Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 153 of 161
Found at i:47675566 original size:3 final size:3
Alignment explanation
Indices: 47675558--47675592 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
47675548 CTCAATACTT
47675558 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
47675593 TGTGTAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:47675932 original size:3 final size:3
Alignment explanation
Indices: 47675924--47675949 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47675914 GTTTGGAGTT
47675924 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
47675950 GTAGTAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:47689486 original size:28 final size:28
Alignment explanation
Indices: 47689425--47689514 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
47689415 ACTACTTTTT
* * *
47689425 GGTGATTATAGTATCAGATACTTTGTACT
1 GGTG-TTATAGTATCAGGTACTCTGTACC
* *
47689454 AGTGTTACAGTATCAGGTACTCTGTACC
1 GGTGTTATAGTATCAGGTACTCTGTACC
* *
47689482 GGTGTTATATTTATTAGGTAC-CATGTACC
1 GGTGTTATA-GTATCAGGTACTC-TGTACC
47689511 GGTG
1 GGTG
47689515 ATGGATACCA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
28 28 0.56
29 22 0.44
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (28 bp):
GGTGTTATAGTATCAGGTACTCTGTACC
Found at i:47693645 original size:28 final size:26
Alignment explanation
Indices: 47693602--47693653 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
47693592 TCAAGTATTG
47693602 TTTTTTAAATCCTCTTTTTAAAAGAATT
1 TTTTTTAAATCCTC--TTTAAAAGAATT
**
47693630 TTTTTTAAATTTTCTTTAAAAGAA
1 TTTTTTAAATCCTCTTTAAAAGAA
47693654 AGGTTGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
28 12 0.55
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (26 bp):
TTTTTTAAATCCTCTTTAAAAGAATT
Found at i:47695092 original size:27 final size:27
Alignment explanation
Indices: 47695062--47695240 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
47695052 ATATTGAGCC
* * *
47695062 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * * *
47695089 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
47695116 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
** * *
47695144 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
47695171 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
47695198 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
47695225 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
47695241 TACAATTTAA
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:47695201 original size:82 final size:81
Alignment explanation
Indices: 47695083--47695238 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
47695073 TGCTATATAA
* * *
47695083 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
47695148 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
47695165 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
47695229 CACTTAGTGC
65 CACTTAGTGC
47695239 TATACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47697086 original size:17 final size:16
Alignment explanation
Indices: 47697064--47697118 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 16
47697054 CAGGATCAGA
*
47697064 TTGAAACAAGAGAATTT
1 TTGAAACACGA-AATTT
47697081 TTGAAAACACGCAAATTT
1 TTG-AAACACG-AAATTT
*
47697099 TTGAAACACGAAAATT
1 TTGAAACACGAAATTT
47697115 TTGA
1 TTGA
47697119 TAGATTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 9 0.26
17 10 0.29
18 14 0.41
19 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (16 bp):
TTGAAACACGAAATTT
Found at i:47697097 original size:18 final size:17
Alignment explanation
Indices: 47697064--47697116 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
47697054 CAGGATCAGA
* *
47697064 TTGAAACAAGAGAATTT
1 TTGAAACACGAAAATTT
*
47697081 TTGAAAACACGCAAATTT
1 TTG-AAACACGAAAATTT
47697099 TTGAAACACGAAAATTT
1 TTGAAACACGAAAATTT
47697116 T
1 T
47697117 GATAGATTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (17 bp):
TTGAAACACGAAAATTT
Found at i:47697717 original size:18 final size:18
Alignment explanation
Indices: 47697687--47697721 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
47697677 CCTGCTGCTG
47697687 TTTTTTTCTTGTTCTTCTA
1 TTTTTTTCTTGTT-TTCTA
47697706 TTTTTTTC-TGTTTTCT
1 TTTTTTTCTTGTTTTCT
47697722 CTTTCCGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTTTTCTTGTTTTCTA
Found at i:47697758 original size:33 final size:33
Alignment explanation
Indices: 47697711--47697778 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
47697701 TTCTATTTTT
*
47697711 TTCTGTTTTCTCTTTCCGTTTTCT-TTTTTCCTC
1 TTCTCTTTTCTCTTTCCGTTTTCTCTTTTT-CTC
* **
47697744 TTCTCTTTTTTCTTTCTTTTTTCTCTTTTTCTC
1 TTCTCTTTTCTCTTTCCGTTTTCTCTTTTTCTC
47697777 TT
1 TT
47697779 TCCCCCTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (33 bp):
TTCTCTTTTCTCTTTCCGTTTTCTCTTTTTCTC
Found at i:47697771 original size:13 final size:13
Alignment explanation
Indices: 47697730--47697771 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
47697720 CTCTTTCCGT
47697730 TTTCTTTTTTC-C
1 TTTCTTTTTTCTC
47697742 TCTTCTCTTTTT-TC
1 T-TTCT-TTTTTCTC
47697756 TTTCTTTTTTCTC
1 TTTCTTTTTTCTC
47697769 TTT
1 TTT
47697772 TTCTCTTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.23
13 13 0.50
14 7 0.27
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTTTTCTC
Found at i:47697900 original size:20 final size:21
Alignment explanation
Indices: 47697876--47697932 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
47697866 CTTCCTTTTC
47697876 CTCTCCTCTTCTTTTTTCTTT
1 CTCTCCTCTTCTTTTTTCTTT
* *
47697897 -TCT-CTCATATTTTTTCTTT
1 CTCTCCTCTTCTTTTTTCTTT
47697916 CTCTCCT-TTCCTTTTTT
1 CTCTCCTCTT-CTTTTTT
47697933 ATATTTTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
19 14 0.48
20 7 0.24
21 8 0.28
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (21 bp):
CTCTCCTCTTCTTTTTTCTTT
Found at i:47697916 original size:23 final size:24
Alignment explanation
Indices: 47697859--47697917 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
47697849 TGTCACGGCG
* * *
47697859 TTCTCTTCTTCCTTTTCCTCTCCTC
1 TTCT-TTCTTTCTTTTCCTCTCATA
47697884 TTCTTT-TTTCTTTT-CTCTCATA
1 TTCTTTCTTTCTTTTCCTCTCATA
*
47697906 TTTTTTCTTTCT
1 TTCTTTCTTTCT
47697918 CTCCTTTCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 11 0.38
23 12 0.41
24 2 0.07
25 4 0.14
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (24 bp):
TTCTTTCTTTCTTTTCCTCTCATA
Found at i:47698894 original size:75 final size:74
Alignment explanation
Indices: 47698804--47699158 Score: 403
Period size: 75 Copynumber: 4.7 Consensus size: 74
47698794 GTGATTTAAA
* * *
47698804 GCTCAATTCACCTCTCGGATTATGAGTTGATCTTTAAGAAATAGAAATTGAAAATACCTCAG-GA
1 GCTCAACTCACCTCTCGCATTATGAGTTGAT-TTTAAAAAATAGAAATTGAAAATACCTCAGCG-
*
47698868 TGTGACCCGAT
64 TGTGACCCGAG
* * * * * *
47698879 GCTCAACTCACCTCTCAG-ATTATGAGTTGATTTTTGAAAAACATAAATTAAAAATACCTTAGTG
1 GCTCAACTCACCTCTC-GCATTATGAGTTGA-TTTTAAAAAATAGAAATTGAAAATACCTCAGCG
*
47698943 TATGACCCGAG
64 TGTGACCCGAG
* * *
47698954 GCTCAACTCACCTATC-CATTATGAGTTGATTTTAAAAAAATAGAAATTAAAAAATACCTTAGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTT-AAAAAATAGAAATT-GAAAATACCTCAGCG
*
47699018 TGTG-CCTGAG
64 TGTGACCCGAG
* * * *
47699028 GTTCAACTCACCTATCGCATTATGAGTTGATTTTTTCAAAAATAGAAATTGAAAAATACCTCTGC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA--TTTTAAAAAATAGAAATTG-AAAATACCTCAGC
47699093 GTGTGACCCGAG
63 GTGTGACCCGAG
* *
47699105 GCTCAACTCACCTCTCGCATTATGAGTTGATTTGAGAAAAACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTA-AAAAATAGAAATTGAAAA
47699159 ATAATTTTTG
Statistics
Matches: 241, Mismatches: 27, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
73 4 0.02
74 43 0.18
75 112 0.46
76 45 0.19
77 37 0.15
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAATAGAAATTGAAAATACCTCAGCGTG
TGACCCGAG
Found at i:47699034 original size:149 final size:152
Alignment explanation
Indices: 47698804--47699161 Score: 444
Period size: 149 Copynumber: 2.4 Consensus size: 152
47698794 GTGATTTAAA
* * * *
47698804 GCTCAATTCACCTCTCGGATTATGAGTTGATCTTT-AAGAAATAGAAATTGAAAATACCTCAGGA
1 GCTCAACTCACCTCTCGCATTATGAGTTGAT-TTTAAAAAAATAGAAATTAAAAATACCTCAGGA
* * * *
47698868 TGTGACCCGATGCTCAACTCACCTCTCAG-ATTATGAGTTGA-TTTTTGAAAAACATAAATT-AA
65 TGTGACCCGAGGCTCAACTCACCTATC-GCATTATGAGTTGATTTTTTCAAAAACAGAAATTGAA
*
47698930 AAATACCT-TAGTGTATGACCCGAG
129 AAATACCTCT-GCGTATGACCCGAG
* *
47698954 GCTCAACTCACCTATC-CATTATGAGTTGATTTTAAAAAAATAGAAATTAAAAAATACCTTAGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAATAGAAATT-AAAAATACCTCAG-G
* * *
47699018 -TGTG-CCTGAGGTTCAACTCACCTATCGCATTATGAGTTGATTTTTTCAAAAATAGAAATTGAA
64 ATGTGACCCGAGGCTCAACTCACCTATCGCATTATGAGTTGATTTTTTCAAAAACAGAAATTGAA
*
47699081 AAATACCTCTGCGTGTGACCCGAG
129 AAATACCTCTGCGTATGACCCGAG
* * *
47699105 GCTCAACTCACCTCTCGCATTATGAGTTGATTTGAGAAAAACAGAAATTGAAAAATA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAATAGAAATT-AAAAATA
47699162 ATTTTTGAAA
Statistics
Matches: 180, Mismatches: 20, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
148 4 0.02
149 56 0.31
150 45 0.25
151 38 0.21
152 37 0.21
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (152 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAATAGAAATTAAAAATACCTCAGGAT
GTGACCCGAGGCTCAACTCACCTATCGCATTATGAGTTGATTTTTTCAAAAACAGAAATTGAAAA
ATACCTCTGCGTATGACCCGAG
Found at i:47705316 original size:37 final size:37
Alignment explanation
Indices: 47705238--47705309 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
47705228 ATACCCCAAT
* * *
47705238 AGGATCTTCTGATATGTCCATTGAAATACTGAGTCAGC
1 AGGATCTTCTGATCT-TCCACTAAAATACTGAGTCAGC
*
47705276 AGGATCTTCTGATCTTCCACTAAAATATTGAGTC
1 AGGATCTTCTGATCTTCCACTAAAATACTGAGTC
47705310 GACAGGAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.53
38 14 0.47
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (37 bp):
AGGATCTTCTGATCTTCCACTAAAATACTGAGTCAGC
Found at i:47706789 original size:19 final size:19
Alignment explanation
Indices: 47706765--47706802 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47706755 AAGGAATCAA
47706765 GACCAGTTTTTTCCCTTGG
1 GACCAGTTTTTTCCCTTGG
47706784 GACCAGTTTTTTCCCTTGG
1 GACCAGTTTTTTCCCTTGG
47706803 AGTTGGAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.42
Consensus pattern (19 bp):
GACCAGTTTTTTCCCTTGG
Found at i:47707207 original size:42 final size:42
Alignment explanation
Indices: 47707181--47707289 Score: 157
Period size: 42 Copynumber: 2.6 Consensus size: 42
47707171 TTTGATATTG
47707181 AAATATGATTTGCATGTTAAGCATGCCGACTATGTTGATTAT
1 AAATATGATTTGCATGTTAAGCATGCCGACTATGTTGATTAT
* *
47707223 AAATATGATTTGCATGTTAAGCATGTCAACTAT-TTAGATTAT
1 AAATATGATTTGCATGTTAAGCATGCCGACTATGTT-GATTAT
* * *
47707265 AAATCTGAATCGCATGTTAAGCATG
1 AAATATGATTTGCATGTTAAGCATG
47707290 TCTACTGAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (42 bp):
AAATATGATTTGCATGTTAAGCATGCCGACTATGTTGATTAT
Found at i:47707406 original size:24 final size:24
Alignment explanation
Indices: 47707379--47707498 Score: 136
Period size: 24 Copynumber: 5.0 Consensus size: 24
47707369 TTTACTACAA
*
47707379 TATTGAGTGGCTTGACCACAATGT
1 TATTGAGTGGCTTGACCACAACGT
* *
47707403 TATTG-GATGGCCTGGCCACAACGT
1 TATTGAG-TGGCTTGACCACAACGT
* *
47707427 TATTGAGTGGCTTGACCACAATGC
1 TATTGAGTGGCTTGACCACAACGT
* *
47707451 TATTGAGTAGCTTGGCCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
*
47707475 TATTGAGTGACTT-ATCCACAACGT
1 TATTGAGTGGCTTGA-CCACAACGT
47707499 GCAACTTGAT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
23 1 0.01
24 77 0.97
25 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGT
Found at i:47707495 original size:48 final size:48
Alignment explanation
Indices: 47707379--47707483 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
47707369 TTTACTACAA
* *
47707379 TATTGAGTGGCTTGACCACAATGTTATTGGATGGCCTGGCCACAACGT
1 TATTGAGTGGCTTGACCACAATGCTATTGGATAGCCTGGCCACAACGT
*
47707427 TATTGAGTGGCTTGACCACAATGCTATT-GAGTAGCTTGGCCACAACGT
1 TATTGAGTGGCTTGACCACAATGCTATTGGA-TAGCCTGGCCACAACGT
47707475 TATTGAGTG
1 TATTGAGTG
47707484 ACTTATCCAC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
47 2 0.04
48 51 0.96
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (48 bp):
TATTGAGTGGCTTGACCACAATGCTATTGGATAGCCTGGCCACAACGT
Found at i:47714932 original size:45 final size:45
Alignment explanation
Indices: 47714863--47714954 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
47714853 CTTATTGTCT
* * * *
47714863 GCGGTTCAGCTGAATATCAGTCTTCTG-TTGCTGTGAGTGTTTTTG
1 GCGGTTCAGCCGAATATCACTCTTCTGCTT-CCGTAAGTGTTTTTG
47714908 GCGGTTCAGCCGAATATCACTCTTCTGCTTCCGTAAGTGTTTTTG
1 GCGGTTCAGCCGAATATCACTCTTCTGCTTCCGTAAGTGTTTTTG
47714953 GC
1 GC
47714955 TATCGGTAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 40 0.95
46 2 0.05
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.39
Consensus pattern (45 bp):
GCGGTTCAGCCGAATATCACTCTTCTGCTTCCGTAAGTGTTTTTG
Found at i:47715446 original size:27 final size:26
Alignment explanation
Indices: 47715402--47715619 Score: 203
Period size: 27 Copynumber: 8.1 Consensus size: 26
47715392 GGTAAGCCCA
47715402 AAATATCCCC-AAATGGTAAAATGATCG
1 AAATA-CCCCGAAA-GGTAAAATGATCG
47715429 AAATACCCACGAAAGGTAAAATGA-CTG
1 AAATACCC-CGAAAGGTAAAATGATC-G
47715456 AAATACTCCC-AAAGGGTAAAATGATCG
1 AAATAC-CCCGAAA-GGTAAAATGATCG
* *
47715483 AAATAACCTCGAAGGGTAAAATGATCG
1 AAAT-ACCCCGAAAGGTAAAATGATCG
** * *
47715510 AAATATCTTCGAAGGGTAAAATGATTG
1 AAATA-CCCCGAAAGGTAAAATGATCG
47715537 AAATACCCTC-AAAGGATAAAATGATCG
1 AAATACCC-CGAAAGG-TAAAATGATCG
*
47715564 AAATACCCCTAAAGGGTAAAATGA-CAG
1 AAATACCCCGAAA-GGTAAAATGATC-G
* *
47715591 AAATAGCCCCGAAGGGTAAAATAATCG
1 AAATA-CCCCGAAAGGTAAAATGATCG
47715618 AA
1 AA
47715620 TTACGCCTAT
Statistics
Matches: 164, Mismatches: 11, Indels: 32
0.79 0.05 0.15
Matches are distributed among these distances:
26 15 0.09
27 130 0.79
28 19 0.12
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (26 bp):
AAATACCCCGAAAGGTAAAATGATCG
Found at i:47715474 original size:54 final size:54
Alignment explanation
Indices: 47715409--47715619 Score: 245
Period size: 54 Copynumber: 3.9 Consensus size: 54
47715399 CCAAAATATC
* *
47715409 CCCAAATGGTAAAATGATCGAAATACCCACGAAAGGTAAAATGA-CTGAAATACT
1 CCCAAAGGGTAAAATGATCGAAATACCCTCGAAAGGTAAAATGATC-GAAATACT
* *
47715463 CCCAAAGGGTAAAATGATCGAAATAACCTCGAAGGGTAAAATGATCGAAATA-T
1 CCCAAAGGGTAAAATGATCGAAATACCCTCGAAAGGTAAAATGATCGAAATACT
* * *
47715516 CTTCGAAGGGTAAAATGATTGAAATACCCTC-AAAGGATAAAATGATCGAAATAC-
1 C-CCAAAGGGTAAAATGATCGAAATACCCTCGAAAGG-TAAAATGATCGAAATACT
* *
47715570 CCCTAAAGGGTAAAATGA-CAGAAATAGCCC-CGAAGGGTAAAATAATCGAA
1 CCC-AAAGGGTAAAATGATC-GAAATA-CCCTCGAAAGGTAAAATGATCGAA
47715620 TTACGCCTAT
Statistics
Matches: 135, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
53 7 0.05
54 120 0.89
55 8 0.06
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.18
Consensus pattern (54 bp):
CCCAAAGGGTAAAATGATCGAAATACCCTCGAAAGGTAAAATGATCGAAATACT
Found at i:47715539 original size:81 final size:81
Alignment explanation
Indices: 47715402--47715612 Score: 261
Period size: 81 Copynumber: 2.6 Consensus size: 81
47715392 GGTAAGCCCA
* *
47715402 AAATATCCCC-AAATGGTAAAATGATCGAAATACCCACGAAAGGTAAAATGACTGAAATACTCC-
1 AAATA-CCCCTAAAGGGTAAAATGATCGAAATACCCACGAAGGGTAAAATGACTGAAATAC-CCT
*
47715465 CAAAGGGTAAAATGATCG
64 CAAAGGATAAAATGATCG
* * * ** *
47715483 AAATA-ACCTCGAAGGGTAAAATGATCGAAATATCTTCGAAGGGTAAAATGATTGAAATACCCTC
1 AAATACCCCT-AAAGGGTAAAATGATCGAAATACCCACGAAGGGTAAAATGACTGAAATACCCTC
47715547 AAAGGATAAAATGATCG
65 AAAGGATAAAATGATCG
47715564 AAATACCCCTAAAGGGTAAAATGA-CAGAAATAGCCC-CGAAGGGTAAAAT
1 AAATACCCCTAAAGGGTAAAATGATC-GAAATA-CCCACGAAGGGTAAAAT
47715613 AATCGAATTA
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
79 2 0.02
80 3 0.03
81 102 0.92
82 4 0.04
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (81 bp):
AAATACCCCTAAAGGGTAAAATGATCGAAATACCCACGAAGGGTAAAATGACTGAAATACCCTCA
AAGGATAAAATGATCG
Found at i:47715638 original size:81 final size:81
Alignment explanation
Indices: 47715402--47715641 Score: 240
Period size: 81 Copynumber: 3.0 Consensus size: 81
47715392 GGTAAGCCCA
* * * * *
47715402 AAATATCCCCAAATGGTAAAATGATCGAAATA-CCCACGAAAGGTAAAATGA-CTGAAATACTCC
1 AAATAACCTCAAAGGGTAAAATGATCGAAATAGCCC-CGAAGGGTAAAATAATC-GAAATAC-CC
47715465 -CAAAGGGTAAAATGATCG
63 TCAAAGGGTAAAATGATCG
* * ** * *
47715483 AAATAACCTCGAAGGGTAAAATGATCGAAATATCTTCGAAGGGTAAAATGATTGAAATACCCTCA
1 AAATAACCTCAAAGGGTAAAATGATCGAAATAGCCCCGAAGGGTAAAATAATCGAAATACCCTCA
*
47715548 AAGGATAAAATGATCG
66 AAGGGTAAAATGATCG
* *
47715564 AAAT-ACCCCTAAAGGGTAAAATGA-CAGAAATAGCCCCGAAGGGTAAAATAATCGAATTACGCC
1 AAATAACCTC-AAAGGGTAAAATGATC-GAAATAGCCCCGAAGGGTAAAATAATCGAAATAC-CC
**
47715627 T-ATTGGGTAAAATGA
63 TCAAAGGGTAAAATGA
47715642 CTGTTATACC
Statistics
Matches: 133, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
80 7 0.05
81 122 0.92
82 4 0.03
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (81 bp):
AAATAACCTCAAAGGGTAAAATGATCGAAATAGCCCCGAAGGGTAAAATAATCGAAATACCCTCA
AAGGGTAAAATGATCG
Found at i:47716809 original size:15 final size:15
Alignment explanation
Indices: 47716789--47716822 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
47716779 ACTGCTTCTC
47716789 ATAAGACATCTATTA
1 ATAAGACATCTATTA
47716804 ATAAGACATCTATTA
1 ATAAGACATCTATTA
47716819 ATAA
1 ATAA
47716823 TTACTGGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAAGACATCTATTA
Found at i:47720593 original size:39 final size:39
Alignment explanation
Indices: 47720539--47720616 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
47720529 TTGCCAATTG
47720539 GAAAGAGAGATTCAAGTACTGGATGATATGTTAAAGTGT
1 GAAAGAGAGATTCAAGTACTGGATGATATGTTAAAGTGT
*
47720578 GAAAGAGTGATTCAAGTACTGGATGATATGTTAAAGTGT
1 GAAAGAGAGATTCAAGTACTGGATGATATGTTAAAGTGT
47720617 TGTGTAATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.29
Consensus pattern (39 bp):
GAAAGAGAGATTCAAGTACTGGATGATATGTTAAAGTGT
Found at i:47722863 original size:27 final size:27
Alignment explanation
Indices: 47722832--47723178 Score: 338
Period size: 27 Copynumber: 12.9 Consensus size: 27
47722822 GGTAAGCCCA
47722832 AAATACCCCCAAAGGGTAAAATGACCG
1 AAATACCCCCAAAGGGTAAAATGACCG
* * * * *
47722859 AAATACTCTCTAAGGGTAAAATAACCA
1 AAATACCCCCAAAGGGTAAAATGACCG
* * *
47722886 AAATACCCCTAAAGGATAAAATCACCG
1 AAATACCCCCAAAGGGTAAAATGACCG
* * * **
47722913 AAATAGCCCCGAA-GATAAAATGACTA
1 AAATACCCCCAAAGGGTAAAATGACCG
** * * *
47722939 AAATACCCCTGAATGGTAGAATAACCG
1 AAATACCCCCAAAGGGTAAAATGACCG
*
47722966 AAATACCTCCAAAGGGTAAAATGACCG
1 AAATACCCCCAAAGGGTAAAATGACCG
* ** * *
47722993 AAATACTCCTGAAGGGTAGAATGACTG
1 AAATACCCCCAAAGGGTAAAATGACCG
* * *
47723020 AAATACCCCCGAAGGGTAAAATAATC-
1 AAATACCCCCAAAGGGTAAAATGACCG
* *
47723046 AAATACCCCCGAAGGGTAAAATAACCG
1 AAATACCCCCAAAGGGTAAAATGACCG
* *
47723073 AAATACCCTCAAACGGTAAAATGACCG
1 AAATACCCCCAAAGGGTAAAATGACCG
* *
47723100 AAATATCCCCAAAGGGTAAAATGACCA
1 AAATACCCCCAAAGGGTAAAATGACCG
* *
47723127 AAATACTCTCAAAGGGTAAAATGACCG
1 AAATACCCCCAAAGGGTAAAATGACCG
** *
47723154 AAATATGCCCATAGGGTAAAATGAC
1 AAATACCCCCAAAGGGTAAAATGAC
47723179 TGTTATACCC
Statistics
Matches: 258, Mismatches: 60, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
26 46 0.18
27 212 0.82
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.16
Consensus pattern (27 bp):
AAATACCCCCAAAGGGTAAAATGACCG
Found at i:47722997 original size:107 final size:108
Alignment explanation
Indices: 47722831--47723132 Score: 371
Period size: 107 Copynumber: 2.8 Consensus size: 108
47722821 TGGTAAGCCC
* * * * *
47722831 AAAATACCCCCAAAGGGTAAAATGACCGAAATA-CTCTCTAAGGGTAAAATAACCAAAATACCCC
1 AAAATACCCCCGAAGGGTAAAATAACCGAAATACCTCTCAAAGGGTAAAATGACCGAAATACCCC
* * * *
47722895 TAAAGGATAAAATCACCGAAATAGCCCCGAA-GATAAAATGACT
66 TAAAGGGTAAAATGACCGAAATACCCCCGAAGGATAAAAT-AAT
* * * *
47722938 AAAATACCCCTGAATGGTAGAATAACCGAAATACCTC-CAAAGGGTAAAATGACCGAAATACTCC
1 AAAATACCCCCGAAGGGTAAAATAACCGAAATACCTCTCAAAGGGTAAAATGACCGAAATACCCC
* * * *
47723002 TGAAGGGTAGAATGACTGAAATACCCCCGAAGGGTAAAATAAT
66 TAAAGGGTAAAATGACCGAAATACCCCCGAAGGATAAAATAAT
* *
47723045 CAAATACCCCCGAAGGGTAAAATAACCGAAATACC-CTCAAACGGTAAAATGACCGAAATATCCC
1 AAAATACCCCCGAAGGGTAAAATAACCGAAATACCTCTCAAAGGGTAAAATGACCGAAATA-CCC
*
47723109 C-AAAGGGTAAAATGACCAAAATAC
65 CTAAAGGGTAAAATGACCGAAATAC
47723133 TCTCAAAGGG
Statistics
Matches: 164, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
106 1 0.01
107 150 0.91
108 13 0.08
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.16
Consensus pattern (108 bp):
AAAATACCCCCGAAGGGTAAAATAACCGAAATACCTCTCAAAGGGTAAAATGACCGAAATACCCC
TAAAGGGTAAAATGACCGAAATACCCCCGAAGGATAAAATAAT
Found at i:47723372 original size:26 final size:26
Alignment explanation
Indices: 47723338--47723391 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
47723328 TTGCCACATG
47723338 TACTGTTACTAGCAGCTTCGCTGCGA
1 TACTGTTACTAGCAGCTTCGCTGCGA
* * * *
47723364 TACTTTTACTGGCAGCTTTGTTGCGA
1 TACTGTTACTAGCAGCTTCGCTGCGA
47723390 TA
1 TA
47723392 TTAGTGTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGTTACTAGCAGCTTCGCTGCGA
Found at i:47723519 original size:28 final size:28
Alignment explanation
Indices: 47723487--47723553 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
47723477 TTGCATTATT
* **
47723487 ACACTGTTATTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATAAGGCTAAGGCCC
*
47723515 ACACTATTACTGTATAAGGCTAAGGCCC
1 ACACTGTTACTGTATAAGGCTAAGGCCC
47723543 ACACTG-TACTG
1 ACACTGTTACTG
47723554 ATACTGAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.15
28 29 0.85
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (28 bp):
ACACTGTTACTGTATAAGGCTAAGGCCC
Found at i:47723569 original size:33 final size:28
Alignment explanation
Indices: 47723503--47723584 Score: 83
Period size: 33 Copynumber: 2.8 Consensus size: 28
47723493 TTATTGTATT
*
47723503 GGGCTAAGGCCCACACTATTACTGTATA
1 GGGCTAAGGCCCACACTATTACTGAATA
*
47723531 AGGCTAAGGCCCACACTGTACTGATACTGAATA
1 GGGCTAAGGCCCACAC--TA-T--TACTGAATA
* *
47723564 GGGCTAAGGCCTAGACTATTA
1 GGGCTAAGGCCCACACTATTA
47723585 TTGTATGTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
28 17 0.39
30 3 0.07
31 3 0.07
33 21 0.48
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (28 bp):
GGGCTAAGGCCCACACTATTACTGAATA
Found at i:47739208 original size:20 final size:21
Alignment explanation
Indices: 47739183--47739224 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
47739173 AGTACCATTT
*
47739183 CCTCAA-TCTATTTTCTTTTC
1 CCTCAACTCTATTCTCTTTTC
47739203 CCTCAACCTCTATTCTCTTTTC
1 CCTCAA-CTCTATTCTCTTTTC
47739225 TCTACCCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
22 13 0.68
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (21 bp):
CCTCAACTCTATTCTCTTTTC
Found at i:47740844 original size:21 final size:21
Alignment explanation
Indices: 47740809--47740861 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
47740799 AAAAACTATA
47740809 TATTTTAATTTTTAAATAAATTT
1 TATTTT-A-TTTTAAATAAATTT
47740832 TATTTTATTTTAAATAAATTT
1 TATTTTATTTTAAATAAATTT
* *
47740853 CAATTTATT
1 TATTTTATT
47740862 ATTTTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 21 0.75
22 1 0.04
23 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATTTTAAATAAATTT
Found at i:47741770 original size:14 final size:14
Alignment explanation
Indices: 47741751--47741816 Score: 57
Period size: 15 Copynumber: 4.8 Consensus size: 14
47741741 ATAAATTAAG
47741751 TAAAAATATATTTT
1 TAAAAATATATTTT
* * *
47741765 TAAAAAATAAAATTA
1 T-AAAAATATATTTT
47741780 TATAAAAT-TATTTT
1 TA-AAAATATATTTT
*
47741794 T--AAATATATATT
1 TAAAAATATATTTT
47741806 TAAAAATATAT
1 TAAAAATATAT
47741817 ATTTCTTTCC
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
11 4 0.10
12 6 0.15
14 14 0.35
15 16 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAAAATATATTTT
Found at i:47741817 original size:14 final size:14
Alignment explanation
Indices: 47741751--47741820 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
47741741 ATAAATTAAG
*
47741751 TAAAAATATATTTT
1 TAAAAATATATATT
*
47741765 TAAAAA-ATAAAATT
1 TAAAAATAT-ATATT
47741779 ATATAAAAT-TAT-TT
1 -TA-AAAATATATATT
*
47741793 T-TAAATATATATT
1 TAAAAATATATATT
47741806 TAAAAATATATATT
1 TAAAAATATATATT
47741820 T
1 T
47741821 CTTTCCCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
11 4 0.09
12 3 0.07
13 6 0.14
14 23 0.52
15 3 0.07
16 5 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAAAATATATATT
Found at i:47745476 original size:103 final size:103
Alignment explanation
Indices: 47745294--47745499 Score: 333
Period size: 103 Copynumber: 2.0 Consensus size: 103
47745284 AGTGCCAATC
47745294 CCGAAGGCTTTACCTCTGCCCCCAATAACACACCAGAAGCACTATAAATATAACACGATAGCCCG
1 CCGAAGGCTTTACCTCTGCCCCCAATAACACACCAGAAGCACTATAAATATAACACGATAGCCCG
47745359 CAACAAATGCTGGACTTCA-ATAAATTCAAAAGCGATTA
66 CAACAAATGCTGGACTT-AGATAAATTCAAAAGCGATTA
* ** *
47745397 CCGAAGGCTTTACCTCTGCCCCCGATAACACACCAGAAGCACTATAAATATAACACGATATTCTG
1 CCGAAGGCTTTACCTCTGCCCCCAATAACACACCAGAAGCACTATAAATATAACACGATAGCCCG
** *
47745462 CAACAAATTTTGGACTTAGGTAAATTCAAAAGCGATTA
66 CAACAAATGCTGGACTTAGATAAATTCAAAAGCGATTA
47745500 ATTTTTACAC
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 1 0.01
103 94 0.99
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (103 bp):
CCGAAGGCTTTACCTCTGCCCCCAATAACACACCAGAAGCACTATAAATATAACACGATAGCCCG
CAACAAATGCTGGACTTAGATAAATTCAAAAGCGATTA
Found at i:47752866 original size:28 final size:28
Alignment explanation
Indices: 47752834--47752897 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
47752824 AGGCCTAATG
47752834 GCCCAAATCCACTACCCAAACCCAACTA
1 GCCCAAATCCACTACCCAAACCCAACTA
* *
47752862 GCCCAAATCCCCTAGCCAAACCCAACTA
1 GCCCAAATCCACTACCCAAACCCAACTA
47752890 GCCCAAAT
1 GCCCAAAT
47752898 GCCCATGACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.38, C:0.45, G:0.06, T:0.11
Consensus pattern (28 bp):
GCCCAAATCCACTACCCAAACCCAACTA
Found at i:47752876 original size:14 final size:15
Alignment explanation
Indices: 47752834--47752902 Score: 69
Period size: 13 Copynumber: 4.8 Consensus size: 15
47752824 AGGCCTAATG
47752834 GCCCAAAT-CCACTA
1 GCCCAAATCCCACTA
47752848 -CCCAAA-CCCAACTA
1 GCCCAAATCCC-ACTA
47752862 GCCCAAATCCC-CTA
1 GCCCAAATCCCACTA
47752876 G-CCAAA-CCCAACTA
1 GCCCAAATCCC-ACTA
47752890 GCCCAAATGCCCA
1 GCCCAAAT-CCCA
47752903 TGACCAGAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
12 3 0.07
13 13 0.28
14 12 0.26
15 11 0.24
16 4 0.09
17 3 0.07
ACGTcount: A:0.36, C:0.46, G:0.07, T:0.10
Consensus pattern (15 bp):
GCCCAAATCCCACTA
Found at i:47753225 original size:12 final size:13
Alignment explanation
Indices: 47753203--47753232 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
47753193 ATTTGGATTG
47753203 ATTTTTATTCTCT
1 ATTTTTATTCTCT
47753216 ATTTTT-TTCTCT
1 ATTTTTATTCTCT
47753228 ATTTT
1 ATTTT
47753233 CTGTAAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTTATTCTCT
Found at i:47754394 original size:19 final size:20
Alignment explanation
Indices: 47754355--47754397 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
47754345 TAATAATAAT
* *
47754355 ATATTTTTTAATTGTTATCA
1 ATATGTTTTAAATGTTATCA
47754375 ATATGTTTTAAATG-TATCA
1 ATATGTTTTAAATGTTATCA
47754394 ATAT
1 ATAT
47754398 TATTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (20 bp):
ATATGTTTTAAATGTTATCA
Found at i:47754403 original size:19 final size:19
Alignment explanation
Indices: 47754359--47754405 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
47754349 AATAATATAT
*
47754359 TTTTTAATTGTTATCAATA
1 TTTTTAAATGTTATCAATA
47754378 TGTTTTAAATG-TATCAATA
1 T-TTTTAAATGTTATCAATA
47754397 TTATTTAAA
1 TT-TTTAAA
47754406 AAATACATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 8 0.32
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (19 bp):
TTTTTAAATGTTATCAATA
Found at i:47763298 original size:17 final size:17
Alignment explanation
Indices: 47763256--47763304 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
47763246 CTTTGAATGC
47763256 AAATT-AATTTGGTATG
1 AAATTGAATTTGGTATG
47763272 AAATTTGAATTTGGT-TG
1 AAA-TTGAATTTGGTATG
47763289 ATAATTGAATTATGGT
1 A-AATTGAATT-TGGT
47763305 GTTAATGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
18 14 0.48
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (17 bp):
AAATTGAATTTGGTATG
Found at i:47768875 original size:22 final size:22
Alignment explanation
Indices: 47768850--47768893 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
47768840 GCTATGTAGA
*
47768850 TTATTACTTGATTGGTTGATTG
1 TTATTACTTGATTGATTGATTG
47768872 TTATTACTTGATTGATTGATTG
1 TTATTACTTGATTGATTGATTG
47768894 ATTAGTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (22 bp):
TTATTACTTGATTGATTGATTG
Found at i:47769143 original size:32 final size:32
Alignment explanation
Indices: 47769101--47769207 Score: 169
Period size: 32 Copynumber: 3.3 Consensus size: 32
47769091 TGTGTTTGCA
*
47769101 AACCATGATAAGTATATGACCCTTGTTTGAGG
1 AACCCTGATAAGTATATGACCCTTGTTTGAGG
47769133 AACCCTGATAAGTATATGACCCTTGTTTGAGG
1 AACCCTGATAAGTATATGACCCTTGTTTGAGG
* * * *
47769165 AACCTTGATAAGTATATAACCCTTGTTTAAAG
1 AACCCTGATAAGTATATGACCCTTGTTTGAGG
47769197 AACCCTGATAA
1 AACCCTGATAA
47769208 AATATATAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (32 bp):
AACCCTGATAAGTATATGACCCTTGTTTGAGG
Found at i:47774889 original size:23 final size:23
Alignment explanation
Indices: 47774853--47774896 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
47774843 AATTAACCCC
**
47774853 TTTAAAATTTTAAAAAATATATA
1 TTTAAAATCATAAAAAATATATA
*
47774876 TTTAAAATCATAAAAATTATA
1 TTTAAAATCATAAAAAATATA
47774897 AAAAAAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTAAAATCATAAAAAATATATA
Found at i:47776974 original size:9 final size:9
Alignment explanation
Indices: 47776960--47776990 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
47776950 TTTTAAAGTG
47776960 TAGTCCAAT
1 TAGTCCAAT
47776969 TAGTCCAAT
1 TAGTCCAAT
47776978 TAGTCCAAT
1 TAGTCCAAT
47776987 TAGT
1 TAGT
47776991 TTACTCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (9 bp):
TAGTCCAAT
Found at i:47777292 original size:18 final size:17
Alignment explanation
Indices: 47777259--47777301 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
47777249 TTTTTAAGTT
*
47777259 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
47777276 TATAATTTTTATATATTA
1 TATAATTTTT-TATATTA
*
47777294 TTTAATTT
1 TATAATTT
47777302 ATAACACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:47777444 original size:7 final size:7
Alignment explanation
Indices: 47777432--47777463 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
47777422 AAAACTATAA
47777432 AAATATT
1 AAATATT
47777439 AAATATT
1 AAATATT
47777446 AAATATT
1 AAATATT
47777453 AAATATT
1 AAATATT
47777460 AAAT
1 AAAT
47777464 TAAAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATATT
Found at i:47783347 original size:57 final size:57
Alignment explanation
Indices: 47783259--47783374 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
47783249 ATATCGAATC
*
47783259 TTCCATGCTAAGCTAAAAGAAAAGAAAAATCATTACAATTAATTAAATTAATTAATT
1 TTCCATGCAAAGCTAAAAGAAAAGAAAAATCATTACAATTAATTAAATTAATTAATT
47783316 TTCCATGCAAAGCTAAAAGAAAAGAAAAATCATTACAATTAATTAAATTAATTAATT
1 TTCCATGCAAAGCTAAAAGAAAAGAAAAATCATTACAATTAATTAAATTAATTAATT
47783373 TT
1 TT
47783375 ATCTTCCAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (57 bp):
TTCCATGCAAAGCTAAAAGAAAAGAAAAATCATTACAATTAATTAAATTAATTAATT
Found at i:47788690 original size:32 final size:32
Alignment explanation
Indices: 47788646--47788727 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
47788636 CCTGAAAAGT
* *
47788646 TTTTAAA-A-CCCAAGAATCTCGGTCCTCATG
1 TTTTAAATATCCCAAGAATCGCCGTCCTCATG
* * *
47788676 TTTTAGATATCCCAAGAATCGCCGTCCTTATT
1 TTTTAAATATCCCAAGAATCGCCGTCCTCATG
*
47788708 TTTTAAATGTCCCAAGAATC
1 TTTTAAATATCCCAAGAATC
47788728 CCGAAGTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 6 0.14
31 1 0.02
32 36 0.84
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (32 bp):
TTTTAAATATCCCAAGAATCGCCGTCCTCATG
Found at i:47794109 original size:20 final size:20
Alignment explanation
Indices: 47794086--47794125 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47794076 CCTTTCATAT
*
47794086 AGTCACGAACCTTTCCATTA
1 AGTCACGAACCGTTCCATTA
**
47794106 AGTCACTTACCGTTCCATTA
1 AGTCACGAACCGTTCCATTA
47794126 TTTTTCTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTCACGAACCGTTCCATTA
Found at i:47796734 original size:61 final size:58
Alignment explanation
Indices: 47796647--47796778 Score: 176
Period size: 61 Copynumber: 2.2 Consensus size: 58
47796637 TCTAAAAATA
* * **
47796647 ATATTATTTTAAT-AGTTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAACTATT
1 ATATTAATTTAATAAATTTAATATTAAATTTAATCGAATATTTATC-T-T-GATAACTATT
* *
47796707 CTATTAATTTAATAAATTTAATATTAAATTTAATCGAATATTTATCTTGATAAGTATT
1 ATATTAATTTAATAAATTTAATATTAAATTTAATCGAATATTTATCTTGATAACTATT
47796765 ATATTAATTTAATA
1 ATATTAATTTAATA
47796779 TTAAAGTGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
58 22 0.34
59 1 0.02
60 12 0.19
61 29 0.45
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (58 bp):
ATATTAATTTAATAAATTTAATATTAAATTTAATCGAATATTTATCTTGATAACTATT
Found at i:47797552 original size:13 final size:13
Alignment explanation
Indices: 47797534--47797558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47797524 ATTATTAATA
47797534 TTATTTTGTGTGT
1 TTATTTTGTGTGT
47797547 TTATTTTGTGTG
1 TTATTTTGTGTG
47797559 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:47799260 original size:41 final size:41
Alignment explanation
Indices: 47799215--47799316 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
47799205 GCTTAGAGCT
*
47799215 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
* * * *
47799256 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
*
47799297 TAGTAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
47799317 TACTGAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.06
41 51 0.94
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
Found at i:47803370 original size:11 final size:9
Alignment explanation
Indices: 47803345--47803389 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
47803335 AACTAAAATC
47803345 TTGAGAGAA
1 TTGAGAGAA
47803354 TTGAGAGAA
1 TTGAGAGAA
* *
47803363 TTAAGAGAC
1 TTGAGAGAA
47803372 TTGAGAGAA
1 TTGAGAGAA
*
47803381 TTGATAGAA
1 TTGAGAGAA
47803390 ATGGATTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.24
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:47803751 original size:15 final size:16
Alignment explanation
Indices: 47803706--47803750 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
47803696 TTAACAACAA
* *
47803706 TTTTCAAATTATATAAT
1 TTTTCAAATT-TTTATT
47803723 TTTTCAAATTTTTATT
1 TTTTCAAATTTTTATT
*
47803739 TTTTGAAATTTT
1 TTTTCAAATTTT
47803751 AGAACTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTCAAATTTTTATT
Found at i:47803948 original size:27 final size:27
Alignment explanation
Indices: 47803917--47804012 Score: 75
Period size: 34 Copynumber: 3.2 Consensus size: 27
47803907 ATCAATTTTC
47803917 AATTTTTTCTAGAATTTTTTATTTTAT
1 AATTTTTTCTAGAATTTTTTATTTTAT
* *
47803944 AATTTATTTGTAGATATTTAATTTTAATTATTCT
1 AATTT-TTTCTAGA-A-TT--TTTT-ATT-TTAT
*
47803978 ATTCTTTTTCCTAGAATTTTTTATTTTAGT
1 AAT-TTTTT-CTAGAATTTTTTATTTTA-T
47804008 AATTT
1 AATTT
47804013 ATAATGAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
27 5 0.09
28 7 0.13
29 5 0.09
30 8 0.15
31 4 0.08
32 4 0.08
33 5 0.09
34 9 0.17
35 6 0.11
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (27 bp):
AATTTTTTCTAGAATTTTTTATTTTAT
Found at i:47809816 original size:57 final size:57
Alignment explanation
Indices: 47809746--47809859 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
47809736 GGGAAAGAAA
47809746 GGAGCATAAAAACATTAGAGCCCAACATTGTCGAAGTTGAAGAAGAGCTAGCTGGTG
1 GGAGCATAAAAACATTAGAGCCCAACATTGTCGAAGTTGAAGAAGAGCTAGCTGGTG
47809803 GGAGCATAAAAACATTAGAGCCCAACATTGTCGAAGTTGAAGAAGAGCTAGCTGGTG
1 GGAGCATAAAAACATTAGAGCCCAACATTGTCGAAGTTGAAGAAGAGCTAGCTGGTG
47809860 CTCAAGACTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (57 bp):
GGAGCATAAAAACATTAGAGCCCAACATTGTCGAAGTTGAAGAAGAGCTAGCTGGTG
Found at i:47813831 original size:16 final size:15
Alignment explanation
Indices: 47813804--47813837 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
47813794 ATAACTAAAA
*
47813804 TATAATTATATTTAT
1 TATAATTATATTAAT
47813819 TATAATATATATTAAT
1 TATAAT-TATATTAAT
47813835 TAT
1 TAT
47813838 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:47817944 original size:44 final size:44
Alignment explanation
Indices: 47817894--47817978 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
47817884 TAAGTTAATC
47817894 TTGCATTATCATTGTAAGGTAACTAATGAATTAATTATTAAATA
1 TTGCATTATCATTGTAAGGTAACTAATGAATTAATTATTAAATA
* *
47817938 TTGCATTATCGTTGTAGGGTAACTAATGAATTAATTATTAA
1 TTGCATTATCATTGTAAGGTAACTAATGAATTAATTATTAA
47817979 TTCGTGTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (44 bp):
TTGCATTATCATTGTAAGGTAACTAATGAATTAATTATTAAATA
Found at i:47830953 original size:81 final size:79
Alignment explanation
Indices: 47830750--47831012 Score: 262
Period size: 81 Copynumber: 3.3 Consensus size: 79
47830740 ATGAAAGTTA
* * *
47830750 TGGCAAAATATGAAAGGAAAGACTTTGTGGGGAAATATGAAAGAAAAGCCTTTGTGGCGAAATAT
1 TGGCAGAATATGAAAGAAAAGCCTTTGTGGGG-AATATGAAAGAAAAGCCTTTGTGGCG-AATAT
**
47830815 TTAA-GAAAATCATTTG
64 GAAAGGAAAA-CATTTG
* * * **** *
47830831 TGGTAAAATATGAAAGAAACGCCTTTGCAACGAATCTTGAAAGAAAAGCCTTTGTGGCGATATAT
1 TGGCAGAATATGAAAGAAAAGCCTTTGTGGGGAAT-ATGAAAGAAAAGCCTTTGTGGCGA-ATAT
*
47830896 GAAAGGAAAACCTTTG
64 GAAAGGAAAACATTTG
* *
47830912 TGACAGAATATGAAAGAAAAGCCTTTGTGGTGGAATATGAAAGAACAA-CCTTTGTGGCTAATCA
1 TGGCAGAATATGAAAGAAAAGCCTTTGTGG-GGAATATGAAAGAA-AAGCCTTTGTGGCGAAT-A
* *
47830976 TGAAAGAAAAACATTTA
63 TGAAAGGAAAACATTTG
47830993 TGGC-GAATCATGAAAGAAAA
1 TGGCAGAAT-ATGAAAGAAAA
47831013 ACCTGTGGTG
Statistics
Matches: 149, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
80 10 0.07
81 128 0.86
82 11 0.07
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (79 bp):
TGGCAGAATATGAAAGAAAAGCCTTTGTGGGGAATATGAAAGAAAAGCCTTTGTGGCGAATATGA
AAGGAAAACATTTG
Found at i:47831009 original size:27 final size:26
Alignment explanation
Indices: 47830756--47831016 Score: 209
Period size: 27 Copynumber: 9.7 Consensus size: 26
47830746 GTTATGGCAA
* *
47830756 AATATGAAAGGAAAGA-CTTTGTGGGG
1 AATATGAAA-GAAAAACCTTTGTGGCG
*
47830782 AAATATGAAAGAAAAGCCTTTGTGGCG
1 -AATATGAAAGAAAAACCTTTGTGGCG
** * * **
47830809 AAATATTTAAGAAAATCATTTGTGGTAA
1 -AATATGAAAGAAAAACCTTTGTGG-CG
** ***
47830837 AATATGAAAGAAACGCCTTTGCAACG
1 AATATGAAAGAAAAACCTTTGTGGCG
* *
47830863 AATCTTGAAAGAAAAGCCTTTGTGGCG
1 AAT-ATGAAAGAAAAACCTTTGTGGCG
* *
47830890 ATATATGAAAGGAAAACCTTTGTGACAG
1 A-ATATGAAAGAAAAACCTTTGTGGC-G
* *
47830918 AATATGAAAGAAAAGCCTTTGTGGTGG
1 AATATGAAAGAAAAACCTTTGTGG-CG
* *
47830945 AATATGAAAGAACAACCTTTGTGGCT
1 AATATGAAAGAAAAACCTTTGTGGCG
* *
47830971 AATCATGAAAGAAAAACATTTATGGCG
1 AAT-ATGAAAGAAAAACCTTTGTGGCG
47830998 AATCATGAAAGAAAAACCT
1 AAT-ATGAAAGAAAAACCT
47831017 GTGGTGAATT
Statistics
Matches: 186, Mismatches: 41, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
26 10 0.05
27 172 0.92
28 4 0.02
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (26 bp):
AATATGAAAGAAAAACCTTTGTGGCG
Found at i:47834708 original size:50 final size:51
Alignment explanation
Indices: 47834631--47834737 Score: 173
Period size: 50 Copynumber: 2.1 Consensus size: 51
47834621 AGCGAGCATG
* *
47834631 GAAAA-GGAAATGAAAGGTATGTGTTCAAATGAACTATGTCATGAAATCAT
1 GAAAAGGGAAAGGAAAGGTATGTATTCAAATGAACTATGTCATGAAATCAT
*
47834681 -AAAAGGGAAAGGAAAGGTATGTATTCAAATGAACTATGTCATGAAATTAT
1 GAAAAGGGAAAGGAAAGGTATGTATTCAAATGAACTATGTCATGAAATCAT
47834731 GAAAAGG
1 GAAAAGG
47834738 ACTGAAATGG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
49 4 0.08
50 42 0.81
51 6 0.12
ACGTcount: A:0.46, C:0.07, G:0.23, T:0.24
Consensus pattern (51 bp):
GAAAAGGGAAAGGAAAGGTATGTATTCAAATGAACTATGTCATGAAATCAT
Found at i:47840050 original size:27 final size:28
Alignment explanation
Indices: 47839879--47840052 Score: 103
Period size: 27 Copynumber: 6.4 Consensus size: 28
47839869 GAAAAAATGG
* * * * *
47839879 AAGCCTTTCTGGCAACCTATGTGATG-G
1 AAGCCTTTGTGGCAATCTAAGAGATGAA
* *
47839906 AAGCCTTTGTGGCAATGTAAGAGATG-G
1 AAGCCTTTGTGGCAATCTAAGAGATGAA
** *
47839933 AAGCCTTTGTGGTGACCTAAGAGATG-A
1 AAGCCTTTGTGGCAATCTAAGAGATGAA
* * * * *
47839960 AA-TCTTTTTGGGAGATCTAAAAGAAG-A
1 AAGCCTTTGTGGCA-ATCTAAGAGATGAA
* *
47839987 AAGCCTTTGTGGCAATTTAAGAGATGTA
1 AAGCCTTTGTGGCAATCTAAGAGATGAA
* *
47840015 AA-CCCTTGTTGCGAA-CTAAGAGAT-AA
1 AAGCCTTTGTGGC-AATCTAAGAGATGAA
47840041 AAGCCTTTGTGG
1 AAGCCTTTGTGG
47840053 AGAATTTGAA
Statistics
Matches: 113, Mismatches: 29, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
26 10 0.09
27 90 0.80
28 13 0.12
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (28 bp):
AAGCCTTTGTGGCAATCTAAGAGATGAA
Found at i:47850715 original size:50 final size:50
Alignment explanation
Indices: 47850608--47850899 Score: 227
Period size: 50 Copynumber: 5.7 Consensus size: 50
47850598 GAGGATAAGA
* * * * *
47850608 TCCCATGTAAGACCATGTTTGGGACATGACATTTGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAAAGG
* * *
47850664 TCTCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAGATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAAAGG
* ** *
47850714 TCCCATGTAAGACCATGTCTGGGATATGG-AGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCAAGATGAAAGG
** * * * *
47850764 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAA-C
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGA-AAGG
* * *
47850814 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAG-T-AACA--
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCAAGATGAA-AGG
* * *
47850863 TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
47850900 TGTTATATTC
Statistics
Matches: 193, Mismatches: 37, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
49 33 0.17
50 120 0.62
51 3 0.02
52 2 0.01
53 2 0.01
56 33 0.17
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAAAGG
Found at i:47850782 original size:100 final size:100
Alignment explanation
Indices: 47850656--47850850 Score: 268
Period size: 100 Copynumber: 1.9 Consensus size: 100
47850646 CATTGAGATT
* * * * *
47850656 ATGAGAGGTCTCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAGATGA-AAGGTCCCAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCAAGATGAGAA-CTCCCAT
*
47850720 GTAAGACCATGTCTGGGATATGG-AGTTGGCACTGAG
65 GTAAGACCATATCTGGGATATGGCA-TTGGCACTGAG
* * * *
47850756 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCAAGATGAGAACTCCCATG
47850821 TAAGACCATATCTGGGATATGGCATTGGCA
66 TAAGACCATATCTGGGATATGGCATTGGCA
47850851 GTACAAGTAA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
100 80 0.96
101 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCAAGATGAGAACTCCCATG
TAAGACCATATCTGGGATATGGCATTGGCACTGAG
Found at i:47858470 original size:7 final size:7
Alignment explanation
Indices: 47858460--47858490 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
47858450 TCTAAACTTA
47858460 AAACCCT
1 AAACCCT
47858467 AAACCCT
1 AAACCCT
47858474 AAACCCT
1 AAACCCT
47858481 AAACCCT
1 AAACCCT
47858488 AAA
1 AAA
47858491 TTTATCTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:47861815 original size:36 final size:36
Alignment explanation
Indices: 47861768--47861839 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
47861758 ACTTTTATCT
*
47861768 TTAAGATATTTTGTCTCCTCGAACCCTTGTAGGGAA
1 TTAAGATATTTTGTCTCCTCGAACCCTTGTACGGAA
47861804 TTAAGATATTTTGTCTCCTCGAACCCTTGTACGGAA
1 TTAAGATATTTTGTCTCCTCGAACCCTTGTACGGAA
47861840 ACACAAAAAT
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:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (36 bp):
TTAAGATATTTTGTCTCCTCGAACCCTTGTACGGAA
Found at i:47863601 original size:57 final size:57
Alignment explanation
Indices: 47863540--47863655 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 57
47863530 ATAGAAATGG
* *
47863540 TGAAAATAGAGAAATGGAATCATTTGGAAATGATTATAGTTTTCTCCAAAATGAAAA
1 TGAAAATAGAGAAATGGAATCATTTGGAAATCAATATAGTTTTCTCCAAAATGAAAA
* * * *
47863597 TGAAAATGGAGAAATGGAGTCATTTGGAAATCAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATAGAGAAATGGAATCATTTGGAAATCAATATAGTTTTCTCCAAAATGAAAA
47863654 TG
1 TG
47863656 GCCTAAAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (57 bp):
TGAAAATAGAGAAATGGAATCATTTGGAAATCAATATAGTTTTCTCCAAAATGAAAA
Found at i:47872711 original size:14 final size:15
Alignment explanation
Indices: 47872683--47872713 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47872673 TAAAGACTCC
47872683 TTTTAGTTATGTTAT
1 TTTTAGTTATGTTAT
47872698 TTTTAGTTAT-TTAT
1 TTTTAGTTATGTTAT
47872712 TT
1 TT
47872714 ATAAAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (15 bp):
TTTTAGTTATGTTAT
Found at i:47873180 original size:11 final size:11
Alignment explanation
Indices: 47873164--47873189 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
47873154 CTTTTTCCTT
47873164 TTTAGAATAGA
1 TTTAGAATAGA
47873175 TTTAGAATAGA
1 TTTAGAATAGA
47873186 TTTA
1 TTTA
47873190 ATTTTTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (11 bp):
TTTAGAATAGA
Found at i:47880254 original size:12 final size:14
Alignment explanation
Indices: 47880220--47880256 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
47880210 AAGGCATTTT
47880220 TGGCACACATGGTC
1 TGGCACACATGGTC
47880234 TGGCACACATGGTC
1 TGGCACACATGGTC
*
47880248 TGCCACACA
1 TGGCACACA
47880257 GTCGTGTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.19
Consensus pattern (14 bp):
TGGCACACATGGTC
Found at i:47886180 original size:36 final size:38
Alignment explanation
Indices: 47886117--47886190 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
47886107 AATAGAGTTC
* *
47886117 TGTGAAGGGTTCAAAAAAAACATTCACATCAATGCCAT
1 TGTGAAGGGGTCAAAAAAAACATTCACAACAATGCCAT
47886155 TGTGAAGGGGTCAAAAAAAA-A-TCACAACAATGCCAT
1 TGTGAAGGGGTCAAAAAAAACATTCACAACAATGCCAT
47886191 ACATGAAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 14 0.41
37 1 0.03
38 19 0.56
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.20
Consensus pattern (38 bp):
TGTGAAGGGGTCAAAAAAAACATTCACAACAATGCCAT
Found at i:47888775 original size:88 final size:88
Alignment explanation
Indices: 47888662--47889323 Score: 671
Period size: 88 Copynumber: 7.5 Consensus size: 88
47888652 TTGAAGAAGG
* * * *
47888662 TTGTAGATCTTGTCTTCCTATACTAGCAGTGAAGTAGATCGAAAACACTAGCCTTATCTCCCAGA
1 TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCCCTGA
47888727 GCAGCAGTGGAGTAAGTTAAAGA
66 GCAGCAGTGGAGTAAGTTAAAGA
* * * * * * *
47888750 ATGTAGATCTTTTCTTCCTGTACTAGCAGTGAAGCAGATCGAAAACTCTAGCCTTATCTACCTGA
1 TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCCCTGA
* * *
47888815 GTAGCAGTGGAGTAGGTTGAAGA
66 GCAGCAGTGGAGTAAGTTAAAGA
* * * ** * **
47888838 TTGCAGATCTTGTCTTCCAGTATTGGCAACGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGA
1 TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCCCTGA
** * * *
47888903 GTTTGCAGTGGAGCAGACTGAAAG-
66 G-CAGCAGTGGAGTA-AGTTAAAGA
* * * * ** * * ** *
47888927 TAGCAAATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGACACTAGCCTTGCCTCCCTCA
1 TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCCCTGA
*** * * *
47888992 GTTTCCAGCGGAGTAGACTGAAAG-
66 G-CAGCAGTGGAGTA-AGTTAAAGA
* * * *
47889016 TAGCAGATCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCCCTGA
1 TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCCCTGA
* *
47889081 GCAGTAGTGGAGTAGGTTAAAGA
66 GCAGCAGTGGAGTAAGTTAAAGA
* ** * *
47889104 TTGTAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATCAAAAACACCAGCCTTATCTCCCTAA
1 TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCCCTGA
* * * *
47889169 GCAGCAATGGAGTATGTTGAATA
66 GCAGCAGTGGAGTAAGTTAAAGA
* * * * *
47889192 TTGTAGATCTTGTCTTCTTGTACTGGCAATGAAGCAAATCAAAAACACCAGCCTTATCTCCCTGA
1 TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCCCTGA
* *
47889257 GCAGCAGTGGAGTAGGTTGAAGA
66 GCAGCAGTGGAGTAAGTTAAAGA
*
47889280 TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAA
1 TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAA
47889324 GCACATAGAA
Statistics
Matches: 488, Mismatches: 83, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
87 5 0.01
88 332 0.68
89 147 0.30
90 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (88 bp):
TTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTCCCTGA
GCAGCAGTGGAGTAAGTTAAAGA
Found at i:47888822 original size:43 final size:43
Alignment explanation
Indices: 47888685--47888829 Score: 114
Period size: 43 Copynumber: 3.3 Consensus size: 43
47888675 CTTCCTATAC
* * *
47888685 TAGCAGTGAAGTAGATCGAAAACACTAGCCTTATCTCCCAGAG
1 TAGCAGTGAAGTAGATCGAAAACTCTAGCCTTATCTACCTGAG
* * * * * * * * *
47888728 CAGCAGTGGAGTA-AGT-TAAAGAATGTAGATCTTTTCTTCCTGTAC
1 TAGCAGTGAAGTAGA-TCGAAA-ACTCTAG-CCTTATCTACCTG-AG
*
47888773 TAGCAGTGAAGCAGATCGAAAACTCTAGCCTTATCTACCTGAG
1 TAGCAGTGAAGTAGATCGAAAACTCTAGCCTTATCTACCTGAG
*
47888816 TAGCAGTGGAGTAG
1 TAGCAGTGAAGTAG
47888830 GTTGAAGATT
Statistics
Matches: 73, Mismatches: 23, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
42 4 0.05
43 29 0.40
44 19 0.26
45 17 0.23
46 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (43 bp):
TAGCAGTGAAGTAGATCGAAAACTCTAGCCTTATCTACCTGAG
Found at i:47893200 original size:44 final size:44
Alignment explanation
Indices: 47893152--47893256 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 44
47893142 CATTCGCTCT
*
47893152 CCTGAGCATCAGTGGAGTAGGTTGAAGATTGTAAATCCTATCTC
1 CCTGAGCATCAGTGGAGTAGGTTGAAGATTATAAATCCTATCTC
* * ** * *
47893196 CCTGAGAAACAGTAAAGTAGGTTGAAGATTATAGATCCTGTCTC
1 CCTGAGCATCAGTGGAGTAGGTTGAAGATTATAAATCCTATCTC
*
47893240 CCTAAGCAGT-AGTGGAG
1 CCTGAGCA-TCAGTGGAG
47893257 AAGATAAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (44 bp):
CCTGAGCATCAGTGGAGTAGGTTGAAGATTATAAATCCTATCTC
Found at i:47893426 original size:132 final size:131
Alignment explanation
Indices: 47893187--47893664 Score: 688
Period size: 132 Copynumber: 3.6 Consensus size: 131
47893177 AGATTGTAAA
* * ** * *
47893187 TCCTATCTCCCTGAGAAACAGTAAAGTAGGTTGAAGATTATAGATCCTGTCTCCCTAAGCAGTAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAG
* * * * *
47893252 TGGAGAAGATAAAAAAAGGGGAATCTTATCTTCCCAAGGTAGTAGAGAAGCAGATTTAAGCCACC
66 TGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGGTAGTAG-GAAGCAGATTTAAGCCACC
47893317 AG
130 AG
* *
47893319 TCCTATCTACCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTACATCCTGTCTCCCTAAGCAGTAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAG
*
47893384 TGGAGCAGATCAAAGATGGTGAAT-TTGATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCAC
66 TGGAGCAGATCAAAGATGGTGAATCTT-ATCTTCCCAAGGTAGTA-GGAAGCAGATTTAAGCCAC
47893448 CAG
129 CAG
* * * *
47893451 TTCTATCTCCCTGAGCAGCAGTGGAGTAGCTTGAAGATTGTAGATCCTGCCTCCCTAAGCAGTAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAG
* * *
47893516 TGAAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGAAAGCAGATTTAAGCCACT
66 TGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGGTAGTAGG-AAGCAGATTTAAGCCACC
47893581 AG
130 AG
* * *
47893583 TCCTATCTCCCGGAGCAGCAGTGGAGTAGGTCAAAGATTGTAGATCCTGTCTCCCTAAACAGTAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAG
*
47893648 TGGAGCAGATCGAAGAT
66 TGGAGCAGATCAAAGAT
47893665 AGCAAATCCT
Statistics
Matches: 308, Mismatches: 34, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
131 4 0.01
132 301 0.98
133 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (131 bp):
TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAG
TGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGGTAGTAGGAAGCAGATTTAAGCCACCA
G
Found at i:47893866 original size:51 final size:51
Alignment explanation
Indices: 47893806--47893902 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
47893796 TGAAAACAGC
* *
47893806 GAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTAAAGGTAGA
1 GAATCTTATTTCCCTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGA
* *
47893857 GAATCTTATTTCCTTGGCATTACAGTGGAATAGATTAAAGCTAAAG
1 GAATCTTATTTCCCTGGCATTACAGTGGAACAGATTAAAGCTAAAG
47893903 TGGAGCGGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (51 bp):
GAATCTTATTTCCCTGGCATTACAGTGGAACAGATTAAAGCTAAAGGTAGA
Found at i:47893952 original size:72 final size:72
Alignment explanation
Indices: 47893829--47893974 Score: 204
Period size: 72 Copynumber: 2.0 Consensus size: 72
47893819 CTGGCTTTGC
* * * *
47893829 AGTGGAACAGATTAAAGCTAAAGGTAGAGAATCTTATTTCCTTGGCATTACAGTGGAATAGATTA
1 AGTGGAACAGATTAAAGCTAAAGGCAGAGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTA
47893894 AAGCTAA
66 AAGCTAA
* * * *
47893901 AGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGG-AGTTACAGTGGAACAGATT
1 AGTGGAACAGATTAAAGCTAAAGGCAGAGAATCCTATCTCCTTGGCA-TTACAGTGGAACAGATT
47893965 AAAGCTAA
65 AAAGCTAA
47893973 AG
1 AG
47893975 GTAGGGAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
71 1 0.02
72 64 0.98
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (72 bp):
AGTGGAACAGATTAAAGCTAAAGGCAGAGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTA
AAGCTAA
Found at i:47894135 original size:51 final size:51
Alignment explanation
Indices: 47894059--47894159 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
47894049 GTTAAGACCG
* *
47894059 AAGGTAGCGAATTTTATTTCCCTGGCGTTGCAATGGAACAGATTAAAGCTA
1 AAGGTAGCGAATCTTATTTCCCTGGCGTTGCAATGAAACAGATTAAAGCTA
* *
47894110 AAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCT
1 AAGGTAGCGAATCTTATTTCCCTGGCGTTGCAATGAAACAGATTAAAGCT
47894160 GAACTGCGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (51 bp):
AAGGTAGCGAATCTTATTTCCCTGGCGTTGCAATGAAACAGATTAAAGCTA
Found at i:47894152 original size:261 final size:261
Alignment explanation
Indices: 47893669--47894194 Score: 714
Period size: 261 Copynumber: 2.0 Consensus size: 261
47893659 GAAGATAGCA
* *
47893669 AATCCTATCTCCTAGGCATTATAGTAGAACAGATTAAAGCTTAAGGTAGCGAATCTTGTTTCATT
1 AATCCTATCTCCTAGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCATT
* * ** * * *
47893734 GGTGTTGCAATGGAGTAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGTGTTAAAACTGA
66 GGTATAGCAACAGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCGTTAAAACCGA
* *
47893799 AAACAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTAAAGGTAGAGAATCTT
131 AAACAGCGAATCTTATTTCCCTGGCGTTGCAATGGAACAGATTAAAGCTAAAGGTAGAGAATCTT
* * * * *
47893864 ATTTCCTTGGCATTACAGTGGAATAGATTAAAGCTAAAGTG-GAGCGGATTAAAGCTGAAGGCAG
196 ATTTCCCTGGCATTACAATGAAATAGATTAAAGCTAAACTGCGA-CGGATTAAAGCTAAAGGCAG
47893928 CG
260 CG
* * * *
47893930 AATCCTATCTCCTTGG-AGTTACAGTGGAACAGATTAAAGCTAAAGGTAGGGAATCTTGTTTCCT
1 AATCCTATCTCCTAGGCA-TTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCAT
* * * *
47893994 TGGTATAGTAGCAGAGCAGATTAAAGCTGAAGGTAGCGAATCTTATCTCCCTGGCGTTAAGACCG
65 TGGTATAGCAACAGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCGTTAAAACCG
*** * *
47894059 AAGGTAGCGAATTTTATTTCCCTGGCGTTGCAATGGAACAGATTAAAGCTAAAGGTAGCGAATCT
130 AAAACAGCGAATCTTATTTCCCTGGCGTTGCAATGGAACAGATTAAAGCTAAAGGTAGAGAATCT
* * * * *
47894124 TGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAACTGCGACGGATTAAAGCTAAAGGTAG
195 TATTTCCCTGGCATTACAATGAAATAGATTAAAGCTAAACTGCGACGGATTAAAGCTAAAGGCAG
47894189 CG
260 CG
47894191 AATC
1 AATC
47894195 TTGTTTCCCT
Statistics
Matches: 229, Mismatches: 34, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
260 1 0.00
261 226 0.99
262 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (261 bp):
AATCCTATCTCCTAGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCATT
GGTATAGCAACAGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCGTTAAAACCGA
AAACAGCGAATCTTATTTCCCTGGCGTTGCAATGGAACAGATTAAAGCTAAAGGTAGAGAATCTT
ATTTCCCTGGCATTACAATGAAATAGATTAAAGCTAAACTGCGACGGATTAAAGCTAAAGGCAGC
G
Found at i:47894663 original size:72 final size:72
Alignment explanation
Indices: 47894099--47894626 Score: 984
Period size: 72 Copynumber: 7.3 Consensus size: 72
47894089 CAATGGAACA
47894099 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
1 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
47894164 TGCGACG
66 TGCGACG
47894171 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
1 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
47894236 TGCGACG
66 TGCGACG
47894243 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
1 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
47894308 TGCGACG
66 TGCGACG
47894315 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
1 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
47894380 TGCGACG
66 TGCGACG
47894387 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
1 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
47894452 TGCGACG
66 TGCGACG
47894459 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
1 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
47894524 TGCGACG
66 TGCGACG
* * * * * *
47894531 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGTAGTGGAATAGATTAAAGCTGAAG
1 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
*
47894596 TGCGGCG
66 TGCGACG
*
47894603 GATTAAAGCTAAAGGCAGCGAATC
1 GATTAAAGCTAAAGGTAGCGAATC
47894627 CTATCTCCTT
Statistics
Matches: 448, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 448 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (72 bp):
GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGAAATAGATTAAAGCTGAAC
TGCGACG
Found at i:47894683 original size:123 final size:124
Alignment explanation
Indices: 47894531--47894840 Score: 455
Period size: 122 Copynumber: 2.5 Consensus size: 124
47894521 AACTGCGACG
47894531 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGTAGTGGAATAGATTAAAGCTGAAG
1 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGTAGTGGAATAGATTAAAGCTGAAG
** * * * * *
47894596 TGC-GGCGGATTAAAGCTAAAGGCAGCGAATCCTATCTCCTTGGAGTTACGGTGGAACA
66 AACAGACGGATTAAAGCCAAAGGAAGCGAATCCTATCTCCTTGGAGTTACAGTGAAACA
*
47894654 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGTAGTGGAATAGATTAAAGCT-AA-
1 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGTAGTGGAATAGATTAAAGCTGAAG
* * *
47894717 AACATACGGATTAAAGCCAAAGGAAGCGAATGCTATCTCCTTGGTGTTACAGTGAAACA
66 AACAGACGGATTAAAGCCAAAGGAAGCGAATCCTATCTCCTTGGAGTTACAGTGAAACA
* * * * *
47894776 GATTAAAGCTAAAGGTAGCGAATCTTGTTTTCCTAACATTGCAGCGGAGTAGATTAAAGCTGAAG
1 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGTAGTGGAATAGATTAAAGCTGAAG
47894841 GCAACGAATC
Statistics
Matches: 167, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
121 1 0.01
122 104 0.62
123 62 0.37
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (124 bp):
GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGTAGTGGAATAGATTAAAGCTGAAG
AACAGACGGATTAAAGCCAAAGGAAGCGAATCCTATCTCCTTGGAGTTACAGTGAAACA
Found at i:47894701 original size:51 final size:50
Alignment explanation
Indices: 47894603--47894717 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 50
47894593 AAGTGCGGCG
*
47894603 GATTAAAGCTAAAGGCAGCGAATCCTATCTCCTTGGAGTTACGGTGGAACA
1 GATTAAAGCTAAAGGCAGCGAATCCTATCTCCCTGGAGTTAC-GTGGAACA
* * * * * *
47894654 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGTA-GTGGAATA
1 GATTAAAGCTAAAGGCAGCGAATCCTATCTCCCTGG-AGT-TACGTGGAACA
47894705 GATTAAAGCTAAA
1 GATTAAAGCTAAA
47894718 ACATACGGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 51 0.93
52 2 0.04
53 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (50 bp):
GATTAAAGCTAAAGGCAGCGAATCCTATCTCCCTGGAGTTACGTGGAACA
Found at i:47895082 original size:44 final size:44
Alignment explanation
Indices: 47894928--47895094 Score: 158
Period size: 45 Copynumber: 3.8 Consensus size: 44
47894918 AGATGGAAAA
* * * *
47894928 TCTTATCTCCCTGAAGTTGCAGTGAATCAGATTAAAGCCAACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGAAGCAGATTGAAG-AAACAAG
* * *
47894973 TCTTATCTCCCTAAAGTTGCAGAGGAGCAGACTGACTA-AAACCAA-
1 TCTTATCTCCCTAAAGTTGCAGTGAAGCAGATTGA--AGAAA-CAAG
* * ** *
47895018 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAG
1 TCTTATCTCCCTAAAGTTGCAGTGAAGCAGATTGAAGAAACAAG
* *
47895062 TCCTATCTCCCTAAAGTTGCAGTGAAGCGGATT
1 TCTTATCTCCCTAAAGTTGCAGTGAAGCAGATT
47895095 AAAATGATGG
Statistics
Matches: 100, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
43 3 0.03
44 30 0.30
45 63 0.63
46 3 0.03
47 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGTGAAGCAGATTGAAGAAACAAG
Found at i:47895113 original size:44 final size:45
Alignment explanation
Indices: 47894927--47895126 Score: 151
Period size: 45 Copynumber: 4.5 Consensus size: 45
47894917 AAGATGGAAA
* *** *
47894927 ATCTTATCTCCCTGAAGTTGCAGTGAATCAGATTAAAGCCAACAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA-ATGACTAG
* * * * *
47894973 -TCTTATCTCCCTAAAGTTGCAGAGGAGCAGACTGACTAAA--ACCA-
1 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGA-TTA--AAATGACTAG
* * * *
47895017 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAATGACTAG
* * * *
47895062 -TCCTATCTCCCTAAAGTTGCAGTGAAGCGGATTAAAATGA-TGG
1 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAATGACTAG
*
47895105 ATCTTATCTCTCTGAAGTTGCA
1 ATCTTATCTCCCTGAAGTTGCA
47895127 ATAGAGCAGA
Statistics
Matches: 122, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 55 0.45
45 59 0.48
46 2 0.02
48 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAATGACTAG
Found at i:47895359 original size:44 final size:43
Alignment explanation
Indices: 47895267--47895392 Score: 103
Period size: 44 Copynumber: 2.9 Consensus size: 43
47895257 ACACCATACC
* * *** ** *
47895267 AATCTTATCTCCCTGAAGGTGTAGTGGAGCAAATTGAAGCTATT
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATT-AAAATATG
47895311 AATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATGATG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAAT-ATG
* * *
47895355 AATCCTATAC-CTCTGAAGTTGCAGTAGG-TTGGATTAAA
1 AATCCTAT-CTCCCTGAAGTTGTAGT-GGAGTGGATTAAA
47895393 TCTACCATAA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
43 3 0.04
44 62 0.91
45 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (43 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATATG
Found at i:47895475 original size:44 final size:44
Alignment explanation
Indices: 47895427--47895527 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
47895417 TTGAAGTTGT
* * *
47895427 AGTGGAGCAGGTTGAGGATACCAATCTTATCTCCCTAAAGCTGC
1 AGTGGAGCAGATTGAAGATACCAATCCTATCTCCCTAAAGCTGC
* * ** *
47895471 AGTGGATCAGATTGAAGCTATTAATCCTATCTCCCTAAAGTTGC
1 AGTGGAGCAGATTGAAGATACCAATCCTATCTCCCTAAAGCTGC
47895515 AGTGGAGCAGATT
1 AGTGGAGCAGATT
47895528 AAAACGATGA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
AGTGGAGCAGATTGAAGATACCAATCCTATCTCCCTAAAGCTGC
Found at i:47895541 original size:44 final size:44
Alignment explanation
Indices: 47895449--47895561 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 44
47895439 TGAGGATACC
* * * * * * *
47895449 AATCTTATCTCCCTAAAGCTGCAGTGGATCAGATTGAAGCTATT
1 AATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACGATG
47895493 AATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACGATG
1 AATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACGATG
* *
47895537 AATCCTATAC-CTCTGAAGTTGCAGT
1 AATCCTAT-CTCCCTAAAGTTGCAGT
47895562 AGGTCGAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 58 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACGATG
Found at i:47895575 original size:182 final size:182
Alignment explanation
Indices: 47895262--47895617 Score: 559
Period size: 182 Copynumber: 2.0 Consensus size: 182
47895252 AGATCACACC
* * * *
47895262 ATACCAATCTTATCTCCCTGAAGGTGTAGTGGAGCAAATTGAAGCTATTAATCCTATCTCCCTGA
1 ATACCAATCTTATCTCCCTAAAGCTGCAGTGGAGCAAATTGAAGCTATTAATCCTATCTCCCTAA
* ** * * *
47895327 AGTTGTAGTGGAGTGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATTAA
66 AGTTGCAGTGGAGCAGATTAAAACGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAA
** * *
47895392 ATCTACCATAACAAGTCTTATCTCTTTGAAGTTGTAGTGGAGCAGGTTGAGG
131 ATCTACCATAACAAGTCTTATCTCCCTAAAGTCGTAGTGGAGCAGGTTGAGG
* *
47895444 ATACCAATCTTATCTCCCTAAAGCTGCAGTGGATCAGATTGAAGCTATTAATCCTATCTCCCTAA
1 ATACCAATCTTATCTCCCTAAAGCTGCAGTGGAGCAAATTGAAGCTATTAATCCTATCTCCCTAA
47895509 AGTTGCAGTGGAGCAGATTAAAACGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAA
66 AGTTGCAGTGGAGCAGATTAAAACGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAA
*
47895574 ATCTACCATAACGAGTCTTATCTCCCTAAAGTCGTAGTGGAGCA
131 ATCTACCATAACAAGTCTTATCTCCCTAAAGTCGTAGTGGAGCA
47895618 AACTGTAGAT
Statistics
Matches: 157, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
182 157 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (182 bp):
ATACCAATCTTATCTCCCTAAAGCTGCAGTGGAGCAAATTGAAGCTATTAATCCTATCTCCCTAA
AGTTGCAGTGGAGCAGATTAAAACGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAA
ATCTACCATAACAAGTCTTATCTCCCTAAAGTCGTAGTGGAGCAGGTTGAGG
Found at i:47895788 original size:27 final size:27
Alignment explanation
Indices: 47895750--47895821 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
47895740 CATCCCCCTG
*
47895750 AAGTGGAGTGGAGTGGATCGAAGCAAC
1 AAGTGCAGTGGAGTGGATCGAAGCAAC
*
47895777 AAGTGCAGTGGAGAGGATCGAAGCAAC
1 AAGTGCAGTGGAGTGGATCGAAGCAAC
* *
47895804 AAGACGCAGTGGATTGGA
1 AAG-TGCAGTGGAGTGGA
47895822 AGGAGGCTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 28 0.72
28 11 0.28
ACGTcount: A:0.35, C:0.12, G:0.39, T:0.14
Consensus pattern (27 bp):
AAGTGCAGTGGAGTGGATCGAAGCAAC
Found at i:47900099 original size:85 final size:85
Alignment explanation
Indices: 47899956--47900126 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
47899946 TTTGATTTTG
47899956 GCCTTCAAATTTTGTTTAAGTTTCAATTTAATCCTTTATTTGTTATTTTAGTTATTCTATTTCAT
1 GCCTTCAAATTTTGTTTAAGTTTCAATTTAATCCTTTATTTGTTATTTTAGTTATTCTATTTCAT
47900021 TTGTTTAAGTTTCATTTGTC
66 TTGTTTAAGTTTCATTTGTC
47900041 GCCTTCAAATTTTGTTTAAGTTTCAATTTAATCCTTTATTTGTTATTTTAGTTATTCTATTTCAT
1 GCCTTCAAATTTTGTTTAAGTTTCAATTTAATCCTTTATTTGTTATTTTAGTTATTCTATTTCAT
47900106 TTGTTTAAGTTTCATTTGTC
66 TTGTTTAAGTTTCATTTGTC
47900126 G
1 G
47900127 AAACCATTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.57
Consensus pattern (85 bp):
GCCTTCAAATTTTGTTTAAGTTTCAATTTAATCCTTTATTTGTTATTTTAGTTATTCTATTTCAT
TTGTTTAAGTTTCATTTGTC
Found at i:47903298 original size:97 final size:98
Alignment explanation
Indices: 47903127--47903324 Score: 290
Period size: 97 Copynumber: 2.0 Consensus size: 98
47903117 GAGATAAGAC
* * *
47903127 CTGATGTGATATACTCTACTGTAACTCCAAAGAGATAATATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATATACTCTACTGTAACTCCAAAGAGATAAGATCCTTTATTTTAATCCGCTACACTG
** * *
47903192 TAATCTCAGGGAGATAAGATTTCTGGCTTCAAT
66 TAAGATCAGGGAGATAAGATTGCTAGCTTCAAT
* * *
47903225 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGAT-AGATCCTTTATTTTAATCCGCTACACTG
1 CTGATGCGATATACTCTACTGTAACTCCAAAGAGATAAGATCCTTTATTTTAATCCGCTACACTG
*
47903289 TAAGATCAGGGAGATAGGATTGCTAGCTTCAAT
66 TAAGATCAGGGAGATAAGATTGCTAGCTTCAAT
47903322 CTG
1 CTG
47903325 CTCCGCCGTA
Statistics
Matches: 89, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
97 57 0.64
98 32 0.36
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (98 bp):
CTGATGCGATATACTCTACTGTAACTCCAAAGAGATAAGATCCTTTATTTTAATCCGCTACACTG
TAAGATCAGGGAGATAAGATTGCTAGCTTCAAT
Found at i:47903398 original size:141 final size:141
Alignment explanation
Indices: 47903184--47903734 Score: 749
Period size: 141 Copynumber: 4.0 Consensus size: 141
47903174 TTTTAATCCG
*
47903184 CTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAA
1 CTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAA
* ** *
47903249 CTTCAGAGAGAT-AGATCCTTTATTTTAATCCGCTACACTGTAAGATCAGGGAGATAGGATTGCT
66 CTTCAGAGAGATAAGATCCTTTA-TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACT
*
47903313 AGCTTCAATCTG
130 AGCTTCAATCTA
*
47903325 CTCCGCCGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAA
1 CTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAA
47903390 CTTCAGAGAGATAAGATCCTTTATTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
66 CTTCAGAGAGATAAGATCCTTTATTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
*
47903455 GCTTCGATCTA
131 GCTTCAATCTA
** * * * *
47903466 CTCTACTGTAATTTCAAGGAGATAAGATTTCTGTCTTCAATCTAATGCGATCTACTCTACTGTAA
1 CTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAA
*
47903531 CTTCAGAGAGATAAGATCCTTTATTTAATCCGCTCCACTGTAATCTCAGGCAGATAGGATTACTA
66 CTTCAGAGAGATAAGATCCTTTATTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
47903596 GCTTCAATCTA
131 GCTTCAATCTA
* * *
47903607 CGT-CGCTGTAATCTCAGGGAGATTAGA----------C---CTGATGCGATCCACTCTACTGCA
1 C-TCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
**
47903658 ACTTCAGAGAGATAAGAT-CTATTACTTTAATCCGCTCCACTACAA-CTTCAGGGAGATAGGATT
65 ACTTCAGAGAGATAAGATCCT-TTA-TTTAATCCGCTCCACTGTAATC-TCAGGGAGATAGGATT
*
47903721 ATTAGCTTCAATCT
127 ACTAGCTTCAATCT
47903735 GCTTCCTTAC
Statistics
Matches: 376, Mismatches: 29, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
127 2 0.01
128 42 0.11
129 46 0.12
131 1 0.00
141 274 0.73
142 11 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (141 bp):
CTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAA
CTTCAGAGAGATAAGATCCTTTATTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTA
GCTTCAATCTA
Found at i:47903406 original size:54 final size:53
Alignment explanation
Indices: 47903338--47903547 Score: 138
Period size: 54 Copynumber: 4.3 Consensus size: 53
47903328 CGCCGTAATC
* *
47903338 TCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACT
1 TCAGAGAGATAAGATTTCTGGCTT-AATCTAATGCGATCTACTCTACTGTAACT
* * *
47903392 TCAGAGAGATAAGA--TC---CTTTATTTAATCCG--CT-C-C-ACTGTAA-T
1 TCAGAGAGATAAGATTTCTGGCTTAATCTAATGCGATCTACTCTACTGTAACT
* * * * *
47903434 CTCAGGGAGATAGGA--T-T-AC-T-AGCT--T-CGATCTACTCTACTGTAATT
1 -TCAGAGAGATAAGATTTCTGGCTTAATCTAATGCGATCTACTCTACTGTAACT
*
47903479 TCA-AGGAGATAAGATTTCTGTCTTCAATCTAATGCGATCTACTCTACTGTAACT
1 TCAGA-GAGATAAGATTTCTGGCTT-AATCTAATGCGATCTACTCTACTGTAACT
47903533 TCAGAGAGATAAGAT
1 TCAGAGAGATAAGAT
47903548 CCTTTATTTA
Statistics
Matches: 121, Mismatches: 14, Indels: 42
0.68 0.08 0.24
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 2 0.02
42 4 0.03
43 22 0.18
44 20 0.17
45 2 0.02
46 3 0.02
47 1 0.01
48 8 0.07
49 4 0.03
51 3 0.02
52 2 0.02
53 1 0.01
54 45 0.37
55 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (53 bp):
TCAGAGAGATAAGATTTCTGGCTTAATCTAATGCGATCTACTCTACTGTAACT
Found at i:47903444 original size:43 final size:44
Alignment explanation
Indices: 47903383--47903591 Score: 111
Period size: 43 Copynumber: 4.6 Consensus size: 44
47903373 GATCTACTCT
*
47903383 ACTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATTCCTTTATTTAATCCGCTCC
* * *** ** ** *
47903426 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATTCCTTTATTTAATCCGCTCC
* * * * *
47903470 ACTGTAATTTCAAGGAGATAAGATTTCTGTCTTCAATCTAATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGA-TTC---CTT-TATTTAATCCG--CT-C-C
*
47903523 TACTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATTCCTTTATTTAATCCGCTCC
* *
47903567 ACTGTAATCTCAGGCAGATAGGATT
1 ACTGTAATCTCAGGGAGATAAGATT
47903592 ACTAGCTTCA
Statistics
Matches: 117, Mismatches: 34, Indels: 29
0.65 0.19 0.16
Matches are distributed among these distances:
43 37 0.32
44 35 0.30
45 3 0.03
46 2 0.02
48 10 0.09
49 6 0.05
51 2 0.02
52 3 0.03
54 19 0.16
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATTCCTTTATTTAATCCGCTCC
Found at i:47903509 original size:44 final size:44
Alignment explanation
Indices: 47903374--47903509 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
47903364 ATCTGATGCG
* * * * *
47903374 ATCTACTCTACTGTAACTTC-AGAGAGATAAGA-TCCTTTATTTA
1 ATCTACTCTACTGTAATTTCAAG-GAGATAAGATTACTGTCTTCA
** * * * * *
47903417 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAG-CTTCG
1 ATCTACTCTACTGTAATTTCAAGGAGATAAGATTACT-GTCTTCA
*
47903461 ATCTACTCTACTGTAATTTCAAGGAGATAAGATTTCTGTCTTCA
1 ATCTACTCTACTGTAATTTCAAGGAGATAAGATTACTGTCTTCA
47903505 ATCTA
1 ATCTA
47903510 ATGCGATCTA
Statistics
Matches: 69, Mismatches: 20, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
43 24 0.35
44 45 0.65
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (44 bp):
ATCTACTCTACTGTAATTTCAAGGAGATAAGATTACTGTCTTCA
Found at i:47903944 original size:44 final size:43
Alignment explanation
Indices: 47903859--47903944 Score: 100
Period size: 44 Copynumber: 2.0 Consensus size: 43
47903849 TGTGGCTTAA
* * **
47903859 ATCTGTTTCCCTACTCCTGGGGAGATAAGATTCGCCGTCTTCG
1 ATCTGTTTCCCTACTCCTGGGGAGACAAGATCCGCAATCTTCG
* * *
47903902 ATCTGTTTCGCTACTGCTTTGGGAGACAAGATCCGCAATCTTC
1 ATCTGTTTCCCTACT-CCTGGGGAGACAAGATCCGCAATCTTC
47903945 AACCTATTCC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
43 14 0.40
44 21 0.60
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (43 bp):
ATCTGTTTCCCTACTCCTGGGGAGACAAGATCCGCAATCTTCG
Found at i:47904138 original size:87 final size:87
Alignment explanation
Indices: 47903989--47904256 Score: 385
Period size: 87 Copynumber: 3.1 Consensus size: 87
47903979 TGTAATCTTC
* * * * * *
47903989 GATCTGCTTCACTGTCGACGCAGAAGGGTAAGATCTGCTACCTTTAACCAGCTCCACCACAACCG
1 GATCTGCTTCGCTGTCAACGCAGAAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
*
47904054 ATGGAGGCAAAGCTTTGTTTTT
66 ATGGAGGCAAGGCTTTGTTTTT
* * *
47904076 GATCTGCTTCGCTGTTAACGCAGAAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACTG
1 GATCTGCTTCGCTGTCAACGCAGAAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
* *
47904141 ATGAAGGCAAGGCTTTGTTTCT
66 ATGGAGGCAAGGCTTTGTTTTT
* * *
47904163 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCG
1 GATCTGCTTCGCTGTCAACGCAGAAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
*
47904227 ATGGAGGCAAGGCTTTGTTTTC
66 ATGGAGGCAAGGCTTTGTTTTT
47904249 GATCTGCT
1 GATCTGCT
47904257 GATCTATTCT
Statistics
Matches: 160, Mismatches: 21, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
86 49 0.31
87 111 0.69
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (87 bp):
GATCTGCTTCGCTGTCAACGCAGAAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCG
ATGGAGGCAAGGCTTTGTTTTT
Found at i:47905484 original size:21 final size:20
Alignment explanation
Indices: 47905452--47905490 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47905442 TAAGCCTCTC
47905452 CATTTTACTTTTCATTTTTT
1 CATTTTACTTTTCATTTTTT
*
47905472 CATTTTTCATTTTCATTTT
1 CATTTTAC-TTTTCATTTT
47905491 CCATCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (20 bp):
CATTTTACTTTTCATTTTTT
Found at i:47905499 original size:21 final size:21
Alignment explanation
Indices: 47905450--47905499 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
47905440 CTTAAGCCTC
*
47905450 TCCATTTTAC-TTTTCATTTT
1 TCCATTTTTCATTTTCATTTT
*
47905470 TTCATTTTTCATTTTCA-TTT
1 TCCATTTTTCATTTTCATTTT
47905490 TCCATCTTTT
1 TCCAT-TTTT
47905500 TTTTGTCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (21 bp):
TCCATTTTTCATTTTCATTTT
Found at i:47905930 original size:19 final size:20
Alignment explanation
Indices: 47905893--47905929 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47905883 ATTGATTTCT
47905893 CTTTTTTGCTTTTGCTTTTG
1 CTTTTTTGCTTTTGCTTTTG
47905913 CTTTTTT-CTTTT-CTTTT
1 CTTTTTTGCTTTTGCTTTT
47905930 TTGATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.00, C:0.16, G:0.08, T:0.76
Consensus pattern (20 bp):
CTTTTTTGCTTTTGCTTTTG
Found at i:47905937 original size:6 final size:6
Alignment explanation
Indices: 47905928--47905961 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
47905918 TTCTTTTCTT
47905928 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
47905962 TTTTTTGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:47905967 original size:18 final size:18
Alignment explanation
Indices: 47905921--47905969 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
47905911 TGCTTTTTTC
47905921 TTTTCTTTTTTGATTTTGA
1 TTTT-TTTTTTGATTTTGA
**
47905940 TTTTGATTTTGATTTTGA
1 TTTTTTTTTTGATTTTGA
47905958 TTTTTTTTTTGA
1 TTTTTTTTTTGA
47905970 ACCTGAACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.73
Consensus pattern (18 bp):
TTTTTTTTTTGATTTTGA
Found at i:47912113 original size:3 final size:3
Alignment explanation
Indices: 47912105--47912209 Score: 210
Period size: 3 Copynumber: 35.0 Consensus size: 3
47912095 ATTAATATTG
47912105 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47912153 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47912201 TAT TAT TAT
1 TAT TAT TAT
47912210 AATCATGTAT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:47916223 original size:20 final size:20
Alignment explanation
Indices: 47916188--47916225 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47916178 TAGCTTATAT
*
47916188 TAATTAAACAATTTTAATGA
1 TAATTAAACAAGTTTAATGA
*
47916208 TAATTAAACTAGTTTAAT
1 TAATTAAACAAGTTTAAT
47916226 TATACCTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
TAATTAAACAAGTTTAATGA
Found at i:47916923 original size:24 final size:24
Alignment explanation
Indices: 47916895--47916946 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
47916885 ATTTTAGAAA
* *
47916895 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTACTTATTAGCATAATAT
*
47916919 ATTTAGTACTTATTAGCATAATTT
1 ATTTAGTACTTATTAGCATAATAT
47916943 ATTT
1 ATTT
47916947 GACCTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGTACTTATTAGCATAATAT
Found at i:47921193 original size:25 final size:25
Alignment explanation
Indices: 47921159--47921208 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
47921149 TCCTATACAT
* *
47921159 GTATGCTCACACGAGTTGTGAATCG
1 GTATGCTCACACGAGCTGTAAATCG
47921184 GTATGCTCACACGAGCTGTAAATCG
1 GTATGCTCACACGAGCTGTAAATCG
47921209 ATATTTTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCG
Found at i:47927594 original size:15 final size:15
Alignment explanation
Indices: 47927574--47927602 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47927564 AAAAAATGTT
47927574 GAGGTTAAGATTGAC
1 GAGGTTAAGATTGAC
47927589 GAGGTTAAGATTGA
1 GAGGTTAAGATTGA
47927603 TGATAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.28
Consensus pattern (15 bp):
GAGGTTAAGATTGAC
Found at i:47935450 original size:52 final size:52
Alignment explanation
Indices: 47935358--47935460 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 52
47935348 GTCAAAAAAT
* *
47935358 ATATCATTAAGAAGTATGCTAGAGAGACAGTCAAGTAGTGTACCCCAAAAGA
1 ATATCAATAAGAAGTATGCTAGAGAGACAGTCAAGCAGTGTACCCCAAAAGA
* ** * **
47935410 ATATCAATAAGAAGTATGCTAGTGAGATGGTGAAGCAGTGTATGCCAAAAG
1 ATATCAATAAGAAGTATGCTAGAGAGACAGTCAAGCAGTGTACCCCAAAAG
47935461 TTGTAGTAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (52 bp):
ATATCAATAAGAAGTATGCTAGAGAGACAGTCAAGCAGTGTACCCCAAAAGA
Found at i:47936241 original size:11 final size:11
Alignment explanation
Indices: 47936225--47936263 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
47936215 TCCTTCGTTC
47936225 ATCATCCCTCA
1 ATCATCCCTCA
47936236 ATCATCCCTCA
1 ATCATCCCTCA
*
47936247 ATCATCCATCA
1 ATCATCCCTCA
*
47936258 AGCATC
1 ATCATC
47936264 ATTCCCTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.31, C:0.41, G:0.03, T:0.26
Consensus pattern (11 bp):
ATCATCCCTCA
Found at i:47937399 original size:27 final size:27
Alignment explanation
Indices: 47937337--47937400 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
47937327 ACGAGTTACA
47937337 GTTCACCAGTTGGTTTGGCGAGCTAGG
1 GTTCACCAGTTGGTTTGGCGAGCTAGG
** * * *
47937364 GTTTTCCAGTTGGTTTGGTGAGTTATG
1 GTTCACCAGTTGGTTTGGCGAGCTAGG
*
47937391 GTTCGCCAGT
1 GTTCACCAGT
47937401 CAAAGTCGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.12, C:0.16, G:0.34, T:0.38
Consensus pattern (27 bp):
GTTCACCAGTTGGTTTGGCGAGCTAGG
Found at i:47944575 original size:34 final size:34
Alignment explanation
Indices: 47944532--47944599 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
47944522 ATTTTTACTG
*
47944532 CTGATTTCATTGTTTTAGATTTTGAAGCAGATAA
1 CTGATTTCATTATTTTAGATTTTGAAGCAGATAA
47944566 CTGATTTCATTATTTTAGATTTTGAAGCAGATAA
1 CTGATTTCATTATTTTAGATTTTGAAGCAGATAA
47944600 AGAAGTACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (34 bp):
CTGATTTCATTATTTTAGATTTTGAAGCAGATAA
Found at i:47949876 original size:40 final size:39
Alignment explanation
Indices: 47949798--47949910 Score: 100
Period size: 40 Copynumber: 2.8 Consensus size: 39
47949788 GCGTTTATAT
* * * * **
47949798 AAAAAACACCGCTAAAAATTAAGCATTACCGGTTCTTTTA
1 AAAAAACGCCACTAAAAA-TGAGCATTAGCGGCGCTTTTA
* * * *
47949838 AAAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTT
1 AAAAAACGCCACTAAAAAT-GAGCATTAGCGGCGCTTTTA
* *
47949878 TAAAAACGCTACTAAAAATGAGCATTAGCGGCG
1 AAAAAACGCCACTAAAAATGAGCATTAGCGGCG
47949911 TTTCCCAAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
39 14 0.24
40 45 0.76
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (39 bp):
AAAAAACGCCACTAAAAATGAGCATTAGCGGCGCTTTTA
Found at i:47950024 original size:41 final size:41
Alignment explanation
Indices: 47949973--47950238 Score: 297
Period size: 41 Copynumber: 6.5 Consensus size: 41
47949963 TTTTCGGGGA
* * *
47949973 TTTAGCGGCGTTTTT-CAAGAAGCGTCGCTAATGCTCGGGTC
1 TTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGCTCTGGTC
* *
47950014 TTTAGTGGCGTTTTTGGAAATGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTC
* *
47950055 TTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTATGGTC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTC
* *
47950096 TTTAGC-ACATTTTTGGAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTC
* * * *
47950136 TTTAGCAGCGTTTTT-AAAGAAGTGCAGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGCTCTGGTC
* * * * *
47950177 TTTAGCGGCGTTTTTCGAAAAAGCACTGGTAATGCTC-GGTT
1 TTTAGCGGCGTTTTT-GGAAAAGCGCCGCTAATGCTCTGGTC
* *
47950218 TTTAACGGCGTTTTTAGAAAA
1 TTTAGCGGCGTTTTTGGAAAA
47950239 ATGCCGCAAA
Statistics
Matches: 195, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
40 44 0.23
41 133 0.68
42 15 0.08
43 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTC
Found at i:47950150 original size:81 final size:81
Alignment explanation
Indices: 47949973--47950233 Score: 283
Period size: 81 Copynumber: 3.2 Consensus size: 81
47949963 TTTTCGGGGA
* * * ** * *
47949973 TTTAGCGGCGTTTTTCAAGAAGCGTCGCTAATGCTCGGGTCTTTAGTGGCGTTTTTGGAAATGCG
1 TTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCTGGTCTTTAG-CACATTTTTGGAAAAGCG
47950038 CCGCTAATGCTCTGGTC
65 CCGCTAATGCTCTGGTC
* * *
47950055 TTTAGCGGCATTTTTGGAA-AAGCGCCGCTAATGCTATGGTCTTTAGCACATTTTTGGAAAAGCG
1 TTTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGCTCTGGTCTTTAGCACATTTTTGGAAAAGCG
47950119 CCGCTAATGCTCTGGTC
65 CCGCTAATGCTCTGGTC
* * * * * *
47950136 TTTAGCAGCGTTTTTAAAGAAGTGCAGCTAATGCTCTGGTCTTTAGCGGCGTTTTTCGAAAAAGC
1 TTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCTGGTCTTTAGC-ACATTTTT-GGAAAAGC
* * * *
47950201 ACTGGTAATGCTC-GGTT
64 GCCGCTAATGCTCTGGTC
*
47950218 TTTAACGGCGTTTTTA
1 TTTAGCGGCGTTTTTA
47950234 GAAAAATGCC
Statistics
Matches: 151, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
80 2 0.01
81 69 0.46
82 61 0.40
83 19 0.13
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (81 bp):
TTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCTGGTCTTTAGCACATTTTTGGAAAAGCGC
CGCTAATGCTCTGGTC
Found at i:47973018 original size:27 final size:25
Alignment explanation
Indices: 47972970--47973027 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
47972960 TTTAAAAACT
*
47972970 TTTAAATTTTTAACTTTGTATATTC
1 TTTAAATTTTTAACTTTGTATAATC
47972995 TTTAAATTTTTTAAAACTTT-TATAATC
1 TTTAAA-TTTTT--AACTTTGTATAATC
47973022 TTTAAA
1 TTTAAA
47973028 AATATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 6 0.21
26 5 0.17
27 12 0.41
28 6 0.21
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTAAATTTTTAACTTTGTATAATC
Found at i:47973072 original size:18 final size:18
Alignment explanation
Indices: 47973051--47973090 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
47973041 ATTTTGGAGT
47973051 TTTTATAAA-TATTTTTAA
1 TTTTA-AAATTATTTTTAA
47973069 TTTTAAAATTATTTTTAA
1 TTTTAAAATTATTTTTAA
47973087 TTTT
1 TTTT
47973091 TGAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAAAATTATTTTTAA
Found at i:47974928 original size:3 final size:3
Alignment explanation
Indices: 47974910--47974948 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
47974900 CCCCAAACTC
* *
47974910 ATA AGA ATA A-A ATA ATA ATA ATA ATA ACA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47974949 CATTAGCAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (3 bp):
ATA
Done.