Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 47 of 126
Found at i:9243929 original size:25 final size:26
Alignment explanation
Indices: 9243892--9243947 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
9243882 AATATTAAAT
*
9243892 TTTTTTTA-GTTTTAAGAATTTGAAAA
1 TTTTTTTACTTTTTAA-AATTTGAAAA
*
9243918 TTTTTTT-CTTTTTAAAATTTTAAAA
1 TTTTTTTACTTTTTAAAATTTGAAAA
*
9243943 ATTTT
1 TTTTT
9243948 GTTAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (26 bp):
TTTTTTTACTTTTTAAAATTTGAAAA
Found at i:9243938 original size:9 final size:9
Alignment explanation
Indices: 9243926--9243976 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
9243916 AATTTTTTTC
9243926 TTTTTAAAA
1 TTTTTAAAA
*
9243935 TTTTAAAAA
1 TTTTTAAAA
9243944 TTTTGTTAAAA
1 -TTT-TTAAAA
* *
9243955 ATTTTAGAA
1 TTTTTAAAA
9243964 TTTTTAAAA
1 TTTTTAAAA
9243973 TTTT
1 TTTT
9243977 GTTTAATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 24 0.71
10 5 0.15
11 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:9244018 original size:10 final size:10
Alignment explanation
Indices: 9243926--9244257 Score: 73
Period size: 10 Copynumber: 33.3 Consensus size: 10
9243916 AATTTTTTTC
9243926 TTTTTAAAA-
1 TTTTTAAAAT
*
9243935 TTTTAAAAAT
1 TTTTTAAAAT
9243945 TTTGTTAAAA-
1 TTT-TTAAAAT
* *
9243955 ATTTTAGAA-
1 TTTTTAAAAT
9243964 TTTTTAAAATT
1 TTTTTAAAA-T
*
9243975 TTGTTTAATAT
1 TT-TTTAAAAT
*
9243986 TTATTTAGAAT
1 TT-TTTAAAAT
***
9243997 TTTTTTCTAT
1 TTTTTAAAAT
9244007 TTTTTAAAA-
1 TTTTTAAAAT
*
9244016 TTTTTATAAT
1 TTTTTAAAAT
* *
9244026 TTCTTGAAAT
1 TTTTTAAAAT
**
9244036 TAAAATTAAAA-
1 T--TTTTAAAAT
** *
9244047 -AATTATAAT
1 TTTTTAAAAT
* *
9244056 ATTTTAGAAT
1 TTTTTAAAAT
9244066 TTTTT-AAAT
1 TTTTTAAAAT
*
9244075 TTTTTAGAAT
1 TTTTTAAAAT
*
9244085 TGTTTT-GAAT
1 T-TTTTAAAAT
*
9244095 TTTTT-AAGT
1 TTTTTAAAAT
*** *
9244104 TTGAAAAAAA
1 TTTTTAAAAT
*
9244114 ATTTT--AAT
1 TTTTTAAAAT
*
9244122 TTTTTGAAAT
1 TTTTTAAAAT
9244132 TTTTTAGAAA-
1 TTTTTA-AAAT
9244142 TTTTTAAAA-
1 TTTTTAAAAT
9244151 TTTTTAAAAT
1 TTTTTAAAAT
**
9244161 TTCTAAAAAAT
1 TT-TTTAAAAT
** *
9244172 TTTGGAAAAA
1 TTTTTAAAAT
*
9244182 TTTTTAGAATT
1 TTTTTA-AAAT
**
9244193 TTGTTTGGGAAT
1 TT-TTT-AAAAT
*
9244205 TTTTTAAAAA
1 TTTTTAAAAT
*
9244215 TTTTTACAA-
1 TTTTTAAAAT
*
9244224 GTTTT-AAAT
1 TTTTTAAAAT
* *
9244233 GTTTATAGAAT
1 -TTTTTAAAAT
9244244 TTTTTAAAAAT
1 TTTTT-AAAAT
9244255 TTT
1 TTT
9244258 CATAATTGTT
Statistics
Matches: 231, Mismatches: 67, Indels: 48
0.67 0.19 0.14
Matches are distributed among these distances:
8 15 0.06
9 60 0.26
10 88 0.38
11 50 0.22
12 18 0.08
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:9244159 original size:9 final size:9
Alignment explanation
Indices: 9244122--9244168 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
9244112 AAATTTTAAT
*
9244122 TTTTTGAAAT
1 TTTTT-AAAA
9244132 TTTTTAGAAA
1 TTTTTA-AAA
9244142 TTTTTAAAA
1 TTTTTAAAA
9244151 TTTTTAAAA
1 TTTTTAAAA
*
9244160 TTTCTAAAA
1 TTTTTAAAA
9244169 AATTTTGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 21 0.62
10 13 0.38
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:9244169 original size:57 final size:55
Alignment explanation
Indices: 9244063--9244174 Score: 136
Period size: 57 Copynumber: 2.0 Consensus size: 55
9244053 AATATTTTAG
** * * *
9244063 AATTTTTTAAATTTTTTAGAATTGTTTTGAATTTTTTAAGTTTGAAAAAAAATTTT
1 AATTTTTTAAATTTTTTAGAATTGTTTAAAATTTTTAAAATTT-CAAAAAAATTTT
*
9244119 AATTTTTTGAAATTTTTTAGAAATT-TTTAAAATTTTTAAAATTTCTAAAAAATTTT
1 AATTTTTT-AAATTTTTTAG-AATTGTTTAAAATTTTTAAAATTTCAAAAAAATTTT
9244175 GGAAAAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
56 18 0.38
57 26 0.54
58 4 0.08
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.54
Consensus pattern (55 bp):
AATTTTTTAAATTTTTTAGAATTGTTTAAAATTTTTAAAATTTCAAAAAAATTTT
Found at i:9248604 original size:12 final size:12
Alignment explanation
Indices: 9248587--9248621 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
9248577 CCAAAATAGT
9248587 CCAATAAAAGAC
1 CCAATAAAAGAC
*
9248599 CCAATAAAAGGC
1 CCAATAAAAGAC
9248611 CCAATAAAAGA
1 CCAATAAAAGA
9248622 TTAATTCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.57, C:0.23, G:0.11, T:0.09
Consensus pattern (12 bp):
CCAATAAAAGAC
Found at i:9248714 original size:15 final size:16
Alignment explanation
Indices: 9248685--9248729 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
9248675 AATAAAAAAT
9248685 AATA-ATAGT-AATAA
1 AATATATAGTAAATAA
*
9248699 AATGTATA-TAAATAA
1 AATATATAGTAAATAA
9248714 AATATATAGTAAATAA
1 AATATATAGTAAATAA
9248730 TAAAGATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 15 0.58
16 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (16 bp):
AATATATAGTAAATAA
Found at i:9256440 original size:19 final size:19
Alignment explanation
Indices: 9256385--9256443 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
9256375 ACCTTAAAGC
* *
9256385 CTAGGTGAACCCCAAAACT
1 CTAGGTGAAACCCAAAATT
* * *
9256404 CTAAGTGAAGCCCTAAATT
1 CTAGGTGAAACCCAAAATT
9256423 CTAGGTGAAACCCAAAATT
1 CTAGGTGAAACCCAAAATT
9256442 CT
1 CT
9256444 GAAAAGGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.22
Consensus pattern (19 bp):
CTAGGTGAAACCCAAAATT
Found at i:9262773 original size:24 final size:23
Alignment explanation
Indices: 9262740--9262808 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 23
9262730 TCAAGCATAG
9262740 AAAAAGAAAAAGAAGAATGAAAA
1 AAAAAGAAAAAGAAGAATGAAAA
*
9262763 AAAAAGTAAAAAAAAG-A-GAAAA
1 AAAAAG-AAAAAGAAGAATGAAAA
*
9262785 AAGGAAAGAAAGAGAAAGAATGAA
1 AA--AAAGAAAAAG-AAGAATGAA
9262809 GAATGAAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 7 0.19
23 11 0.30
24 15 0.41
25 1 0.03
26 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.04
Consensus pattern (23 bp):
AAAAAGAAAAAGAAGAATGAAAA
Found at i:9262794 original size:12 final size:10
Alignment explanation
Indices: 9262740--9262801 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
9262730 TCAAGCATAG
9262740 AAAAAGAAAA
1 AAAAAGAAAA
9262750 AGAAGAATGAAAA
1 A-AA-AA-GAAAA
*
9262763 AAAAAGTAAA
1 AAAAAGAAAA
*
9262773 AAAAAGAGAA
1 AAAAAGAAAA
* *
9262783 AAAAGGAAAG
1 AAAAAGAAAA
*
9262793 AAAGAGAAA
1 AAAAAGAAA
9262802 GAATGAAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 27 0.66
11 4 0.10
12 4 0.10
13 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:9262817 original size:25 final size:24
Alignment explanation
Indices: 9262788--9262854 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
9262778 GAGAAAAAAG
9262788 GAAAGAAAGAGAAAGAATGAAGAAT
1 GAAAGAAAGAGAAA-AATGAAGAAT
* *
9262813 GAAAGAATGAAGCAAAATGAAGAAT
1 GAAAGAAAG-AGAAAAATGAAGAAT
* *
9262838 CAAATAAAGGAGAAAAA
1 GAAAGAAA-GAGAAAAA
9262855 GGAAAAAAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 29 0.85
26 5 0.15
ACGTcount: A:0.64, C:0.03, G:0.24, T:0.09
Consensus pattern (24 bp):
GAAAGAAAGAGAAAAATGAAGAAT
Found at i:9263871 original size:22 final size:22
Alignment explanation
Indices: 9263838--9263916 Score: 77
Period size: 22 Copynumber: 3.6 Consensus size: 22
9263828 GCTGGCATGC
*
9263838 AAGCCCAGATTAGTTAACACAT
1 AAGCCCAAATTAGTTAACACAT
* * *
9263860 AAGCCTAAATTAGCTAGCACAT
1 AAGCCCAAATTAGTTAACACAT
* ** **
9263882 AAGCCCAATTTAGTTGGCATGT
1 AAGCCCAAATTAGTTAACACAT
9263904 AAGCCCAAATTAG
1 AAGCCCAAATTAG
9263917 ATGAAAAAGT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (22 bp):
AAGCCCAAATTAGTTAACACAT
Found at i:9264128 original size:67 final size:68
Alignment explanation
Indices: 9263999--9264138 Score: 171
Period size: 67 Copynumber: 2.1 Consensus size: 68
9263989 TTACACAAGA
* *
9263999 TTTAAGCCTAGTTTAGCTGGCATCTAATGAAAATATTTAAACCCAATTTAGCTTGCACCCAAT-A
1 TTTAAGCCTAGTTTAGCTGGCATCTAATGAAAATATTTAAACCCAATTTAACTGGCACCCAATGA
9264063 AAGT
66 AA-T
* * * *
9264067 TTTAAGTCC-AGTTTAGCTGGTA-CTCAATG-AAATATTTAAGCTCGATTTAACTGGCACCCAAT
1 TTTAAG-CCTAGTTTAGCTGGCATCT-AATGAAAATATTTAAACCCAATTTAACTGGCACCCAAT
9264129 GAAAT
64 GAAAT
9264134 TTTAA
1 TTTAA
9264139 ATTGAGATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
67 36 0.57
68 25 0.40
69 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (68 bp):
TTTAAGCCTAGTTTAGCTGGCATCTAATGAAAATATTTAAACCCAATTTAACTGGCACCCAATGA
AAT
Found at i:9264129 original size:34 final size:35
Alignment explanation
Indices: 9263998--9264173 Score: 127
Period size: 33 Copynumber: 5.2 Consensus size: 35
9263988 TTTACACAAG
* * *
9263998 ATTTAAGC-CTAGTTTAGCTGGCATCTAATGAAAAT
1 ATTTAAGCTCGAGTTTAGCTGGCACCCAATG-AAAT
* * * *
9264033 ATTTAAAC-CCAATTTAGCTTGCACCCAAT-AAAGT
1 ATTTAAGCTCGAGTTTAGCTGGCACCCAATGAAA-T
* * *
9264067 -TTTAAG-TCCAGTTTAGCTGGTACTCAATGAAAT
1 ATTTAAGCTCGAGTTTAGCTGGCACCCAATGAAAT
*
9264100 ATTTAAGCTCGA-TTTAACTGGCACCCAATGAAAT
1 ATTTAAGCTCGAGTTTAGCTGGCACCCAATGAAAT
* * * * *
9264134 -TTTAA-ATTGAGATTATCTAGCACCCAATGAAA-
1 ATTTAAGCTCGAGTTTAGCTGGCACCCAATGAAAT
9264166 ATTTAAGC
1 ATTTAAGC
9264174 CCATATTATT
Statistics
Matches: 112, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
32 3 0.03
33 54 0.48
34 29 0.26
35 26 0.23
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (35 bp):
ATTTAAGCTCGAGTTTAGCTGGCACCCAATGAAAT
Found at i:9264194 original size:32 final size:33
Alignment explanation
Indices: 9264091--9264210 Score: 118
Period size: 33 Copynumber: 3.6 Consensus size: 33
9264081 AGCTGGTACT
* * *
9264091 CAATGAAATATTTAAGCTCGAT-TTAACTGGCACC
1 CAATGAAA-ATTTAAGC-CCATATTATCTAGCACC
* **** *
9264125 CAATGAAATTTTAAATTGAGATTATCTAGCACC
1 CAATGAAAATTTAAGCCCATATTATCTAGCACC
*
9264158 CAATGAAAATTTAAGCCCATATTAT-TAGCACT
1 CAATGAAAATTTAAGCCCATATTATCTAGCACC
9264190 CAATGAAAATTTAAGCCCATA
1 CAATGAAAATTTAAGCCCATA
9264211 GTAGCTGACA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
32 29 0.41
33 34 0.48
34 8 0.11
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (33 bp):
CAATGAAAATTTAAGCCCATATTATCTAGCACC
Found at i:9264496 original size:14 final size:15
Alignment explanation
Indices: 9264488--9264520 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9264478 AAAACTAAAG
9264488 AAAAAAAACAAAACC
1 AAAAAAAACAAAACC
*
9264503 AAAAAAAA-GAAACC
1 AAAAAAAACAAAACC
9264517 AAAA
1 AAAA
9264521 CCAAAACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAAACC
Found at i:9264519 original size:20 final size:18
Alignment explanation
Indices: 9264478--9264526 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
9264468 TTTAGAAGGA
*
9264478 AAAACTAAAGAAAAAAAAC
1 AAAACCAAA-AAAAAAAAC
9264497 AAAACCAAAAAAAAGAAACC
1 AAAACCAAAAAAAA-AAA-C
9264517 AAAACCAAAA
1 AAAACCAAAA
9264527 CAGAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.78, C:0.16, G:0.04, T:0.02
Consensus pattern (18 bp):
AAAACCAAAAAAAAAAAC
Found at i:9264809 original size:3 final size:3
Alignment explanation
Indices: 9264801--9264857 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
9264791 AAACACATTC
*
9264801 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9264849 AATT AAT AA
1 AA-T AAT AA
9264858 ATAAATAACT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9267073 original size:13 final size:13
Alignment explanation
Indices: 9267052--9267141 Score: 80
Period size: 13 Copynumber: 7.2 Consensus size: 13
9267042 AGCGAAATTT
*
9267052 TAAATTAAAACCC
1 TAAAGTAAAACCC
9267065 TAAAGTAAAACCC
1 TAAAGTAAAACCC
*
9267078 T--AG--AAACCA
1 TAAAGTAAAACCC
* * *
9267087 TAAATTGAAACTC
1 TAAAGTAAAACCC
*
9267100 TAAAGTAAAACCT
1 TAAAGTAAAACCC
*
9267113 TAAAATAAAACCC
1 TAAAGTAAAACCC
*
9267126 TAAAGTGAAACCC
1 TAAAGTAAAACCC
9267139 TAA
1 TAA
9267142 GTGAAATTCT
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
9 6 0.10
11 3 0.05
13 51 0.85
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (13 bp):
TAAAGTAAAACCC
Found at i:9268621 original size:26 final size:26
Alignment explanation
Indices: 9268592--9268664 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
9268582 CTTAAACAGG
*
9268592 TTTATTCCACTTGACCTTTTTTCTCA
1 TTTATTTCACTTGACCTTTTTTCTCA
**
9268618 TTTATTTCACTTGACCTTTTTTCTTG
1 TTTATTTCACTTGACCTTTTTTCTCA
* *
9268644 TTCATTTCACTTGACCCTTTT
1 TTTATTTCACTTGACCTTTTT
9268665 CTTACAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.14, C:0.25, G:0.05, T:0.56
Consensus pattern (26 bp):
TTTATTTCACTTGACCTTTTTTCTCA
Found at i:9270811 original size:20 final size:20
Alignment explanation
Indices: 9270762--9270832 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 20
9270752 GGAAAGAATG
*
9270762 AAAAAGAAGAAAGTGAAGGAA
1 AAAAAGAA-AAAGTGAAGAAA
*
9270783 AAAAGGAAAAAGTGAA-AAA
1 AAAAAGAAAAAGTGAAGAAA
9270802 ACAAAAG-AAAA--GAAGCAAA
1 A-AAAAGAAAAAGTGAAG-AAA
*
9270821 AGAAAGAAAAAG
1 AAAAAGAAAAAG
9270833 AAATGAAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
17 3 0.07
18 4 0.10
19 15 0.37
20 12 0.29
21 7 0.17
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.03
Consensus pattern (20 bp):
AAAAAGAAAAAGTGAAGAAA
Found at i:9271813 original size:22 final size:22
Alignment explanation
Indices: 9271785--9271833 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
9271775 ACCTAAGATT
9271785 TAAGCCCATATTAACTAGCACA
1 TAAGCCCATATTAACTAGCACA
*
9271807 TAAGCCCATATTAACTGGCACA
1 TAAGCCCATATTAACTAGCACA
9271829 TAAGC
1 TAAGC
9271834 TTAGTCGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.22
Consensus pattern (22 bp):
TAAGCCCATATTAACTAGCACA
Found at i:9272133 original size:33 final size:32
Alignment explanation
Indices: 9272072--9272186 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 32
9272062 TAAGCCCAAT
*
9272072 TTAGCTGGCACACCAACAAAAGATTTAAGCCTAGA
1 TTAGCTGGCAC-CCAA-TAAA-ATTTAAGCCTAGA
* *
9272107 TTATCTGG-TCCCAATGAAATATTTAAGCCTAGA
1 TTAGCTGGCACCCAAT-AAA-ATTTAAGCCTAGA
* *
9272140 TTAGCTGGCACCCAATAAAATTTAAGTCTAGT
1 TTAGCTGGCACCCAATAAAATTTAAGCCTAGA
*
9272172 TTAGCTAGCACCCAA
1 TTAGCTGGCACCCAA
9272187 GTTTTAAGCT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
32 25 0.36
33 30 0.43
34 7 0.10
35 7 0.10
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (32 bp):
TTAGCTGGCACCCAATAAAATTTAAGCCTAGA
Found at i:9272176 original size:32 final size:33
Alignment explanation
Indices: 9272072--9272721 Score: 146
Period size: 32 Copynumber: 20.4 Consensus size: 33
9272062 TAAGCCCAAT
*
9272072 TTAGCTGGCACACCAACAAAAGATTTAAGCCTAGA
1 TTAGCTGGCAC-CCAA-TAAAGATTTAAGCCTAGA
* * *
9272107 TTATCTGG-TCCCAATGAAATATTTAAGCCTAGA
1 TTAGCTGGCACCCAAT-AAAGATTTAAGCCTAGA
* *
9272140 TTAGCTGGCACCCAATAAA-ATTTAAGTCTAGT
1 TTAGCTGGCACCCAATAAAGATTTAAGCCTAGA
* *
9272172 TTAGCTAGCACCC----AAGTTTTAAG-CTCAGA
1 TTAGCTGGCACCCAATAAAGATTTAAGCCT-AGA
* * * * **
9272201 TTACCTAGCACTC-ATGAAAAGATTTAAG-ATCACT
1 TTAGCTGGCACCCAAT--AAAGATTTAAGCCT-AGA
* * * *
9272235 TTAGCTGGCATCC----AA-ATTGAAGCCCATA
1 TTAGCTGGCACCCAATAAAGATTTAAGCCTAGA
* * * * *
9272263 TTAGTTGGCACCCGATAAAAATTTAAGCCCAAA
1 TTAGCTGGCACCCAATAAAGATTTAAGCCTAGA
** ** *
9272296 TTATTTGGC-CCTGATGAAA-ATTTAAGCC-AGT
1 TTAGCTGGCACCCAAT-AAAGATTTAAGCCTAGA
9272327 TTAGCTGGCACCC----AAG-TTATAAGCCTAGA
1 TTAGCTGGCACCCAATAAAGATT-TAAGCCTAGA
* * * * *
9272356 TTATCTAGAACTCATATAAAGATTTAAGCCTAGT
1 TTAGCTGGCACCCA-ATAAAGATTTAAGCCTAGA
* * * *
9272390 TTAGCT---A-GC-ATACAAGTTTTAAGCTTAAA
1 TTAGCTGGCACCCAATA-AAGATTTAAGCCTAGA
* * * * * *
9272419 TTATCTAGCACTCAAGAAAATATTTAAACCTA-A
1 TTAGCTGGCACCCAA-TAAAGATTTAAGCCTAGA
* * * *
9272452 TTTAGTTAGCA-CCAATGAAGATTTAAGCC-AGT
1 -TTAGCTGGCACCCAATAAAGATTTAAGCCTAGA
* * *
9272484 TTATCTGGCACCC----AAGTTTTAAGCATAGA
1 TTAGCTGGCACCCAATAAAGATTTAAGCCTAGA
* * * *
9272513 TTATCTGGCACCTATAAAAAGATTTAAGCCTAGT
1 TTAGCTGGCACCCA-ATAAAGATTTAAGCCTAGA
* * * * *
9272547 TTAGTTGGTA-CCAATGAAGATTTAAGCCCAGT
1 TTAGCTGGCACCCAATAAAGATTTAAGCCTAGA
* * * *
9272579 TTATCTAGCACCCAATGAA-ATTTAAG-CTCAGT
1 TTAGCTGGCACCCAATAAAGATTTAAGCCT-AGA
* * *
9272611 TTATCTGGCACTC-ATGCAAAGATTTAAACCT-GA
1 TTAGCTGGCACCCAAT--AAAGATTTAAGCCTAGA
* * * *
9272644 CTTA-ATGGGCACCCAATGAA-ATTTAAGCATAGT
1 -TTAGCT-GGCACCCAATAAAGATTTAAGCCTAGA
*
9272677 TTCA-CTGGCA-TCAATGAAAGATTTAAGCCTA-A
1 TT-AGCTGGCACCCAAT-AAAGATTTAAGCCTAGA
*
9272709 TTTAGCTAGCACC
1 -TTAGCTGGCACC
9272722 TAGGTTTTAA
Statistics
Matches: 453, Mismatches: 104, Indels: 117
0.67 0.15 0.17
Matches are distributed among these distances:
27 4 0.01
28 41 0.09
29 63 0.14
30 1 0.00
31 24 0.05
32 114 0.25
33 93 0.21
34 99 0.22
35 14 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (33 bp):
TTAGCTGGCACCCAATAAAGATTTAAGCCTAGA
Found at i:9272291 original size:33 final size:33
Alignment explanation
Indices: 9272248--9272339 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 33
9272238 GCTGGCATCC
*
9272248 AAATTGAAGCCCATATTAGTTGGCACCCGATAA
1 AAATTTAAGCCCATATTAGTTGGCACCCGATAA
* * * *
9272281 AAATTTAAGCCCAAATTATTTGGC-CCTGATGA
1 AAATTTAAGCCCATATTAGTTGGCACCCGATAA
*
9272313 AAATTTAAG-CCAGT-TTAGCTGGCACCC
1 AAATTTAAGCCCA-TATTAGTTGGCACCC
9272340 AAGTTATAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
31 10 0.21
32 17 0.35
33 21 0.44
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (33 bp):
AAATTTAAGCCCATATTAGTTGGCACCCGATAA
Found at i:9272444 original size:63 final size:63
Alignment explanation
Indices: 9272315--9272463 Score: 167
Period size: 63 Copynumber: 2.4 Consensus size: 63
9272305 CCTGATGAAA
* * * *
9272315 ATTTAAGCC-AGTTTAGCTGGCACCCAAGTTATAAGCCTAGATTATCTAGAACTCATATAAAG
1 ATTTAAGCCTAGTTTAGCTAGCACACAAGTTATAAGCCTAAATTATCTAGAACTCATAAAAAG
* * * * *
9272377 ATTTAAGCCTAGTTTAGCTAGCATACAAGTTTTAAGCTTAAATTATCTAGCACTCA-AGAAAAT
1 ATTTAAGCCTAGTTTAGCTAGCACACAAGTTATAAGCCTAAATTATCTAGAACTCATA-AAAAG
* * *
9272440 ATTTAAACCTAATTTAGTTAGCAC
1 ATTTAAGCCTAGTTTAGCTAGCAC
9272464 CAATGAAGAT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
62 10 0.14
63 62 0.86
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.32
Consensus pattern (63 bp):
ATTTAAGCCTAGTTTAGCTAGCACACAAGTTATAAGCCTAAATTATCTAGAACTCATAAAAAG
Found at i:9272633 original size:66 final size:65
Alignment explanation
Indices: 9272558--9272721 Score: 167
Period size: 66 Copynumber: 2.5 Consensus size: 65
9272548 TAGTTGGTAC
*
9272558 CAATG-AAGATTTAAGCCCAGTTTATCTAGCACCCAATGAAATTTAAGC-TCAGTTT-ATCTGGC
1 CAATGAAAGATTTAAGCCCAATTTATCTAGCACCCAATGAAATTTAAGCAT-AGTTTCA-CTGGC
9272620 ACT
64 A-T
* * * * **
9272623 C-ATGCAAAGATTTAAACCTGACTTAAT-GGGCACCCAATGAAATTTAAGCATAGTTTCACTGGC
1 CAATG-AAAGATTTAAGCC-CAATTTATCTAGCACCCAATGAAATTTAAGCATAGTTTCACTGGC
9272686 AT
64 AT
* *
9272688 CAATGAAAGATTTAAGCCTAATTTAGCTAGCACC
1 CAATGAAAGATTTAAGCCCAATTTATCTAGCACC
9272722 TAGGTTTTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
64 7 0.09
65 20 0.25
66 45 0.57
67 7 0.09
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (65 bp):
CAATGAAAGATTTAAGCCCAATTTATCTAGCACCCAATGAAATTTAAGCATAGTTTCACTGGCAT
Found at i:9272668 original size:98 final size:94
Alignment explanation
Indices: 9272374--9272671 Score: 298
Period size: 94 Copynumber: 3.1 Consensus size: 94
9272364 AACTCATATA
* * ** * * * * *
9272374 AAGATTTAAGCCTAGTTTAGCTAGCATACAAGTTTTAAGCTTAAATTATCTAGCACTCAAGAAAA
1 AAGATTTAAGCCCAGTTTATCTAGCACCCAAGATTTAAGCATAGATTATCTGGCACTCATGAAAA
* *
9272439 TATTTAAACCTAATTTAGTTAGCACCAATG
66 GATTTAAACCT-ATTTAGTTGGCACCAATG
* * *
9272469 AAGATTTAAG-CCAGTTTATCTGGCACCCAAGTTTTAAGCATAGATTATCTGGCAC-CTATAAAA
1 AAGATTTAAGCCCAGTTTATCTAGCACCCAAGATTTAAGCATAGATTATCTGGCACTC-ATGAAA
* *
9272532 AGATTTAAGCCTAGTTTAGTTGGTACCAATG
65 AGATTTAAACCTA-TTTAGTTGGCACCAATG
*
9272563 AAGATTTAAGCCCAGTTTATCTAGCACCCAATGAAATTTAAGC-TCAGTTTATCTGGCACTCATG
1 AAGATTTAAGCCCAGTTTATCTAGCACCCAA-G--ATTTAAGCAT-AGATTATCTGGCACTCATG
* * * *
9272627 CAAAGATTTAAACCTGACTTAATGGGCACCCAATG
62 AAAAGATTTAAACCT-ATTTAGTTGGCA-CCAATG
9272662 AA-ATTTAAGC
1 AAGATTTAAGC
9272672 ATAGTTTCAC
Statistics
Matches: 169, Mismatches: 24, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
93 2 0.01
94 76 0.45
95 29 0.17
96 1 0.01
97 1 0.01
98 50 0.30
99 10 0.06
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (94 bp):
AAGATTTAAGCCCAGTTTATCTAGCACCCAAGATTTAAGCATAGATTATCTGGCACTCATGAAAA
GATTTAAACCTATTTAGTTGGCACCAATG
Found at i:9272776 original size:62 final size:62
Alignment explanation
Indices: 9272665--9272782 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
9272655 CCCAATGAAA
* *
9272665 TTTAAGCATAGTTTCACTGGCATCAATGAAAGATTTAAGCCTAATTTAGCTAGCACCTAGGT
1 TTTAAGCATAGTTTAACTGGCATCAATGAAAGATTTAAGCCTAAGTTAGCTAGCACCTAGGT
* * * *
9272727 TTTAAGCCTAGTATTAACTGGCATTAATGAAA-ATTTAAG-TTCAAGTTAGCTGGCAC
1 TTTAAGCATAGT-TTAACTGGCATCAATGAAAGATTTAAGCCT-AAGTTAGCTAGCAC
9272783 ACAAGTTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
61 1 0.02
62 30 0.62
63 17 0.35
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (62 bp):
TTTAAGCATAGTTTAACTGGCATCAATGAAAGATTTAAGCCTAAGTTAGCTAGCACCTAGGT
Found at i:9272854 original size:22 final size:23
Alignment explanation
Indices: 9272807--9272857 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
9272797 TAATACTAGT
* *
9272807 TGGCATGTAAGTCCATAATTAAC
1 TGGCATGAAAGCCCATAATTAAC
*
9272830 TGGCATGAAAGCCCA-AATTAGC
1 TGGCATGAAAGCCCATAATTAAC
9272852 TGGCAT
1 TGGCAT
9272858 CTAGGCCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (23 bp):
TGGCATGAAAGCCCATAATTAAC
Found at i:9273023 original size:15 final size:15
Alignment explanation
Indices: 9272950--9273072 Score: 77
Period size: 15 Copynumber: 7.7 Consensus size: 15
9272940 GGTCGTCATA
9272950 AAAAAACCAAAAAA-T
1 AAAAAA-CAAAAAACT
* *
9272965 AAAAGCAAAAAAAAACC
1 AAAA--AACAAAAAACT
* *
9272982 AAAAACCAAAAAACC
1 AAAAAACAAAAAACT
*
9272997 AAAAAACCAAAAACT
1 AAAAAACAAAAAACT
* *
9273012 AAAAAATAAAAAAAT
1 AAAAAACAAAAAACT
*
9273027 AAAATAAAAAGAAAAAACT
1 ---A-AAAAACAAAAAACT
* *
9273046 GAAAAAAAAAAAAACA
1 -AAAAAACAAAAAACT
9273062 AAAAAACAAAA
1 AAAAAACAAAA
9273073 GCAAAAAAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
15 47 0.55
16 18 0.21
17 7 0.08
18 1 0.01
19 12 0.14
ACGTcount: A:0.80, C:0.12, G:0.02, T:0.05
Consensus pattern (15 bp):
AAAAAACAAAAAACT
Found at i:9273023 original size:23 final size:23
Alignment explanation
Indices: 9272947--9273025 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
9272937 CTTGGTCGTC
*
9272947 ATAAAAAAACCAAAAAATAAAAGCA
1 ATAAAAAAACCAAAAACTAAAA--A
*
9272972 A-AAAAAAACCAAAAACCAAAAA
1 ATAAAAAAACCAAAAACTAAAAA
**
9272994 ACCAAAAAACCAAAAACTAAAAA
1 ATAAAAAAACCAAAAACTAAAAA
9273017 ATAAAAAAA
1 ATAAAAAAA
9273026 TAAAATAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.04
23 26 0.55
24 18 0.38
25 1 0.02
ACGTcount: A:0.78, C:0.15, G:0.01, T:0.05
Consensus pattern (23 bp):
ATAAAAAAACCAAAAACTAAAAA
Found at i:9273036 original size:34 final size:34
Alignment explanation
Indices: 9272998--9273064 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
9272988 CAAAAAACCA
* *
9272998 AAAAACCAAAAACT-AAAAAATAAAAAAATAAAAT
1 AAAAACAAAAAACTGAAAAAA-AAAAAAACAAAAT
*
9273032 AAAAAGAAAAAACTGAAAAAAAAAAAAACAAAA
1 AAAAACAAAAAACTGAAAAAAAAAAAAACAAAA
9273065 AAACAAAAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 23 0.79
35 6 0.21
ACGTcount: A:0.82, C:0.07, G:0.03, T:0.07
Consensus pattern (34 bp):
AAAAACAAAAAACTGAAAAAAAAAAAAACAAAAT
Found at i:9273072 original size:7 final size:7
Alignment explanation
Indices: 9272950--9273072 Score: 70
Period size: 7 Copynumber: 16.6 Consensus size: 7
9272940 GGTCGTCATA
9272950 AAAAAACC
1 AAAAAA-C
*
9272958 AAAAAAT
1 AAAAAAC
*
9272965 AAAAGCAAA
1 AAAA--AAC
9272974 AAAAAACC
1 AAAAAA-C
*
9272982 AAAAACC
1 AAAAAAC
9272989 AAAAAACC
1 AAAAAA-C
9272997 AAAAAAC
1 AAAAAAC
*
9273004 CAAAAAC
1 AAAAAAC
*
9273011 TAAAAAAT
1 -AAAAAAC
9273019 AAAAAA-
1 AAAAAAC
*
9273025 ATAAAA-
1 AAAAAAC
* *
9273031 TAAAAAG
1 AAAAAAC
9273038 AAAAAAC
1 AAAAAAC
*
9273045 TGAAAAAAA
1 --AAAAAAC
9273054 AAAAAAC
1 AAAAAAC
9273061 AAAAAAAC
1 -AAAAAAC
9273069 AAAA
1 AAAA
9273073 GCAAAAAAAA
Statistics
Matches: 91, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
6 9 0.10
7 40 0.44
8 30 0.33
9 12 0.13
ACGTcount: A:0.80, C:0.12, G:0.02, T:0.05
Consensus pattern (7 bp):
AAAAAAC
Found at i:9273081 original size:9 final size:8
Alignment explanation
Indices: 9272949--9273072 Score: 76
Period size: 8 Copynumber: 15.5 Consensus size: 8
9272939 TGGTCGTCAT
9272949 AAAAAAAC
1 AAAAAAAC
* *
9272957 CAAAAAAT
1 AAAAAAAC
*
9272965 AAAAGCAA-
1 AAAA-AAAC
9272973 AAAAAAAC
1 AAAAAAAC
*
9272981 -CAAAAAC
1 AAAAAAAC
*
9272988 CAAAAAAC
1 AAAAAAAC
*
9272996 CAAAAAAC
1 AAAAAAAC
*
9273004 -CAAAAAC
1 AAAAAAAC
* *
9273011 TAAAAAAT
1 AAAAAAAC
*
9273019 AAAAAAAT
1 AAAAAAAC
*
9273027 AAAATAAAA
1 AAAA-AAAC
9273036 AGAAAAAAC
1 A-AAAAAAC
*
9273045 TGAAAAAA-
1 -AAAAAAAC
9273053 AAAAAAAC
1 AAAAAAAC
9273061 AAAAAAAC
1 AAAAAAAC
9273069 AAAA
1 AAAA
9273073 GCAAAAAAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
7 20 0.22
8 55 0.59
9 15 0.16
10 3 0.03
ACGTcount: A:0.81, C:0.12, G:0.02, T:0.05
Consensus pattern (8 bp):
AAAAAAAC
Found at i:9273523 original size:27 final size:28
Alignment explanation
Indices: 9273493--9273557 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
9273483 ATAATAATAG
9273493 TAATAAAATG-T-ATATAA-ATATAACATA
1 TAATAAAATGATGATATAATATATAA-A-A
9273520 TAATAAATAATGATGATATAATATATAAAA
1 TAAT-AA-AATGATGATATAATATATAAAA
9273550 TAATAAAA
1 TAATAAAA
9273558 ATAAAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
27 4 0.12
28 4 0.12
29 6 0.18
30 6 0.18
31 7 0.21
32 6 0.18
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
TAATAAAATGATGATATAATATATAAAA
Found at i:9273840 original size:2 final size:2
Alignment explanation
Indices: 9273827--9273869 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
9273817 GCAGTCAAGA
*
9273827 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9273869 A
1 A
9273870 ACTGGATGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9274232 original size:164 final size:161
Alignment explanation
Indices: 9273929--9274247 Score: 478
Period size: 164 Copynumber: 2.0 Consensus size: 161
9273919 AAAACTGAAA
* *
9273929 GAGGACGTGAAAAAGCCACTGCCAAGTGCCAAATAAAACTGAAAAGCTGCACAACATGGGCCAGC
1 GAGGACATGAAAAAGCCACTGCCAAGTGCCAAAGAAAACTGAAAAGCTGCACAACATGGGCCAGC
9273994 AACGTGAGGAAGCAGAAAAAAACTGAAATAAAAAAGTTAAAGGAGAGGTAGCTAGTTATAGGAGG
66 AACGTGAGGAAGCAGAAAAAAACTGAAATAAAAAAGTTAAAGGAGAGGTAGCTAGTTATAGGAGG
9274059 AAGCAAAGAAACGGGAAGAAAAAAAAAACTG
131 AAGCAAAGAAACGGGAAGAAAAAAAAAACTG
* ** * *
9274090 GAGGACATGGAAAAGCTGCTGCCAAGTGCCAAAAGAAAACTGAAAAGCTGCACAGCATGGGCTAG
1 GAGGACATGAAAAAGCCACTGCCAAGTGCC-AAAGAAAACTGAAAAGCTGCACAACATGGGCCAG
* ** * *
9274155 CAACGTGAGGAAGCAG-AAACATTTGAAATAAAGAAGTTAAAGAAGGAGAGGTAGCTGGTTATAG
65 CAACGTGAGGAAGCAGAAAAAAACTGAAATAAAAAAGTT--A-AAGGAGAGGTAGCTAGTTATAG
*
9274219 GCGGAAGCAAAGAAACGGGAAGAAAAAAA
127 GAGGAAGCAAAGAAACGGGAAGAAAAAAA
9274248 GAAAGAAGAA
Statistics
Matches: 141, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
161 44 0.31
162 47 0.33
163 1 0.01
164 49 0.35
ACGTcount: A:0.46, C:0.14, G:0.28, T:0.12
Consensus pattern (161 bp):
GAGGACATGAAAAAGCCACTGCCAAGTGCCAAAGAAAACTGAAAAGCTGCACAACATGGGCCAGC
AACGTGAGGAAGCAGAAAAAAACTGAAATAAAAAAGTTAAAGGAGAGGTAGCTAGTTATAGGAGG
AAGCAAAGAAACGGGAAGAAAAAAAAAACTG
Found at i:9274247 original size:162 final size:160
Alignment explanation
Indices: 9273929--9274247 Score: 469
Period size: 162 Copynumber: 2.0 Consensus size: 160
9273919 AAAACTGAAA
* *
9273929 GAGGACGTGAAAAAGCCACTGCCAAGTGCCAAATAAAACTGAAAAGCTGCACAACATGGGCCAGC
1 GAGGACATGAAAAAGCCACTGCCAAGTGCCAAAGAAAACTGAAAAGCTGCACAACATGGGCCAGC
9273994 AACGTGAGGAAGCAGAAAAAAACTGAAATAAAAAAGTTAAAGGAGAGGTAGCTAGTTATAGGAGG
66 AACGTGAGGAAGCAGAAAAAAACTGAAATAAAAAAGTTAAAGGAGAGGTAGCTAGTTATAGGAGG
9274059 AAGCAAAGAAACGGGAAGAAAAAAAAAACTG
131 AAGCAAAGAAACGGGAAG-AAAAAAAAACTG
* ** * *
9274090 GAGGACATGGAAAAGCTGCTGCCAAGTGCCAAAAGAAAACTGAAAAGCTGCACAGCATGGGCTAG
1 GAGGACATGAAAAAGCCACTGCCAAGTGCC-AAAGAAAACTGAAAAGCTGCACAACATGGGCCAG
* ** * *
9274155 CAACGTGAGGAAGCAG-AAACATTTGAAATAAAGAAGTTAAAGAAGGAGAGGTAGCTGGTTATAG
65 CAACGTGAGGAAGCAGAAAAAAACTGAAATAAAAAAGTT--A-AAGGAGAGGTAGCTAGTTATAG
*
9274219 GCGGAAGCAAAGAAACGGGAAGAAAAAAA
127 GAGGAAGCAAAGAAACGGGAAGAAAAAAA
9274248 GAAAGAAGAA
Statistics
Matches: 141, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
161 44 0.31
162 47 0.33
163 8 0.06
164 42 0.30
ACGTcount: A:0.46, C:0.14, G:0.28, T:0.12
Consensus pattern (160 bp):
GAGGACATGAAAAAGCCACTGCCAAGTGCCAAAGAAAACTGAAAAGCTGCACAACATGGGCCAGC
AACGTGAGGAAGCAGAAAAAAACTGAAATAAAAAAGTTAAAGGAGAGGTAGCTAGTTATAGGAGG
AAGCAAAGAAACGGGAAGAAAAAAAAACTG
Found at i:9275301 original size:52 final size:52
Alignment explanation
Indices: 9275223--9275326 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
9275213 TATAACCATA
*
9275223 CAAACTTACCTATTAAGAATCTTTTTTT-TCTAAGAATTCTTCTTCTGCAAGT
1 CAAACTTACCTATTAAAAATCTTTTTTTCTCTAAGAATT-TTCTTCTGCAAGT
* * * * *
9275275 CAAACTTGCTTATTAAAAATCTTTTTTTCTCTTAGAATTTTTTTTTGCAAGT
1 CAAACTTACCTATTAAAAATCTTTTTTTCTCTAAGAATTTTCTTCTGCAAGT
9275327 TTTCTTGTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 36 0.80
53 9 0.20
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (52 bp):
CAAACTTACCTATTAAAAATCTTTTTTTCTCTAAGAATTTTCTTCTGCAAGT
Found at i:9276191 original size:52 final size:52
Alignment explanation
Indices: 9276120--9276224 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
9276110 TATAACCATA
* *
9276120 CAAACTTGTCTATTAAGAATCTTTGTCCTCTAAGAATTCTTTTTCTACAAGT
1 CAAACTTGCCTATTAAGAATCTTTGTCCTCTAAGAATTCTTTTCCTACAAGT
* * * *
9276172 CAAACTTGCCTATTAAGAATCTTTTTTCTCTTAGAATTCTTTTCCTGCAAGT
1 CAAACTTGCCTATTAAGAATCTTTGTCCTCTAAGAATTCTTTTCCTACAAGT
9276224 C
1 C
9276225 TTTTTGTCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.43
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTTTGTCCTCTAAGAATTCTTTTCCTACAAGT
Found at i:9277278 original size:8 final size:7
Alignment explanation
Indices: 9277252--9277276 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9277242 TTAAAATAAT
9277252 AAAATTA
1 AAAATTA
9277259 AAAATTA
1 AAAATTA
9277266 AAAATTA
1 AAAATTA
9277273 AAAA
1 AAAA
9277277 ATGAGGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:9286181 original size:46 final size:46
Alignment explanation
Indices: 9286074--9286195 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
9286064 TTAAGAATAC
* * *
9286074 ATTAAAATAATTTTGATGAGATCTATATTTAAATTTTTTAGCTTTT
1 ATTAAAATAATTCTGGTGAGATCGATATTTAAATTTTTTAGCTTTT
9286120 ATTAAAATAATTCTGGT-ATGATCGATATTTAAATTTTTTAGCTTTT
1 ATTAAAATAATTCTGGTGA-GATCGATATTTAAATTTTTTAGCTTTT
* *
9286166 ATTAAAATAATTCTGGTGGGATTGATATTT
1 ATTAAAATAATTCTGGTGAGATCGATATTT
9286196 GTAAGATTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
45 1 0.01
46 68 0.99
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (46 bp):
ATTAAAATAATTCTGGTGAGATCGATATTTAAATTTTTTAGCTTTT
Found at i:9293609 original size:31 final size:29
Alignment explanation
Indices: 9293541--9293629 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
9293531 AAGTCCTAAT
* * *
9293541 CTTTAATTTGAACCCAAATAATCCTTAAC
1 CTTTAATTTGTACTCAAATAAACCTTAAC
*
9293570 CTTTAATTTGTATTCAAATAAACCTTTAAAC
1 CTTTAATTTGTACTCAAATAAACC-TT-AAC
* *
9293601 TTTTAATTTGTACT-AAATAAGCCCTTAAC
1 CTTTAATTTGTACTCAAATAA-ACCTTAAC
9293630 ATGAATCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 23 0.46
30 10 0.20
31 17 0.34
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.39
Consensus pattern (29 bp):
CTTTAATTTGTACTCAAATAAACCTTAAC
Found at i:9297665 original size:24 final size:24
Alignment explanation
Indices: 9297638--9297687 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
9297628 AGGTAATCAA
9297638 AGTAAGAATCATTTTCTTTACATT
1 AGTAAGAATCATTTTCTTTACATT
9297662 AGTAAGAATCATTTTCTTTACATT
1 AGTAAGAATCATTTTCTTTACATT
9297686 AG
1 AG
9297688 GATAGCTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (24 bp):
AGTAAGAATCATTTTCTTTACATT
Found at i:9298034 original size:16 final size:16
Alignment explanation
Indices: 9298013--9298049 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
9298003 CATAGCAAAT
9298013 ATGATACTTCCATTAA
1 ATGATACTTCCATTAA
9298029 ATGATACTTCCATTAA
1 ATGATACTTCCATTAA
9298045 A-GATA
1 ATGATA
9298050 AATCTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (16 bp):
ATGATACTTCCATTAA
Found at i:9301087 original size:14 final size:14
Alignment explanation
Indices: 9301068--9301102 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
9301058 GCTGAATAGG
9301068 GTCTTGGTGGAGTA
1 GTCTTGGTGGAGTA
9301082 GTCTTGGTGGAGTA
1 GTCTTGGTGGAGTA
9301096 GTCTTGG
1 GTCTTGG
9301103 CCTTTCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.09, G:0.43, T:0.37
Consensus pattern (14 bp):
GTCTTGGTGGAGTA
Found at i:9314453 original size:38 final size:38
Alignment explanation
Indices: 9314404--9314493 Score: 144
Period size: 38 Copynumber: 2.4 Consensus size: 38
9314394 AAAAACGAAA
9314404 AAAAAAAAAGAAAAAGCCAAAAATGGATAAGAAAAAAG
1 AAAAAAAAAGAAAAAGCCAAAAATGGATAAGAAAAAAG
* * * *
9314442 AGAAGAAAAGAAAAAGCCAAAAATGGCTATGAAAAAAG
1 AAAAAAAAAGAAAAAGCCAAAAATGGATAAGAAAAAAG
9314480 AAAAAAAAAGAAAA
1 AAAAAAAAAGAAAA
9314494 GAAAATGCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.72, C:0.06, G:0.17, T:0.06
Consensus pattern (38 bp):
AAAAAAAAAGAAAAAGCCAAAAATGGATAAGAAAAAAG
Found at i:9316092 original size:18 final size:18
Alignment explanation
Indices: 9316066--9316106 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9316056 GGTTGTTGAT
*
9316066 TTTTA-AATTTTCAATGC
1 TTTTACAATTTCCAATGC
*
9316083 TTTTACAATTTCCATTGC
1 TTTTACAATTTCCAATGC
9316101 TTTTAC
1 TTTTAC
9316107 TTTTGCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTTACAATTTCCAATGC
Found at i:9324215 original size:18 final size:18
Alignment explanation
Indices: 9324192--9324252 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
9324182 GGAAAAGTAA
9324192 GAACCTTTAGATATCCCT
1 GAACCTTTAGATATCCCT
* * * **
9324210 GAACCTTAAGGAGA-ACAA
1 GAACCTTTA-GATATCCCT
9324228 GAACCTTTAGATATCCCT
1 GAACCTTTAGATATCCCT
9324246 GAACCTT
1 GAACCTT
9324253 AAGTAGAACC
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
17 3 0.10
18 25 0.81
19 3 0.10
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (18 bp):
GAACCTTTAGATATCCCT
Found at i:9324237 original size:36 final size:36
Alignment explanation
Indices: 9324190--9324261 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
9324180 AGGGAAAAGT
9324190 AAGAACCTTTAGATATCCCTGAACCTTAAGGAGAAC
1 AAGAACCTTTAGATATCCCTGAACCTTAAGGAGAAC
*
9324226 AAGAACCTTTAGATATCCCTGAACCTTAAGTAGAAC
1 AAGAACCTTTAGATATCCCTGAACCTTAAGGAGAAC
9324262 CTTCAACCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (36 bp):
AAGAACCTTTAGATATCCCTGAACCTTAAGGAGAAC
Found at i:9335485 original size:64 final size:62
Alignment explanation
Indices: 9335379--9335513 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 62
9335369 ATTGGCTTAT
* * * * *
9335379 AAAAAATTTGGAAGGGATTATTAAAGGCATTTTTGGCTAAAAAAGTCTTTAATAATCCATTC
1 AAAAATTTTGGAAGGGATTATTAAAGGCATTTTAGGCTAAAAAAGCCTTCAATAATCCATAC
* * *
9335441 AAAATATTTTGGAGAGGGATTGTTAAAGGCATTTTCAGTC-AAAAATGCCTTCAATAATCCATAC
1 AAAA-ATTTTGGA-AGGGATTATTAAAGGCATTTT-AGGCTAAAAAAGCCTTCAATAATCCATAC
9335505 AAAAATTTT
1 AAAAATTTT
9335514 TTTGCATGGA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
62 4 0.06
63 12 0.19
64 44 0.71
65 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (62 bp):
AAAAATTTTGGAAGGGATTATTAAAGGCATTTTAGGCTAAAAAAGCCTTCAATAATCCATAC
Found at i:9335846 original size:63 final size:63
Alignment explanation
Indices: 9335761--9336053 Score: 225
Period size: 63 Copynumber: 4.7 Consensus size: 63
9335751 AATTGAATGG
* ** *
9335761 GATTATTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATCCAT-TCAAAAAATTTGGAGAGA
1 GATTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCATAT-AAAAAATTTGGAGAGA
* * * * ** *
9335824 GAATATTAAAGGCATTTTTGGCCAAAAATACCTTTAATAATCTATATAAAACATTTTCAGGGA
1 GATTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCATATAAAAAATTTGGAGAGA
** * * * * * * *
9335887 GATTATTGGAGGCATTTTTGGCAAAAAATGCTTTCAATAATCTATTATAAAAATTTATTGATAG-
1 GATTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCA-TATAAAAAATT-TGGAGAGA
** * * * *
9335951 GATTATTAAAGGTGTTTTTGACCAAAAATACTTTCAATAATCC-TCTAAAAAAATTTGGA-AGG
1 GATTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCATAT-AAAAAATTTGGAGAGA
* * * * * * *
9336013 GATTATTGAACGCGTTTTTGACTAAAAACACCTACAATAAT
1 GATTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAAT
9336054 TCCCCAATAA
Statistics
Matches: 184, Mismatches: 41, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
61 2 0.01
62 39 0.21
63 94 0.51
64 45 0.24
65 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (63 bp):
GATTATTAAAGGCATTTTTGGCCAAAAATACCTTCAATAATCCATATAAAAAATTTGGAGAGA
Found at i:9335978 original size:64 final size:63
Alignment explanation
Indices: 9335761--9335992 Score: 229
Period size: 63 Copynumber: 3.7 Consensus size: 63
9335751 AATTGAATGG
* ** * * * *
9335761 GATTATTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATCCATTCA-AAAAATTTGGAGAGA
1 GATTATTAAAGGCATTTTTGGCCAAAAATACTTTCAATAATCTATT-ATAAAAATTTTGAGAGA
* * *
9335824 GAATATTAAAGGCATTTTTGGCCAAAAATACCTTT-AATAATCTA-TATAAAACATTTTCAGGGA
1 GATTATTAAAGGCATTTTTGGCCAAAAATA-CTTTCAATAATCTATTATAAAA-ATTTTGAGAGA
** * * *
9335887 GATTATTGGAGGCATTTTTGGCAAAAAATGCTTTCAATAATCTATTATAAAAATTTATTGATAG-
1 GATTATTAAAGGCATTTTTGGCCAAAAATACTTTCAATAATCTATTATAAAAA-TT-TTGAGAGA
** *
9335951 GATTATTAAAGGTGTTTTTGACCAAAAATACTTTCAATAATC
1 GATTATTAAAGGCATTTTTGGCCAAAAATACTTTCAATAATC
9335993 CTCTAAAAAA
Statistics
Matches: 137, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
61 1 0.01
62 9 0.07
63 76 0.55
64 47 0.34
65 4 0.03
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (63 bp):
GATTATTAAAGGCATTTTTGGCCAAAAATACTTTCAATAATCTATTATAAAAATTTTGAGAGA
Found at i:9336031 original size:126 final size:124
Alignment explanation
Indices: 9335747--9336053 Score: 300
Period size: 126 Copynumber: 2.4 Consensus size: 124
9335737 ATTGGCTTAC
* *
9335747 AAAAAA-TTGAATGGGATTATTGAAGGTGTTTTTGGCCAAAAACACCTTCAATAATCCATTCAAA
1 AAAAAATTTGAA-GGGATTATTGAAGGCGTTTTTGGCAAAAAACACCTTCAATAATCCATTCAAA
*
9335811 AAATTTGGAGAGAGAATATTAAAGGCATTTTTGGCCAAAAATACCTTTAATAATCTATAT
65 AAATTTGGAGAGAGAATATTAAAGGCATTTTTGACCAAAAATACCTTTAATAATCTATAT
* * * * * ** * *
9335871 AAAACATTTTCAGGGAGATTATTGGAGGCATTTTTGGCAAAAAATGCTTTCAATAATCTATT-AT
1 AAAA-AATTTGAAGG-GATTATTGAAGGCGTTTTTGGCAAAAAACACCTTCAATAATCCATTCA-
* * * ** *
9335935 AAAAATTTATTGATAG-GATTATTAAAGGTGTTTTTGACCAAAAATA-CTTTCAATAATCCTCTA
63 AAAAA-TT-TGGAGAGAGAATATTAAAGGCATTTTTGACCAAAAATACCTTT-AATAAT-CTATA
9335998 -
124 T
* * * *
9335998 AAAAAATTTGGAAGGGATTATTGAACGCGTTTTTGACTAAAAACACCTACAATAAT
1 AAAAAATTT-GAAGGGATTATTGAAGGCGTTTTTGGCAAAAAACACCTTCAATAAT
9336054 TCCCCAATAA
Statistics
Matches: 144, Mismatches: 30, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
124 4 0.03
125 4 0.03
126 86 0.60
127 41 0.28
128 9 0.06
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (124 bp):
AAAAAATTTGAAGGGATTATTGAAGGCGTTTTTGGCAAAAAACACCTTCAATAATCCATTCAAAA
AATTTGGAGAGAGAATATTAAAGGCATTTTTGACCAAAAATACCTTTAATAATCTATAT
Found at i:9339525 original size:18 final size:21
Alignment explanation
Indices: 9339466--9339530 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
9339456 CCATAGTGAA
** * *
9339466 AGTGAGATTAGTTACTATAGC
1 AGTGAGATTAAATACTGTAGT
9339487 AGTGAGATTAAATACTGTAGT
1 AGTGAGATTAAATACTGTAGT
*
9339508 GGTGAGATTAAA-A-T-TAGT
1 AGTGAGATTAAATACTGTAGT
9339526 AGTGA
1 AGTGA
9339531 TATATGTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 8 0.21
19 1 0.03
20 1 0.03
21 28 0.74
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (21 bp):
AGTGAGATTAAATACTGTAGT
Found at i:9339703 original size:18 final size:18
Alignment explanation
Indices: 9339647--9339710 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
9339637 TATATATTTG
9339647 ATATTTTTATATT-AATA
1 ATATTTTTATATTAAATA
* *
9339664 A-ATTATTAAAAATATAAA-A
1 ATATT-TT-TATAT-TAAATA
9339683 ATATTTTTATATTAAATA
1 ATATTTTTATATTAAATA
*
9339701 ATAATTTTAT
1 ATATTTTTAT
9339711 TCATAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 11
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.08
17 7 0.19
18 16 0.44
19 5 0.14
20 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTTTTATATTAAATA
Found at i:9341026 original size:61 final size:62
Alignment explanation
Indices: 9340954--9341148 Score: 191
Period size: 61 Copynumber: 3.2 Consensus size: 62
9340944 AAAAACCCAT
9340954 GGATTATTGAAGGTGTTTTTAATGGAAAACATCTTCAA-AATCCCCTCTAAAAATTTGGAAA
1 GGATTATTGAAGGTGTTTTTAATGGAAAACATCTTCAATAATCCCCTCTAAAAATTTGGAAA
** ** ** * * * *** ****** *
9341015 GGATTATTGAAGGCATTTTTGGTCAAAAATACCTTGAATAAT--CCAAAAAAAAAAACCCAT
1 GGATTATTGAAGGTGTTTTTAATGGAAAACATCTTCAATAATCCCCTCTAAAAATTTGGAAA
9341075 GGATTATTGAAGGTG-TTTTAATGGAAAACATCTTCAATAATCCCCTCTAAAAATTTGGAAA
1 GGATTATTGAAGGTGTTTTTAATGGAAAACATCTTCAATAATCCCCTCTAAAAATTTGGAAA
9341136 GGATTATTGAAGG
1 GGATTATTGAAGG
9341149 CATTTTTGGC
Statistics
Matches: 93, Mismatches: 38, Indels: 6
0.68 0.28 0.04
Matches are distributed among these distances:
59 19 0.20
60 21 0.23
61 50 0.54
62 3 0.03
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (62 bp):
GGATTATTGAAGGTGTTTTTAATGGAAAACATCTTCAATAATCCCCTCTAAAAATTTGGAAA
Found at i:9341108 original size:120 final size:122
Alignment explanation
Indices: 9340903--9341180 Score: 490
Period size: 121 Copynumber: 2.3 Consensus size: 122
9340893 TTAATGATTC
*
9340903 AAGGCATTTTCTGGGCAAAAATGCCTTGAATAATCC-AAAAAAAAAACCCATGGATTATTGAAGG
1 AAGGCATTTT-TGGCCAAAAATGCCTTGAATAATCCAAAAAAAAAAACCCATGGATTATTGAAGG
9340967 TGTTTTTAATGGAAAACATCTTCAA-AATCCCCTCTAAAAATTTGGAAAGGATTATTG
65 TGTTTTTAATGGAAAACATCTTCAATAATCCCCTCTAAAAATTTGGAAAGGATTATTG
* *
9341024 AAGGCATTTTTGGTCAAAAATACCTTGAATAATCCAAAAAAAAAAACCCATGGATTATTGAAGGT
1 AAGGCATTTTTGGCCAAAAATGCCTTGAATAATCCAAAAAAAAAAACCCATGGATTATTGAAGGT
9341089 G-TTTTAATGGAAAACATCTTCAATAATCCCCTCTAAAAATTTGGAAAGGATTATTG
66 GTTTTTAATGGAAAACATCTTCAATAATCCCCTCTAAAAATTTGGAAAGGATTATTG
*
9341145 AAGGCATTTTTGGCCAAAAATGCCTTAAATAATCCA
1 AAGGCATTTTTGGCCAAAAATGCCTTGAATAATCCA
9341181 TGAATTATTA
Statistics
Matches: 150, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
120 45 0.30
121 105 0.70
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (122 bp):
AAGGCATTTTTGGCCAAAAATGCCTTGAATAATCCAAAAAAAAAAACCCATGGATTATTGAAGGT
GTTTTTAATGGAAAACATCTTCAATAATCCCCTCTAAAAATTTGGAAAGGATTATTG
Found at i:9341451 original size:63 final size:63
Alignment explanation
Indices: 9341353--9341516 Score: 197
Period size: 63 Copynumber: 2.6 Consensus size: 63
9341343 TAATCCATGA
* ** *
9341353 ATTATTCAAGGCA-TTTTTAGCCAAAAACACCTTCAATAATCCCATTCA-ATATTTTGTAAGGG
1 ATTATTCAAGGCATTTTTTAGCCAAAAACACCTTCAATAATCCCA-TCATAAAAATTGAAAGGG
* * * * *
9341415 ATTATTCAAAGCATTTTTTGGCTAAAAACGCCTTCAATAATCTCATCATAAAAATTGAAAGGG
1 ATTATTCAAGGCATTTTTTAGCCAAAAACACCTTCAATAATCCCATCATAAAAATTGAAAGGG
* * *
9341478 ATTATTCAAGGTATTTTTTAGTCAAAAACACCTTGAATA
1 ATTATTCAAGGCATTTTTTAGCCAAAAACACCTTCAATA
9341517 TTCCAAAAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
62 15 0.18
63 69 0.82
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (63 bp):
ATTATTCAAGGCATTTTTTAGCCAAAAACACCTTCAATAATCCCATCATAAAAATTGAAAGGG
Found at i:9341821 original size:294 final size:294
Alignment explanation
Indices: 9341275--9342056 Score: 1056
Period size: 294 Copynumber: 2.7 Consensus size: 294
9341265 GTCATAAACG
* ** * * ** * *
9341275 CCTTGAATAATCCCCTCTAAATGAATAATTCATGGGTTATTGAAGGTATTTTT---AATAAATGC
1 CCTTCAATAATCCCCAATGAATGAATAATTTATGGGTTACAGAAGGTGTTTTTGGCCA-AAATGC
* *
9341337 CTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAAAAACACCTTCAATAATCCCATTCAA
65 CTTGAATAATCCATGAATTATTCAAGGCGTTTTTAGCCAAAAACACCTTCAATAACCCCATTCAA
* * * * *
9341402 TATTTTGTAAGGGATTATTCAAAGCATTTTTTGGCTAAAAACGCCTTCAATAATCTCATCATAAA
130 TATTTTGTAAGGGATTATTCAAGGCATTTTCTAGCTAAAAATGCCTTCAATAATCCCATCATAAA
* *
9341467 AATTGAAAGGGATTATTCAAGGTATTTTTTAGTCAAAAACACCTTGAATATTCCAAAAAAAAAAT
195 AATTGAAAGGGATTATTAAAGGTATTTTTTAGGCAAAAACACCTTGAATATTCCAAAAAAAAAAT
*
9341532 GTTGGGATTATTGAGGGCATTTTT-AATAGAAAATA
260 GTTGGGATTATTGAAGGCATTTTTGAA-AGAAAATA
**** * *
9341567 CCTTCAATAATCCTTTTTGAATGAATAA-TTGTGGGTTACAGAAGGTGTTTTTGGCCAAAAATAC
1 CCTTCAATAATCCCCAATGAATGAATAATTTATGGGTTACAGAAGGTGTTTTTGGCC-AAAATGC
* * * *
9341631 CTTGAATAATTCATGAATTATTCAAAGTGTTTTTAGCCAGAAACACCTTCAATAACCCCATTCAA
65 CTTGAATAATCCATGAATTATTCAAGGCGTTTTTAGCCAAAAACACCTTCAATAACCCCATTCAA
* *
9341696 TATTTTGTAAGAGATTATTCAAGGCA-TTTCTAGCTAAAAATGCCTTCAATAGTCCCATCATAAA
130 TATTTTGTAAGGGATTATTCAAGGCATTTTCTAGCTAAAAATGCCTTCAATAATCCCATCATAAA
* * *
9341760 AATTGAAGGGGATTATTAAAGGTATTTTTTAGGCAAAAATACCTTGAATATTTCTAAAAAAAAAA
195 AATTGAAAGGGATTATTAAAGGTATTTTTTAGGCAAAAACACCTTGAATA-TTCCAAAAAAAAAA
* * *
9341825 TGTTTGGTTTATTGAAGGCATTTTTGAAAGAAAATG
259 TGTTGGGATTATTGAAGGCATTTTTGAAAGAAAATA
* * * *
9341861 CCTTCAATAATCCCCAATGAATGAATAATTTATGGGTTATATAATGTGTTTTTGGCCAAAACGCC
1 CCTTCAATAATCCCCAATGAATGAATAATTTATGGGTTACAGAAGGTGTTTTTGGCCAAAATGCC
* * *
9341926 TTGAATAATCCATGAATTATTGAAGGCGTTTTGAGCCAAAAACACCTTCAATAACCCTATTCAAT
66 TTGAATAATCCATGAATTATTCAAGGCGTTTTTAGCCAAAAACACCTTCAATAACCCCATTCAAT
* *
9341991 ATTTTGCAAGGGATTATTTAAGGCATTTTCTAGCTAAAAATGCCTTCAATAAT-CCATTCATAAA
131 ATTTTGTAAGGGATTATTCAAGGCATTTTCTAGCTAAAAATGCCTTCAATAATCCCA-TCATAAA
9342055 AA
195 AA
9342057 ACACCATCAA
Statistics
Matches: 426, Mismatches: 55, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
291 19 0.04
292 23 0.05
293 79 0.19
294 243 0.57
295 62 0.15
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (294 bp):
CCTTCAATAATCCCCAATGAATGAATAATTTATGGGTTACAGAAGGTGTTTTTGGCCAAAATGCC
TTGAATAATCCATGAATTATTCAAGGCGTTTTTAGCCAAAAACACCTTCAATAACCCCATTCAAT
ATTTTGTAAGGGATTATTCAAGGCATTTTCTAGCTAAAAATGCCTTCAATAATCCCATCATAAAA
ATTGAAAGGGATTATTAAAGGTATTTTTTAGGCAAAAACACCTTGAATATTCCAAAAAAAAAATG
TTGGGATTATTGAAGGCATTTTTGAAAGAAAATA
Found at i:9349193 original size:41 final size:41
Alignment explanation
Indices: 9349134--9349216 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
9349124 TTTATGAAGT
9349134 TATTTATTTACTCAGAGCATTATGTTTGTAGGGGGATTTGG
1 TATTTATTTACTCAGAGCATTATGTTTGTAGGGGGATTTGG
*
9349175 TATTTATTTACTCGGAGCATTATGTTTGTAGGGGGATTTGG
1 TATTTATTTACTCAGAGCATTATGTTTGTAGGGGGATTTGG
9349216 T
1 T
9349217 TTTGTTTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (41 bp):
TATTTATTTACTCAGAGCATTATGTTTGTAGGGGGATTTGG
Found at i:9351523 original size:40 final size:40
Alignment explanation
Indices: 9351476--9351557 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
9351466 ATCGATCAAG
9351476 TAAGGGACTCGATTGATTGGTTCAGCTAGAGGATCGATCC
1 TAAGGGACTCGATTGATTGGTTCAGCTAGAGGATCGATCC
9351516 TAAGGGACTCGATTGATTGGTTCAGCTAGAGGATCGATCC
1 TAAGGGACTCGATTGATTGGTTCAGCTAGAGGATCGATCC
9351556 TA
1 TA
9351558 TAACCTAGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (40 bp):
TAAGGGACTCGATTGATTGGTTCAGCTAGAGGATCGATCC
Found at i:9370303 original size:7 final size:6
Alignment explanation
Indices: 9370255--9370391 Score: 79
Period size: 7 Copynumber: 21.8 Consensus size: 6
9370245 TTTAGGGTAT
* *
9370255 GGTTTA GAGATTA GCGTTTA -GTTTA GGATTTG GGCTTT- GGTTTA GGGTTT-
1 GGTTTA G-GTTTA G-GTTTA GGTTTA GG-TTTA GG-TTTA GGTTTA -GGTTTA
**
9370305 GGTTGG GGTTTAA GGTTT- GGTTTAA GGTTT- GGTTTA GGTATTA GAG-TTA
1 GGTTTA GGTTT-A GGTTTA GGTTT-A GGTTTA GGTTTA GGT-TTA G-GTTTA
*
9370354 GGTTTA GGGTTTA GGGTTA GGTTTA GGGTTTAA GGTTT
1 GGTTTA -GGTTTA GGTTTA GGTTTA -GGTTT-A GGTTT
9370392 GCATGGTGGT
Statistics
Matches: 105, Mismatches: 10, Indels: 31
0.72 0.07 0.21
Matches are distributed among these distances:
5 23 0.22
6 28 0.27
7 52 0.50
8 2 0.02
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.45
Consensus pattern (6 bp):
GGTTTA
Found at i:9370307 original size:12 final size:12
Alignment explanation
Indices: 9370290--9370384 Score: 55
Period size: 12 Copynumber: 8.2 Consensus size: 12
9370280 GGATTTGGGC
9370290 TTTGGTTTAGGG
1 TTTGGTTTAGGG
9370302 TTTGG-TT-GGG
1 TTTGGTTTAGGG
*
9370312 ----GTTTAAGG
1 TTTGGTTTAGGG
*
9370320 TTTGGTTTAAGG
1 TTTGGTTTAGGG
9370332 TTTGGTTTA-GG
1 TTTGGTTTAGGG
9370343 TATTAGAG-TTA-GG
1 T-TT-G-GTTTAGGG
9370356 TTTAGGGTTTAGGG
1 TTT--GGTTTAGGG
*
9370370 TTAGGTTTAGGG
1 TTTGGTTTAGGG
9370382 TTT
1 TTT
9370385 AAGGTTTGCA
Statistics
Matches: 67, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
6 1 0.01
7 2 0.03
8 2 0.03
10 3 0.04
11 5 0.07
12 38 0.57
13 11 0.16
14 5 0.07
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (12 bp):
TTTGGTTTAGGG
Found at i:9370326 original size:30 final size:31
Alignment explanation
Indices: 9370290--9370365 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
9370280 GGATTTGGGC
*
9370290 TTTGGTTTAGGGTTTGGTTGGGGT-TTA-AGG
1 TTTGGTTTAGGGTTTGGTTGAGGTATTAGA-G
* *
9370320 TTTGGTTTAAGGTTTGGTTTAGGTATTAGAG
1 TTTGGTTTAGGGTTTGGTTGAGGTATTAGAG
*
9370351 TTAGGTTTAGGGTTT
1 TTTGGTTTAGGGTTT
9370366 AGGGTTAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 21 0.54
31 17 0.44
32 1 0.03
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (31 bp):
TTTGGTTTAGGGTTTGGTTGAGGTATTAGAG
Found at i:9370359 original size:80 final size:79
Alignment explanation
Indices: 9370231--9370384 Score: 188
Period size: 80 Copynumber: 1.9 Consensus size: 79
9370221 TTCAAGTTTA
* * * *
9370231 GGGTTTGAGGTTGATTTAGGGTATGGTTTAGAGATTAGCGTTTAGTTTAGGATTT-GGGCTTTGG
1 GGGTTTAAGGTTGATTTAAGGTATGGTTTAGAGATTAGAGTTTAGTTTAGGATTTAGGG-TTAGG
9370295 TTTAGGGTTTGGTTG
65 TTTAGGGTTTGGTTG
* * *
9370310 GGGTTTAAGGTTTGGTTTAAGGTTTGGTTTAG-GTATTAGAG-TTAGGTTTAGGGTTTAGGGTTA
1 GGGTTTAAGG-TTGATTTAAGGTATGGTTTAGAG-ATTAGAGTTTA-GTTTAGGATTTAGGGTTA
9370373 GGTTTAGGGTTT
63 GGTTTAGGGTTT
9370385 AAGGTTTGCA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 13 0.20
80 48 0.75
81 3 0.05
ACGTcount: A:0.16, C:0.01, G:0.38, T:0.45
Consensus pattern (79 bp):
GGGTTTAAGGTTGATTTAAGGTATGGTTTAGAGATTAGAGTTTAGTTTAGGATTTAGGGTTAGGT
TTAGGGTTTGGTTG
Found at i:9370390 original size:19 final size:19
Alignment explanation
Indices: 9370323--9370390 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
9370313 TTTAAGGTTT
*
9370323 GGTTTAAGGTTTGGTTTA-
1 GGTTTAAGGTTAGGTTTAG
9370341 GGTATT-AGAGTTAGGTTTAG
1 GGT-TTAAG-GTTAGGTTTAG
*
9370361 GGTTTAGGGTTAGGTTTAG
1 GGTTTAAGGTTAGGTTTAG
9370380 GGTTTAAGGTT
1 GGTTTAAGGTT
9370391 TGCATGGTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
18 5 0.12
19 34 0.79
20 4 0.09
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (19 bp):
GGTTTAAGGTTAGGTTTAG
Found at i:9370402 original size:26 final size:26
Alignment explanation
Indices: 9370373--9370583 Score: 145
Period size: 26 Copynumber: 8.1 Consensus size: 26
9370363 TTTAGGGTTA
9370373 GGTTTAGGGTTTAAGGTTTGCATGGT
1 GGTTTAGGGTTTAAGGTTTGCATGGT
9370399 GGTTT-GGAGTTT-AGGATTTGCATGGTGGTTT
1 GGTTTAGG-GTTTAAGG-TTTGCA---TGG--T
* *
9370430 GGTTTTGTGGTTTAAGGTTT--AAGGTTT
1 GGTTTAG-GGTTTAAGGTTTGCATGG--T
* *
9370457 GGTTTAGAGTTTAGGGTTTGCATGGT
1 GGTTTAGGGTTTAAGGTTTGCATGGT
9370483 GG-TT-GTGGTTTAAGGTTTGCATGGT
1 GGTTTAG-GGTTTAAGGTTTGCATGGT
*
9370508 GGTTTAGGGTTTAGGGTTTGCATGGT
1 GGTTTAGGGTTTAAGGTTTGCATGGT
** *
9370534 ACTTTAGGGTTT-AGG---GTATGGT
1 GGTTTAGGGTTTAAGGTTTGCATGGT
* * * *
9370556 GGCTTGGGGTTTAGGGTTTGCTTGGT
1 GGTTTAGGGTTTAAGGTTTGCATGGT
9370582 GG
1 GG
9370584 CTTGGGGGGT
Statistics
Matches: 147, Mismatches: 19, Indels: 38
0.72 0.09 0.19
Matches are distributed among these distances:
22 14 0.10
23 2 0.01
24 1 0.01
25 28 0.19
26 65 0.44
27 12 0.08
28 3 0.02
29 3 0.02
30 1 0.01
31 6 0.04
32 8 0.05
33 4 0.03
ACGTcount: A:0.13, C:0.04, G:0.40, T:0.44
Consensus pattern (26 bp):
GGTTTAGGGTTTAAGGTTTGCATGGT
Found at i:9370449 original size:58 final size:54
Alignment explanation
Indices: 9370380--9370533 Score: 176
Period size: 51 Copynumber: 2.8 Consensus size: 54
9370370 TTAGGTTTAG
*
9370380 GGTTTAAGGTTTGCATGGTGGTTTGGAGTTTAGGATTTGCATGGTGGTTTGGTTTTGT
1 GGTTTAAGGTTTGCATGGTGGTTTGGAGTTTAGGGTTTGCATGGTGG--TGG--TTGT
* *
9370438 GGTTTAAGGTTT--AAGGTTTGGTTTAGAGTTTAGGGTTTGCA---TGGTGGTTGT
1 GGTTTAAGGTTTGCATGG--TGGTTTGGAGTTTAGGGTTTGCATGGTGGTGGTTGT
9370489 GGTTTAAGGTTTGCATGGTGGTTTAGG-GTTTAGGGTTTGCATGGT
1 GGTTTAAGGTTTGCATGGTGGTTT-GGAGTTTAGGGTTTGCATGGT
9370534 ACTTTAGGGT
Statistics
Matches: 83, Mismatches: 5, Indels: 20
0.77 0.05 0.19
Matches are distributed among these distances:
51 36 0.43
52 1 0.01
53 6 0.07
54 1 0.01
55 3 0.04
56 3 0.04
58 33 0.40
ACGTcount: A:0.14, C:0.03, G:0.38, T:0.45
Consensus pattern (54 bp):
GGTTTAAGGTTTGCATGGTGGTTTGGAGTTTAGGGTTTGCATGGTGGTGGTTGT
Found at i:9370461 original size:19 final size:19
Alignment explanation
Indices: 9370437--9370476 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9370427 TTTGGTTTTG
9370437 TGGTTTA-AGGTTTAAGGTT
1 TGGTTTAGA-GTTTAAGGTT
*
9370456 TGGTTTAGAGTTTAGGGTT
1 TGGTTTAGAGTTTAAGGTT
9370475 TG
1 TG
9370477 CATGGTGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.47
Consensus pattern (19 bp):
TGGTTTAGAGTTTAAGGTT
Found at i:9370601 original size:28 final size:26
Alignment explanation
Indices: 9370552--9370624 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 26
9370542 GTTTAGGGTA
9370552 TGGTGGCTTGGGGTTTAGGGTTTGCT
1 TGGTGGCTTGGGGTTTAGGGTTTGCT
9370578 TGGTGGCTTGGGGGGTTTAGGGTTTGCT
1 TGGTGGCTT--GGGGTTTAGGGTTTGCT
* * * *
9370606 GGGTAGTTTGGGGCTTAGG
1 TGGTGGCTTGGGGTTTAGG
9370625 ATGCATGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.44
28 23 0.56
ACGTcount: A:0.05, C:0.07, G:0.49, T:0.38
Consensus pattern (26 bp):
TGGTGGCTTGGGGTTTAGGGTTTGCT
Found at i:9372422 original size:144 final size:142
Alignment explanation
Indices: 9372017--9372475 Score: 415
Period size: 143 Copynumber: 3.2 Consensus size: 142
9372007 GGTTTTGTGA
* * * * * * * * *
9372017 TTTTACTACACCAAAAATAAAAAAATAATGGTTAAA-CATGATCTGGAGCTTTTCGTGAAAAATT
1 TTTTAATACACCAAAAATCATAAAATAAT-ATAAAATCATGATATGGAGCTTTTTGAGAAAAATC
* * ** * *
9372081 GACCTTGAAAAGGTCAAATTACAAAAATACCCTTATAAGATATTTTGGTAATTTCACACC-TCCA
65 AACCTTGAAAAGGTCAAATTACAAAAATACCATTA-AAGGCATTTTAGTAATTTCA-ACCTTTC-
* *
9372145 GTGGTGTGATTAATGT
127 GAGGTGTGATTAAAGT
** * * * * * *
9372161 TTTTAATACACCAAACTTCACAAAACAATTTCAAAAT-ATAATATGGAG-TATTTCACGAAAAA-
1 TTTTAATACACCAAAAATCATAAAATAATAT-AAAATCATGATATGGAGCTTTTTGA-GAAAAAT
* * * * * *
9372223 CCACCCTGGAAAGGTCAAAATACAAAAATACCACTAAAAAGCATTTTAGTAATTTCATACCTTTC
64 CAACCTTGAAAAGGTCAAATTACAAAAATACCA-TTAAAGGCATTTTAGTAATTTCA-ACCTTTC
* *
9372288 GAGGTGTAATCAAAGT
127 GAGGTGTGATTAAAGT
* *
9372304 TTTTAATACACCAAAAATCATAAAATAATATAAAATCATGATTTAGAGCTTTTTGAGAAAAATCA
1 TTTTAATACACCAAAAATCATAAAATAATATAAAATCATGATATGGAGCTTTTTGAGAAAAATCA
* * **
9372369 ACCTTGAAAAAGTCAAATTACAAAAATACCTTTAAAGCGCATTTTAGTAATTTCAACCTTTTAAG
66 ACCTTGAAAAGGTCAAATTACAAAAATACCATTAAAG-GCATTTTAGTAATTTCAACCTTTCGAG
* *
9372434 GTATGATTAAGGT
130 GTGTGATTAAAGT
* *
9372447 TTTTAATGCACCAAAAATCATCAAATAAT
1 TTTTAATACACCAAAAATCATAAAATAAT
9372476 GTTGAAACAT
Statistics
Matches: 249, Mismatches: 57, Indels: 19
0.77 0.18 0.06
Matches are distributed among these distances:
142 5 0.02
143 150 0.60
144 94 0.38
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (142 bp):
TTTTAATACACCAAAAATCATAAAATAATATAAAATCATGATATGGAGCTTTTTGAGAAAAATCA
ACCTTGAAAAGGTCAAATTACAAAAATACCATTAAAGGCATTTTAGTAATTTCAACCTTTCGAGG
TGTGATTAAAGT
Found at i:9372828 original size:13 final size:13
Alignment explanation
Indices: 9372810--9372839 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
9372800 TATATATAAA
9372810 TAATTTTTTTAAT
1 TAATTTTTTTAAT
9372823 TAA-TTTTTTAAT
1 TAATTTTTTTAAT
9372835 TAATT
1 TAATT
9372840 ATTTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TAATTTTTTTAAT
Found at i:9372831 original size:12 final size:12
Alignment explanation
Indices: 9372814--9372844 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9372804 TATAAATAAT
9372814 TTTTTTAATTAA
1 TTTTTTAATTAA
9372826 TTTTTTAATTAA
1 TTTTTTAATTAA
*
9372838 TTATTTA
1 TTTTTTA
9372845 TATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTAATTAA
Found at i:9372896 original size:20 final size:21
Alignment explanation
Indices: 9372871--9372923 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
9372861 GATATTTTTA
9372871 AATATTTATATTT-AAAAAAT
1 AATATTTATATTTAAAAAAAT
9372891 AATATTTTATATTTAAAAAAAT
1 AATA-TTTATATTTAAAAAAAT
9372913 AATATTT-TATT
1 AATATTTATATT
9372924 AATTTCAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.26
21 12 0.39
22 11 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTATATTTAAAAAAAT
Found at i:9372901 original size:21 final size:22
Alignment explanation
Indices: 9372871--9372922 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
9372861 GATATTTTTA
9372871 AATA-TTTATATTT-AAAAAAT
1 AATATTTTATATTTAAAAAAAT
9372891 AATATTTTATATTTAAAAAAAT
1 AATATTTTATATTTAAAAAAAT
9372913 AATATTTTAT
1 AATATTTTAT
9372923 TAATTTCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 9 0.30
22 17 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATTTTATATTTAAAAAAAT
Found at i:9374028 original size:15 final size:15
Alignment explanation
Indices: 9373998--9374045 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
9373988 TCTTTCATCA
*
9373998 TCACCATTCCTTTCAT
1 TCACCATT-CATTCAT
*
9374014 TCACTTATTCA-TCAT
1 TCAC-CATTCATTCAT
9374029 TCACCATTCATTCAT
1 TCACCATTCATTCAT
9374044 TC
1 TC
9374046 TTTAATGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 5 0.19
15 14 0.52
16 5 0.19
17 3 0.11
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (15 bp):
TCACCATTCATTCAT
Found at i:9374139 original size:11 final size:10
Alignment explanation
Indices: 9374124--9374175 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 10
9374114 TTTCCATTCA
9374124 TTCATTTTTT
1 TTCATTTTTT
*
9374134 TATCATTTTCAT
1 T-TCATTTT-TT
9374146 TTCATTTTTT
1 TTCATTTTTT
* *
9374156 CTCA-TCTTT
1 TTCATTTTTT
9374165 TTCATTTTTT
1 TTCATTTTTT
9374175 T
1 T
9374176 GTTTTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
9 7 0.21
10 10 0.30
11 14 0.42
12 2 0.06
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCATTTTTT
Found at i:9374144 original size:21 final size:23
Alignment explanation
Indices: 9374120--9374170 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
9374110 TCATTTTCCA
9374120 TTCATTCATTTTTT-T-ATCATT
1 TTCATTCATTTTTTCTCATCATT
*
9374141 TTCATTTCATTTTTTCTCATCTTT
1 TTCA-TTCATTTTTTCTCATCATT
9374165 TTCATT
1 TTCATT
9374171 TTTTTGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 4 0.15
22 10 0.38
23 3 0.12
24 9 0.35
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.67
Consensus pattern (23 bp):
TTCATTCATTTTTTCTCATCATT
Found at i:9374166 original size:24 final size:22
Alignment explanation
Indices: 9374120--9374171 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 22
9374110 TCATTTTCCA
9374120 TTCA-TTCATTTTTTTATCATT
1 TTCATTTCATTTTTTTATCATT
*
9374141 TTCATTTCATTTTTTCTCATCTTT
1 TTCATTTCATTTTTT-T-ATCATT
9374165 TTCATTT
1 TTCATTT
9374172 TTTTGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 4 0.15
22 10 0.37
23 1 0.04
24 12 0.44
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (22 bp):
TTCATTTCATTTTTTTATCATT
Found at i:9374818 original size:13 final size:13
Alignment explanation
Indices: 9374797--9374831 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
9374787 TCCCTTTTCA
9374797 TTTTT-TTTTACT
1 TTTTTGTTTTACT
*
9374809 TTTTTGTTTTGCT
1 TTTTTGTTTTACT
9374822 TTTTTGTTTT
1 TTTTTGTTTT
9374832 TTTGTACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.03, C:0.06, G:0.09, T:0.83
Consensus pattern (13 bp):
TTTTTGTTTTACT
Found at i:9375061 original size:70 final size:70
Alignment explanation
Indices: 9374973--9375113 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
9374963 GTATCCATTT
9374973 CCCTCTACTGCCATACTAATTAAGCAATATTCTTTTCAAAGCTAACTCTCCTTCATGAAAATGCC
1 CCCTCTACTGCCATACTAATTAAGCAATATTCTTTTCAAAGCTAACTCTCCTTCATGAAAATGCC
9375038 TAGGC
66 TAGGC
9375043 CCCTCTACTGCCATACTAATTAAGCAATATTCTTTTCAAAGCTAACTCTCCTTCATGAAAATGCC
1 CCCTCTACTGCCATACTAATTAAGCAATATTCTTTTCAAAGCTAACTCTCCTTCATGAAAATGCC
9375108 TAGGC
66 TAGGC
9375113 C
1 C
9375114 TTTTCATCTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (70 bp):
CCCTCTACTGCCATACTAATTAAGCAATATTCTTTTCAAAGCTAACTCTCCTTCATGAAAATGCC
TAGGC
Found at i:9378464 original size:21 final size:19
Alignment explanation
Indices: 9378429--9378468 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
9378419 ACATATGGGA
9378429 CATGAATTTCATGCAAGAT
1 CATGAATTTCATGCAAGAT
9378448 CATGCAATTTCCATGCAAGAT
1 CATG-AATTT-CATGCAAGAT
9378469 TAGGTTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGAATTTCATGCAAGAT
Found at i:9392453 original size:14 final size:14
Alignment explanation
Indices: 9392434--9392460 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9392424 GAGGATAAAA
9392434 ATTATTTTTTATTT
1 ATTATTTTTTATTT
9392448 ATTATTTTTTATT
1 ATTATTTTTTATT
9392461 ACCAAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTATTTTTTATTT
Found at i:9392503 original size:127 final size:131
Alignment explanation
Indices: 9392354--9392589 Score: 372
Period size: 127 Copynumber: 1.8 Consensus size: 131
9392344 TAAAAAATTT
* * * * *
9392354 TTTTTAGAATTTCATTAAGTCTCCTAGTAGTTTGGTAGGACTTAA-TT-TGAAGCAATTCTTCAA
1 TTTTAAGAATTTCATTAAGTCTCCCAATAGTTTGGTAGGAATTAATTTATGAAGCAATCCTTCAA
*
9392417 TAGTTTAGAGGAT-AAAA-ATTATTTTTTATTTATTATTTTTTATTACCAAAAGATTTGTAAAAA
66 TAGTTTAGAGAATAAAAATATTATTTTTTATTTATTATTTTTTATTACCAAAAGATTTGTAAAAA
9392480 G
131 G
9392481 TTTTAAGAATTTCATTAAGTCTCCCAATAGTTTGGTAGGAATTAATTTATGAAGCAATCCTTCAA
1 TTTTAAGAATTTCATTAAGTCTCCCAATAGTTTGGTAGGAATTAATTTATGAAGCAATCCTTCAA
*
9392546 TAGTTTAGAGAATAAAAATTATTATTTTTTATTTTTTATTTTTT
66 TAGTTTAGAGAATAAAAA-TATTATTTTTTATTTATTATTTTTT
9392590 TTGAAAACTG
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
127 41 0.42
128 2 0.02
129 27 0.28
130 4 0.04
132 23 0.24
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.46
Consensus pattern (131 bp):
TTTTAAGAATTTCATTAAGTCTCCCAATAGTTTGGTAGGAATTAATTTATGAAGCAATCCTTCAA
TAGTTTAGAGAATAAAAATATTATTTTTTATTTATTATTTTTTATTACCAAAAGATTTGTAAAAA
G
Found at i:9393508 original size:52 final size:51
Alignment explanation
Indices: 9393380--9393515 Score: 159
Period size: 51 Copynumber: 2.6 Consensus size: 51
9393370 ATTTGATTTC
* * *
9393380 CATTTTAATGAGAATTGATTTTGAAATCAAATCCCAAAAGTCTCTCTCTAT
1 CATTTTAATGAGAATTGATTTTGGAATTAAATCCCAAAAGTCTCTCTCCAT
* *
9393431 CATTTTAATGTGAATTGATTATGGAATTAAATCCCAACAA-TCTCT-TCACAT
1 CATTTTAATGAGAATTGATTTTGGAATTAAATCCCAA-AAGTCTCTCTC-CAT
* **
9393482 TATTTTTAATGCCAATTGATTTTGGAATTAAATC
1 CA-TTTTAATGAGAATTGATTTTGGAATTAAATC
9393516 TTAAAAATCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
50 2 0.03
51 41 0.56
52 30 0.41
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (51 bp):
CATTTTAATGAGAATTGATTTTGGAATTAAATCCCAAAAGTCTCTCTCCAT
Found at i:9397663 original size:13 final size:13
Alignment explanation
Indices: 9397645--9397673 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9397635 TAGCCACAAC
9397645 TAAATTGTTTTCT
1 TAAATTGTTTTCT
9397658 TAAATTGTTTTCT
1 TAAATTGTTTTCT
9397671 TAA
1 TAA
9397674 TACAAGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (13 bp):
TAAATTGTTTTCT
Found at i:9404421 original size:21 final size:22
Alignment explanation
Indices: 9404375--9404423 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
9404365 TTCCTCGATT
* *
9404375 TTTTTTATTAAAAAAGTAAATC
1 TTTTTTATTAAAAAAGCAAAAC
9404397 TTTTTT-TT-AAAAAGCAAAAC
1 TTTTTTATTAAAAAAGCAAAAC
*
9404417 ATTTTTA
1 TTTTTTA
9404424 ATTAGTTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 15 0.65
21 2 0.09
22 6 0.26
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTTTTATTAAAAAAGCAAAAC
Found at i:9405105 original size:48 final size:49
Alignment explanation
Indices: 9405026--9405120 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 49
9405016 TGTGATAAAA
*
9405026 ACAAATAACGAAAATGTCATTGGTAAAAATGTAATTATTGATGCATGTG
1 ACAAATAACGAAAATGTCATTGGTAAAAATGTAAATATTGATGCATGTG
*
9405075 ACAAATAATGAAAATG-CATTGGTAAAAATGTAAATATTGATGCATG
1 ACAAATAACGAAAATGTCATTGGTAAAAATGTAAATATTGATGCATG
9405121 AAAATTGGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 29 0.66
49 15 0.34
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.29
Consensus pattern (49 bp):
ACAAATAACGAAAATGTCATTGGTAAAAATGTAAATATTGATGCATGTG
Found at i:9407800 original size:40 final size:40
Alignment explanation
Indices: 9407752--9407857 Score: 153
Period size: 40 Copynumber: 2.7 Consensus size: 40
9407742 CAAAAAAATT
9407752 TTAA-ATTTTGTTCAAAGGTCTTGAAAATCATTCAAAAAC
1 TTAAGATTTTGTTCAAAGGTCTTGAAAATCATTCAAAAAC
* *
9407791 TTAAGATTTTGTTCAAAGGTTTTGAAAATCATTCAAAGAC
1 TTAAGATTTTGTTCAAAGGTCTTGAAAATCATTCAAAAAC
* *
9407831 TTAAGGTTTTGCTT-AAAAGTCTTGAAA
1 TTAAGATTTTG-TTCAAAGGTCTTGAAA
9407858 CAAAATTGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
39 4 0.07
40 54 0.90
41 2 0.03
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (40 bp):
TTAAGATTTTGTTCAAAGGTCTTGAAAATCATTCAAAAAC
Found at i:9408246 original size:113 final size:111
Alignment explanation
Indices: 9408044--9408257 Score: 270
Period size: 113 Copynumber: 1.9 Consensus size: 111
9408034 CTTGGGGATA
* * * **
9408044 TTGGAAATCATTTAAAAATTTAAAATTTTCCCCAAAGGTTTTGAAAATCTTTCAAAACTTTAAGG
1 TTGGAAATCATTTAAAAATTTAAAATTTTCCCCAAAAGTCTTGAAAATCTTTCAAAAATTTAACA
** * *
9408109 TTTTGCCCATAGACCTTATTAATCATTTAAGATTTTGCTTAGAGGTC
66 TTTTGCCCA-AGACCTTAAAAATCATTCAAAATTTTGCTTAGAGGTC
* *
9408156 TTGGAAATC-TTTCAAAAATTTTAAAATTTTGCCCAAAAGTCTTGAGAATCTTTCAAAAATTTAA
1 TTGGAAATCATTT-AAAAA-TTTAAAATTTTCCCCAAAAGTCTTGAAAATCTTTCAAAAATTTAA
9408220 CATTTTGCCC-AGACGTCTTAAAAATCATTCAAAATTTT
64 CATTTTGCCCAAGAC--CTTAAAAATCATTCAAAATTTT
9408258 AAAGCTTTGG
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
111 7 0.08
112 14 0.16
113 66 0.76
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (111 bp):
TTGGAAATCATTTAAAAATTTAAAATTTTCCCCAAAAGTCTTGAAAATCTTTCAAAAATTTAACA
TTTTGCCCAAGACCTTAAAAATCATTCAAAATTTTGCTTAGAGGTC
Found at i:9408339 original size:120 final size:122
Alignment explanation
Indices: 9408148--9408377 Score: 279
Period size: 120 Copynumber: 1.9 Consensus size: 122
9408138 AGATTTTGCT
* * *
9408148 TAGAGGTCTTGGAAATCTTTCAAAAATTTTAAAATTTTGCCCAAAAGTCTTGAGAATCTTTCAAA
1 TAGAAGTCTTCGAAATCTTTCAAAAATTTAAAAATTTTGCCCAAAAGTCTTGAGAATCTTTCAAA
9408213 AATTTAACA-TTTTGCCCAGACGTCTTAAAAATCATTC-AAAATTTTAAAGCTTTGGC
66 AATTTAA-AGTTTTGCCCAGACGTCTTAAAAATCATTCTAAAATTTTAAAGCTTTGGC
* *** * *
9408269 TAGAAGTCTTCGAATTCTTTCAAAAA-TTAAAAATTTTGCTTGAAGGTCTTGCA-ATTCTTTCAA
1 TAGAAGTCTTCGAAATCTTTCAAAAATTTAAAAATTTTGCCCAAAAGTCTTG-AGAATCTTTCAA
* ** * **
9408332 AAGTTTAAAGTTTTGCTTAGAGGTCTTGGAAATCATTCTAAAATTT
65 AAATTTAAAGTTTTGCCCAGACGTCTTAAAAATCATTCTAAAATTT
9408378 AAAATTTTGC
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
119 1 0.01
120 59 0.65
121 31 0.34
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (122 bp):
TAGAAGTCTTCGAAATCTTTCAAAAATTTAAAAATTTTGCCCAAAAGTCTTGAGAATCTTTCAAA
AATTTAAAGTTTTGCCCAGACGTCTTAAAAATCATTCTAAAATTTTAAAGCTTTGGC
Found at i:9408388 original size:40 final size:40
Alignment explanation
Indices: 9408133--9408388 Score: 230
Period size: 40 Copynumber: 6.4 Consensus size: 40
9408123 CTTATTAATC
*
9408133 ATTTAAGATTTTGCTTAGAGGTCTTGGAAATCTTTCAAAA
1 ATTTAAAATTTTGCTTAGAGGTCTTGGAAATCTTTCAAAA
** * *
9408173 ATTTTAAAATTTTGCCCAAAAGTCTT-GAGAATCTTTCAAAA
1 A-TTTAAAATTTTGCTTAGAGGTCTTGGA-AATCTTTCAAAA
* ** * ** *
9408214 ATTTAACATTTTGCCCAGACGTCTTAAAAATCATTCAAAA
1 ATTTAAAATTTTGCTTAGAGGTCTTGGAAATCTTTCAAAA
* * * * * *
9408254 TTTTAAAGCTTTGGC-TAGAAGTCTTCGAATTCTTTCAAAA
1 ATTTAAA-ATTTTGCTTAGAGGTCTTGGAAATCTTTCAAAA
* * *
9408294 ATTAAAAATTTTGCTT-GAAGGTCTTGCAATTCTTTCAAAA
1 ATTTAAAATTTTGCTTAG-AGGTCTTGGAAATCTTTCAAAA
* * * *
9408334 GTTTAAAGTTTTGCTTAGAGGTCTTGGAAATCATTCTAAA
1 ATTTAAAATTTTGCTTAGAGGTCTTGGAAATCTTTCAAAA
9408374 ATTTAAAATTTTGCT
1 ATTTAAAATTTTGCT
9408389 CTGATGCATT
Statistics
Matches: 173, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
39 6 0.03
40 128 0.74
41 39 0.23
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (40 bp):
ATTTAAAATTTTGCTTAGAGGTCTTGGAAATCTTTCAAAA
Found at i:9408401 original size:40 final size:39
Alignment explanation
Indices: 9408156--9408567 Score: 118
Period size: 40 Copynumber: 10.5 Consensus size: 39
9408146 CTTAGAGGTC
* ** *
9408156 TTGGAAATCTTTCAAAAATTTTAAAATTTTGCCCAAAAGTC-
1 TTGGAAATCATTCAAAAA-TTTAAAATTTTG-CCTGATG-CA
* * * *
9408197 TT-GAGAATCTTTCAAAAATTTAACATTTTGCCCAGACGTC-
1 TTGGA-AATCATTCAAAAATTTAAAATTTTG-CCTGATG-CA
** * ** * *
9408237 TTAAAAATCATTCAAAATTTTAAAGCTTTGGCTAGAAGTC-
1 TTGGAAATCATTCAAAAATTTAAAATTTTGCCT-GATG-CA
* * * * * *
9408277 TTCGAATTCTTTCAAAAATTAAAAATTTTGCTTGAAGGTC-
1 TTGGAAATCATTCAAAAATTTAAAATTTTGCCTG-ATG-CA
* * * * * * *
9408317 TTGCAATTCTTTCAAAAGTTTAAAGTTTTGCTTAGAGGTC-
1 TTGGAAATCATTCAAAAATTTAAAATTTTGCCT-GATG-CA
*
9408357 TTGGAAATCATTCTAAAATTTAAAATTTTGCTCTGATGCA
1 TTGGAAATCATTCAAAAATTTAAAATTTTGC-CTGATGCA
* * **
9408397 TTGGAAATCATTAAAAACATCTAAGGTTTTGCC-----C-
1 TTGGAAATCATTCAAAA-ATTTAAAATTTTGCCTGATGCA
** * *
9408431 TTGGAAATCATT-AACAAATTTAAGGTTTTGCCTGAAAGCC
1 TTGGAAATCATTCAA-AAATTTAAAATTTTGCCTG-ATGCA
** * ** * *
9408471 TTAAAAATTATTC--AAATTGTAAAATTTTTGCCCAAAGGCC
1 TTGGAAATCATTCAAAAATT-TAAAA-TTTTG-CCTGATGCA
* *
9408511 TTGGAAATCATCCTAAAATTTAAAATTTTGCTCTGATGCA
1 TTGGAAATCATTCAAAAATTTAAAATTTTGC-CTGATGCA
9408551 TTGGAAATCATT-AAAAA
1 TTGGAAATCATTCAAAAA
9408568 CATCTAAGGT
Statistics
Matches: 288, Mismatches: 60, Indels: 48
0.73 0.15 0.12
Matches are distributed among these distances:
33 16 0.06
34 14 0.05
35 1 0.00
38 5 0.02
39 12 0.04
40 199 0.69
41 36 0.12
42 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (39 bp):
TTGGAAATCATTCAAAAATTTAAAATTTTGCCTGATGCA
Found at i:9408441 original size:74 final size:74
Alignment explanation
Indices: 9408356--9408596 Score: 238
Period size: 74 Copynumber: 3.2 Consensus size: 74
9408346 GCTTAGAGGT
9408356 CTTGGAAATCATTCTAAAATTTAAAATTTTGCTCTGATGCATTGGAAATCATTAAAAACATCTAA
1 CTTGGAAATCATTCTAAAATTTAAAATTTTGCTCTGATGCATTGGAAATCATTAAAAACATCTAA
9408421 GGTTTTGCC
66 GGTTTTGCC
* ** * * ** * * * *
9408430 CTTGGAAATCATT-AACAAATTTAAGGTTTTGC-CTGAAAGCCTTAAAAATTATT-CAAA-TTGT
1 CTTGGAAATCATTCTA-AAATTTAAAATTTTGCTCTG-ATGCATTGGAAATCATTAAAAACATCT
**
9408491 AAAATTTTTGCCCAAAGGC
64 -AAGGTTTTG--C-----C
*
9408510 CTTGGAAATCATCCTAAAATTTAAAATTTTGCTCTGATGCATTGGAAATCATTAAAAACATCTAA
1 CTTGGAAATCATTCTAAAATTTAAAATTTTGCTCTGATGCATTGGAAATCATTAAAAACATCTAA
9408575 GGTTTTGCC
66 GGTTTTGCC
9408584 CTTGGAAATCATT
1 CTTGGAAATCATT
9408597 AACAAATTTA
Statistics
Matches: 125, Mismatches: 28, Indels: 28
0.69 0.15 0.15
Matches are distributed among these distances:
72 2 0.02
73 14 0.11
74 52 0.42
75 1 0.01
79 1 0.01
80 39 0.31
81 14 0.11
82 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (74 bp):
CTTGGAAATCATTCTAAAATTTAAAATTTTGCTCTGATGCATTGGAAATCATTAAAAACATCTAA
GGTTTTGCC
Found at i:9408460 original size:33 final size:34
Alignment explanation
Indices: 9408397--9408462 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
9408387 CTCTGATGCA
9408397 TTGGAAATCATTAAAAACATCTAAGGTTTTGCCC
1 TTGGAAATCATTAAAAACATCTAAGGTTTTGCCC
* *
9408431 TTGGAAATCATTAACAA-ATTTAAGGTTTTGCC
1 TTGGAAATCATTAAAAACATCTAAGGTTTTGCC
9408463 TGAAAGCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (34 bp):
TTGGAAATCATTAAAAACATCTAAGGTTTTGCCC
Found at i:9408527 original size:154 final size:155
Alignment explanation
Indices: 9408338--9408684 Score: 606
Period size: 154 Copynumber: 2.2 Consensus size: 155
9408328 TCAAAAGTTT
** * *
9408338 AAAGTTTTGCTTAGAGGTCTTGGAAATCATTCTAAAATTTAAAATTTTGCTCTGATGCATTGGAA
1 AAAGTTTTGCCCAAAGGCCTTGGAAATCATTCTAAAATTTAAAATTTTGCTCTGATGCATTGGAA
9408403 ATCATTAAAAACATCTAAGGTTTTGCCCTTGGAAATCATTAACAAATTTAAGGTTTTGCCTGAAA
66 ATCATTAAAAACATCTAAGGTTTTGCCCTTGGAAATCATTAACAAATTTAAGGTTTTGCCTGAAA
9408468 GCCTTAAAAATTATTC-AAATTGTA
131 GCCTTAAAAATTATTCAAAATTGTA
* *
9408492 AAATTTTTGCCCAAAGGCCTTGGAAATCATCCTAAAATTTAAAATTTTGCTCTGATGCATTGGAA
1 AAAGTTTTGCCCAAAGGCCTTGGAAATCATTCTAAAATTTAAAATTTTGCTCTGATGCATTGGAA
* * *
9408557 ATCATTAAAAACATCTAAGGTTTTGCCCTTGGAAATCATTAACAAATTTAAGGTTTTTCTTGAAG
66 ATCATTAAAAACATCTAAGGTTTTGCCCTTGGAAATCATTAACAAATTTAAGGTTTTGCCTGAAA
9408622 GCCTTAAAAATTATTCAAAATTGTA
131 GCCTTAAAAATTATTCAAAATTGTA
9408647 AAAGTTTTGCCCAAAGGCCTTGGAAATCATTCTAAAAT
1 AAAGTTTTGCCCAAAGGCCTTGGAAATCATTCTAAAAT
9408685 CTAAGGTTCT
Statistics
Matches: 181, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
154 137 0.76
155 44 0.24
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (155 bp):
AAAGTTTTGCCCAAAGGCCTTGGAAATCATTCTAAAATTTAAAATTTTGCTCTGATGCATTGGAA
ATCATTAAAAACATCTAAGGTTTTGCCCTTGGAAATCATTAACAAATTTAAGGTTTTGCCTGAAA
GCCTTAAAAATTATTCAAAATTGTA
Found at i:9408735 original size:40 final size:40
Alignment explanation
Indices: 9408659--9408795 Score: 107
Period size: 40 Copynumber: 3.4 Consensus size: 40
9408649 AGTTTTGCCC
* * * * **
9408659 AAAGGCCTTGGAAATCATTCTAAAATCTAAGGTTCTACCT
1 AAAGGTCTTGAAAATCATTTTAAAATTTAAAATTCTACCT
**
9408699 AAAGGTCTTGAAAATCATTTTAAAATTTAAAATTCTATTT
1 AAAGGTCTTGAAAATCATTTTAAAATTTAAAATTCTACCT
* * * *
9408739 AGAGG-CTTTGAAAAT-TTTTTAAAACTTTAAAAATTTTGCCT
1 AAAGGTC-TTGAAAATCATTTTAAAA-TTT-AAAATTCTACCT
**
9408780 GGAGGTCTTGAAAATC
1 AAAGGTCTTGAAAATC
9408796 TTGCACTCGT
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
39 9 0.12
40 47 0.61
41 20 0.26
42 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (40 bp):
AAAGGTCTTGAAAATCATTTTAAAATTTAAAATTCTACCT
Found at i:9410416 original size:13 final size:13
Alignment explanation
Indices: 9410398--9410422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9410388 GCCGTATTCG
9410398 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
9410411 TCTTTTTTTTTT
1 TCTTTTTTTTTT
9410423 ATTGTTTCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:9410778 original size:13 final size:13
Alignment explanation
Indices: 9410757--9410805 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
9410747 TCTTCCCTTT
9410757 TTTTCCTTTTTCTC
1 TTTT-CTTTTTCTC
9410771 TTTTCTTTTAT-TC
1 TTTTCTTTT-TCTC
9410784 TTTT-TTTTTC-C
1 TTTTCTTTTTCTC
9410795 TTTTTCTTTTT
1 -TTTTCTTTTT
9410806 TTTTTTCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
11 2 0.06
12 8 0.26
13 16 0.52
14 5 0.16
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTTCTC
Found at i:9410791 original size:25 final size:23
Alignment explanation
Indices: 9410754--9410811 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
9410744 TTTTCTTCCC
**
9410754 TTTTTTTCCTTTTT-CTCTTTTCT
1 TTTTTTTTTTTTTTCCT-TTTTCT
9410777 TTTATTCTTTTTTTTTCCTTTTTCT
1 TTT-TT-TTTTTTTTTCCTTTTTCT
9410802 TTTTTTTTTT
1 TTTTTTTTTT
9410812 CATCAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 8 0.27
24 4 0.13
25 16 0.53
26 2 0.07
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTTTTTTTTTTTCCTTTTTCT
Found at i:9410822 original size:32 final size:32
Alignment explanation
Indices: 9410739--9410847 Score: 96
Period size: 32 Copynumber: 3.3 Consensus size: 32
9410729 CAATCATTCA
* ** *
9410739 TTTTTTTTTCTTCCCTTTTTTTCCTTTTTCTC
1 TTTTTTTTTCATCAATTTTTTTCCTTTTTCTT
* **
9410771 TTTTCTTTT-ATTCTTTTTTTTTCCTTTTTCTT
1 TTTTTTTTTCA-TCAATTTTTTTCCTTTTTCTT
*
9410803 TTTTTTTTTCATCAATTTTTTT-CATTTTCTAT
1 TTTTTTTTTCATCAATTTTTTTCCTTTTTCT-T
9410835 TTCTTTTCTTTCA
1 TT-TTTT-TTTCA
9410848 ATGGATTCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
31 7 0.11
32 46 0.73
33 5 0.08
34 5 0.08
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.75
Consensus pattern (32 bp):
TTTTTTTTTCATCAATTTTTTTCCTTTTTCTT
Found at i:9410830 original size:7 final size:6
Alignment explanation
Indices: 9410756--9410812 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
9410746 TTCTTCCCTT
* *
9410756 TTTTTCC TTTTTC TCTTTTC TTTTATTC TTTTT- TTTTCC TTTTTC TTTTTT
1 TTTTT-C TTTTTC T-TTTTC -TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC
9410807 TTTTTC
1 TTTTTC
9410813 ATCAATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
5 4 0.10
6 19 0.45
7 15 0.36
8 4 0.10
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:9417048 original size:18 final size:18
Alignment explanation
Indices: 9417025--9417104 Score: 65
Period size: 18 Copynumber: 4.3 Consensus size: 18
9417015 TAGGATTTGG
9417025 GGTTTGGTTT-GGGTTTAA
1 GGTTTGGTTTAGGGTTT-A
*
9417043 GGTTTGTTTTCA-GGTTTA
1 GGTTTGGTTT-AGGGTTTA
*
9417061 GTTTATGGTTTAGGGCTTTTA
1 GGTT-TGGTTTAGGG--TTTA
* *
9417082 GGGTTGGTTTGGGGTTTA
1 GGTTTGGTTTAGGGTTTA
9417100 GGTTT
1 GGTTT
9417105 TGGGTTTGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 22 0.45
19 12 0.24
20 9 0.18
21 6 0.12
ACGTcount: A:0.10, C:0.03, G:0.36, T:0.51
Consensus pattern (18 bp):
GGTTTGGTTTAGGGTTTA
Found at i:9417109 original size:13 final size:12
Alignment explanation
Indices: 9417085--9417125 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
9417075 GCTTTTAGGG
9417085 TTGGTTTGGGGT
1 TTGGTTTGGGGT
*
9417097 TTAGGTTTTGGGT
1 TT-GGTTTGGGGT
*
9417110 TTGGTTTGTGGT
1 TTGGTTTGGGGT
9417122 TTGG
1 TTGG
9417126 GCTAGAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.02, C:0.00, G:0.44, T:0.54
Consensus pattern (12 bp):
TTGGTTTGGGGT
Found at i:9417113 original size:25 final size:27
Alignment explanation
Indices: 9417067--9417128 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
9417057 TTTAGTTTAT
9417067 GGTTTAGGGCTTTTAGGGTTGGTTTGG
1 GGTTTAGGGCTTTTAGGGTTGGTTTGG
*
9417094 GGTTTA-GG-TTTT-GGGTTTGGTTTGT
1 GGTTTAGGGCTTTTAGGG-TTGGTTTGG
9417119 GGTTT-GGGCT
1 GGTTTAGGGCT
9417129 AGAGTTTGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 3 0.10
25 19 0.61
26 3 0.10
27 6 0.19
ACGTcount: A:0.05, C:0.03, G:0.44, T:0.48
Consensus pattern (27 bp):
GGTTTAGGGCTTTTAGGGTTGGTTTGG
Found at i:9417175 original size:19 final size:19
Alignment explanation
Indices: 9417151--9417201 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
9417141 TTGGTTTTAA
*
9417151 GGTTTAGGGTTTTAAAGGT
1 GGTTTAGGGTTTGAAAGGT
9417170 GGTTTAGGGTTTGAAAGGT
1 GGTTTAGGGTTTGAAAGGT
*
9417189 GGCTTAGGGTTTG
1 GGTTTAGGGTTTG
9417202 GAATTTGGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.18, C:0.02, G:0.41, T:0.39
Consensus pattern (19 bp):
GGTTTAGGGTTTGAAAGGT
Found at i:9432136 original size:3 final size:3
Alignment explanation
Indices: 9432128--9432162 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
9432118 AAATAGCTAA
*
9432128 AAT AAT AAT AAT AAT AAT AAG AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9432163 AGGCTCAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9432579 original size:1 final size:1
Alignment explanation
Indices: 9432573--9432612 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
9432563 GCTACACGTG
9432573 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9432613 TCTGGGATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9434468 original size:3 final size:3
Alignment explanation
Indices: 9434460--9434496 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9434450 AAGTGATTGA
9434460 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9434497 TTATTATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9434501 original size:3 final size:3
Alignment explanation
Indices: 9434495--9434531 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9434485 ATAATAATAA
9434495 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9434532 GAGTGAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9434586 original size:23 final size:22
Alignment explanation
Indices: 9434544--9434586 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
9434534 GTGAATAAAT
*
9434544 AAAATATAAAAGAAATTTTTAA
1 AAAATATAAAAGAAAATTTTAA
*
9434566 AAAATAATGAAAGAAAATTTT
1 AAAAT-ATAAAAGAAAATTTT
9434587 GGAAATCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAATATAAAAGAAAATTTTAA
Found at i:9435591 original size:21 final size:22
Alignment explanation
Indices: 9435567--9435607 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9435557 GTCCCAAACT
9435567 AAATTATATTTTT-ATAAACCA
1 AAATTATATTTTTAATAAACCA
*
9435588 AAATTATCTTTTTAATAAAC
1 AAATTATATTTTTAATAAAC
9435608 TTTAAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATTATATTTTTAATAAACCA
Found at i:9443124 original size:10 final size:10
Alignment explanation
Indices: 9443109--9443144 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
9443099 CACCAAGAAG
*
9443109 CAAGAGGAAA
1 CAAGAGGAAT
9443119 CAAGAGGAAT
1 CAAGAGGAAT
*
9443129 CAAGATGAAT
1 CAAGAGGAAT
9443139 CAAGAG
1 CAAGAG
9443145 AGCAAGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.53, C:0.11, G:0.28, T:0.08
Consensus pattern (10 bp):
CAAGAGGAAT
Found at i:9446682 original size:21 final size:21
Alignment explanation
Indices: 9446656--9446696 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9446646 CAAAATCGCA
*
9446656 TTCATTTCCACTTGTTATTGT
1 TTCATTTCCACTTGTGATTGT
*
9446677 TTCATTTCCTCTTGTGATTG
1 TTCATTTCCACTTGTGATTG
9446697 CATTACACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.20, G:0.12, T:0.56
Consensus pattern (21 bp):
TTCATTTCCACTTGTGATTGT
Found at i:9450523 original size:18 final size:19
Alignment explanation
Indices: 9450495--9450536 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
9450485 AAATAAAATT
*
9450495 TAATAAAATAAAATCAAGA
1 TAATGAAATAAAATCAAGA
9450514 -AATGAAATAAAATCAAGA
1 TAATGAAATAAAATCAAGA
9450532 TAATG
1 TAATG
9450537 GATCCAGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (19 bp):
TAATGAAATAAAATCAAGA
Found at i:9454906 original size:145 final size:146
Alignment explanation
Indices: 9454723--9455043 Score: 366
Period size: 145 Copynumber: 2.2 Consensus size: 146
9454713 TATAAGGGTA
* * * *
9454723 TATAAAGGTATTTTAGTAATTTCACA-CTTCTTAGGGTACTG-CTATGATTTCAAATGCA-TCAA
1 TATAGAGGTATTTTAGTAATTTCACATTTTTTTAGGGTAC-GACTATGATTTCAAATACACT-AA
* ** * ** * *
9454785 AAATCATGAAATAATATGAAATTAAGATCCGTAAAGTTTTGTGAAAAT-TCGATCTTAGAAAGAT
64 AAATCATGAAATAATATGAAATTAAAATCCAAAAAATTTCATGAAAATCT-GATCTAAGAAAGAC
9454849 CAAATTACGAAAATACCTT
128 CAAATTACGAAAATACCTT
*
9454868 TATAG-GAGTATTTTGGTAATTTCACATTTTTTTA-GGTACGACTATGATTTCAAATACACTAAA
1 TATAGAG-GTATTTTAGTAATTTCACATTTTTTTAGGGTACGACTATGATTTCAAATACACTAAA
* * * *
9454931 AATCATGAAATATTATGAAATTAAAATCTAAAAAATTTCATGAAAATCTGATCTAAGGAAGGCCA
65 AATCATGAAATAATATGAAATTAAAATCCAAAAAATTTCATGAAAATCTGATCTAAGAAAGACCA
* *
9454996 AATTATGAAAATATCTT
130 AATTACGAAAATACCTT
* * *
9455013 TATATAGGTATTTTTGTAATTTCATATTTTT
1 TATAGAGGTATTTTAGTAATTTCACATTTTT
9455044 CTCGGTGTAA
Statistics
Matches: 148, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
144 2 0.01
145 138 0.93
146 8 0.05
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (146 bp):
TATAGAGGTATTTTAGTAATTTCACATTTTTTTAGGGTACGACTATGATTTCAAATACACTAAAA
ATCATGAAATAATATGAAATTAAAATCCAAAAAATTTCATGAAAATCTGATCTAAGAAAGACCAA
ATTACGAAAATACCTT
Found at i:9455770 original size:127 final size:126
Alignment explanation
Indices: 9455537--9455778 Score: 344
Period size: 127 Copynumber: 1.9 Consensus size: 126
9455527 ACTGAAGGTT
* * *
9455537 TTAGAGATTATGCCTACAAGTCTTATAAATCTCAAAATCTTTAAATGCTCCTTCAATAAAAGGCC
1 TTAGAGATTATGCC-ACAAGTCTTACAAATCTCAAAATATTTAAATGCTCCTTCAATAAAAGGCA
*
9455602 ATGAAACTTTAAAAATTTAAAAGTGTTTTGCTTGAAAGTCTTGAAAATTGCACTTAAAGCTC
65 ATGAAACTTTAAAAATTTAAAAGTGTTTTGCTTGAAAGTCTTAAAAATTGCACTTAAAGCTC
* * *
9455664 TTAGAGATTATGCC-CGAAGGTTTTACAAATCTCAAAATATTTGAATGCTCC-TCTAATAAGAGG
1 TTAGAGATTATGCCAC-AA-GTCTTACAAATCTCAAAATATTTAAATGCTCCTTC-AATAAAAGG
***
9455727 CAATGAAACTTTAAAAATTTAAAAGTGTTTTGCTTGGTGGTCTTAAAAATTG
63 CAATGAAACTTTAAAAATTTAAAAGTGTTTTGCTTGAAAGTCTTAAAAATTG
9455779 TTGTTAGAGA
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
125 1 0.01
126 4 0.04
127 97 0.95
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (126 bp):
TTAGAGATTATGCCACAAGTCTTACAAATCTCAAAATATTTAAATGCTCCTTCAATAAAAGGCAA
TGAAACTTTAAAAATTTAAAAGTGTTTTGCTTGAAAGTCTTAAAAATTGCACTTAAAGCTC
Found at i:9455844 original size:105 final size:106
Alignment explanation
Indices: 9455684--9455970 Score: 373
Period size: 107 Copynumber: 2.7 Consensus size: 106
9455674 TGCCCGAAGG
* *
9455684 TTTTACAAATCTCAAAATATTTGAATGCTCCTCTAAT-AAGAGGCAATGAAACTTTAAAAATTTA
1 TTTTACAAATCTCAAAATCTTTGAATGCTCCTCTAATCAA-AGGCCATGAAACTTTAAAAATTTA
* * * *
9455748 AAAGTGTTTTGCTTGGTGGTCTTAAAAATTGT-TG-TTAGAGA
65 AAA-TGTTTTGCCTGGAGGTCTTAAAAATTGTATGCTCAAAGA
* *
9455789 TTTTATAAATCTCAAAATCTTTGAATGCTCCTCCAATCAAAGGCCATGAAACTTTAAAAATTTAA
1 TTTTACAAATCTCAAAATCTTTGAATGCTCCTCTAATCAAAGGCCATGAAACTTTAAAAATTTAA
* *
9455854 AATGTTTTGCCTGGAGGTCTTAAAGATTGTAATGCTCAAAGG
66 AATGTTTTGCCTGGAGGTCTTAAAAATTGT-ATGCTCAAAGA
* * * * * * *
9455896 TCTTAGAAATCTCAAATTCATTGAATGCTCCTCTAATCAGAGGTCATGAAACTTTAAAATTTTAA
1 TTTTACAAATCTCAAAATCTTTGAATGCTCCTCTAATCAAAGGCCATGAAACTTTAAAAATTTAA
9455961 AATGTTTTGC
66 AATGTTTTGC
9455971 AAATCTCAAA
Statistics
Matches: 160, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
104 25 0.16
105 60 0.38
106 4 0.03
107 71 0.44
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (106 bp):
TTTTACAAATCTCAAAATCTTTGAATGCTCCTCTAATCAAAGGCCATGAAACTTTAAAAATTTAA
AATGTTTTGCCTGGAGGTCTTAAAAATTGTATGCTCAAAGA
Done.