Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 9 of 208
Found at i:3605330 original size:21 final size:21
Alignment explanation
Indices: 3605287--3605332 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3605277 ATACTTAATT
* *
3605287 TTAATTAATAATTTATATTTA
1 TTAATTAATAATTAAAATTTA
3605308 TTAATTAATAA-TAAAATTATA
1 TTAATTAATAATTAAAATT-TA
3605329 TTAA
1 TTAA
3605333 AATTTACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATTAATAATTAAAATTTA
Found at i:3607302 original size:18 final size:18
Alignment explanation
Indices: 3607264--3607302 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3607254 ATCATCCATT
*
3607264 TCAATATATCATTATATA
1 TCAATATATCATTATACA
3607282 TCAATATATCA-TATACCA
1 TCAATATATCATTATA-CA
3607300 TCA
1 TCA
3607303 TTTTCATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAATATATCATTATACA
Found at i:3614038 original size:24 final size:24
Alignment explanation
Indices: 3614011--3614062 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
3614001 TTACTAAGTC
*
3614011 AAATAAATTA-AGCTAATAATTATT
1 AAATAAATTATA-CTAATAAATATT
* *
3614035 AAATATATTATATTAATAAATATT
1 AAATAAATTATACTAATAAATATT
3614059 AAAT
1 AAAT
3614063 CTTTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATATT
Found at i:3621988 original size:20 final size:20
Alignment explanation
Indices: 3621965--3622010 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
3621955 TGTTAATATT
3621965 TTGTTA-TTAATTCAAATAGG
1 TTGTTACTTAATT-AAATAGG
**
3621985 TTGTTACTTGGTTAAATAGG
1 TTGTTACTTAATTAAATAGG
3622005 TTGTTA
1 TTGTTA
3622011 AGATTTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (20 bp):
TTGTTACTTAATTAAATAGG
Found at i:3623931 original size:21 final size:21
Alignment explanation
Indices: 3623907--3623950 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
3623897 TCCAGCTTCT
* * *
3623907 GGCGGGGGTTGTGGTTGCTCC
1 GGCGGGGATTCTGGTTCCTCC
3623928 GGCGGGGATTCTGGTTCCTCC
1 GGCGGGGATTCTGGTTCCTCC
3623949 GG
1 GG
3623951 TAATGTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.23, G:0.48, T:0.27
Consensus pattern (21 bp):
GGCGGGGATTCTGGTTCCTCC
Found at i:3626097 original size:11 final size:10
Alignment explanation
Indices: 3626082--3626134 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 10
3626072 AAATAGGGGT
3626082 TTGAGAGAAA
1 TTGAGAGAAA
3626092 TTTGAGAGGAAA
1 -TTGAGA-GAAA
*
3626104 TTAAGAGCAAA
1 TTGAGAG-AAA
3626115 TTGAGAGAAAA
1 TTGAGAG-AAA
3626126 TT-AGAGAAA
1 TTGAGAGAAA
3626135 GGATTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 3 0.08
10 5 0.14
11 25 0.68
12 4 0.11
ACGTcount: A:0.51, C:0.02, G:0.26, T:0.21
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:3626118 original size:22 final size:22
Alignment explanation
Indices: 3626085--3626134 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
3626075 TAGGGGTTTG
*
3626085 AGAGAAATTTGAGAGGAAATTA
1 AGAGAAATTTGAGAGAAAATTA
3626107 AGAGCAAA-TTGAGAGAAAATT-
1 AGAG-AAATTTGAGAGAAAATTA
3626128 AGAGAAA
1 AGAGAAA
3626135 GGATTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 4 0.15
22 16 0.62
23 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.26, T:0.18
Consensus pattern (22 bp):
AGAGAAATTTGAGAGAAAATTA
Found at i:3629381 original size:2 final size:2
Alignment explanation
Indices: 3629374--3629402 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3629364 GTTCTTGTTT
3629374 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3629403 GAGATCATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3632473 original size:23 final size:24
Alignment explanation
Indices: 3632428--3632473 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
3632418 TATAAAAAAT
* * *
3632428 AAATTATTTACTTAAATGTATTTG
1 AAATTATTTAATAAAATGAATTTG
3632452 AAATTATTTAATAAAAT-AATTT
1 AAATTATTTAATAAAATGAATTT
3632474 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTATTTAATAAAATGAATTTG
Found at i:3646436 original size:125 final size:124
Alignment explanation
Indices: 3646213--3646485 Score: 377
Period size: 125 Copynumber: 2.2 Consensus size: 124
3646203 TTCCTCTCAA
** * * * *
3646213 TTTCCAGGACCTGTTGTAGCAAAAGCGCGTCCATGAGAACGCGATTTCACAAATTCTTCTCAAAT
1 TTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGAACGCGATTTCACAAATTATTATCAAAC
* * * *
3646278 AGCATCCTGTTAAAAGTGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATT
66 AACATCCTGCTAAAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATT
* *
3646337 TCTTCCAGGACCTACTATAGCAAAAGCGCGTCCACGAG-GCTGCGATTTCACAAATTATTATCAA
1 T-TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGAAC-GCGATTTCACAAATTATTATCAA
* * *
3646401 ACAACATCTTGCTAGAAGCGATTTTATACTATTTGCTTAGAAACATCAACTCGAAATTATT
64 ACAACATCCTGCTAAAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATT
*
3646462 TTTTCAGGACCTACTGTAGCAAAA
1 TTTCCAGGACCTACTGTAGCAAAA
3646486 TTGCATAAAC
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
124 23 0.18
125 107 0.82
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (124 bp):
TTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGAACGCGATTTCACAAATTATTATCAAAC
AACATCCTGCTAAAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATT
Found at i:3647685 original size:8 final size:9
Alignment explanation
Indices: 3647647--3647830 Score: 52
Period size: 10 Copynumber: 19.0 Consensus size: 9
3647637 ATATGTGGCA
*
3647647 AAAAATGAT
1 AAAAATTAT
3647656 AAAAA--AT
1 AAAAATTAT
*
3647663 AAAAATCAAT
1 AAAAAT-TAT
3647673 AAAAATTAT
1 AAAAATTAT
3647682 AAAAATTATT
1 AAAAATTA-T
**
3647692 AAATTTTAAT
1 AAAAATT-AT
*
3647702 AAAATAATAT
1 AAAA-ATTAT
*
3647712 AAAAAATATTT
1 -AAAAAT-TAT
**
3647723 AAATTTTATT
1 AAAAATTA-T
*
3647733 AAAAATTAG
1 AAAAATTAT
3647742 AAAATATTTTAT
1 AAAA-A--TTAT
3647754 AAAAATCGTA-
1 AAAAAT--TAT
3647764 AAAAATTA-
1 AAAAATTAT
*
3647772 CAAAATATAT
1 AAAAAT-TAT
* *
3647782 AGAAATATAGA
1 AAAAAT-TA-T
3647793 AATAAATTAT
1 AA-AAATTAT
* *
3647803 AAAAAATGT
1 AAAAATTAT
3647812 AAAGAATTAT
1 AAA-AATTAT
*
3647822 AAAAGTTAT
1 AAAAATTAT
3647831 CATACAGGAA
Statistics
Matches: 130, Mismatches: 26, Indels: 38
0.67 0.13 0.20
Matches are distributed among these distances:
7 7 0.05
8 7 0.05
9 36 0.28
10 55 0.42
11 14 0.11
12 11 0.08
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:3647694 original size:19 final size:19
Alignment explanation
Indices: 3647661--3647830 Score: 60
Period size: 19 Copynumber: 8.6 Consensus size: 19
3647651 ATGATAAAAA
* *
3647661 ATAAAAATCAATAAAAATT
1 ATAAAAATTATTAAAAATT
**
3647680 ATAAAAATTATTAAATTTT
1 ATAAAAATTATTAAAAATT
* *
3647699 AATAAAATAATATAAAAAATAT
1 -ATAAAA-ATTATTAAAAAT-T
* **
3647721 TTAAATTTTATTAAAAATT
1 ATAAAAATTATTAAAAATT
* * *
3647740 AGAAAATATTTTATAAAAATC
1 ATAAAA-ATTAT-TAAAAATT
*
3647761 GTAAAAA--ATTACAAAATAT
1 ATAAAAATTATTA-AAAAT-T
* **
3647780 ATAGAAATATAGAAATAAATT
1 ATAAAAAT-TATTAA-AAATT
3647801 ATAAAAA--ATGTAAAGAATT
1 ATAAAAATTAT-TAAA-AATT
*
3647820 ATAAAAGTTAT
1 ATAAAAATTAT
3647831 CATACAGGAA
Statistics
Matches: 105, Mismatches: 31, Indels: 28
0.64 0.19 0.17
Matches are distributed among these distances:
17 2 0.02
18 8 0.08
19 36 0.34
20 19 0.18
21 33 0.31
22 7 0.07
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (19 bp):
ATAAAAATTATTAAAAATT
Found at i:3647715 original size:30 final size:30
Alignment explanation
Indices: 3647670--3647750 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
3647660 AATAAAAATC
* *
3647670 AATAAAAATTATAAAAATTA-TTAAATTTT
1 AATAAAAAATATAAAAAATATTTAAATTTT
3647699 AATAAAATAATATAAAAAATATTTAAATTTT
1 AATAAAA-AATATAAAAAATATTTAAATTTT
* *
3647730 -ATTAAAAAT-TAGAAAATATTT
1 AATAAAAAATATAAAAAATATTT
3647751 TATAAAAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 11 0.24
29 10 0.22
30 16 0.35
31 9 0.20
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (30 bp):
AATAAAAAATATAAAAAATATTTAAATTTT
Found at i:3647725 original size:31 final size:29
Alignment explanation
Indices: 3647646--3647749 Score: 92
Period size: 30 Copynumber: 3.7 Consensus size: 29
3647636 GATATGTGGC
* *
3647646 AAAAAATGATAAAAAATA--AAA-ATCAAT
1 AAAAAAT-ATAAAAAATATTAAATTTTAAT
* *
3647673 AAAAATTATAAAAATTATTAAATTTTAAT
1 AAAAAATATAAAAAATATTAAATTTTAAT
3647702 AAAATAATATAAAAAATATTTAAATTTT-AT
1 AAAA-AATATAAAAAATA-TTAAATTTTAAT
* *
3647732 TAAAAAT-TAGAAAATATT
1 AAAAAATATAAAAAATATT
3647750 TTATAAAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
26 9 0.14
27 8 0.12
28 11 0.17
29 11 0.17
30 16 0.25
31 9 0.14
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAAAATATAAAAAATATTAAATTTTAAT
Found at i:3648592 original size:3 final size:3
Alignment explanation
Indices: 3648584--3648620 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3648574 GAACCACCCT
3648584 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3648621 CAAGATTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3648691 original size:22 final size:23
Alignment explanation
Indices: 3648659--3648702 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3648649 TGAGGTTAAC
3648659 TTCTTTATTTTT-TTTATATTCT
1 TTCTTTATTTTTCTTTATATTCT
* *
3648681 TTCTTTGTTTTTCTTTTTATTC
1 TTCTTTATTTTTCTTTATATTC
3648703 CTGATCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.77
Consensus pattern (23 bp):
TTCTTTATTTTTCTTTATATTCT
Found at i:3657921 original size:14 final size:15
Alignment explanation
Indices: 3657902--3657930 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3657892 TACTTATTAA
3657902 TATAAAT-TTAACTT
1 TATAAATCTTAACTT
3657916 TATAAATCTTAACTT
1 TATAAATCTTAACTT
3657931 GTTTAGTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (15 bp):
TATAAATCTTAACTT
Found at i:3667504 original size:26 final size:26
Alignment explanation
Indices: 3667475--3667525 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
3667465 CTTAAGCAGT
3667475 TAAAGTAAGTATTCACCCAATTTAAG
1 TAAAGTAAGTATTCACCCAATTTAAG
3667501 TAAAGTAAGTATTCACCCAATTTAA
1 TAAAGTAAGTATTCACCCAATTTAA
3667526 ATAAGTATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (26 bp):
TAAAGTAAGTATTCACCCAATTTAAG
Found at i:3676638 original size:15 final size:16
Alignment explanation
Indices: 3676613--3676642 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3676603 GGCCCGTTCC
3676613 TATTATTTTAATTTAG
1 TATTATTTTAATTTAG
3676629 TATT-TTTTAATTTA
1 TATTATTTTAATTTA
3676643 TTAAACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TATTATTTTAATTTAG
Found at i:3684099 original size:33 final size:34
Alignment explanation
Indices: 3684056--3684124 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 34
3684046 TGGTAAGGCC
3684056 TCGTAATCACCCAATTAATCTTATTCATTTTTAT
1 TCGTAATCACCCAATTAATCTTATTCATTTTTAT
3684090 TCGT-ATCACCCAATTAATCTTATTCATTTTTAT
1 TCGTAATCACCCAATTAATCTTATTCATTTTTAT
3684123 TC
1 TC
3684125 ATGTCTGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 31 0.89
34 4 0.11
ACGTcount: A:0.28, C:0.22, G:0.03, T:0.48
Consensus pattern (34 bp):
TCGTAATCACCCAATTAATCTTATTCATTTTTAT
Found at i:3688348 original size:37 final size:37
Alignment explanation
Indices: 3688304--3688377 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
3688294 TTATATAAAA
3688304 ACTTTCAAATTATTTAATAATTATTTTGTAATTTTTT
1 ACTTTCAAATTATTTAATAATTATTTTGTAATTTTTT
3688341 ACTTTCAAATTATTTAATAATTATTTTGTAATTTTTT
1 ACTTTCAAATTATTTAATAATTATTTTGTAATTTTTT
3688378 TAAGTAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (37 bp):
ACTTTCAAATTATTTAATAATTATTTTGTAATTTTTT
Found at i:3695745 original size:24 final size:24
Alignment explanation
Indices: 3695718--3695782 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
3695708 TTATCTTTTG
*
3695718 TTAAAGTTTGTTGAGTCATATCCT
1 TTAAAGTTTGATGAGTCATATCCT
* * *
3695742 TTAAAGTTTGCTGAGTAATGTCCT
1 TTAAAGTTTGATGAGTCATATCCT
3695766 TT-AAGTTTGATGAGTCA
1 TTAAAGTTTGATGAGTCA
3695783 GGTAAAACCA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 13 0.36
24 23 0.64
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (24 bp):
TTAAAGTTTGATGAGTCATATCCT
Found at i:3697471 original size:33 final size:33
Alignment explanation
Indices: 3697434--3697507 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
3697424 TGGTCCAACC
** ** *
3697434 ATGGTCTTATGTTTAATGTGCCATAACCCAGTT
1 ATGGTCTTATCATTAAAATGCCATAACCCAGCT
* *
3697467 ATGGTCTTTTCATTAAAATGCCATAGCCCAGCT
1 ATGGTCTTATCATTAAAATGCCATAACCCAGCT
3697500 ATGGTCTT
1 ATGGTCTT
3697508 GAGTGACAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (33 bp):
ATGGTCTTATCATTAAAATGCCATAACCCAGCT
Found at i:3699396 original size:25 final size:24
Alignment explanation
Indices: 3699362--3699415 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
3699352 GTTTTGTGTT
*
3699362 AATATTTATATTAATATTAAAGAA
1 AATAATTATATTAATATTAAAGAA
*
3699386 ATATAATTATATTAATATTAAATAA
1 A-ATAATTATATTAATATTAAAGAA
3699411 AATAA
1 AATAA
3699416 AAACCGTCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
AATAATTATATTAATATTAAAGAA
Found at i:3699755 original size:15 final size:15
Alignment explanation
Indices: 3699735--3699842 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
3699725 TTTATGGAAA
3699735 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
3699750 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
3699764 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
3699780 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
3699794 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
3699810 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
3699824 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
3699840 ATC
1 ATC
3699843 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:3699764 original size:30 final size:30
Alignment explanation
Indices: 3699728--3699842 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
3699718 ATCCATATTT
*
3699728 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
3699758 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
3699788 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
3699818 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
3699843 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:3704448 original size:15 final size:15
Alignment explanation
Indices: 3704428--3704535 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
3704418 TTTATGGAAA
*
3704428 ATCAAAGATATGGGT
1 ATCAAATATATGGGT
**
3704443 ATCAAATA-ATGGAA
1 ATCAAATATATGGGT
*
3704457 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
3704473 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
3704487 AGTCAAATATATGGGT
1 A-TCAAATATATGGGT
**
3704503 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
3704517 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
3704533 ATC
1 ATC
3704536 GAGATATTGG
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
14 13 0.18
15 45 0.63
16 13 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:3704457 original size:30 final size:30
Alignment explanation
Indices: 3704421--3704535 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
3704411 ATCCATATTT
*
3704421 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
3704451 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
3704481 TTGGAAAGTCAAATATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
3704511 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
3704536 GAGATATTGG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:3705480 original size:44 final size:47
Alignment explanation
Indices: 3705403--3705491 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 47
3705393 TTTCTTGCAT
* *
3705403 TTTTATATTTTCTGAATATTTTTTATAAGTTTTAAATTATATACCGA
1 TTTTATATTTTCTGAATAATTTTTATAAATTTTAAATTATATACCGA
*
3705450 TTTTAT-TTTT-TGAA-AATTTTTATAAATTTTATATTATATACC
1 TTTTATATTTTCTGAATAATTTTTATAAATTTTAAATTATATACC
3705492 AATAAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 25 0.64
45 4 0.10
46 4 0.10
47 6 0.15
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (47 bp):
TTTTATATTTTCTGAATAATTTTTATAAATTTTAAATTATATACCGA
Found at i:3707523 original size:14 final size:15
Alignment explanation
Indices: 3707497--3707526 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3707487 TGTTAGTTTT
3707497 CTGGGGAAAAAAAAG
1 CTGGGGAAAAAAAAG
3707512 CTGGGGAAAAAAAAG
1 CTGGGGAAAAAAAAG
3707527 TAAAAGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.33, T:0.07
Consensus pattern (15 bp):
CTGGGGAAAAAAAAG
Found at i:3712033 original size:45 final size:44
Alignment explanation
Indices: 3711945--3712072 Score: 149
Period size: 45 Copynumber: 3.0 Consensus size: 44
3711935 GCTGACTACT
* * *
3711945 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGA-A----TACT
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTTGATACTGTTACC
* *
3711984 GTTACTGTTACCGACTCGGCACTTTGTGTGTTGAGTACTGTTACC
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTTGA-TACTGTTACC
*
3712029 GTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGTTAC
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTTG-ATACTGTTAC
3712073 TACTACCGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
39 31 0.41
41 1 0.01
45 42 0.56
46 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (44 bp):
GTTACTGTTACAGATTCGGCACTTTGTGTGTTGATACTGTTACC
Found at i:3712072 original size:39 final size:39
Alignment explanation
Indices: 3711914--3712073 Score: 160
Period size: 39 Copynumber: 4.0 Consensus size: 39
3711904 AATTGCCGGC
* * * * *
3711914 TTACTGATTAGGCAC-TTATGTGCTGACTACTGTTACTG
1 TTACAGATTCGGCACTTTGTGTGTTGAATACTGTTACTG
* *
3711952 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACAGATTCGGCACTTTGTGTGTTGAATACTGTTACTG
* * *
3711991 TTACCGACTCGGCACTTTGTGTGTTGAGTACTGTTACCGTTACTG
1 TTACAGATTCGGCACTTTGTGTGTTGA--A----TACTGTTACTG
*
3712036 TTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACT
1 TTACAGATTCGGCACTTTGTGTGTTGAATACTGTTACT
3712074 ACTACCGTTA
Statistics
Matches: 102, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
38 14 0.14
39 52 0.51
41 1 0.01
43 1 0.01
45 34 0.33
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (39 bp):
TTACAGATTCGGCACTTTGTGTGTTGAATACTGTTACTG
Found at i:3713306 original size:27 final size:27
Alignment explanation
Indices: 3713270--3713322 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
3713260 AACAGAATAG
* *
3713270 GCAAACGAAAACAGGGGAG-AAAGGAAA
1 GCAAAAGAAAA-AGGGAAGCAAAGGAAA
3713297 GCAAAAGAAAAAGGGAAGCAAAGGAA
1 GCAAAAGAAAAAGGGAAGCAAAGGAA
3713323 GAAAATTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.58, C:0.09, G:0.32, T:0.00
Consensus pattern (27 bp):
GCAAAAGAAAAAGGGAAGCAAAGGAAA
Found at i:3722428 original size:35 final size:35
Alignment explanation
Indices: 3722389--3722460 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
3722379 AAAGCTCTAG
3722389 TTTATTAATGGGGATTTGACAGTTTGCAAATTGGT
1 TTTATTAATGGGGATTTGACAGTTTGCAAATTGGT
3722424 TTTATTAATGGGGATTTGACAGTTTGCAAATTGGT
1 TTTATTAATGGGGATTTGACAGTTTGCAAATTGGT
3722459 TT
1 TT
3722461 GTATATCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (35 bp):
TTTATTAATGGGGATTTGACAGTTTGCAAATTGGT
Found at i:3723125 original size:9 final size:9
Alignment explanation
Indices: 3723113--3723168 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
3723103 TTTTAGGTAA
3723113 TTTAAAATT
1 TTTAAAATT
3723122 TTTAAAA-T
1 TTTAAAATT
3723130 TTTAAAATT
1 TTTAAAATT
* ** *
3723139 TAATGTAATCC
1 T-TTAAAAT-T
3723150 TTTAAAATT
1 TTTAAAATT
3723159 TTTAAAATT
1 TTTAAAATT
3723168 T
1 T
3723169 AAAATTTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
8 8 0.22
9 19 0.53
10 8 0.22
11 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (9 bp):
TTTAAAATT
Found at i:3723134 original size:8 final size:8
Alignment explanation
Indices: 3723113--3723179 Score: 50
Period size: 7 Copynumber: 7.9 Consensus size: 8
3723103 TTTTAGGTAA
3723113 TTTAAAATT
1 TTTAAAA-T
3723122 TTTAAAAT
1 TTTAAAAT
3723130 TTTAAAA-
1 TTTAAAAT
3723137 TTTAATGTAAT
1 TTTAA---AAT
3723148 CCTTTAAAATT
1 --TTTAAAA-T
3723159 TTTAAAA-
1 TTTAAAAT
3723166 TTTAAAA-
1 TTTAAAAT
3723173 TTTAAAA
1 TTTAAAA
3723180 CCACCAGAGG
Statistics
Matches: 51, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
7 19 0.37
8 8 0.16
9 14 0.27
10 4 0.08
11 1 0.02
13 5 0.10
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (8 bp):
TTTAAAAT
Found at i:3734897 original size:64 final size:65
Alignment explanation
Indices: 3734794--3734940 Score: 230
Period size: 64 Copynumber: 2.3 Consensus size: 65
3734784 TCCACGATGG
3734794 AACAGGAAAAAATGGA-TGACACCCATTCTTGATTACAATGTTC-TTTAAGGATAATTCGACAAA
1 AACAGGAAAAAAT-GATTGACACCCATTCTTGATTACAATGTTCTTTTAAGGATAATTCGACAAA
3734857 C
65 C
*
3734858 AACAGGAAAAAATGATTGACACCCATTCTTGATTGCAATGTTCTTTTAAGGATAATTCGACAAAC
1 AACAGGAAAAAATGATTGACACCCATTCTTGATTACAATGTTCTTTTAAGGATAATTCGACAAAC
*
3734923 -A-AGGAGAAAACTGATTGA
1 AACAGGA-AAAAATGATTGA
3734941 TTTGCACTAC
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
63 6 0.08
64 51 0.65
65 21 0.27
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (65 bp):
AACAGGAAAAAATGATTGACACCCATTCTTGATTACAATGTTCTTTTAAGGATAATTCGACAAAC
Found at i:3736578 original size:18 final size:17
Alignment explanation
Indices: 3736545--3736579 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3736535 TTCGATGCGA
3736545 TATTTTTTATTCATATT
1 TATTTTTTATTCATATT
*
3736562 TATTTTTTCATTTATATT
1 TATTTTTT-ATTCATATT
3736580 CAATAGTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTTATTCATATT
Found at i:3736786 original size:16 final size:16
Alignment explanation
Indices: 3736765--3736800 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3736755 TTTGGTTCGC
*
3736765 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAAG
*
3736781 TGTATTGGATTAGAAG
1 TGTATTAGATTAGAAG
3736797 TGTA
1 TGTA
3736801 ATAGCTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.39
Consensus pattern (16 bp):
TGTATTAGATTAGAAG
Found at i:3737052 original size:16 final size:16
Alignment explanation
Indices: 3737015--3737069 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
3737005 TTAATCAAAT
*
3737015 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
3737031 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
3737046 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
3737064 -TAAAAT
1 TTAAAAT
3737070 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:3737062 original size:18 final size:18
Alignment explanation
Indices: 3737021--3737069 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
3737011 AAATTTAAAC
3737021 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
3737039 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
3737055 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
3737070 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:3737134 original size:156 final size:156
Alignment explanation
Indices: 3736922--3737392 Score: 798
Period size: 156 Copynumber: 3.0 Consensus size: 156
3736912 TAGAATACCC
*
3736922 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
3736987 TTATCAGTAATAAATATTTTAATCAAATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
3737052 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
3737078 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
3737143 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
3737208 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
* *
3737234 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * * ****
3737299 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGG
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
3737364 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTT-ATAA
3737391 TT
1 TT
3737393 CATATTCTTA
Statistics
Matches: 298, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
156 292 0.98
157 6 0.02
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:3737212 original size:18 final size:17
Alignment explanation
Indices: 3737191--3737225 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3737181 TTATTATTAA
*
3737191 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3737209 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3737226 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3745325 original size:19 final size:19
Alignment explanation
Indices: 3745303--3745347 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
3745293 TGTTAAATTC
*
3745303 ATGAATTATATATTGTA-TG
1 ATGAAATATATATT-TATTG
3745322 ATGAAATATATATTTATTG
1 ATGAAATATATATTTATTG
3745341 ATGAAAT
1 ATGAAAT
3745348 GAGAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (19 bp):
ATGAAATATATATTTATTG
Found at i:3745520 original size:45 final size:46
Alignment explanation
Indices: 3745428--3745537 Score: 181
Period size: 46 Copynumber: 2.5 Consensus size: 46
3745418 TGATCAGTGA
*
3745428 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGAT
3745474 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGAT
*
3745519 C-AGGGAC-AAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
3745538 ATCATACGTA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
43 12 0.19
44 5 0.08
45 19 0.31
46 26 0.42
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGAT
Found at i:3748360 original size:26 final size:27
Alignment explanation
Indices: 3748331--3748381 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3748321 CCAATCATTC
3748331 GGGG-AATCAACACTTAGCAACCCCTT
1 GGGGAAATCAACACTTAGCAACCCCTT
*
3748357 GGGGAAATCAGCACTTAGCAACCCC
1 GGGGAAATCAACACTTAGCAACCCC
3748382 CTTCACATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (27 bp):
GGGGAAATCAACACTTAGCAACCCCTT
Found at i:3748378 original size:103 final size:102
Alignment explanation
Indices: 3748255--3748561 Score: 472
Period size: 103 Copynumber: 3.0 Consensus size: 102
3748245 TCAGTGATTC
* * *
3748255 GGGGAATCAGCACTTAGCAACCCTTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
3748320 ACCAATCATTCGGGGAATCAACACTTAGCAACCCCTT
66 ACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTT
*
3748357 GGGGAAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAAC
1 GGGG-AATCAGCACTTAGCAACCCCTTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAAC
* *
3748422 CACCAATGAATCGGGGAATCAGCAATTAGCAACCCCTT
65 CACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTT
* * *
3748460 GGGGAATCAGCACTTAGCAACCCCCTTT-ATATTTAAAGATACCGTGGAATTAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAA-CCCCTTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAAC
* *
3748524 CACCAATCAGTCGGGAAATCAGCACTTAGCAACCCCTT
65 CACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTT
3748562 CATATTCAAT
Statistics
Matches: 187, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
102 87 0.47
103 100 0.53
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTT
Found at i:3748463 original size:26 final size:26
Alignment explanation
Indices: 3748434--3748483 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
3748424 CCAATGAATC
3748434 GGGGAATCAGCAATTAGCAACCCCTT
1 GGGGAATCAGCAATTAGCAACCCCTT
*
3748460 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCAATTAGCAACCCC
3748484 CTTTATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (26 bp):
GGGGAATCAGCAATTAGCAACCCCTT
Found at i:3748527 original size:102 final size:102
Alignment explanation
Indices: 3748255--3748561 Score: 472
Period size: 102 Copynumber: 3.0 Consensus size: 102
3748245 TCAGTGATTC
* * *
3748255 GGGGAATCAGCACTTAGCAA-CCCTTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCCTTT-ACATTTAAAGATACGGTGGAATCAGCACTTAGCAAC
* *
3748319 CACCAATCATTCGGGGAATCAACACTTAGCAACCCCTT
65 CACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTT
*
3748357 GGGGAAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAAC
1 GGGG-AATCAGCACTTAGCAACCCCCTTTACATTTAAAGATACGGTGGAATCAGCACTTAGCAAC
* *
3748422 CACCAATGAATCGGGGAATCAGCAATTAGCAACCCCTT
65 CACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTT
* * *
3748460 GGGGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACCGTGGAATTAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
3748525 ACCAATCAGTCGGGAAATCAGCACTTAGCAACCCCTT
66 ACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTT
3748562 CATATTCAAT
Statistics
Matches: 187, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
102 94 0.50
103 88 0.47
104 5 0.03
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTT
Found at i:3749655 original size:11 final size:12
Alignment explanation
Indices: 3749627--3749660 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
3749617 GCCCAAACAT
3749627 CGAAATTTTTGAA
1 CGAAATTTTT-AA
3749640 CGAAATTTTT-A
1 CGAAATTTTTAA
3749651 CGAAATTTTT
1 CGAAATTTTT
3749661 CCGTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:3750305 original size:8 final size:8
Alignment explanation
Indices: 3750292--3750316 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3750282 ATTAAAATAT
3750292 ATATTAAA
1 ATATTAAA
3750300 ATATTAAA
1 ATATTAAA
3750308 ATATTAAA
1 ATATTAAA
3750316 A
1 A
3750317 GTTAAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATTAAA
Found at i:3751308 original size:41 final size:39
Alignment explanation
Indices: 3751263--3751396 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 39
3751253 ACCTCAAGTA
3751263 GATGAGACACTAGGTGTCAATCTATTACTTCGGATTAATTC
1 GATGAGACACTAGGTGTCAA-CTATTACTTCGGATT-ATTC
* * * * *
3751304 GATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAGTC
1 GATGAGACACTAGGTGTCAACTATTACTTCGGATTATTC
* * * *
3751341 GATGAGACGCTAAGTGTCAACTTATTACTTCGAATTATCC
1 GATGAGACACTAGGTGTCAAC-TATTACTTCGGATTATTC
* *
3751381 GATTAGACACTGGGTG
1 GATGAGACACTAGGTG
3751397 CCAAACTAGT
Statistics
Matches: 72, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 18 0.25
38 11 0.15
39 2 0.03
40 24 0.33
41 17 0.24
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (39 bp):
GATGAGACACTAGGTGTCAACTATTACTTCGGATTATTC
Found at i:3754926 original size:20 final size:20
Alignment explanation
Indices: 3754903--3754940 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3754893 TTTAATTAAT
*
3754903 TTAGCTTAATTAACTTAAAC
1 TTAGCTTAATTAAATTAAAC
*
3754923 TTAGTTTAATTAAATTAA
1 TTAGCTTAATTAAATTAA
3754941 GCTAACATTT
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:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (20 bp):
TTAGCTTAATTAAATTAAAC
Found at i:3755735 original size:15 final size:15
Alignment explanation
Indices: 3755715--3755744 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3755705 CATTACCTGT
3755715 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
3755730 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
3755745 GCGCGGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:3773277 original size:39 final size:40
Alignment explanation
Indices: 3773234--3773312 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
3773224 ATATTACAAT
* *
3773234 TAATA-ATTCTT-TTATTTATAAAATAGAAAAATTTGAAAA
1 TAATATATTCTTATTAATTA-AAAATAAAAAAATTTGAAAA
* *
3773273 TAATATATTTTTATTAATTAAAAATAAAAAAATTTTAAAA
1 TAATATATTCTTATTAATTAAAAATAAAAAAATTTGAAAA
3773313 CAACATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 5 0.15
40 23 0.68
41 6 0.18
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (40 bp):
TAATATATTCTTATTAATTAAAAATAAAAAAATTTGAAAA
Found at i:3799733 original size:11 final size:11
Alignment explanation
Indices: 3799719--3799798 Score: 76
Period size: 11 Copynumber: 7.4 Consensus size: 11
3799709 ATTTTTTTAA
3799719 TTTTAAAATAT
1 TTTTAAAATAT
***
3799730 TTTTTTTA-AT
1 TTTTAAAATAT
3799740 -TTTAAAATAT
1 TTTTAAAATAT
3799750 TTTTAAAATAT
1 TTTTAAAATAT
3799761 TTTTAAAATACT
1 TTTTAAAATA-T
*
3799773 TTTTTAAAT-T
1 TTTTAAAATAT
*
3799783 TTTAAAAATAAT
1 TTTTAAAAT-AT
3799795 TTTT
1 TTTT
3799799 TGGTATTTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
9 4 0.07
10 12 0.22
11 25 0.46
12 13 0.24
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:3799735 original size:20 final size:20
Alignment explanation
Indices: 3799710--3799799 Score: 90
Period size: 20 Copynumber: 4.2 Consensus size: 20
3799700 ATTTTTTTAA
3799710 TTTTTTTAATTTTAAAATAT
1 TTTTTTTAATTTTAAAATAT
3799730 TTTTTTTAATTTTAAAATAT
1 TTTTTTTAATTTTAAAATAT
** * *
3799750 TTTTAAAATATTTTTAAAATAC
1 TTTT--TTTAATTTTAAAATAT
*
3799772 TTTTTTAAATTTTTAAAAATAAT
1 TTTTTTTAA-TTTT-AAAAT-AT
3799795 TTTTT
1 TTTTT
3799800 GGTATTTTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 25 0.45
21 4 0.07
22 21 0.38
23 6 0.11
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTTAATTTTAAAATAT
Found at i:3799781 original size:12 final size:11
Alignment explanation
Indices: 3799739--3799798 Score: 77
Period size: 11 Copynumber: 5.4 Consensus size: 11
3799729 TTTTTTTTAA
3799739 TTTTAAAATAT
1 TTTTAAAATAT
3799750 TTTTAAAATAT
1 TTTTAAAATAT
3799761 TTTTAAAATACT
1 TTTTAAAATA-T
*
3799773 TTTTTAAAT-T
1 TTTTAAAATAT
*
3799783 TTTAAAAATAAT
1 TTTTAAAAT-AT
3799795 TTTT
1 TTTT
3799799 TGGTATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
10 8 0.19
11 21 0.50
12 13 0.31
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:3799799 original size:22 final size:20
Alignment explanation
Indices: 3799707--3799799 Score: 89
Period size: 22 Copynumber: 4.5 Consensus size: 20
3799697 TTTATTTTTT
*
3799707 TAATTTTTTTAATTTTAAAA
1 TAATTTTTTAAATTTTAAAA
* *
3799727 TATTTTTTTTAATTTTAAAA
1 TAATTTTTTAAATTTTAAAA
*
3799747 T-ATTTTTAAAATATTTTTAAAA
1 TAATTTTT-TAA-A-TTTTAAAA
*
3799769 TACTTTTTTAAATTTTTAAAAA
1 TAATTTTTTAAA-TTTT-AAAA
3799791 TAATTTTTT
1 TAATTTTTT
3799800 GGTATTTTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
19 5 0.08
20 21 0.34
21 7 0.11
22 23 0.38
23 5 0.08
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTTTTTAAATTTTAAAA
Found at i:3802138 original size:22 final size:23
Alignment explanation
Indices: 3802082--3802140 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
3802072 TTGAAGTCCC
3802082 GTAC-TAAATAATTATGAAATCT
1 GTACTTAAATAATTATGAAATCT
* *
3802104 GTATTTAAA-AATT-TTAAAGTCT
1 GTACTTAAATAATTATGAAA-TCT
3802126 GT-CTTAAATAATTAT
1 GTACTTAAATAATTAT
3802141 ACCAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
21 9 0.30
22 16 0.53
23 5 0.17
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (23 bp):
GTACTTAAATAATTATGAAATCT
Found at i:3813271 original size:21 final size:23
Alignment explanation
Indices: 3813229--3813271 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
3813219 TTATCATTGT
**
3813229 TATAAAAAATATTTAATTATAAC
1 TATAAAAAATATTTAAAAATAAC
3813252 TATAAAAAA-A-TTAAAAATAA
1 TATAAAAAATATTTAAAAATAA
3813272 TTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAAAAAATATTTAAAAATAAC
Found at i:3813536 original size:21 final size:21
Alignment explanation
Indices: 3813512--3813561 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
3813502 CATTGTTTCT
*
3813512 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
3813533 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
3813554 AATCTCAC
1 AATCTCAC
3813562 AGCCACCGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.22
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:3828671 original size:3 final size:3
Alignment explanation
Indices: 3828659--3828694 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
3828649 GCTAAAATGT
3828659 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3828695 AACCGATCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3837746 original size:15 final size:17
Alignment explanation
Indices: 3837716--3837748 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
3837706 AATGATTCGT
3837716 TAATCAACTCATCATCA
1 TAATCAACTCATCATCA
3837733 TAATCAA-T-ATCATCA
1 TAATCAACTCATCATCA
3837748 T
1 T
3837749 CCTCAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.33
Consensus pattern (17 bp):
TAATCAACTCATCATCA
Found at i:3838946 original size:14 final size:14
Alignment explanation
Indices: 3838923--3838957 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
3838913 ATATAAAGAT
*
3838923 AAATTATTTATATTA
1 AAATT-TTTATATGA
3838938 AAATTTTTATATGA
1 AAATTTTTATATGA
3838952 AAATTT
1 AAATTT
3838958 ATCTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
AAATTTTTATATGA
Found at i:3847804 original size:27 final size:27
Alignment explanation
Indices: 3847747--3847840 Score: 156
Period size: 27 Copynumber: 3.5 Consensus size: 27
3847737 AAAAATAAAA
*
3847747 ATTTACCAAAATATTAC-ATTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTT
3847773 ATTTACCAAAATATTACAACTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTT
3847800 ATTTACCAAAATATATA-AACTTTTTTT
1 ATTTACCAAAATAT-TACAACTTTTTTT
3847827 ATTTACCAAAATAT
1 ATTTACCAAAATAT
3847841 ATAAAAAAAA
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
26 17 0.26
27 46 0.71
28 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTACCAAAATATTACAACTTTTTTT
Found at i:3847965 original size:26 final size:26
Alignment explanation
Indices: 3847887--3847965 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
3847877 CCGGCCAATT
*
3847887 AAATTGGCGGCACCAAAGGTGCC-AAG
1 AAATTGGCGGCACC-ATGGTGCCAAAG
*
3847913 AAATTGGTGGCACCATTGGTGCCAAAG
1 AAATTGGCGGCACCA-TGGTGCCAAAG
**
3847940 TCATTGGCGGCACCATGGTGCCAAAG
1 AAATTGGCGGCACCATGGTGCCAAAG
3847966 GAAAAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.02
26 30 0.65
27 15 0.33
ACGTcount: A:0.29, C:0.23, G:0.30, T:0.18
Consensus pattern (26 bp):
AAATTGGCGGCACCATGGTGCCAAAG
Found at i:3848066 original size:19 final size:19
Alignment explanation
Indices: 3848039--3848108 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
3848029 TCAACTCATT
*
3848039 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
3848058 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
3848076 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
3848095 TTTTAATTTAATAA
1 TTTTAATTTAATAA
3848109 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:3848089 original size:37 final size:37
Alignment explanation
Indices: 3848044--3848114 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
3848034 TCATTTTTTT
3848044 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
3848081 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
3848115 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:3848346 original size:20 final size:20
Alignment explanation
Indices: 3848323--3848383 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
3848313 ATTCCCCTTC
3848323 AACTCATTTTTTTATTTAAT
1 AACTCATTTTTTTATTTAAT
* *
3848343 AACTC-TATTTTAATTTAAT
1 AACTCATTTTTTTATTTAAT
3848362 AAACT-A-TTTTTTATTTTAAT
1 -AACTCATTTTTTTA-TTTAAT
3848382 AA
1 AA
3848384 ACTATTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (20 bp):
AACTCATTTTTTTATTTAAT
Found at i:3848384 original size:20 final size:19
Alignment explanation
Indices: 3848330--3848390 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 19
3848320 TTCAACTCAT
*
3848330 TTTTTTATTTAAT-AACTC
1 TTTTTTATTTAATAAACTA
*
3848348 TATTTTAATTTAATAAACTA
1 T-TTTTTATTTAATAAACTA
3848368 TTTTTTATTTTAATAAACTA
1 TTTTTTA-TTTAATAAACTA
3848388 TTT
1 TTT
3848391 AATAACTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 1 0.03
19 16 0.43
20 20 0.54
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTTATTTAATAAACTA
Found at i:3848596 original size:27 final size:26
Alignment explanation
Indices: 3848519--3848604 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
3848509 ATTTTTTTCC
*
3848519 TTTGGCACCATGGTGCCGCCAA-TGA
1 TTTGGCACCATGGTGCCGCCAATTTA
*
3848544 CTTTGGCACCAATGGTGCCACCAATTTA
1 -TTTGGCACC-ATGGTGCCGCCAATTTA
*
3848572 TTTGGCACCTTTGGTGCCGCCAATTTA
1 TTTGGCACC-ATGGTGCCGCCAATTTA
*
3848599 ATTGGC
1 TTTGGC
3848605 TGGTGTCAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.17
27 41 0.79
28 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (26 bp):
TTTGGCACCATGGTGCCGCCAATTTA
Found at i:3848700 original size:28 final size:28
Alignment explanation
Indices: 3848640--3848738 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
3848630 TTGATTTTTT
3848640 TTAT-ATATTTTGATAAAT-AAAAAAA-
1 TTATAATATTTTGATAAATAAAAAAAAG
*
3848665 TTAT-ATATTTTGGTAAATAAAAAAAAG
1 TTATAATATTTTGATAAATAAAAAAAAG
* *
3848692 TTGTAATATTTTGGTAAATAAAAAAAAG
1 TTATAATATTTTGATAAATAAAAAAAAG
3848720 TTATAATATTTTGATAAAT
1 TTATAATATTTTGATAAAT
3848739 TCTTATTTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
25 17 0.25
26 7 0.10
27 3 0.04
28 40 0.60
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (28 bp):
TTATAATATTTTGATAAATAAAAAAAAG
Found at i:3850008 original size:6 final size:6
Alignment explanation
Indices: 3849997--3850037 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
3849987 AATTCACCCC
3849997 TGCACA TGCACA TGCACA TGCACA TGCACA TGCACA TGCAC
1 TGCACA TGCACA TGCACA TGCACA TGCACA TGCACA TGCAC
3850038 TGCTACCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.17
Consensus pattern (6 bp):
TGCACA
Found at i:3850329 original size:30 final size:30
Alignment explanation
Indices: 3850260--3850337 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 30
3850250 AAAGATAAGA
*
3850260 ATTTTTATTTT-AGACTATTTTTAAAAATT
1 ATTTTTATTTTAAGACTATTTTTAAAAATC
* * *
3850289 ATTTTCATTTTAAATACTATTTTTTAAAA-C
1 ATTTTTATTTT-AAGACTATTTTTAAAAATC
3850319 ATTTTTATTTT-AG-CTATTT
1 ATTTTTATTTTAAGACTATTT
3850338 ATTATTAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
27 6 0.15
28 1 0.02
29 10 0.24
30 10 0.24
31 14 0.34
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (30 bp):
ATTTTTATTTTAAGACTATTTTTAAAAATC
Found at i:3852928 original size:12 final size:12
Alignment explanation
Indices: 3852911--3852953 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
3852901 ACTAATCCTA
3852911 TCTCAAATTTCT
1 TCTCAAATTTCT
3852923 TCTC-AATTTCT
1 TCTCAAATTTCT
3852934 TCT-AAATTTGC-
1 TCTCAAATTT-CT
3852945 TCTCAAATT
1 TCTCAAATT
3852954 GCTCTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (12 bp):
TCTCAAATTTCT
Found at i:3853018 original size:51 final size:51
Alignment explanation
Indices: 3852947--3853044 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
3852937 AAATTTGCTC
*
3852947 TCAAATTGCTCTTAAATTCCT-TCAAAATTTCTCTAAAATCCATATTTATTT
1 TCAAATTGCTCTCAAATTCCTCT-AAAATTTCTCTAAAATCCATATTTATTT
* * * * *
3852998 TCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAAATTGCTCTCAAATTCCTCTAAAATTTCTCTAAAATCCATATTT
3853045 TTAAATCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (51 bp):
TCAAATTGCTCTCAAATTCCTCTAAAATTTCTCTAAAATCCATATTTATTT
Found at i:3853072 original size:17 final size:17
Alignment explanation
Indices: 3853040--3853074 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3853030 CTTAAATCCC
**
3853040 TATTTTTAAATCATTTT
1 TATTTTTAAAAAATTTT
3853057 TATTTTTAAAAAATTTT
1 TATTTTTAAAAAATTTT
3853074 T
1 T
3853075 TCAACCGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTAAAAAATTTT
Found at i:3854190 original size:7 final size:7
Alignment explanation
Indices: 3854178--3854224 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
3854168 TAGTCGATTG
3854178 GTATTTA
1 GTATTTA
3854185 GTATTTA
1 GTATTTA
3854192 GTATTTA
1 GTATTTA
3854199 GTATTTA
1 GTATTTA
3854206 GTATTTA
1 GTATTTA
3854213 GTATTTA
1 GTATTTA
3854220 GTATT
1 GTATT
3854225 ATGTATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:3854840 original size:27 final size:27
Alignment explanation
Indices: 3854800--3854859 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
3854790 CAGTTCAACC
* **
3854800 GATGATACCTACGCAACCGCCTTTTTA
1 GATGATACCCACGCAACCGCCTTTCCA
3854827 GATGATACCCACGCAACCGCCTTTCCA
1 GATGATACCCACGCAACCGCCTTTCCA
3854854 GATGAT
1 GATGAT
3854860 GCCGATGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.25
Consensus pattern (27 bp):
GATGATACCCACGCAACCGCCTTTCCA
Found at i:3857018 original size:23 final size:23
Alignment explanation
Indices: 3856992--3857067 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
3856982 AGTGTTATTG
3856992 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
3857015 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
3857038 TTCAGTGGTAGTTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
3857061 ATCAGTG
1 ATCAGTG
3857068 TGACACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:3859671 original size:124 final size:125
Alignment explanation
Indices: 3859509--3859801 Score: 369
Period size: 126 Copynumber: 2.3 Consensus size: 125
3859499 CCAAACATGT
3859509 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATA-AAGCAT-TCTG
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCA-AGAAGCATGT-TG
* * *
3859572 CTAGAAGC-AATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGG-AC
64 CTAGAAGCGAATTTTATACTATTTGCTCAGAAACGTAAACTCAAAATTATTTTTCCAGGAAC
* * * *
3859632 TAACTGTAGCAAAAGTGCGTCCACGAGGGCTCGATTTCACAAATTCTTCTCAAGCAGCATGTTGC
1 T-ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAAGAAGCATGTTGC
* * ** *
3859697 TTGCAGCGTTGTTTTATACTATTTGCTCAGAAATGTAAACTCAAAATTATTTTTCCAGGAAC
65 TAGAAGCG-AATTTTATACTATTTGCTCAGAAACGTAAACTCAAAATTATTTTTCCAGGAAC
* * * * *
3859759 TATTGTAGTAAAAGCGCGTACACGTGGGCGCGACTTCAAAAAT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAAT
3859802 CCATTTGATA
Statistics
Matches: 144, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
123 2 0.01
124 60 0.42
125 1 0.01
126 78 0.54
127 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (125 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAAGAAGCATGTTGCT
AGAAGCGAATTTTATACTATTTGCTCAGAAACGTAAACTCAAAATTATTTTTCCAGGAAC
Found at i:3860696 original size:31 final size:30
Alignment explanation
Indices: 3860626--3860711 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
3860616 GGACTAATAT
* *
3860626 TTTATGTATCATTATAATAAATTATTTAAA
1 TTTATTTATCATTATATTAAATTATTTAAA
* * *
3860656 TATAGTTTATCATAATATTAAATTATTTAAT
1 TTTA-TTTATCATTATATTAAATTATTTAAA
*
3860687 TCTTATTTATTATTATATTTAAATT
1 T-TTATTTATCATTATA-TTAAATT
3860712 TGTAAAAAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 3 0.07
31 33 0.73
32 9 0.20
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTATTTATCATTATATTAAATTATTTAAA
Found at i:3868685 original size:30 final size:28
Alignment explanation
Indices: 3868649--3868710 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
3868639 GAATAAATTA
3868649 ATTTAATTTGATTAATTGATCCATTAACTG
1 ATTTAATTTGATTAA-TGATCCATTAA-TG
* * *
3868679 ATTTAATTTGGTTAATGGTCGATTAATG
1 ATTTAATTTGATTAATGATCCATTAATG
3868707 ATTT
1 ATTT
3868711 TTTAAAGTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 6 0.21
29 9 0.31
30 14 0.48
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (28 bp):
ATTTAATTTGATTAATGATCCATTAATG
Found at i:3884687 original size:20 final size:21
Alignment explanation
Indices: 3884664--3884702 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3884654 CTAAAATGGT
3884664 ACAAAAATT-AAAAAAAAAAC
1 ACAAAAATTGAAAAAAAAAAC
*
3884684 ACAACAATTGAAAAAAAAA
1 ACAAAAATTGAAAAAAAAA
3884703 GATGAAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (21 bp):
ACAAAAATTGAAAAAAAAAAC
Found at i:3884814 original size:20 final size:21
Alignment explanation
Indices: 3884788--3884834 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
3884778 AGATTCGGCT
3884788 GAAGGAGAAGAAAGAA-AAGGA
1 GAAGGAGAAG-AAGAAGAAGGA
3884809 -AAGGAGAAGAAGAAGAAGGA
1 GAAGGAGAAGAAGAAGAAGGA
3884829 GAAGGA
1 GAAGGA
3884835 TAAGGAGGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.21
20 14 0.58
21 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (21 bp):
GAAGGAGAAGAAGAAGAAGGA
Found at i:3884824 original size:26 final size:27
Alignment explanation
Indices: 3884788--3884841 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
3884778 AGATTCGGCT
*
3884788 GAAGGAGAAGAAAGAAAAGGA-AAGGA
1 GAAGAAGAAGAAAGAAAAGGATAAGGA
* *
3884814 GAAGAAGAAGAAGGAGAAGGATAAGGA
1 GAAGAAGAAGAAAGAAAAGGATAAGGA
3884841 G
1 G
3884842 GCGCAGGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.02
Consensus pattern (27 bp):
GAAGAAGAAGAAAGAAAAGGATAAGGA
Found at i:3885176 original size:16 final size:17
Alignment explanation
Indices: 3885146--3885177 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3885136 GTTTATGAAA
3885146 AAATAAAATACGAAAAG
1 AAATAAAATACGAAAAG
3885163 AAATAAAA-ACGAAAA
1 AAATAAAATACGAAAA
3885178 TAGTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.75, C:0.06, G:0.09, T:0.09
Consensus pattern (17 bp):
AAATAAAATACGAAAAG
Found at i:3885391 original size:159 final size:159
Alignment explanation
Indices: 3885164--3887016 Score: 2630
Period size: 159 Copynumber: 11.6 Consensus size: 159
3885154 TACGAAAAGA
*
3885164 AATAAAA-ACGAAAATAGTATATTTTTTGAAAGTAATAAAAT-TCGGG-AAAAATAAAAATACGA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCT-GGGAAAAAAGAAAAATACGA
* *
3885226 ACAAATGACCAAAATAAGGAG-TTTTGACTAAATTTATATAAAAAACACACTAAATTAATACATT
65 ACAAATGGCCAAAATAAGG-GTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATT
3885290 TCAAACATTATGTACTAAAATAATATAAAAT
129 TCAAACATTATGTACTAAAATAATATAAAAT
* *
3885321 AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGGGGAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
*
3885386 AAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
66 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
*
3885451 AAATATTATGTACTAAAATAATATAAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
*
3885480 AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* * * *
3885545 AAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAGCACACTAAATTAATGCATTTC
66 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
* * *
3885610 AAACGTTATCTAATAAAATAATATAAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
* * *** * *
3885639 AATAAAATACGAAAATAGTATATTTTTCGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGG
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTA--ATAAAATCTG---GGAA-AAAA-----G
*
3885704 AAAAAATTACGAATAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAA
55 -AAAAA-TACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAA
3885769 ATTAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
118 ATTAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
* * *
3885811 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAGAAAAAAGAAAAATATGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* * * *
3885876 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAACATATTAAAATAATACATTTC
66 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
* *
3885941 AAATATAATGTACTAAAATAATATAAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
* * * *
3885970 AATAAAATTCAAAAATAATATATTTTTTGAAAGTAATAAAAT-TCGGGAAAAAAGAAAAATATGA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCT-GGGAAAAAAGAAAAATACGA
*
3886034 ACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATT
65 ACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACATT
3886099 TCAAACGA-TATGTACTAAAATAATATAAAAT
129 TCAAAC-ATTATGTACTAAAATAATATAAAAT
*
3886130 AATAAAATACAAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGG----AA-AAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* * *
3886190 CAAAGGGCCAAAAT-AGGGATTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTT
66 CAAATGGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTT
*
3886254 CAAACATAATGTACTAAAATAATATAAAAT
130 CAAACATTATGTACTAAAATAATATAAAAT
* *
3886284 AATAAAATACGAAAATAGTATATTTTTTGAAATTAATAAAATCTGGAAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* * * * *
3886349 CAAAGGGCTAAAATAAGGATTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTC
66 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
* *
3886414 AAACATAATGTACTAAAATAATATTAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
**
3886443 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCAGGAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* * * * *
3886508 CAAAGGGCCAAAATAAGAGTTTTTTAAT-AATTTATTTAAAAAACACACTAAAATAATACATTTC
66 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
* *
3886572 AAATATAATGTACTAAAATAATATAAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
** * * ** * *
3886601 AATAAAATTTGAAAATAGTATTTTTTTTTAAAGTAATAAAATCCAGTAAAAAATAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* *
3886666 C-AATGGCCAAAAATATAAGAGTTCTTTACTAAATTTATATAAAAAAACACACTAAATTAATACA
66 CAAATGGCC--AAA-ATAAGGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACA
* *
3886730 TTTCAAACATAATGTACTAAAATTATATAAAAT
127 TTTCAAACATTATGTACTAAAATAATATAAAAT
* * *
3886763 AATAAAATACGAAAATAGTATATTTTTTTAAAGTAATAAAATC--CG--AAAA-AAAAATATGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
3886823 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
66 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
* *
3886888 AAATATTCTGTACTAAAATAATATAAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
3886917 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAAT-TCGGGAAAAAAGAAAAATACGA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCT-GGGAAAAAAGAAAAATACGA
**
3886981 ACAAATGGCCAAAATAATGATTTTTTTACTAAATTT
65 ACAAATGGCCAAAATAA-GGGTTTTTTACTAAATTT
3887017 GTTTTGAAGT
Statistics
Matches: 1544, Mismatches: 110, Indels: 81
0.89 0.06 0.05
Matches are distributed among these distances:
153 1 0.00
154 193 0.12
155 66 0.04
156 6 0.00
157 24 0.02
158 177 0.11
159 687 0.44
160 130 0.08
161 17 0.01
162 93 0.06
164 3 0.00
165 4 0.00
166 4 0.00
167 2 0.00
170 6 0.00
171 5 0.00
172 126 0.08
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (159 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
AAACATTATGTACTAAAATAATATAAAAT
Found at i:3885671 original size:18 final size:18
Alignment explanation
Indices: 3885648--3885688 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
3885638 TAATAAAATA
3885648 CGAAAATAGTATATTTTT
1 CGAAAATAGTATATTTTT
3885666 CGAAAATAGTATATTTTT
1 CGAAAATAGTATATTTTT
*
3885684 TGAAA
1 CGAAA
3885689 GTAATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (18 bp):
CGAAAATAGTATATTTTT
Found at i:3886166 original size:473 final size:471
Alignment explanation
Indices: 3885164--3887016 Score: 2668
Period size: 473 Copynumber: 3.9 Consensus size: 471
3885154 TACGAAAAGA
*
3885164 AATAAAA-ACGAAAATAGTATATTTTTTGAAAGTAATAAAAT-TCGGGAAAAATAAAAATACGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAGTAATAAAATCT-GGG---AA-AAAAATACGAA
* *
3885227 CAAATGACCAAAATAAGGAG-TTTTGACTAAATTTATATAAAAAACACACTAAATTAATACATTT
61 CAAATGGCCAAAATAAGG-GTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTT
* *
3885291 CAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTGAAAGTA
125 CAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTA
* * *
3885356 ATAAAATCTGGGGAAAAAGAAAAATACGAAAAAATGGCCAAAATAAGGGTTTTTTACTAAATTTA
190 ATAAAATC-CGGAAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTA
* *
3885421 TATAAAAAACACACTAAATTAATACATTTCAAATATTATGTACTAAAATAATATAAAATAATAAA
254 TATAAAAAACACACTAAAATAATACATTTCAAATATAATGTACTAAAATAATATAAAATAATAAA
*
3885486 ATACGAAAATAATATATTTTTTGAAAGTAATAAAA-TCTGGGAAAAAAGAAAAATACGAAAAAAG
319 ATACGAAAATAATATATTTTTTGAAAGTAATAAAATTC-GGGAAAAAAGAAAAATACGAACAAAG
* * *
3885550 GGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAGCACACTAAATTAATGCATTTCAAACG
383 GGCCAAAATAAGAGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACG
* * *
3885615 TTATCTAATAAAATAATATAAAAT
448 ATATGTACTAAAATAATATAAAAT
3885639 AATAAAATACGAAAATAGTATATTTTTCGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGG
1 AATAAAATAC-----------A-------AAAATAGTATATTTTTTGAAAGTAATAAAATCTGGG
* *
3885704 AAAAAATTACGAATAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAA
48 AAAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAA
*
3885769 ATTAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATAT
113 ATTAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATAT
*
3885834 TTTTTGAAAGTAATAAAATCCGAGAAAAAAGAAAAATATGAACAAATGGCCAAAATAAGGGTTTT
178 TTTTTGAAAGTAATAAAATCCG-GAAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGGTTTT
* * *
3885899 TTACTAAATTTATTTAAAAAACATATTAAAATAATACATTTCAAATATAATGTACTAAAATAATA
242 TTACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAAATATAATGTACTAAAATAATA
* *
3885964 TAAAATAATAAAATTCAAAAATAATATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAA
307 TAAAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAA
* *
3886029 TATGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAAT
372 TACGAACAAAGGGCCAAAATAAGAGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAAT
3886094 ACATTTCAAACGATATGTACTAAAATAATATAAAAT
436 ACATTTCAAACGATATGTACTAAAATAATATAAAAT
*
3886130 AATAAAATACAAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAG
1 AATAAAATACAAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAT
* *
3886195 GGCCAAAAT-AGGGATTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTCAAAC
66 GGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAAC
*
3886259 ATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAATTAATAAA
130 ATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAA
* * * * *
3886324 ATCTGGAAAAAAAGAAAAATACGAACAAAGGGCTAAAATAAGGATTTTTTACTAAATTTATTTAA
195 ATCCGG-AAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAA
* *
3886389 AAAACACACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATTAAATAATAAAATACG
259 AAAACACACTAAAATAATACATTTCAAATATAATGTACTAAAATAATATAAAATAATAAAATACG
* * *
3886454 AAAATAGTATATTTTTTGAAAGTAATAAAATCCAGGAAAAAAGAAAAATACGAACAAAGGGCCAA
324 AAAATAATATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATACGAACAAAGGGCCAA
* * * *
3886519 AATAAGAGTTTTTTAAT-AATTTATTTAAAAAACACACTAAAATAATACATTTCAAA-TATAATG
389 AATAAGAGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACGAT-ATG
3886582 TACTAAAATAATATAAAAT
453 TACTAAAATAATATAAAAT
*** * * ***
3886601 AATAAAATTTGAAAATAGTATTTTTTTTTAAAGTAATAAAATCCAGTAAAAAATAAAAATACGAA
1 AATAAAATACAAAAATAGTATATTTTTTGAAAGTAATAAAAT-C--T-GGGAA-AAAAATACGAA
* *
3886666 C-AATGGCCAAAAATATAAGAGTTCTTTACTAAATTTATATAAAAAAACACACTAAATTAATACA
61 CAAATGGCC--AAA-ATAAGGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACA
* *
3886730 TTTCAAACATAATGTACTAAAATTATATAAAATAATAAAATACGAAAATAGTATATTTTTTTAAA
122 TTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAA
*
3886795 GTAATAAAATCC-G--AAAA-AAAAATATGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATT
187 GTAATAAAATCCGGAAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATT
* **
3886856 TATATAAAAAACACACTAAATTAATACATTTCAAATATTCTGTACTAAAATAATATAAAATAATA
252 TATATAAAAAACACACTAAAATAATACATTTCAAATATAATGTACTAAAATAATATAAAATAATA
*
3886921 AAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATACGAACAAA
317 AAATACGAAAATAATATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATACGAACAAA
* *
3886986 TGGCCAAAATAATGATTTTTTTACTAAATTT
382 GGGCCAAAATAA-GAGTTTTTTACTAAATTT
3887017 GTTTTGAAGT
Statistics
Matches: 1256, Mismatches: 83, Indels: 77
0.89 0.06 0.05
Matches are distributed among these distances:
470 2 0.00
471 88 0.07
472 14 0.01
473 364 0.29
474 174 0.14
475 29 0.02
476 19 0.02
477 3 0.00
478 20 0.02
479 98 0.08
480 1 0.00
489 2 0.00
490 342 0.27
491 65 0.05
494 34 0.03
495 1 0.00
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (471 bp):
AATAAAATACAAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAT
GGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACA
TAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAA
TCCGGAAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAA
AACACACTAAAATAATACATTTCAAATATAATGTACTAAAATAATATAAAATAATAAAATACGAA
AATAATATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATACGAACAAAGGGCCAAAA
TAAGAGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACGATATGTAC
TAAAATAATATAAAAT
Found at i:3886883 original size:633 final size:628
Alignment explanation
Indices: 3885164--3887016 Score: 2726
Period size: 633 Copynumber: 2.9 Consensus size: 628
3885154 TACGAAAAGA
* * *
3885164 AATAAAA-ACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGGGAAAAATAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGAAAAAAGAAAAATACGAAC
* * * *
3885228 AAATGACCAAAATAAGGAG-TTTTGACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
66 AAATGGCCAAAATAA-GAGTTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTC
* * *
3885292 AAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAA
130 AAATATAATGTACTAAAATAATATAAAATAATAAAATTCGAAAATAATATATTTTTTGAAAGTAA
* * *
3885357 TAAAATCTGGGGAAAAAGAAAAATACGAAAAAATGGCCAAAATAAGGGTTTTTTACTAAATTTAT
195 TAAAATCCGGGAAAAAAGAAAAATACG-AACAATGGCCAAAATAAGGGTTTTTTACTAAATTTAT
*
3885422 AT-AAAAAACACACTAAATTAATACATTTCAAATATTATGTACTAAAATAATATAAAATAATAAA
259 ATAAAAAAACACACTAAATTAATACATTTCAAACA-TATGTACTAAAATAATATAAAATAATAAA
* * *
3885486 ATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAAAAAAGG
323 ATACGAAAATAGTATATTTTTTGAAAGTAATAAAATC--CG--AAAA-AAAAATACGAACAAAGG
* * *
3885551 GCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAGCACACTAAATTAATGCATTTCAAACGT
383 GCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACAT
* * * *
3885616 TATCTAATAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTCGAAAATAGTATATT
448 TATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAATA--ATA-A
** * * *
3885681 TTTTGAAAGTAATAAAATCTGGGAAAAAATTACGAATAAATGGCCAAAATAAGGGTTTTTTACTA
510 AATTG---G-AA-AAAA----AG-AAAAA-TACGAACAAATGGCCAAAATAAGGATTTTTTACTA
* *
3885746 AATTTATATAAAAAACACACTAAATTAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
564 AATTTATATAAAAAACACACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATAAAAT
*
3885811 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAGAAAAAAGAAAAATATGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCG-GAAAAAAGAAAAATACGAA
* * *
3885876 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAACATATTAAAATAATACATTTC
65 CAAATGGCCAAAATAAGAGTTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTC
*
3885941 AAATATAATGTACTAAAATAATATAAAATAATAAAATTCAAAAATAATATATTTTTTGAAAGTAA
130 AAATATAATGTACTAAAATAATATAAAATAATAAAATTCGAAAATAATATATTTTTTGAAAGTAA
* * *
3886006 TAAAATTCGGGAAAAAAGAAAAATATGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTAT
195 TAAAATCCGGGAAAAAAGAAAAATACGAAC-AATGGCCAAAATAAGGGTTTTTTACTAAATTTAT
3886071 ATAAAAAAACACACTAAATTAATACATTTCAAACGATATGTACTAAAATAATATAAAATAATAAA
259 ATAAAAAAACACACTAAATTAATACATTTCAAAC-ATATGTACTAAAATAATATAAAATAATAAA
* * **
3886136 ATACAAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCAA
323 ATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAAAAAATACGAACAAAGGGCCAA
* * *
3886201 AAT-AGGGATTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTCAAACATAATG
388 AATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACATTATG
*
3886265 TACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAATTAATAAAATCTGG
452 TACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAATAATAAAAT-TGG
* * *
3886330 AAAAAAAGAAAAATACGAACAAAGGGCTAAAATAAGGATTTTTTACTAAATTTATTTAAAAAACA
516 AAAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGATTTTTTACTAAATTTATATAAAAAACA
*
3886395 CACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATTAAAT
581 CACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATAAAAT
3886443 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCAGGAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCC-GGAAAAAAGAAAAATACGAA
* *
3886508 CAAAGGGCCAAAATAAGAGTTTTTTAAT-AATTTATTTAAAAAACACACTAAAATAATACATTTC
65 CAAATGGCCAAAATAAGAGTTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTC
* * * *
3886572 AAATATAATGTACTAAAATAATATAAAATAATAAAATTTGAAAATAGTATTTTTTTTTAAAGTAA
130 AAATATAATGTACTAAAATAATATAAAATAATAAAATTCGAAAATAATATATTTTTTGAAAGTAA
* * * * *
3886637 TAAAATCCAGTAAAAAATAAAAATACGAACAATGGCCAAAAATATAAGAGTTCTTTACTAAATTT
195 TAAAATCCGGGAAAAAAGAAAAATACGAACAATGGCC--AAA-ATAAGGGTTTTTTACTAAATTT
*
3886702 ATATAAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATTATATAAAATAATA
257 ATATAAAAAAACACACTAAATTAATACATTTCAAACAT-ATGTACTAAAATAATATAAAATAATA
* * *
3886767 AAATACGAAAATAGTATATTTTTTTAAAGTAATAAAATCCGAAAAAAAAATATGAACAAATGGCC
321 AAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAAAAAATACGAACAAAGGGCC
* *
3886832 AAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAATATTCT
386 AAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACATTAT
*
3886897 GTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCG
451 GTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAATAATAAAATT-G
* *
3886962 GGAAAAAAGAAAAATACGAACAAATGGCCAAAATAATGATTTTTTTACTAAATTT
515 GAAAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGA-TTTTTTACTAAATTT
3887017 GTTTTGAAGT
Statistics
Matches: 1103, Mismatches: 87, Indels: 45
0.89 0.07 0.04
Matches are distributed among these distances:
630 6 0.01
631 119 0.11
632 185 0.17
633 297 0.27
634 20 0.02
638 4 0.00
639 2 0.00
640 1 0.00
642 1 0.00
643 5 0.00
644 4 0.00
645 124 0.11
646 2 0.00
647 7 0.01
648 41 0.04
649 190 0.17
650 94 0.09
651 1 0.00
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (628 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGAAAAAAGAAAAATACGAAC
AAATGGCCAAAATAAGAGTTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTCA
AATATAATGTACTAAAATAATATAAAATAATAAAATTCGAAAATAATATATTTTTTGAAAGTAAT
AAAATCCGGGAAAAAAGAAAAATACGAACAATGGCCAAAATAAGGGTTTTTTACTAAATTTATAT
AAAAAAACACACTAAATTAATACATTTCAAACATATGTACTAAAATAATATAAAATAATAAAATA
CGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAAAAAAATACGAACAAAGGGCCAAAAT
AAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACATTATGTACT
AAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAATAATAAAATTGGAAAAA
AAGAAAAATACGAACAAATGGCCAAAATAAGGATTTTTTACTAAATTTATATAAAAAACACACTA
AAATAATACATTTCAAACATAATGTACTAAAATAATATAAAAT
Found at i:3890288 original size:37 final size:37
Alignment explanation
Indices: 3890220--3890367 Score: 113
Period size: 37 Copynumber: 3.9 Consensus size: 37
3890210 TAATAGTTTT
3890220 TTTTACTAAAAATAATACTAACTAACAATAATAATTAGGG
1 TTTTACTAAAAAT-A-A-TAACTAACAATAATAATTAGGG
**
3890260 TTTTACTAAAAATAATAACTAACAATAAT-A-TAATG
1 TTTTACTAAAAATAATAACTAACAATAATAATTAGGG
*** *
3890295 TAAAAACTAACAATCATACTAACTAA-AATAATAATTAGGG
1 T-TTTACTAA-AA--ATAATAACTAACAATAATAATTAGGG
*** *
3890335 TTTTTACTAATCTTAATAACTAACCATAATAAT
1 -TTTTACTAAAAATAATAACTAACAATAATAAT
3890368 ATTAGTTTTT
Statistics
Matches: 84, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
35 4 0.05
36 6 0.07
37 25 0.30
38 15 0.18
39 12 0.14
40 21 0.25
41 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (37 bp):
TTTTACTAAAAATAATAACTAACAATAATAATTAGGG
Found at i:3890321 original size:23 final size:23
Alignment explanation
Indices: 3890276--3890322 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3890266 TAAAAATAAT
*
3890276 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
3890299 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
3890322 A
1 A
3890323 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:3890352 original size:76 final size:76
Alignment explanation
Indices: 3890224--3890365 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
3890214 AGTTTTTTTT
3890224 ACTAAAAATAATACTAACTAACAATAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAAT
1 ACTAAAAATAATACTAACTAACAATAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAAT
3890289 ATAATGTAAAA
66 ATAATGTAAAA
* * *** *
3890300 ACTAACAATCATACTAACTAA-AATAATAATTAGGGTTTTTACTAATCTTAATAACTAACCATAA
1 ACTAAAAATAATACTAACTAACAATAATAATTAGGG-TTTTACTAAAAATAATAACTAACAATAA
3890364 TA
65 TA
3890366 ATATTAGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 14 0.24
76 45 0.76
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (76 bp):
ACTAAAAATAATACTAACTAACAATAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAAT
ATAATGTAAAA
Found at i:3890404 original size:76 final size:74
Alignment explanation
Indices: 3890184--3890407 Score: 207
Period size: 76 Copynumber: 2.9 Consensus size: 74
3890174 ACATTTAACC
* * *
3890184 ACTAATCCTAATAACTAACACAATAATAATAGTTTTTTTTACTAAAAATAATACTAACTAACAAT
1 ACTAATCATAATAACTAAC-C-ATAATAATA-TTGTTTTTACTAACAATAATACTAACTAAC---
3890249 AATAATTAGGGTTTT
60 AATAATTAGGGTTTT
** * * **** * *
3890264 ACTAAAAATAATAACTAACAATAAT-ATAATGTAAAAACTAACAATCATACTAACTAAAATAATA
1 ACTAATCATAATAACTAACCATAATAATATTGTTTTTACTAACAATAATACTAACT--AACAATA
3890328 ATTAGGGTTTTT
64 ATTAGGG-TTTT
* * *
3890340 ACTAATCTTAATAACTAACCATAATAATATTAGTTTTTACTAGCAATAATACTAAGTAACAATAA
1 ACTAATCATAATAACTAACCATAATAATATT-GTTTTTACTAACAATAATACTAACTAACAATAA
3890405 TTA
65 TTA
3890408 TTAATAACTA
Statistics
Matches: 113, Mismatches: 26, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
75 11 0.10
76 54 0.48
77 7 0.06
78 25 0.22
80 16 0.14
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (74 bp):
ACTAATCATAATAACTAACCATAATAATATTGTTTTTACTAACAATAATACTAACTAACAATAAT
TAGGGTTTT
Found at i:3890921 original size:5 final size:5
Alignment explanation
Indices: 3890911--3890944 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
3890901 GTATGTTATT
*
3890911 ATATA ATATA ATATA ATGTA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATAT
3890945 TATTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:3890954 original size:10 final size:10
Alignment explanation
Indices: 3890906--3890964 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
3890896 AATAAGTATG
3890906 TTATTATATA
1 TTATTATATA
* *
3890916 ATATAATATA
1 TTATTATATA
* * *
3890926 ATGTAATATA
1 TTATTATATA
*
3890936 ATA-TA-ATA
1 TTATTATATA
3890944 TTATTATATA
1 TTATTATATA
3890954 TTATTATATA
1 TTATTATATA
3890964 T
1 T
3890965 ATAAAACAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 5 0.12
9 3 0.07
10 33 0.80
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
TTATTATATA
Found at i:3890954 original size:20 final size:21
Alignment explanation
Indices: 3890910--3890968 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
3890900 AGTATGTTAT
3890910 TATATAATATAATATAATGTA
1 TATATAATATAATATAATGTA
*
3890931 -ATATAATATAATATTAT-TA
1 TATATAATATAATATAATGTA
*
3890950 TATATTATTATATATATAA
1 TATA-TAATATA-ATATAA
3890969 AACAAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.06
20 19 0.59
21 6 0.19
22 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TATATAATATAATATAATGTA
Found at i:3892067 original size:25 final size:23
Alignment explanation
Indices: 3892039--3892141 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 23
3892029 ACTTTAGCGC
*
3892039 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTG--TATTAGCACGTTAGT
*
3892064 GCTCTCTGATATTTAGCACGTCAGT
1 GCTCTCTG-TA-TTAGCACGTTAGT
*
3892089 GCTCTCTGT-TTAGCACATCT-GT
1 GCTCTCTGTATTAGCACGT-TAGT
*
3892111 GCTCTCTGTA-TAGCACTTTAGT
1 GCTCTCTGTATTAGCACGTTAGT
3892133 GCTCTCTGT
1 GCTCTCTGT
3892142 TCATTAGTGC
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.01
22 37 0.54
24 3 0.04
25 27 0.40
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (23 bp):
GCTCTCTGTATTAGCACGTTAGT
Found at i:3892959 original size:13 final size:13
Alignment explanation
Indices: 3892945--3892985 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
3892935 TCTATTTTTT
*
3892945 TCTTCTCTTTCTT
1 TCTTCTCTTTCTC
3892958 TC-TC-CTTTCTC
1 TCTTCTCTTTCTC
*
3892969 TATTCTCTTTCTC
1 TCTTCTCTTTCTC
3892982 TCTT
1 TCTT
3892986 TTTCTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 7 0.30
12 4 0.17
13 12 0.52
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTCTCTTTCTC
Found at i:3893056 original size:9 final size:10
Alignment explanation
Indices: 3893013--3893051 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
3893003 GCACCGCCCT
3893013 TTTCTTCTTC
1 TTTCTTCTTC
3893023 TTTCTTCTTC
1 TTTCTTCTTC
3893033 -TTCTTCTT-
1 TTTCTTCTTC
*
3893041 TTTTTTCTTC
1 TTTCTTCTTC
3893051 T
1 T
3893052 CTTTCAGCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 15 0.58
10 11 0.42
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:3893720 original size:18 final size:18
Alignment explanation
Indices: 3893672--3893720 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
3893662 AAAAAAACTT
*
3893672 AAATCTTTTTTAGGGCCAA
1 AAATC-TTTTTATGGCCAA
*
3893691 AAACCTTTTTATGG-CAA
1 AAATCTTTTTATGGCCAA
3893708 AAATCTTTATTAT
1 AAATCTTT-TTAT
3893721 TTTTTTCTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.38
18 12 0.46
19 4 0.15
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (18 bp):
AAATCTTTTTATGGCCAA
Found at i:3895805 original size:20 final size:20
Alignment explanation
Indices: 3895782--3895819 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3895772 TTCTTTTTAC
3895782 TTAAAAAAAGTTTAAAAATA
1 TTAAAAAAAGTTTAAAAATA
3895802 TTAAAAAAAGTTTAAAAA
1 TTAAAAAAAGTTTAAAAA
3895820 CATTTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TTAAAAAAAGTTTAAAAATA
Found at i:3895825 original size:10 final size:11
Alignment explanation
Indices: 3895782--3895819 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
3895772 TTCTTTTTAC
3895782 TTAAAAAAAGT
1 TTAAAAAAAGT
*
3895793 TTAAAAATA--
1 TTAAAAAAAGT
3895802 TTAAAAAAAGT
1 TTAAAAAAAGT
3895813 TTAAAAA
1 TTAAAAA
3895820 CATTTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (11 bp):
TTAAAAAAAGT
Found at i:3896184 original size:18 final size:18
Alignment explanation
Indices: 3896161--3896195 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3896151 CCCAGCCGTC
3896161 TTCTCATTTCTTTCTCAT
1 TTCTCATTTCTTTCTCAT
3896179 TTCTCATTTCTTTCTCA
1 TTCTCATTTCTTTCTCA
3896196 CGTCTGAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCTCATTTCTTTCTCAT
Found at i:3897461 original size:7 final size:7
Alignment explanation
Indices: 3897449--3897476 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3897439 ATATGTGGAA
3897449 ATCAAGT
1 ATCAAGT
3897456 ATCAAGT
1 ATCAAGT
3897463 ATCAAGT
1 ATCAAGT
3897470 ATCAAGT
1 ATCAAGT
3897477 TTCGAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
ATCAAGT
Found at i:3899227 original size:61 final size:61
Alignment explanation
Indices: 3899154--3899347 Score: 191
Period size: 61 Copynumber: 3.2 Consensus size: 61
3899144 TTATATTATT
*
3899154 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * * * * *
3899215 ATATATTTTAATTAAAATATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTA-TAGTATC
1 ATATATTATAATTTAAGTAAATTCATATAAGAA-TAT-TTAATATTAAGAATTTTATTA-AATC
* * * * *
3899274 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
*
3899335 ATATATTTTAATT
1 ATATATTATAATT
3899348 AAAATATATT
Statistics
Matches: 101, Mismatches: 24, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
58 4 0.04
59 33 0.33
60 14 0.14
61 44 0.44
62 6 0.06
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (61 bp):
ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:3899325 original size:120 final size:120
Alignment explanation
Indices: 3899112--3899378 Score: 453
Period size: 120 Copynumber: 2.2 Consensus size: 120
3899102 AAAAATTGAT
* * * *
3899112 TATATTTAATAATAATTATGTTATATTATATTTTATATTATTATATATTATAATTTTAGTAAATT
1 TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATAATTTGAGTAAATT
*
3899177 CATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
66 CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
*
3899232 TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATT
1 TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATAATTTGAGTAAATT
* *
3899297 CATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
66 CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
3899352 TATATTTAATAATAATTATGTTTAAAT
1 TATATTTAATAATAATTATG-TTAAAT
3899379 ATGATTAAAT
Statistics
Matches: 138, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 132 0.96
121 6 0.04
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATAATTTGAGTAAATT
CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
Found at i:3899350 original size:18 final size:17
Alignment explanation
Indices: 3899322--3899356 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3899312 ATTATTAAGA
*
3899322 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
3899339 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
3899357 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:3899547 original size:39 final size:40
Alignment explanation
Indices: 3899504--3899608 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
3899494 TTCCATTATG
3899504 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
3899543 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
3899588 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
3899609 ACACCTTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:3899602 original size:45 final size:44
Alignment explanation
Indices: 3899502--3899611 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
3899492 TTTTCCATTA
3899502 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
3899541 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
3899586 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
3899612 CCTTTAATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:3903908 original size:18 final size:18
Alignment explanation
Indices: 3903878--3903912 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3903868 TGAATAAAAA
3903878 AATAATAATTTTTTTTTG
1 AATAATAATTTTTTTTTG
3903896 AATAA-AATATTTTTTTT
1 AATAATAAT-TTTTTTTT
3903913 ATATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
AATAATAATTTTTTTTTG
Found at i:3903986 original size:15 final size:15
Alignment explanation
Indices: 3903966--3904001 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
3903956 CGGGTCGGGT
3903966 GGCGCCTATCAGGTA
1 GGCGCCTATCAGGTA
3903981 GGCGCCTATCAGGTA
1 GGCGCCTATCAGGTA
3903996 GGCGCC
1 GGCGCC
3904002 AATGAAGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.31, G:0.36, T:0.17
Consensus pattern (15 bp):
GGCGCCTATCAGGTA
Found at i:3904202 original size:8 final size:8
Alignment explanation
Indices: 3904189--3904260 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
3904179 CATACAAAAA
3904189 ATTACAAT
1 ATTACAAT
3904197 ATTACAAT
1 ATTACAAT
* * *
3904205 ATATCCCGAC
1 AT-T-ACAAT
3904215 ATTACAAT
1 ATTACAAT
*
3904223 ATTTATACAAA
1 A--T-TACAAT
*
3904234 ATTATAAT
1 ATTACAAT
3904242 ATTACAAT
1 ATTACAAT
3904250 ATTACAAT
1 ATTACAAT
3904258 ATT
1 ATT
3904261 CATACAAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
8 35 0.71
9 3 0.06
10 5 0.10
11 6 0.12
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (8 bp):
ATTACAAT
Found at i:3904251 original size:27 final size:27
Alignment explanation
Indices: 3904215--3904318 Score: 115
Period size: 27 Copynumber: 3.7 Consensus size: 27
3904205 ATATCCCGAC
*
3904215 ATTACAATATTTATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
*
3904242 ATTACAATATTACAATATTCATACAA--AAAAT
1 ATTACAATATT-C-ATA--CA-A-AATTATAAT
3904273 -TTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
3904299 ATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
3904319 AAATTACAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
24 2 0.03
25 1 0.02
26 6 0.09
27 30 0.46
28 3 0.05
29 4 0.06
30 10 0.15
31 6 0.09
32 1 0.02
33 2 0.03
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.36
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTATAAT
Found at i:3904253 original size:16 final size:16
Alignment explanation
Indices: 3904228--3904331 Score: 50
Period size: 16 Copynumber: 6.1 Consensus size: 16
3904218 ACAATATTTA
*
3904228 TACAAAATTATAATAT
1 TACAAAATTACAATAT
*
3904244 TACAATATTACAATATT
1 TACAAAATTACAATA-T
3904261 CATACAAAAAATTTACAATATT
1 --TAC--AAAA-TTACAATA-T
*
3904283 CATACAAAATTATAATAT
1 --TACAAAATTACAATAT
* *
3904301 TACAATATT-C-ATAC
1 TACAAAATTACAATAT
* *
3904315 AAAAAAATTACAATAT
1 TACAAAATTACAATAT
3904331 T
1 T
3904332 CATATTAAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 24 0.35
17 1 0.01
18 1 0.01
19 10 0.15
20 4 0.06
21 3 0.04
22 15 0.22
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (16 bp):
TACAAAATTACAATAT
Found at i:3904312 original size:49 final size:49
Alignment explanation
Indices: 3904242--3904335 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
3904232 AAATTATAAT
*
3904242 ATTACAATATTACAATATTCATACAAAAAATTTACAATATTCATACAAA
1 ATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
*
3904291 ATTATAATATTACAATATTCATACAAAAAAATTACAATATTCATA
1 ATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATA
3904336 TTAAATATAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (49 bp):
ATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
Found at i:3904327 original size:22 final size:22
Alignment explanation
Indices: 3904250--3904335 Score: 118
Period size: 22 Copynumber: 3.7 Consensus size: 22
3904240 ATATTACAAT
3904250 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
*
3904272 TTTACAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
3904298 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
3904321 ATTACAATATTCATA
1 ATTACAATATTCATA
3904336 TTAAATATAG
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
22 30 0.53
23 5 0.09
24 1 0.02
25 1 0.02
26 5 0.09
27 15 0.26
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:3904540 original size:134 final size:134
Alignment explanation
Indices: 3904392--3904640 Score: 462
Period size: 134 Copynumber: 1.9 Consensus size: 134
3904382 TGCAATTTTA
*
3904392 TATGAATATTGTAATATTATAATTTTGTGTGAATATTGTAATGTCGGGATATATTGTAATATTGT
1 TATGAATATTGTAATATTATAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGT
*
3904457 AATTTTTTGTATGAATATTGAAATTATTTTATAATTAATTTTTTAGTAATCTAAATTTTAAATGA
66 AATTTTTTGTATGAATATTGAAATTATTTTATAATTAATTTGTTAGTAATCTAAATTTTAAATGA
3904522 TTTG
131 TTTG
*
3904526 TATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGT
1 TATGAATATTGTAATATTATAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGT
*
3904591 AATTTTTTGTATGAATATTGTAATTATTTTATAATTAATTTGTTAGTAAT
66 AATTTTTTGTATGAATATTGAAATTATTTTATAATTAATTTGTTAGTAAT
3904641 TTAGGATTAT
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 111 1.00
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (134 bp):
TATGAATATTGTAATATTATAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGT
AATTTTTTGTATGAATATTGAAATTATTTTATAATTAATTTGTTAGTAATCTAAATTTTAAATGA
TTTG
Done.