGTAGAATACAAATAATATTATTTTAATAGAAA
3627141 AATCCTAGTTGAAGTGGTAGAATACAAATAATATTATTTTAATAGAAA
1 AATCCTAGTTGAAGTGGTAGAATACAAATAATATTATTTTAATAGAAA
3627189 AA
1 AA
3627191 ATCTCTAACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (48 bp):
AATCCTAGTTGAAGTGGTAGAATACAAATAATATTATTTTAATAGAAA
Found at i:3629190 original size:23 final size:23
Alignment explanation
Indices: 3629164--3629284 Score: 88
Period size: 23 Copynumber: 5.2 Consensus size: 23
3629154 ATTTTAGGTG
3629164 TTTGTCTTCCACAATTTTAAGGA
1 TTTGTCTTCCACAATTTTAAGGA
* * *
3629187 TTTGT-TTAGCTAAAATTTTAGGTGA
1 TTTGTCTT--CCACAATTTTAAG-GA
*
3629212 -TTGTCTTCCATAATTTTAAGGA
1 TTTGTCTTCCACAATTTTAAGGA
** *
3629234 TTTGTTCGGCTA-AATTTT-AGGCA
1 TTTG-TCTTCCACAATTTTAAGG-A
* *
3629257 TTTTTCTTCCACAATTTTAAGGG
1 TTTGTCTTCCACAATTTTAAGGA
3629280 TTTGT
1 TTTGT
3629285 TTCTCTTTTA
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.15
23 38 0.51
24 21 0.28
25 4 0.05
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.47
Consensus pattern (23 bp):
TTTGTCTTCCACAATTTTAAGGA
Found at i:3629217 original size:47 final size:46
Alignment explanation
Indices: 3629149--3629286 Score: 188
Period size: 47 Copynumber: 3.0 Consensus size: 46
3629139 TGCAGGTTAG
*
3629149 GCTAAATTTTAGGTGTTTGTCTTCCACAATTTTAAGGATTTGTTTA
1 GCTAAATTTTAGGTGATTGTCTTCCACAATTTTAAGGATTTGTTTA
* **
3629195 GCTAAAATTTTAGGTGATTGTCTTCCATAATTTTAAGGATTTGTTCG
1 GCT-AAATTTTAGGTGATTGTCTTCCACAATTTTAAGGATTTGTTTA
* * *
3629242 GCTAAATTTTAGG-CATTTTTCTTCCACAATTTTAAGGGTTTGTTT
1 GCTAAATTTTAGGTGA-TTGTCTTCCACAATTTTAAGGATTTGTTT
3629287 CTCTTTTATC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
45 1 0.01
46 38 0.47
47 42 0.52
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.47
Consensus pattern (46 bp):
GCTAAATTTTAGGTGATTGTCTTCCACAATTTTAAGGATTTGTTTA
Found at i:3630666 original size:9 final size:9
Alignment explanation
Indices: 3630652--3630686 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
3630642 TTATTTATCC
3630652 AATTAATTA
1 AATTAATTA
*
3630661 AATTAATTG
1 AATTAATTA
*
3630670 AATTAACTA
1 AATTAATTA
3630679 AATTAATT
1 AATTAATT
3630687 TCTTAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (9 bp):
AATTAATTA
Found at i:3630673 original size:18 final size:18
Alignment explanation
Indices: 3630652--3630686 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3630642 TTATTTATCC
*
3630652 AATTAATTAAATTAATTG
1 AATTAACTAAATTAATTG
3630670 AATTAACTAAATTAATT
1 AATTAACTAAATTAATT
3630687 TCTTAATTAA
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:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
AATTAACTAAATTAATTG
Found at i:3631666 original size:17 final size:17
Alignment explanation
Indices: 3631644--3631679 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
3631634 GACTTAAAAG
3631644 TAACAATGTTAACTTTT
1 TAACAATGTTAACTTTT
3631661 TAACAATGTTAACTTTT
1 TAACAATGTTAACTTTT
3631678 TA
1 TA
3631680 GTGTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (17 bp):
TAACAATGTTAACTTTT
Found at i:3634210 original size:34 final size:35
Alignment explanation
Indices: 3634166--3634232 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
3634156 CAGTAAAATA
*
3634166 TTTTCCGTAAAATGATCT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATCTACTGGAAAATATTTTAC
* *
3634200 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATCTACTGGAAAATATTTT
3634233 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATCTACTGGAAAATATTTTAC
Found at i:3634211 original size:20 final size:20
Alignment explanation
Indices: 3634183--3634220 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3634173 TAAAATGATC
*
3634183 TCTGGAAAATGTTTTACTTT
1 TCTGGAAAATGATTTACTTT
*
3634203 TCTGTAAAATGATTTACT
1 TCTGGAAAATGATTTACT
3634221 GGAAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (20 bp):
TCTGGAAAATGATTTACTTT
Found at i:3644058 original size:40 final size:40
Alignment explanation
Indices: 3644013--3644088 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
3644003 TTACACCATG
* *
3644013 TGGGGATAGAATCGACCCA-CCTAACCTTACACACCAAGTA
1 TGGGGATAGAATCAACCCATCC-AACCCTACACACCAAGTA
**
3644053 TGGGGATTTAATCAACCCATCCAACCCTACACACCA
1 TGGGGATAGAATCAACCCATCCAACCCTACACACCA
3644089 TAAGGTACCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.94
41 2 0.06
ACGTcount: A:0.34, C:0.33, G:0.14, T:0.18
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCATCCAACCCTACACACCAAGTA
Found at i:3645616 original size:4 final size:4
Alignment explanation
Indices: 3645607--3645833 Score: 177
Period size: 4 Copynumber: 57.0 Consensus size: 4
3645597 AAATTATTCT
* * * * *
3645607 TCTC TCTC TCTC TCTC TCTC TCTC TCTC CCAC TCTC TCCC TCCC TTTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * * * * *
3645655 TTTC TCTC CCTC CCTC CCCC TCCC TCTC CCTC CCTT TCTC CCCC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * *
3645703 TCTC TCCC TCTC CCTC CCTC TCCC ACTC TCCC TCTC TCTC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * *
3645751 TCTC TCTC TCTC TCTC CCTC TCTC TCTC TCTC CCTC TCCC CCTC TC-C
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * *
3645798 CCCC TCTC TCTC TCTC TCTC TCTC CCCC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
3645834 CCTCACACAC
Statistics
Matches: 177, Mismatches: 45, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
3 2 0.01
4 175 0.99
ACGTcount: A:0.01, C:0.60, G:0.00, T:0.39
Consensus pattern (4 bp):
TCTC
Found at i:3645618 original size:6 final size:6
Alignment explanation
Indices: 3645607--3645833 Score: 177
Period size: 6 Copynumber: 38.0 Consensus size: 6
3645597 AAATTATTCT
* * * * *
3645607 TCTCTC TCTCTC TCTCTC TCTCTC TCTCCC ACTCTC TCCCTC CCTTTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * * * * * * *
3645655 TTTCTC TCCCTC CCTCCC CCTCCC TCTCCC TCCCTT TCTCCC CCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * * * *
3645703 TCTCTC CCTCTC CCTCCC TCTCCC ACTCTC CCTCTC TCTCTC TCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * *
3645751 TCTCTC TCTCTC TCTCCC TCTCTC TCTCTC TCCCTC TCCCCC TCTC-C
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
* * * *
3645798 CCCCTC TCTCTC TCTCTC TCTCTC CCCCTC TCTCTC
1 TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC TCTCTC
3645834 CCTCACACAC
Statistics
Matches: 174, Mismatches: 46, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
5 3 0.02
6 171 0.98
ACGTcount: A:0.01, C:0.60, G:0.00, T:0.39
Consensus pattern (6 bp):
TCTCTC
Found at i:3645622 original size:10 final size:10
Alignment explanation
Indices: 3645607--3645833 Score: 177
Period size: 10 Copynumber: 22.8 Consensus size: 10
3645597 AAATTATTCT
3645607 TCTCTCTCTC
1 TCTCTCTCTC
3645617 TCTCTCTCTC
1 TCTCTCTCTC
*
3645627 TCTCTCTCCC
1 TCTCTCTCTC
* *
3645637 ACTCTCTCCC
1 TCTCTCTCTC
* * *
3645647 TCCCTTTCTT
1 TCTCTCTCTC
*
3645657 TCTCTCCCTC
1 TCTCTCTCTC
* * *
3645667 CCTCCCCCTC
1 TCTCTCTCTC
* *
3645677 CCTCTCCCTC
1 TCTCTCTCTC
* * *
3645687 CCTTTCTCCC
1 TCTCTCTCTC
*
3645697 CCTCTCTCTC
1 TCTCTCTCTC
* *
3645707 TCCCTCTCCC
1 TCTCTCTCTC
* *
3645717 TCCCTCTCCC
1 TCTCTCTCTC
* *
3645727 ACTCTCCCTC
1 TCTCTCTCTC
3645737 TCTCTCTCTC
1 TCTCTCTCTC
3645747 TCTCTCTCTC
1 TCTCTCTCTC
3645757 TCTCTCTCTC
1 TCTCTCTCTC
*
3645767 CCTCTCTCTC
1 TCTCTCTCTC
*
3645777 TCTCTCCCTC
1 TCTCTCTCTC
* *
3645787 TCCCCCTCTC
1 TCTCTCTCTC
* *
3645797 -CCCCCTCTC
1 TCTCTCTCTC
3645806 TCTCTCTCTC
1 TCTCTCTCTC
* *
3645816 TCTCTCCCCC
1 TCTCTCTCTC
3645826 TCTCTCTC
1 TCTCTCTC
3645834 CCTCACACAC
Statistics
Matches: 177, Mismatches: 39, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
9 9 0.05
10 168 0.95
ACGTcount: A:0.01, C:0.60, G:0.00, T:0.39
Consensus pattern (10 bp):
TCTCTCTCTC
Found at i:3645678 original size:32 final size:36
Alignment explanation
Indices: 3645624--3645823 Score: 144
Period size: 34 Copynumber: 5.6 Consensus size: 36
3645614 CTCTCTCTCT
* * ** *
3645624 CTCTCTCTCTCCCACTCTCTCCCTCCCTTTCTTTCT
1 CTCTCTCTCTCCCTCTCCCTCCCTCCCTTTCTCCCC
* * *
3645660 CTCCCTCCCTCCCCCTCCCTCTCCCTCCCTTTCTCCCC
1 CTCTCTCTCTCCCTCT-CC-CTCCCTCCCTTTCTCCCC
** *
3645698 CTCTCTCTCTCCCTCTCCCTCCCTCTCC-CACTCTCC
1 CTCTCTCTCTCCCTCTCCCTCCCTC-CCTTTCTCCCC
* * * * *
3645734 CTCTCTCTCT--CTCTCTCTCTCTCTCTCTCTCTCC
1 CTCTCTCTCTCCCTCTCCCTCCCTCCCTTTCTCCCC
*
3645768 CTCTCTCTCT--CTCTCCCTCTCC-CCCTCTC-CCCC
1 CTCTCTCTCTCCCTCTCCCTC-CCTCCCTTTCTCCCC
* *
3645801 CTCTCTCTCTCTCTCTCTCTCCC
1 CTCTCTCTCTCCCTCTCCCTCCC
3645824 CCTCTCTCTC
Statistics
Matches: 135, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
33 14 0.10
34 44 0.33
35 9 0.07
36 35 0.26
37 5 0.04
38 28 0.21
ACGTcount: A:0.01, C:0.61, G:0.00, T:0.38
Consensus pattern (36 bp):
CTCTCTCTCTCCCTCTCCCTCCCTCCCTTTCTCCCC
Found at i:3647510 original size:27 final size:25
Alignment explanation
Indices: 3647472--3647525 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
3647462 ACTATTTTAA
3647472 AATTTTTGTAAAAATAAATAATATTAT
1 AATTTTTGT-AAAATAAAT-ATATTAT
*
3647499 AATTTTTTTAAAATAAATATATTAT
1 AATTTTTGTAAAATAAATATATTAT
3647524 AA
1 AA
3647526 AATTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 9 0.35
26 9 0.35
27 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AATTTTTGTAAAATAAATATATTAT
Found at i:3647511 original size:26 final size:26
Alignment explanation
Indices: 3647472--3647525 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
3647462 ACTATTTTAA
3647472 AATTTTTGTAAAAATAAATAATATTAT
1 AATTTTTGTAAAAATAAAT-ATATTAT
*
3647499 AATTTTT-TTAAAATAAATATATTAT
1 AATTTTTGTAAAAATAAATATATTAT
3647524 AA
1 AA
3647526 AATTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 9 0.35
26 10 0.38
27 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
AATTTTTGTAAAAATAAATATATTAT
Found at i:3647529 original size:27 final size:29
Alignment explanation
Indices: 3647464--3647529 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 29
3647454 AATTAAAAAC
*
3647464 TATTTTAAAATTTTTGTAAAAATAAATAA
1 TATTATAAAATTTTTGTAAAAATAAATAA
*
3647493 TATTAT--AATTTTT-TTAAAATAAAT-A
1 TATTATAAAATTTTTGTAAAAATAAATAA
3647518 TATTATAAAATT
1 TATTATAAAATT
3647530 ATATGTGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 7 0.21
26 10 0.30
27 11 0.33
29 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
TATTATAAAATTTTTGTAAAAATAAATAA
Found at i:3648142 original size:53 final size:54
Alignment explanation
Indices: 3648039--3648154 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 54
3648029 GCAGAAAAGA
*
3648039 AAAAAATAAATCATGGAAGAAAATTATAAATTTTAATATAACTTTTTGAA-TTTT
1 AAAAAATTAATCATGGAAGAAAATTATAAATTTTAATAT-ACTTTTTGAATTTTT
* *
3648093 AAAAAATTAATC-TCGGAAGAAATTTAT-AATTTGTAATAT-TTTTTATGAATTTTT
1 AAAAAATTAATCAT-GGAAGAAAATTATAAATTT-TAATATACTTTT-TGAATTTTT
*
3648147 AAATAATT
1 AAAAAATT
3648155 GTAATAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
52 4 0.07
53 10 0.19
54 40 0.74
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (54 bp):
AAAAAATTAATCATGGAAGAAAATTATAAATTTTAATATACTTTTTGAATTTTT
Found at i:3653153 original size:52 final size:54
Alignment explanation
Indices: 3653096--3653199 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 54
3653086 AACTCCTAAG
**
3653096 GAACCCTAGGTGTGA-C-AGTATTCTTTCTTCTTGGTTGTTTGATACATGTAAA
1 GAACCCTAGGTGTGACCTAGTATTCTTTCTTCTTGGTTCATTGATACATGTAAA
*
3653148 GAACCCTAGGTGTGACCCTTGGTATTCTTTCTTCTTGGTTCATTGATACATG
1 GAACCCTAGGTGTGA-CC-TAGTATTCTTTCTTCTTGGTTCATTGATACATG
3653200 GAAGAAACCT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
52 15 0.33
54 1 0.02
56 29 0.64
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.40
Consensus pattern (54 bp):
GAACCCTAGGTGTGACCTAGTATTCTTTCTTCTTGGTTCATTGATACATGTAAA
Found at i:3653931 original size:3 final size:3
Alignment explanation
Indices: 3653923--3653951 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3653913 AGACAAGGTG
3653923 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3653952 GAAAACAACA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3662303 original size:20 final size:20
Alignment explanation
Indices: 3662278--3662320 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
3662268 TGAGCTAGGA
3662278 TATCCAGTTAATCAATTTTG
1 TATCCAGTTAATCAATTTTG
3662298 TATCCAGTTAATCAATTTTG
1 TATCCAGTTAATCAATTTTG
3662318 TAT
1 TAT
3662321 TAACCTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (20 bp):
TATCCAGTTAATCAATTTTG
Found at i:3670780 original size:4 final size:4
Alignment explanation
Indices: 3670771--3670795 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
3670761 CAAAAATAAA
3670771 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
3670796 ATAGAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:3670955 original size:24 final size:23
Alignment explanation
Indices: 3670919--3670969 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
3670909 TTTTTAATAT
3670919 TATTAGATAATCATATCATTTTTC-
1 TATTAGATAATCAT-T-ATTTTTCA
3670943 TATTA-ATATATCATTATTTTTCA
1 TATTAGATA-ATCATTATTTTTCA
3670966 TATT
1 TATT
3670970 TATGAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.28
23 8 0.32
24 10 0.40
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (23 bp):
TATTAGATAATCATTATTTTTCA
Found at i:3671036 original size:18 final size:18
Alignment explanation
Indices: 3671015--3671050 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3671005 GTACCAAAAA
3671015 ATATTAATAATTTAAGTT
1 ATATTAATAATTTAAGTT
3671033 ATATTAATAATTTAAGTT
1 ATATTAATAATTTAAGTT
3671051 TAATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
ATATTAATAATTTAAGTT
Found at i:3695773 original size:23 final size:22
Alignment explanation
Indices: 3695747--3695813 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
3695737 AAACCTGAAT
3695747 ATAAAATAAATAACCAAAA-TCCA
1 ATAAAATAAA-AA-CAAAATTCCA
* *
3695770 ATAAAACAAAAACAAAATTGCA
1 ATAAAATAAAAACAAAATTCCA
3695792 ATAGAAATAAGAAAGCAAAATT
1 ATA-AAATAA-AAA-CAAAATT
3695814 AAATTTGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 5 0.14
22 8 0.22
23 14 0.38
24 3 0.08
25 7 0.19
ACGTcount: A:0.66, C:0.12, G:0.06, T:0.16
Consensus pattern (22 bp):
ATAAAATAAAAACAAAATTCCA
Found at i:3697301 original size:19 final size:20
Alignment explanation
Indices: 3697263--3697302 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3697253 TTCAGGGACC
*
3697263 ATTTTGAAACAAAATAAAAA
1 ATTTAGAAACAAAATAAAAA
*
3697283 ATTTAGAAA-AAATTAAAAA
1 ATTTAGAAACAAAATAAAAA
3697302 A
1 A
3697303 AATTGAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (20 bp):
ATTTAGAAACAAAATAAAAA
Found at i:3699434 original size:16 final size:16
Alignment explanation
Indices: 3699413--3699445 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3699403 ATTCTAATTC
3699413 AACGAGAAAAGTCGCA
1 AACGAGAAAAGTCGCA
3699429 AACGAGAAAAGTCGCA
1 AACGAGAAAAGTCGCA
3699445 A
1 A
3699446 CCTAGTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.24, T:0.06
Consensus pattern (16 bp):
AACGAGAAAAGTCGCA
Found at i:3700312 original size:22 final size:21
Alignment explanation
Indices: 3700282--3700347 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
3700272 TACAAATTAA
3700282 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
3700304 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
3700325 ATCT--AGGATTACATATCAT
1 ATCTCCAAGATTACAGATCAT
3700344 ATCT
1 ATCT
3700348 AAGATTGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 17 0.44
21 10 0.26
22 12 0.31
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:3700339 original size:19 final size:19
Alignment explanation
Indices: 3700299--3700450 Score: 215
Period size: 19 Copynumber: 8.2 Consensus size: 19
3700289 AGATTACAAG
3700299 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
* *
3700320 ATCATATCTAGGATTACAT
1 ATCATATCTAAGATTGCAT
3700339 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
3700356 ATCATATCTAAGATTGCA-
1 ATCATATCTAAGATTGCAT
*
3700374 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
*
3700393 ATCATATCTAATATTG--T
1 ATCATATCTAAGATTGCAT
3700410 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
3700429 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
3700448 ATC
1 ATC
3700451 CTTAAAGATT
Statistics
Matches: 120, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
17 33 0.28
18 17 0.14
19 61 0.51
20 1 0.01
21 8 0.07
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:3700363 original size:36 final size:37
Alignment explanation
Indices: 3700288--3700450 Score: 181
Period size: 36 Copynumber: 4.4 Consensus size: 37
3700278 TTAAATCTCC
*
3700288 AAGATTACAAGATCATATCTTCAAGATTGCATATCATATCT
1 AAGATTAC-ATATCATATC-T-AAGATTG-ATATCATATCT
*
3700329 AGGATTACATATCATATCTAAGATTG-TATCATATCT
1 AAGATTACATATCATATCTAAGATTGATATCATATCT
* *
3700365 AAGATTGCA-ATCATATCTAATATTGCATATCATATCT
1 AAGATTACATATCATATCTAAGATTG-ATATCATATCT
* *
3700402 AATATT--GTATCATATCTAAGATTGCATATCATATCT
1 AAGATTACATATCATATCTAAGATTG-ATATCATATCT
*
3700438 AAGATTGCATATC
1 AAGATTACATATC
3700451 CTTAAAGATT
Statistics
Matches: 107, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
35 15 0.14
36 49 0.46
37 15 0.14
38 11 0.10
39 1 0.01
40 9 0.08
41 7 0.07
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (37 bp):
AAGATTACATATCATATCTAAGATTGATATCATATCT
Found at i:3700382 original size:54 final size:55
Alignment explanation
Indices: 3700299--3700450 Score: 243
Period size: 54 Copynumber: 2.7 Consensus size: 55
3700289 AGATTACAAG
* *
3700299 ATCATATCTTCAAGATTGCATATCATATCTAGGATTACATATCATATCTAAGATTGT
1 ATCATATC-T-AAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGT
* *
3700356 ATCATATCTAAGATTGCA-ATCATATCTAATATTGCATATCATATCTAATATTGT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGT
3700410 ATCATATCTAAGATTGCATATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGCATATC
3700451 CTTAAAGATT
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
54 50 0.56
55 30 0.34
56 1 0.01
57 8 0.09
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (55 bp):
ATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGT
Found at i:3700396 original size:73 final size:74
Alignment explanation
Indices: 3700299--3700446 Score: 212
Period size: 73 Copynumber: 2.0 Consensus size: 74
3700289 AGATTACAAG
*
3700299 ATCATATCTTCAAGATTGCATATCATATCTAGGATTACATATCATATCTAAGATTG-TATCATAT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATT--ATATCATATCTAAGATTGATATCATAT
3700363 CTAAGATTGCA
64 CTAAGATTGCA
* * *
3700374 ATCATATC-T-AATATTGCATATCATATCTAATATTGTATCATATCTAAGATTGCATATCATATC
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTATATCATATCTAAGATTG-ATATCATATC
3700437 TAAGATTGCA
65 TAAGATTGCA
3700447 TATCCTTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
71 17 0.25
73 41 0.61
74 1 0.01
75 8 0.12
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (74 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTATATCATATCTAAGATTGATATCATATCT
AAGATTGCA
Found at i:3701649 original size:79 final size:79
Alignment explanation
Indices: 3701518--3701674 Score: 233
Period size: 79 Copynumber: 2.0 Consensus size: 79
3701508 ATCAGACGTG
* * * * *
3701518 CCCATATACAGATAAAACATATCAGAACATTCTAGTTGCACATATAATTAATAGATCAAAACATG
1 CCCATATACAAATAAAACAGATCAAAACATACTAATTGCACATATAATTAATAGATCAAAACATG
*
3701583 TTATTGGCATATTA
66 CTATTGGCATATTA
* *
3701597 CCCATATGCAAATAAAACAGATCAAAACATACTAATTGCACATATAGTTAATAGATCAAAACATG
1 CCCATATACAAATAAAACAGATCAAAACATACTAATTGCACATATAATTAATAGATCAAAACATG
*
3701662 CTATTGGTATATT
66 CTATTGGCATATT
3701675 CGACCATTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (79 bp):
CCCATATACAAATAAAACAGATCAAAACATACTAATTGCACATATAATTAATAGATCAAAACATG
CTATTGGCATATTA
Found at i:3704973 original size:16 final size:16
Alignment explanation
Indices: 3704941--3704973 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3704931 TAGGGTGTGA
3704941 AATTATTTAATTGAAT
1 AATTATTTAATTGAAT
3704957 AATTAATTTAATT-AAT
1 AATT-ATTTAATTGAAT
3704973 A
1 A
3704974 TTCAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AATTATTTAATTGAAT
Found at i:3713161 original size:22 final size:23
Alignment explanation
Indices: 3713135--3713180 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
3713125 CCTGATCAGA
3713135 ATACGACACAT-AAGTGCCTGAC
1 ATACGACACATAAAGTGCCTGAC
3713157 ATACGACACATAAAGTGCCTGAC
1 ATACGACACATAAAGTGCCTGAC
3713180 A
1 A
3713181 AGTAAAGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAC
Found at i:3713417 original size:28 final size:29
Alignment explanation
Indices: 3713368--3713442 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 29
3713358 AAATGTCTAA
* *
3713368 CCAAAACACACCAGTATCATATAATCC-T
1 CCAAAACACACCAGAATAATATAATCCAT
* *
3713396 CCCAAACACACTAGAATAATATAATCCAT
1 CCAAAACACACCAGAATAATATAATCCAT
3713425 CCAAAACACACCAGAATA
1 CCAAAACACACCAGAATA
3713443 GCACAAAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 23 0.57
29 17 0.43
ACGTcount: A:0.48, C:0.31, G:0.04, T:0.17
Consensus pattern (29 bp):
CCAAAACACACCAGAATAATATAATCCAT
Found at i:3719370 original size:31 final size:31
Alignment explanation
Indices: 3719334--3719408 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
3719324 TCTTGATTCA
3719334 TTGAATTCCTTCACTTTTCTTCTTTTGAACT
1 TTGAATTCCTTCACTTTTCTTCTTTTGAACT
3719365 TTGAATTCCTTCACTTTTCTTCTTTTGAACT
1 TTGAATTCCTTCACTTTTCTTCTTTTGAACT
*
3719396 TTGAATTGCTTCA
1 TTGAATTCCTTCA
3719409 TTAAAAGTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.17, C:0.21, G:0.08, T:0.53
Consensus pattern (31 bp):
TTGAATTCCTTCACTTTTCTTCTTTTGAACT
Found at i:3724511 original size:75 final size:73
Alignment explanation
Indices: 3724423--3724594 Score: 199
Period size: 75 Copynumber: 2.4 Consensus size: 73
3724413 GGTTTTCCTC
** * * * ** *
3724423 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCTATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAA
3724487 TCAGTATGG
65 TCAGTATGG
* *
3724496 ATTTGATAATACCATACCTATATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
3724561 ATCAGTATGG
64 ATCAGTATGG
3724571 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
3724595 CTTTTCCATG
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
70 20 0.24
73 3 0.04
74 7 0.08
75 55 0.65
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAAAT
CAGTATGG
Found at i:3724530 original size:40 final size:38
Alignment explanation
Indices: 3724428--3724594 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 38
3724418 TCCTCATTGA
** *
3724428 AATACCATACCTACATTTTTCAACTCGGTATGG--GA-
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
* * **
3724463 AATGCTATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGA--TGAT
* *
3724503 AATACCATACCTATATTTCACAGCTCAGTAT-G--GAT
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
*
3724538 AATACCATACCTACATTTCACAAATCAGTATGGATG--
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
3724574 -ATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
3724595 CTTTTCCATG
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
35 80 0.73
36 1 0.01
38 1 0.01
39 3 0.03
40 25 0.23
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (38 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATGAT
Found at i:3727610 original size:46 final size:46
Alignment explanation
Indices: 3727596--3727823 Score: 384
Period size: 46 Copynumber: 5.0 Consensus size: 46
3727586 TCTGCCTTGT
* * *** * *
3727596 TGCCATGATATCTTTCAACCATGATCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
3727642 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
3727688 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
3727734 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
3727780 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
3727824 AGAGCACACT
Statistics
Matches: 173, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 173 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:3746400 original size:465 final size:467
Alignment explanation
Indices: 3745528--3746456 Score: 1727
Period size: 465 Copynumber: 2.0 Consensus size: 467
3745518 TAGTTTCTTG
3745528 AGGGTTAAGTTGAGGGTTAATAATAAAATTTTATTTGCAAAAGTCCATTTTATATATGTTGTAAC
1 AGGGTTAAGTTGAGGGTTAATAATAAAATTTTATTTGCAAAAGTCCATTTTATATATGTTGTAAC
*
3745593 ATATTTACAACTTTTCTGATTATTATCTTTGAATTAATAAAGAGGTCTGGAGACTTTCTATAACT
66 ATATTTACAACTTTTCTGATTATTATCTTTGAATTAATAAAGAGGCCTGGAGACTTTCTATAACT
* *
3745658 CTTAATTTTTCTAGAGTTTCAAATTCTTTTCTTATTCGTTTTACAGCCTTAATTATTTCAATTAT
131 CTTAAGTTTTCTAGAGTTTCAAATTCTTTTCTTATTCGTTTTACAGCCATAATTATTTCAATTAT
3745723 GGTTGTTTTCTTCCCTAAACCATATCAATTTTGGCATTAGAACTTAATTAGATCCTACGGTTGCT
196 GGTTGTTTTCTTCCCTAAACCATATCAATTTTGGCATTAGAACTTAATTAGATCCTACGGTTGCT
*
3745788 ATTAAGCCATGGTTGGACATAGTGGATATTAAGGAAGCGGAAGTCAAGGTCAAGAGACAATATTG
261 ATTAAGCCATGGTTGGACATAGTAGATATTAAGGAAGCGGAAGTCAAGGTCAAGAGACAATATTG
*
3745853 ACTGCAATACAAAGTGATATTAAAGAATTGTCGCATGCAATTTATGCTACATTGCGACAAGAGCC
326 ACTGCAATACAAAGTGATATTAAAGAATTGTCGCATGCAATTTATGCTACATTGCGACAAGAACC
*
3745918 AGTGGGAGTCCAGATGGA-ATTCTGGAAGGTGCCCACAATTGTGTATGCCTTAGAATTAAATAGG
391 AGTGGGAGTCCAGATGGAGATTCTGGAAGGTGCCCACAATTGTGTAAGCCTTAGAATTAAATAGG
3745982 GTGGAATTATAT
456 GTGGAATTATAT
3745994 AGGGTTAAGTTGAGGGTTAATAATAAAATTTTATTTGCAAAAGTCCATTTTATATATGTTGTAAC
1 AGGGTTAAGTTGAGGGTTAATAATAAAATTTTATTTGCAAAAGTCCATTTTATATATGTTGTAAC
*
3746059 ATATTTACAACTTTTCTGATTATTATCTTTGAATTAATAAAGAGGCCTGGAGAGTTTCTATAACT
66 ATATTTACAACTTTTCTGATTATTATCTTTGAATTAATAAAGAGGCCTGGAGACTTTCTATAACT
*
3746124 C-TAAGTTTTCTAGAGTTTCAAATTCTTTTCTTATTCGTTTTACAGCCATAATTCTTTCAATTAT
131 CTTAAGTTTTCTAGAGTTTCAAATTCTTTTCTTATTCGTTTTACAGCCATAATTATTTCAATTAT
*
3746188 GGTTGTTTTCTTCTCTAAACCATATCAATTTTGGCATTAGAACTTAATTAGATCCTACGGTTGCT
196 GGTTGTTTTCTTCCCTAAACCATATCAATTTTGGCATTAGAACTTAATTAGATCCTACGGTTGCT
*
3746253 ATTAAGCCATGGTTGGACATGGTAGATATTAAGGAAGCGGAAGTCAAGGTCAAGAGACAATATTG
261 ATTAAGCCATGGTTGGACATAGTAGATATTAAGGAAGCGGAAGTCAAGGTCAAGAGACAATATTG
**
3746318 ACTGCAATATGAAGTGATATTAAAGAATTGTCGCATGCAATTTATGCTACATTGCGACAAGAACC
326 ACTGCAATACAAAGTGATATTAAAGAATTGTCGCATGCAATTTATGCTACATTGCGACAAGAACC
*
3746383 AGTGGGAGTCCAGATGGAGATTCTGGAAGGTGCCCACAATTGTGTAAGCCTTTGAATTAAATAGG
391 AGTGGGAGTCCAGATGGAGATTCTGGAAGGTGCCCACAATTGTGTAAGCCTTAGAATTAAATAGG
3746448 GTGGAATTA
456 GTGGAATTA
3746457 AGATCAAAGT
Statistics
Matches: 449, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
465 267 0.59
466 182 0.41
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (467 bp):
AGGGTTAAGTTGAGGGTTAATAATAAAATTTTATTTGCAAAAGTCCATTTTATATATGTTGTAAC
ATATTTACAACTTTTCTGATTATTATCTTTGAATTAATAAAGAGGCCTGGAGACTTTCTATAACT
CTTAAGTTTTCTAGAGTTTCAAATTCTTTTCTTATTCGTTTTACAGCCATAATTATTTCAATTAT
GGTTGTTTTCTTCCCTAAACCATATCAATTTTGGCATTAGAACTTAATTAGATCCTACGGTTGCT
ATTAAGCCATGGTTGGACATAGTAGATATTAAGGAAGCGGAAGTCAAGGTCAAGAGACAATATTG
ACTGCAATACAAAGTGATATTAAAGAATTGTCGCATGCAATTTATGCTACATTGCGACAAGAACC
AGTGGGAGTCCAGATGGAGATTCTGGAAGGTGCCCACAATTGTGTAAGCCTTAGAATTAAATAGG
GTGGAATTATAT
Found at i:3753230 original size:33 final size:31
Alignment explanation
Indices: 3753205--3753263 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
3753195 ATATCATCAT
* *
3753205 ATACAAA-AATGAGAGTACAAACCATATTGA
1 ATACAAATAATGAAAGTACAAACCATATTCA
*
3753235 ATTCAAATAATGAAAGTACAAACCATATT
1 ATACAAATAATGAAAGTACAAACCATATT
3753264 AGCCACTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.24
Consensus pattern (31 bp):
ATACAAATAATGAAAGTACAAACCATATTCA
Found at i:3756395 original size:43 final size:43
Alignment explanation
Indices: 3756334--3756426 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
3756324 GCAGATTTTT
*
3756334 CACAGCTCATGTAAGCAGCA-CTGTGTAGCCTAACATCTTAACC
1 CACAGCTCATATAAGCAGCATC-GTGTAGCCTAACATCTTAACC
*
3756377 CACAGCTCATATGAGCAGCATCGTGTAGCCTAACATCTTAACC
1 CACAGCTCATATAAGCAGCATCGTGTAGCCTAACATCTTAACC
3756420 CACAGCT
1 CACAGCT
3756427 TATGTGAGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (43 bp):
CACAGCTCATATAAGCAGCATCGTGTAGCCTAACATCTTAACC
Found at i:3758327 original size:13 final size:13
Alignment explanation
Indices: 3758309--3758333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3758299 TGGTGCCCAA
3758309 AAGCAATGTTGGC
1 AAGCAATGTTGGC
3758322 AAGCAATGTTGG
1 AAGCAATGTTGG
3758334 AGGATTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (13 bp):
AAGCAATGTTGGC
Found at i:3762968 original size:22 final size:22
Alignment explanation
Indices: 3762943--3762987 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3762933 TTTAATAAAA
3762943 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
3762965 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
3762987 A
1 A
3762988 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:3766396 original size:22 final size:22
Alignment explanation
Indices: 3766370--3766414 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3766360 TTTTAATAAA
3766370 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
3766392 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
3766414 A
1 A
3766415 CATGCTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:3766665 original size:94 final size:94
Alignment explanation
Indices: 3766495--3766681 Score: 329
Period size: 94 Copynumber: 2.0 Consensus size: 94
3766485 TTAGCTACCT
*
3766495 TTTTTTTGCTTCTTACAGTTAGTTAGTACAAGGAGATTGTAATCCTGAGAGGACGGCTGCTTTTG
1 TTTTCTTGCTTCTTACAGTTAGTTAGTACAAGGAGATTGTAATCCTGAGAGGACGGCTGCTTTTG
*
3766560 GCATTATCTAAACTATTATGCGAAATAAG
66 GCATTACCTAAACTATTATGCGAAATAAG
* *
3766589 TTTTCTTGCTTCTTACAGTTAGTTAGTACAAGGAGATTGTAATCCTGCGAGGATGGCTGCTTTTG
1 TTTTCTTGCTTCTTACAGTTAGTTAGTACAAGGAGATTGTAATCCTGAGAGGACGGCTGCTTTTG
*
3766654 GCATTACCTAAATTATTATGCGAAATAA
66 GCATTACCTAAACTATTATGCGAAATAA
3766682 AATTTTGTAA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (94 bp):
TTTTCTTGCTTCTTACAGTTAGTTAGTACAAGGAGATTGTAATCCTGAGAGGACGGCTGCTTTTG
GCATTACCTAAACTATTATGCGAAATAAG
Found at i:3768848 original size:59 final size:59
Alignment explanation
Indices: 3768776--3768893 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
3768766 GAAAGGAGTA
3768776 AGAATGGAAAATTTGCTAATCAAATGGTTAAGATTCATAATTACTTTCTTACTTTATAG
1 AGAATGGAAAATTTGCTAATCAAATGGTTAAGATTCATAATTACTTTCTTACTTTATAG
3768835 AGAATGGAAAATTTGCTAATCAAATGGTTAAGATTCATAATTACTTTCTTACTTTATAG
1 AGAATGGAAAATTTGCTAATCAAATGGTTAAGATTCATAATTACTTTCTTACTTTATAG
3768894 TTTAACCATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (59 bp):
AGAATGGAAAATTTGCTAATCAAATGGTTAAGATTCATAATTACTTTCTTACTTTATAG
Found at i:3781566 original size:28 final size:28
Alignment explanation
Indices: 3781511--3781567 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
3781501 TTTTATTTTA
*
3781511 ATATATTGTAATAAAAAATATTTTAATT
1 ATATATTGTAATAAAAAATATTTGAATT
*
3781539 ATATATTTTAATAAAAAA-ATATTGAATT
1 ATATATTGTAATAAAAAATAT-TTGAATT
3781567 A
1 A
3781568 AATTACCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATATATTGTAATAAAAAATATTTGAATT
Found at i:3782953 original size:18 final size:19
Alignment explanation
Indices: 3782932--3782988 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 19
3782922 AAATTCAAAA
3782932 AAATATAAAAATATA-TTT
1 AAATATAAAAATATATTTT
*
3782950 AAATATGAAAAT-TATTTT
1 AAATATAAAAATATATTTT
3782968 AAATATATAAAATATAATTTT
1 AAATATA-AAAATAT-ATTTT
3782989 TAAAAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 2 0.06
18 20 0.61
19 5 0.15
20 1 0.03
21 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AAATATAAAAATATATTTT
Found at i:3794260 original size:5 final size:5
Alignment explanation
Indices: 3794250--3794278 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
3794240 ATTTTTCCTC
3794250 CCCAT CCCAT CCCAT CCCAT CCCAT CCCA
1 CCCAT CCCAT CCCAT CCCAT CCCAT CCCA
3794279 AACAAAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.62, G:0.00, T:0.17
Consensus pattern (5 bp):
CCCAT
Found at i:3801820 original size:170 final size:171
Alignment explanation
Indices: 3801515--3801858 Score: 663
Period size: 170 Copynumber: 2.0 Consensus size: 171
3801505 TCATGAGCTA
3801515 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT
1 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT
3801580 AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA
66 AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA
3801645 GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG
131 GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG
3801686 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT
1 CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT
*
3801751 -AAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCACCGCTTTGA
66 AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA
*
3801815 GTAGAAAGGCAAAGAGAAGAGTAGGCATGGAGAAAAATGGG
131 GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG
3801856 CTG
1 CTG
3801859 TGATCACTTT
Statistics
Matches: 171, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
170 106 0.62
171 65 0.38
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.25
Consensus pattern (171 bp):
CTGCTACATATATAATAATAAAGACCTTCATCATCTGAGACTTATTTGAAAAGAAAAGTGATTTT
AAAAATAAGGGATGGGATGATGAGTATAGATTAAGTTGCAGCTTTGATGGAAGCCAACGCTTTGA
GTAGAAAGGCAAAGAAAAGAGTAGGCATGGAGAAAAATGGG
Found at i:3809874 original size:21 final size:21
Alignment explanation
Indices: 3809848--3809888 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3809838 ATCTGCTCAA
* *
3809848 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
3809869 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
3809889 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:3815935 original size:13 final size:13
Alignment explanation
Indices: 3815917--3815943 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3815907 TGAAAGGGGA
3815917 TTTGATTTTGATT
1 TTTGATTTTGATT
3815930 TTTGATTTTGATT
1 TTTGATTTTGATT
3815943 T
1 T
3815944 GAGCAGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (13 bp):
TTTGATTTTGATT
Found at i:3822900 original size:18 final size:17
Alignment explanation
Indices: 3822879--3822912 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3822869 TATAAATATT
3822879 AATAATTATATTGAACAA
1 AATAATTATATT-AACAA
*
3822897 AATAATTTTATTAACA
1 AATAATTATATTAACA
3822913 TATGTGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
AATAATTATATTAACAA
Found at i:3832941 original size:35 final size:36
Alignment explanation
Indices: 3832897--3833063 Score: 171
Period size: 35 Copynumber: 4.6 Consensus size: 36
3832887 TCCTCATTGA
** *
3832897 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* **
3832932 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
* *
3832972 AATACCATACCTACATTTCACAGCTCGGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
*
3833007 AATACCATACATACATTTCACAACTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
*
3833042 GACT-CCATACCTACATTTCACA
1 -AATACCATACCTACATTTCACA
3833064 CTTTTCCATG
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
35 81 0.72
36 2 0.02
39 3 0.03
40 26 0.23
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:3832980 original size:75 final size:74
Alignment explanation
Indices: 3832893--3833063 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 74
3832883 GTTTTCCTCA
** * * **
3832893 TTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCGGTAT-GGATAATACCATACATACATTTCACAACT
3832957 CAGTATGGAT
65 CAGTATGGAT
*
3832967 TTGATAATACCATACCTACATTTCACAGCTCGGTATGGATAATACCATACATACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACATACATTTCACAACT
3833032 CAGTATGGA-
65 CAGTATGGAT
*
3833041 -TG-ACT-CCATACCTACATTTCACA
1 TTGAAATACCATACCTACATTTCACA
3833064 CTTTTCCATG
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
71 2 0.02
73 2 0.02
74 7 0.08
75 58 0.67
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACATACATTTCACAACTC
AGTATGGAT
Found at i:3840295 original size:6 final size:6
Alignment explanation
Indices: 3840287--3840396 Score: 60
Period size: 6 Copynumber: 17.8 Consensus size: 6
3840277 AGACTGAGCC
* * * ** **
3840287 TGAAGC TGAAGA TGAAGA TGAA-A GTGAAGA TGAGGT TGGGGA TGGGGA
1 TGAAGA TGAAGA TGAAGA TGAAGA -TGAAGA TGAAGA TGAAGA TGAAGA
* * * * *
3840335 TGAAGA TGAGGATGA TGAAGA AGAAGA CGAAGA AGAAGA AGAAGA CGAAGA
1 TGAAGA TGA--A-GA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA
*
3840386 CGAAGA TGAAG
1 TGAAGA TGAAG
3840397 CCGACGCCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
5 1 0.01
6 78 0.90
7 2 0.02
8 1 0.01
9 5 0.06
ACGTcount: A:0.45, C:0.04, G:0.39, T:0.13
Consensus pattern (6 bp):
TGAAGA
Found at i:3840366 original size:9 final size:9
Alignment explanation
Indices: 3840354--3840385 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
3840344 GGATGATGAA
3840354 GAAGAAGAC
1 GAAGAAGAC
*
3840363 GAAGAAGAA
1 GAAGAAGAC
3840372 GAAGAAGAC
1 GAAGAAGAC
3840381 GAAGA
1 GAAGA
3840386 CGAAGATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.34, T:0.00
Consensus pattern (9 bp):
GAAGAAGAC
Found at i:3840372 original size:18 final size:18
Alignment explanation
Indices: 3840351--3840396 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
3840341 TGAGGATGAT
3840351 GAAGAAGAAGACGAAGAA
1 GAAGAAGAAGACGAAGAA
*
3840369 GAAGAAGAAGACGAAGAC
1 GAAGAAGAAGACGAAGAA
*
3840387 GAAGATGAAG
1 GAAGAAGAAG
3840397 CCGACGCCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.57, C:0.07, G:0.35, T:0.02
Consensus pattern (18 bp):
GAAGAAGAAGACGAAGAA
Found at i:3842648 original size:31 final size:31
Alignment explanation
Indices: 3842613--3842692 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
3842603 TATTTTTCAT
* *
3842613 TTGCTTCAATTTCTATGCTTATTCC-CCGTTA
1 TTGCTTCAATTTCCATGCTTATACCTCC-TTA
*
3842644 TTGCTTCAATTTCCATGATTATACCTCCTTA
1 TTGCTTCAATTTCCATGCTTATACCTCCTTA
3842675 TTGCTTCAATTTCCATGC
1 TTGCTTCAATTTCCATGC
3842693 CTTACAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.46
Consensus pattern (31 bp):
TTGCTTCAATTTCCATGCTTATACCTCCTTA
Found at i:3844203 original size:3 final size:3
Alignment explanation
Indices: 3844197--3844222 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3844187 CGTCATATTA
3844197 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
3844223 ATGAAGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:3849653 original size:21 final size:19
Alignment explanation
Indices: 3849629--3849690 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 19
3849619 TTAAATATAT
3849629 ATTTTGAAATTACTTTTTTAA
1 ATTTT-AAATTA-TTTTTTAA
3849650 ATTTTAAATATTATTTTTTAA
1 ATTTT-AA-ATTATTTTTTAA
*
3849671 ATATTAAATATATTTTTTAA
1 ATTTTAAAT-TATTTTTTAA
3849691 TAATATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.05
20 12 0.32
21 19 0.51
22 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTAAATTATTTTTTAA
Found at i:3849701 original size:22 final size:20
Alignment explanation
Indices: 3849642--3849703 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
3849632 TTGAAATTAC
* *
3849642 TTTTTTAAATTTTAAATATTA
1 TTTTTTAAATATAAAATA-TA
*
3849663 TTTTTTAAATATTAAATATA
1 TTTTTTAAATATAAAATATA
3849683 TTTTTTAATAATATAAAATAT
1 TTTTTT-A-AATATAAAATAT
3849704 TTAAATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 8 0.22
21 18 0.49
22 11 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTTAAATATAAAATATA
Found at i:3849705 original size:20 final size:20
Alignment explanation
Indices: 3849642--3849690 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
3849632 TTGAAATTAC
*
3849642 TTTTTTAAATTTTAAATATTA
1 TTTTTTAAATATTAAATA-TA
3849663 TTTTTTAAATATTAAATATA
1 TTTTTTAAATATTAAATATA
3849683 TTTTTTAA
1 TTTTTTAA
3849691 TAATATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTAAATATTAAATATA
Found at i:3849864 original size:46 final size:46
Alignment explanation
Indices: 3849797--3849887 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
3849787 AAAAAAATAA
3849797 TGATTTAAAAGATTTAGGGACCTATTATGCAATTTTTCCATTTTTT
1 TGATTTAAAAGATTTAGGGACCTATTATGCAATTTTTCCATTTTTT
3849843 TGATTTAAAAGATTTAGGGACCTATTATGCAATTTTTCCATTTTT
1 TGATTTAAAAGATTTAGGGACCTATTATGCAATTTTTCCATTTTT
3849888 GAATGGTTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (46 bp):
TGATTTAAAAGATTTAGGGACCTATTATGCAATTTTTCCATTTTTT
Found at i:3851166 original size:17 final size:18
Alignment explanation
Indices: 3851146--3851179 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3851136 AAAAGATTTA
3851146 TTTATTGAAAAA-ATATG
1 TTTATTGAAAAATATATG
*
3851163 TTTATTTAAAAATATAT
1 TTTATTGAAAAATATAT
3851180 ATATTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
TTTATTGAAAAATATATG
Found at i:3851227 original size:20 final size:21
Alignment explanation
Indices: 3851169--3851228 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
3851159 TATGTTTATT
3851169 TAAAAATATATATATTAAAAAG
1 TAAAAATATAT-TATTAAAAAG
* *
3851191 TAAAAATTTA-AATTAAAAAG
1 TAAAAATATATTATTAAAAAG
3851211 TAAAAATATATTA-TAAAA
1 TAAAAATATATTATTAAAA
3851229 TCACATCATG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 23 0.70
21 1 0.03
22 9 0.27
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (21 bp):
TAAAAATATATTATTAAAAAG
Found at i:3851697 original size:20 final size:20
Alignment explanation
Indices: 3851674--3851738 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
3851664 ATAATTTTTT
3851674 AATTTTAGTACACATTTATA
1 AATTTTAGTACACATTTATA
* * *
3851694 AATTTATA-TATTA-ATTTTTT
1 AATTT-TAGTA-CACATTTATA
*
3851714 AATTTTAGTACACATTCATA
1 AATTTTAGTACACATTTATA
3851734 AATTT
1 AATTT
3851739 ATGTACTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTTTAGTACACATTTATA
Found at i:3851709 original size:40 final size:41
Alignment explanation
Indices: 3851665--3851749 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 41
3851655 GTGTTGGTTA
*
3851665 TAATTTTTTAATTTTAGTACACATTTATAAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
*
3851705 TAATTTTTTAATTTTAGTACACATTCATAAATTTATGTACT
1 TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
3851746 TAAT
1 TAAT
3851750 ATATATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 37 0.88
41 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTCATAAATTTATATACT
Found at i:3851760 original size:40 final size:40
Alignment explanation
Indices: 3851673--3851760 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
3851663 TATAATTTTT
* * *
3851673 TAATTTTAGTACACATTTATAAATTTATATATTAATTTTT
1 TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
*
3851713 TAATTTTAGTACACATTCATAAATTTATGTACTTAA-TATA
1 TAATTTTAGTACACATTCATAAATTTATATA-TTAATTATA
*
3851753 TATTTTTA
1 TAATTTTA
3851761 ATAGATAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (40 bp):
TAATTTTAGTACACATTCATAAATTTATATATTAATTATA
Found at i:3856925 original size:184 final size:184
Alignment explanation
Indices: 3856610--3856966 Score: 475
Period size: 184 Copynumber: 1.9 Consensus size: 184
3856600 ATAGTCAACA
* * *** *
3856610 CCCAGCCCGGTAAAATATTGTCTGCTTTAGGCGCCCATGGCCCTCATGGTTTTGTTTTTGGGAGG
1 CCCAGCCCGGTAAAATATTGTCTGCTTTAGGCACCCATAGCCCTCATAACTTTGTTCTTGGGAGG
* ** *
3856675 GCTTATACACCCCTAAAAGGTCTCTTTCCACTTAAGTGTTGCTACCCCTTTATATAGGCTAGGTC
66 GCTCATACACCCCTAAAAGACCTCTTTCCACTTAAGTGTTGCTACCCCTTTATATACGCTAGGTC
*** * * *
3856740 TCTCTTGTGTTTTTCCAATGTGGGATTTGCCTAGGGTGTTACATTGATAAATTT
131 TCTCCCATGCTTTGCCAATATGGGATTTGCCTAGGGTGTTACATTGATAAATTT
* * * * * *
3856794 CCCATCCCGGTAAAATATTGTTTGCTTTGGGTACTCATAGCCGTCATAACTTTGTTCTTGGGAGG
1 CCCAGCCCGGTAAAATATTGTCTGCTTTAGGCACCCATAGCCCTCATAACTTTGTTCTTGGGAGG
*
3856859 GCTCATACA-CCTTCAAAAGACCTCTTTCCACTTAAGTGTTGCTACCCCTTTATATAACGC-AGG
66 GCTCATACACCCCT-AAAAGACCTCTTTCCACTTAAGTGTTGCTACCCCTTTATAT-ACGCTAGG
3856922 TCTCTCCCATGCTTTGCCAATATGGGATTTGCCTAGGGTGTTACA
129 TCTCTCCCATGCTTTGCCAATATGGGATTTGCCTAGGGTGTTACA
3856967 AAGTACATAA
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
183 3 0.02
184 142 0.96
185 3 0.02
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (184 bp):
CCCAGCCCGGTAAAATATTGTCTGCTTTAGGCACCCATAGCCCTCATAACTTTGTTCTTGGGAGG
GCTCATACACCCCTAAAAGACCTCTTTCCACTTAAGTGTTGCTACCCCTTTATATACGCTAGGTC
TCTCCCATGCTTTGCCAATATGGGATTTGCCTAGGGTGTTACATTGATAAATTT
Found at i:3860117 original size:22 final size:26
Alignment explanation
Indices: 3860092--3860143 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 26
3860082 CAAGAATGTC
3860092 TTATAT-TACGATT-A-TTGTTTT-T
1 TTATATCTACGATTGACTTGTTTTAT
*
3860114 TTAT-TCTATGATTGACTTGTTTTAT
1 TTATATCTACGATTGACTTGTTTTAT
3860139 TTATA
1 TTATA
3860144 CATTGATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 1 0.04
22 10 0.42
23 1 0.04
24 7 0.29
25 5 0.21
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.62
Consensus pattern (26 bp):
TTATATCTACGATTGACTTGTTTTAT
Found at i:3860900 original size:44 final size:44
Alignment explanation
Indices: 3860851--3860971 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 44
3860841 ATTAGGTAGT
* * *
3860851 ACAAAATTAGTTGAAAAC-TCTAGAAGAGATAATTATTTGATAGC
1 ACAAAATTAGTTGAAAACTTC-AAAAGAGATAATCATTCGATAGC
* *
3860895 ACAAAATTAGTTGAAAGCTTCAAAAGAGATAATCATTCGTTAGC
1 ACAAAATTAGTTGAAAACTTCAAAAGAGATAATCATTCGATAGC
* *
3860939 ACAAAATTAGTTG-AAATTTCTAAAAGAGGTAAT
1 ACAAAATTAGTTGAAAACTTC-AAAAGAGATAAT
3860972 ATATCAATAC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 5 0.07
44 60 0.90
45 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (44 bp):
ACAAAATTAGTTGAAAACTTCAAAAGAGATAATCATTCGATAGC
Found at i:3863447 original size:19 final size:19
Alignment explanation
Indices: 3863423--3863459 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3863413 TTAATGTGCG
*
3863423 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
3863442 AATATATATATATGTGTG
1 AATATATATATATGTGTG
3863460 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:3863735 original size:41 final size:41
Alignment explanation
Indices: 3863673--3863848 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
3863663 GTTTGGAATT
* *
3863673 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
3863714 GGTGATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
3863755 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
3863796 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
3863837 GGTGATCCGAAT
1 GGTGATCTGAAT
3863849 ATGATGAATT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:3863810 original size:82 final size:82
Alignment explanation
Indices: 3863673--3863842 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
3863663 GTTTGGAATT
3863673 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
3863738 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
*
3863755 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
3863820 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
3863837 GGTGAT
1 GGTGAT
3863843 CCGAATATGA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:3865543 original size:30 final size:30
Alignment explanation
Indices: 3865486--3865543 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3865476 AATTGTTTTT
* * *
3865486 TGATAATATTGCTTGTGGTGAATGAAATTA
1 TGATAATATTGCTTGTGATAAAAGAAATTA
*
3865516 TGATAATGTTGCTTGTGATAAAAGAAAT
1 TGATAATATTGCTTGTGATAAAAGAAAT
3865544 GAGAAACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.38
Consensus pattern (30 bp):
TGATAATATTGCTTGTGATAAAAGAAATTA
Found at i:3872478 original size:5 final size:5
Alignment explanation
Indices: 3872462--3872491 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
3872452 TATTTGTATT
3872462 CTTCC C-TCC CTTCC CTTCC CTTCC CTTCC C
1 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC C
3872492 GTGAACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (5 bp):
CTTCC
Found at i:3876486 original size:110 final size:110
Alignment explanation
Indices: 3876293--3876517 Score: 441
Period size: 110 Copynumber: 2.0 Consensus size: 110
3876283 TTGAATGAAA
3876293 ATAAAAACTTAGGATTGACGCCCTAAAAGGACATTTAAACAAGTGAGACCGAGAGGTAATCTTGT
1 ATAAAAACTTAGGATTGACGCCCTAAAAGGACATTTAAACAAGTGAGACCGAGAGGTAATCTTGT
3876358 TGAGTATCAATTCATTAGTCCTGGGTTAGTCGGTGAGATCAAGAG
66 TGAGTATCAATTCATTAGTCCTGGGTTAGTCGGTGAGATCAAGAG
*
3876403 ATAAAAACTTAGGATTGACGCCTTAAAAGGACATTTAAACAAGTGAGACCGAGAGGTAATCTTGT
1 ATAAAAACTTAGGATTGACGCCCTAAAAGGACATTTAAACAAGTGAGACCGAGAGGTAATCTTGT
3876468 TGAGTATCAATTCATTAGTCCTGGGTTAGTCGGTGAGATCAAGAG
66 TGAGTATCAATTCATTAGTCCTGGGTTAGTCGGTGAGATCAAGAG
3876513 ATAAA
1 ATAAA
3876518 CCGAATCAAT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 114 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (110 bp):
ATAAAAACTTAGGATTGACGCCCTAAAAGGACATTTAAACAAGTGAGACCGAGAGGTAATCTTGT
TGAGTATCAATTCATTAGTCCTGGGTTAGTCGGTGAGATCAAGAG
Found at i:3887237 original size:13 final size:13
Alignment explanation
Indices: 3887198--3887250 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
3887188 AGTTTGGCAA
*
3887198 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
3887211 TGC-TATGAAAAAG
1 TGCTTTTG-AAAAG
*
3887224 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
3887237 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
3887250 T
1 T
3887251 TTGGTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 3 0.09
13 27 0.82
14 3 0.09
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:3888344 original size:31 final size:30
Alignment explanation
Indices: 3888309--3888380 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 30
3888299 AAATTTTTAA
* *
3888309 TTTAGTCATTAATGTTTTAGATTATTTCTAT
1 TTTAGTCATT-ACGCTTTAGATTATTTCTAT
* *
3888340 TTTAGTAACTTACGCTTTAGATTGTTTCTAT
1 TTTAGTCA-TTACGCTTTAGATTATTTCTAT
3888371 TTTAGTCATT
1 TTTAGTCATT
3888381 CTTCATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 2 0.06
31 31 0.89
32 2 0.06
ACGTcount: A:0.24, C:0.10, G:0.11, T:0.56
Consensus pattern (30 bp):
TTTAGTCATTACGCTTTAGATTATTTCTAT
Found at i:3892619 original size:23 final size:23
Alignment explanation
Indices: 3892593--3892636 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
3892583 TGGAAACTTA
3892593 ATTTGGTATAATAGTTTCATCTC
1 ATTTGGTATAATAGTTTCATCTC
3892616 ATTTGGTATAATAGTTTCATC
1 ATTTGGTATAATAGTTTCATC
3892637 AGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (23 bp):
ATTTGGTATAATAGTTTCATCTC
Found at i:3900121 original size:27 final size:24
Alignment explanation
Indices: 3900062--3900125 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
3900052 CTGTTGCTGA
3900062 TGCAGCTGCTGCTGTTCCTCATAT
1 TGCAGCTGCTGCTGTTCCTCATAT
3900086 TGCAGCTGCTGCTGTTCCTCATAT
1 TGCAGCTGCTGCTGTTCCTCATAT
* *
3900110 TTCAGCTCCTGCTGTT
1 TGCAGCTGCTGCTGTT
3900126 GTTGATCACC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.11, C:0.30, G:0.20, T:0.39
Consensus pattern (24 bp):
TGCAGCTGCTGCTGTTCCTCATAT
Found at i:3902736 original size:20 final size:22
Alignment explanation
Indices: 3902706--3902752 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
3902696 CAAAAGTTAC
3902706 AAAATAATTCAAA-ATAATTTT
1 AAAATAATTCAAACATAATTTT
*
3902727 AAAA-AATTCAAACCTAATTTT
1 AAAATAATTCAAACATAATTTT
3902748 AAAAT
1 AAAAT
3902753 TTAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATAATTCAAACATAATTTT
Found at i:3902780 original size:17 final size:17
Alignment explanation
Indices: 3902742--3902783 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
3902732 ATTCAAACCT
*
3902742 AATTT-TAAAATTTAAA
1 AATTTATAAAATTCAAA
*
3902758 ATATTTATAAAATTCCAA
1 A-ATTTATAAAATTCAAA
3902776 AATTTATA
1 AATTTATA
3902784 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 11 0.50
18 10 0.45
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTTATAAAATTCAAA
Found at i:3902812 original size:18 final size:18
Alignment explanation
Indices: 3902742--3902822 Score: 58
Period size: 18 Copynumber: 4.5 Consensus size: 18
3902732 ATTCAAACCT
*
3902742 AATTTTAAAATTT-AAAA
1 AATTATAAAATTTCAAAA
* *
3902759 TATTTATAAAA-TTCCAAA
1 -AATTATAAAATTTCAAAA
* *** *
3902777 ATTTATATTTTTTTAAAA
1 AATTATAAAATTTCAAAA
3902795 AATTATAAAATTTCAAAA
1 AATTATAAAATTTCAAAA
3902813 AATATATAAA
1 AAT-TATAAA
3902823 GAAAGTTAAA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
17 9 0.19
18 32 0.68
19 6 0.13
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTATAAAATTTCAAAA
Found at i:3902819 original size:35 final size:36
Alignment explanation
Indices: 3902752--3902819 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
3902742 AATTTTAAAA
* **
3902752 TTTAAAATATTTATAAAATTCCAAAATTTATATTTT
1 TTTAAAATAATTATAAAATTCCAAAAAATATATTTT
*
3902788 TTTAAAA-AATTATAAAATTTCAAAAAATATAT
1 TTTAAAATAATTATAAAATTCCAAAAAATATAT
3902820 AAAGAAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 21 0.75
36 7 0.25
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (36 bp):
TTTAAAATAATTATAAAATTCCAAAAAATATATTTT
Found at i:3906022 original size:19 final size:18
Alignment explanation
Indices: 3905994--3906033 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
3905984 ACGAAATTTT
3905994 AATTAGTATTATGAGATAA
1 AATTAGTATTATGAGA-AA
* *
3906013 AATTATTATTATTAGAAA
1 AATTAGTATTATGAGAAA
3906031 AAT
1 AAT
3906034 AATACTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
AATTAGTATTATGAGAAA
Found at i:3908494 original size:60 final size:59
Alignment explanation
Indices: 3908418--3908554 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
3908408 AATTGTGTTA
* * *
3908418 ATATGGCCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
3908478 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAAGGGCTATGGCCTAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
3908538 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
3908555 GTTAACACTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.76
61 15 0.22
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:3910761 original size:19 final size:19
Alignment explanation
Indices: 3910737--3910844 Score: 116
Period size: 19 Copynumber: 5.6 Consensus size: 19
3910727 CGTGTTTGCT
3910737 TTCCGTTTAGCCTTCGGGC
1 TTCCGTTTAGCCTTCGGGC
3910756 TTCCGTTTAGCACTT-GTGTGC
1 TTCCGTTTAGC-CTTCG-G-GC
*
3910777 TTCAG-TTAGCCTTCGGGC
1 TTCCGTTTAGCCTTCGGGC
3910795 TTCCGTTTAGCACTT-GTGTGC
1 TTCCGTTTAGC-CTTCG-G-GC
*
3910816 TTCAG-TTAGCCTTCGGGC
1 TTCCGTTTAGCCTTCGGGC
3910834 TTCCGTTTAGC
1 TTCCGTTTAGC
3910845 ACTTATGTGC
Statistics
Matches: 75, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
18 12 0.16
19 31 0.41
20 20 0.27
21 12 0.16
ACGTcount: A:0.09, C:0.27, G:0.25, T:0.39
Consensus pattern (19 bp):
TTCCGTTTAGCCTTCGGGC
Found at i:3910789 original size:39 final size:39
Alignment explanation
Indices: 3910743--3910875 Score: 230
Period size: 39 Copynumber: 3.4 Consensus size: 39
3910733 TGCTTTCCGT
3910743 TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG
1 TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG
3910782 TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG
1 TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG
*
3910821 TTAGCCTTCGGGCTTCCGTTTAGCACTTATGTGCTTCAG
1 TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG
* * *
3910860 CTAGACTTCAGGCTTC
1 TTAGCCTTCGGGCTTC
3910876 AGATCACGAT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
TTAGCCTTCGGGCTTCCGTTTAGCACTTGTGTGCTTCAG
Found at i:3911587 original size:21 final size:21
Alignment explanation
Indices: 3911561--3911609 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
3911551 GAGTTTTTTT
*
3911561 AAAATAATA-ATAAAAATAAA
1 AAAATAATACAAAAAAATAAA
3911581 ATAAATAA-ACAAAAAAATAAA
1 A-AAATAATACAAAAAAATAAA
3911602 AAAATAAT
1 AAAATAAT
3911610 TATATTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAATAATACAAAAAAATAAA
Found at i:3911594 original size:18 final size:17
Alignment explanation
Indices: 3911560--3911608 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 17
3911550 TGAGTTTTTT
3911560 TAAAATAATAATAAAAA
1 TAAAATAATAATAAAAA
*
3911577 TAAAAT-A-AATAAACA
1 TAAAATAATAATAAAAA
3911592 -AAAA-AATAA-AAAAA
1 TAAAATAATAATAAAAA
3911606 TAA
1 TAA
3911609 TTATATTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 9 0.33
15 11 0.41
16 1 0.04
17 6 0.22
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAATAATAATAAAAA
Found at i:3919576 original size:50 final size:50
Alignment explanation
Indices: 3919491--3919656 Score: 219
Period size: 50 Copynumber: 3.3 Consensus size: 50
3919481 GCTAAATGAC
* *
3919491 CTTGTATATTCGGCCATA-AAGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCATATAA-GTAAGCACATATGTGATATTATATTTG-AT
* *
3919542 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCATATAAGTAAGCACATATGTGATATTATATTTGAT
* * * *
3919591 CTTGCATATTCGACCATATAGGTAAGCACATATGTGATATTGTATTTGAT
1 CTTGTATATTCGGCCATATAAGTAAGCACATATGTGATATTATATTTGAT
*
3919641 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
3919657 AATGAGTGGT
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
49 2 0.02
50 96 0.96
51 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAAGTAAGCACATATGTGATATTATATTTGAT
Found at i:3919810 original size:26 final size:26
Alignment explanation
Indices: 3919780--3919831 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
3919770 TTATTGAAAT
3919780 GTTTATTTGCTTATGACTTACTAAGC
1 GTTTATTTGCTTATGACTTACTAAGC
3919806 GTTTATTTGCTTATGACTTACTAAGC
1 GTTTATTTGCTTATGACTTACTAAGC
3919832 TAAGTTAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (26 bp):
GTTTATTTGCTTATGACTTACTAAGC
Found at i:3920249 original size:21 final size:21
Alignment explanation
Indices: 3920225--3920267 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3920215 AATGGTAGTG
*
3920225 TAAATATGTTTGTATGTTTGC
1 TAAATATGTTTGTATCTTTGC
3920246 TAAATATGTTTGTATCTTTGC
1 TAAATATGTTTGTATCTTTGC
3920267 T
1 T
3920268 TGTAGATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.53
Consensus pattern (21 bp):
TAAATATGTTTGTATCTTTGC
Found at i:3924339 original size:16 final size:16
Alignment explanation
Indices: 3924315--3924345 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3924305 TAAAAAAATA
3924315 AATACATCAATCTATC
1 AATACATCAATCTATC
*
3924331 AATATATCAATCTAT
1 AATACATCAATCTAT
3924346 ACAAGTCTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (16 bp):
AATACATCAATCTATC
Found at i:3928957 original size:18 final size:18
Alignment explanation
Indices: 3928931--3928973 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
3928921 AAAAGTTATT
*
3928931 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
3928949 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
3928967 TTTATAT
1 TTTATAT
3928974 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:3928978 original size:16 final size:16
Alignment explanation
Indices: 3928936--3928979 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
3928926 TTATTTTTAC
*
3928936 ATATATTAATAAATTT
1 ATATTTTAATAAATTT
3928952 ATATATATTAATAAATTT
1 ATAT-T-TTAATAAATTT
3928970 ATATTTTAAT
1 ATATTTTAAT
3928980 TTTTTTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 9 0.36
17 1 0.04
18 15 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTTTAATAAATTT
Found at i:3950404 original size:32 final size:33
Alignment explanation
Indices: 3950367--3950428 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
3950357 TTTTTATTAC
* * *
3950367 CCAAAATATTGATTAATT-AATTAATTTAATGT
1 CCAAAAAATTAATTAATTAAATTAAATTAATGT
3950399 CCAAAAAATTAATTAATTAAATTAAATTAA
1 CCAAAAAATTAATTAATTAAATTAAATTAA
3950429 CTAAATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 16 0.62
33 10 0.38
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (33 bp):
CCAAAAAATTAATTAATTAAATTAAATTAATGT
Found at i:3950428 original size:14 final size:14
Alignment explanation
Indices: 3950404--3950436 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3950394 AATGTCCAAA
*
3950404 AAATT-AATTAATT
1 AAATTAAATTAACT
3950417 AAATTAAATTAACT
1 AAATTAAATTAACT
3950431 AAATTA
1 AAATTA
3950437 TTTTCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTAAATTAACT
Found at i:3951508 original size:20 final size:20
Alignment explanation
Indices: 3951483--3951529 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
3951473 TACAAAAGCA
3951483 AAAATAAAAAATA-AAAAAT
1 AAAATAAAAAATAGAAAAAT
3951502 AAGAAT-AAAAATAGTAAAAAT
1 AA-AATAAAAAATAG-AAAAAT
3951523 AAAATAA
1 AAAATAA
3951530 GGTCCAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 9 0.38
20 6 0.25
21 9 0.38
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (20 bp):
AAAATAAAAAATAGAAAAAT
Found at i:3951525 original size:15 final size:13
Alignment explanation
Indices: 3951482--3951526 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
3951472 ATACAAAAGC
3951482 AAAAATAAAAAATA
1 AAAAAT-AAAAATA
*
3951496 AAAAATAAGAATA
1 AAAAATAAAAATA
3951509 AAAATAGTAAAAATA
1 AAAA-A-TAAAAATA
3951524 AAA
1 AAA
3951527 TAAGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 10 0.37
14 7 0.26
15 10 0.37
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:3955841 original size:12 final size:12
Alignment explanation
Indices: 3955824--3955850 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3955814 ACAATAATTA
3955824 TTGGGTATTGTT
1 TTGGGTATTGTT
3955836 TTGGGTATTGTT
1 TTGGGTATTGTT
3955848 TTG
1 TTG
3955851 CATAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.33, T:0.59
Consensus pattern (12 bp):
TTGGGTATTGTT
Found at i:3956093 original size:32 final size:32
Alignment explanation
Indices: 3956052--3956116 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
3956042 CAAGATGACG
3956052 AGATAGATGTAAAAGCCAAGGGCAAATATAAA
1 AGATAGATGTAAAAGCCAAGGGCAAATATAAA
* *
3956084 AGATAGATGTAAAGGCTAAGGGCAAATATAAA
1 AGATAGATGTAAAAGCCAAGGGCAAATATAAA
3956116 A
1 A
3956117 CAAATTGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.08, G:0.23, T:0.17
Consensus pattern (32 bp):
AGATAGATGTAAAAGCCAAGGGCAAATATAAA
Found at i:3960243 original size:17 final size:17
Alignment explanation
Indices: 3960223--3960255 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3960213 ATTAAGAATG
3960223 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
3960240 TTATTAAATTATATTT
1 TTATTAAATTATATTT
3960256 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:3960523 original size:46 final size:44
Alignment explanation
Indices: 3960430--3960523 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
3960420 ATTACAACAT
*
3960430 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTC
*
3960474 CATTCCATTCAACCAAACAGT-TGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-TAAGAA-TAC-TATTACAGCTCTATTC
3960520 CATT
1 CATT
3960524 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 22 0.49
45 4 0.09
46 19 0.42
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTC
Found at i:3960526 original size:16 final size:16
Alignment explanation
Indices: 3960505--3960560 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
3960495 TGAATTACTT
3960505 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
3960521 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
3960537 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
3960553 ATTACAGC
1 ATTACAGC
3960561 CAACCAAACG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:3961119 original size:14 final size:16
Alignment explanation
Indices: 3961090--3961121 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3961080 CTTTAAATTG
3961090 TTCTATTATGTAAAAT
1 TTCTATTATGTAAAAT
3961106 TTCTATT-T-TAAAAT
1 TTCTATTATGTAAAAT
3961120 TT
1 TT
3961122 TCTTTATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
TTCTATTATGTAAAAT
Found at i:3961163 original size:34 final size:30
Alignment explanation
Indices: 3961104--3961204 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 30
3961094 ATTATGTAAA
* *
3961104 ATTTCTATTTTAAAATTT-TCTTTATACATGT
1 ATTTTTATTTTAAAATTTAT-ATTATACAT-T
*
3961135 ATTTTTGTTTTCAAAATTTATACATTATACATT
1 ATTTTTATTTT-AAAATTTAT--ATTATACATT
* *
3961168 ATATATTATTTTAAAATTTATATTATGCATT
1 AT-TTTTATTTTAAAATTTATATTATACATT
3961199 ATTTTT
1 ATTTTT
3961205 TTTATATATA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
30 3 0.05
31 20 0.34
32 7 0.12
33 13 0.22
34 16 0.27
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (30 bp):
ATTTTTATTTTAAAATTTATATTATACATT
Found at i:3961187 original size:33 final size:33
Alignment explanation
Indices: 3961109--3961189 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 33
3961099 GTAAAATTTC
* *
3961109 TATTTTAAAATTT-T-CTTTATACATGTATTTT
1 TATTTTAAAATTTATACATTATACATGTATTAT
*
3961140 TGTTTTCAAAATTTATACATTATACAT-TATATAT
1 TATTTT-AAAATTTATACATTATACATGTAT-TAT
3961174 TATTTTAAAATTTATA
1 TATTTTAAAATTTATA
3961190 TTATGCATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
31 5 0.12
32 7 0.17
33 14 0.33
34 16 0.38
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (33 bp):
TATTTTAAAATTTATACATTATACATGTATTAT
Found at i:3965282 original size:46 final size:46
Alignment explanation
Indices: 3965222--3965495 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
3965212 TTTGACATGA
* * * * *
3965222 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
3965268 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
3965314 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
3965360 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
3965406 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
3965452 TGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
3965496 AGAGCACACT
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 207 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:3969643 original size:24 final size:25
Alignment explanation
Indices: 3969580--3969643 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
3969570 ATGAAATGTT
* *
3969580 ATAAAATTATGTATTTGACGTTTTC
1 ATAAAATTAAGTATTTGACGTTTAC
3969605 ATAAAAATTAA--ATTTGAC-TTTA-
1 AT-AAAATTAAGTATTTGACGTTTAC
3969627 ACTAAAATTAAGTATTT
1 A-TAAAATTAAGTATTT
3969644 AAATTTCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
22 9 0.27
23 4 0.12
24 11 0.33
25 2 0.06
26 7 0.21
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (25 bp):
ATAAAATTAAGTATTTGACGTTTAC
Found at i:3970404 original size:18 final size:20
Alignment explanation
Indices: 3970370--3970408 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
3970360 AATATAACAA
3970370 TAATTAAAATATTTTATAAT
1 TAATTAAAATATTTTATAAT
3970390 TAATT-AAAT-TTTTATAAT
1 TAATTAAAATATTTTATAAT
3970408 T
1 T
3970409 TTTAGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 4 0.21
20 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATTAAAATATTTTATAAT
Done.