Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 54 of 141
Found at i:17503966 original size:18 final size:18
Alignment explanation
Indices: 17503943--17503978 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17503933 TTAGGTTTCC
*
17503943 AAAAATGGAAATGGAAAT
1 AAAAATGAAAATGGAAAT
*
17503961 AAAAATGAAAATTGAAAT
1 AAAAATGAAAATGGAAAT
17503979 TATCTATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (18 bp):
AAAAATGAAAATGGAAAT
Found at i:17513654 original size:25 final size:25
Alignment explanation
Indices: 17513619--17513689 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
17513609 ACACACCACA
*
17513619 GCTCTCTTGAGCTTCCCGATACTTG
1 GCTCTCATGAGCTTCCCGATACTTG
* *
17513644 GCTCTCATGAGCTTCTCGATATTTG
1 GCTCTCATGAGCTTCCCGATACTTG
* *
17513669 GCTCACAAGAGCTTCCCGATA
1 GCTCTCATGAGCTTCCCGATA
17513690 TACAGCTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATACTTG
Found at i:17520033 original size:22 final size:23
Alignment explanation
Indices: 17519944--17520057 Score: 97
Period size: 23 Copynumber: 4.8 Consensus size: 23
17519934 CAACTCGTAT
*
17519944 GAGCTTACCGATATATCAGCTCGTAA
1 GAGCTTACCG-T-T-TCAGCTCGTTA
* * * * *
17519970 GAGCCTACTGTTTTCAACTCATTG
1 GAGCTTACCG-TTTCAGCTCGTTA
17519994 GAGCTTACCGTTTCAGCTCGTGT-
1 GAGCTTACCGTTTCAGCTCGT-TA
*
17520017 GAGCTTACTG-TTCAGCTCGTTA
1 GAGCTTACCGTTTCAGCTCGTTA
*
17520039 GAGCTTACCATTTCAGCTC
1 GAGCTTACCGTTTCAGCTC
17520058 AATAGAGCCT
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
21 1 0.01
22 18 0.25
23 26 0.37
24 16 0.23
25 1 0.01
26 9 0.13
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGTTA
Found at i:17520055 original size:45 final size:46
Alignment explanation
Indices: 17519944--17520074 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 46
17519934 CAACTCGTAT
*
17519944 GAGCTTACCGATATATCAGCTCGTAAGAGCCTACTGTTTTCAACTCATTG
1 GAGCTTACC-AT-T-TCAGCTCGTAAGAGCCTACTG-TTTCAACTCATTA
* ** * * *
17519994 GAGCTTACCGTTTCAGCTCGTGTGAGCTTACTG-TTCAGCTCGTTA
1 GAGCTTACCATTTCAGCTCGTAAGAGCCTACTGTTTCAACTCATTA
*
17520039 GAGCTTACCATTTCAGCTC-AATAGAGCCTACTGTTT
1 GAGCTTACCATTTCAGCTCGTA-AGAGCCTACTGTTT
17520075 ATTAGCTCAG
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
45 36 0.54
46 2 0.03
47 18 0.27
48 1 0.01
49 1 0.01
50 9 0.13
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (46 bp):
GAGCTTACCATTTCAGCTCGTAAGAGCCTACTGTTTCAACTCATTA
Found at i:17520063 original size:23 final size:21
Alignment explanation
Indices: 17519994--17520065 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 21
17519984 CAACTCATTG
* *
17519994 GAGCTTACCGTTTCAGCTCGTGT
1 GAGCTTACC-TTTCAGCTCAT-A
*
17520017 GAGCTTA-CTGTTCAGCTCGTTA
1 GAGCTTACCT-TTCAGCTC-ATA
17520039 GAGCTTACCATTTCAGCTCAATA
1 GAGCTTACC-TTTCAGCTC-ATA
17520062 GAGC
1 GAGC
17520066 CTACTGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.02
22 16 0.39
23 23 0.56
24 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (21 bp):
GAGCTTACCTTTCAGCTCATA
Found at i:17520287 original size:20 final size:20
Alignment explanation
Indices: 17520244--17520288 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
17520234 AGATATGTGT
** * *
17520244 TTATACAGATGAATTATTGT
1 TTATACAGATGAACCACTGG
17520264 TTATACAGATGAACCACTGG
1 TTATACAGATGAACCACTGG
17520284 TTATA
1 TTATA
17520289 TGAATGAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (20 bp):
TTATACAGATGAACCACTGG
Found at i:17521858 original size:7 final size:7
Alignment explanation
Indices: 17521838--17521876 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
17521828 GTTTAACATT
17521838 TATT-TA
1 TATTATA
17521844 TATCTATA
1 TAT-TATA
17521852 TATTATA
1 TATTATA
17521859 TATTATA
1 TATTATA
17521866 TATTATA
1 TATTATA
17521873 TATT
1 TATT
17521877 TTCAATTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 3 0.10
7 23 0.74
8 5 0.16
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (7 bp):
TATTATA
Found at i:17522096 original size:31 final size:31
Alignment explanation
Indices: 17522061--17522120 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
17522051 ACTAAGCACT
* * *
17522061 AATTTGGATCAAAAAGCCAATTTTAGGTATC
1 AATTTGAACCAAAAAGCCAAGTTTAGGTATC
*
17522092 AATTTGAACCAAGAAGCCAAGTTTAGGTA
1 AATTTGAACCAAAAAGCCAAGTTTAGGTA
17522121 CCTAATTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (31 bp):
AATTTGAACCAAAAAGCCAAGTTTAGGTATC
Found at i:17522134 original size:31 final size:31
Alignment explanation
Indices: 17522074--17522134 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
17522064 TTGGATCAAA
* * *
17522074 AAGCCAATTTTAGGTATCAATTTGAACCAAG
1 AAGCCAAGTTTAGGTACCAATTAGAACCAAG
17522105 AAGCCAAGTTTAGGTACCTAATTAG-ACCAA
1 AAGCCAAGTTTAGGTACC-AATTAGAACCAA
17522135 AATAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (31 bp):
AAGCCAAGTTTAGGTACCAATTAGAACCAAG
Found at i:17528322 original size:17 final size:17
Alignment explanation
Indices: 17528277--17528319 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
17528267 TTATTTAATC
*
17528277 AATTAATTTAATTAACTA
1 AATTAATTT-CTTAACTA
*
17528295 AATTAATTTCTTAATTA
1 AATTAATTTCTTAACTA
17528312 AA-TAATTT
1 AATTAATTT
17528320 TCTCAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 9 0.39
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAATTTCTTAACTA
Found at i:17531669 original size:20 final size:20
Alignment explanation
Indices: 17531643--17531696 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
17531633 ACAAAAGCTT
*
17531643 TAGTAATTTTGTAAGAGAT-
1 TAGTAATTTTGTAAGAAATA
* *
17531662 TCAGTAATATTGTAATAAATA
1 T-AGTAATTTTGTAAGAAATA
17531683 TAGTAATTTTGTAA
1 TAGTAATTTTGTAA
17531697 AAAGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.43
Consensus pattern (20 bp):
TAGTAATTTTGTAAGAAATA
Found at i:17533956 original size:1 final size:1
Alignment explanation
Indices: 17533952--17533995 Score: 88
Period size: 1 Copynumber: 44.0 Consensus size: 1
17533942 TTTTAAACCC
17533952 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17533996 GAAAACAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:17537251 original size:24 final size:25
Alignment explanation
Indices: 17537199--17537252 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
17537189 TGAAAACAAC
* * * *
17537199 TTTTATTGTTTTTTTTTTTACATAT
1 TTTTATTGTTTATTTTTTAAAATAA
17537224 TTTTATT-TTTATTTTTTAAAATAA
1 TTTTATTGTTTATTTTTTAAAATAA
17537248 TTTTA
1 TTTTA
17537253 AAATTTTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (25 bp):
TTTTATTGTTTATTTTTTAAAATAA
Found at i:17546176 original size:90 final size:91
Alignment explanation
Indices: 17546023--17546203 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 91
17546013 GCCGAAATCG
17546023 ACCTCCATCCTCTCCCTCCCAACATCAACAGAAGCTGCCAGCGAACCAAACCTCCACCCGCTCCC
1 ACCTCCATCCTCTCCCTCCCAACATCAACAGAAGCTGCCAGCGAACCAAACCTCCACCCGCTCCC
17546088 GTTTCACTTTCATC-TGGCATCTTTC
66 GTTTCACTTTCATCTTGGCATCTTTC
17546113 ACCTCCATCCTCTCCCTCCCAACATCAACAGAAGCTGCCAGCGAACCAAACCTCCACCCGCTCCC
1 ACCTCCATCCTCTCCCTCCCAACATCAACAGAAGCTGCCAGCGAACCAAACCTCCACCCGCTCCC
17546178 GTTTCACTTTCATCTTGGCATCTTTC
66 GTTTCACTTTCATCTTGGCATCTTTC
17546204 GCCGACTCCA
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 79 0.88
91 11 0.12
ACGTcount: A:0.22, C:0.44, G:0.10, T:0.24
Consensus pattern (91 bp):
ACCTCCATCCTCTCCCTCCCAACATCAACAGAAGCTGCCAGCGAACCAAACCTCCACCCGCTCCC
GTTTCACTTTCATCTTGGCATCTTTC
Found at i:17550244 original size:16 final size:16
Alignment explanation
Indices: 17550223--17550292 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
17550213 AGAATTACCT
*
17550223 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
* * *
17550239 ATTACGCATTTATTCC
1 ATTACACCTCTATTCC
17550255 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
17550271 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
17550287 ATTACA
1 ATTACA
17550293 ACGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.26, C:0.33, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:17555552 original size:16 final size:16
Alignment explanation
Indices: 17555531--17555584 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
17555521 TTGATTTGCT
17555531 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
17555547 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
17555563 GTTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
17555579 AATACA
1 ATTACA
17555585 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.26, C:0.35, G:0.04, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:17560766 original size:13 final size:13
Alignment explanation
Indices: 17560750--17560815 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
17560740 TTTAAACCAA
17560750 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
17560763 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
17560776 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
17560789 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
17560802 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
17560815 A
1 A
17560816 ATAAAGAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:17564868 original size:21 final size:22
Alignment explanation
Indices: 17564843--17564886 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
17564833 CACTCTTCCT
17564843 TTTCTTCATCGATTATTGCAGG
1 TTTCTTCATCGATTATTGCAGG
17564865 TTCTTCTTCATCGATTATTGCA
1 -T-TTCTTCATCGATTATTGCA
17564887 ATGTTCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (22 bp):
TTTCTTCATCGATTATTGCAGG
Found at i:17564901 original size:24 final size:24
Alignment explanation
Indices: 17564850--17564904 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
17564840 CCTTTTCTTC
* *
17564850 ATCGATTATTGCAGGTTCTTCTTC
1 ATCGATTATTGCAGGTTCTACTTA
*
17564874 ATCGATTATTGCAATGTTC-ACTTA
1 ATCGATTATTGC-AGGTTCTACTTA
17564898 ATCGATT
1 ATCGATT
17564905 TCCCTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.44
Consensus pattern (24 bp):
ATCGATTATTGCAGGTTCTACTTA
Found at i:17566339 original size:22 final size:22
Alignment explanation
Indices: 17566324--17566386 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 22
17566314 TTGTTTTAAT
17566324 ATTGTTCTTGATTTGTTCTGAAA
1 ATTGTT-TTGATTTGTTCTGAAA
* *
17566347 ATTGTTTTGA-TAGTCTGCTGGAA
1 ATTGTTTTGATTTGT-T-CTGAAA
17566370 ATTGTTCTTGATTTGTT
1 ATTGTT-TTGATTTGTT
17566387 AGTGAGTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 3 0.09
22 5 0.15
23 17 0.52
24 5 0.15
25 3 0.09
ACGTcount: A:0.19, C:0.08, G:0.21, T:0.52
Consensus pattern (22 bp):
ATTGTTTTGATTTGTTCTGAAA
Found at i:17570898 original size:16 final size:16
Alignment explanation
Indices: 17570877--17570913 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
17570867 TTGATTTGCT
17570877 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
17570893 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
17570909 ATTAC
1 ATTAC
17570914 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:17572188 original size:37 final size:37
Alignment explanation
Indices: 17572141--17572221 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
17572131 GTCCAATTAA
* *
17572141 AAAATGTGTATCAATTATCTTATTATATGTGTAGACT
1 AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
* * *
17572178 AAAAGGTGTATCAATTATTTTCTTACATGTGTAGCCT
1 AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
17572215 AAAAGGT
1 AAAAGGT
17572222 TTAAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (37 bp):
AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
Found at i:17578031 original size:19 final size:18
Alignment explanation
Indices: 17578009--17578044 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
17577999 ATTCTAGACT
17578009 TTAACTTTTAACTTTTTTA
1 TTAACTTTTAA-TTTTTTA
*
17578028 TTAATTTTTAATTTTTT
1 TTAACTTTTAATTTTTT
17578045 GAATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TTAACTTTTAATTTTTTA
Found at i:17578073 original size:21 final size:21
Alignment explanation
Indices: 17578046--17578099 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
17578036 TAATTTTTTG
*
17578046 AATTTTTAAAAATATTTCTATA
1 AATTTTTAAAAATATTT-TACA
* *
17578068 AA-TTTTAATAATGTTTTACA
1 AATTTTTAAAAATATTTTACA
17578088 AATTTTTAAAAA
1 AATTTTTAAAAA
17578100 GCTAATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 5 0.19
21 20 0.74
22 2 0.07
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
AATTTTTAAAAATATTTTACA
Found at i:17578106 original size:29 final size:29
Alignment explanation
Indices: 17578073--17578128 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
17578063 CTATAAATTT
17578073 TAATAATGTTTTACAAA-T-TTTTAAAAAGC
1 TAAT-ATGTTTTA-AAATTATTTTAAAAAGC
*
17578102 TAATATTTTTTAAAATTATTTTAAAAA
1 TAATATGTTTTAAAATTATTTTAAAAA
17578129 AATTAAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 3 0.12
28 8 0.33
29 13 0.54
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (29 bp):
TAATATGTTTTAAAATTATTTTAAAAAGC
Found at i:17584075 original size:30 final size:30
Alignment explanation
Indices: 17584028--17584105 Score: 111
Period size: 30 Copynumber: 2.5 Consensus size: 30
17584018 CAACCCAATC
* * *
17584028 ATAAAAATTACAAATAATTTCATAAATAAAA
1 ATAAAAA-TAAAAATAATTTAAAAAATAAAA
17584059 ATAAAAATAAAAATAATTTAAAAAATAAAA
1 ATAAAAATAAAAATAATTTAAAAAATAAAA
17584089 ATAAAAATAAAATATAA
1 ATAAAAATAAAA-ATAA
17584106 ATAGGCACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 32 0.74
31 11 0.26
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (30 bp):
ATAAAAATAAAAATAATTTAAAAAATAAAA
Found at i:17584108 original size:6 final size:6
Alignment explanation
Indices: 17584051--17584106 Score: 69
Period size: 6 Copynumber: 9.2 Consensus size: 6
17584041 ATAATTTCAT
**
17584051 AAATAA AAATAA AAATAA AAAT-A ATTTAAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA
17584099 AATATAA A
1 AA-ATAA A
17584107 TAGGCACATG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
5 3 0.07
6 32 0.74
7 8 0.19
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:17588724 original size:105 final size:104
Alignment explanation
Indices: 17588517--17588729 Score: 381
Period size: 104 Copynumber: 2.0 Consensus size: 104
17588507 TTACTCTGGT
* *
17588517 AAGATAAAGTCAGGAGTGGTTTTTGTTTTTTAACTTGATGTATTAGTTAGTCTTGTTCACCAAAA
1 AAGATAAAATCAGGAGTAGTTTTTGTTTTTTAACTTGATGTATTAGTTAGTCTTGTTCACCAAAA
17588582 AAATGCTTACACATATATATACATTTACGTACATTTATA
66 AAATGCTTACACATATATATACATTTACGTACATTTATA
17588621 AAGATAAAATCAGGAGTAGTTTTTGTTTTTTAACTTGATGTATTAGTTAGTCTTGTTCACCAAAA
1 AAGATAAAATCAGGAGTAGTTTTTGTTTTTTAACTTGATGTATTAGTTAGTCTTGTTCACC-AAA
* *
17588686 AAAATGCTTACACGTTTATATACATTTACGTACATTTATA
65 AAAATGCTTACACATATATATACATTTACGTACATTTATA
17588726 AAGA
1 AAGA
17588730 ATTGTGTTAA
Statistics
Matches: 104, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
104 59 0.57
105 45 0.43
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (104 bp):
AAGATAAAATCAGGAGTAGTTTTTGTTTTTTAACTTGATGTATTAGTTAGTCTTGTTCACCAAAA
AAATGCTTACACATATATATACATTTACGTACATTTATA
Found at i:17588986 original size:23 final size:23
Alignment explanation
Indices: 17588956--17589009 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
17588946 TTTAAAAGTT
* *
17588956 AAATATTATTTTATCCTAATATC
1 AAATATTATGTAATCCTAATATC
*
17588979 AAATATTATGTAATCCTAATATT
1 AAATATTATGTAATCCTAATATC
17589002 AAATATTA
1 AAATATTA
17589010 ATTACAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (23 bp):
AAATATTATGTAATCCTAATATC
Found at i:17592022 original size:13 final size:14
Alignment explanation
Indices: 17591998--17592026 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17591988 CATGCTTTTG
17591998 AACACTTTGATCAT
1 AACACTTTGATCAT
17592012 AACAC-TTGATCAT
1 AACACTTTGATCAT
17592025 AA
1 AA
17592027 ATCAACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (14 bp):
AACACTTTGATCAT
Found at i:17607019 original size:25 final size:25
Alignment explanation
Indices: 17606991--17607045 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
17606981 CTGAATGTTT
** *
17606991 TCAGTACAGTCTATCTATAGTATTC
1 TCAGTACACACTATCTATAGCATTC
* *
17607016 TCAGTATACACTATCTATAGCATTT
1 TCAGTACACACTATCTATAGCATTC
17607041 TCAGT
1 TCAGT
17607046 TTTTAAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (25 bp):
TCAGTACACACTATCTATAGCATTC
Found at i:17612204 original size:22 final size:21
Alignment explanation
Indices: 17612165--17612209 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
17612155 ATTATGAATA
17612165 TTAATTTATAATATAATTAATT
1 TTAATTTATAATATAATT-ATT
*
17612187 TTAATTT-TAATCTAAATTATT
1 TTAATTTATAATAT-AATTATT
17612208 TT
1 TT
17612210 GTGTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAATTTATAATATAATTATT
Found at i:17619426 original size:16 final size:16
Alignment explanation
Indices: 17619405--17619475 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
17619395 GTTTGATTCA
*
17619405 CTATAATGGAATAGGG
1 CTATAATGGAATAGAG
*
17619421 CTATAATTGAATAGAG
1 CTATAATGGAATAGAG
* *
17619437 CTGTAATGGAATAAAG
1 CTATAATGGAATAGAG
* * *
17619453 TTGTAATGGAATAAAG
1 CTATAATGGAATAGAG
*
17619469 CTGTAAT
1 CTATAAT
17619476 TAGTAATTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.30
Consensus pattern (16 bp):
CTATAATGGAATAGAG
Found at i:17623358 original size:33 final size:33
Alignment explanation
Indices: 17623321--17623508 Score: 116
Period size: 33 Copynumber: 5.7 Consensus size: 33
17623311 CTTTATTCTA
* *
17623321 TGTTTACTGTCCCAGCAGACTATTTCTATTTCG
1 TGTTTATTGTCCCAACAGACTATTTCTATTTCG
* ** *
17623354 TGTTTATTGTCCTAACAGACTAACTCTATTTTG
1 TGTTTATTGTCCCAACAGACTATTTCTATTTCG
* ** *
17623387 TGTTTATTGTCTCAATGGATTATTTCT-TTTCCG
1 TGTTTATTGTCCCAACAGACTATTTCTATTT-CG
* * * * *
17623420 TGTTTAATGT-CTAGACGGGCTATATT-TGTTTCG
1 TGTTTATTGTCCCA-ACAGACTAT-TTCTATTTCG
* * * * *
17623453 TGTTTACTGT-CCAGA-TGAACTATATATGTTTCG
1 TGTTTATTGTCCCA-ACAG-ACTATTTCTATTTCG
17623486 TGTTTATTGTCCCAACAGACTAT
1 TGTTTATTGTCCCAACAGACTAT
17623509 CTATGTAGAT
Statistics
Matches: 120, Mismatches: 27, Indels: 16
0.74 0.17 0.10
Matches are distributed among these distances:
32 6 0.05
33 105 0.88
34 9 0.08
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (33 bp):
TGTTTATTGTCCCAACAGACTATTTCTATTTCG
Found at i:17632724 original size:138 final size:138
Alignment explanation
Indices: 17632461--17632724 Score: 424
Period size: 138 Copynumber: 1.9 Consensus size: 138
17632451 AGAGAACATA
* *
17632461 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATGTATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * *
17632526 TAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGGCGTGGAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACGTGGAAATGAATATTCTT
17632591 TTGGAAAG
131 TTGGAAAG
17632599 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
* * *
17632664 TAATATTAACAATTATATTAATTAATTT-TGATCAAAATATAAAAGACATTGGAAA-GAATAT
66 TAATATAAACAATTATATTAATTAATTTCAG-TCAAAATATAAAAGAC-GTGGAAATGAATAT
17632725 AATTTTGTTT
Statistics
Matches: 116, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
137 1 0.01
138 109 0.94
139 6 0.05
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.40
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
TAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACGTGGAAATGAATATTCTT
TTGGAAAG
Found at i:17632791 original size:75 final size:75
Alignment explanation
Indices: 17632712--17632850 Score: 201
Period size: 75 Copynumber: 1.9 Consensus size: 75
17632702 ATAAAAGACA
* * *
17632712 TTGGAAAGAATATAATT-TTGTTTTCTAACTTTCCATTTGCCTTCTTTATTAATAA-AGAAATAA
1 TTGGAAAGAATATAATTCAT-TTTTCAAACTTTCCATTTGCCTTCTCTATTAATAAGAG-AATAA
17632775 TGATATATTCTT
64 TGATATATTCTT
* *
17632787 TTGGAAATAATATAATTCATTTTTCAAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAAT
1 TTGGAAAGAATATAATTCATTTTTCAAACTTTCCATTTGCCTTCTCTATTAATAAGAGAATAAT
17632851 CCTAGTTTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
75 54 0.95
76 3 0.05
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.45
Consensus pattern (75 bp):
TTGGAAAGAATATAATTCATTTTTCAAACTTTCCATTTGCCTTCTCTATTAATAAGAGAATAATG
ATATATTCTT
Found at i:17632810 original size:22 final size:22
Alignment explanation
Indices: 17632768--17632809 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17632758 TATTAATAAA
17632768 GAAATAATGATATATTCTTTTG
1 GAAATAATGATATATTCTTTTG
17632790 GAAATAAT-ATA-ATTCATTTT
1 GAAATAATGATATATTC-TTTT
17632810 TCAAACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
22 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (22 bp):
GAAATAATGATATATTCTTTTG
Found at i:17633437 original size:27 final size:27
Alignment explanation
Indices: 17633407--17633471 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
17633397 ATTACAAATT
17633407 GGGTTCGCCAGTTGATTTGGCGAGCTG
1 GGGTTCGCCAGTTGATTTGGCGAGCTG
* * *
17633434 GGGTTCTCCAATTGATTTGGCGAGTTG
1 GGGTTCGCCAGTTGATTTGGCGAGCTG
17633461 GGGTTCGCCAG
1 GGGTTCGCCAG
17633472 ATGGTTTAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.12, C:0.18, G:0.38, T:0.31
Consensus pattern (27 bp):
GGGTTCGCCAGTTGATTTGGCGAGCTG
Found at i:17633483 original size:27 final size:27
Alignment explanation
Indices: 17633407--17633498 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
17633397 ATTACAAATT
* *
17633407 GGGTTCGCCAGTTGATTTGGCGAGCTG
1 GGGTTCGCCAGATGATTTGGCGAGTTG
*
17633434 GGGTTCTCCA-ATTGATTTGGCGAGTTG
1 GGGTTCGCCAGA-TGATTTGGCGAGTTG
* * *
17633461 GGGTTCGCCAGATGGTTTAGCGAATTG
1 GGGTTCGCCAGATGATTTGGCGAGTTG
* *
17633488 GTGTTCACCAG
1 GGGTTCGCCAG
17633499 TCAAAGTCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.15, C:0.17, G:0.36, T:0.32
Consensus pattern (27 bp):
GGGTTCGCCAGATGATTTGGCGAGTTG
Found at i:17637221 original size:17 final size:17
Alignment explanation
Indices: 17637199--17637235 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
17637189 AATTTTTGAA
17637199 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
*
17637216 TTAGTGAATTTTGTGAT
1 TTAGTGAATTCTGTGAT
17637233 TTA
1 TTA
17637236 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:17638831 original size:46 final size:46
Alignment explanation
Indices: 17638779--17638964 Score: 309
Period size: 46 Copynumber: 4.0 Consensus size: 46
17638769 CCATGGGAAA
* *
17638779 TTGTGAAAAGTAGATATGGTGTTTCGGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
17638825 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * *
17638871 TTGTGAAAAGTAGGCATGGTGTTTCAATGAAGAAAACCATACTGAT
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
17638917 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
17638963 TT
1 TT
17638965 ATAGCATTGT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:17642314 original size:90 final size:90
Alignment explanation
Indices: 17642161--17642342 Score: 364
Period size: 90 Copynumber: 2.0 Consensus size: 90
17642151 ATTCCACTAT
17642161 CAACATTTATGGTCAAATTATCATATAAGGACTTCTACTTTAAAGTTCTATAGATATTAGACACC
1 CAACATTTATGGTCAAATTATCATATAAGGACTTCTACTTTAAAGTTCTATAGATATTAGACACC
17642226 TTTAGCTAATAGAACACAACTTTTA
66 TTTAGCTAATAGAACACAACTTTTA
17642251 CAACATTTATGGTCAAATTATCATATAAGGACTTCTACTTTAAAGTTCTATAGATATTAGACACC
1 CAACATTTATGGTCAAATTATCATATAAGGACTTCTACTTTAAAGTTCTATAGATATTAGACACC
17642316 TTTAGCTAATAGAACACAACTTTTA
66 TTTAGCTAATAGAACACAACTTTTA
17642341 CA
1 CA
17642343 TTTTACGCGA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 92 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (90 bp):
CAACATTTATGGTCAAATTATCATATAAGGACTTCTACTTTAAAGTTCTATAGATATTAGACACC
TTTAGCTAATAGAACACAACTTTTA
Found at i:17643115 original size:20 final size:20
Alignment explanation
Indices: 17643086--17643130 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
17643076 CTATTTATGC
* *
17643086 ACATATTC-AAGAGACTTAA
1 ACATATTCAAACACACTTAA
17643105 ACATCATTCAAACACACTTAA
1 ACAT-ATTCAAACACACTTAA
17643126 ACATA
1 ACATA
17643131 CCATTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 5 0.23
21 13 0.59
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (20 bp):
ACATATTCAAACACACTTAA
Found at i:17652902 original size:95 final size:95
Alignment explanation
Indices: 17652739--17652916 Score: 329
Period size: 95 Copynumber: 1.9 Consensus size: 95
17652729 TATTATTTAG
*
17652739 AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTACAATTATGATATTGCATGT
1 AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGATACAATTATGATATTGCATGT
17652804 TTGTTTATGTTTCATGCATTATACGAATGC
66 TTGTTTATGTTTCATGCATTATACGAATGC
* *
17652834 AATATGCCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGATGCAATTATGATATTGCATGT
1 AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGATACAATTATGATATTGCATGT
17652899 TTGTTTATGTTTCATGCA
66 TTGTTTATGTTTCATGCA
17652917 CGAATGCATC
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (95 bp):
AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGATACAATTATGATATTGCATGT
TTGTTTATGTTTCATGCATTATACGAATGC
Found at i:17657495 original size:13 final size:14
Alignment explanation
Indices: 17657465--17657497 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17657455 TCAATAATCA
17657465 AAAAATAGAAAATG
1 AAAAATAGAAAATG
*
17657479 AAAATTAGAAAAT-
1 AAAAATAGAAAATG
17657492 AAAAAT
1 AAAAAT
17657498 GAATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (14 bp):
AAAAATAGAAAATG
Found at i:17660065 original size:19 final size:19
Alignment explanation
Indices: 17660036--17660081 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17660026 GTTAAAGATG
*
17660036 TTATT-AAAATAAT-TTTTC
1 TTATTCAAAAT-ATGTTTTA
17660054 TTATTCAAAATATGTTTTA
1 TTATTCAAAATATGTTTTA
17660073 TTATTCAAA
1 TTATTCAAA
17660082 GTTATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTCAAAATATGTTTTA
Found at i:17660385 original size:19 final size:20
Alignment explanation
Indices: 17660361--17660405 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
17660351 TCAAAATTTT
17660361 ATTTTAATATTT-TT-TATAC
1 ATTTTAAT-TTTATTATATAC
*
17660380 ATTTTAATTTTATTATGTAC
1 ATTTTAATTTTATTATATAC
17660400 ATTTTA
1 ATTTTA
17660406 TTACCTCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 10 0.43
20 10 0.43
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTAATTTTATTATATAC
Found at i:17665667 original size:22 final size:21
Alignment explanation
Indices: 17665627--17665667 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17665617 AGTTTTAAGT
**
17665627 TTAGTTTTCTCTAGGTTTTCC
1 TTAGTTTTCTCTACATTTTCC
17665648 TTAGTTTTTCTCTACATTTT
1 TTAG-TTTTCTCTACATTTT
17665668 TCTAGGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.61
Consensus pattern (21 bp):
TTAGTTTTCTCTACATTTTCC
Found at i:17672348 original size:28 final size:26
Alignment explanation
Indices: 17672277--17672350 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
17672267 CACGCTATAA
*
17672277 AAAGGAAGCATTTGTGGCAATCTATG
1 AAAGGAAGCCTTTGTGGCAATCTATG
* * *
17672303 AAATGAAAGTCTTTGTGGCGATCTATGG
1 AAA-GGAAGCCTTTGTGGCAATCTAT-G
*
17672331 AAAGGAATGCCTTCGTGGCA
1 AAAGGAA-GCCTTTGTGGCA
17672351 GATTCTAAAG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.08
27 21 0.57
28 13 0.35
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (26 bp):
AAAGGAAGCCTTTGTGGCAATCTATG
Found at i:17672570 original size:27 final size:26
Alignment explanation
Indices: 17672514--17672631 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 26
17672504 GCGTGTGGCT
* * * * *
17672514 AACTCTAAAGGACTGTAGATATGGTA
1 AACTCTGAAGGAATGAATATATGGTG
17672540 AACTCT-AAGAGAATGATATATATGGTG
1 AACTCTGAAG-GAATGA-ATATATGGTG
* *
17672567 AACTCTGAAGGAACAGAATATATGGCG
1 AACTCTGAAGGAA-TGAATATATGGTG
* ** *
17672594 AACTCTGAAGGAATAGCACGTATGGCG
1 AACTCTGAAGGAAT-GAATATATGGTG
17672621 AACTCTGAAGG
1 AACTCTGAAGG
17672632 GACGGTTCTA
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
25 3 0.04
26 10 0.13
27 59 0.77
28 5 0.06
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (26 bp):
AACTCTGAAGGAATGAATATATGGTG
Found at i:17701275 original size:19 final size:19
Alignment explanation
Indices: 17701251--17701304 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
17701241 AATATGCAGG
*
17701251 TTTTTTTACTCTTTTTGTTT
1 TTTTTTTACT-ATTTTGTTT
*
17701271 TTTTTTTACTATTTTGTTG
1 TTTTTTTACTATTTTGTTT
*
17701290 TTTTTTCACTATTTT
1 TTTTTTTACTATTTT
17701305 ATTACCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (19 bp):
TTTTTTTACTATTTTGTTT
Found at i:17701331 original size:14 final size:14
Alignment explanation
Indices: 17701314--17701344 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17701304 TATTACCTTT
17701314 TTACTATTATGTTG
1 TTACTATTATGTTG
*
17701328 TTACTATTTTGTTG
1 TTACTATTATGTTG
17701342 TTA
1 TTA
17701345 TATATAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:17703132 original size:19 final size:19
Alignment explanation
Indices: 17703108--17703159 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 19
17703098 AAAAAGATTA
17703108 TTTTTAATTTAATTTAATT-T
1 TTTTTAATTTAA-TT-ATTGT
17703128 TTTTATAATTTAATTA-TGT
1 TTTT-TAATTTAATTATTGT
17703147 TCTTTTAATTTAA
1 T-TTTTAATTTAA
17703160 AATTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.03
19 11 0.38
20 9 0.31
21 8 0.28
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTAATTTAATTATTGT
Found at i:17708128 original size:20 final size:20
Alignment explanation
Indices: 17708095--17708133 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17708085 TGAATTTTGT
*
17708095 AAAAATCAGAGTGAAATAGG
1 AAAAAACAGAGTGAAATAGG
* *
17708115 AAAAAACAGTGTGATATAG
1 AAAAAACAGAGTGAAATAG
17708134 TGAGCCAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAAAACAGAGTGAAATAGG
Found at i:17711771 original size:15 final size:15
Alignment explanation
Indices: 17711751--17711780 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17711741 CACTTTTCCA
17711751 TTTTATGCATAATAT
1 TTTTATGCATAATAT
17711766 TTTTATGCATAATAT
1 TTTTATGCATAATAT
17711781 CCCACTCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTTATGCATAATAT
Found at i:17713709 original size:3 final size:3
Alignment explanation
Indices: 17713701--17713770 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
17713691 CCACTTAAGA
*
17713701 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17713749 AAG AAG AAG AAG AA- AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AA
17713771 CCTTCTTCAG
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17713841 original size:3 final size:3
Alignment explanation
Indices: 17713833--17714695 Score: 1726
Period size: 3 Copynumber: 287.7 Consensus size: 3
17713823 CAATTTAACA
17713833 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17713881 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17713929 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17713977 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714025 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714073 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714121 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714169 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714217 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714265 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714313 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714361 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714409 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714457 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714505 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714553 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714601 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17714649 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
17714696 CCTGCTTCAG
Statistics
Matches: 860, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 860 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17724882 original size:20 final size:20
Alignment explanation
Indices: 17724857--17724897 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17724847 CACATGGTAG
*
17724857 TGTGTTTGAAAACCGTAACT
1 TGTGTTGGAAAACCGTAACT
*
17724877 TGTGTTGGGAAACCGTAACT
1 TGTGTTGGAAAACCGTAACT
17724897 T
1 T
17724898 TGCTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (20 bp):
TGTGTTGGAAAACCGTAACT
Found at i:17726319 original size:12 final size:11
Alignment explanation
Indices: 17726287--17726321 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
17726277 ACACTTCCCC
*
17726287 ACACCCCTCAA
1 ACACTCCTCAA
17726298 ACACTCCTCAA
1 ACACTCCTCAA
17726309 ACACTTCCTCAA
1 ACAC-TCCTCAA
17726321 A
1 A
17726322 TTTTACCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (11 bp):
ACACTCCTCAA
Found at i:17733101 original size:20 final size:20
Alignment explanation
Indices: 17733076--17733116 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17733066 CACATGGTAA
*
17733076 TGTGTTTGAAAACCATAACT
1 TGTGTTGGAAAACCATAACT
*
17733096 TGTGTTGGGAAACCATAACT
1 TGTGTTGGAAAACCATAACT
17733116 T
1 T
17733117 TACTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (20 bp):
TGTGTTGGAAAACCATAACT
Found at i:17778448 original size:29 final size:29
Alignment explanation
Indices: 17778416--17778490 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
17778406 TTTTTTTTAA
*
17778416 ATTTACCGAAATGGGCCAGGTATTTTATT
1 ATTTACCGAAATGGGCCAGGCATTTTATT
17778445 ATTTACCGAAATGGGCCAGGCATTTTATT
1 ATTTACCGAAATGGGCCAGGCATTTTATT
*
17778474 ATTTACCGGAATGGGCC
1 ATTTACCGAAATGGGCC
17778491 CTTTTCCCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (29 bp):
ATTTACCGAAATGGGCCAGGCATTTTATT
Found at i:17779915 original size:7 final size:7
Alignment explanation
Indices: 17779903--17779935 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
17779893 NNNNNNNNNN
17779903 GTATTTA
1 GTATTTA
17779910 GTATTTA
1 GTATTTA
17779917 GTATTTA
1 GTATTTA
17779924 GTATTTA
1 GTATTTA
17779931 GTATT
1 GTATT
17779936 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:17780583 original size:18 final size:18
Alignment explanation
Indices: 17780556--17780595 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17780546 CAGGTGCGTT
* *
17780556 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
17780574 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
17780592 TCCT
1 TCCT
17780596 TTTTCTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:17780893 original size:21 final size:21
Alignment explanation
Indices: 17780853--17780899 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
17780843 ATGCCCTATT
*
17780853 GGAAGAACCAGAATCCCCGCC
1 GGAAGAACCACAATCCCCGCC
17780874 GGAAGAACCACAA-CCGCCGCC
1 GGAAGAACCACAATCC-CCGCC
*
17780895 AGAAG
1 GGAAG
17780900 CTGGACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.36, C:0.36, G:0.26, T:0.02
Consensus pattern (21 bp):
GGAAGAACCACAATCCCCGCC
Found at i:17781281 original size:15 final size:15
Alignment explanation
Indices: 17781261--17781324 Score: 62
Period size: 15 Copynumber: 4.5 Consensus size: 15
17781251 GACAAACCTT
17781261 AAACCCTTAACTTAA
1 AAACCCTTAACTTAA
*
17781276 AAACCC-TAAC--CA
1 AAACCCTTAACTTAA
** *
17781288 TGACCCTTAAATTAA
1 AAACCCTTAACTTAA
*
17781303 AAACCCTTAACCTAA
1 AAACCCTTAACTTAA
17781318 AAACCCT
1 AAACCCT
17781325 AAACCCTTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
12 5 0.14
13 3 0.08
14 4 0.11
15 25 0.68
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (15 bp):
AAACCCTTAACTTAA
Found at i:17781328 original size:22 final size:22
Alignment explanation
Indices: 17781303--17781712 Score: 508
Period size: 22 Copynumber: 18.8 Consensus size: 22
17781293 CTTAAATTAA
*
17781303 AAACCCTTAACCTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
*
17781325 AAACCCTTAACTTAAAAATCCT
1 AAACCCTTAACTTAAAAACCCT
* *
17781347 AACCCCTTAACCTAAAAA-CCT
1 AAACCCTTAACTTAAAAACCCT
* * * *
17781368 TAACCATTAACTTTAAAACCGT
1 AAACCCTTAACTTAAAAACCCT
*
17781390 AAACCCTGAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* *
17781412 -AGCCCTTAACTTTATAAACCCTT
1 AAACCCTTAAC-TTAAAAACCC-T
* * *
17781435 AAACCATTAAATTAAAACCCCT
1 AAACCCTTAACTTAAAAACCCT
*
17781457 AAACCCTTAACTT-AGAACCCAT
1 AAACCCTTAACTTAAAAACCC-T
*
17781479 AAACCCTTAACCTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* *
17781501 -AACCCTTAACTTTAAAATCCT
1 AAACCCTTAACTTAAAAACCCT
*
17781522 AAACCCTTAACTTAAAACCCCT
1 AAACCCTTAACTTAAAAACCCT
17781544 AAACCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* *
17781566 AACCCCTTAACTTAAAAACACT
1 AAACCCTTAACTTAAAAACCCT
*
17781588 AACCCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* *
17781610 -AACCCTTAACTTTAAAATCCT
1 AAACCCTTAACTTAAAAACCCT
17781631 AAACCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
*
17781653 AAACCCTTAACATAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
*
17781675 -AACCCTTAACTTTAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
*
17781696 AAACCCTTAAATTAAAA
1 AAACCCTTAACTTAAAA
17781713 CCCACTATAA
Statistics
Matches: 330, Mismatches: 49, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
21 84 0.25
22 224 0.68
23 15 0.05
24 7 0.02
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.24
Consensus pattern (22 bp):
AAACCCTTAACTTAAAAACCCT
Found at i:17781329 original size:15 final size:15
Alignment explanation
Indices: 17781300--17781329 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17781290 ACCCTTAAAT
*
17781300 TAAAAACCCTTAACC
1 TAAAAACCCTAAACC
17781315 TAAAAACCCTAAACC
1 TAAAAACCCTAAACC
17781330 CTTAACTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAAACCCTAAACC
Found at i:17781379 original size:43 final size:43
Alignment explanation
Indices: 17781303--17781712 Score: 448
Period size: 43 Copynumber: 9.4 Consensus size: 43
17781293 CTTAAATTAA
* * *
17781303 AAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAATCCT
1 AAACCCTTAACTTAAAAA-CCTTAACCCTTAACTTAAAAACCCT
* * * * *
17781347 AACCCCTTAACCTAAAAACCTTAACCATTAACTTTAAAACCGT
1 AAACCCTTAACTTAAAAACCTTAACCCTTAACTTAAAAACCCT
* * * *
17781390 AAACCCTGAACTTAAAAACCCTAGCCCTTAACTTTATAAACCCTT
1 AAACCCTTAACTTAAAAACCTTAACCCTTAAC-TTAAAAACCC-T
* * * * *
17781435 AAACCATTAAATTAAAACCCCTAAACCCTTAACTT-AGAACCCAT
1 AAACCCTTAACTTAAAA-ACCTTAACCCTTAACTTAAAAACCC-T
* * * *
17781479 AAACCCTTAACCTAAAAACCCTAACCCTTAACTTTAAAATCCT
1 AAACCCTTAACTTAAAAACCTTAACCCTTAACTTAAAAACCCT
* *
17781522 AAACCCTTAACTTAAAACCCCTAAACCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAA-ACCTTAACCCTTAACTTAAAAACCCT
*
17781566 AACCCCTTAACTTAAAAACAC-TAACCCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAAC-CTTAA-CCCTTAACTTAAAAACCCT
* *
17781610 -AACCCTTAACTTTAAAATCCTAAACCCTTAACTTAAAAACCCT
1 AAACCCTTAAC-TTAAAAACCTTAACCCTTAACTTAAAAACCCT
* * *
17781653 AAACCCTTAACATAAAAACCCTAACCCTTAACTTTAAAACCCT
1 AAACCCTTAACTTAAAAACCTTAACCCTTAACTTAAAAACCCT
*
17781696 AAACCCTTAAATTAAAA
1 AAACCCTTAACTTAAAA
17781713 CCCACTATAA
Statistics
Matches: 304, Mismatches: 52, Indels: 21
0.81 0.14 0.06
Matches are distributed among these distances:
43 151 0.50
44 125 0.41
45 17 0.06
46 11 0.04
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.24
Consensus pattern (43 bp):
AAACCCTTAACTTAAAAACCTTAACCCTTAACTTAAAAACCCT
Found at i:17781404 original size:65 final size:64
Alignment explanation
Indices: 17781254--17781715 Score: 468
Period size: 65 Copynumber: 7.1 Consensus size: 64
17781244 TTTAATTGAC
* * * * * *
17781254 AAACCTTAAACCCTTAACTTAAAAACCCTAACCATGACCCTTAAATTAA---AAACCCTTAACCT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTA-ACTTAAA--AACCTTAACCCTTAACTT
*
17781316 AA
63 TA
* * *
17781318 AAACCCTAAACCCTTAACTTAAAAATCCTAACCCCTTAACCTAAAAACCTTAACCATTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAA-CCCTTAACTTAAAAACCTTAACCCTTAACTTTA
* * * * * *
17781383 AAACCGTAAACCCTGAACTTAAAAACCCTAGCCCTTAACTTTATAAACCCTTAAACCATTAA-AT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAC-TTA-AAAACCTT-AACCCTTAACTT
17781447 TA
63 TA
* * *
17781449 AAACCCCTAAACCCTTAACTT-AGAACCCATAAACCCTTAACCTAAAAACCCTAACCCTTAACTT
1 AAA-CCCTAAACCCTTAACTTAAAAACCC-T-AACCCTTAACTTAAAAACCTTAACCCTTAACTT
17781513 TA
63 TA
* * * *
17781515 AAATCCTAAACCCTTAACTTAAAACCCCTAAACCCTTAACTTAAAAACCCTAACCCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCTTAA-CCCTTAACTTT
17781580 A
64 A
* * * * *
17781581 AAACACTAACCCCTTAACTTAAAAACCCTAACCCTTAACTTTAAAATCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAC-TTAAAAACCTTAACCCTTAACTTTA
* * * *
17781646 AAACCCTAAACCCTTAACATAAAAACCCTAACCCTTAACTTTAAAACCCTAAACCCTTAA-ATTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAC-TTAAAAACCTTAACCCTTAACTTTA
17781710 AAACCC
1 AAACCC
17781716 ACTATAAAAC
Statistics
Matches: 340, Mismatches: 44, Indels: 28
0.83 0.11 0.07
Matches are distributed among these distances:
62 2 0.01
64 50 0.15
65 170 0.50
66 82 0.24
67 27 0.08
68 9 0.03
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.24
Consensus pattern (64 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTTAACCCTTAACTTTA
Found at i:17785261 original size:125 final size:125
Alignment explanation
Indices: 17784979--17785546 Score: 730
Period size: 125 Copynumber: 4.5 Consensus size: 125
17784969 CCTAAACATG
* * *
17784979 CTACTGTAGAAAAAGCGCGTTCAAGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
17785044 TAGAAGCG-ATTTTATACTATTTGCTCAGAAACG-CTAAGTCGAAATTATTTTTCCAAGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTC-AACTCGAAATTATTTTTCCAAGAC
* * *
17785103 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAACATGCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * * *
17785167 CTTGCAGCGTTGTTTTATACTATATGCTCAGAAATGTCAACTCAAAATTATTTTT-CAGGAC
65 CTTGAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* ** * *
17785228 CTACTATAGCAAAAATGCGTCCACGTGGGCGCGACTTCACAAATTCTTCTTATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
17785293 TTGAAGCGTTTTTTAAAACTATTTGCTCAAAAACGTTAACTCGAAATTATTTCTTCCAAGAC
66 TTGAAGCGTTTTTT-AAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
* * * *
17785355 CAACTGTAGCAAAAGCGAGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
17785420 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTAAAGTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* * * * * *
17785480 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
17785545 TT
66 TT
17785547 TGATTTTATC
Statistics
Matches: 382, Mismatches: 54, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
123 2 0.01
124 66 0.17
125 164 0.43
126 75 0.20
127 75 0.20
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
Found at i:17785480 original size:252 final size:249
Alignment explanation
Indices: 17784979--17785546 Score: 773
Period size: 252 Copynumber: 2.3 Consensus size: 249
17784969 CCTAAACATG
* * * *
17784979 CTACTGTAG-AAAAAGCGCGTTCAAGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
1 CTACTATAGCAAAAA-CGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTG
* * * * *
17785043 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGCTAAGTCGAAATTATTTTTCCAAGACCTACT
65 CTTGAAGCGATTTTAAACTATTTGCTCAAAAACGCTAACTCGAAATTATTTTTCCAAGACCAACT
* * *
17785108 GTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATGCTGCTTGCA
130 GTAGCAAAAGCGAGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCTGCTTGAA
* * * *
17785173 GCGTTGTTTTATACTATATGCTCAGAAATGTCAACTCAAAATTATTTTTCAGGAC
195 GCATTGTTTTAAACTATATGCTCAGAAACGTAAACTCAAAATTATTTTTCAGGAC
* * *
17785228 CTACTATAGCAAAAATGCGTCCACGTGGGCGCGACTTCACAAATTCTTCTTATAAAGCATCCTGC
1 CTACTATAGCAAAAACGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
17785293 TTGAAGCGTTTTTTAAAACTATTTGCTCAAAAACGTTAACTCGAAATTATTTCTTCCAAGACCAA
66 TTGAAGCG-ATTTT-AAACTATTTGCTCAAAAACGCTAACTCGAAATTATTT-TTCCAAGACCAA
**
17785358 CTGTAGCAAAAGCGAGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGTATCCTGCTT
128 CTGTAGCAAAAGCGAGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAACATCCTGCTT
* * *
17785422 GAAGCATT-TTTTAAACTATTTGCTCAGAAACGTAAAGTCGAAATTATTTTTCCAGGAC
192 GAAGCATTGTTTTAAACTATATGCTCAGAAACGTAAACTCAAAATTATTTTT-CAGGAC
* * * * * *
17785480 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGC
1 CTACTATAGCAAAAACGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGC
17785545 TT
66 TT
17785547 TGATTTTATC
Statistics
Matches: 280, Mismatches: 33, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
249 60 0.21
250 9 0.03
251 70 0.25
252 139 0.50
253 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (249 bp):
CTACTATAGCAAAAACGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGATTTTAAACTATTTGCTCAAAAACGCTAACTCGAAATTATTTTTCCAAGACCAACTG
TAGCAAAAGCGAGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCTGCTTGAAG
CATTGTTTTAAACTATATGCTCAGAAACGTAAACTCAAAATTATTTTTCAGGAC
Found at i:17798532 original size:10 final size:11
Alignment explanation
Indices: 17798517--17798545 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
17798507 AAATAATTCT
17798517 TTTAAAAAA-A
1 TTTAAAAAATA
17798527 TTTAAAAAATA
1 TTTAAAAAATA
17798538 TTTAAAAA
1 TTTAAAAA
17798546 TGCATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TTTAAAAAATA
Found at i:17798704 original size:28 final size:28
Alignment explanation
Indices: 17798673--17798727 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
17798663 TTCTTTGAAA
*
17798673 TAAATATATATAAAATT-TAAAAATTCTT
1 TAAAAATATAT-AAATTATAAAAATTCTT
17798701 TAAAAATATATAAATTATAAAAATTCT
1 TAAAAATATATAAATTATAAAAATTCT
17798728 AAGGATTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (28 bp):
TAAAAATATATAAATTATAAAAATTCTT
Found at i:17802599 original size:12 final size:12
Alignment explanation
Indices: 17802582--17802633 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
17802572 AAGCTTTTTC
17802582 TTTTAGAAGTTG
1 TTTTAGAAGTTG
*
17802594 TTTTAGAAGCTG
1 TTTTAGAAGTTG
* *
17802606 TTTTA-ACA-ATC
1 TTTTAGA-AGTTG
17802617 TTTTAGAAGTTG
1 TTTTAGAAGTTG
17802629 TTTTA
1 TTTTA
17802634 ACAATATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 8 0.25
12 24 0.75
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.50
Consensus pattern (12 bp):
TTTTAGAAGTTG
Found at i:17802621 original size:23 final size:23
Alignment explanation
Indices: 17802594--17802645 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
17802584 TTAGAAGTTG
*
17802594 TTTTAGAAGCTGTTTTAACAATC
1 TTTTAGAAGCTGTTTTAACAATA
*
17802617 TTTTAGAAGTTGTTTTAACAATA
1 TTTTAGAAGCTGTTTTAACAATA
17802640 TTTTAG
1 TTTTAG
17802646 GTTGTGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (23 bp):
TTTTAGAAGCTGTTTTAACAATA
Found at i:17805835 original size:19 final size:20
Alignment explanation
Indices: 17805798--17805836 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17805788 GTGATTTTTG
* *
17805798 GAAAAATTAATTTCGATCAA
1 GAAAAATTAAGTTCAATCAA
17805818 GAAAAATTAAGTT-AATCAA
1 GAAAAATTAAGTTCAATCAA
17805837 ATTAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (20 bp):
GAAAAATTAAGTTCAATCAA
Found at i:17806232 original size:17 final size:17
Alignment explanation
Indices: 17806215--17806247 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17806205 ATAATATTAT
17806215 TTTAA-TAAATTTAATA
1 TTTAATTAAATTTAATA
*
17806231 TTTAATTTAATTTAATA
1 TTTAATTAAATTTAATA
17806248 CTTATCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAATTAAATTTAATA
Found at i:17815617 original size:26 final size:26
Alignment explanation
Indices: 17815579--17815628 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
17815569 GGAATAAATT
**
17815579 GAAGAAATTGACGTGAAAAAAAGAGA
1 GAAGAAAAAGACGTGAAAAAAAGAGA
*
17815605 GAAGAAAAAGACGTGAAAAGAAGA
1 GAAGAAAAAGACGTGAAAAAAAGA
17815629 TGGGTATCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.60, C:0.04, G:0.28, T:0.08
Consensus pattern (26 bp):
GAAGAAAAAGACGTGAAAAAAAGAGA
Found at i:17815677 original size:6 final size:6
Alignment explanation
Indices: 17815666--17815692 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17815656 TTCCTATTTC
17815666 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
17815693 GAAGATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:17822236 original size:13 final size:13
Alignment explanation
Indices: 17822220--17822253 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17822210 TGTGGTACAT
17822220 GACCGTGTGGGCA
1 GACCGTGTGGGCA
* *
17822233 GACCATGTGGGTA
1 GACCGTGTGGGCA
17822246 GACCGTGT
1 GACCGTGT
17822254 AACTCTCTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.41, T:0.21
Consensus pattern (13 bp):
GACCGTGTGGGCA
Found at i:17833791 original size:16 final size:16
Alignment explanation
Indices: 17833770--17833801 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17833760 GTTTTGTTGC
*
17833770 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
17833786 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
17833802 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:17836442 original size:16 final size:16
Alignment explanation
Indices: 17836421--17836454 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
17836411 TTGGGTTGAG
*
17836421 AAAATTATTTAATTAA
1 AAAATTAATTAATTAA
17836437 AAAATTAATTAATTAA
1 AAAATTAATTAATTAA
17836453 AA
1 AA
17836455 TTATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTAATTAATTAA
Found at i:17841062 original size:147 final size:147
Alignment explanation
Indices: 17840794--17841089 Score: 463
Period size: 147 Copynumber: 2.0 Consensus size: 147
17840784 GAGGGGATTT
17840794 TATAAAATGGCGCTATTTTTTTTAAAGTAAAATTAATTTTTGTGGCGTTTTTTATAAAACGCCGC
1 TATAAAATGGCGCTATTTTTTTTAAAGTAAAATTAATTTTTGTGGCGTTTTTTATAAAACGCCGC
* * * * *
17840859 TATTTCTTACATTTTGCGGTGTTTTTGTGAAAAAATGCTGCAACAAATTATTTCATTTGGAATAA
66 TATTGCTTACATTTTGCGGTGTTTTTAT-AAAAAACGCCGCAAAAAATTATTTCATTTGGAATAA
17840924 AACGACACTGTTTTGCTA
130 AACGACACTGTTTTGCTA
* *
17840942 TATAAAATGGCGCTA-TTTTTTTAAAGTAAAATTATTTTTTGTGTCG-TTTTTATAAAAACGCCG
1 TATAAAATGGCGCTATTTTTTTTAAAGTAAAATTAATTTTTGTGGCGTTTTTTAT-AAAACGCCG
*
17841005 CTATTGCTTACCTTTTGCGGTGTTTTTCAT-AAAAACGCCGCAAAAAAATTATTTCATTTGGAAT
65 CTATTGCTTACATTTTGCGGTGTTTTT-ATAAAAAACGCCGC-AAAAAATTATTTCATTTGGAAT
17841069 AAAACGACACTGTTTTGCTA
128 AAAACGACACTGTTTTGCTA
17841089 T
1 T
17841090 GCTAAAAATC
Statistics
Matches: 137, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
146 16 0.12
147 105 0.77
148 16 0.12
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (147 bp):
TATAAAATGGCGCTATTTTTTTTAAAGTAAAATTAATTTTTGTGGCGTTTTTTATAAAACGCCGC
TATTGCTTACATTTTGCGGTGTTTTTATAAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAA
ACGACACTGTTTTGCTA
Found at i:17841917 original size:14 final size:14
Alignment explanation
Indices: 17841894--17841946 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
17841884 ACTAACTCTT
*
17841894 AACCCTAAACCACA
1 AACCCCAAACCACA
*
17841908 AACCCCAAACCCCA
1 AACCCCAAACCACA
* * *
17841922 AACTCCTAACCACT
1 AACCCCAAACCACA
*
17841936 AACCCTAAACC
1 AACCCCAAACC
17841947 TTATTTAATT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.43, C:0.47, G:0.00, T:0.09
Consensus pattern (14 bp):
AACCCCAAACCACA
Found at i:17841918 original size:21 final size:20
Alignment explanation
Indices: 17841894--17841946 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
17841884 ACTAACTCTT
*
17841894 AACCCTAAACCACAAACCCCA
1 AACCCTAAACC-CAAACCACA
* * *
17841915 AACCCCAAACTCCTAACCACT
1 AACCCTAAAC-CCAAACCACA
17841936 AACCCTAAACC
1 AACCCTAAACC
17841947 TTATTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.43, C:0.47, G:0.00, T:0.09
Consensus pattern (20 bp):
AACCCTAAACCCAAACCACA
Found at i:17842192 original size:14 final size:15
Alignment explanation
Indices: 17842175--17842207 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17842165 CTTAAATCAG
*
17842175 AATCCCTGA-TCCAT
1 AATCCCTAATTCCAT
17842189 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
17842204 AATC
1 AATC
17842208 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:17842673 original size:41 final size:40
Alignment explanation
Indices: 17842614--17842769 Score: 177
Period size: 41 Copynumber: 3.8 Consensus size: 40
17842604 AAATGTTTTT
*
17842614 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGCCCAGAGCATTA
* **
17842655 GCGGCGCATCTTGGAAAACGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGCCCAGAGCATTA
** ** *
17842696 GCGATGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTT-CAAAAACGCCGCTAAAGCCCAGAGCATTA
*
17842737 GCGGCGCTTTTTTTAAAAACGCCGCTAAAGCCC
1 GCGGCGC--TTTTCAAAAACGCCGCTAAAGCCC
17842770 TGAAAGGTAG
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
40 3 0.03
41 70 0.74
42 17 0.18
43 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
GCGGCGCTTTTCAAAAACGCCGCTAAAGCCCAGAGCATTA
Found at i:17855207 original size:43 final size:43
Alignment explanation
Indices: 17855156--17855249 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
17855146 GAGTCCTCAG
* * * *
17855156 TGCATCATCAGATAAACCGAAGCAAATATATTGGCACACATAA
1 TGCATCATCAAACAAACCGAAGCAAATATACTGACACACATAA
* *
17855199 TGTATCATCAAACAAACCGAAGCAAATATACTGACACACATAG
1 TGCATCATCAAACAAACCGAAGCAAATATACTGACACACATAA
17855242 TGCATCAT
1 TGCATCAT
17855250 TGGAAAAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.21
Consensus pattern (43 bp):
TGCATCATCAAACAAACCGAAGCAAATATACTGACACACATAA
Found at i:17855832 original size:9 final size:9
Alignment explanation
Indices: 17855818--17855844 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
17855808 TACATCCAAG
17855818 TTTAATTTA
1 TTTAATTTA
17855827 TTTAATTTA
1 TTTAATTTA
17855836 TTTAATTTA
1 TTTAATTTA
17855845 GTCCCTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTAATTTA
Found at i:17859024 original size:18 final size:19
Alignment explanation
Indices: 17859003--17859038 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17858993 ATAGATTTCC
17859003 TTTTATTTTTTG-ATTTTA
1 TTTTATTTTTTGCATTTTA
*
17859021 TTTTCTTTTTTGCATTTT
1 TTTTATTTTTTGCATTTT
17859039 TCGGCTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.78
Consensus pattern (19 bp):
TTTTATTTTTTGCATTTTA
Found at i:17861561 original size:24 final size:23
Alignment explanation
Indices: 17861530--17861575 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17861520 ATATGCGATT
* * *
17861530 CAAAAATTTTATGTTCCTTTCAC
1 CAAAAAATTTACGTTCCATTCAC
17861553 CAAAAAATTTACGTTCCATTCAC
1 CAAAAAATTTACGTTCCATTCAC
17861576 ATTGAAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (23 bp):
CAAAAAATTTACGTTCCATTCAC
Found at i:17861751 original size:24 final size:25
Alignment explanation
Indices: 17861698--17861757 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
17861688 TGGAATGATT
* *
17861698 TTTATATATTTTTTCTTTTACTAGCA
1 TTTATATA-TTTTTATTTTACTAGAA
*
17861724 -TTATATATTTTTATTTTATTA-AA
1 TTTATATATTTTTATTTTACTAGAA
*
17861747 TTTATAGATTT
1 TTTATATATTT
17861758 AAGTAACTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 21 0.72
25 7 0.24
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.63
Consensus pattern (25 bp):
TTTATATATTTTTATTTTACTAGAA
Found at i:17861843 original size:25 final size:26
Alignment explanation
Indices: 17861776--17861840 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 26
17861766 TGATTTTTTA
* *
17861776 ATAA-TTATAATATAATACAAAATAT
1 ATAATTTATAATATAATATAAAATAC
* * * *
17861801 TTAATTT-TCATATGATATAAATTAC
1 ATAATTTATAATATAATATAAAATAC
17861826 ATAATTTATAATATA
1 ATAATTTATAATATA
17861841 TATTAGGATA
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (26 bp):
ATAATTTATAATATAATATAAAATAC
Found at i:17870748 original size:37 final size:37
Alignment explanation
Indices: 17870698--17870771 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
17870688 GTGGAAAATA
17870698 GATGCTTCAGTTATAAGGTGGAAATATTATTTGCATC
1 GATGCTTCAGTTATAAGGTGGAAATATTATTTGCATC
17870735 GATGCTTCAGTTATAAGGTGGAAATATTATTTGCATC
1 GATGCTTCAGTTATAAGGTGGAAATATTATTTGCATC
17870772 TACTTTCTCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (37 bp):
GATGCTTCAGTTATAAGGTGGAAATATTATTTGCATC
Found at i:17871560 original size:18 final size:18
Alignment explanation
Indices: 17871533--17871567 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17871523 TCCAACTCAT
*
17871533 CATCTTCATCTCCACCTC
1 CATCTCCATCTCCACCTC
*
17871551 CATCTCCATCTCTACCT
1 CATCTCCATCTCCACCT
17871568 TAATCTAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.49, G:0.00, T:0.34
Consensus pattern (18 bp):
CATCTCCATCTCCACCTC
Found at i:17872054 original size:5 final size:5
Alignment explanation
Indices: 17872044--17872074 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
17872034 GCATAGGCTC
17872044 AATCA AATCA AATCA AATCA AATCA AA-CA AA
1 AATCA AATCA AATCA AATCA AATCA AATCA AA
17872075 AAAACTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (5 bp):
AATCA
Found at i:17872396 original size:6 final size:6
Alignment explanation
Indices: 17872370--17872409 Score: 62
Period size: 6 Copynumber: 6.3 Consensus size: 6
17872360 GTTAAATGAA
17872370 TTCATT TCTCATT TCTCATT TTCATT TTCATT TTCATT TT
1 TTCATT T-TCATT T-TCATT TTCATT TTCATT TTCATT TT
17872410 TGAGAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 20 0.61
7 13 0.39
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (6 bp):
TTCATT
Found at i:17873883 original size:97 final size:96
Alignment explanation
Indices: 17873741--17873934 Score: 361
Period size: 97 Copynumber: 2.0 Consensus size: 96
17873731 ATGTATGAAA
17873741 CAACACAAATCAACCCCAACAAATACCTTGATTGTCGTCCAACCCCTTGCATGATTCATGCATGA
1 CAACACAAATCAACCCCAACAAATACCTTGATTGTCGTCCAACCCCTTGCATGATTCATGCATGA
*
17873806 AATCAAGCATGAATCAAGTAACCACTTAATC
66 AATCAAGCATGAATCAAGCAACCACTTAATC
17873837 CAACACAAATCAACCCCCAACAAATACCTTGATTGTCGTCCAACCCCTTGCATGATTCATGCATG
1 CAACACAAATCAA-CCCCAACAAATACCTTGATTGTCGTCCAACCCCTTGCATGATTCATGCATG
*
17873902 AAATCAAGCATGAATCAAGCAACCGCTTAATC
65 AAATCAAGCATGAATCAAGCAACCACTTAATC
17873934 C
1 C
17873935 TCATCCCACA
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 13 0.14
97 82 0.86
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.22
Consensus pattern (96 bp):
CAACACAAATCAACCCCAACAAATACCTTGATTGTCGTCCAACCCCTTGCATGATTCATGCATGA
AATCAAGCATGAATCAAGCAACCACTTAATC
Found at i:17882543 original size:17 final size:17
Alignment explanation
Indices: 17882521--17882570 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
17882511 TCCCAGATTT
17882521 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
17882538 TGATACCGATATCTTTC
1 TGATACCCATATCTTTC
17882555 TGATACCCATATCTTT
1 TGATACCCATATCTTT
17882571 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.08, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:17889214 original size:6 final size:6
Alignment explanation
Indices: 17889203--17889242 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
17889193 ATTGAATTTG
17889203 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
17889243 TAGATTTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:17897237 original size:18 final size:18
Alignment explanation
Indices: 17897214--17897249 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17897204 TTCTTGTTGA
17897214 AAAATAATTAAATATTAT
1 AAAATAATTAAATATTAT
*
17897232 AAAATAATTAAATTTTAT
1 AAAATAATTAAATATTAT
17897250 TACAAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATAATTAAATATTAT
Found at i:17905412 original size:16 final size:15
Alignment explanation
Indices: 17905387--17905418 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
17905377 ATTGTTGTGG
17905387 TAGCTAATAATGACA
1 TAGCTAATAATGACA
17905402 TAGCTTAATAATGACA
1 TAGC-TAATAATGACA
17905418 T
1 T
17905419 GAAATGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (15 bp):
TAGCTAATAATGACA
Found at i:17914395 original size:6 final size:6
Alignment explanation
Indices: 17914377--17914421 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
17914367 TGCAAATGAA
* *
17914377 TCATTT CTCATTT TCATTT TCATTT TCAATTT CCATTT CCATTT T
1 TCATTT -TCATTT TCATTT TCATTT TC-ATTT TCATTT TCATTT T
17914422 GAGAAAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
6 24 0.69
7 11 0.31
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (6 bp):
TCATTT
Found at i:17914401 original size:12 final size:12
Alignment explanation
Indices: 17914377--17914421 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
17914367 TGCAAATGAA
17914377 TCATTTCTCATTT
1 TCATTT-TCATTT
17914390 TCATTTTCATTT
1 TCATTTTCATTT
*
17914402 TCAATTTCCATTT
1 TC-ATTTTCATTT
*
17914415 CCATTTT
1 TCATTTT
17914422 GAGAAAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTTCATTT
Found at i:17914401 original size:19 final size:19
Alignment explanation
Indices: 17914377--17914421 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
17914367 TGCAAATGAA
*
17914377 TCATTTCTC-ATTTTCATTT
1 TCATTT-TCAATTTCCATTT
17914396 TCATTTTCAATTTCCATTT
1 TCATTTTCAATTTCCATTT
*
17914415 CCATTTT
1 TCATTTT
17914422 GAGAAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (19 bp):
TCATTTTCAATTTCCATTT
Found at i:17914535 original size:21 final size:19
Alignment explanation
Indices: 17914492--17914539 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
17914482 CATTTCTGAA
17914492 TATTTTTCATTTCTCTCTT
1 TATTTTTCATTTCTCTCTT
*
17914511 TATTTTTCATTTCTCTATT
1 TATTTTTCATTTCTCTCTT
*
17914530 T-TTATTCATT
1 TATTTTTCATT
17914540 ATGTTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTTTTCATTTCTCTCTT
Found at i:17927836 original size:93 final size:96
Alignment explanation
Indices: 17927703--17927882 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 96
17927693 TGTTTATTGT
* * * *
17927703 TTTTTAAGAAAAAATCAATTAAATTAGGATTTAGGGTTACTTGAGTAATTTAATTA-AAAAATTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGATTCAAGGTTACTTGAGTAAATTAATTATAAAAATTT
17927767 -AAAAATTAGATTAGGGTTTAGAGTTAAAGG
66 AAAAAATTAGATTAGGGTTTAGAGTTAAAGG
* * **
17927797 TTTTTAAG-GAAAATCAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGATTCAAGGTTACTTGAGTAAATTAATTATAAAAATTT
17927861 AAAAAATTAGATTAGGGTTTAG
66 AAAAAATTAGATTAGGGTTTAG
17927883 GGTTTTTAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
93 41 0.54
94 14 0.18
95 21 0.28
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.38
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGATTCAAGGTTACTTGAGTAAATTAATTATAAAAATTT
AAAAAATTAGATTAGGGTTTAGAGTTAAAGG
Found at i:17928494 original size:18 final size:18
Alignment explanation
Indices: 17928468--17928510 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17928458 GACTAGAAAA
* * *
17928468 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
17928486 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
17928504 AGGATAC
1 AGGATAC
17928511 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:17929175 original size:7 final size:7
Alignment explanation
Indices: 17929165--17929190 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17929155 CATAATACAT
17929165 AATACTA
1 AATACTA
17929172 AATACTA
1 AATACTA
17929179 AATACTA
1 AATACTA
17929186 AATAC
1 AATAC
17929191 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:17930382 original size:11 final size:11
Alignment explanation
Indices: 17930366--17930400 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
17930356 TTTTTTAAAT
17930366 AGGAATTTGAG
1 AGGAATTTGAG
*
17930377 AGGAATTTGAA
1 AGGAATTTGAG
17930388 AGGAATTTGAG
1 AGGAATTTGAG
17930399 AG
1 AG
17930401 AATAATAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:17933381 original size:23 final size:23
Alignment explanation
Indices: 17933351--17933394 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
17933341 GGGAAAGATA
*
17933351 AGTTCTTTCTTATCTTTCTCATG
1 AGTTCTTTCTCATCTTTCTCATG
17933374 AGTTCTTTCTCATCTTTCTCA
1 AGTTCTTTCTCATCTTTCTCA
17933395 CGAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.25, G:0.07, T:0.55
Consensus pattern (23 bp):
AGTTCTTTCTCATCTTTCTCATG
Found at i:17933406 original size:2 final size:2
Alignment explanation
Indices: 17933399--17933426 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17933389 TTCTCACGAA
17933399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17933427 CAATAGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17933701 original size:23 final size:23
Alignment explanation
Indices: 17933671--17933714 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
17933661 GGGAAAGATA
*
17933671 AGTTCTTTCTTATCTTTCTCATG
1 AGTTCTTTCTCATCTTTCTCATG
17933694 AGTTCTTTCTCATCTTTCTCA
1 AGTTCTTTCTCATCTTTCTCA
17933715 CGAAAGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.25, G:0.07, T:0.55
Consensus pattern (23 bp):
AGTTCTTTCTCATCTTTCTCATG
Found at i:17940284 original size:12 final size:12
Alignment explanation
Indices: 17940267--17940291 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17940257 CTGGTCTGGA
17940267 AGCTGCTTCAAC
1 AGCTGCTTCAAC
17940279 AGCTGCTTCAAC
1 AGCTGCTTCAAC
17940291 A
1 A
17940292 ATGAGGGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (12 bp):
AGCTGCTTCAAC
Found at i:17940455 original size:22 final size:21
Alignment explanation
Indices: 17940392--17940455 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
17940382 TTGCTTCCTT
*
17940392 AACACGCTCCAGGATTTCTTG
1 AACACGCTCCAGGATTTCTTC
* * *
17940413 TACATGCTTCAGGATTTCTTC
1 AACACGCTCCAGGATTTCTTC
*
17940434 AACGCGCTCCAGGATTTTCTTC
1 AACACGCTCCAGGA-TTTCTTC
17940456 TGCAGTTCAG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (21 bp):
AACACGCTCCAGGATTTCTTC
Found at i:17946149 original size:20 final size:20
Alignment explanation
Indices: 17946124--17946162 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17946114 CACGTGGGAT
17946124 GAATGTCT-TCGATGGGACAA
1 GAATGTCTGT-GATGGGACAA
17946144 GAATGTCTGTGATGGGACA
1 GAATGTCTGTGATGGGACA
17946163 GATATTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (20 bp):
GAATGTCTGTGATGGGACAA
Found at i:17948138 original size:22 final size:22
Alignment explanation
Indices: 17948106--17948147 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17948096 TATATAAGCA
* *
17948106 ATATTATTTGAATAGTTATGAG
1 ATATTAGTTGAATAATTATGAG
17948128 ATATTAGTTGAATAATTATG
1 ATATTAGTTGAATAATTATG
17948148 TCACTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (22 bp):
ATATTAGTTGAATAATTATGAG
Found at i:17953347 original size:60 final size:62
Alignment explanation
Indices: 17953205--17953383 Score: 238
Period size: 60 Copynumber: 2.9 Consensus size: 62
17953195 TTAAATTCTG
* * *
17953205 CTTATAGAACTCAAAAAATACATTCGGCTAACATATTTATATAATTTATAAAATTTGTTTCAA
1 CTTATAGAACTCAAAACATACATTCGGCTAACATATTTATAT-ATTCATAAAATTAGTTTCAA
* * *
17953268 CTCATAGAACTCAAAACATACACT-GGCTAACATATTTATAT-TTCATACAATTAGTTTCAA
1 CTTATAGAACTCAAAACATACATTCGGCTAACATATTTATATATTCATAAAATTAGTTTCAA
* *
17953328 CTTATCA-AACTTAAAACATACATTCAGCTAACATATTTATATAATTCATAAAATTA
1 CTTAT-AGAACTCAAAACATACATTCGGCTAACATATTTATAT-ATTCATAAAATTA
17953384 AATCCAGCTT
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
60 35 0.35
61 17 0.17
62 17 0.17
63 32 0.32
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (62 bp):
CTTATAGAACTCAAAACATACATTCGGCTAACATATTTATATATTCATAAAATTAGTTTCAA
Found at i:17953395 original size:63 final size:63
Alignment explanation
Indices: 17953153--17953398 Score: 248
Period size: 63 Copynumber: 3.9 Consensus size: 63
17953143 TCTTCGTAGC
* * * * **
17953153 AAACATACATTCAGATACCATATATATATGTAATTCATACAATTAAATTCTGCTTATAGAACTCA
1 AAACATACATTCAGCTAACATAT-T-TATATAATTCATAAAATTAAATTCAACTTATAGAACTCA
* * * *** *
17953218 AAAAATACATTCGGCTAACATATTTATATAATTTATAAAATTTGTTTCAACTCATAGAACTCA
1 AAACATACATTCAGCTAACATATTTATATAATTCATAAAATTAAATTCAACTTATAGAACTCA
* * * ** *
17953281 AAACATACACT-GGCTAACATATTTATAT--TTCATACAATTAGTTTCAACTTATCA-AACTTA
1 AAACATACATTCAGCTAACATATTTATATAATTCATAAAATTAAATTCAACTTAT-AGAACTCA
* *
17953341 AAACATACATTCAGCTAACATATTTATATAATTCATAAAATTAAATCCAGCTTATAGA
1 AAACATACATTCAGCTAACATATTTATATAATTCATAAAATTAAATTCAACTTATAGA
17953399 CCATATATAT
Statistics
Matches: 149, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
60 35 0.23
61 17 0.11
62 18 0.12
63 59 0.40
64 1 0.01
65 19 0.13
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (63 bp):
AAACATACATTCAGCTAACATATTTATATAATTCATAAAATTAAATTCAACTTATAGAACTCA
Found at i:17955635 original size:2 final size:2
Alignment explanation
Indices: 17955628--17955658 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17955618 TTCATTAACA
17955628 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17955659 AACATAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.