Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 19 of 199
Found at i:5665689 original size:14 final size:14
Alignment explanation
Indices: 5665670--5665703 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
5665660 ATTGCTATTG
5665670 GTTGCTTTTGAATT
1 GTTGCTTTTGAATT
5665684 GTTGCTTTTGAATT
1 GTTGCTTTTGAATT
*
5665698 TTTGCT
1 GTTGCT
5665704 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.09, G:0.21, T:0.59
Consensus pattern (14 bp):
GTTGCTTTTGAATT
Found at i:5665880 original size:43 final size:43
Alignment explanation
Indices: 5665758--5665895 Score: 170
Period size: 43 Copynumber: 3.2 Consensus size: 43
5665748 CCAAAATAGT
* *
5665758 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTTT-TAAAAAAGCGCCACTAAAGAACATGGTCTTTAGC
* **
5665802 GGCG-TTTGTAAAAAAATGCCACTAAAGAACATGGTCTTTAGC
1 GGCGTTTTTTAAAAAAGCGCCACTAAAGAACATGGTCTTTAGC
**** *
5665844 GGCGTTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGC
1 GGCGTTTTTTAAAAAAGCGCCACTAAAGAACATGGTCTTTAGC
5665887 GGCGTTTTT
1 GGCGTTTTT
5665896 GTTTGTAAAC
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 34 0.43
43 42 0.52
44 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (43 bp):
GGCGTTTTTTAAAAAAGCGCCACTAAAGAACATGGTCTTTAGC
Found at i:5672413 original size:24 final size:24
Alignment explanation
Indices: 5672386--5672432 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5672376 ATTTATTTTC
5672386 TTTTTTGTTT-CTCTATTTGTTTGA
1 TTTTTT-TTTACTCTATTTGTTTGA
*
5672410 TTTTTTTTTACTCTTTTTGTTTG
1 TTTTTTTTTACTCTATTTGTTTG
5672433 GAGTATATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.06, C:0.09, G:0.11, T:0.74
Consensus pattern (24 bp):
TTTTTTTTTACTCTATTTGTTTGA
Found at i:5675004 original size:20 final size:20
Alignment explanation
Indices: 5674966--5675005 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
5674956 AATATTTTCC
* *
5674966 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
5674986 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
5675006 TTATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:5675020 original size:34 final size:35
Alignment explanation
Indices: 5674954--5675020 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
5674944 CAAACACCAG
* *
5674954 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
5674989 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
5675021 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:5678755 original size:16 final size:16
Alignment explanation
Indices: 5678734--5678765 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5678724 AAGTTAAGAG
*
5678734 AGAGAAATTATTTTGT
1 AGAGAAATTAATTTGT
5678750 AGAGAAATTAATTTGT
1 AGAGAAATTAATTTGT
5678766 TTAATTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (16 bp):
AGAGAAATTAATTTGT
Found at i:5683784 original size:20 final size:21
Alignment explanation
Indices: 5683758--5683803 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
5683748 NNNNGGGATC
5683758 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
5683779 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
5683799 ACTAA
1 ACTAA
5683804 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:5683797 original size:11 final size:11
Alignment explanation
Indices: 5683758--5683804 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
5683748 NNNNGGGATC
5683758 ACTAA-CTAAT
1 ACTAATCTAAT
5683768 ACTAATCTAAT
1 ACTAATCTAAT
5683779 -CTAA-CTAAT
1 ACTAATCTAAT
5683788 ACTAATCTAAT
1 ACTAATCTAAT
5683799 ACTAAT
1 ACTAAT
5683805 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:5683819 original size:27 final size:27
Alignment explanation
Indices: 5683785--5683840 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
5683775 TAATCTAACT
5683785 AATACTAATCTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
5683812 AATACTAATCTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
5683839 AA
1 AA
5683841 AAAATAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (27 bp):
AATACTAATCTAATACTAATAGAATAG
Found at i:5683825 original size:5 final size:6
Alignment explanation
Indices: 5683762--5683832 Score: 68
Period size: 5 Copynumber: 13.2 Consensus size: 6
5683752 GGGATCACTA
5683762 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
5683805 A-GAAT A-GAAT ACTAAT -CTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT A
5683833 GAATAGAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
4 3 0.05
5 27 0.47
6 27 0.47
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.32
Consensus pattern (6 bp):
ACTAAT
Found at i:5683848 original size:14 final size:14
Alignment explanation
Indices: 5683829--5683856 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5683819 ATCTAATACT
5683829 AATAGAATAGAAAA
1 AATAGAATAGAAAA
5683843 AATAGAATAGAAAA
1 AATAGAATAGAAAA
5683857 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:5690553 original size:17 final size:17
Alignment explanation
Indices: 5690507--5690553 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
5690497 TATCACATCA
5690507 AAAAATATTTAAAAAATT
1 AAAAA-ATTTAAAAAATT
**
5690525 AAAAAACCTAAAAAA-T
1 AAAAAATTTAAAAAATT
5690541 AAATAAATTTAAA
1 AAA-AAATTTAAA
5690554 TAACTTTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 4 0.17
17 15 0.62
18 5 0.21
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAAATTTAAAAAATT
Found at i:5690660 original size:18 final size:19
Alignment explanation
Indices: 5690621--5690664 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
5690611 ACCAGACGTG
*
5690621 ATTT-TAAAAAATATATAT
1 ATTTATAAAAAATATATAA
*
5690639 ATTTATAAAAAATGTA-AA
1 ATTTATAAAAAATATATAA
5690657 ATTTATAA
1 ATTTATAA
5690665 GGAATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATTTATAAAAAATATATAA
Found at i:5693557 original size:10 final size:11
Alignment explanation
Indices: 5693526--5693554 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
5693516 TCCAAAGGTG
5693526 TGAATTGAATA
1 TGAATTGAATA
5693537 T-AATTGAATA
1 TGAATTGAATA
5693547 TGAATTGA
1 TGAATTGA
5693555 TATTTAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (11 bp):
TGAATTGAATA
Found at i:5694184 original size:73 final size:74
Alignment explanation
Indices: 5694099--5694256 Score: 212
Period size: 73 Copynumber: 2.1 Consensus size: 74
5694089 AACTTATCGA
* * * **
5694099 TTAATGGCTCTCCTGAGCTTCCCGATAC-TGGCTCACTTAAACCTTCCCGTTA-TTGGCTCGTAT
1 TTAATGGCTCTCCGGAGCTTCCCGATACATGGCTCACAT-AACCTTCCCGTTACATGGCTCACAT
*
5694162 GAGCTTCCCG
65 AAGCTTCCCG
* *
5694172 TTAATGGCTCTCCGGAGCTTCCCGTTACATGGCTCACATAAGCTTCCCGTTACATGGCTCACATA
1 TTAATGGCTCTCCGGAGCTTCCCGATACATGGCTCACATAACCTTCCCGTTACATGGCTCACATA
5694237 AGCTTCCCG
66 AGCTTCCCG
5694246 TTACATGGCTC
1 TTA-ATGGCTC
5694257 GAAAGAGGGC
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
73 38 0.51
74 29 0.39
75 7 0.09
ACGTcount: A:0.18, C:0.32, G:0.19, T:0.31
Consensus pattern (74 bp):
TTAATGGCTCTCCGGAGCTTCCCGATACATGGCTCACATAACCTTCCCGTTACATGGCTCACATA
AGCTTCCCG
Found at i:5694215 original size:25 final size:25
Alignment explanation
Indices: 5694114--5694256 Score: 157
Period size: 25 Copynumber: 5.8 Consensus size: 25
5694104 GGCTCTCCTG
* *
5694114 AGCTTCCCGATAC-TGGCTCACTTAA
1 AGCTTCCCGTTACATGGCTCACAT-A
* * ** *
5694139 ACCTTCCCGTTA-TTGGCTCGTATG
1 AGCTTCCCGTTACATGGCTCACATA
* ***
5694163 AGCTTCCCGTTA-ATGGCTCTCCGG
1 AGCTTCCCGTTACATGGCTCACATA
5694187 AGCTTCCCGTTACATGGCTCACATA
1 AGCTTCCCGTTACATGGCTCACATA
5694212 AGCTTCCCGTTACATGGCTCACATA
1 AGCTTCCCGTTACATGGCTCACATA
5694237 AGCTTCCCGTTACATGGCTC
1 AGCTTCCCGTTACATGGCTC
5694257 GAAAGAGGGC
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
24 30 0.30
25 70 0.70
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.30
Consensus pattern (25 bp):
AGCTTCCCGTTACATGGCTCACATA
Found at i:5696386 original size:28 final size:28
Alignment explanation
Indices: 5696299--5696386 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
5696289 TGGTTTTTAA
*
5696299 AAAAATTA-TAAAAACTATAGAAAA-TTT
1 AAAAATTATTAAAAATTATA-AAAATTTT
* *
5696326 AAATATTATTAAGAATTATAAAAATTTCT
1 AAAAATTATTAAAAATTATAAAAATTT-T
*
5696355 -AAAATTATTAAAAATTA-ACAAATTATT
1 AAAAATTATTAAAAATTATAAAAATT-TT
5696382 AAAAA
1 AAAAA
5696387 AAAGTCCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
27 18 0.36
28 31 0.62
29 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAAATTATTAAAAATTATAAAAATTTT
Found at i:5699804 original size:16 final size:16
Alignment explanation
Indices: 5699783--5699847 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
5699773 TTCGTTGTAT
5699783 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
5699799 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
5699815 TGGAATAGAAGTGTAA
1 TGGAATAGAGGCGTAA
*
5699831 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
5699847 T
1 T
5699848 AGCAAATCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.38, C:0.03, G:0.35, T:0.23
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:5702762 original size:7 final size:7
Alignment explanation
Indices: 5702750--5702802 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
5702740 CACAAACTAT
5702750 AATTTAA
1 AATTTAA
5702757 AATTTAA
1 AATTTAA
5702764 AATTTAA
1 AATTTAA
5702771 AATTATAA
1 AATT-TAA
* ***
5702779 CACAAAA
1 AATTTAA
5702786 AATTTAA
1 AATTTAA
5702793 AATTTAA
1 AATTTAA
5702800 AAT
1 AAT
5702803 GAGAAGAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 33 0.89
8 4 0.11
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (7 bp):
AATTTAA
Found at i:5702777 original size:39 final size:36
Alignment explanation
Indices: 5702723--5702802 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 36
5702713 CATACCACAA
5702723 AAAATTTAAAATTATAACACAAACTATAATTTAAAATTT
1 AAAATTTAAAATTATAACACAAA--A-AATTTAAAATTT
5702762 AAAATTTAAAATTATAACACAAAAAATTTAAAATTT
1 AAAATTTAAAATTATAACACAAAAAATTTAAAATTT
5702798 AAAAT
1 AAAAT
5702803 GAGAAGAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
36 17 0.41
37 1 0.02
39 23 0.56
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (36 bp):
AAAATTTAAAATTATAACACAAAAAATTTAAAATTT
Found at i:5702814 original size:39 final size:38
Alignment explanation
Indices: 5702730--5702804 Score: 109
Period size: 36 Copynumber: 2.0 Consensus size: 38
5702720 CAAAAAATTT
**
5702730 AAAATTATAACACAAACTATAATTTAAAATTTAAAATTT
1 AAAATTATAACACAAAC-ATAATTTAAAATTTAAAATGA
5702769 AAAATTATAACACAAA-A-AATTTAAAATTTAAAATGA
1 AAAATTATAACACAAACATAATTTAAAATTTAAAATGA
5702805 GAAGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 17 0.50
37 1 0.03
39 16 0.47
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.32
Consensus pattern (38 bp):
AAAATTATAACACAAACATAATTTAAAATTTAAAATGA
Found at i:5702869 original size:11 final size:11
Alignment explanation
Indices: 5702855--5702881 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5702845 AAAAATCAAT
5702855 ACAAAAGTTTC
1 ACAAAAGTTTC
5702866 ACAAAAGTTTC
1 ACAAAAGTTTC
5702877 ACAAA
1 ACAAA
5702882 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:5705563 original size:38 final size:39
Alignment explanation
Indices: 5705513--5705591 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 39
5705503 ATAATGTTGT
5705513 AAAGAAAAAGAAAAGAAACAGA-AGACGCAAATCGGCAGA
1 AAAGAAAAAGAAAAGAAACAGAGAGA-GCAAATCGGCAGA
*
5705552 AAAG-AAAAGAAAAGAAACAGAGGGAGCAAATCGGCAGA
1 AAAGAAAAAGAAAAGAAACAGAGAGAGCAAATCGGCAGA
5705590 AA
1 AA
5705592 CTGGAGCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
38 32 0.84
39 6 0.16
ACGTcount: A:0.61, C:0.11, G:0.25, T:0.03
Consensus pattern (39 bp):
AAAGAAAAAGAAAAGAAACAGAGAGAGCAAATCGGCAGA
Found at i:5705590 original size:23 final size:20
Alignment explanation
Indices: 5705573--5705610 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5705563 AAGAAACAGA
5705573 GGGAGCAAATCGGCAGAAAC
1 GGGAGCAAATCGGCAGAAAC
*
5705593 TGGAGCAAATCGGCAGAA
1 GGGAGCAAATCGGCAGAA
5705611 GCAAAAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.34, T:0.08
Consensus pattern (20 bp):
GGGAGCAAATCGGCAGAAAC
Found at i:5712166 original size:14 final size:12
Alignment explanation
Indices: 5712126--5712168 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
5712116 ATTTAGTCAT
* *
5712126 TTTTTATTTTTA
1 TTTTTAATTTAA
5712138 TTTTTAATTTAA
1 TTTTTAATTTAA
5712150 TTTTTACATTCTAA
1 TTTTTA-ATT-TAA
5712164 TTTTT
1 TTTTT
5712169 CGTTTGTTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 16 0.59
13 3 0.11
14 8 0.30
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTAATTTAA
Found at i:5713017 original size:9 final size:9
Alignment explanation
Indices: 5713000--5713120 Score: 181
Period size: 9 Copynumber: 13.4 Consensus size: 9
5712990 GTAGTGATTC
*
5713000 AATTTGGTT
1 AATTCGGTT
5713009 AATTCGGTT
1 AATTCGGTT
5713018 AATTCGAG-T
1 AATTCG-GTT
5713027 AATTCGGTT
1 AATTCGGTT
*
5713036 AATTCGGGT
1 AATTCGGTT
*
5713045 AATTCAGTT
1 AATTCGGTT
5713054 AATTCGGTT
1 AATTCGGTT
5713063 AATTCGGTT
1 AATTCGGTT
*
5713072 AATTCAGTT
1 AATTCGGTT
*
5713081 AATTCGGGT
1 AATTCGGTT
5713090 AATTCGGTT
1 AATTCGGTT
5713099 AATTCGGTT
1 AATTCGGTT
5713108 AATTCGGTT
1 AATTCGGTT
5713117 AATT
1 AATT
5713121 TTTAACCAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
8 1 0.01
9 99 0.98
10 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:5719912 original size:21 final size:21
Alignment explanation
Indices: 5719887--5719929 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
5719877 TTAAATTAGC
5719887 CCTTATAAGAGATAGAATTAT
1 CCTTATAAGAGATAGAATTAT
5719908 CCTTATAAGAGATAGAATTAT
1 CCTTATAAGAGATAGAATTAT
5719929 C
1 C
5719930 TTTTAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (21 bp):
CCTTATAAGAGATAGAATTAT
Found at i:5735050 original size:3 final size:3
Alignment explanation
Indices: 5735042--5735084 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
5735032 TAATATCTCC
*
5735042 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
5735085 GTTTTTTAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:5735222 original size:2 final size:2
Alignment explanation
Indices: 5735215--5735273 Score: 61
Period size: 2 Copynumber: 30.5 Consensus size: 2
5735205 TAGTATAACT
* * *
5735215 TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A AA T- TCA TA AA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
5735255 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
5735274 GTTTAGCTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
1 3 0.06
2 44 0.92
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:5742675 original size:3 final size:3
Alignment explanation
Indices: 5742667--5742739 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
5742657 TAATATCTCC
5742667 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5742715 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
5742740 GTTTTTTTTA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:5742880 original size:2 final size:2
Alignment explanation
Indices: 5742873--5742911 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5742863 GTATAACTTT
5742873 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5742912 TTATTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5745650 original size:37 final size:38
Alignment explanation
Indices: 5745555--5745652 Score: 92
Period size: 37 Copynumber: 2.6 Consensus size: 38
5745545 TGCATCACGA
* *
5745555 AATCATGTACAATACAGAATAGTGGCATGTATTAACATGC
1 AATCA-GTA-AATACATAACAGTGGCATGTATTAACATGC
* * ***
5745595 GATCAGTAACTTGGTAACAGTGGCATGCT-TT-ACATGC
1 AATCAGTAAATACATAACAGTGGCATG-TATTAACATGC
5745632 AATCAGTAAATACATAACAGT
1 AATCAGTAAATACATAACAGT
5745653 AAACATGCTC
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
37 22 0.49
38 15 0.33
39 4 0.09
40 4 0.09
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (38 bp):
AATCAGTAAATACATAACAGTGGCATGTATTAACATGC
Found at i:5767220 original size:147 final size:147
Alignment explanation
Indices: 5766946--5767220 Score: 424
Period size: 147 Copynumber: 1.9 Consensus size: 147
5766936 AACGAGAACG
* *
5766946 TGGTGGAGAAAAGAAAGGAATAGGGGGAATTGCAGTTGGGATTGTAGGGACTTAAGGAATGCTTG
1 TGGTGGAGAAAAGAAAGGAATAGGGGGAATTGCAGTTGGGATTATAGGGACTGAAGGAATGCTTG
* * ***
5767011 GTAGAGGGGGCAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGGTTTGGGAGA
66 GCAGAAGGGGCAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGCCATGGGAGA
5767076 TTAGGGAAAGATGGCAA
131 TTAGGGAAAGATGGCAA
* * * * * *
5767093 TGGTGGAGAAGAGAAAGGAATAGGGGGAATTGTAGTTGGGATTATGGGGACTGAGGGGATGTTTG
1 TGGTGGAGAAAAGAAAGGAATAGGGGGAATTGCAGTTGGGATTATAGGGACTGAAGGAATGCTTG
*
5767158 GCAGAAGGGGCAGTCCTGTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGCCATGGGA
66 GCAGAAGGGGCAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGCCATGGGA
5767221 ATGATGGTCG
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
147 114 1.00
ACGTcount: A:0.27, C:0.10, G:0.43, T:0.20
Consensus pattern (147 bp):
TGGTGGAGAAAAGAAAGGAATAGGGGGAATTGCAGTTGGGATTATAGGGACTGAAGGAATGCTTG
GCAGAAGGGGCAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGCCATGGGAGA
TTAGGGAAAGATGGCAA
Found at i:5773387 original size:21 final size:21
Alignment explanation
Indices: 5773361--5773406 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
5773351 GTTGGAAAAT
*
5773361 AATTATTGAGTGATGAATGAA
1 AATTATTGAGTGATAAATGAA
*
5773382 AATTATTGAGTGATAAATGAT
1 AATTATTGAGTGATAAATGAA
5773403 AATT
1 AATT
5773407 GTATCTCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (21 bp):
AATTATTGAGTGATAAATGAA
Found at i:5786560 original size:29 final size:29
Alignment explanation
Indices: 5786526--5786584 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
5786516 GGCTATATCG
* *
5786526 CTAGAACTCTAATATTTGTGGATAAACCA
1 CTAGAACTCCAATATTTATGGATAAACCA
*
5786555 CTAGAACTCCCATATTTATGGATAAACCA
1 CTAGAACTCCAATATTTATGGATAAACCA
5786584 C
1 C
5786585 CGGAACTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (29 bp):
CTAGAACTCCAATATTTATGGATAAACCA
Found at i:5788486 original size:28 final size:30
Alignment explanation
Indices: 5788420--5788480 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
5788410 GCACAAGAAG
*
5788420 ACATACATATTCGAACAACTTGCAAAACAT
1 ACATACATATTCGAACAACTTACAAAACAT
5788450 ATGCATACATATTC-AACCAACTTACAAAACA
1 A--CATACATATTCGAA-CAACTTACAAAACA
5788481 AATACACACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 1 0.04
31 2 0.07
32 24 0.89
ACGTcount: A:0.48, C:0.25, G:0.05, T:0.23
Consensus pattern (30 bp):
ACATACATATTCGAACAACTTACAAAACAT
Found at i:5789864 original size:41 final size:41
Alignment explanation
Indices: 5789807--5789920 Score: 210
Period size: 41 Copynumber: 2.8 Consensus size: 41
5789797 TGACCTTTCG
*
5789807 GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCT
1 GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCA
5789848 GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCA
*
5789889 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGC
5789921 AAAAACATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.16, C:0.22, G:0.35, T:0.27
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCA
Found at i:5790521 original size:21 final size:21
Alignment explanation
Indices: 5790497--5790542 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
5790487 TAAATAAGGT
5790497 TTAGGGG-TTAGTAGTTAGGGG
1 TTAGGGGTTTA-TAGTTAGGGG
5790518 TTAGGGGTTTATAGTTAGGGG
1 TTAGGGGTTTATAGTTAGGGG
5790539 TTAG
1 TTAG
5790543 AGCTTAGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (21 bp):
TTAGGGGTTTATAGTTAGGGG
Found at i:5791884 original size:16 final size:17
Alignment explanation
Indices: 5791853--5791890 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
5791843 TAGGTTTTTA
5791853 TTTCTATTTGGAGTTCT
1 TTTCTATTTGGAGTTCT
*
5791870 TTTCT-TTTGGGGTTCT
1 TTTCTATTTGGAGTTCT
5791886 TTTCT
1 TTTCT
5791891 GGGTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.05, C:0.13, G:0.18, T:0.63
Consensus pattern (17 bp):
TTTCTATTTGGAGTTCT
Found at i:5794549 original size:27 final size:26
Alignment explanation
Indices: 5794518--5794574 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
5794508 AATTTCGAGG
*
5794518 TTTACGATTTT-TAATTTTTATTAATT
1 TTTACG-TTTTCTAACTTTTATTAATT
*
5794544 ATTTACGTTTTCTCACTTTTATTAATT
1 -TTTACGTTTTCTAACTTTTATTAATT
5794571 TTTA
1 TTTA
5794575 TTTTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTACGTTTTCTAACTTTTATTAATT
Found at i:5794836 original size:43 final size:43
Alignment explanation
Indices: 5794762--5794984 Score: 241
Period size: 43 Copynumber: 5.2 Consensus size: 43
5794752 ATGATATGTT
* * * ** * *
5794762 TTTAGCGGCGTTTTTGCGAGAAGCATCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
5794804 TATAGCGGTGTTTGTGATAAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTG-TGAAAAGCGCCGCTAAAGGTCATGGTC
**
5794848 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
5794891 TTTAGCAGCGTTTGTGGGAAAAGTGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
5794934 TATAGCGGCATTTGTGTGAAAAGCGTCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGGTC
5794977 TTTAGCGG
1 TTTAGCGG
5794985 TGTTCGTGGT
Statistics
Matches: 151, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 13 0.09
43 119 0.79
44 19 0.13
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:5795030 original size:61 final size:62
Alignment explanation
Indices: 5794929--5795045 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 62
5794919 CTAAAGGTCA
*
5794929 TGGTCTATAGCGGCATTTGTGTGAAAAGCGTCGCTAAAGGTCATGA-TCTTTAGCGGTGTTCG
1 TGGTCTATAGCGGCATTTGTGTGAAAAGCGCCGCTAAAGGTCATGACT-TTTAGCGGTGTTCG
* * *
5794991 TGGTCTATAGTGGCGTTTGTG-GGAAAGCGCCGCTAAAGGTCATGACTTTTAGCGG
1 TGGTCTATAGCGGCATTTGTGTGAAAAGCGCCGCTAAAGGTCATGACTTTTAGCGG
5795046 CGTTTATTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
61 30 0.60
62 20 0.40
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (62 bp):
TGGTCTATAGCGGCATTTGTGTGAAAAGCGCCGCTAAAGGTCATGACTTTTAGCGGTGTTCG
Found at i:5795726 original size:42 final size:41
Alignment explanation
Indices: 5795638--5795879 Score: 277
Period size: 42 Copynumber: 5.8 Consensus size: 41
5795628 GCGTTTACAG
* * **
5795638 AAAAAAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTC
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAA
* *
5795679 GAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTCAA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT-AA
* * * *
5795721 AAAAAAGGCGTCGCTAAAGATCATGTTCTTTAGCAGCGCATAG
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TAA
* *
5795764 AGAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TAA
* * **
5795806 AGAAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAA
** *
5795847 GTAAAAACGCCGCTAGAGATCATGTTCTTTAGC
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGC
5795880 AACGCTTTCT
Statistics
Matches: 173, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
41 67 0.39
42 71 0.41
43 34 0.20
44 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAA
Found at i:5795738 original size:84 final size:83
Alignment explanation
Indices: 5795640--5795879 Score: 347
Period size: 84 Copynumber: 2.9 Consensus size: 83
5795630 GTTTACAGAA
* * *
5795640 AAAAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTCGAAAAAACGCCGCTAAAGGTCATGTT
1 AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATGTT
5795705 CTTTAGCGGCGCTCAAA-
66 CTTTAGCGGCGCTCAAAG
* * * *
5795722 AAAAAGGCGTCGCTAAAGATCATGTTCTTTAGCAGCGCATAGAGAAAAACGCCACTAAAGATCAT
1 AAAAACGC-T-GCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-AAAAACGCCGCTAAAGATCAT
*
5795787 GTTCTTTAGCGGCGCTTAAAG
63 GTTCTTTAGCGGCGCTCAAAG
* * *
5795808 AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTGGTAAAAACGCCGCTAGAGATCATGTT
1 AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATGTT
5795873 CTTTAGC
66 CTTTAGC
5795880 AACGCTTTCT
Statistics
Matches: 139, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
82 7 0.05
83 30 0.22
84 56 0.40
85 39 0.28
86 7 0.05
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (83 bp):
AAAAACGCTGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATGTT
CTTTAGCGGCGCTCAAAG
Found at i:5796407 original size:21 final size:21
Alignment explanation
Indices: 5796360--5796409 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
5796350 TTCTTTTGAA
* * *
5796360 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTACCCTCGCGGCAG
* *
5796381 CTTCTGCTACCCTCGCGGCCG
1 CCTCTGCTACCCTCGCGGCAG
5796402 CCTCTGCT
1 CCTCTGCT
5796410 TTAAGTTGTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.04, C:0.46, G:0.20, T:0.30
Consensus pattern (21 bp):
CCTCTGCTACCCTCGCGGCAG
Found at i:5801925 original size:9 final size:9
Alignment explanation
Indices: 5801911--5802434 Score: 487
Period size: 9 Copynumber: 59.4 Consensus size: 9
5801901 TTTTTATGTA
5801911 TTATGTAAG
1 TTATGTAAG
5801920 TTATGTAAG
1 TTATGTAAG
5801929 TTATGT-A-
1 TTATGTAAG
5801936 TTATGTAAG
1 TTATGTAAG
5801945 -TACTGTAAG
1 TTA-TGTAAG
5801954 -TACTGTAAG
1 TTA-TGTAAG
5801963 TTATGTAAG
1 TTATGTAAG
*
5801972 TAATGTAAG
1 TTATGTAAG
*
5801981 TAATGT-A-
1 TTATGTAAG
5801988 TTATGTAAG
1 TTATGTAAG
*
5801997 TTGTGTATA-
1 TTATGTA-AG
*
5802006 ATAT-TAA-
1 TTATGTAAG
*
5802013 TTATATAAG
1 TTATGTAAG
*
5802022 TTGTGT-A-
1 TTATGTAAG
*
5802029 TAATGTAAG
1 TTATGTAAG
*
5802038 TTAAG-AAGG
1 TTATGTAA-G
5802047 TTATGT-A-
1 TTATGTAAG
*
5802054 TTATGTAAT
1 TTATGTAAG
*
5802063 TTATTTAAG
1 TTATGTAAG
5802072 TTATGTAAG
1 TTATGTAAG
5802081 TTATGTAAG
1 TTATGTAAG
*
5802090 TTAT-TCAAT
1 TTATGT-AAG
5802099 TTATGTAAG
1 TTATGTAAG
5802108 TTATGTAAG
1 TTATGTAAG
* *
5802117 TTATTTAAT
1 TTATGTAAG
*
5802126 TTATTTAAG
1 TTATGTAAG
5802135 TTATGTAAG
1 TTATGTAAG
5802144 TTATGTAAG
1 TTATGTAAG
*
5802153 TTAT-TCAAT
1 TTATGT-AAG
5802162 TTATGTAAG
1 TTATGTAAG
5802171 TTATGTAAG
1 TTATGTAAG
* *
5802180 TTATTTAAT
1 TTATGTAAG
5802189 TTATGTAAG
1 TTATGTAAG
*
5802198 TTATGTAGG
1 TTATGTAAG
*
5802207 TTATGCAAG
1 TTATGTAAG
* *
5802216 TTATTTAAT
1 TTATGTAAG
5802225 TTATGTAAG
1 TTATGTAAG
5802234 TTATGTAAG
1 TTATGTAAG
*
5802243 TTATGTAGG
1 TTATGTAAG
**
5802252 CAATGT-A-
1 TTATGTAAG
* *
5802259 TTATATAAA
1 TTATGTAAG
*
5802268 TAATGTAAG
1 TTATGTAAG
*
5802277 TTA-GGAAGG
1 TTATGTAA-G
5802286 TTATGTATTAAG
1 TTATG---TAAG
5802298 TTATGTAAG
1 TTATGTAAG
5802307 TTATGTAAG
1 TTATGTAAG
* *
5802316 TTATTTAAT
1 TTATGTAAG
5802325 TTATGTAAG
1 TTATGTAAG
5802334 TTATGTAAG
1 TTATGTAAG
* *
5802343 TTATTTAAT
1 TTATGTAAG
5802352 TTATGTAAG
1 TTATGTAAG
5802361 TTATGTAAG
1 TTATGTAAG
5802370 TTATGTAAG
1 TTATGTAAG
* *
5802379 TTATTTAAT
1 TTATGTAAG
5802388 TTATGTAAG
1 TTATGTAAG
5802397 TTATGTAAG
1 TTATGTAAG
*
5802406 TTATGTAGG
1 TTATGTAAG
5802415 TTATGT-A-
1 TTATGTAAG
*
5802422 TTATGTTAG
1 TTATGTAAG
5802431 TTAT
1 TTAT
5802435 TATGTTATTA
Statistics
Matches: 424, Mismatches: 63, Indels: 56
0.78 0.12 0.10
Matches are distributed among these distances:
7 34 0.08
8 23 0.05
9 353 0.83
10 6 0.01
12 6 0.01
13 2 0.00
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:5802299 original size:21 final size:21
Alignment explanation
Indices: 5802273--5802313 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5802263 ATAAATAATG
5802273 TAAGTTA-GGAAGGTTATGTAT
1 TAAGTTATGGAA-GTTATGTAT
*
5802294 TAAGTTATGTAAGTTATGTA
1 TAAGTTATGGAAGTTATGTA
5802314 AGTTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (21 bp):
TAAGTTATGGAAGTTATGTAT
Found at i:5804096 original size:15 final size:15
Alignment explanation
Indices: 5804057--5804096 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
5804047 TAAAATCGAG
5804057 GAAATTGGGGGAAAA
1 GAAATTGGGGGAAAA
* *
5804072 GGAATTGGGGGAAAT
1 GAAATTGGGGGAAAA
*
5804087 GAAATCGGGG
1 GAAATTGGGG
5804097 AAGTTGGGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.03, G:0.45, T:0.15
Consensus pattern (15 bp):
GAAATTGGGGGAAAA
Found at i:5804392 original size:116 final size:116
Alignment explanation
Indices: 5804266--5804537 Score: 316
Period size: 116 Copynumber: 2.3 Consensus size: 116
5804256 TCCCATATAG
* * *
5804266 AAAACGACAACGTTTAGCCAACACTAAAAACATATTTGCTGCATTTATAAT-AAAAACGCCACTA
1 AAAACGACAACGTTTAGCCAAAACTAAAAACATAATTGCGGCATTT-TAATAAAAAACGCCACTA
* * *
5804330 AAACATATCCTTTACCGGCGTTTTAGTACAAACGCCACTAA-AATCATAGATA
65 AAACATAACCTTTACCGGCGTTTTAGTAAAAACGCCACCAATAAT-ATAGATA
* * * * *
5804382 AAAACGACAACGTTTAGCGAAAACTTATAACATAATTGCGGCATTTTTATAAAAAACGCCACTAC
1 AAAACGACAACGTTTAGCCAAAACTAAAAACATAATTGCGGCATTTTAATAAAAAACGCCACTAA
* ** * * *
5804447 CACATAACCTTTTGCGGCGTTTTTGTAAAAATGCCACCAATAATGTAGATA
66 AACATAACCTTTACCGGCGTTTTAGTAAAAACGCCACCAATAATATAGATA
* * *
5804498 AAAATGACAACGTTTA-CAAAAGACTAATAACATAATTGCG
1 AAAACGACAACGTTTAGCCAAA-ACTAAAAACATAATTGCG
5804538 ACGTTACCTG
Statistics
Matches: 133, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
115 7 0.05
116 123 0.92
117 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (116 bp):
AAAACGACAACGTTTAGCCAAAACTAAAAACATAATTGCGGCATTTTAATAAAAAACGCCACTAA
AACATAACCTTTACCGGCGTTTTAGTAAAAACGCCACCAATAATATAGATA
Found at i:5804612 original size:114 final size:114
Alignment explanation
Indices: 5804441--5804649 Score: 278
Period size: 114 Copynumber: 1.8 Consensus size: 114
5804431 TAAAAAACGC
* * * * ** *
5804441 CACTACCACATAACCTTTTGCGGCGTTTTTGTAAAAATGCCACCAATAATGTAGATAAAAATGAC
1 CACTAACACATAACATTTTGCGGCGTTTTGGCAAAAATGCCACCAATAACCTAGATAAAAACGAC
* *
5804506 AACGTTT-ACAAAAGACTAATAACATAATTGCGACGTTACCTGAAAATGG
66 AACGTTTAAC-AAAGACAAAAAACATAATTGCGACGTTACCTGAAAATGG
* * *
5804555 CACTAACACATATCATTTTGCGGCGTTTTGGCAAAAATGCCACTGAA-AACCTGGATAAAAACGA
1 CACTAACACATAACATTTTGCGGCGTTTTGGCAAAAATGCCAC-CAATAACCTAGATAAAAACGA
5804619 CAACGTTTAACAAAGACAAAAAACATAATTG
65 CAACGTTTAACAAAGACAAAAAACATAATTG
5804650 TGGCTTTTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
114 77 0.95
115 4 0.05
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (114 bp):
CACTAACACATAACATTTTGCGGCGTTTTGGCAAAAATGCCACCAATAACCTAGATAAAAACGAC
AACGTTTAACAAAGACAAAAAACATAATTGCGACGTTACCTGAAAATGG
Found at i:5805159 original size:22 final size:22
Alignment explanation
Indices: 5805121--5805166 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5805111 TTAAAATCGT
*
5805121 AAATCATAAATTATAAACCCTA
1 AAATCATAAACTATAAACCCTA
*
5805143 AAATCATAAACCT-TAAACCTTA
1 AAATCATAAA-CTATAAACCCTA
5805165 AA
1 AA
5805167 CCCTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATCATAAACTATAAACCCTA
Found at i:5805159 original size:29 final size:29
Alignment explanation
Indices: 5805107--5805173 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
5805097 ACCCTAAATT
* * * *
5805107 AACCTTAAAATCGTAAATCATAAA-TTATA
1 AACCCTAAAATCATAAACCATAAACCT-TA
*
5805136 AACCCTAAAATCATAAACCTTAAACCTTA
1 AACCCTAAAATCATAAACCATAAACCTTA
5805165 AACCCTAAA
1 AACCCTAAA
5805174 CCCTAAAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.51, C:0.22, G:0.01, T:0.25
Consensus pattern (29 bp):
AACCCTAAAATCATAAACCATAAACCTTA
Found at i:5805214 original size:8 final size:8
Alignment explanation
Indices: 5805149--5805238 Score: 59
Period size: 7 Copynumber: 11.9 Consensus size: 8
5805139 CCTAAAATCA
5805149 TAAA-CCT
1 TAAACCCT
5805156 TAAA-CCT
1 TAAACCCT
5805163 TAAACCC-
1 TAAACCCT
5805170 TAAACCC-
1 TAAACCCT
*
5805177 TAAAACC-
1 TAAACCCT
**
5805184 TAAACCAG
1 TAAACCCT
*
5805192 TAAACCCCA
1 TAAA-CCCT
*
5805201 TGAACCCT
1 TAAACCCT
*
5805209 TAAACCCC
1 TAAACCCT
5805217 T-AA-CCT
1 TAAACCCT
5805223 ATAAACCCT
1 -TAAACCCT
5805232 TAAACCC
1 TAAACCC
5805239 AAAACTCTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
6 2 0.03
7 32 0.48
8 25 0.37
9 8 0.12
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.19
Consensus pattern (8 bp):
TAAACCCT
Found at i:5805289 original size:22 final size:22
Alignment explanation
Indices: 5805255--5805314 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
5805245 CTAAGCCGCT
*
5805255 ACCCCTTAGACCCTAAGC-CCATA
1 ACCCC-TAAACCCTAAGCTCC-TA
*
5805278 ACCCCTAAACCCTATGCTCCTA
1 ACCCCTAAACCCTAAGCTCCTA
* *
5805300 ACCACTAAACACTAA
1 ACCCCTAAACCCTAA
5805315 ACCATAAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 24 0.77
23 7 0.23
ACGTcount: A:0.35, C:0.42, G:0.05, T:0.18
Consensus pattern (22 bp):
ACCCCTAAACCCTAAGCTCCTA
Found at i:5813078 original size:30 final size:30
Alignment explanation
Indices: 5813019--5813078 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
5813009 TTAACATGAA
* *
5813019 TGTTTAAATTGCAAACATTTTTATTTTTGG
1 TGTTTAAAATGCAAACATTTTTATATTTGG
5813049 TGTTTAAAATG-AAA-ATTTTTTAATATTTGG
1 TGTTTAAAATGCAAACA-TTTTT-ATATTTGG
5813079 GTGACTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 8 0.31
30 17 0.65
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (30 bp):
TGTTTAAAATGCAAACATTTTTATATTTGG
Found at i:5813338 original size:20 final size:21
Alignment explanation
Indices: 5813301--5813343 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 21
5813291 TATGCAGCAG
5813301 ATAAACCAAAGGGGGTATTTCA
1 ATAAACCAAA-GGGGTATTTCA
5813323 ATAAACCAAA-GGGTATTTCA
1 ATAAACCAAAGGGGTATTTCA
5813343 A
1 A
5813344 GGAGTAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (21 bp):
ATAAACCAAAGGGGTATTTCA
Found at i:5814217 original size:21 final size:21
Alignment explanation
Indices: 5814179--5814221 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
5814169 TGGAATGATT
*
5814179 CAAACAAATACTTTGAAATGA
1 CAAACAAATACTTCGAAATGA
5814200 CAAACAAATAAC-TCGAAATGA
1 CAAACAAAT-ACTTCGAAATGA
5814221 C
1 C
5814222 CTAAATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (21 bp):
CAAACAAATACTTCGAAATGA
Found at i:5818541 original size:194 final size:196
Alignment explanation
Indices: 5818207--5818604 Score: 631
Period size: 194 Copynumber: 2.0 Consensus size: 196
5818197 AATTCTTTAG
* *
5818207 TTCAGGGAGACAACCTAAAATAATAGTTTTTGAAAAACAAATTATCATGCTTGACTCTCTCGTGT
1 TTCAGGGAGACAACCTAAAATAATAATTTCTGAAAAACAAATTATCATGCTTGACTCTCTCGTGT
* * *
5818272 CTTAAAATATTAATCACACAATGCACAAATATCCACAAATTATTCCCAAAATAGAATCACTAAAA
66 CTTAAAATATTAATCACACAATGCACAAACATCCACAAATTATTCACAAAACAGAATCACTAAAA
* *
5818337 ACTCTAAATT-AAAAAAATAACTTTAATGATAGGTGTGAGAAAATCACTTAAAC-ACGAACAATA
131 ACTCTAAATTAAAAAAAATAACTTCAATGATAGGTGTGAGAAAATCACTTAAACAACAAACAATA
5818400 A
196 A
* *
5818401 TTCATGGAGAC-ACCTAAAATAATAATTTCTGAAAAACAACTTATCATGCTTGACTCTCTCGTGT
1 TTCAGGGAGACAACCTAAAATAATAATTTCTGAAAAACAAATTATCATGCTTGACTCTCTCGTGT
* *
5818465 CTTAAAAATATTAATTACACAATGCACAAACATCCACAAATTATTCACAAAACAGAATCACTTAA
66 CTT-AAAATATTAATCACACAATGCACAAACATCCACAAATTATTCACAAAACAGAATCACTAAA
*
5818530 AACTCTAAATTAAAAAAAAAATAACTTCAATGATAGGTGTGAGAAAATTACTTAAACATACAAAC
130 AACTCTAAATT--AAAAAAAATAACTTCAATGATAGGTGTGAGAAAATCACTTAAACA-ACAAAC
5818595 AATAA
192 AATAA
5818600 TTCAG
1 TTCAG
5818605 AGATTTCATC
Statistics
Matches: 185, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
193 53 0.29
194 77 0.42
197 41 0.22
199 14 0.08
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.27
Consensus pattern (196 bp):
TTCAGGGAGACAACCTAAAATAATAATTTCTGAAAAACAAATTATCATGCTTGACTCTCTCGTGT
CTTAAAATATTAATCACACAATGCACAAACATCCACAAATTATTCACAAAACAGAATCACTAAAA
ACTCTAAATTAAAAAAAATAACTTCAATGATAGGTGTGAGAAAATCACTTAAACAACAAACAATA
A
Found at i:5819547 original size:16 final size:15
Alignment explanation
Indices: 5819526--5819560 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
5819516 TTTTTTCCAA
5819526 TTTTTTT-AAATATAT
1 TTTTTTTCAAAT-TAT
5819541 TTTTTTTCAAATTAT
1 TTTTTTTCAAATTAT
5819556 TTTTT
1 TTTTT
5819561 AATTTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTTCAAATTAT
Found at i:5820409 original size:14 final size:14
Alignment explanation
Indices: 5820390--5820420 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5820380 TGATTGCTTT
*
5820390 TAATCTAAATTTAC
1 TAATCTAAATTAAC
5820404 TAATCTAAATTAAC
1 TAATCTAAATTAAC
5820418 TAA
1 TAA
5820421 GAACACAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:5828010 original size:12 final size:12
Alignment explanation
Indices: 5827987--5828024 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5827977 TAAGTCTAAG
*
5827987 AAAATAACAATA
1 AAAATAAAAATA
*
5827999 AACATAAAAATA
1 AAAATAAAAATA
5828011 AAAAT-AAAATA
1 AAAATAAAAATA
5828022 AAA
1 AAA
5828025 CAAATGGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:5828010 original size:18 final size:17
Alignment explanation
Indices: 5827987--5828024 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
5827977 TAAGTCTAAG
*
5827987 AAAATAACAATAAACATA
1 AAAATAAAAATAAA-ATA
5828005 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
5828022 AAA
1 AAA
5828025 CAAATGGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:5829685 original size:5 final size:5
Alignment explanation
Indices: 5829675--5829718 Score: 61
Period size: 5 Copynumber: 8.2 Consensus size: 5
5829665 AATAATGAAT
5829675 AAATA AAATA AAATA AAATA AAATA AAACTA ATAATA ATAATA A
1 AAATA AAATA AAATA AAATA AAATA AAA-TA A-AATA A-AATA A
5829719 GAAACAAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
5 23 0.62
6 12 0.32
7 2 0.05
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:5830798 original size:113 final size:114
Alignment explanation
Indices: 5830597--5830809 Score: 279
Period size: 113 Copynumber: 1.9 Consensus size: 114
5830587 GATTTTTGAA
* * * *
5830597 AAAACTAAGTCCTAGAATCCACACGACCAAGGACACGTCCGTGAGTCTAGGCTGTGTGGGTCAGA
1 AAAACTAAGTCCTAGAATCCACACGACAAAGGACACGTCCGTGAGTCTAGGCCGTGTAGGTCACA
* * *
5830662 TGGCCATGTCGCCATGCCATGTAACTCATTATCGATTTTTTAAAATTTT
66 CGGCCATGTCGCCAGGCCATGTAACTCACTATCGATTTTTTAAAATTTT
* * *
5830711 AAAACTAAGTCTTA-AGATCCACATG-CAAAGGACACG-CCTGTGTGTCTAGGCCGTGTAGGTCA
1 AAAACTAAGTCCTAGA-ATCCACACGACAAAGGACACGTCC-GTGAGTCTAGGCCGTGTAGGTCA
* *
5830773 CACGGCGATGTCGCCAGGCCGTGTAACTCACTATCGA
64 CACGGCCATGTCGCCAGGCCATGTAACTCACTATCGA
5830810 ACCCCTTTTA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
112 2 0.02
113 62 0.73
114 21 0.25
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (114 bp):
AAAACTAAGTCCTAGAATCCACACGACAAAGGACACGTCCGTGAGTCTAGGCCGTGTAGGTCACA
CGGCCATGTCGCCAGGCCATGTAACTCACTATCGATTTTTTAAAATTTT
Found at i:5837732 original size:21 final size:21
Alignment explanation
Indices: 5837708--5837766 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
5837698 AAAATATCGT
* *
5837708 TGTGTGTCTATTTCACACGCC
1 TGTGTGGCTAATTCACACGCC
5837729 TGTGTGGCTAATTCACACGCC
1 TGTGTGGCTAATTCACACGCC
5837750 TGTGTGGCTAATTCACA
1 TGTGTGGCTAATTCACA
5837767 GTCCTATGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (21 bp):
TGTGTGGCTAATTCACACGCC
Found at i:5838387 original size:16 final size:17
Alignment explanation
Indices: 5838355--5838387 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5838345 ATTCACATGA
5838355 ACCAAAATCATTTCAAG
1 ACCAAAATCATTTCAAG
5838372 ACCAAAATCA-TTCAAG
1 ACCAAAATCATTTCAAG
5838388 TCTAGCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCAAAATCATTTCAAG
Found at i:5843467 original size:24 final size:24
Alignment explanation
Indices: 5843439--5843490 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
5843429 TTAGTAAGTC
* *
5843439 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
5843463 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
5843487 AAAT
1 AAAT
5843491 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:5846417 original size:7 final size:7
Alignment explanation
Indices: 5846391--5846454 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
5846381 TGAGAGCTAA
*
5846391 GAGAGTT
1 GAGAGAT
5846398 GAGAGA-
1 GAGAGAT
5846404 GAG-GAT
1 GAGAGAT
5846410 GAGAGATGT
1 GAGAGA--T
5846419 GAGAGAT
1 GAGAGAT
5846426 GATGAGAT
1 GA-GAGAT
*
5846434 GAGGGAT
1 GAGAGAT
*
5846441 GAGGGAT
1 GAGAGAT
5846448 GATGAGA
1 GA-GAGA
5846455 AATGAGCTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
5 2 0.04
6 6 0.12
7 23 0.48
8 10 0.21
9 7 0.15
ACGTcount: A:0.36, C:0.00, G:0.47, T:0.17
Consensus pattern (7 bp):
GAGAGAT
Found at i:5846421 original size:9 final size:10
Alignment explanation
Indices: 5846391--5846459 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
5846381 TGAGAGCTAA
*
5846391 GAGAGTTGA-
1 GAGAGATGAT
*
5846400 GAGAGAGGAT
1 GAGAGATGAT
5846410 GAGAGATG-T
1 GAGAGATGAT
5846419 GAGAGATGAT
1 GAGAGATGAT
*
5846429 GAGATGAGGGAT
1 GAGA-GA-TGAT
*
5846441 GAGGGATGAT
1 GAGAGATGAT
*
5846451 GAGAAATGA
1 GAGAGATGA
5846460 GCTCTTATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
9 16 0.33
10 22 0.46
11 4 0.08
12 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.45, T:0.17
Consensus pattern (10 bp):
GAGAGATGAT
Found at i:5846432 original size:17 final size:17
Alignment explanation
Indices: 5846402--5846454 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
5846392 AGAGTTGAGA
5846402 GAGAGGATGAGAGATGT
1 GAGAGGATGAGAGATGT
5846419 GAGA-GATGATGAGA--T
1 GAGAGGATGA-GAGATGT
*
5846434 GAG-GGATGAGGGATGAT
1 GAGAGGATGAGAGATG-T
5846451 GAGA
1 GAGA
5846455 AATGAGCTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 11
0.71 0.02 0.27
Matches are distributed among these distances:
14 3 0.10
15 9 0.31
16 5 0.17
17 12 0.41
ACGTcount: A:0.36, C:0.00, G:0.47, T:0.17
Consensus pattern (17 bp):
GAGAGGATGAGAGATGT
Found at i:5849595 original size:23 final size:22
Alignment explanation
Indices: 5849457--5849598 Score: 72
Period size: 23 Copynumber: 6.0 Consensus size: 22
5849447 TTTTTCTTTT
* * *
5849457 AAAATAATGCCTAATAAATCTGA
1 AAAATAATACATAATAAAT-TTA
*
5849480 AATGATAATACATAATAAATTTA
1 AA-AATAATACATAATAAATTTA
* **
5849503 AAAATAAATATATAATAAAGCTA
1 AAAAT-AATACATAATAAATTTA
*
5849526 AGCTAATAATACATAA-AAATTTA
1 A--AAATAATACATAATAAATTTA
***
5849549 TGATGTTAATA-ATATATTGAAATTTA
1 --AAAATAATACATA-A-T-AAATTTA
5849575 AAAATAATACATAATGAAATTTA
1 AAAATAATACATAAT-AAATTTA
5849598 A
1 A
5849599 CGCTAATAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
22 5 0.05
23 43 0.47
24 29 0.32
25 7 0.08
26 7 0.08
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (22 bp):
AAAATAATACATAATAAATTTA
Found at i:5856269 original size:12 final size:11
Alignment explanation
Indices: 5856254--5856317 Score: 60
Period size: 12 Copynumber: 5.8 Consensus size: 11
5856244 GCAACCCAAT
5856254 TTTTATTTTTA
1 TTTTATTTTTA
*
5856265 TTTT-TATTTA
1 TTTTATTTTTA
*
5856275 TTTTTTTCTTTA
1 TTTTATT-TTTA
*
5856287 CTTTATTTATTA
1 TTTTATTT-TTA
*
5856299 CTTTA-TTTTA
1 TTTTATTTTTA
5856309 TTTTATTTT
1 TTTTATTTT
5856318 ACTTATTGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
10 16 0.36
11 11 0.25
12 17 0.39
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:5856278 original size:21 final size:21
Alignment explanation
Indices: 5856254--5856297 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5856244 GCAACCCAAT
*
5856254 TTTTATT-TTTATTTTTATTTA
1 TTTTATTCTTTA-CTTTATTTA
*
5856275 TTTTTTTCTTTACTTTATTTA
1 TTTTATTCTTTACTTTATTTA
5856296 TT
1 TT
5856298 ACTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTATTCTTTACTTTATTTA
Found at i:5856291 original size:17 final size:16
Alignment explanation
Indices: 5856255--5856312 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
5856245 CAACCCAATT
5856255 TTTATTTTTATT-TTTA
1 TTTATTTTT-TTCTTTA
5856271 TTTATTTTTTTCTTTA
1 TTTATTTTTTTCTTTA
* *
5856287 CTTTATTTATTACTTTA
1 -TTTATTTTTTTCTTTA
5856304 TTTTATTTT
1 -TTTATTTT
5856313 ATTTTACTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 2 0.06
16 13 0.36
17 21 0.58
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTTTTTCTTTA
Found at i:5856313 original size:27 final size:28
Alignment explanation
Indices: 5856261--5856324 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
5856251 AATTTTTATT
*
5856261 TTTATTT-TTATTTATTTTTTTCTTTAC
1 TTTATTTATTATTTATTTTTATCTTTAC
*
5856288 TTTATTTATTACTTTA-TTTTAT-TTTAT
1 TTTATTTATTA-TTTATTTTTATCTTTAC
*
5856315 TTTACTTATT
1 TTTATTTATT
5856325 GGATATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 20 0.62
28 8 0.25
29 4 0.12
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTATTTATTATTTATTTTTATCTTTAC
Found at i:5857357 original size:16 final size:15
Alignment explanation
Indices: 5857336--5857365 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
5857326 TAAAGCATAA
5857336 AAAAAGAGAAAAAAAC
1 AAAAAGA-AAAAAAAC
5857352 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
5857366 TAATTTGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAC
Found at i:5859999 original size:44 final size:43
Alignment explanation
Indices: 5859951--5860166 Score: 315
Period size: 44 Copynumber: 4.9 Consensus size: 43
5859941 CATAAATCTT
* *
5859951 ACAATCTTCAACCTATTTCACTGCTGTCCCGGGATATAGGATTC
1 ACAATCTTCAACCTA-TTCACTGCTGTCCAGGGAGATAGGATTC
* * *
5859995 ACAATCTTTAACCTACTCCACTGCTATCCAGGGAGATAGGATTC
1 ACAATCTTCAACCTA-TTCACTGCTGTCCAGGGAGATAGGATTC
*
5860039 ACAATCTTCAACCTACTCTACTGCTGTCCAGGGAGATAGGATTC
1 ACAATCTTCAACCTATTC-ACTGCTGTCCAGGGAGATAGGATTC
* *
5860083 ACAATCTTTAACCTACTCTACTGCTGTCCAGGGAGATAGGATTC
1 ACAATCTTCAACCTATTC-ACTGCTGTCCAGGGAGATAGGATTC
5860127 ACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGG
1 ACAATCTTCAACCTATT-CACTGCTGTCCAGGGAGATAGG
5860167 GCTGGGGTCA
Statistics
Matches: 157, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
43 1 0.01
44 155 0.99
45 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
ACAATCTTCAACCTATTCACTGCTGTCCAGGGAGATAGGATTC
Found at i:5860065 original size:88 final size:87
Alignment explanation
Indices: 5859951--5860166 Score: 351
Period size: 88 Copynumber: 2.4 Consensus size: 87
5859941 CATAAATCTT
* * *
5859951 ACAATCTTCAACCTATTTCACTGCTGTCCCGGGATATAGGATTCACAATCTTTAACCTACTCCAC
1 ACAATCTTCAACCTATCT-ACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTACTCCAC
5860016 TGCTATCCAGGGAGATAGGATTC
65 TGCTATCCAGGGAGATAGGATTC
*
5860039 ACAATCTTCAACCTACTCTACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTACTCTAC
1 ACAATCTTCAACCTA-TCTACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTACTCCAC
*
5860104 TGCTGTCCAGGGAGATAGGATTC
65 TGCTATCCAGGGAGATAGGATTC
*
5860127 ACAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGG
1 ACAATCTTCAACCTA-TCTACTGCTGTCCAGGGAGATAGG
5860167 GCTGGGGTCA
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 118 0.98
89 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (87 bp):
ACAATCTTCAACCTATCTACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTACTCCACT
GCTATCCAGGGAGATAGGATTC
Found at i:5867438 original size:23 final size:22
Alignment explanation
Indices: 5867297--5867438 Score: 63
Period size: 23 Copynumber: 6.0 Consensus size: 22
5867287 TTTTTCTTTT
* * *
5867297 AAAATAATGCCTAATAAATCTGA
1 AAAATAATACATAATAAAT-TTA
*
5867320 AATGATAATACATAATAAATTTA
1 AA-AATAATACATAATAAATTTA
* *
5867343 AAAATAAATATATAATAAATCTA
1 AAAAT-AATACATAATAAATTTA
* *
5867366 AGCTAATAATACATAA-AAGTTTA
1 A--AAATAATACATAATAAATTTA
*** *
5867389 TGATGTTAATA-ATATATTGTAATTTA
1 --AAAATAATACATA-A-T-AAATTTA
5867415 AAAATAATACATAATGAAATTTA
1 AAAATAATACATAAT-AAATTTA
5867438 A
1 A
5867439 TGCTAATATA
Statistics
Matches: 89, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
22 5 0.06
23 43 0.48
24 29 0.33
25 7 0.08
26 5 0.06
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (22 bp):
AAAATAATACATAATAAATTTA
Found at i:5867553 original size:20 final size:20
Alignment explanation
Indices: 5867512--5867560 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
5867502 GTACATATAT
*
5867512 ATATAAAT-AGATAAATAAA
1 ATATAAATAACATAAATAAA
* *
5867531 ATATAAATAACATAATTACA
1 ATATAAATAACATAAATAAA
*
5867551 ATATCAATAA
1 ATATAAATAA
5867561 GGCTAGTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (20 bp):
ATATAAATAACATAAATAAA
Found at i:5874627 original size:14 final size:15
Alignment explanation
Indices: 5874596--5874634 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
5874586 ATTGAATAGG
*
5874596 GAACAAAAGAGCGAA
1 GAACAAAAAAGCGAA
5874611 GAACAAAAAAG-GAA
1 GAACAAAAAAGCGAA
5874625 GAA-AAAAAAG
1 GAACAAAAAAG
5874635 AAAAGCAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.30
14 6 0.26
15 10 0.43
ACGTcount: A:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (15 bp):
GAACAAAAAAGCGAA
Found at i:5875877 original size:175 final size:173
Alignment explanation
Indices: 5875524--5875879 Score: 532
Period size: 175 Copynumber: 2.0 Consensus size: 173
5875514 TTATCTGTGG
* * *
5875524 GATAAGGTCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATC
1 GATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATC
* * * * *
5875589 TGCTTTACCGTAACTTCAGAGAGAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAG
66 TACTCTACCGTAACTTCAGAGAGAAGATCCTTTATTTCAATCTGCTCCACTATAATCTCAGGGAA
* *
5875654 ATAGGATTACTAGCTTCAATCTGCCCCGCTGTAATCTCAGGGA
131 ATAGGATTACTAGCTTCAATCTACCCCGCAGTAATCTCAGGGA
* * * *
5875697 GATAAGATCTAAAATTTTTCGGTCTATTCCATTGTAATCTTAGGGAGATAAGACCTGATGCAATC
1 GATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATC
* * *
5875762 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAATCTGTTCCACTATAATCTTAGGG
66 TACTCTACCGTAACTTCAGAGAG--AAGATCCTTTATTTCAATCTGCTCCACTATAATCTCAGGG
*
5875827 AAATAGGATTACTAGCTTCAATCTACTCCGCAGTAATCTCAGGGA
129 AAATAGGATTACTAGCTTCAATCTACCCCGCAGTAATCTCAGGGA
5875872 GATAAGAT
1 GATAAGAT
5875880 TCACCATTTT
Statistics
Matches: 163, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
173 78 0.48
175 85 0.52
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (173 bp):
GATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATC
TACTCTACCGTAACTTCAGAGAGAAGATCCTTTATTTCAATCTGCTCCACTATAATCTCAGGGAA
ATAGGATTACTAGCTTCAATCTACCCCGCAGTAATCTCAGGGA
Found at i:5875921 original size:173 final size:172
Alignment explanation
Indices: 5875524--5875922 Score: 473
Period size: 173 Copynumber: 2.3 Consensus size: 172
5875514 TTATCTGTGG
* * * * * * * *
5875524 GATAAGGTCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATC
1 GATAAGATCTAAAATTTTTCGATCTACTCCA-TCTAATCTTAGGGAGATAAGACCTGATACAATC
* * * * *
5875589 TGCTTTACCGTAACTTCAGAGAGAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAG
65 TACTCTACCGTAACTTCAGAGAGAAGATCCTTTATTTCAATCTGCTCCACTATAATCTCAGGGAA
* *
5875654 ATAGGATTACTAGCTTCAATCTGCCCCGCTGTAATCTCAGGGA
130 ATAGGATTACTAGCTTCAATCTACCCCGCAGTAATCTCAGGGA
* * * *
5875697 GATAAGATCTAAAATTTTTCGGTCTATTCCATTGTAATCTTAGGGAGATAAGACCTGATGCAATC
1 GATAAGATCTAAAATTTTTCGATCTACTCCA-TCTAATCTTAGGGAGATAAGACCTGATACAATC
* * *
5875762 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAATCTGTTCCACTATAATCTTAGGG
65 TACTCTACCGTAACTTCAGAGAG--AAGATCCTTTATTTCAATCTGCTCCACTATAATCTCAGGG
*
5875827 AAATAGGATTACTAGCTTCAATCTACTCCGCAGTAATCTCAGGGA
128 AAATAGGATTACTAGCTTCAATCTACCCCGCAGTAATCTCAGGGA
** *
5875872 GATAAGAT-TCACCA-TTTTCGAT-TAGCTCCA-CTATTGCTTAGGGAGATAAGA
1 GATAAGATCT-AAAATTTTTCGATCTA-CTCCATCTAAT-CTTAGGGAGATAAGA
5875923 TCTGGAATTC
Statistics
Matches: 197, Mismatches: 24, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
172 3 0.02
173 95 0.48
174 12 0.06
175 87 0.44
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (172 bp):
GATAAGATCTAAAATTTTTCGATCTACTCCATCTAATCTTAGGGAGATAAGACCTGATACAATCT
ACTCTACCGTAACTTCAGAGAGAAGATCCTTTATTTCAATCTGCTCCACTATAATCTCAGGGAAA
TAGGATTACTAGCTTCAATCTACCCCGCAGTAATCTCAGGGA
Found at i:5876019 original size:219 final size:219
Alignment explanation
Indices: 5875689--5876145 Score: 709
Period size: 219 Copynumber: 2.1 Consensus size: 219
5875679 CCGCTGTAAT
* * * *
5875689 CTCAGGGAGATAAGATCTAAAATTTTTCGGTCTATTCCATTGTAATCTTAGGGAGATAAGACCTG
1 CTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTG
*
5875754 ATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAAT-CTGTTCCACTATA
66 ATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAATCCT-CTCCACTATA
* *
5875818 ATCTTAGGGAAATAGGATTACTAGCTTCAATCTACTCCGCAGTAATCTCAGGGAGATAAGATTCA
130 ATCTCAGGGAAATAGGATTACTAGCTTCAATCTACTCCGCAGTAATCTCAGGGAGATAAGACTCA
*
5875883 CCATTTTCGATTAGCTCCACTATTG
195 CCATCTTCGATTAGCTCCACTATTG
* *
5875908 CTTAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTG
1 CTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTG
** * *
5875973 ATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCTCTCCACTGTAA
66 ATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAATCCTCTCCACTATAA
* * * *
5876038 TCTCAGGGAATTAGGATTATTGGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGACTCAC
131 TCTCAGGGAAATAGGATTACTAGCTTCAATCTACTCCGCAGTAATCTCAGGGAGATAAGACTCAC
* *
5876103 CATCTTCGATTTGCTCCGCTATTG
196 CATCTTCGATTAGCTCCACTATTG
*
5876127 CTCAGGGAGACAAGATCTG
1 CTCAGGGAGATAAGATCTG
5876146 TTATATTCAC
Statistics
Matches: 215, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
219 213 0.99
220 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (219 bp):
CTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTG
ATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTCAATCCTCTCCACTATAA
TCTCAGGGAAATAGGATTACTAGCTTCAATCTACTCCGCAGTAATCTCAGGGAGATAAGACTCAC
CATCTTCGATTAGCTCCACTATTG
Found at i:5877401 original size:7 final size:7
Alignment explanation
Indices: 5877382--5877416 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
5877372 TTAGCCTCTC
5877382 CATTTTT
1 CATTTTT
5877389 -ACTTTTT
1 CA-TTTTT
5877396 CATTTTT
1 CATTTTT
5877403 CATTTTT
1 CATTTTT
5877410 CATTTTT
1 CATTTTT
5877417 TTTTAAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 1 0.04
7 24 0.92
8 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:5890740 original size:20 final size:20
Alignment explanation
Indices: 5890715--5890752 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5890705 ACCCCCTTTA
5890715 TTAACATAAA-AATTTAAAAT
1 TTAACA-AAATAATTTAAAAT
5890735 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
5890753 CTAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAACAAAATAATTTAAAAT
Found at i:5901335 original size:21 final size:21
Alignment explanation
Indices: 5901305--5901356 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
5901295 AATAATACAT
5901305 TATT-TTTTAAATTATTATCAA
1 TATTATTTTAAATT-TTATCAA
*
5901326 TA-TGTTTT-AATTTTATCAA
1 TATTATTTTAAATTTTATCAA
5901345 TATTATTTTAAA
1 TATTATTTTAAA
5901357 AATATATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 9 0.33
20 10 0.37
21 8 0.30
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTATTTTAAATTTTATCAA
Found at i:5901343 original size:19 final size:21
Alignment explanation
Indices: 5901309--5901356 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
5901299 ATACATTATT
5901309 TTTTAAATTATTATCAATATG
1 TTTTAAATTATTATCAATATG
*
5901330 TTTT-AATT-TTATCAATATTA
1 TTTTAAATTATTATCAATA-TG
5901350 TTTTAAA
1 TTTTAAA
5901357 AATATATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.38
20 9 0.38
21 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTAAATTATTATCAATATG
Found at i:5905033 original size:18 final size:18
Alignment explanation
Indices: 5905010--5905047 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
5905000 GGCAGGAGTT
5905010 AGCTTCGCTATTGAAGGA
1 AGCTTCGCTATTGAAGGA
5905028 AGCTTCGCTATTGAAGGA
1 AGCTTCGCTATTGAAGGA
5905046 AG
1 AG
5905048 TTAAAGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (18 bp):
AGCTTCGCTATTGAAGGA
Found at i:5910662 original size:21 final size:21
Alignment explanation
Indices: 5910631--5910684 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
5910621 AATAATACAT
*
5910631 TATTTTTTTAAATTATTATCAA
1 TATTATTTTAAATT-TTATCAA
*
5910653 TA-TGTTTT-AATTTTATCAA
1 TATTATTTTAAATTTTATCAA
5910672 TATTATTTTAAAT
1 TATTATTTTAAAT
5910685 ATATATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 9 0.32
20 9 0.32
21 8 0.29
22 2 0.07
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTATTTTAAATTTTATCAA
Found at i:5915655 original size:3 final size:3
Alignment explanation
Indices: 5915647--5915763 Score: 112
Period size: 3 Copynumber: 36.7 Consensus size: 3
5915637 TTTAGTCCCG
* *
5915647 TTA TTA TTA TTA TTTA TTA -AA CTAA TTA GTT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA
5915693 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTGCA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A -TTA TTA TTA TTA
*
5915741 CCTA CCTTA TTA TTA TTA TTA TT
1 -TTA --TTA TTA TTA TTA TTA TT
5915764 TACCCATTTA
Statistics
Matches: 100, Mismatches: 4, Indels: 20
0.81 0.03 0.16
Matches are distributed among these distances:
2 3 0.03
3 81 0.81
4 10 0.10
5 4 0.04
6 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:5915774 original size:21 final size:19
Alignment explanation
Indices: 5915678--5915774 Score: 74
Period size: 18 Copynumber: 5.1 Consensus size: 19
5915668 CTAATTAGTT
**
5915678 TTATTATTATTATTA-TTA
1 TTATTATTATTACCATTTA
**
5915696 TTATTATTATTATTA-TTA
1 TTATTATTATTACCATTTA
*
5915714 TTATTATTATT-GCATTTA
1 TTATTATTATTACCATTTA
* *
5915732 TTATTATTACCTACCTTATTA
1 TTATTATTA-TTACCAT-TTA
5915753 TTATTATTATTTACCCATTTA
1 TTATTATTA-TTA-CCATTTA
5915774 T
1 T
5915775 ACCGTTTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
17 1 0.02
18 41 0.62
19 1 0.02
20 2 0.03
21 18 0.27
22 3 0.05
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (19 bp):
TTATTATTATTACCATTTA
Found at i:5915823 original size:18 final size:18
Alignment explanation
Indices: 5915800--5915839 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
5915790 TGTTATATAT
5915800 ATATATATACATACTTAC
1 ATATATATACATACTTAC
*
5915818 ATATATATACATACTTAT
1 ATATATATACATACTTAC
5915836 ATAT
1 ATAT
5915840 TTTTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATATATACATACTTAC
Found at i:5922361 original size:19 final size:20
Alignment explanation
Indices: 5922314--5922361 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
5922304 ATTAATAAAC
*
5922314 TTAACAAATAAAAATTTATCA
1 TTAATAAATAAAAATTTAT-A
5922335 TTCAAATAAATAAAAATTTAT-
1 TT--AATAAATAAAAATTTATA
5922356 TTAATA
1 TTAATA
5922362 TGAAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 4 0.17
21 4 0.17
23 16 0.67
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAATAAATAAAAATTTATA
Found at i:5922840 original size:143 final size:142
Alignment explanation
Indices: 5922580--5923284 Score: 982
Period size: 143 Copynumber: 4.9 Consensus size: 142
5922570 CTACCCAAAT
* *
5922580 TGAAGACAGCGGATCTTATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTAAAAATTATGGCG
1 TGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCG
*
5922645 GATCTTATCTTCCTAAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCATGAAGTTG
66 GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC-TGAAGTTG
* *
5922710 CAGCGGAGTACAC
130 CAGCGGAGCAGAC
* * * * * * *
5922723 TAAAGACAACAAATCTTATTTCCCTGGCGTTGTAGTAGAACAAATTAAAGATACAAATTATGGCT
1 TGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCG
* * * * *
5922788 GATCTTATCTGCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTGCCTGAGGTTG
66 GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT-CCTGAAGTTG
* *
5922853 TAGCGGAGTAGAC
130 CAGCGGAGCAGAC
* * * *
5922866 TGAAGACAGCGAATCTTATTTCCTTGGCGTTGCATTGGAACATATTAAAGCTACAAATTATGGTG
1 TGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCG
* *
5922931 GATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTG
66 GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT-CCTGAAGTTG
*
5922996 CAACGGAGCAGAC
130 CAGCGGAGCAGAC
** * *
5923009 TGAAGACAGCGAATCTTATTTCCCTTACGTTGCAGT-GAGACAGATTAAAGTTACAAATTATGGC
1 TGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGA-ACAAATTAAAGCTACAAATTATGGC
*
5923073 GAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTACCTGAAGTT
65 GGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCT-CCTGAAGTT
*
5923138 GAAGCGGAGCAGAC
129 GCAGCGGAGCAGAC
** * *
5923152 TGAAGACAGCGAATCTTATTTCCCTAACGTTGCAGTGGAATAGATTAAAGCTACAAATTATGGCG
1 TGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCG
* * *
5923217 GATCTTATCTTCCTAAAGTTGCAATGGAGCAGATTGATGCCACCAATCC-TATCTCTCTGAAGTT
66 GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACC-AGCCTTATCTC-CTGAAGTT
5923281 GCAG
129 GCAG
5923285 TGAAGCGGAT
Statistics
Matches: 499, Mismatches: 58, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
142 3 0.01
143 489 0.98
144 7 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (142 bp):
TGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTACAAATTATGGCG
GATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTGAAGTTGC
AGCGGAGCAGAC
Found at i:5922997 original size:44 final size:44
Alignment explanation
Indices: 5922934--5923190 Score: 138
Period size: 44 Copynumber: 5.6 Consensus size: 44
5922924 TATGGTGGAT
* *
5922934 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
** * * * **
5922978 CTTATCTCCCTAAAGTTGCAACGGAGCAGACTGAAGACAGCGAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGC
* * * * * **
5923023 CTTATTTCCCTTACGTTGCAGT-GAGACAGATTAAAGTTACAAATTATGGC
1 CTTATCTCCCTAAAGTTGCAGTGGAG-CAGATTGAAG---C-CACCA--GC
*
5923073 GAATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
1 ----CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
* * * * * * * **
5923121 CTTATCTACCTGAAGTTGAAGCGGAGCAGACTGAAGACAGCGAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAGC
* *
5923166 CTTATTTCCCTAACGTTGCAGTGGA
1 CTTATCTCCCTAAAGTTGCAGTGGA
5923191 ATAGATTAAA
Statistics
Matches: 154, Mismatches: 45, Indels: 27
0.68 0.20 0.12
Matches are distributed among these distances:
44 69 0.45
45 48 0.31
48 3 0.02
49 1 0.01
50 2 0.01
51 1 0.01
54 27 0.18
55 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGC
Found at i:5924884 original size:26 final size:25
Alignment explanation
Indices: 5924774--5925185 Score: 202
Period size: 26 Copynumber: 16.3 Consensus size: 25
5924764 GTTTATTTAT
*
5924774 TTATTTTAAAATATTTTCATATATTA
1 TTATTTTAAACTATTTT-ATATATTA
5924800 CTTATTTTAAACTATTTTAT-TATTA
1 -TTATTTTAAACTATTTTATATATTA
* *
5924825 CTTATTTTAAGCTTTTTTTCATATATTA
1 -TTATTTTAAAC-TATTTT-ATATATTA
*
5924853 TTATTTTAAACTATTTTATACATTA
1 TTATTTTAAACTATTTTATATATTA
* * **
5924878 TTCATTTTAAATTGTTTTATATGGTA
1 TT-ATTTTAAACTATTTTATATATTA
* *
5924904 TTCATTTCAAACTATTTTAT-TGTATA
1 TT-ATTTTAAACTATTTTATATAT-TA
*
5924930 TTATTTTAAACTATTATATAT-TTA
1 TTATTTTAAACTATTTTATATATTA
* * *
5924954 CTTTACTTTAAATTACTTTATATA-TA
1 --TTATTTTAAACTATTTTATATATTA
** * *
5924980 -T-TTTCGAACTGTTTTATATTTTA
1 TTATTTTAAACTATTTTATATATTA
** * * **
5925003 CTTATGAT-AAGTTTTTTCATATGGT-
1 -TTATTTTAAACTATTTT-ATATATTA
* * *
5925028 TTATTTTGAACCATTTTCTATATTA
1 TTATTTTAAACTATTTTATATATTA
* *
5925053 TTTATTTTAAATTTTTTTCATATATTA
1 -TTATTTTAAACTATTTT-ATATATTA
*
5925080 TTTATTTTAAACT-TTTT-TGTATTA
1 -TTATTTTAAACTATTTTATATATTA
* * * * * *
5925104 TTTACTTTAAATTGTTTCATTTATCA
1 -TTATTTTAAACTATTTTATATATTA
*
5925130 TTTATTTTAAAC-CTTTT-TATATTA
1 -TTATTTTAAACTATTTTATATATTA
* * * *
5925154 TTTACTTTAAACTGTTTTTTACA-TA
1 -TTATTTTAAACTATTTTATATATTA
5925179 TTATTTT
1 TTATTTT
5925186 GTTTCGTTTT
Statistics
Matches: 298, Mismatches: 65, Indels: 47
0.73 0.16 0.11
Matches are distributed among these distances:
22 12 0.04
23 3 0.01
24 50 0.17
25 69 0.23
26 112 0.38
27 47 0.16
28 5 0.02
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (25 bp):
TTATTTTAAACTATTTTATATATTA
Found at i:5925069 original size:51 final size:48
Alignment explanation
Indices: 5925014--5925184 Score: 155
Period size: 50 Copynumber: 3.3 Consensus size: 48
5925004 TTATGATAAG
** *
5925014 TTTTTTCATATGGTTTATTTTGAACCATTTTCTATATTATTTATTTTAAAT
1 TTTTTTCATATCATTTATTTT-AACC-TTTT-TATATTATTTACTTTAAAT
* * *
5925065 TTTTTTCATATATTATTTATTTTAAACTTTTTTGTATTATTTACTTTAAA-
1 TTTTTTC--ATATCATTTATTTT-AACCTTTTTATATTATTTACTTTAAAT
*
5925115 TTGTTTCATTTATCATTTATTTTAAACCTTTTTATATTATTTACTTTAAACT
1 TTTTTTCA--TATCATTTATTTT-AACCTTTTTATATTATTTACTTTAAA-T
*
5925167 GTTTTTTACATATTATTT
1 -TTTTTT-CATATCATTT
5925185 TGTTTCGTTT
Statistics
Matches: 100, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
48 1 0.01
50 43 0.43
51 23 0.23
52 11 0.11
53 20 0.20
54 2 0.02
ACGTcount: A:0.26, C:0.08, G:0.04, T:0.62
Consensus pattern (48 bp):
TTTTTTCATATCATTTATTTTAACCTTTTTATATTATTTACTTTAAAT
Found at i:5927020 original size:9 final size:9
Alignment explanation
Indices: 5927006--5927059 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
5926996 CCTCTTTTTT
5927006 TTGCATTCA
1 TTGCATTCA
5927015 TTGCATTCA
1 TTGCATTCA
5927024 -TGCATTATCA
1 TTGCA-T-TCA
5927034 TTGCATTACA
1 TTGCATT-CA
5927044 TTGCATT-A
1 TTGCATTCA
5927052 TATGCATT
1 T-TGCATT
5927060 AAATCTCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
8 6 0.15
9 17 0.43
10 13 0.32
11 4 0.10
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:5927057 original size:19 final size:19
Alignment explanation
Indices: 5927006--5927060 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
5926996 CCTCTTTTTT
5927006 TTGCATTCAT-TGCATT-CA
1 TTGCATT-ATATGCATTACA
5927024 -TGCATTATCATTGCATTACA
1 TTGCATTAT-A-TGCATTACA
5927044 TTGCATTATATGCATTA
1 TTGCATTATATGCATTA
5927061 AATCTCACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
16 2 0.06
17 6 0.19
19 13 0.41
20 3 0.09
21 8 0.25
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (19 bp):
TTGCATTATATGCATTACA
Found at i:5929764 original size:6 final size:6
Alignment explanation
Indices: 5929755--5929795 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
5929745 TTAAAAAATT
5929755 AAAAAG AAAAAG AAAAA- AATAAA- AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG AAAAAG
5929796 GAGAGGCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:5931439 original size:46 final size:45
Alignment explanation
Indices: 5931368--5931601 Score: 247
Period size: 36 Copynumber: 5.6 Consensus size: 45
5931358 TTTGAGTACT
* *
5931368 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
5931414 TCTAATCAAGTGAAAAAGTGATAA---GT-G---A--TACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
5931450 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
5931496 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
5931532 TCTGATCAATTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
5931577 TCTGATC-AGGGAAAAA-TGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
5931602 ATCATACGTA
Statistics
Matches: 158, Mismatches: 11, Indels: 41
0.75 0.05 0.20
Matches are distributed among these distances:
36 57 0.36
38 2 0.01
39 4 0.03
40 5 0.03
41 2 0.01
42 3 0.02
43 14 0.09
44 8 0.05
45 12 0.08
46 51 0.32
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:5931505 original size:82 final size:82
Alignment explanation
Indices: 5931368--5931603 Score: 379
Period size: 82 Copynumber: 2.9 Consensus size: 82
5931358 TTTGAGTACT
* *
5931368 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
5931433 GATAAGTGATACACTTA
66 GATAAGTGATACACTTA
*
5931450 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
5931515 GATAAGTGCTATACTTA
66 GATAAGTGATACACTTA
** *
5931532 TCTGATCAATTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC-AGGGAAAAA-T
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
5931594 GATAAGTGAT
66 GATAAGTGAT
5931604 CATACGTAAG
Statistics
Matches: 145, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 10 0.07
80 8 0.06
81 20 0.14
82 107 0.74
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGATACACTTA
Found at i:5939108 original size:46 final size:45
Alignment explanation
Indices: 5939041--5939274 Score: 238
Period size: 36 Copynumber: 5.6 Consensus size: 45
5939031 TTTGTGTACT
* *
5939041 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCGTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
5939087 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
5939123 TCTGATCAAGAGACAAATTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
5939169 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
5939205 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
5939250 TCTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
5939275 ATCATACGTA
Statistics
Matches: 158, Mismatches: 11, Indels: 41
0.75 0.05 0.20
Matches are distributed among these distances:
36 57 0.36
37 2 0.01
38 1 0.01
39 2 0.01
40 5 0.03
41 2 0.01
42 4 0.03
43 12 0.08
44 8 0.05
45 14 0.09
46 51 0.32
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:5939178 original size:82 final size:81
Alignment explanation
Indices: 5939041--5939274 Score: 373
Period size: 82 Copynumber: 2.9 Consensus size: 81
5939031 TTTGTGTACT
*
5939041 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCGTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
5939106 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
*
5939123 TCTGATCAAGAGACAAATTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
5939188 GATAAGTGCTATACTTA
65 GATAAGTGCTACACTTA
* * * *
5939205 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTAGCTACACTTATCTGATC-AGGGACAAA-TG
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
5939268 ATAAGTG
66 ATAAGTG
5939275 ATCATACGTA
Statistics
Matches: 143, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 9 0.06
80 7 0.05
81 20 0.14
82 107 0.75
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (81 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:5941761 original size:44 final size:44
Alignment explanation
Indices: 5941706--5941926 Score: 138
Period size: 44 Copynumber: 4.8 Consensus size: 44
5941696 ATGGTGGATT
*
5941706 TTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAGCC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAGCC
* * * * ** **
5941750 TTATCTCCCTGAAGTTGCAGCGAAGCAGATTGAAGACAGAAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCA-CTAGCC
* ** * ** * *
5941795 TTATTTCCCTGGCGTTGTAGTGGAACAGATTAAAGCTACAAATTATGGCTGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC--C--ACTA--GC----C
* *
5941849 TTATCTTCCC-GAAGTTGTAGTGGAGTAGATTGAAGCCACCAGCC
1 TTATC-TCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAGCC
* *
5941893 TTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAA
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA
5941927 CACAGCGAAT
Statistics
Matches: 131, Mismatches: 33, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
43 4 0.03
44 60 0.46
45 29 0.22
47 1 0.01
48 3 0.02
49 1 0.01
50 2 0.02
52 1 0.01
54 26 0.20
55 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAGCC
Found at i:5942333 original size:143 final size:143
Alignment explanation
Indices: 5941122--5942318 Score: 1561
Period size: 143 Copynumber: 8.4 Consensus size: 143
5941112 GATTGAAGTC
* * * *
5941122 ATTATGACGAATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * ** * * *
5941187 CTAAAGTTGCAGCGTAGCACACAGAAGACAGCGAATCTTATTTCCCTAACGTTGTAGTGAAATAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
*
5941252 ATTAAACCTACAA
131 ATTAAAGCTACAA
* * * * * *
5941265 ATTATGACAGATCTTATCTTTCTAAAGTTACAGTGGAGAAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* ** * * *
5941330 CTGAAG-TGCAGCAGAGCAGACTGAAGACATTGAATCTAATTTCCCTGGCGTTGCAATAGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
5941394 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * *
5941407 ATTATGGCTGATCTTATCTTCCTGAAGTTGCAATGGAGCAAATTGAAGCCACAAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
5941472 CTGAAGTTGCAGCGGAACAGACTGAAGACAACGAATCTTATTTCCTTGGCCTTGCAGTGGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
* *
5941537 ATGAAAACTACAA
131 ATTAAAGCTACAA
* * * *
5941550 ATTATGGTGGATCTTATCTTTCTGAAGTTGCAGTGGAGCAGATTAAAGCCACCAGCCTTATCTCT
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * * * *
5941615 CTAAAGTTGTAGCGGAGCAGACTGAAGATAACAAATCTTATTTCACTGGCGTTGTAGTTGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
*
5941680 ATTAAAGCTAGAA
131 ATTAAAGCTACAA
* * * *
5941693 ATTATGGTGGATTTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * ** *
5941758 CTGAAGTTGCAGCGAAGCAGATTGAAGACAGAAAATCTTATTTCCCTGGCGTTGTAGTGGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
5941823 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * *
5941836 ATTATGGCTGATCTTATCTTCCCGAAGTTGTAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * **
5941901 CTGAAGTTGCAGCGGAGTAGACTGAACACAGCGAATCTTATTTCCCTGGAGTTGCATTATAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
5941966 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* *
5941979 ATTATGGCGGATCTTATCATT-CTGAAGTTGCAGTGGAGCATATTGAAGCCACCAGCCTTATCTT
1 ATTATGGCGGATCTTATC-TTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTC
* * * *
5942043 CCTGAAGTTGCAGCGGAACAGACTGAAGACAGCAAATCTTATTTCCCTGGTGTTTCAGTGGAACA
65 CCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* *
5942108 GATGAAAACTACAA
130 GATTAAAGCTACAA
* * * * *
5942122 ATTATGGCGGATCTTATCTTCTTAAAGTTACAGTGGAGCATATTGAAGCCATCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * *
5942187 CTAAAGTTGCAGCGGAGCAAACTTAAGACAGCGAATCTTATTTCACTGGCGTCGCAGTGGAACAT
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
*
5942252 ATTAAAGCTTCAA
131 ATTAAAGCTACAA
* *
5942265 ATTATGGCGGATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGATGCCACCA
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCA
5942319 ATCCTATCTT
Statistics
Matches: 911, Mismatches: 140, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
142 120 0.13
143 789 0.87
144 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAG
ATTAAAGCTACAA
Found at i:5942986 original size:17 final size:17
Alignment explanation
Indices: 5942964--5943002 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
5942954 AAAAGTATCC
5942964 TTTTTTACTCTTCTATA
1 TTTTTTACTCTTCTATA
* * *
5942981 TTTTTTATTTTTCTCTA
1 TTTTTTACTCTTCTATA
5942998 TTTTT
1 TTTTT
5943003 GTTATCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTACTCTTCTATA
Found at i:5943819 original size:27 final size:27
Alignment explanation
Indices: 5943789--5943894 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
5943779 GTTTATTTAT
* *
5943789 TTATTTTAAAATCTTTTACTATATTAC
1 TTATTTTAAACTTTTTTACTATATTAC
5943816 TTATTTTAAACTTTTTTA-T-TATTAC
1 TTATTTTAAACTTTTTTACTATATTAC
* *
5943841 TTATTTTAAGCTTTTTTTCATATATTA-
1 TTATTTTAAACTTTTTTAC-TATATTAC
*
5943868 TTATTTTAAACTATTTTATACTTTATT
1 TTATTTTAAACT-TTTT-TACTATATT
5943895 CATTTTAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
25 22 0.33
26 1 0.01
27 28 0.42
28 14 0.21
29 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.61
Consensus pattern (27 bp):
TTATTTTAAACTTTTTTACTATATTAC
Found at i:5943838 original size:25 final size:26
Alignment explanation
Indices: 5943789--5943914 Score: 127
Period size: 26 Copynumber: 4.8 Consensus size: 26
5943779 GTTTATTTAT
* *
5943789 TTATTTTAAAATCTTTTACTATATTAC
1 TTATTTTAAACTTTTTTA-TATATTAC
5943816 TTATTTTAAACTTTTTTAT-TATTAC
1 TTATTTTAAACTTTTTTATATATTAC
*
5943841 TTATTTTAAGCTTTTTTTCATATATTA-
1 TTATTTTAAAC-TTTTTT-ATATATTAC
*
5943868 TTATTTTAAACTATTTTATACT-TTA-
1 TTATTTTAAACTTTTTTATA-TATTAC
5943893 TTCATTTTAAA-TTGTTTTATAT
1 TT-ATTTTAAACTT-TTTTATAT
5943915 GGCATTCATT
Statistics
Matches: 87, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
25 26 0.30
26 28 0.32
27 28 0.32
28 5 0.06
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATTTTAAACTTTTTTATATATTAC
Found at i:5943868 original size:24 final size:25
Alignment explanation
Indices: 5943773--5943912 Score: 85
Period size: 25 Copynumber: 5.5 Consensus size: 25
5943763 ACCTTTTTGC
* *
5943773 AAACTTGTTTAT--TTATTTATTTT
1 AAACTTTTTTATCATTACTTATTTT
*
5943796 AAAATCTTTTACTAT-ATTACTTATTTT
1 -AAA-CTTTT-TTATCATTACTTATTTT
*
5943823 AAACTTTTTTATTATTACTTATTTT
1 AAACTTTTTTATCATTACTTATTTT
* *
5943848 AAGCTTTTTT-TCATATATTATTATTTT
1 AAACTTTTTTATCAT-TA--CTTATTTT
* *
5943875 AAACTATTTTATACTTTA-TTCATTTT
1 AAACTTTTTTAT-CATTACTT-ATTTT
5943901 AAA-TTGTTTTAT
1 AAACTT-TTTTAT
5943913 ATGGCATTCA
Statistics
Matches: 94, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
24 9 0.10
25 35 0.37
26 20 0.21
27 25 0.27
28 3 0.03
29 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (25 bp):
AAACTTTTTTATCATTACTTATTTT
Found at i:5944121 original size:51 final size:50
Alignment explanation
Indices: 5943789--5944131 Score: 163
Period size: 52 Copynumber: 6.7 Consensus size: 50
5943779 GTTTATTTAT
* * *
5943789 TTATTTTAAAATCTTTTACTATATTACTTATTTTAAACTT-TTTTAT-TATTA
1 TTATTTTAAACTGTTTTA-T-TATTATTTATTTTAAA-TTATTTTATATATTA
* * *
5943840 CTTATTTTAAGCTTTTTTTCATATATTA-TTATTTTAAACTATTTTATACT-TTA
1 -TTATTTTAAAC-TGTTTT-AT-TATTATTTATTTTAAATTATTTTATA-TATTA
* * * * * *
5943893 TTCATTTTAAATTGTTTTA-TATGGCATTCATTTCAAATTGTTTTAT-TGTGTA
1 TT-ATTTTAAACTGTTTTATTAT--TATTTATTTTAAATTATTTTATATAT-TA
* * * *
5943945 TTATATTAAACTATTATATATATTATTTATTTTAAATTACTTTATATA-TA
1 TTATTTTAAACTGTTTTAT-TATTATTTATTTTAAATTATTTTATATATTA
** * ** * * **
5943995 -T-TTTCGAACTGTTTTATATTTTATTTATGATAAGTT-TTTCCATATGGT-
1 TTATTTTAAACTGTTTTAT-TATTATTTATTTTAAATTATTT-TATATATTA
* ** *
5944043 TTATTTTCAACCATTTTGTATATTATTTATTTTAAATTTATTTTATATATTA
1 TTATTTTAAACTGTTTTAT-TATTATTTATTTTAAA-TTATTTTATATATTA
5944095 TTCATTTTAAACT-TTTTATTATTATTT-TCTTTAAATT
1 TT-ATTTTAAACTGTTTTATTATTATTTAT-TTTAAATT
5944132 GCTTCATTTA
Statistics
Matches: 219, Mismatches: 49, Indels: 48
0.69 0.16 0.15
Matches are distributed among these distances:
47 2 0.01
48 30 0.14
49 6 0.03
50 30 0.14
51 54 0.25
52 62 0.28
53 33 0.15
54 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.59
Consensus pattern (50 bp):
TTATTTTAAACTGTTTTATTATTATTTATTTTAAATTATTTTATATATTA
Found at i:5944129 original size:24 final size:25
Alignment explanation
Indices: 5943773--5944120 Score: 125
Period size: 26 Copynumber: 13.8 Consensus size: 25
5943763 ACCTTTTTGC
* *
5943773 AAACTTGTT-TAT-TTATTTATTTT
1 AAACTTTTTATATATTATTCATTTT
*
5943796 AAAATCTTTTACTATATTACTT-ATTTT
1 AAACT-TTTTA-TATATTA-TTCATTTT
5943823 AAACTTTTT-TATTATTACTT-ATTTT
1 AAACTTTTTATA-TATTA-TTCATTTT
*
5943848 AAGCTTTTTTTCATATATTATT-ATTTT
1 AAAC--TTTTT-ATATATTATTCATTTT
5943875 AAACTATTTTATACT-TTATTCATTTT
1 AAACT-TTTTATA-TATTATTCATTTT
* *** *
5943901 AAATTGTTTTATATGGCATTCATTTC
1 AAACT-TTTTATATATTATTCATTTT
* * *
5943927 AAATTGTTTTAT-TGTGTATT-ATATT
1 AAACT-TTTTATATAT-TATTCATTTT
* *
5943952 AAACTATTATATATATTATTTATTTT
1 AAACT-TTTTATATATTATTCATTTT
*
5943978 AAA-TTACTTTATATA-TA-T--TTTC
1 AAACTT--TTTATATATTATTCATTTT
* * * **
5944000 GAACTGTTTTATATTTTATTTATGAT
1 AAACT-TTTTATATATTATTCATTTT
* ** ** *
5944026 -AAGTTTTTCCATATGGTTTATTTT
1 AAACTTTTTATATATTATTCATTTT
* * * *
5944050 CAACCATTTTGTATATTATTTATTTT
1 -AAACTTTTTATATATTATTCATTTT
*
5944076 AAATTTATTTTATATATTATTCATTTT
1 AAA-CT-TTTTATATATTATTCATTTT
5944103 AAACTTTTTAT-TATTATT
1 AAACTTTTTATATATTATT
5944121 TTCTTTAAAT
Statistics
Matches: 249, Mismatches: 47, Indels: 57
0.71 0.13 0.16
Matches are distributed among these distances:
22 12 0.05
23 7 0.03
24 29 0.12
25 58 0.23
26 86 0.35
27 48 0.19
28 7 0.03
29 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (25 bp):
AAACTTTTTATATATTATTCATTTT
Found at i:5945559 original size:15 final size:15
Alignment explanation
Indices: 5945539--5945571 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
5945529 AAATTAGGAA
5945539 AGATGAAAGATGGGG
1 AGATGAAAGATGGGG
*
5945554 AGATGAAATATGGGG
1 AGATGAAAGATGGGG
5945569 AGA
1 AGA
5945572 GGGTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.15
Consensus pattern (15 bp):
AGATGAAAGATGGGG
Found at i:5946365 original size:20 final size:20
Alignment explanation
Indices: 5946342--5946383 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
5946332 GGAACTATCA
*
5946342 TAGAATTAGGGGATTACAAC
1 TAGAATTAGGGAATTACAAC
5946362 TAGAATTAGGGAATTACAAC
1 TAGAATTAGGGAATTACAAC
5946382 TA
1 TA
5946384 ATTAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (20 bp):
TAGAATTAGGGAATTACAAC
Found at i:5946967 original size:20 final size:23
Alignment explanation
Indices: 5946942--5946982 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
5946932 GAACTTAAGT
5946942 ACATTTT-GTT-GCAT-TTTAGG
1 ACATTTTAGTTAGCATGTTTAGG
5946962 ACATTTTAGTTAGCATGTTTA
1 ACATTTTAGTTAGCATGTTTA
5946983 ATATTGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 4 0.22
23 4 0.22
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (23 bp):
ACATTTTAGTTAGCATGTTTAGG
Found at i:5950393 original size:127 final size:127
Alignment explanation
Indices: 5950230--5950483 Score: 490
Period size: 127 Copynumber: 2.0 Consensus size: 127
5950220 ATGCCCAATT
*
5950230 ACGTGAAATTCATGAAAGATATATTGTCGAAGAAACATAGGTTGGGAGAATTTGAGATTGTTGCT
1 ACGTGAAATTCATGAAAGATATATTGTCGAAGAAACATAGGTTAGGAGAATTTGAGATTGTTGCT
*
5950295 CTCACTGAAGGGTGCATAGTAACATTGATGAATAAGTTGCCTCTAAAGATAAAGGACCTAGA
66 CTCACTGAAGGGTGCATAGTAACATTGATGAATAAGTTGCCTCCAAAGATAAAGGACCTAGA
5950357 ACGTGAAATTCATGAAAGATATATTGTCGAAGAAACATAGGTTAGGAGAATTTGAGATTGTTGCT
1 ACGTGAAATTCATGAAAGATATATTGTCGAAGAAACATAGGTTAGGAGAATTTGAGATTGTTGCT
5950422 CTCACTGAAGGGTGCATAGTAACATTGATGAATAAGTTGCCTCCAAAGATAAAGGACCTAGA
66 CTCACTGAAGGGTGCATAGTAACATTGATGAATAAGTTGCCTCCAAAGATAAAGGACCTAGA
5950484 GAGTTTCACT
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (127 bp):
ACGTGAAATTCATGAAAGATATATTGTCGAAGAAACATAGGTTAGGAGAATTTGAGATTGTTGCT
CTCACTGAAGGGTGCATAGTAACATTGATGAATAAGTTGCCTCCAAAGATAAAGGACCTAGA
Found at i:5952990 original size:43 final size:44
Alignment explanation
Indices: 5952935--5953058 Score: 132
Period size: 43 Copynumber: 2.9 Consensus size: 44
5952925 AGCTTGTACA
* **
5952935 ATGCCAACGTCCCAGGCGTGGTCTTACAT-GTATTCACAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATCGTAAACACAAATCG
* * *
5952978 GTGCC-ACAGTCCCAGACAG-GGTCTTAC-TCGTAAACACAAGTTG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATCGTAAACACAAATCG
*
5953021 ATGCCAACGTCCCAGACGTGGTCTTACA-CGAAAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACATCGTAAACACA
5953059 TCAAAAATCC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
42 4 0.06
43 60 0.90
44 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATCGTAAACACAAATCG
Found at i:5964004 original size:27 final size:26
Alignment explanation
Indices: 5963970--5964033 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
5963960 TAAATATATA
*
5963970 AATTTTA-TCATTATAAATATGATTTT
1 AATTTTATTCAGTATAAA-ATGATTTT
*
5963996 AATTCTTATTTAGTATAAAATGATTTT
1 AATT-TTATTCAGTATAAAATGATTTT
5964023 AAGTATTTATT
1 AA-T-TTTATT
5964034 TTTAATTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 4 0.12
27 13 0.41
28 14 0.44
29 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (26 bp):
AATTTTATTCAGTATAAAATGATTTT
Found at i:5980353 original size:147 final size:147
Alignment explanation
Indices: 5980079--5980353 Score: 415
Period size: 147 Copynumber: 1.9 Consensus size: 147
5980069 AAGGAGAAGG
*
5980079 TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAGTTGGGATTGTGGGGACTAAGGGAATGCTTG
1 TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAGTTGGGATTGTGGAGACTAAGGGAATGCTTG
**
5980144 GCAGAGGGGCCAGTCCTCTTGGAAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGATTTGGGAGA
66 GCAGAGGGGCCAGTCCTCTTGGAAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGACATGGGAGA
5980209 TTAGTGAAAGATGGCAA
131 TTAGTGAAAGATGGCAA
* * * *
5980226 TGGTGGAGAAGAGAAAGGAATAGGGGGAATTGCAGTTGGGATTGTGGAGACTGAGGGAATGCTTG
1 TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAGTTGGGATTGTGGAGACTAAGGGAATGCTTG
** * * * * * *
5980291 GCAGAGGGGGTAGTCCTGTTGGCAATGTGGTCGGAAGTGGAGGAAGCGCCCCGGGCCATGGGA
66 GCAGAGGGGCCAGTCCTCTTGGAAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGACATGGGA
5980354 ATGATGGTCG
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
147 113 1.00
ACGTcount: A:0.28, C:0.11, G:0.42, T:0.19
Consensus pattern (147 bp):
TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAGTTGGGATTGTGGAGACTAAGGGAATGCTTG
GCAGAGGGGCCAGTCCTCTTGGAAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGACATGGGAGA
TTAGTGAAAGATGGCAA
Done.