Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 59 of 320
Found at i:17432563 original size:15 final size:15
Alignment explanation
Indices: 17432543--17432580 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
17432533 CACAATCGCA
17432543 ACAAGTAATAAAGTG
1 ACAAGTAATAAAGTG
17432558 ACAAGTAATAAAGTG
1 ACAAGTAATAAAGTG
17432573 ACAAGTAA
1 ACAAGTAA
17432581 ATGTCGAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.55, C:0.08, G:0.18, T:0.18
Consensus pattern (15 bp):
ACAAGTAATAAAGTG
Found at i:17447892 original size:28 final size:26
Alignment explanation
Indices: 17447861--17447924 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
17447851 AATTACTTGA
* *
17447861 ATACCCCTATGTATGGAAAATTACTATT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
17447889 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
17447915 ATACCCCTAG
1 ATACCCCTAG
17447925 GGTTGCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 23 0.70
27 1 0.03
28 9 0.27
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:17448071 original size:27 final size:26
Alignment explanation
Indices: 17448029--17448140 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
17448019 AGGAAGCGTC
17448029 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* * *
17448056 CTGGTGGCTTTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* *
17448083 TTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTATGCCAC-ATTATCTG-AT
* * * *
17448111 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACATTATCTGAT
17448137 CTGG
1 CTGG
17448141 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.68
28 16 0.23
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:17448133 original size:54 final size:54
Alignment explanation
Indices: 17448030--17448136 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
17448020 GGAAGCGTCC
* *
17448030 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTACCACATATATCTGTTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTTT
* * **
17448084 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
17448137 CTGGCAGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 30 0.65
55 16 0.35
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTTT
Found at i:17449122 original size:16 final size:16
Alignment explanation
Indices: 17449101--17449132 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17449091 AATGGGTTTA
*
17449101 CAAAAACAAAGATTTT
1 CAAAAACAAAAATTTT
17449117 CAAAAACAAAAATTTT
1 CAAAAACAAAAATTTT
17449133 ATAAAGATTG
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:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
CAAAAACAAAAATTTT
Found at i:17453137 original size:41 final size:41
Alignment explanation
Indices: 17453081--17453265 Score: 298
Period size: 41 Copynumber: 4.5 Consensus size: 41
17453071 TATTCGGGCT
* * * *
17453081 TTATTACCTACCAGGCTTTGTGCTGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
*
17453122 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
*
17453163 TTATTGCCTAGCAGGCTTTGTGCCGGTGTTTTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* *
17453204 TTATTACCTAGCAGGCTTTGTGCCGATGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
17453245 TTATTGCCTAGCAGGCTTTGT
1 TTATTGCCTAGCAGGCTTTGT
17453266 AGCAGGCTTT
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
Found at i:17453270 original size:12 final size:12
Alignment explanation
Indices: 17453253--17453277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17453243 GCTTATTGCC
17453253 TAGCAGGCTTTG
1 TAGCAGGCTTTG
17453265 TAGCAGGCTTTG
1 TAGCAGGCTTTG
17453277 T
1 T
17453278 GCCGGTGTAT
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:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (12 bp):
TAGCAGGCTTTG
Found at i:17453278 original size:94 final size:94
Alignment explanation
Indices: 17453171--17453523 Score: 392
Period size: 84 Copynumber: 4.0 Consensus size: 94
17453161 GCTTATTGCC
* * *
17453171 TAGCAGGCTTTGTGCCGGTGTTTTAAATCAGGCTTATTACCTAGCAGGCTTTGTGCCGATGTATT
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGATGTATT
17453236 AAATCAGGCTTATTGCCTAGCAGGCTTTG
66 AAATCAGGCTTATTGCCTAGCAGGCTTTG
* *
17453265 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGCTTTGTGCCGGTGTATT
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGATGTATT
* *
17453330 ATATCAGGCTTATTGCCTAACAGGC---G
66 AAATCAGGCTTATTGCCTAGCAGGCTTTG
* *
17453356 T-------TATGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTGCCGATGTATT
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGATGTATT
17453414 AAATCAGGCTTA-T---T-----GC---G
66 AAATCAGGCTTATTGCCTAGCAGGCTTTG
* *
17453431 TAGTAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTATATGCCCG-TGT
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGC-TT-TGTG-CCGATGT
* * *
17453495 ATTATATCAGGCTTATTTCCTAGTAGGCT
63 ATTAAATCAGGCTTATTGCCTAGCAGGCT
17453524 CTGTGCCGGT
Statistics
Matches: 223, Mismatches: 16, Indels: 40
0.80 0.06 0.14
Matches are distributed among these distances:
75 4 0.02
80 1 0.00
82 40 0.18
83 2 0.01
84 84 0.38
85 4 0.02
88 1 0.00
91 2 0.01
93 2 0.01
94 83 0.37
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (94 bp):
TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGATGTATT
AAATCAGGCTTATTGCCTAGCAGGCTTTG
Found at i:17453287 original size:53 final size:53
Alignment explanation
Indices: 17453212--17453318 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
17453202 GCTTATTACC
*
17453212 TAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAGCAGGCTTTG
1 TAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAACAGGCTTTG
* *
17453265 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGCTTTG
1 TAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAACAGGCTTTG
17453318 T
1 T
17453319 GCCGGTGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (53 bp):
TAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAACAGGCTTTG
Found at i:17453315 original size:41 final size:41
Alignment explanation
Indices: 17453265--17453560 Score: 416
Period size: 41 Copynumber: 7.1 Consensus size: 41
17453255 GCAGGCTTTG
17453265 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
*
17453306 TAACAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
*
17453347 TAACAGGCGTTATGTGCCGGTGTATTATATCAGGCTTATTGCC
1 TAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGCTTATTGCC
* * * *
17453390 TAGCAGGCTCTGTGCCGATGTATTAAATCAGGCTTATTGCG
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
*
17453431 TAGTAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
* * *
17453472 TAGCAGGCTTTATATGCCCGTGTATTATATCAGGCTTATTTCC
1 TAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGCTTATTGCC
* *
17453515 TAGTAGGCTCTGTGCCGGTGTATTATA-CTAGGCTCTA-TGCC
1 TAGCAGGCTTTGTGCCGGTGTATTATATC-AGGCT-TATTGCC
17453556 TAGCA
1 TAGCA
17453561 AATTTTATGT
Statistics
Matches: 228, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.00
41 146 0.64
42 8 0.04
43 73 0.32
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (41 bp):
TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCC
Found at i:17453372 original size:84 final size:82
Alignment explanation
Indices: 17453265--17453560 Score: 416
Period size: 84 Copynumber: 3.6 Consensus size: 82
17453255 GCAGGCTTTG
*
17453265 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGCTTTGTGCCGGTGTATT
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
17453330 ATATCAGGCTTATTGCC
66 ATATCAGGCTTATTGCC
* * *
17453347 TAACAGGCGTTATGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTGCCGATGTA
1 TAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTA
* *
17453412 TTAAATCAGGCTTATTGCG
64 TTATATCAGGCTTATTGCC
* * *
17453431 TAGTAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTATATGCCCGTGTA
1 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGC-TT-TGTGCCGGTGTA
*
17453496 TTATATCAGGCTTATTTCC
64 TTATATCAGGCTTATTGCC
* *
17453515 TAGTAGGCTCTGTGCCGGTGTATTATA-CTAGGCTCTA-TGCCTAGCA
1 TAGCAGGCTTTGTGCCGGTGTATTATATC-AGGCT-TATTGCCTAGCA
17453561 AATTTTATGT
Statistics
Matches: 192, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
82 46 0.24
83 6 0.03
84 138 0.72
85 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (82 bp):
TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATT
ATATCAGGCTTATTGCC
Found at i:17453469 original size:219 final size:217
Alignment explanation
Indices: 17453081--17453482 Score: 678
Period size: 219 Copynumber: 1.8 Consensus size: 217
17453071 TATTCGGGCT
* * *
17453081 TTATTACCTACCAGGCTTTGTGCTGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCC
1 TTATTACCTAACAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGCTTTGTGCC
* * *
17453146 GGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTTTTAAATCAGGCTTATTAC
66 GGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTGCCGATGTATTAAATCAGGCTTATTAC
17453211 CTAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAGCAGGCTTTGTAGCAGGCTTT
131 CTAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAGCAGGCTTTGTAGCAGGCTTT
17453276 GTGCCGGTGTATTATATCAGGC
196 GTGCCGGTGTATTATATCAGGC
*
17453298 TTATTGCCTAACAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGCGTTATGTG
1 TTATTACCTAACAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGC-TT-TGTG
17453363 CCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTGCCGATGTATTAAATCAGGCTTATT
64 CCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTGCCGATGTATTAAATCAGGCTTATT
* * * * *
17453428 GCGTAGTAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTT
129 ACCTAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAGCAGGCTTT
17453483 ATATGCCCGT
Statistics
Matches: 171, Mismatches: 12, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
217 53 0.31
218 2 0.01
219 116 0.68
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (217 bp):
TTATTACCTAACAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGCTTTGTGCC
GGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTGCCGATGTATTAAATCAGGCTTATTAC
CTAGCAGGCTTTGTGCCGATGTATTAAATCAGGCTTATTGCCTAGCAGGCTTTGTAGCAGGCTTT
GTGCCGGTGTATTATATCAGGC
Found at i:17453548 original size:125 final size:125
Alignment explanation
Indices: 17453265--17453557 Score: 446
Period size: 125 Copynumber: 2.3 Consensus size: 125
17453255 GCAGGCTTTG
*
17453265 TAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGCTTTGTGCCGGTGTATT
1 TAGCAGGCTCTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGCTTTGTGCCGGTGTATT
* *
17453330 ATATCAGGCTTATTGCCTAACAGGCGTTATGTGCCGGTGTATTATATCAGGCTTATTGCC
66 ATATCAGGCTTATTGCCTAACAGGCGTTATATGCCCGTGTATTATATCAGGCTTATTGCC
* * * **
17453390 TAGCAGGCTCTGTGCCGATGTATTAAATCAGGCTTATTGCGTAGTAGGCTTTGTGCCGGTGTATT
1 TAGCAGGCTCTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGCTTTGTGCCGGTGTATT
* * *
17453455 ATATCAGGCTTATTGCCTAGCAGGCTTTATATGCCCGTGTATTATATCAGGCTTATTTCC
66 ATATCAGGCTTATTGCCTAACAGGCGTTATATGCCCGTGTATTATATCAGGCTTATTGCC
*
17453515 TAGTAGGCTCTGTGCCGGTGTATTATA-CTAGGCTCTA-TGCCTA
1 TAGCAGGCTCTGTGCCGGTGTATTATATC-AGGCT-TATTGCCTA
17453558 GCAAATTTTA
Statistics
Matches: 151, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
124 1 0.01
125 148 0.98
126 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (125 bp):
TAGCAGGCTCTGTGCCGGTGTATTATATCAGGCTTATTGCCTAACAGGCTTTGTGCCGGTGTATT
ATATCAGGCTTATTGCCTAACAGGCGTTATATGCCCGTGTATTATATCAGGCTTATTGCC
Found at i:17460147 original size:41 final size:41
Alignment explanation
Indices: 17460101--17460726 Score: 954
Period size: 41 Copynumber: 15.2 Consensus size: 41
17460091 CGGGCTTTAC
17460101 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
* *
17460142 TGCCTAGTAGGCTTTGTGCCGGTGTATTATATTAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
* * * *
17460183 TGCCTAGCAGGCTTTGTGTCGATGTTTTAAATCAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
* *
17460224 TGCCTAGCAGGCTTTGTGCCGGTGTATTAAATTAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
17460265 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
*
17460306 TGCCTAGCAGGCTTTGTGCCGGTGTATTATACCAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
**
17460347 TGCCTAGCAGGCTTTGTTTCGGTGTATTATATCAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
* *
17460388 TGCCTAGCAGGCTTTGTGCCAGTGT-TTAAAATCAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATT-ATATCAGGCTTAT
* *
17460429 TGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGCATAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
*
17460470 TGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
* * *
17460511 TGCCTAGCCGGCTTTGTGCCAGTGTATTATATCAGGCATAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
*
17460552 TGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
* *
17460593 TGCCTAGCCGGCTTTGTGCCAGTGTATTATATCAGGCTTAT
1 TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
*
17460634 TGCCTAGCAGGCTTTATGTGCCGGTGTATTTTATCAGGCTTAT
1 TGCCTAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGCTTAT
*
17460677 TGCCTAGCAGGCTCTGTGCCGGT-TAATTATA-CTAGGCTT-T
1 TGCCTAGCAGGCTTTGTGCCGGTGT-ATTATATC-AGGCTTAT
17460717 ATGCCTAGCA
1 -TGCCTAGCA
17460727 AATTTTATGT
Statistics
Matches: 537, Mismatches: 41, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
40 5 0.01
41 490 0.91
42 5 0.01
43 37 0.07
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (41 bp):
TGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTAT
Found at i:17464423 original size:46 final size:46
Alignment explanation
Indices: 17464348--17464522 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
17464338 TGTAACCCGC
* * * *
17464348 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGGCATTTGCAT
* * *
17464394 CCATGAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * * * *
17464444 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGGCATTTGCAT
17464487 CCATAAGTGAACTC-AGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGA-ACTCAACTCAACGAGTTCGG
17464523 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 26 0.25
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:17464468 original size:93 final size:93
Alignment explanation
Indices: 17464355--17464527 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
17464345 CGCCCATAAG
* * * *
17464355 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATGAGTGAACTC-GAACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAGTGAACTCAG-ACTCAACTC
17464419 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
17464448 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAGTGAACTCAGACTCAACTCA
17464513 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
17464528 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17466945 original size:15 final size:15
Alignment explanation
Indices: 17466920--17466982 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
17466910 AGGAAACTGA
*
17466920 ATAACGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
17466935 ATAGAGAAATCCAAA
1 ATAAAGAAATCCAAG
17466950 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
17466964 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
17466980 ATA
1 ATA
17466983 CGATACTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 1 0.03
15 37 0.93
16 2 0.05
ACGTcount: A:0.59, C:0.16, G:0.13, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:17470063 original size:93 final size:93
Alignment explanation
Indices: 17469904--17470076 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
17469894 CGCCCATAAG
* * * * *
17469904 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAAGAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCAAGAGTGAACTCAGACTCAACTCA
17469969 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
17469997 CGAACTCGAACTCAACTCAATGAGTTCAGACATTTGCATCCATA-AGTGAACTCAGACTCAACTC
1 CGAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCA-AGAGTGAACTCAGACTCAACTC
17470061 AACGAGTTCGGATGCC
65 AACGAGTTCGGATGCC
17470077 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCAAGAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17472494 original size:15 final size:15
Alignment explanation
Indices: 17472469--17472531 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
17472459 AGGAAACTGA
*
17472469 ATAACGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
17472484 ATAGAGAAATCCAAA
1 ATAAAGAAATCCAAG
17472499 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
17472513 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
17472529 ATA
1 ATA
17472532 CGATACTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 1 0.03
15 37 0.93
16 2 0.05
ACGTcount: A:0.59, C:0.16, G:0.13, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:17480452 original size:27 final size:26
Alignment explanation
Indices: 17480414--17480516 Score: 109
Period size: 27 Copynumber: 3.8 Consensus size: 26
17480404 AAGTGTCCTA
*
17480414 GTGGCTAC-GCCACAATTATGTGATCTG
1 GTGGCT-CTGCCAC-ATTATCTGATCTG
*
17480441 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
17480468 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* * *
17480496 GTGACTCTGTCGCATTATCTG
1 GTGGCTCTGCCACATTATCTG
17480517 TTTTGGCAGC
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.05
27 47 0.71
28 16 0.24
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:17480515 original size:54 final size:54
Alignment explanation
Indices: 17480414--17480518 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 54
17480404 AAGTGTCCTA
* *
17480414 GTGGCTACGCCACAATTATGTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
* * *
17480468 GTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCGCAT-TATCTGTT
1 GTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
17480519 TTGGCAGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
53 1 0.02
54 26 0.59
55 17 0.39
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (54 bp):
GTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
Found at i:17481757 original size:38 final size:38
Alignment explanation
Indices: 17481680--17481758 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
17481670 TGGTACTTAA
* *
17481680 AATAAAATTCTAAAATCTAATAAAAATAAAAGTAGTTTT
1 AATAAAAATCTAAAATATAATAAAAATAAAAGTA-TTTT
*
17481719 AATAAAAAT-TAAAATATAAATAATAAATAAATGT-TTTT
1 AATAAAAATCTAAAATAT-AATAA-AAATAAAAGTATTTT
17481757 AA
1 AA
17481759 ACATCTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
38 13 0.37
39 13 0.37
40 9 0.26
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (38 bp):
AATAAAAATCTAAAATATAATAAAAATAAAAGTATTTT
Found at i:17488929 original size:46 final size:44
Alignment explanation
Indices: 17488819--17489029 Score: 187
Period size: 46 Copynumber: 4.6 Consensus size: 44
17488809 ATATATGTGT
17488819 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCATAGC
* *
17488865 CGATACATGTCCCAGACATGTCTTACACTGACTTA-AGTCTCGA-GGC
1 CGATGCATGTCCCAGACATGTCTTACACTGAC--ACA-TCTC-ATAGC
* *
17488911 CGATGCATGACCCAGACATGTCTTACACTAGCACTCATCTCA-ATGC
1 CGATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCATA-GC
* * * * *
17488957 CGATGCCATGTTCCAGACATGGCCTTACACTGGCTC-TCATAATATGTC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACACATC-TCATA-G-C
17489005 CGATGCATGTCCCAGACATGTCTTA
1 CGATGCATGTCCCAGACATGTCTTA
17489030 TACTAGCTCA
Statistics
Matches: 139, Mismatches: 13, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
44 13 0.09
45 18 0.13
46 59 0.42
47 32 0.23
48 17 0.12
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACACATCTCATAGC
Found at i:17491830 original size:11 final size:11
Alignment explanation
Indices: 17491814--17491842 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
17491804 AAATTTTTAA
17491814 ACGAAATTTTC
1 ACGAAATTTTC
17491825 ACGAAATTTTC
1 ACGAAATTTTC
17491836 ACGAAAT
1 ACGAAAT
17491843 CATTTCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (11 bp):
ACGAAATTTTC
Found at i:17497880 original size:1 final size:1
Alignment explanation
Indices: 17497874--17497926 Score: 106
Period size: 1 Copynumber: 53.0 Consensus size: 1
17497864 ATATTTTGTC
17497874 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17497927 TATTGAACAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17500366 original size:47 final size:47
Alignment explanation
Indices: 17500269--17500838 Score: 914
Period size: 47 Copynumber: 12.4 Consensus size: 47
17500259 CAGCCAAGAC
17500269 AGTGTATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
17500315 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
17500362 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17500409 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17500456 AGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17500501 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
17500547 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17500594 AGTG--TATATGTGATAA-GCCTAAT-GCCGATGTGAT-AATGTG-A
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
17500635 AGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
17500680 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17500727 AGTGTATATAT-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
17500773 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
17500820 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
17500839 TCCCGAAGGG
Statistics
Matches: 493, Mismatches: 20, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
41 17 0.03
42 13 0.03
43 22 0.04
44 13 0.03
45 61 0.12
46 117 0.24
47 250 0.51
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:17500369 original size:93 final size:94
Alignment explanation
Indices: 17500269--17500838 Score: 914
Period size: 93 Copynumber: 6.2 Consensus size: 94
17500259 CAGCCAAGAC
* *
17500269 AGTGTATATATGTGATAAGGCCTAAT-GGCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
17500333 GGCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
17500362 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
17500427 GGCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
*
17500456 AGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
17500519 GGCCTAAT-GCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
*
17500547 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
17500610 -GCCTAAT-GCCGATGTGAT-AATGTG-A
66 GGCCTAATGGCCGATGTGATGAATGTGAA
*
17500635 AGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
17500698 GGCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
* * *
17500727 AGTGTATATAT-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * *
17500791 GGCCGAGTGGCCAACGTGATGGATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
* *
17500820 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
17500839 TCCCGAAGGG
Statistics
Matches: 447, Mismatches: 18, Indels: 23
0.92 0.04 0.05
Matches are distributed among these distances:
86 44 0.10
88 16 0.04
89 13 0.03
90 29 0.06
91 42 0.09
92 71 0.16
93 151 0.34
94 81 0.18
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:17500446 original size:22 final size:22
Alignment explanation
Indices: 17500418--17500491 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
17500408 AAGTGTATAT
17500418 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* * ***
17500440 ATGTGATGAATG--TGAAAGTGTAT
1 ATGTGAT-AAGGCCT-AATG-GCCG
17500463 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
17500485 ATGTGAT
1 ATGTGAT
17500492 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:17500744 original size:179 final size:183
Alignment explanation
Indices: 17500275--17500838 Score: 897
Period size: 179 Copynumber: 3.1 Consensus size: 183
17500265 AGACAGTGTA
* *
17500275 TATATGTGATAAGGCCTAATGGCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
1 TATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
17500340 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
66 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
17500405 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
131 TGAAAGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
17500460 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
17500525 AT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAAT
65 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
17500589 GTGAAAGTGTATATGTGATAA-GCCTAAT-GCCGATGTGAT-AATGTG-AAGTG
130 GTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
17500639 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTA
1 TATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
17500704 ATGGCCGATGTGATGAATGTGAAAGTGTATATAT-TGATAAGGCCTAATGGCCGATGTGATGAAT
65 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
* * * * * * *
17500768 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
130 GTGAAAGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
17500824 CATAAATGTGATAAG
1 --TATATGTGATAAG
17500839 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 15, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
179 108 0.31
180 36 0.10
181 21 0.06
182 12 0.03
183 21 0.06
184 5 0.01
185 95 0.27
186 44 0.12
187 12 0.03
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (183 bp):
TATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
TGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:17501013 original size:37 final size:37
Alignment explanation
Indices: 17500957--17501035 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
17500947 CCGAGCTCTA
* *
17500957 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
17500994 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
17501031 AAGAC
1 AAGAC
17501036 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17502933 original size:43 final size:43
Alignment explanation
Indices: 17502885--17502987 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
17502875 TTGGTTTTCA
17502885 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
17502928 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
17502971 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
17502988 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:17503004 original size:29 final size:29
Alignment explanation
Indices: 17502969--17503042 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
17502959 GTTGTGAGAT
* *
17502969 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
17502998 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
17503027 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
17503043 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:17503481 original size:39 final size:40
Alignment explanation
Indices: 17503353--17503546 Score: 175
Period size: 40 Copynumber: 4.9 Consensus size: 40
17503343 TCGAATGATG
** *
17503353 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
17503393 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
17503433 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTA-TGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
17503472 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
** * *
17503512 TCCATGCTAAATCCCGAAGAGCAATCATGCT-GTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
17503547 CGTGTATTCG
Statistics
Matches: 129, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 38 0.29
40 75 0.58
41 16 0.12
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:17503527 original size:40 final size:39
Alignment explanation
Indices: 17503432--17503542 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 39
17503422 GAGTTACTAA
* *
17503432 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTATGATGT
1 ATCCAGGCTAAGTCCCGAAGAGCATTCATGCTATGATAT
* *
17503471 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCAGGCTAAGTCCCGAAGAGCATTCATGCTA-TGATAT
* * *
17503511 ATCCATGCTAAATCCCGAAGAGCAATCATGCT
1 ATCCAGGCTAAGTCCCGAAGAGCATTCATGCT
17503543 GTGACGTGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 32 0.50
40 32 0.50
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (39 bp):
ATCCAGGCTAAGTCCCGAAGAGCATTCATGCTATGATAT
Found at i:17507135 original size:47 final size:47
Alignment explanation
Indices: 17507074--17507562 Score: 816
Period size: 47 Copynumber: 10.4 Consensus size: 47
17507064 CAGCCAAGAC
17507074 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
17507121 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
17507168 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
17507215 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17507262 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
17507309 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
17507356 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
17507403 AGTGTATATATGTAATAAGGCCTAATGGGCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17507450 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
17507497 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
17507544 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
17507563 TCCTGAAGGG
Statistics
Matches: 419, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 419 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:17507737 original size:37 final size:37
Alignment explanation
Indices: 17507681--17507759 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
17507671 CCGAGCTCTA
* *
17507681 AAGACCCGATGACTACGTGT-GAGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
17507718 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
17507755 AAGAC
1 AAGAC
17507760 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17512879 original size:41 final size:41
Alignment explanation
Indices: 17512817--17512917 Score: 159
Period size: 41 Copynumber: 2.5 Consensus size: 41
17512807 TGGAGATAGC
* * *
17512817 GATTTAGGCTTTGTACCTAGCA-GTTTTAGTGCTGGTGTATT
1 GATTCAGGCTTTGTGCCTAGCAGGTTTT-GTGCCGGTGTATT
17512858 GATTCAGGCTTTGTGCCTAGCAGGTTTTGTGCCGGTGTATT
1 GATTCAGGCTTTGTGCCTAGCAGGTTTTGTGCCGGTGTATT
17512899 GATTCAGGCTTTGTGCCTA
1 GATTCAGGCTTTGTGCCTA
17512918 CCAAGCTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 51 0.91
42 5 0.09
ACGTcount: A:0.15, C:0.16, G:0.29, T:0.41
Consensus pattern (41 bp):
GATTCAGGCTTTGTGCCTAGCAGGTTTTGTGCCGGTGTATT
Found at i:17521914 original size:17 final size:18
Alignment explanation
Indices: 17521884--17521917 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17521874 AATTTCTATT
17521884 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
17521902 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
17521918 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:17522380 original size:22 final size:20
Alignment explanation
Indices: 17522346--17522386 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
17522336 CTCTATTTCT
17522346 TTTTAGCTTTGTTTCTTTTG
1 TTTTAGCTTTGTTTCTTTTG
17522366 TTTTATGCTATTGTTTCTTTT
1 TTTTA-GCT-TTGTTTCTTTT
17522387 ATTTCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 11 0.58
ACGTcount: A:0.07, C:0.10, G:0.12, T:0.71
Consensus pattern (20 bp):
TTTTAGCTTTGTTTCTTTTG
Found at i:17522617 original size:16 final size:16
Alignment explanation
Indices: 17522598--17522639 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
17522588 AATCTCGTAA
17522598 TATAATTAATATAAAT
1 TATAATTAATATAAAT
*
17522614 TATAATTTA-ATAAAT
1 TATAATTAATATAAAT
17522629 TAATAA-TAATA
1 T-ATAATTAATA
17522640 ATAATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATTAATATAAAT
Found at i:17522643 original size:25 final size:26
Alignment explanation
Indices: 17522595--17522644 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
17522585 AAAAATCTCG
*
17522595 TAATATAATTAATATAAATTATAATT
1 TAATATAATTAATATAAATAATAATT
17522621 TAATA-AATTAATA-ATAATAATAAT
1 TAATATAATTAATATA-AATAATAAT
17522645 AATAATACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 16 0.73
26 5 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TAATATAATTAATATAAATAATAATT
Found at i:17522821 original size:19 final size:19
Alignment explanation
Indices: 17522797--17522849 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 19
17522787 ATAATTATTT
17522797 AATTAATAAATATATTTTA
1 AATTAATAAATATATTTTA
**
17522816 AATTAAT-AAT-TATAATA
1 AATTAATAAATATATTTTA
17522833 AA-TAATAAATATATTTT
1 AATTAATAAATATATTTT
17522850 TACTTAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 4 0.14
17 10 0.36
18 7 0.25
19 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTAATAAATATATTTTA
Found at i:17522840 original size:16 final size:17
Alignment explanation
Indices: 17522797--17522845 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
17522787 ATAATTATTT
*
17522797 AATTAATAAATATATTTTA
1 AATTAATAAATATA--ATA
*
17522816 AATTAATAATTATAATA
1 AATTAATAAATATAATA
17522833 AA-TAATAAATATA
1 AATTAATAAATATA
17522846 TTTTTACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 10 0.37
17 4 0.15
19 13 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTAATAAATATAATA
Found at i:17532499 original size:23 final size:21
Alignment explanation
Indices: 17532457--17532515 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
17532447 ACATGAAACA
* *
17532457 ACACACGAGGTGCCTGATATG
1 ACACACAAGGTGCCTAATATG
17532478 ACACACAAGGTGCCTCAAATATG
1 ACACACAAGGTGCCT--AATATG
* *
17532501 ACACATAAAGTGCCT
1 ACACACAAGGTGCCT
17532516 GATCAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 14 0.44
23 18 0.56
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (21 bp):
ACACACAAGGTGCCTAATATG
Found at i:17533004 original size:17 final size:18
Alignment explanation
Indices: 17532974--17533007 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17532964 AATTTCTATT
17532974 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
17532992 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
17533008 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:17533468 original size:22 final size:20
Alignment explanation
Indices: 17533433--17533473 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
17533423 CTTTGTTTCT
17533433 TTTTAGCTTTGTTTCTTTTG
1 TTTTAGCTTTGTTTCTTTTG
17533453 TTTTATGCTTTTGTTTCTTTT
1 TTTTA-GC-TTTGTTTCTTTT
17533474 ATTTCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.05, C:0.10, G:0.12, T:0.73
Consensus pattern (20 bp):
TTTTAGCTTTGTTTCTTTTG
Found at i:17535931 original size:25 final size:24
Alignment explanation
Indices: 17535903--17535970 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 24
17535893 AGCTCTTCAT
17535903 GAGCGTCCTATTATATGGCTCCCCG
1 GAGC-TCCTATTATATGGCTCCCCG
* * **
17535928 GAGCTTCT-TGATATGGCTCGCTTG
1 GAGCTCCTATTATATGGCTC-CCCG
* *
17535952 AACCTCCTATTATATGGCT
1 GAGCTCCTATTATATGGCT
17535971 ATTTAGAGCT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 10 0.30
24 10 0.30
25 13 0.39
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
GAGCTCCTATTATATGGCTCCCCG
Found at i:17536048 original size:25 final size:24
Alignment explanation
Indices: 17536015--17536066 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
17536005 GCCTGTTAAA
*
17536015 CTCAATGAGCTTCCTATTACATGG
1 CTCAATGAGCATCCTATTACATGG
* *
17536039 CTCACATGAGCATCCTGTTATATGG
1 CTCA-ATGAGCATCCTATTACATGG
17536064 CTC
1 CTC
17536067 GAGATTGTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (24 bp):
CTCAATGAGCATCCTATTACATGG
Found at i:17536758 original size:25 final size:26
Alignment explanation
Indices: 17536730--17536781 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
17536720 AGCATTAAAA
*
17536730 TATATATGT-ATTAATGCTTA-ATTAT
1 TATATATGTGATAAATG-TTATATTAT
*
17536755 TATATTTGTGATAAATGTTATATTAT
1 TATATATGTGATAAATGTTATATTAT
17536781 T
1 T
17536782 GAAATGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.54
Consensus pattern (26 bp):
TATATATGTGATAAATGTTATATTAT
Found at i:17554715 original size:43 final size:43
Alignment explanation
Indices: 17554662--17554783 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
17554652 ACATAGGATT
*
17554662 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGACA
1 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACAGTGACA
* *
17554705 TCGATTTGTGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGATATGTGATTTCGTGTAAGACCAC-GTCTGGGACAGTGACA
* * *
17554748 TCGATATGTTATTACATGTAAGACCACGTCTGGGAC
1 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGAC
17554784 GTTTTCGTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 68 0.97
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACAGTGACA
Found at i:17565629 original size:22 final size:22
Alignment explanation
Indices: 17565604--17565645 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17565594 AGTCATGAAG
17565604 AAGGTCAAATCAATCCAATTGA
1 AAGGTCAAATCAATCCAATTGA
*
17565626 AAGGTTAAATCAATCCAATT
1 AAGGTCAAATCAATCCAATT
17565646 AACTCCCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (22 bp):
AAGGTCAAATCAATCCAATTGA
Found at i:17567622 original size:40 final size:40
Alignment explanation
Indices: 17567557--17567668 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
17567547 TTCATAGTCT
17567557 AAGCTATTTT-AATCTAGCACACTAAGTGTCACATATAGCCG
1 AAGCTATTTTGAATC--GCACACTAAGTGTCACATATAGCCG
* *
17567598 AAGCTATTTTGAATCGCACACTAAGTGCCATATATAGCCG
1 AAGCTATTTTGAATCGCACACTAAGTGTCACATATAGCCG
* * *
17567638 AAGCTATCTCGAATCGTACACTAAGTGTCAC
1 AAGCTATTTTGAATCGCACACTAAGTGTCAC
17567669 CTGTATATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 49 0.78
41 10 0.16
42 4 0.06
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (40 bp):
AAGCTATTTTGAATCGCACACTAAGTGTCACATATAGCCG
Found at i:17569237 original size:19 final size:20
Alignment explanation
Indices: 17569215--17569262 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
17569205 TTATTACATT
17569215 TTATTTTT-TTTCATCTTAA
1 TTATTTTTATTTCATCTTAA
* *
17569234 TTATATTTTATTTGATCTTTA
1 TTAT-TTTTATTTCATCTTAA
*
17569255 TCATTTTT
1 TTATTTTT
17569263 CGAGATAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 8 0.33
21 12 0.50
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATTTTTATTTCATCTTAA
Found at i:17585516 original size:10 final size:10
Alignment explanation
Indices: 17585501--17585528 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17585491 TAAAACTATT
17585501 AAAGTTTCTA
1 AAAGTTTCTA
17585511 AAAGTTTCTA
1 AAAGTTTCTA
17585521 AAAGTTTC
1 AAAGTTTC
17585529 CATTGATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (10 bp):
AAAGTTTCTA
Found at i:17599551 original size:56 final size:56
Alignment explanation
Indices: 17599490--17599600 Score: 222
Period size: 56 Copynumber: 2.0 Consensus size: 56
17599480 CCTTGGAATA
17599490 TGTAAGCAAAATGCATAAATGGTATAAATTAGAAACGTAAAAACTGTATTGGGTTG
1 TGTAAGCAAAATGCATAAATGGTATAAATTAGAAACGTAAAAACTGTATTGGGTTG
17599546 TGTAAGCAAAATGCATAAATGGTATAAATTAGAAACGTAAAAACTGTATTGGGTT
1 TGTAAGCAAAATGCATAAATGGTATAAATTAGAAACGTAAAAACTGTATTGGGTT
17599601 AGTTTCTTAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (56 bp):
TGTAAGCAAAATGCATAAATGGTATAAATTAGAAACGTAAAAACTGTATTGGGTTG
Found at i:17601038 original size:28 final size:28
Alignment explanation
Indices: 17601005--17601062 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
17600995 TGCTCATGTC
17601005 CTTTCATTTTCTTCTTTTTTCTTTATAG
1 CTTTCATTTTCTTCTTTTTTCTTTATAG
17601033 CTTTCATTTTCTTCTTTTTTCTTTATAG
1 CTTTCATTTTCTTCTTTTTTCTTTATAG
17601061 CT
1 CT
17601063 CTGTTATCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.67
Consensus pattern (28 bp):
CTTTCATTTTCTTCTTTTTTCTTTATAG
Found at i:17602268 original size:39 final size:39
Alignment explanation
Indices: 17602216--17602301 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
17602206 GACTTTAGCT
* * *
17602216 CGGACATATTTCCAGCACATAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
17602255 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
17602294 CGGATATA
1 CGGATATA
17602302 CATCAATATC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
Found at i:17606225 original size:106 final size:108
Alignment explanation
Indices: 17606108--17606322 Score: 398
Period size: 106 Copynumber: 2.0 Consensus size: 108
17606098 TAAACAAAAT
*
17606108 ATTAGTTTAACAAAATAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
17606173 AATTGTATTAAAA-TTTTGTTAATTACTCT-ATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
*
17606214 ATTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
17606279 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
17606322 A
1 A
17606323 CTTGTTTTTT
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
106 76 0.72
107 16 0.15
108 13 0.12
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (108 bp):
ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
Found at i:17609370 original size:5 final size:5
Alignment explanation
Indices: 17609360--17609393 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
17609350 ATCGATATTA
17609360 AATTG AATTG AATTG AATTG AATTG AATTG AATT
1 AATTG AATTG AATTG AATTG AATTG AATTG AATT
17609394 ATGAATTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
AATTG
Found at i:17618648 original size:19 final size:18
Alignment explanation
Indices: 17618623--17618667 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
17618613 GTATATGAGT
**
17618623 TAATTGAATATAATCTTA
1 TAATTGAATATAAAATTA
*
17618641 TGAATTGATTATAAAATTA
1 T-AATTGAATATAAAATTA
17618660 TAATTGAA
1 TAATTGAA
17618668 ATATGTTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (18 bp):
TAATTGAATATAAAATTA
Found at i:17620149 original size:20 final size:20
Alignment explanation
Indices: 17620119--17620166 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
17620109 ATTTTAGAGT
*
17620119 TTTAT-TTTAATT-ATCTTTA
1 TTTATCTTTAATTAAT-TGTA
17620138 TTTATCTTTAATTAATTGTA
1 TTTATCTTTAATTAATTGTA
17620158 TTTATCTTT
1 TTTATCTTT
17620167 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTAATTGTA
Found at i:17621786 original size:29 final size:29
Alignment explanation
Indices: 17621726--17621793 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
17621716 TAATCAACCA
*
17621726 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
**
17621755 CGCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
17621784 CGCACACTTA
1 CGCACACTTA
17621794 CCTTTTCCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:17621906 original size:174 final size:174
Alignment explanation
Indices: 17621615--17621942 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
17621605 AACTCAAGGT
*
17621615 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
17621680 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
17621745 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
17621789 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
17621854 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
17621919 ACTTTAAACTTGCACACTTAGTGC
131 ACTTTAAACTCGCACACTTAGTGC
17621943 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:17621935 original size:29 final size:30
Alignment explanation
Indices: 17621895--17621973 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
17621885 CTTAATAATC
17621895 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
**
17621925 AACTTGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
17621954 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
17621974 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:17627161 original size:15 final size:14
Alignment explanation
Indices: 17627141--17627187 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
17627131 GCAACCCAAT
17627141 TTTTATTTTTATTTA
1 TTTTATTTTTA-TTA
*
17627156 TTTTA-TCTTATTA
1 TTTTATTTTTATTA
17627169 TTTTATTATTTATTA
1 TTTTATT-TTTATTA
17627184 TTTT
1 TTTT
17627188 CAGATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 8 0.29
14 5 0.18
15 15 0.54
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTATTA
Found at i:17628816 original size:27 final size:26
Alignment explanation
Indices: 17628756--17628817 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
17628746 ATAAGACTCC
17628756 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
17628782 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
17628810 ATTTTATT
1 ATTTTATT
17628818 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:17632788 original size:6 final size:6
Alignment explanation
Indices: 17632766--17632848 Score: 51
Period size: 6 Copynumber: 13.0 Consensus size: 6
17632756 CTAATTCTCC
* * * * *
17632766 TTCTTT TTGTTT CTCTTT TTCTTT CTTC-TT TTCTCCT TTCTAT TTCATCTG
1 TTCTTT TTCTTT TTCTTT TTCTTT -TTCTTT TTCT-TT TTCTTT TTC-T-TT
*
17632817 TTCTTT TTCTTT TTCTTT CTTTTATT TTCTTT
1 TTCTTT TTCTTT TTCTTT -TTCT-TT TTCTTT
17632849 GTTTATTCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
5 3 0.05
6 35 0.59
7 16 0.27
8 5 0.08
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.73
Consensus pattern (6 bp):
TTCTTT
Found at i:17632811 original size:21 final size:20
Alignment explanation
Indices: 17632775--17632839 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
17632765 CTTCTTTTTG
* *
17632775 TTTCTCTTTTTCTTTCTTCT
1 TTTCTCTTTCTATTTCTTCT
*
17632795 TTTCTCCTTTCTATTTCATCT
1 TTTCT-CTTTCTATTTCTTCT
* * *
17632816 GTTCTTTTTCTTTTTCTTTCT
1 TTTCTCTTTCTATTTC-TTCT
17632837 TTT
1 TTT
17632840 ATTTTCTTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.03, C:0.23, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTCTCTTTCTATTTCTTCT
Found at i:17632857 original size:21 final size:20
Alignment explanation
Indices: 17632821--17632864 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
17632811 CATCTGTTCT
*
17632821 TTTTCTTTTTCTTTCTTTTA
1 TTTTCTTTTTCTTTCTTTAA
17632841 TTTTCTTTGTT-TATTCTTTAA
1 TTTTCTTT-TTCT-TTCTTTAA
17632862 TTT
1 TTT
17632865 ATTATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTCTTTTTCTTTCTTTAA
Found at i:17632940 original size:18 final size:19
Alignment explanation
Indices: 17632905--17632949 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
17632895 TTTAAACTTA
*
17632905 AATATTATGTATTATGTAT
1 AATATTATATATTATGTAT
*
17632924 ATTATTATATA-TATGTAT
1 AATATTATATATTATGTAT
17632942 AATATTAT
1 AATATTAT
17632950 TACACAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (19 bp):
AATATTATATATTATGTAT
Found at i:17634270 original size:11 final size:11
Alignment explanation
Indices: 17634254--17634308 Score: 76
Period size: 11 Copynumber: 5.0 Consensus size: 11
17634244 CACAATAGTC
17634254 CTCTCACAATT
1 CTCTCACAATT
17634265 CTCTCACAATT
1 CTCTCACAATT
*
17634276 CTCTTACAATT
1 CTCTCACAATT
17634287 CTCTC-CAAATT
1 CTCTCAC-AATT
*
17634298 CTCTCAAAATT
1 CTCTCACAATT
17634309 TTCAACTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
10 1 0.03
11 38 0.97
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCACAATT
Found at i:17635483 original size:7 final size:7
Alignment explanation
Indices: 17635473--17635518 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
17635463 AATCATTTTT
17635473 TATTTAG
1 TATTTAG
17635480 TATTTAG
1 TATTTAG
*
17635487 TATTTAA
1 TATTTAG
17635494 TATTTAG
1 TATTTAG
17635501 TATTTAG
1 TATTTAG
17635508 TATTTAG
1 TATTTAG
17635515 TATT
1 TATT
17635519 ACCTATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:17636764 original size:54 final size:55
Alignment explanation
Indices: 17636583--17636873 Score: 252
Period size: 55 Copynumber: 5.4 Consensus size: 55
17636573 TTTCATATAA
** *
17636583 TAAAATAAAAGTTATTTTTAATATTTTAATTGTACTTTACTTTTTTTAATTTTAT
1 TAAAATAAAAGTTGCTTTTAATATTTTAATTGTACTTTATTTTTTTTAATTTTAT
* * * *
17636638 TAAAATAAATGTT-CTTTTAA-A-TTTATATT-TAATTT-TTATATAGTTTCAA--TTAA
1 TAAAATAAAAGTTGCTTTTAATATTTTA-ATTGTACTTTATT-T-T--TTTTAATTTTAT
*
17636691 TAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTATTTTTTTTAATTTTAT
1 TAAAATAAAAGTTGCTTTTAATATTTTAATTGTACTTTATTTTTTTTAATTTTAT
* * * *
17636746 TAAAATAAATGTT-CTTTTAA-A-TTTATATT-TAATTT-TTATATAGTTTCAA--TTAA
1 TAAAATAAAAGTTGCTTTTAATATTTTA-ATTGTACTTTATT-T-T--TTTTAATTTTAT
* *
17636799 TAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTTTTTAATTTTAT
1 TAAAATAAAAGTTGCTTTTAATATTTTAATTGTACTTTATTTTTTTTAATTTTAT
*
17636854 TAAAATAAATGTT-CTTTTAA
1 TAAAATAAAAGTTGCTTTTAA
17636874 ATTAGCCAAT
Statistics
Matches: 188, Mismatches: 24, Indels: 49
0.72 0.09 0.19
Matches are distributed among these distances:
51 3 0.02
52 20 0.11
53 50 0.27
54 30 0.16
55 62 0.33
56 20 0.11
57 3 0.02
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.56
Consensus pattern (55 bp):
TAAAATAAAAGTTGCTTTTAATATTTTAATTGTACTTTATTTTTTTTAATTTTAT
Found at i:17636890 original size:108 final size:108
Alignment explanation
Indices: 17636562--17636876 Score: 596
Period size: 108 Copynumber: 2.9 Consensus size: 108
17636552 TGTAGAAACT
*
17636562 TTTTTATATAGTTTC-ATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTATATAGTTTCAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
17636626 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTTATATTTAA
65 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTTATATTTAA
*
17636670 TTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTATTTTT
1 TTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
17636735 TTTAATTTTATTAAAATAAATGTTCTTTTAAATTTATATTTAA
66 TTTAATTTTATTAAAATAAATGTTCTTTTAAATTTATATTTAA
17636778 TTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
1 TTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
17636843 TTTAATTTTATTAAAATAAATGTTCTTTTAAATT
66 TTTAATTTTATTAAAATAAATGTTCTTTTAAATT
17636877 AGCCAATATT
Statistics
Matches: 203, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
108 201 0.99
109 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.56
Consensus pattern (108 bp):
TTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTTT
TTTAATTTTATTAAAATAAATGTTCTTTTAAATTTATATTTAA
Found at i:17637036 original size:13 final size:13
Alignment explanation
Indices: 17637018--17637042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17637008 AGCCAATATT
17637018 TTTATTTTTTTAA
1 TTTATTTTTTTAA
17637031 TTTATTTTTTTA
1 TTTATTTTTTTA
17637043 TATAGTTTCA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTTTAA
Found at i:17637072 original size:127 final size:129
Alignment explanation
Indices: 17636767--17637151 Score: 668
Period size: 127 Copynumber: 3.0 Consensus size: 129
17636757 TTCTTTTAAA
*
17636767 TTTATATTTA-ATTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTG
1 TTTATATTTATTTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTG
*
17636831 TACTTTACTTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTTTTAT
66 TACTTTAC-TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATA-TTTTTATTAT
17636896 T
129 T
17636897 TTTATATTTATTTATTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATT
1 TTTATATTTATTT-TTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATT
17636962 GTACTTTACTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATT-TT
65 GTACTTTACTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATT
17637026 TTTA-ATTTATTTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTG
1 TTTATATTTATTTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTG
* * * *
17637090 TACTTTACTTTTTTAATTTTAATACAATAAATGTTCATTTAAATTAGCCAATAATTTTATTA
66 TACTTTACTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTA
17637152 AAATAAATGT
Statistics
Matches: 246, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
127 109 0.44
128 8 0.03
129 6 0.02
130 17 0.07
131 46 0.19
132 60 0.24
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (129 bp):
TTTATATTTATTTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTG
TACTTTACTTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATT
Found at i:17637180 original size:38 final size:38
Alignment explanation
Indices: 17637103--17637189 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
17637093 TTTACTTTTT
* *
17637103 TAATTTTAATACAATAAATGTTCATTTAAATTAGCCAA
1 TAATTTTAATAAAATAAATGTTCATTTAAATTAGACAA
* *
17637141 TAATTTTATTAAAATAAATGTT-ATTTTGAA-TACGACAA
1 TAATTTTAATAAAATAAATGTTCA-TTTAAATTA-GACAA
*
17637179 TATTTTTAATA
1 TAATTTTAATA
17637190 TTTTTAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
37 3 0.07
38 38 0.93
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.44
Consensus pattern (38 bp):
TAATTTTAATAAAATAAATGTTCATTTAAATTAGACAA
Found at i:17641120 original size:49 final size:49
Alignment explanation
Indices: 17641048--17641276 Score: 255
Period size: 49 Copynumber: 4.6 Consensus size: 49
17641038 CTGATACGCA
* * * *
17641048 TAGTAGCCTACACTTAGTACTACACATGTGACCAATAATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATTCAGTACACG
* * *
17641097 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACAATTC-AGTACACG
** * * *
17641147 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTC-ATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--CAATTCAGTACACG
* * * *
17641198 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCAGAACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATTCAGTACACG
17641247 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
17641277 TATTCACAAT
Statistics
Matches: 148, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 68 0.46
50 42 0.28
51 35 0.24
52 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATTCAGTACACG
Found at i:17643047 original size:126 final size:126
Alignment explanation
Indices: 17642822--17643122 Score: 478
Period size: 126 Copynumber: 2.4 Consensus size: 126
17642812 AGTCTAAGGC
** *
17642822 TTTTTT-AGATACTACTGTAGCAAAAGAGCGTCCACACAGGAGCTTTTTTCCATAATTTTGCTGA
1 TTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCCATAATTTTACTGA
* * * *
17642886 CAGTGCATCCTTTTTGAAGCGTTTTGGACACTATTTGTTTAGAAACATCTTATCAAAATTA
66 CAGTGCATCATTCTTGAAACGTTTTGGACACTATTTATTTAGAAACATCTTATCAAAATTA
*
17642947 TTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTAGGAGTTTTTTTCCATAATTTTACTGA
1 TTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCCATAATTTTACTGA
* * *
17643012 CAGTGTATCATTCTTGAAACGTTTTTGACACTATTTATTTAGAAACATCTTCTCAAAATTA
66 CAGTGCATCATTCTTGAAACGTTTTGGACACTATTTATTTAGAAACATCTTATCAAAATTA
* *
17643073 TTTTTTCAGATACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTT
1 TTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTT
17643123 GGTAATTAAT
Statistics
Matches: 161, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 6 0.04
126 155 0.96
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCCATAATTTTACTGA
CAGTGCATCATTCTTGAAACGTTTTGGACACTATTTATTTAGAAACATCTTATCAAAATTA
Found at i:17645470 original size:31 final size:32
Alignment explanation
Indices: 17645425--17645546 Score: 149
Period size: 31 Copynumber: 3.6 Consensus size: 32
17645415 TAATTTATCT
17645425 ATTTTTAAATATAAAAATTAAAATATAATTTA
1 ATTTTTAAATATAAAAATTAAAATATAATTTA
17645457 ATTTTT-AATATAAAAATTTAACATACTCATAATTTA
1 ATTTTTAAATATAAAAA-TTAA-A-A-T-ATAATTTA
17645493 TCTATTTTTTAAATATAAAAATTAAAATATAATTTA
1 ---A-TTTTTAAATATAAAAATTAAAATATAATTTA
17645529 ATTTTT-AATATAAAAATT
1 ATTTTTAAATATAAAAATT
17645547 TAACATACTC
Statistics
Matches: 80, Mismatches: 0, Indels: 21
0.79 0.00 0.21
Matches are distributed among these distances:
31 22 0.28
32 15 0.19
33 2 0.03
34 1 0.01
35 1 0.01
36 16 0.20
37 1 0.01
38 1 0.01
39 2 0.03
40 9 0.11
41 10 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (32 bp):
ATTTTTAAATATAAAAATTAAAATATAATTTA
Found at i:17645493 original size:71 final size:72
Alignment explanation
Indices: 17645415--17645559 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 72
17645405 ATACAATGAG
17645415 TAATTTATCTA-TTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
1 TAATTTATCTATTTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
17645479 ATACTCA
66 ATACTCA
17645486 TAATTTATCTATTTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
1 TAATTTATCTATTTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
17645551 ATACTCA
66 ATACTCA
17645558 TA
1 TA
17645560 TTCAATACTC
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 11 0.15
72 62 0.85
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (72 bp):
TAATTTATCTATTTTTTAAATATAAAAATTAAAATATAATTTAATTTTTAATATAAAAATTTAAC
ATACTCA
Found at i:17649895 original size:42 final size:42
Alignment explanation
Indices: 17649770--17649896 Score: 173
Period size: 42 Copynumber: 3.0 Consensus size: 42
17649760 TTTCGCCTTC
* * *
17649770 TAAAAGGGATGAAAGGTTAAAAACACCTATACATACCCCTAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTGTACATACACCAAG
* * *
17649812 TATAAGGGATGAAAGGTTAAAAACACCAGTAAATACACCAAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTGTACATACACCAAG
* * *
17649854 TAAAAAGGATGAAAGGTTAAAAACACCTGTGCATACTCCAAG
1 TAAAAGGGATGAAAGGTTAAAAACACCTGTACATACACCAAG
17649896 T
1 T
17649897 GGGCGATTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (42 bp):
TAAAAGGGATGAAAGGTTAAAAACACCTGTACATACACCAAG
Found at i:17659457 original size:19 final size:18
Alignment explanation
Indices: 17659416--17659459 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
17659406 TGATTTATTT
* *
17659416 ATTTTTATTTAATCAGTT
1 ATTTTTATTTAATCAATA
*
17659434 GTTTTTATTCTAATCAATA
1 ATTTTTATT-TAATCAATA
17659453 ATTTTTA
1 ATTTTTA
17659460 CTTGTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTTATTTAATCAATA
Found at i:17661081 original size:17 final size:19
Alignment explanation
Indices: 17661048--17661090 Score: 72
Period size: 17 Copynumber: 2.4 Consensus size: 19
17661038 TATTTGTAAT
17661048 ATTATTAGTTATATTTTTC
1 ATTATTAGTTATATTTTTC
17661067 ATTATTA-TT-TATTTTTC
1 ATTATTAGTTATATTTTTC
17661084 ATTATTA
1 ATTATTA
17661091 CTTCTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 15 0.62
18 2 0.08
19 7 0.29
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTATTAGTTATATTTTTC
Found at i:17661463 original size:27 final size:27
Alignment explanation
Indices: 17661406--17661474 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
17661396 TCAGTACAAG
* * * **
17661406 TTATTTCATATATTGTTTATTTTGAGT
1 TTATTTTATATATTATTTATTTTAAAC
17661433 TTATTTTATATATTATTTATTTTAAAC
1 TTATTTTATATATTATTTATTTTAAAC
17661460 TTA---TATATATTATTT
1 TTATTTTATATATTATTT
17661475 TAAATTTTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.32
27 25 0.68
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (27 bp):
TTATTTTATATATTATTTATTTTAAAC
Found at i:17661464 original size:20 final size:20
Alignment explanation
Indices: 17661438--17661478 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 20
17661428 TGAGTTTATT
17661438 TTATATATTATTTATTTTAAAC
1 TTATATA-TA-TTATTTTAAAC
17661460 TTATATATATTATTTTAAA
1 TTATATATATTATTTTAAA
17661479 TTTTGTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATATATATTATTTTAAAC
Found at i:17666899 original size:42 final size:43
Alignment explanation
Indices: 17666835--17666965 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 43
17666825 GGAATGTGAA
**
17666835 CATCGAT-CTGAGATGTA-GTGTAAGACCATGTCTGGGACATCGG
1 CATCGATACTGA-AT-TACGTGTAAGACCATGTCTGGGACAGAGG
* *
17666878 CATCG-TATCTG-ATTTCGTGTAAGACCCTGTCTGGGACAGAGG
1 CATCGATA-CTGAATTACGTGTAAGACCATGTCTGGGACAGAGG
* * *
17666920 CATCGATACTGAATTACATGTAAGACCACGTCTAGGAC-GTAGG
1 CATCGATACTGAATTACGTGTAAGACCATGTCTGGGACAG-AGG
17666963 CAT
1 CAT
17666966 TGTACTCGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 35 0.48
43 34 0.47
44 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (43 bp):
CATCGATACTGAATTACGTGTAAGACCATGTCTGGGACAGAGG
Found at i:17671525 original size:21 final size:22
Alignment explanation
Indices: 17671462--17671531 Score: 133
Period size: 22 Copynumber: 3.2 Consensus size: 22
17671452 TTTACGTCTC
17671462 ATTCTGAGCAAATATTTCTTTT
1 ATTCTGAGCAAATATTTCTTTT
17671484 ATTCTGAGCAAATATTTCTTTT
1 ATTCTGAGCAAATATTTCTTTT
17671506 ATTCTGAGCAAATA-TTCTTTT
1 ATTCTGAGCAAATATTTCTTTT
17671527 ATTCT
1 ATTCT
17671532 TGTTTTTAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 12 0.25
22 36 0.75
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (22 bp):
ATTCTGAGCAAATATTTCTTTT
Found at i:17676357 original size:44 final size:44
Alignment explanation
Indices: 17676172--17676358 Score: 103
Period size: 44 Copynumber: 4.2 Consensus size: 44
17676162 GTAAATTCAT
* * * **
17676172 GAATCTTATCTCCCTAAGCAGTAGTGGAGAAAATCGAAGACGAC
1 GAATCTTATCTCCCTAAGTAGTAGTGAAGCAGTTCGAAGACGAC
* * * * * *
17676216 GAATCTTATCTTCTTAAGGTAGTAGAGAAGTAGATT-TAAG-CCAC
1 GAATCTTATCTCCCTAA-GTAGTAGTGAAGCAG-TTCGAAGACGAC
* ** * ** * * *
17676260 TAGCCTTATCTCCCTGAGTAACAGTGGAGCAG-GCTGAAGATTG-C
1 GAATCTTATCTCCCTAAGTAGTAGTGAAGCAGTTC-GAAGA-CGAC
* * *
17676304 GGATTTTATCTCCCTAAGTAGTAGTGAAGCAGTTCGAAGATGAC
1 GAATCTTATCTCCCTAAGTAGTAGTGAAGCAGTTCGAAGACGAC
17676348 GAATCTTATCT
1 GAATCTTATCT
17676359 TTCTGAGATA
Statistics
Matches: 98, Mismatches: 37, Indels: 16
0.65 0.25 0.11
Matches are distributed among these distances:
43 15 0.15
44 68 0.69
45 14 0.14
46 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
GAATCTTATCTCCCTAAGTAGTAGTGAAGCAGTTCGAAGACGAC
Found at i:17676533 original size:89 final size:89
Alignment explanation
Indices: 17676440--17676651 Score: 205
Period size: 89 Copynumber: 2.4 Consensus size: 89
17676430 AGATTGTAGA
** * *
17676440 TCTTATCTCCATGGGGTAGTAATAGAGTAGATTGAGGA-CAAAGAATCTTATCTCCATGAAGCAG
1 TCTTATCTCCATGAAGTAGCAATAGAGTAGATTGAAGATCAAAG-ATCTTATCTCCATGAAGCAG
17676504 CAATGGAGCAAATCTAAGCCACCAG
65 CAATGGAGCAAATCTAAGCCACCAG
* * * * ** * *
17676529 TCTTATCTCCCTGAAGTAGCAGTGGAGTATATTGAAGATCGTAGATCTTATCTCCATGAGGTAGC
1 TCTTATCTCCATGAAGTAGCAATAGAGTAGATTGAAGATCAAAGATCTTATCTCCATGAAGCAGC
* * *
17676594 AATGGAGCAGATC-AAG-GACAGAG
66 AATGGAGCAAATCTAAGCCAC-CAG
* * *
17676617 AATTTTATCTCCATGAAGTAGCAATGGAGCAGATT
1 --TCTTATCTCCATGAAGTAGCAATAGAGTAGATT
17676652 TAAGCCACCC
Statistics
Matches: 99, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
87 2 0.02
88 5 0.05
89 61 0.62
90 31 0.31
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (89 bp):
TCTTATCTCCATGAAGTAGCAATAGAGTAGATTGAAGATCAAAGATCTTATCTCCATGAAGCAGC
AATGGAGCAAATCTAAGCCACCAG
Found at i:17676537 original size:134 final size:134
Alignment explanation
Indices: 17676379--17676918 Score: 568
Period size: 134 Copynumber: 4.0 Consensus size: 134
17676369 GTAGAGAAGA
* * * * *
17676379 AGATTTAAGTCACAAGTCTTATCTCTCTGAAATAGCAGTGGAGCAGATTGAAGATTGTAGATCTT
1 AGATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGATTGTAGATCTT
* * * ** *
17676444 ATCTCCATGGGGTAGTAATAGAGTAGATTGAGGACAAAGAATCTTATCTCCATGAAGCAGCAATG
66 ATCTCCATGAGGTAGCAATGGAGTAGATCAAGGACAAAGAATCTTATCTCCATGAAGTAGCAATG
17676509 GAGC
131 GAGC
* * * * * *
17676513 AAATCTAAGCCACCAGTCTTATCTCCCTGAAGTAGCAGTGGAGTATATTGAAGATCGTAGATCTT
1 AGATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGATTGTAGATCTT
* * *
17676578 ATCTCCATGAGGTAGCAATGGAGCAGATCAAGGACAGAGAATTTTATCTCCATGAAGTAGCAATG
66 ATCTCCATGAGGTAGCAATGGAGTAGATCAAGGACAAAGAATCTTATCTCCATGAAGTAGCAATG
17676643 GAGC
131 GAGC
* * * * * * *
17676647 AGATTTAAGCCACCCGCCTTATCTCCTTGGAGTAGCAAG-GGAGAAAATTAAAGATTGTAGATTT
1 AGATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGC-AGTGGAGCAGATTGAAGATTGTAGATCT
** * * ** * * * *
17676711 TATCTCCCCGAAGTAGCAGTGGAGTAGATCAAATACGATGAGTCTTATCTTCATGAAGTAGCAAT
65 TATCTCCATGAGGTAGCAATGGAGTAGATCAAGGACAAAGAATCTTATCTCCATGAAGTAGCAAT
17676776 GGAGC
130 GGAGC
* * **
17676781 AGATTTAGGCCACCAGCCTTATCCCCCT-AAGGTAGCAGTGGAGCAGATTGAAGATTACAGATCT
1 AGATTTAAGCCACCAGCCTTATCTCCCTGAA-GTAGCAGTGGAGCAGATTGAAGATTGTAGATCT
* * * ** *
17676845 TATCTCTC-TGAGGTAGCAGTGGAGCAGATTGAA-GACTGTAG-ATCTTATCTCCCTGAAGTAGC
65 TATCTC-CATGAGGTAGCAATGGAGTAGA-TCAAGGAC-AAAGAATCTTATCTCCATGAAGTAGC
*
17676907 AGTGGAGC
127 AATGGAGC
17676915 AGAT
1 AGAT
17676919 CGAAAACTGC
Statistics
Matches: 336, Mismatches: 64, Indels: 12
0.82 0.16 0.03
Matches are distributed among these distances:
133 3 0.01
134 325 0.97
135 8 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (134 bp):
AGATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGATTGTAGATCTT
ATCTCCATGAGGTAGCAATGGAGTAGATCAAGGACAAAGAATCTTATCTCCATGAAGTAGCAATG
GAGC
Found at i:17676583 original size:45 final size:44
Alignment explanation
Indices: 17676264--17676964 Score: 297
Period size: 45 Copynumber: 15.7 Consensus size: 44
17676254 AGCCACTAGC
* ** * *
17676264 CTTATCTCCCTG-AGTAACAGTGGAGCAGGCTGAAGATTGCGGAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGA-CGCAGAT
* * * *
17676308 TTTATCTCCCT-AAGTAGTAGTGAAGCAG-TTCGAAGATG-ACGAAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATT-GAAGACGCA-G-AT
** * * * * * * *
17676352 CTTATCTTTCTG-AGATAGTAGAGAAGAAGATTTAAGTCACA-AGT
1 CTTATCTCCCTGAAG-TAGCAGTGGAGCAGATTGAAGACGCAGA-T
* * * *
17676396 CTTATCTCTCTGAAATAGCAGTGGAGCAGATTGAAGATTGTAGAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGA-CGCAGAT
* ** * * * * * **
17676441 CTTATCTCCATGGGGTAGTAATAGAGTAGATTGAGGACAAAGAAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGACGCAG-AT
* * * *
17676486 CTTATCTCCATGAAGCAGCAATGGAGCAAATCT-AAGCCAC-CAG-T
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGAT-TGAAG--ACGCAGAT
* * *
17676530 CTTATCTCCCTGAAGTAGCAGTGGAGTATATTGAAGATCGTAGAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGA-CGCAGAT
* * * *
17676575 CTTATCTCCATGAGGTAGCAATGGAGCAGA-TCAAGGACAG-AGAAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAA-GAC-GCAG-AT
* * * * * *
17676620 TTTATCTCCATGAAGTAGCAATGGAGCAGATTTAAGCCAC-CCG-C
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAG--ACGCAGAT
* * * * * * *
17676664 CTTATCTCCTTGGAGTAGCAAG-GGAGAAAATTAAAGATTGTAGAT
1 CTTATCTCCCTGAAGTAGC-AGTGGAGCAGATTGAAGA-CGCAGAT
* * * ** *
17676709 TTTATCTCCCCGAAGTAGCAGTGGAGTAGATCAAATACG-ATGAGT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGACGCA-GA-T
* * * * * *
17676754 CTTATCTTCATGAAGTAGCAATGGAGCAGATTTAGGCCAC-CAG-C
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAG--ACGCAGAT
* **
17676798 CTTATCCCCCT-AAGGTAGCAGTGGAGCAGATTGAAGATTACAGAT
1 CTTATCTCCCTGAA-GTAGCAGTGGAGCAGATTGAAGA-CGCAGAT
* * *
17676843 CTTATCTCTCTGAGGTAGCAGTGGAGCAGATTGAAGACTGTAGAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGAC-GCAGAT
* * *
17676888 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATCGAAAACTGCAAAT
1 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGAC-GCAGAT
* * *
17676933 CTTATCTTCATAAAGTTA-CAGTGGAGCAGATT
1 CTTATCTCCCTGAAG-TAGCAGTGGAGCAGATT
17676965 AAAGCCATCA
Statistics
Matches: 493, Mismatches: 120, Indels: 87
0.70 0.17 0.12
Matches are distributed among these distances:
42 3 0.01
43 10 0.02
44 171 0.35
45 287 0.58
46 15 0.03
47 7 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGACGCAGAT
Found at i:17676803 original size:89 final size:89
Alignment explanation
Indices: 17676710--17676919 Score: 214
Period size: 89 Copynumber: 2.3 Consensus size: 89
17676700 ATTGTAGATT
*
17676710 TTATCTCCCCGAAGTAGCAGTGGAGTAGATCAA-A-TACGATGAGTCTTATCT-TCATGAAGTAG
1 TTATCTCCCCGAAGTAGCAGTGGAGCAGATCAAGATTAC-A-GA-TCTTATCTCTC-TGAAGTAG
* * *
17676772 CAATGGAGCAGATTTAGGCCACCAG-CC
62 CAATGGAGCAGATTGAAGACACCAGACC
* * *
17676799 TTATC-CCCCTAAGGTAGCAGTGGAGCAGATTGAAGATTACAGATCTTATCTCTCTGAGGTAGCA
1 TTATCTCCCCGAA-GTAGCAGTGGAGCAGA-TCAAGATTACAGATCTTATCTCTCTGAAGTAGCA
* *** *
17676863 GTGGAGCAGATTGAAGACTGTAGATC
64 ATGGAGCAGATTGAAGACACCAGACC
*
17676889 TTATCTCCCTGAAGTAGCAGTGGAGCAGATC
1 TTATCTCCCCGAAGTAGCAGTGGAGCAGATC
17676920 GAAAACTGCA
Statistics
Matches: 99, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
88 6 0.06
89 54 0.55
90 29 0.29
91 7 0.07
92 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (89 bp):
TTATCTCCCCGAAGTAGCAGTGGAGCAGATCAAGATTACAGATCTTATCTCTCTGAAGTAGCAAT
GGAGCAGATTGAAGACACCAGACC
Found at i:17679231 original size:27 final size:27
Alignment explanation
Indices: 17679174--17679231 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
17679164 TCATTACAAA
* **
17679174 TTATTTCATATATTGTTTATTTTGAGT
1 TTATTTCATATATTGTTTATTTTAAAC
*
17679201 TTATTTTATATATTGTTTATTTTAAAC
1 TTATTTCATATATTGTTTATTTTAAAC
17679228 TTAT
1 TTAT
17679232 ATATATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.07, T:0.64
Consensus pattern (27 bp):
TTATTTCATATATTGTTTATTTTAAAC
Found at i:17679241 original size:27 final size:27
Alignment explanation
Indices: 17679181--17679237 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
17679171 AAATTATTTC
* ** *
17679181 ATATATTGTTTATTTTGAGTTTATTTT
1 ATATATTGTTTATTTTAAACTTATTAT
17679208 ATATATTGTTTATTTTAAACTTA-TAT
1 ATATATTGTTTATTTTAAACTTATTAT
17679234 ATAT
1 ATAT
17679238 TATTTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (27 bp):
ATATATTGTTTATTTTAAACTTATTAT
Found at i:17684407 original size:14 final size:14
Alignment explanation
Indices: 17684375--17684405 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
17684365 TTTATTCATG
17684375 TTTTATTATTATAT
1 TTTTATTATTATAT
17684389 TTTTATTATTA-AT
1 TTTTATTATTATAT
17684402 TTTT
1 TTTT
17684406 TAATGTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTATTATAT
Found at i:17686397 original size:17 final size:17
Alignment explanation
Indices: 17686371--17686405 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17686361 ACAGATGTTT
17686371 ATATAATTTTTTAATAA
1 ATATAATTTTTTAATAA
* *
17686388 ATATATTTTTTTCATAA
1 ATATAATTTTTTAATAA
17686405 A
1 A
17686406 ATTTTCAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATAATTTTTTAATAA
Found at i:17691829 original size:20 final size:20
Alignment explanation
Indices: 17691799--17691840 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
17691789 TAGGTACAAG
17691799 AGGATAGGAATTA-GGATAC
1 AGGATAGGAATTAGGGATAC
17691818 AGGATAAGGAATTAGGGATAC
1 AGGAT-AGGAATTAGGGATAC
17691839 AG
1 AG
17691841 TTCGAGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.43, C:0.05, G:0.33, T:0.19
Consensus pattern (20 bp):
AGGATAGGAATTAGGGATAC
Found at i:17694505 original size:168 final size:166
Alignment explanation
Indices: 17694221--17694720 Score: 662
Period size: 168 Copynumber: 3.0 Consensus size: 166
17694211 ATCAGAGATT
* **
17694221 GAATATCCATGCAAGAGCCATATTGAAGATCAGAAGAGTGATGATCAAATGTGTCTAAAACTTGT
1 GAATATCCATGCAAGAGCCATATTGAAGATC-CAAGAGTGATGATCAAATGTGTCTAAAACCCGT
* * *
17694286 CAAGGAAGAACCTAAAGATGATGTTTGTGATAAACCCTTGTATGGGACTCCTTCATGCAAGGAAA
65 CAAGGAAGAAGCTAAAGATGATGTTTGTGATAAA-CCTTGTATGAGACTCCTCCATGCAAGGAAA
* * *
17694351 CTAAGAGGAAGAAATCACGACCACTATGTTCTAACA-CA
129 CTAGGAGGAAGAAATCACAACCACAATGTTCTAA-AGCA
* * *
17694389 GAATATCTATGCAAGAGCTATATTGAAGATCCTAAGAGTGATGATCAATTGTGTCTAAAACCCGT
1 GAATATCCATGCAAGAGCCATATTGAAGATCC-AAGAGTGATGATCAAATGTGTCTAAAACCCGT
* *
17694454 CAAGGAAGAAGCTAAAGATGGTGTTTATGATGAAACCTTGTATGAGACTCCTCCATGCAA-GAAA
65 CAAGGAAGAAGCTAAAGATGATGTTTGTGAT-AAACCTTGTATGAGACTCCTCCATGCAAGGAAA
* * **
17694518 GCTAGGAGGAATAAATCACAATCACAATGTTCTAAAGTT
129 -CTAGGAGGAAGAAATCACAACCACAATGTTCTAAAGCA
* * * * *
17694557 GAATATCCATGCAAGAACCATATTGAAGATAACAAGAGTGAAGATCAAGTGAGTCTAAAACCCGT
1 GAATATCCATGCAAGAGCCATATTGAAGAT-CCAAGAGTGATGATCAAATGTGTCTAAAACCCGT
*
17694622 CAAAGAAGAAGCTAAAGATGATGTTTGTGATAAAACCTTGTATGAGACTCCTCCATGCAAGGAAA
65 CAAGGAAGAAGCTAAAGATGATGTTTGTGAT-AAACCTTGTATGAGACTCCTCCATGCAAGGAAA
* * * *
17694687 CTAGGAAGAAGAAACCGCAATCACAATGTTCTAA
129 CTAGGAGGAAGAAATCACAACCACAATGTTCTAA
17694721 GCCTCGAAAG
Statistics
Matches: 293, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
167 5 0.02
168 280 0.96
169 8 0.03
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (166 bp):
GAATATCCATGCAAGAGCCATATTGAAGATCCAAGAGTGATGATCAAATGTGTCTAAAACCCGTC
AAGGAAGAAGCTAAAGATGATGTTTGTGATAAACCTTGTATGAGACTCCTCCATGCAAGGAAACT
AGGAGGAAGAAATCACAACCACAATGTTCTAAAGCA
Found at i:17697126 original size:21 final size:21
Alignment explanation
Indices: 17697100--17697141 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17697090 TAAATTACAA
17697100 AATACCATCCTTCAATGCAAG
1 AATACCATCCTTCAATGCAAG
17697121 AATACCATCCTTCAATGCAAG
1 AATACCATCCTTCAATGCAAG
17697142 GGTATGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (21 bp):
AATACCATCCTTCAATGCAAG
Found at i:17698186 original size:22 final size:22
Alignment explanation
Indices: 17698152--17698194 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17698142 GAGTTATGCA
17698152 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
17698174 ATAATAATGAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
17698195 AATAGTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:17700511 original size:63 final size:63
Alignment explanation
Indices: 17700430--17700574 Score: 213
Period size: 63 Copynumber: 2.3 Consensus size: 63
17700420 CTCATACAGC
* * *
17700430 CTGGACACATGCCTGTGTCTTTGG-CTCGTTTGACTTTAATGCACAAACAGTGAGTTACAC-AGT
1 CTGGACACATGCCCGTGTCTTTGGAC-CGTATGACTCTAATGCACAAACAGTGAGTTACACGA-T
*
17700493 TTGGACACATGCCCGTGTCTTTGGACCGTATGACTCTAATGCACAAACAGTGAGTTACACGAT
1 CTGGACACATGCCCGTGTCTTTGGACCGTATGACTCTAATGCACAAACAGTGAGTTACACGAT
*
17700556 CTGGATACATGCCCGTGTC
1 CTGGACACATGCCCGTGTC
17700575 CTTAGCCCAT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
63 72 0.97
64 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (63 bp):
CTGGACACATGCCCGTGTCTTTGGACCGTATGACTCTAATGCACAAACAGTGAGTTACACGAT
Found at i:17705820 original size:42 final size:43
Alignment explanation
Indices: 17705708--17705860 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 43
17705698 AGCTGGTACA
* *
17705708 ATGCCAACGTCCCAGACGTGGTCTTACA-TATAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGA-AATCAAATATCG
* * *
17705751 ATGCC-ACTGTCTCAGACAAGGTCTTACACGAAATCATATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
17705793 ATCCCAATGTCCTAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
17705837 ATGCCAACGTCCCAGACATGGTCT
1 ATGCCAACGTCCCAGACATGGTCT
17705861 CACATGATAA
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
42 27 0.30
43 38 0.42
44 25 0.28
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:17728787 original size:23 final size:23
Alignment explanation
Indices: 17728761--17728822 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
17728751 TAGTTCGTAA
* *
17728761 GAGCTTACTGTTTTAGCTCATTG
1 GAGCTTACTGTTTCAGCCCATTG
*
17728784 GAGCTTATTGTTTCAGCCCATTG
1 GAGCTTACTGTTTCAGCCCATTG
17728807 GAGCTTACTG-TTCAGC
1 GAGCTTACTGTTTCAGC
17728823 TTGATAGAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 6 0.17
23 29 0.83
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.39
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCCCATTG
Found at i:17728846 original size:23 final size:22
Alignment explanation
Indices: 17728807--17728865 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 22
17728797 CAGCCCATTG
*
17728807 GAGCTTACTGTTCAGCTTGATA
1 GAGCTTACTGTTCAGCTTAATA
17728829 GAGCTTACTGGTTCAGCTTAATA
1 GAGCTTACT-GTTCAGCTTAATA
17728852 GAGCTTACTGTTCA
1 GAGCTTACTGTTCA
17728866 TCAGCTCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 14 0.40
23 21 0.60
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTTAATA
Found at i:17733759 original size:20 final size:20
Alignment explanation
Indices: 17733734--17733785 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
17733724 CGAGTTAGGG
17733734 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
17733754 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
17733774 ACACGGGCGTGT
1 ACACGGGCGTGT
17733786 GCATTGTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.33, G:0.33, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:17734588 original size:30 final size:30
Alignment explanation
Indices: 17734553--17734609 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
17734543 TAAGTTTGGC
17734553 AAGTAAGTGATAA-TTGA-AAAGTTTATATTA
1 AAGTAAGTGA-AAGTTGATAAA-TTTATATTA
17734583 AAGTAAGTGAAAGTTGATAAATTTATA
1 AAGTAAGTGAAAGTTGATAAATTTATA
17734610 CATGATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 2 0.08
30 20 0.80
31 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (30 bp):
AAGTAAGTGAAAGTTGATAAATTTATATTA
Found at i:17736228 original size:25 final size:25
Alignment explanation
Indices: 17736176--17736229 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
17736166 GCACTCTCTC
* * **
17736176 GAGCCATGTAACAGGATGCTTATGT
1 GAGCCATGTAACAGAAAGCTTACCT
*
17736201 GAGCCATGTACCAGAAAGCTTACCT
1 GAGCCATGTAACAGAAAGCTTACCT
17736226 GAGC
1 GAGC
17736230 TAAACATGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (25 bp):
GAGCCATGTAACAGAAAGCTTACCT
Found at i:17738639 original size:13 final size:13
Alignment explanation
Indices: 17738617--17738649 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17738607 AAGGGTTTGT
17738617 TTAT-TAAACTAA
1 TTATCTAAACTAA
17738629 TTATCTAAACTAA
1 TTATCTAAACTAA
*
17738642 TTAACTAA
1 TTATCTAA
17738650 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:17741118 original size:27 final size:26
Alignment explanation
Indices: 17741080--17741234 Score: 168
Period size: 27 Copynumber: 5.8 Consensus size: 26
17741070 GCGTACCTGA
* * *
17741080 ACCCTCATGTGATAAAATGAAAGTTTT
1 ACCCTTATATGATAAAATG-ACGTTTT
*
17741107 ACCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATATGATAAAATGACG-TTTT
17741134 ACCCTTATATGATAAAATGACGATTTT
1 ACCCTTATATGATAAAATGACG-TTTT
* * * *
17741161 GCCCTCATATGATATAATGACGATTT
1 ACCCTTATATGATAAAATGACGTTTT
* *
17741187 ACCCTTATTTGATAAAATGACAATTTT
1 ACCCTTATATGATAAAATGAC-GTTTT
17741214 GA-CCTTATATGATAAAATGAC
1 -ACCCTTATATGATAAAATGAC
17741235 CAAAATACCC
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
26 22 0.20
27 88 0.79
28 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (26 bp):
ACCCTTATATGATAAAATGACGTTTT
Found at i:17741174 original size:54 final size:53
Alignment explanation
Indices: 17741080--17741288 Score: 199
Period size: 54 Copynumber: 3.9 Consensus size: 53
17741070 GCGTACCTGA
* * *
17741080 ACCCTCATGTGATAAAATGA-AAGTTTTACCCTTATGTGATAAAATGACGATTTT
1 ACCCTCATATGATAAAATGACAA-TTTTACCCTCATATGATAAAATGACGA-TTT
* * * *
17741134 ACCCTTATATGATAAAATGACGATTTTGCCCTCATATGATATAATGACGATTT
1 ACCCTCATATGATAAAATGACAATTTTACCCTCATATGATAAAATGACGATTT
* * * * **
17741187 ACCCTTATTTGATAAAATGACAATTTTGA-CCTTATATGATAAAATGACCAAAAT
1 ACCCTCATATGATAAAATGACAATTTT-ACCCTCATATGATAAAATGA-CGATTT
* ** *
17741241 ACCCTCATAGGATAAAATGACCAA-AATACCCTCATAGGATAAAATGAC
1 ACCCTCATATGATAAAATGA-CAATTTTACCCTCATATGATAAAATGAC
17741289 CGAAATACCC
Statistics
Matches: 128, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
53 46 0.36
54 78 0.61
55 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (53 bp):
ACCCTCATATGATAAAATGACAATTTTACCCTCATATGATAAAATGACGATTT
Found at i:17741207 original size:53 final size:54
Alignment explanation
Indices: 17741080--17741261 Score: 206
Period size: 54 Copynumber: 3.4 Consensus size: 54
17741070 GCGTACCTGA
* * * *
17741080 ACCCTCATGTGATAAAATGA-AAGTTTTACCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATATGATAAAATGACAA-TTTTGCCCTTATATGATAAAATGACGATTTT
* * *
17741134 ACCCTTATATGATAAAATGACGATTTTGCCCTCATATGATATAATGACGA-TTT
1 ACCCTTATATGATAAAATGACAATTTTGCCCTTATATGATAAAATGACGATTTT
* * * ***
17741187 ACCCTTATTTGATAAAATGACAATTTTGACCTTATATGATAAAATGACCAAAAT
1 ACCCTTATATGATAAAATGACAATTTTGCCCTTATATGATAAAATGACGATTTT
* *
17741241 ACCCTCATAGGATAAAATGAC
1 ACCCTTATATGATAAAATGAC
17741262 CAAAATACCC
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 47 0.44
54 60 0.56
55 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (54 bp):
ACCCTTATATGATAAAATGACAATTTTGCCCTTATATGATAAAATGACGATTTT
Found at i:17741246 original size:80 final size:80
Alignment explanation
Indices: 17741080--17741261 Score: 231
Period size: 80 Copynumber: 2.3 Consensus size: 80
17741070 GCGTACCTGA
* * * *
17741080 ACCCTCATGTGATAAAATGAAAGTTTTACCCTTATGTGATAAAATGACGATTTTACCCTTATATG
1 ACCCTCATATGATAAAATG-ACGATTTACCCTTATGTGATAAAATGACAATTTTACCCTTATATG
* ***
17741145 ATAAAATGACGATTTT
65 ATAAAATGACCAAAAT
* * *
17741161 GCCCTCATATGATATAATGACGATTTACCCTTATTTGATAAAATGACAATTTTGA-CCTTATATG
1 ACCCTCATATGATAAAATGACGATTTACCCTTATGTGATAAAATGACAATTTT-ACCCTTATATG
17741225 ATAAAATGACCAAAAT
65 ATAAAATGACCAAAAT
*
17741241 ACCCTCATAGGATAAAATGAC
1 ACCCTCATATGATAAAATGAC
17741262 CAAAATACCC
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 69 0.80
81 17 0.20
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (80 bp):
ACCCTCATATGATAAAATGACGATTTACCCTTATGTGATAAAATGACAATTTTACCCTTATATGA
TAAAATGACCAAAAT
Found at i:17741254 original size:27 final size:27
Alignment explanation
Indices: 17741224--17741342 Score: 168
Period size: 27 Copynumber: 4.4 Consensus size: 27
17741214 GACCTTATAT
17741224 GATAAAATGACCAAAATACCCTCATAG
1 GATAAAATGACCAAAATACCCTCATAG
17741251 GATAAAATGACCAAAATACCCTCATAG
1 GATAAAATGACCAAAATACCCTCATAG
* *
17741278 GATAAAATGACCGAAATACCCCCATAG
1 GATAAAATGACCAAAATACCCTCATAG
* * *
17741305 GGTAGAATGACCGAAATACCC-CTATAG
1 GATAAAATGACCAAAATACCCTC-ATAG
*
17741332 GGTAAAATGAC
1 GATAAAATGAC
17741343 TGTAATACCT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
26 1 0.01
27 85 0.99
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.18
Consensus pattern (27 bp):
GATAAAATGACCAAAATACCCTCATAG
Found at i:17741273 original size:107 final size:107
Alignment explanation
Indices: 17741080--17741288 Score: 242
Period size: 107 Copynumber: 2.0 Consensus size: 107
17741070 GCGTACCTGA
* * *** * *
17741080 ACCCTCATGTGATAAAATGAAAGTTTTACCCTTATGTGATAAAATGACGATTTTACCCTTATATG
1 ACCCTCATGTGATAAAATGAAAGTTTTACCCTTATATGATAAAATGACCAAAATACCCTCATAGG
* *** * * *
17741145 ATAAAATGACGATTTTGCCCTCATATGATATAATGACGATTT
66 ATAAAATGACCAAAATACCCTCATAGGATAAAATGACGATTT
* *
17741187 ACCCTTATTTGATAAAATGACAA-TTTTGA-CCTTATATGATAAAATGACCAAAATACCCTCATA
1 ACCCTCATGTGATAAAATGA-AAGTTTT-ACCCTTATATGATAAAATGACCAAAATACCCTCATA
17741250 GGATAAAATGACCAAAATACCCTCATAGGATAAAATGAC
64 GGATAAAATGACCAAAATACCCTCATAGGATAAAATGAC
17741289 CGAAATACCC
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
107 81 0.96
108 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (107 bp):
ACCCTCATGTGATAAAATGAAAGTTTTACCCTTATATGATAAAATGACCAAAATACCCTCATAGG
ATAAAATGACCAAAATACCCTCATAGGATAAAATGACGATTT
Found at i:17748257 original size:43 final size:43
Alignment explanation
Indices: 17748097--17748255 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
17748087 GGTTATCGAG
* *
17748097 TTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
1 TTGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
* ** * *
17748140 TTGAGATTATGTGTAAGACCATGTCTGGGACATTGGTATCGTA
1 TTGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
* * * * * *
17748183 TTATGATTTCGTGTAAGACCCTATCTGGGATAGTGGCATCG-A
1 TTGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
*
17748225 TATGTGATAACATGTAAGACCATATCTGGGA
1 T-TGTGATTACATGTAAGACCATATCTGGGA
17748256 TATGACATTG
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 2 0.02
43 94 0.98
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TTGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
Found at i:17749909 original size:24 final size:24
Alignment explanation
Indices: 17749876--17749932 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
17749866 TCAAAATCTC
17749876 AAAATTAAATGAAAAA-AAGTAATAT
1 AAAA-TAAATGAAAAATAAGTAA-AT
* *
17749901 AAAATAAATTAAAAATAATTAAAT
1 AAAATAAATGAAAAATAAGTAAAT
17749925 AAAATAAA
1 AAAATAAA
17749933 ATAAGATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAATAAATGAAAAATAAGTAAAT
Found at i:17753398 original size:15 final size:15
Alignment explanation
Indices: 17753347--17753414 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
17753337 TACGGTATCG
17753347 CATCTTGGATTTCTT
1 CATCTTGGATTTCTT
* *
17753362 TATTTTGGAATTT-TT
1 CATCTTGG-ATTTCTT
17753377 CGA-CTTGGATTTCTT
1 C-ATCTTGGATTTCTT
* *
17753392 CCTCTTGGTTTTCATGT
1 CATCTTGGATTTC-T-T
17753409 CATCTT
1 CATCTT
17753415 TATTTCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
14 4 0.10
15 24 0.60
16 6 0.15
17 6 0.15
ACGTcount: A:0.13, C:0.18, G:0.15, T:0.54
Consensus pattern (15 bp):
CATCTTGGATTTCTT
Found at i:17760280 original size:26 final size:26
Alignment explanation
Indices: 17760251--17760300 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
17760241 AGGTCGAAGC
17760251 TGTCAAACAGCAGAATAGGGTTAAGT
1 TGTCAAACAGCAGAATAGGGTTAAGT
17760277 TGTCAAACAGCAGAATAGGGTTAA
1 TGTCAAACAGCAGAATAGGGTTAA
17760301 CTTTAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (26 bp):
TGTCAAACAGCAGAATAGGGTTAAGT
Found at i:17761440 original size:40 final size:40
Alignment explanation
Indices: 17761362--17761570 Score: 208
Period size: 40 Copynumber: 5.2 Consensus size: 40
17761352 CAAGTTTTTC
* * *
17761362 GCGGCGTTTTTGGTAACAAACGCCGCTATAAATCGAGCATTA
1 GCGGCGTTTTTAG-AA-AAGCGCCGCTATAGATCGAGCATTA
* * * *
17761404 GCGGCATTTTTATAAAAGCGCCACTATAGATTGAGCATTA
1 GCGGCGTTTTTAGAAAAGCGCCGCTATAGATCGAGCATTA
* **
17761444 ACGGCGTTTTTAGAAAAGCGCCGCTATAGATCGATAATTA
1 GCGGCGTTTTTAGAAAAGCGCCGCTATAGATCGAGCATTA
* * *
17761484 GCGGCGCTTTTTGGAAAA-CGCCACTATAGATCGAGCTTTA
1 GCGGCG-TTTTTAGAAAAGCGCCGCTATAGATCGAGCATTA
** * *
17761524 GCTACGTTTTTTA-AAAAACGCCGCCATAGAT-GAGCATTA
1 GCGGCG-TTTTTAGAAAAGCGCCGCTATAGATCGAGCATTA
17761563 GCGGCGTT
1 GCGGCGTT
17761571 AAAAAATGCC
Statistics
Matches: 136, Mismatches: 29, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
38 2 0.01
39 15 0.11
40 97 0.71
41 12 0.09
42 10 0.07
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
GCGGCGTTTTTAGAAAAGCGCCGCTATAGATCGAGCATTA
Done.