Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 333 of 344
Found at i:108181560 original size:32 final size:33
Alignment explanation
Indices: 108181483--108181627 Score: 111
Period size: 32 Copynumber: 4.5 Consensus size: 33
108181473 CAATATATTA
*
108181483 TTTT-CCAATTTTTAAGGGGCCCAAAAAAAATT
1 TTTTACCAACTTTTAAGGGGCCCAAAAAAAATT
* *
108181515 TTTTACCAACTTTTAAGGGGCCC-TAAAATATT
1 TTTTACCAACTTTTAAGGGGCCCAAAAAAAATT
*** * * ****
108181547 TTTTTTTAGCTTTTAA-GAGCCC-AAAGTTTTT
1 TTTTACCAACTTTTAAGGGGCCCAAAAAAAATT
* * *
108181578 TTTTACCAACTTTTAAGGGACCTAAAAAGAATT
1 TTTTACCAACTTTTAAGGGGCCCAAAAAAAATT
*
108181611 TTCT-CCAACTTTTAAGG
1 TTTTACCAACTTTTAAGG
108181628 AATTTAAAAC
Statistics
Matches: 86, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
31 22 0.26
32 39 0.45
33 25 0.29
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (33 bp):
TTTTACCAACTTTTAAGGGGCCCAAAAAAAATT
Found at i:108181591 original size:31 final size:33
Alignment explanation
Indices: 108181513--108181604 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 33
108181503 CCAAAAAAAA
*
108181513 TTTTTTACCAACTTTTAAGGGGCCCTAAAATATT
1 TTTTTTACCAACTTTTAA-GAGCCCTAAAATATT
* * *
108181547 TTTTTT--TAGCTTTTAAGAGCCC-AAAGT-TT
1 TTTTTTACCAACTTTTAAGAGCCCTAAAATATT
* *
108181576 TTTTTTACCAACTTTTAAGGGACCTAAAA
1 TTTTTTACCAACTTTTAAGAGCCCTAAAA
108181605 AGAATTTTCT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
29 8 0.17
30 4 0.09
31 17 0.37
32 11 0.24
34 6 0.13
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (33 bp):
TTTTTTACCAACTTTTAAGAGCCCTAAAATATT
Found at i:108182320 original size:17 final size:18
Alignment explanation
Indices: 108182284--108182337 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
108182274 ATCAAAAACT
108182284 TATATAAAAA-TTTAACAGA
1 TATA-AAAAATTTTAA-AGA
108182303 T-TAAAAAATTTTAAAGA
1 TATAAAAAATTTTAAAGA
108182320 TATAAATACAATTTTAAA
1 TATAAA-A-AATTTTAAA
108182338 CTAAAGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.29
18 11 0.35
19 2 0.06
20 9 0.29
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (18 bp):
TATAAAAAATTTTAAAGA
Found at i:108186559 original size:22 final size:22
Alignment explanation
Indices: 108186532--108186576 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
108186522 ATGGTCTTAC
108186532 ATATAAACACTGAAATGGTCCA
1 ATATAAACACTGAAATGGTCCA
**
108186554 ATATAAACACTGTCATGGTCCA
1 ATATAAACACTGAAATGGTCCA
108186576 A
1 A
108186577 CCATGGTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (22 bp):
ATATAAACACTGAAATGGTCCA
Found at i:108186740 original size:27 final size:27
Alignment explanation
Indices: 108186684--108186741 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
108186674 CCAACCATGG
*
108186684 TCTTAAATACTTCAATTTTTTTATTAT
1 TCTTAAATACTTCAATTTTTTTAATAT
108186711 TCTTAAATACTTCAATTTTTTTTAAT-T
1 TCTTAAATACTTCAA-TTTTTTTAATAT
108186738 TCTT
1 TCTT
108186742 TCCCTTTTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (27 bp):
TCTTAAATACTTCAATTTTTTTAATAT
Found at i:108205523 original size:33 final size:32
Alignment explanation
Indices: 108205486--108205567 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
108205476 CAGCCCTTCC
* * *
108205486 ATGGTCTTACGTTCATAGTGCCATAACTCAGT-T
1 ATGGTCTTAC-ATCATAATGCCATAACCCA-TAT
*
108205519 ATGGTCTTATCATCATAATGCCATAGCCCATAT
1 ATGGTCTTA-CATCATAATGCCATAACCCATAT
108205552 ATGGTCTTACAT-ATAA
1 ATGGTCTTACATCATAA
108205568 ACACTGTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
31 4 0.09
32 4 0.09
33 34 0.79
34 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (32 bp):
ATGGTCTTACATCATAATGCCATAACCCATAT
Found at i:108205614 original size:101 final size:101
Alignment explanation
Indices: 108205484--108205693 Score: 341
Period size: 101 Copynumber: 2.1 Consensus size: 101
108205474 CACAGCCCTT
* *
108205484 CCATGGTCTTACGTTCATAGTGCCATAACTCAGTTATGGTCTTATCATCATAATGCCATAGCCCA
1 CCATGGTCATACGTCCATAGTGCCATAACTCAGTTATGGTCTTATCATCATAATGCCATAGCCCA
* * *
108205549 TA-TATGGTCTTACATATAAACACTGTCATGGTCCAA
66 -ACTATGGCCGTACATATAAACACTGCCATGGTCCAA
*
108205585 CCATGGTCATACGTCCATAGTGCCATAACTCAGTTATGGTCTTATCATCATAATGCCATAGCGCA
1 CCATGGTCATACGTCCATAGTGCCATAACTCAGTTATGGTCTTATCATCATAATGCCATAGCCCA
*
108205650 ACTATGGCCGTACATATATACACTGCCATGGTCCAA
66 ACTATGGCCGTACATATAAACACTGCCATGGTCCAA
108205686 CCATGGTC
1 CCATGGTC
108205694 TTAAATACTT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 1 0.01
101 100 0.99
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (101 bp):
CCATGGTCATACGTCCATAGTGCCATAACTCAGTTATGGTCTTATCATCATAATGCCATAGCCCA
ACTATGGCCGTACATATAAACACTGCCATGGTCCAA
Found at i:108205656 original size:33 final size:31
Alignment explanation
Indices: 108205441--108205656 Score: 78
Period size: 33 Copynumber: 6.5 Consensus size: 31
108205431 TCCTATTGTA
*
108205441 CATAGTCCAACTATGGTCTTACAT-ATGCATTGC
1 CATAG-CCAACTATGGTCTTACATCAT--AATGC
* ** * * *
108205474 CACAGCCCTTCCATGGTCTTACGTTCATAGTGC
1 CATAG-CCAACTATGGTCTTAC-ATCATAATGC
* **
108205507 CATAACTCAGTTATGGTCTTATCATCATAATGC
1 CATAGC-CAACTATGGTCTTA-CATCATAATGC
*
108205540 CATAGCCCATA-TATGGTCTTACAT-ATAAACACTGT
1 CATAG-CCA-ACTATGGTCTTACATCAT--A-A-TGC
* * * * *
108205575 CATGGTCCAACCATGGTCATACGTCCATAGTGC
1 CATAG-CCAACTATGGTCTTACAT-CATAATGC
* **
108205608 CATAACTCAGTTATGGTCTTATCATCATAATGC
1 CATAGC-CAACTATGGTCTTA-CATCATAATGC
108205641 CATAGCGCAACTATGG
1 CATAGC-CAACTATGG
108205657 CCGTACATAT
Statistics
Matches: 131, Mismatches: 37, Indels: 30
0.66 0.19 0.15
Matches are distributed among these distances:
31 2 0.02
32 5 0.04
33 93 0.71
34 7 0.05
35 22 0.17
37 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (31 bp):
CATAGCCAACTATGGTCTTACATCATAATGC
Found at i:108206476 original size:51 final size:51
Alignment explanation
Indices: 108206418--108206516 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
108206408 AATGTTGTTT
108206418 TTGTTCTGAGTTCAATTCTTGCAATTTTGATATATTGAACAACTGAGTGTA
1 TTGTTCTGAGTTCAATTCTTGCAATTTTGATATATTGAACAACTGAGTGTA
*
108206469 TTGTTCTGAGTTCAATTCTTGCAATTTTGATATATTGAACAATTGAGT
1 TTGTTCTGAGTTCAATTCTTGCAATTTTGATATATTGAACAACTGAGT
108206517 CTGTTATCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.44
Consensus pattern (51 bp):
TTGTTCTGAGTTCAATTCTTGCAATTTTGATATATTGAACAACTGAGTGTA
Found at i:108214675 original size:18 final size:18
Alignment explanation
Indices: 108214648--108214684 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
108214638 ATCTATATAC
*
108214648 TAAATTGAAATGGAAAAT
1 TAAATCGAAATGGAAAAT
108214666 TAAATCGAAATGGAAAAT
1 TAAATCGAAATGGAAAAT
108214684 T
1 T
108214685 TTGTCACGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.16, T:0.27
Consensus pattern (18 bp):
TAAATCGAAATGGAAAAT
Found at i:108219259 original size:33 final size:32
Alignment explanation
Indices: 108219217--108219278 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
108219207 TTCATAGTGC
* *
108219217 CATAACTCAATTATGGTCTTATCATCTAAATGT
1 CATAACTCAACTATGGTCTTA-CATATAAATGT
*
108219250 CATAGCTCAACTATGGTCTTACATATAAA
1 CATAACTCAACTATGGTCTTACATATAAA
108219279 CACTGTCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (32 bp):
CATAACTCAACTATGGTCTTACATATAAATGT
Found at i:108224638 original size:31 final size:31
Alignment explanation
Indices: 108224603--108224665 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
108224593 TAAATGAAAG
*
108224603 AATAAATAGTTACTTAGTTAAAATTATATTT
1 AATAAATAGTTACTTAATTAAAATTATATTT
108224634 AATAAATAGTTACTTAATTAAAATTATATTT
1 AATAAATAGTTACTTAATTAAAATTATATTT
108224665 A
1 A
108224666 TTTTGATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (31 bp):
AATAAATAGTTACTTAATTAAAATTATATTT
Found at i:108230668 original size:15 final size:16
Alignment explanation
Indices: 108230648--108230680 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
108230638 TTAACAAGAA
*
108230648 AATTAAATATA-TCTT
1 AATTAAACATATTCTT
108230663 AATTAAACATATTCTT
1 AATTAAACATATTCTT
108230679 AA
1 AA
108230681 ACTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAAACATATTCTT
Found at i:108233084 original size:16 final size:16
Alignment explanation
Indices: 108233059--108233090 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108233049 GATTCAAGTT
*
108233059 ATTTCGAATTTAAATC
1 ATTTCAAATTTAAATC
108233075 ATTTCAAATTTAAATC
1 ATTTCAAATTTAAATC
108233091 GATGAAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (16 bp):
ATTTCAAATTTAAATC
Found at i:108246811 original size:18 final size:18
Alignment explanation
Indices: 108246790--108247054 Score: 156
Period size: 18 Copynumber: 14.3 Consensus size: 18
108246780 GAACAATTAT
108246790 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
108246808 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
108246826 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
108246844 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
108246870 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
108246888 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
108246905 ATATTCAGTAGCAATTAAG
1 TTATTCAGTAAC-AGTCAG
* *
108246924 TTATTCAGTAATAGTCAT
1 TTATTCAGTAACAGTCAG
* *
108246942 TTATTCAGTGACAATCAG
1 TTATTCAGTAACAGTCAG
* *
108246960 TTATTCAGTAA-TGATCAT
1 TTATTCAGTAACAG-TCAG
* *
108246978 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
108246996 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
108247014 TTATTCGGTAACAGACAA
1 TTATTCAGTAACAGTCAG
* *
108247032 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
108247050 TTATT
1 TTATT
108247055 TTATACCTTT
Statistics
Matches: 183, Mismatches: 52, Indels: 24
0.71 0.20 0.09
Matches are distributed among these distances:
17 12 0.07
18 141 0.77
19 14 0.08
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:108246830 original size:36 final size:36
Alignment explanation
Indices: 108246777--108247054 Score: 175
Period size: 36 Copynumber: 7.5 Consensus size: 36
108246767 TCATTAGCAA
* *
108246777 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * **
108246812 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
108246848 TCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAGTCAGTTAT
* * * *
108246892 TTAGTAA-AATCAGA-TATTCAGTAGCAATTAAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAAC-AGTCAGTTAT
* * * * *
108246928 TCAGTAATAGTCATTTATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
** * * *
108246964 TCAGTAATGATCATTTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * *
108247000 TCAGTAACAGTCAATTATTCGGTAACAGACAATTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* *
108247036 TCAGTAATAATCAGTTATT
1 TCAGTAACAATCAATTATT
108247055 TTATACCTTT
Statistics
Matches: 184, Mismatches: 46, Indels: 25
0.72 0.18 0.10
Matches are distributed among these distances:
35 9 0.05
36 134 0.73
37 15 0.08
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
Found at i:108247287 original size:45 final size:45
Alignment explanation
Indices: 108247217--108247320 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
108247207 ACAAATCCAG
* **
108247217 AACAGCAACAGTAACAGTATTCGACACACAAAGTGTTGAATCGAT
1 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
* *
108247262 AACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
108247307 AACAGTAACAGTAA
1 AACAGTAACAGTAA
108247321 TCGGCACATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
Found at i:108248129 original size:12 final size:12
Alignment explanation
Indices: 108248112--108248145 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
108248102 TTTACTTATT
108248112 TATATAATATAA
1 TATATAATATAA
108248124 TATATAATATAA
1 TATATAATATAA
108248136 TATACTAATA
1 TATA-TAATA
108248146 ATATAGTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:108251774 original size:30 final size:30
Alignment explanation
Indices: 108251740--108251799 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
108251730 ACTTAACAAG
*
108251740 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* * *
108251770 CAAATGCCTTTAAAATAATAACAATATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
108251800 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:108253853 original size:26 final size:24
Alignment explanation
Indices: 108253823--108253872 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
108253813 AAATAAAAAA
*
108253823 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
108253849 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
108253873 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:108253892 original size:21 final size:21
Alignment explanation
Indices: 108253843--108253901 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
108253833 ATAATAAATC
*
108253843 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
108253863 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
108253885 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
108253902 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:108254219 original size:27 final size:29
Alignment explanation
Indices: 108254181--108254259 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 29
108254171 ATGATCAGCT
108254181 CTATATGTATTGTATATATATTCTTAAT-A
1 CTATAT-TATTGTATATATATTCTTAATAA
* *
108254210 TTATA-TATTGTATATATTTTCTTAATAA
1 CTATATTATTGTATATATATTCTTAATAA
108254238 CTATATTATATGTATATATATT
1 CTATATTAT-TGTATATATATT
108254260 GTATGTACGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
27 20 0.47
28 5 0.12
29 7 0.16
30 11 0.26
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (29 bp):
CTATATTATTGTATATATATTCTTAATAA
Found at i:108254681 original size:3 final size:3
Alignment explanation
Indices: 108254673--108254709 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
108254663 ATTATCATTG
* *
108254673 TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT AAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
108254710 CTTGCTTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:108262245 original size:6 final size:6
Alignment explanation
Indices: 108262234--108262267 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
108262224 TGCATTTGTA
108262234 CACACC CACACC CACACC CACACC CACACC CACA
1 CACACC CACACC CACACC CACACC CACACC CACA
108262268 TAATCTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (6 bp):
CACACC
Found at i:108263612 original size:26 final size:26
Alignment explanation
Indices: 108263561--108263612 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
108263551 AATGATCACG
* *
108263561 ATATATATTTAAGTAAATATATAATT
1 ATATAAATTTAAGTAAATATAAAATT
*
108263587 ATATAAATTTATA-TAAATTTAAAATT
1 ATATAAATTTA-AGTAAATATAAAATT
108263613 GATTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATATAAATTTAAGTAAATATAAAATT
Found at i:108265200 original size:6 final size:6
Alignment explanation
Indices: 108265189--108265221 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
108265179 TGAGAGAAGA
108265189 GATAGG GATAGG GATAGG GATAGG GATAGG GAT
1 GATAGG GATAGG GATAGG GATAGG GATAGG GAT
108265222 CGAGAACGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.48, T:0.18
Consensus pattern (6 bp):
GATAGG
Found at i:108265375 original size:12 final size:11
Alignment explanation
Indices: 108265305--108265450 Score: 68
Period size: 12 Copynumber: 12.5 Consensus size: 11
108265295 ATCGAGATAG
*
108265305 GGGAAGGGAAA
1 GGGAAAGGAAA
*
108265316 -GGAAA-GATA
1 GGGAAAGGAAA
*
108265325 GGGAACGAGAGAA
1 GGGAAAG-GA-AA
* *
108265338 GGAAAAGGAGA
1 GGGAAAGGAAA
**
108265349 GGGAAAGAGCTA
1 GGGAAAG-GAAA
108265361 GGGAGAAGGAAA
1 GGGA-AAGGAAA
108265373 GGGAAAGGGAAAA
1 GGGAAA-GG-AAA
108265386 GCGTGAAAGGGAAA
1 G-G-GAAA-GGAAA
108265400 GGGAAAGAGAAA
1 GGGAAAG-GAAA
108265412 GGG--A-GAAGA
1 GGGAAAGGAA-A
108265421 GGGAAAGAGAAA
1 GGGAAAG-GAAA
*
108265433 GAGAAAGGGAAA
1 GGGAAA-GGAAA
108265445 GGGAAA
1 GGGAAA
108265451 AAGAGAGGGA
Statistics
Matches: 104, Mismatches: 14, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
8 3 0.03
9 7 0.07
10 9 0.09
11 11 0.11
12 44 0.42
13 18 0.17
14 5 0.05
15 7 0.07
ACGTcount: A:0.51, C:0.02, G:0.45, T:0.02
Consensus pattern (11 bp):
GGGAAAGGAAA
Found at i:108265379 original size:6 final size:6
Alignment explanation
Indices: 108265368--108265450 Score: 85
Period size: 6 Copynumber: 12.8 Consensus size: 6
108265358 CTAGGGAGAA
*
108265368 GGAAAG GGAAAG GGAAAAG CGTGAAAG GGAAAG GGAAAG AGAAAGG GAGAAGAG
1 GGAAAG GGAAAG GG-AAAG -G-GAAAG GGAAAG GGAAAG GGAAA-G G-GAA-AG
* *
108265422 GGAAAG AGAAAG AGAAAG GGAAAG GGAAA
1 GGAAAG GGAAAG GGAAAG GGAAAG GGAAA
108265451 AAGAGAGGGA
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
6 46 0.69
7 9 0.13
8 10 0.15
9 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.45, T:0.01
Consensus pattern (6 bp):
GGAAAG
Found at i:108265402 original size:27 final size:24
Alignment explanation
Indices: 108265324--108265450 Score: 105
Period size: 27 Copynumber: 5.0 Consensus size: 24
108265314 AAGGAAAGAT
* * *
108265324 AGGGAACGAGAGAA-GGAAAAGGAG
1 AGGGAAAGAGA-AAGGGAAAGGGAA
**
108265348 AGGGAAAGAGCTAGGGAGAA-GGAA
1 AGGGAAAGAGAAAGGGA-AAGGGAA
*
108265372 AGGGAAAGGGAAAAGCGTGAAAGGGAA
1 AGGGAAAGAG-AAAG-G-GAAAGGGAA
108265399 AGGGAAAGAGAAAGGGAGAAGAGGGAA
1 AGGGAAAGAGAAA-GG-GAA-AGGGAA
*
108265426 AGAGAAAGAGAAAGGGAAAGGGAA
1 AGGGAAAGAGAAAGGGAAAGGGAA
108265450 A
1 A
108265451 AAGAGAGGGA
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
23 1 0.01
24 31 0.36
25 7 0.08
26 12 0.14
27 34 0.40
ACGTcount: A:0.51, C:0.02, G:0.45, T:0.02
Consensus pattern (24 bp):
AGGGAAAGAGAAAGGGAAAGGGAA
Found at i:108265403 original size:51 final size:48
Alignment explanation
Indices: 108265324--108265468 Score: 136
Period size: 45 Copynumber: 3.0 Consensus size: 48
108265314 AAGGAAAGAT
* * * **
108265324 AGGGAACGAGAGAAG-GAAAAGGAGAGGGAAAGAGCTAGGGAGAAGGAA
1 AGGGAAAGAGA-AAGAGAAAGGGAAAGGGAAAGAGAAAGGGAGAAGGAA
* *
108265372 AGGGAAAGGGAAAAGCGTGAAAGGGAAAGGGAAAGAGAAAGGGAGAA-G--
1 AGGGAAAGAG-AAA--GAGAAAGGGAAAGGGAAAGAGAAAGGGAGAAGGAA
* * *
108265420 AGGGAAAGAGAAAGAGAAAGGGAAAGGGAAAAAGAGAGGGAGAGGGAA
1 AGGGAAAGAGAAAGAGAAAGGGAAAGGGAAAGAGAAAGGGAGAAGGAA
108265468 A
1 A
108265469 AGAAGGCGAG
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
45 27 0.34
46 1 0.01
47 3 0.04
48 20 0.25
49 1 0.01
50 2 0.03
51 25 0.32
ACGTcount: A:0.51, C:0.02, G:0.46, T:0.01
Consensus pattern (48 bp):
AGGGAAAGAGAAAGAGAAAGGGAAAGGGAAAGAGAAAGGGAGAAGGAA
Found at i:108265405 original size:33 final size:33
Alignment explanation
Indices: 108265360--108265451 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
108265350 GGAAAGAGCT
* *
108265360 AGGGAGAA-GGAAAGGGAAAGGGAAAAGCGTGAA
1 AGGGA-AAGGGAAAGGGAAAGGGAAAAGAGGGAA
* *
108265393 AGGGAAAGGGAAAGAGAAAGGGAGAAGAGGGAA
1 AGGGAAAGGGAAAGGGAAAGGGAAAAGAGGGAA
* *
108265426 AGAGAAAGAGAAAGGGAAAGGGAAAA
1 AGGGAAAGGGAAAGGGAAAGGGAAAA
108265452 AGAGAGGGAG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
32 2 0.04
33 48 0.96
ACGTcount: A:0.53, C:0.01, G:0.45, T:0.01
Consensus pattern (33 bp):
AGGGAAAGGGAAAGGGAAAGGGAAAAGAGGGAA
Found at i:108271261 original size:183 final size:180
Alignment explanation
Indices: 108270886--108271441 Score: 792
Period size: 184 Copynumber: 3.0 Consensus size: 180
108270876 GTATTTTCCG
* * * *
108270886 ACTTGATTAGTTGGTTAAGGTTTTTGAGACTGAAACAGATCAGTGTTTCCCTTGTTGATGTGGCT
1 ACTTGATTAGTCGGTTAAGGGTTTTGAGATTGAAACAGATCTGTGTTTCCCTTGTTGATGTGGCT
* * * *
108270951 CCTTCACAAACAGTGAATGTTGACCA-ACTGGACTGGTCGAGTTTTTCTGAGACAAAACGTAAAA
66 CCTCCACAAACAGTGAA-CTTGA-CAGACCGGACTGGT-GAGTTTTTCTGGGACAAAA-GTAAAA
* *
108271015 GGTTTGTATGACCAATCAGAATAATATTTGAGGGAAAATACGAAGTCCATATGCA
127 GGTTTGTAT-AGCAATCAGAATAATATTTGAGGGAAAATATGAAGTCCATATGCA
108271070 ACTTGATTAGTCGGTTAAGGGTTTTGAGATTGAAACAGATCTGTGTTTCCCTTGTTGATGTGGCT
1 ACTTGATTAGTCGGTTAAGGGTTTTGAGATTGAAACAGATCTGTGTTTCCCTTGTTGATGTGGCT
**
108271135 CCTCCACAAACAGTGAACTTGACAGACCGGACTGGCTGAGTTTTTCTGGGACAGAAAGTGGAAGG
66 CCTCCACAAACAGTGAACTTGACAGACCGGACTGG-TGAGTTTTTCTGGGACA-AAAGTAAAAGG
* *
108271200 TTTGTGTAAGCAATCAGAATAATATTTGAGGGAAAATATGAAGTCCATATGCC
129 TTTGTAT-AGCAATCAGAATAATATTTGAGGGAAAATATGAAGTCCATATGCA
* * *
108271253 ACTTGATTAGTCAGTTAAGGGTTTTGAGATAGAAACAGATCTGTGTTTGCGC-TGTTGATGTGGC
1 ACTTGATTAGTCGGTTAAGGGTTTTGAGATTGAAACAGATCTGTGTTT-CCCTTGTTGATGTGGC
* *
108271317 TCCTCCACAAACAGTGAACGTTGACCGACCGGACTGGTTGAGTCTTTCTGGGACAATAAGTAAAA
65 TCCTCCACAAACAGTGAAC-TTGACAGACCGGACTGG-TGAGTTTTTCTGGGACAA-AAGTAAAA
* *
108271382 GGTTTGTATAGTCTATTAGAATAATATTTGAGGGAAAATATGAAGTCCATATGCA
127 GGTTTGTATAG-CAATCAGAATAATATTTGAGGGAAAATATGAAGTCCATATGCA
108271437 ACTTG
1 ACTTG
108271442 TGGTATACTC
Statistics
Matches: 338, Mismatches: 27, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
182 2 0.01
183 162 0.48
184 174 0.51
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (180 bp):
ACTTGATTAGTCGGTTAAGGGTTTTGAGATTGAAACAGATCTGTGTTTCCCTTGTTGATGTGGCT
CCTCCACAAACAGTGAACTTGACAGACCGGACTGGTGAGTTTTTCTGGGACAAAAGTAAAAGGTT
TGTATAGCAATCAGAATAATATTTGAGGGAAAATATGAAGTCCATATGCA
Found at i:108273911 original size:36 final size:36
Alignment explanation
Indices: 108273861--108273936 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
108273851 GAAGATTACG
* **
108273861 GGATCGCACCTGGCCAGTTGTCTGGGTTCTTTTGGT
1 GGATCGCACCTGGCCAATTGTCTGGGTTCTCCTGGT
* *
108273897 GGATCGCACTTGGCCAATTGTTTGGGTTCTCCTGGT
1 GGATCGCACCTGGCCAATTGTCTGGGTTCTCCTGGT
108273933 GGAT
1 GGAT
108273937 TGGGATGGCC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.11, C:0.21, G:0.33, T:0.36
Consensus pattern (36 bp):
GGATCGCACCTGGCCAATTGTCTGGGTTCTCCTGGT
Found at i:108274882 original size:35 final size:35
Alignment explanation
Indices: 108274806--108274885 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
108274796 TTCGTTTCTA
*
108274806 TTTATTTTTATTGTTATTTCAATTTCAATTATCTCT
1 TTTATTTTTATTGTTA-TTCAATTTAAATTATCTCT
* *
108274842 ATTATTTTTACTT-TTA-TCATATTTAAATTTTCTCT
1 TTTATTTTTA-TTGTTATTCA-ATTTAAATTATCTCT
108274877 TTTATTTTT
1 TTTATTTTT
108274886 GCAAAGATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
34 3 0.08
35 21 0.55
36 12 0.32
37 2 0.05
ACGTcount: A:0.23, C:0.10, G:0.01, T:0.66
Consensus pattern (35 bp):
TTTATTTTTATTGTTATTCAATTTAAATTATCTCT
Found at i:108276014 original size:13 final size:14
Alignment explanation
Indices: 108275989--108276017 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
108275979 GACTTATTTT
108275989 AAATATATTTAAAA
1 AAATATATTTAAAA
108276003 AAATAT-TTTAAAA
1 AAATATATTTAAAA
108276016 AA
1 AA
108276018 TTCGATTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATATATTTAAAA
Found at i:108285998 original size:21 final size:21
Alignment explanation
Indices: 108285972--108286018 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
108285962 ATGGAGGCGA
*
108285972 TCTCCATGTAGATCA-TCAAGG
1 TCTCCAGGTAGAT-ATTCAAGG
108285993 TCTCCAGGTAGATATTCAAGG
1 TCTCCAGGTAGATATTCAAGG
108286014 TCTCC
1 TCTCC
108286019 TTCTGGGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (21 bp):
TCTCCAGGTAGATATTCAAGG
Found at i:108304653 original size:40 final size:40
Alignment explanation
Indices: 108304602--108304683 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
108304592 TACTGTATGA
108304602 ATAATTAATTTAAAAGTTATTAAAGATATTTATATATGTC
1 ATAATTAATTTAAAAGTTATTAAAGATATTTATATATGTC
108304642 ATAATTAATTTAAAAGTTATTAAAGATATTTATATATGTC
1 ATAATTAATTTAAAAGTTATTAAAGATATTTATATATGTC
108304682 AT
1 AT
108304684 TTTTTATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (40 bp):
ATAATTAATTTAAAAGTTATTAAAGATATTTATATATGTC
Found at i:108304672 original size:20 final size:20
Alignment explanation
Indices: 108304609--108304673 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
108304599 TGAATAATTA
108304609 ATTTAAAAGTTATTAAAGAT
1 ATTTAAAAGTTATTAAAGAT
* * **
108304629 ATTTATATATGTCA-TAATTA-
1 ATTTA-A-AAGTTATTAAAGAT
108304649 ATTTAAAAGTTATTAAAGAT
1 ATTTAAAAGTTATTAAAGAT
108304669 ATTTA
1 ATTTA
108304674 TATATGTCAT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 4 0.12
19 5 0.15
20 15 0.45
21 5 0.15
22 4 0.12
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (20 bp):
ATTTAAAAGTTATTAAAGAT
Found at i:108311071 original size:14 final size:14
Alignment explanation
Indices: 108311052--108311080 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
108311042 GATTTGAATA
108311052 CAAAATTTTAAACT
1 CAAAATTTTAAACT
108311066 CAAAATTTTAAACT
1 CAAAATTTTAAACT
108311080 C
1 C
108311081 GTTTTTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (14 bp):
CAAAATTTTAAACT
Found at i:108315751 original size:21 final size:21
Alignment explanation
Indices: 108315725--108315765 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108315715 AGACGAGCAA
* *
108315725 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
108315746 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
108315766 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:108323194 original size:11 final size:11
Alignment explanation
Indices: 108323166--108323197 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
108323156 ACTAGTGGAG
*
108323166 TTAGGTAATGT
1 TTAGGTGATGT
108323177 TTAGGTGATGT
1 TTAGGTGATGT
108323188 TTAGGTGATG
1 TTAGGTGATG
108323198 AATTTATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (11 bp):
TTAGGTGATGT
Found at i:108325659 original size:35 final size:35
Alignment explanation
Indices: 108325620--108325690 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
108325610 CACTTGCCTC
108325620 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
108325655 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
108325690 T
1 T
108325691 CACACACCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.17, C:0.48, G:0.11, T:0.24
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:108325716 original size:34 final size:35
Alignment explanation
Indices: 108325638--108325717 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
108325628 CTCCCATGCT
* * * * *
108325638 GTCTGCCACCAGCACCATTCCCACTCTCCCATGCT
1 GTCTGCCACCAGCACCATTCACACACCCCCATACC
108325673 GTCTGCCACCAGCACCA-TCACACACCCCCATACC
1 GTCTGCCACCAGCACCATTCACACACCCCCATACC
*
108325707 GTCTACCACCA
1 GTCTGCCACCA
108325718 CCATGCCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 22 0.56
35 17 0.44
ACGTcount: A:0.23, C:0.50, G:0.10, T:0.17
Consensus pattern (35 bp):
GTCTGCCACCAGCACCATTCACACACCCCCATACC
Found at i:108331469 original size:6 final size:6
Alignment explanation
Indices: 108331458--108331495 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
108331448 AACAGTCATG
*
108331458 AAAAGA AAAAG- AAAATA AAAA-A AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
108331496 AAGGACAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 9 0.31
6 20 0.69
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:108331477 original size:11 final size:11
Alignment explanation
Indices: 108331457--108331494 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
108331447 CAACAGTCAT
108331457 GAAAAGAAAAA
1 GAAAAGAAAAA
*
108331468 GAAAATAAAAA
1 GAAAAGAAAAA
*
108331479 AAAAAGAAAAA
1 GAAAAGAAAAA
108331490 GAAAA
1 GAAAA
108331495 AAAGGACAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:108331482 original size:16 final size:15
Alignment explanation
Indices: 108331458--108331521 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 15
108331448 AACAGTCATG
*
108331458 AAAAGAAAAAGAAAA
1 AAAAAAAAAAGAAAA
108331473 TAAAAAAAAAAGAAAA
1 -AAAAAAAAAAGAAAA
* *
108331489 AGAAAAAAAGGACAAGA
1 AAAAAAAAAAGA-AA-A
108331506 AAAAAACAAAA-AAAA
1 AAAAAA-AAAAGAAAA
108331521 A
1 A
108331522 TCAAATACCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
15 12 0.30
16 18 0.45
17 7 0.17
18 3 0.08
ACGTcount: A:0.84, C:0.03, G:0.11, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:108333794 original size:73 final size:73
Alignment explanation
Indices: 108333699--108334173 Score: 634
Period size: 73 Copynumber: 6.5 Consensus size: 73
108333689 TGATGCTTTT
* *
108333699 ATTTCTG--TTTCAAAAATTCAACTCATGTTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGCTTTTCAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
108333762 GTAATTTCA
65 GTAATTTCA
* * *
108333771 ATTTCTGCTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
108333836 TAATTTCA
66 TAATTTCA
* * * **
108333844 ATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAATACACATTGAGG
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
*
108333908 TATTTTCA
66 TAATTTCA
* ** *
108333916 ATTTTTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
108333981 TAATTTCA
66 TAATTTCA
* ** *
108333989 ATTTTTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
108334054 TAATTTCA
66 TAATTTCA
* ** * *
108334062 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGA
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA--AGACACGCTGA
*
108334127 GGTATTTTCA
64 GGTAATTTCA
* *
108334137 AATTCTAC-TTTCAAAAAAATCAACTCATATTGCGAGA
1 ATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGA
108334174 GGTGGGTTGA
Statistics
Matches: 371, Mismatches: 25, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
72 75 0.20
73 239 0.64
74 12 0.03
75 22 0.06
76 23 0.06
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (73 bp):
ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
TAATTTCA
Found at i:108333967 original size:145 final size:144
Alignment explanation
Indices: 108333699--108335615 Score: 1065
Period size: 145 Copynumber: 12.9 Consensus size: 144
108333689 TGATGCTTTT
* *
108333699 ATTTCTG-TTTCAAAAATTCAACTCATGTTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* * **
108333763 TAATTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACA
65 TAATTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
108333828 CGTTGAGGTAATTTCA
129 CGCTGAGGTAATTTCA
* * * **
108333844 ATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAATACACATTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
* * *
108333909 ATTTTCAATTTTTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
66 AATTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
108333974 GCTGAGGTAATTTCA
130 GCTGAGGTAATTTCA
* ** *
108333989 ATTTTTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
*
108334054 TAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
65 TAATTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--AGA
* *
108334119 CACGCCGAGGTATTTTCA
127 CACGCTGAGGTAATTTCA
* ** * * *
108334137 AATTCTACTTTCAAAAAAATCAACTCATATTGCGAG--A-G-G-TG-G-GT--TGA-AC-C--AT
1 ATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
* * ** * * ** * * * * **
108334189 TTAATTTCTACGT-T-TTCT-AAATCAACTCATATTGC-TAGAG-GTGAGTTGAGCCTCAG-GAC
64 GTAATTTCAATTTCTGTTTTCAAA--AA-TCA-ACT-CATATTGCGAGAGGTGAG-TTGAGCCTC
* * * **
108334248 ACG-CTGA-GGTAATTTCAATTTC-
123 AAGAC--ACGCTGAGGT-AATTTCA
* ** *
108334270 -TGT-TG-TTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
* *
108334332 AATTTCAATTTCTGTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-TGTTCAC
66 AATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---AC
* *
108334396 ATGCTGAGGTATTTTCA
128 ACGCTGAGGTAATTTCA
* ** * * *
108334413 ATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTG
1 ATTTCTGTTTT--CAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGCTG
* *
108334478 TGGT-ATTTTAA--------TT------TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
62 AGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--A
* * *
108334528 CACACGCCGAGGTATTTTCAATTAA
125 GACACGCTGAGGTAATTTC-----A
** * *
108334553 GCCTTTTGATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
1 --------ATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
* * * *
108334618 CACACCGAGGTATTTTCCATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCATATTGC
55 CACGCTGAGGTAATTTCAATTTCTGTTTTC---------------AAA-AATCAACTCATATTGC
** * **
108334683 GAGAAATGAGTTCAGCCTCAAGACACATTGAGGTAATTTCA
104 GAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* *
108334724 ATTCCTG-TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* **
108334788 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
65 TAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* *
108334853 GTTGAGGTATTTTCA
130 GCTGAGGTAATTTCA
* *
108334868 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* * ** *
108334933 TAATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAT
65 TAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
108334998 GTTGAGGTATTTTCAATTCCTGTTCA
130 GCTGAGG-----T-AA----T-TTCA
* ** *
108335024 ATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* ** *
108335089 TAATTTCAATTTCTGTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGC
65 TAATTTCAATTTCTG--TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* *
108335154 ACGCCGAGGTATTTTCA
128 ACGCTGAGGTAATTTCA
* ** * ** *
108335171 AATTCTACTTTCAAAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCT-TGGCTCACG-TG
1 ATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAA-ATGAGTTGAGCCTCAAG-ACACGCTG
* * ** *
108335233 TTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCAAGAGGTGA
62 -AG-GT-AATTTCAATTTCTG---TT-T-TC------AAAAATCAACTCATATTGCGAGAGGTGA
* * * *
108335298 GTTGAGCCTCAGGACATGCTGAGGTATTTTCC
113 GTTGAGCCTCAAGACACGCTGAGGTAATTTCA
*** * ** * ** * * ** **
108335330 ATTTCTGTTTTC-GTTAT-TA-TGTTTTTGAAAGAATCAACTCATATTGCGAGAAAT-AAGTTGA
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAG-A--AA-TGA-GTT--GAG-CCTCAAG-ACA
* ** ** * **
108335391 GCCCCAAGACACATTGAGGT-AATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAA
57 -CGCTGAGGTA-ATT----TCAA------TTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGG
* *
108335455 TGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
110 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * *
108335490 ATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGG
1 ATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* * *
108335555 TAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCA
65 TAATTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
108335616 GTTCACATGT
Statistics
Matches: 1374, Mismatches: 239, Indels: 316
0.71 0.12 0.16
Matches are distributed among these distances:
128 22 0.02
130 3 0.00
131 2 0.00
132 6 0.00
133 8 0.01
134 9 0.01
135 63 0.05
136 18 0.01
137 3 0.00
138 3 0.00
139 3 0.00
140 12 0.01
141 24 0.02
142 10 0.01
143 8 0.01
144 67 0.05
145 263 0.19
146 130 0.09
147 62 0.05
148 109 0.08
149 72 0.05
150 25 0.02
151 7 0.01
152 2 0.00
153 3 0.00
154 9 0.01
155 7 0.01
156 83 0.06
157 5 0.00
158 50 0.04
159 69 0.05
160 117 0.09
161 15 0.01
162 7 0.01
163 10 0.01
164 7 0.01
165 2 0.00
166 3 0.00
167 1 0.00
168 2 0.00
171 7 0.01
176 15 0.01
178 31 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (144 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
AATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
CTGAGGTAATTTCA
Found at i:108334328 original size:74 final size:73
Alignment explanation
Indices: 108334207--108335221 Score: 550
Period size: 74 Copynumber: 13.5 Consensus size: 73
108334197 TACGTTTTCT
*
108334207 AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
108334272 TTGTTAAAA
66 TT-TTAAAA
**
108334281 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
*
108334346 TTTT-CAA
66 TTTTAAAA
* * * * *
108334353 AAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCTGTTCACATGCTGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTAATTTCAATTTC
108334418 TGTTTTAAAAA
64 TGTTTT-AAAA
* * * * *
108334429 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGT-ATTTTAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTAATTTCAATTTC
108334493 ----------
64 TGTTTTAAAA
* * * * * * * * * * *** * **
108334493 AACTCATATTGCGAGA--G-GTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC
1 AAATCA-ACT-C-ATATTGCGAGAGGTGAG-TTGA-GCCTCA-G--GA--CACGCTGAGGTAA--
**
108334555 CTTTTGATTTCTGTTTTTCAAAA
54 -TTTCAATTTCTG-TTTT-AAAA
* * * * *
108334578 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
*
108334643 TTTTCATTATTATGTTTTTG
66 TTTT-A--A--A-------A
* * * * ** * **
108334663 AAA-GAA-TCA-ACT-C-ATATTGCGAGAAATGAG-TTCAGCCTCAAGACACATTGAGGTAATTT
1 AAATCAACTCATATTGCGAGA--G-GTGAGTTGAGCCTCAG------GACACGCTGAGGTAATTT
* *
108334722 CAATTCCTG-TTTCAAA
57 CAATTTCTGTTTTAAAA
* ** * *
108334738 AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
*
108334803 TTTT-CAA
66 TTTTAAAA
* ** * * *
108334810 AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
*
108334875 CTTTT-CAA
66 -TTTTAAAA
* ** * * *
108334883 AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
*
108334948 TTTT-CAA
66 TTTTAAAA
* ** * * *
108334955 AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTCCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-----T-AA----T-
* **
108335020 TTCAATTTATGTTTTTCAA
55 TTCAATTTCTGTTTTAAAA
108335039 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
**
108335104 TTTTTTCAA
66 -TTTTAAAA
* * * * * *
108335113 AAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGCCGAGGTATTTTCAAATTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-
* *
108335178 CTTTCAAAA
65 GTTTTAAAA
*
108335187 AAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
108335222 TGGCTCACGT
Statistics
Matches: 749, Mismatches: 119, Indels: 146
0.74 0.12 0.14
Matches are distributed among these distances:
64 13 0.02
65 5 0.01
66 4 0.01
67 4 0.01
69 3 0.00
70 1 0.00
72 183 0.24
73 94 0.13
74 203 0.27
75 21 0.03
76 50 0.07
77 10 0.01
78 14 0.02
79 2 0.00
80 5 0.01
81 1 0.00
82 12 0.02
83 29 0.04
84 55 0.07
85 16 0.02
87 3 0.00
88 21 0.03
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (73 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
TTTTAAAA
Found at i:108334542 original size:59 final size:60
Alignment explanation
Indices: 108334432--108334550 Score: 170
Period size: 59 Copynumber: 2.0 Consensus size: 60
108334422 TTAAAAAAAA
* * * *
108334432 TCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATTTT-AATT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACACCGAGGTATTTTCAATT
*
108334491 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACACGCCGAGGTATTTTCAATT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATCACACACCGAGGTATTTTCAATT
108334551 AAGCCTTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
59 47 0.89
60 6 0.11
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (60 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACACCGAGGTATTTTCAATT
Found at i:108334686 original size:88 final size:88
Alignment explanation
Indices: 108334491--108334726 Score: 264
Period size: 88 Copynumber: 2.7 Consensus size: 88
108334481 TATTTTAATT
108334491 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGCC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACAC-CCGAGGTATTTTCAATT-AGCC
* *
108334556 TTTTGATTTCTGTTTTTCAAAAAAA
64 TTTTCATTTATGTTTTTCAAAAAAA
* * * *
108334581 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA-CCGAGGTATTTTCCATT-TCTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCCGAGGTATTTTCAATTAGC-CT
* *
108334644 TTTCATTATTATGTTTTT-GAAAGAA
65 TTTCA-T-TTATGTTTTTCAAAAAAA
** * * ** *
108334669 TCAACTCATATTGCGAGAAATGAGTTCAGCCTCAAGACACA-TTGAGGTAATTTCAATT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCCGAGGTATTTTCAATT
108334727 CCTGTTTCAA
Statistics
Matches: 126, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
86 1 0.01
87 5 0.04
88 71 0.56
89 9 0.07
90 40 0.32
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (88 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCCGAGGTATTTTCAATTAGCCTT
TTCATTTATGTTTTTCAAAAAAA
Found at i:108334786 original size:72 final size:73
Alignment explanation
Indices: 108334669--108335221 Score: 679
Period size: 72 Copynumber: 7.4 Consensus size: 73
108334659 TTTGAAAGAA
* * *
108334669 TCAACTCATATTGCGAGAAATGAGTTCAGCCTCAAGACACATTGAGGTAATTTCAATTCCTG-TT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
108334733 TCAAAAAT
66 TCAAAAAT
108334741 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
108334806 TC-AAAAT
66 TCAAAAAT
*
108334813 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
108334878 TTC-AAAAT
65 TTCAAAAAT
*
108334886 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
108334951 TC-AAAAT
66 TCAAAAAT
*
108334958 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTCCTGTTC
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA----T-TTC
*
108335023 AATTTATGTTTTTCAAAAA-
55 AATTTCTG-TTTTCAAAAAT
** * *
108335042 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG--T
108335107 TTTCAAAAA-
64 TTTCAAAAAT
** * ** * ** * * **
108335116 TCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGCCGAGGTATTTTCAAATTCTACTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
108335181 TCAAAAAAA
66 TC-AAAAAT
*
108335190 TCAACTCATATTGCGA-AAGGTGAGTTGAGCCT
1 TCAACTCATATTGCGAGAA-ATGAGTTGAGCCT
108335222 TGGCTCACGT
Statistics
Matches: 438, Mismatches: 24, Indels: 36
0.88 0.05 0.07
Matches are distributed among these distances:
72 185 0.42
73 90 0.21
74 95 0.22
77 1 0.00
78 4 0.01
79 1 0.00
82 1 0.00
83 10 0.02
84 47 0.11
85 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (73 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAAT
Found at i:108335534 original size:73 final size:72
Alignment explanation
Indices: 108335363--108335615 Score: 382
Period size: 73 Copynumber: 3.5 Consensus size: 72
108335353 TTTGAAAGAA
* * *
108335363 TCAACTCATATTGCGAGAAATAAGTTGAGCCCCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
108335428 TCAAAAT
66 TCAAAAT
*
108335435 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
108335500 TTCAAAAT
65 TTCAAAAT
* * * *
108335508 TCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
108335573 TCAAAAAAA
66 TC--AAAAT
108335582 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
108335616 GTTCACATGT
Statistics
Matches: 166, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
72 62 0.37
73 71 0.43
74 33 0.20
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:108336357 original size:35 final size:35
Alignment explanation
Indices: 108336318--108336386 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
108336308 ACTTGCCTCT
108336318 TCCCACTCTCCCATGCTGTCTACCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTACCACCAGCACCAC
*
108336353 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTACCACCAGCACCA
108336387 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.51, G:0.10, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTACCACCAGCACCAC
Found at i:108339094 original size:66 final size:67
Alignment explanation
Indices: 108339008--108339141 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 67
108338998 CTTCTAAATT
108339008 CTCCTCTTCACTGTATATCTTGTCAATTTTCTTTTCTAGATATGTCTTCTTAA-TTTTTTTTTAT
1 CTCCTCTTCACTGTATATCTTGTCAATTTTCTTTTCTAGATATGTCTTCTTAATTTTTTTTTTAT
108339072 TC
66 TC
108339074 CTCCTCTTCACTGTATATCTTGTCAATTTTCTTTTCTAGATATGTCTTCTTAATTTTTTTTTTAT
1 CTCCTCTTCACTGTATATCTTGTCAATTTTCTTTTCTAGATATGTCTTCTTAATTTTTTTTTTAT
108339139 TC
66 TC
108339141 C
1 C
108339142 GAAGAATCAT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 53 0.79
67 14 0.21
ACGTcount: A:0.16, C:0.20, G:0.06, T:0.57
Consensus pattern (67 bp):
CTCCTCTTCACTGTATATCTTGTCAATTTTCTTTTCTAGATATGTCTTCTTAATTTTTTTTTTAT
TC
Found at i:108340019 original size:17 final size:17
Alignment explanation
Indices: 108339988--108340025 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
108339978 TAGAATTGAG
108339988 TTAAGAAAATTATTTAA
1 TTAAGAAAATTATTTAA
*
108340005 TTAA-AAAATTAATTTAG
1 TTAAGAAAATT-ATTTAA
108340022 TTAA
1 TTAA
108340026 TTTGATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TTAAGAAAATTATTTAA
Found at i:108346244 original size:30 final size:30
Alignment explanation
Indices: 108346208--108346268 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
108346198 TTTATGTTAC
*
108346208 TTCGATTGATCTTATTCATATGAAGTTCTT
1 TTCGATTGATCTTATTCATATAAAGTTCTT
108346238 TTCGATTGATCTTATTCATATAAAGTTCTT
1 TTCGATTGATCTTATTCATATAAAGTTCTT
108346268 T
1 T
108346269 CTTTTCCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.51
Consensus pattern (30 bp):
TTCGATTGATCTTATTCATATAAAGTTCTT
Found at i:108355719 original size:17 final size:17
Alignment explanation
Indices: 108355697--108355730 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
108355687 GTGATATGTG
*
108355697 ATAAAAAACTATAAAAA
1 ATAAAAAACAATAAAAA
108355714 ATAAAAAACAATAAAAA
1 ATAAAAAACAATAAAAA
108355731 TTATTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (17 bp):
ATAAAAAACAATAAAAA
Found at i:108355759 original size:20 final size:19
Alignment explanation
Indices: 108355697--108355760 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 19
108355687 GTGATATGTG
*
108355697 ATAAAAA-ACTATAAAAA-
1 ATAAAAATACAATAAAAAT
108355714 ATAAAAA-ACAATAAAAAT
1 ATAAAAATACAATAAAAAT
* *
108355732 -TATTAAATTCTAATAAAAAT
1 ATA-AAAATAC-AATAAAAAT
108355752 ATAAAAATA
1 ATAAAAATA
108355761 TTTAAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 18 0.49
18 3 0.08
19 1 0.03
20 13 0.35
21 2 0.05
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAAAAATACAATAAAAAT
Found at i:108356075 original size:10 final size:9
Alignment explanation
Indices: 108355974--108356141 Score: 66
Period size: 9 Copynumber: 18.2 Consensus size: 9
108355964 CTTTGGTACA
108355974 ATAATTTTT
1 ATAATTTTT
108355983 ATAATTTTTTT
1 ATAA--TTTTT
108355994 ATGAA-TTTT
1 AT-AATTTTT
108356003 AT-ATTTTT
1 ATAATTTTT
108356011 A-AATTTTTT
1 ATAA-TTTTT
108356020 ATGAATTTCTT
1 AT-AATTT-TT
*
108356031 ACT-A-TTTC
1 A-TAATTTTT
*
108356039 ATAAAATTTT
1 AT-AATTTTT
108356049 ATAA-TTTT
1 ATAATTTTT
*
108356057 A-AGTTTTTT
1 ATA-ATTTTT
108356066 ATAATTTTT
1 ATAATTTTT
*
108356075 -TAATTGTTA
1 ATAATT-TTT
*
108356084 ATAAATTTT
1 ATAATTTTT
*
108356093 A-ATTTTTTT
1 ATA-ATTTTT
* *
108356102 ATTAAATTTA
1 A-TAATTTTT
108356112 ATAATTTTT
1 ATAATTTTT
*
108356121 ATAAATTTT
1 ATAATTTTT
*
108356130 ATTGATTTTT
1 A-TAATTTTT
108356140 AT
1 AT
108356142 TTTTCATAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 44
0.66 0.09 0.24
Matches are distributed among these distances:
7 3 0.03
8 19 0.16
9 57 0.47
10 25 0.21
11 13 0.11
12 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:108356107 original size:19 final size:18
Alignment explanation
Indices: 108356045--108356130 Score: 79
Period size: 18 Copynumber: 4.8 Consensus size: 18
108356035 TTTCATAAAA
*
108356045 TTTTAT-AATTTTAAGTT
1 TTTTATAAATTTTAATTT
*
108356062 TTTTATAATTTTTTAA-TT
1 TTTTATAA-ATTTTAATTT
* *
108356080 GTTAATAAATTTTAATTT
1 TTTTATAAATTTTAATTT
*
108356098 TTTTATTAAA-TTTAATAAT
1 TTTTA-TAAATTTTAAT-TT
108356117 TTTTATAAATTTTA
1 TTTTATAAATTTTA
108356131 TTGATTTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
17 12 0.21
18 24 0.43
19 20 0.36
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTATAAATTTTAATTT
Found at i:108356137 original size:19 final size:19
Alignment explanation
Indices: 108356061--108356141 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
108356051 AATTTTAAGT
108356061 TTTTTAT-AATTTT-TTAA
1 TTTTTATAAATTTTATTAA
*
108356078 TTGTTAATAAATTTTAATT--
1 TT-TTTATAAATTTT-ATTAA
*
108356097 TTTTTATTAAA-TTTAATAA
1 TTTTTA-TAAATTTTATTAA
*
108356116 TTTTTATAAATTTTATTGA
1 TTTTTATAAATTTTATTAA
108356135 TTTTTAT
1 TTTTTAT
108356142 TTTTCATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 4 0.08
18 14 0.27
19 31 0.61
21 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTATAAATTTTATTAA
Found at i:108361912 original size:5 final size:6
Alignment explanation
Indices: 108361896--108361920 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
108361886 TCCTTTTAGG
108361896 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
108361921 AAGAGTATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:108369277 original size:21 final size:20
Alignment explanation
Indices: 108369251--108369323 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
108369241 ACATATATGT
108369251 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
108369272 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
108369294 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
108369314 GTAACAATAT
1 ATAATAATAT
108369324 TAGTAATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.24
21 27 0.60
22 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:108369295 original size:16 final size:15
Alignment explanation
Indices: 108369266--108369308 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
108369256 AATGATGAAA
108369266 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
108369280 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
108369296 ATAATAATAAATA
1 ATAATAATAAATA
108369309 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:108369787 original size:23 final size:22
Alignment explanation
Indices: 108369761--108369815 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
108369751 CATTTAAAAC
108369761 AGGAGAAAGAGAAAAAAAAGAAG
1 AGGAGAAAGAGAAAAAAAAG-AG
** * *
108369784 AGGAGGGAGAGAAAAGAGAGAG
1 AGGAGAAAGAGAAAAAAAAGAG
*
108369806 AGGGGAAAGA
1 AGGAGAAAGA
108369816 AGAGAGGGGA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (22 bp):
AGGAGAAAGAGAAAAAAAAGAG
Found at i:108369811 original size:20 final size:20
Alignment explanation
Indices: 108369771--108369821 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
108369761 AGGAGAAAGA
*
108369771 GAAAAAAAAGA-AGAGGAGG
1 GAAAGAAAAGAGAGAGGAGG
*
108369790 GAGAGAAAAGAGAGA-GAGGG
1 GAAAGAAAAGAGAGAGGA-GG
*
108369810 GAAAGAAGAGAG
1 GAAAGAAAAGAG
108369822 GGGAGGGGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (20 bp):
GAAAGAAAAGAGAGAGGAGG
Found at i:108369818 original size:18 final size:17
Alignment explanation
Indices: 108369777--108369826 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
108369767 AAGAGAAAAA
108369777 AAAGAAGAG-GAGGGAG
1 AAAGAAGAGAGAGGGAG
*
108369793 AGAA-AAGAGAGAGAGGGG
1 A-AAGAAGAGAGAG-GGAG
108369811 AAAGAAGAGAG-GGGAG
1 AAAGAAGAGAGAGGGAG
108369827 GGGGAGCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 9 0.32
17 8 0.29
18 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (17 bp):
AAAGAAGAGAGAGGGAG
Found at i:108369821 original size:14 final size:15
Alignment explanation
Indices: 108369796--108369825 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
108369786 GAGGGAGAGA
108369796 AAAGAGAGAGAGGGG
1 AAAGAGAGAGAGGGG
108369811 AAAGA-AGAGAGGGG
1 AAAGAGAGAGAGGGG
108369825 A
1 A
108369826 GGGGGAGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (15 bp):
AAAGAGAGAGAGGGG
Found at i:108369968 original size:22 final size:21
Alignment explanation
Indices: 108369933--108369978 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
108369923 AACTCTAATT
* *
108369933 TTTTTATTTTTATTTCTTATA
1 TTTTTATTTATATTTCGTATA
108369954 TTTTTATATTATATTTCGTATA
1 TTTTTAT-TTATATTTCGTATA
108369976 TTT
1 TTT
108369979 GTCGTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTATTTATATTTCGTATA
Found at i:108386882 original size:18 final size:18
Alignment explanation
Indices: 108386855--108386891 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
108386845 GGCCATTGAG
108386855 CAACACGGCTAAGACACA
1 CAACACGGCTAAGACACA
* *
108386873 CAACATGGCTGAGACACA
1 CAACACGGCTAAGACACA
108386891 C
1 C
108386892 GTCCATGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.32, G:0.19, T:0.08
Consensus pattern (18 bp):
CAACACGGCTAAGACACA
Found at i:108387951 original size:44 final size:43
Alignment explanation
Indices: 108387828--108387968 Score: 153
Period size: 44 Copynumber: 3.3 Consensus size: 43
108387818 CCAATGCCCG
* * *
108387828 TGGTCTTACATGT-AATCATATATCGATGCCACTATCCCAGACA
1 TGGTCTTACATGTAAATCATA-ATCGATGCCAATGTCCTAGACA
* * * *
108387871 AGGTCTTACACG-AAATCA-AATATGATGCCGATGTCCTAGACA
1 TGGTCTTACATGTAAATCATAAT-CGATGCCAATGTCCTAGACA
* *
108387913 TGGTCTTACGTGTAAATCATAAGTCGATGCCAATGTCCTAGACG
1 TGGTCTTACATGTAAATCATAA-TCGATGCCAATGTCCTAGACA
108387957 TGGTCTTACATG
1 TGGTCTTACATG
108387969 AATACATATA
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.03
42 25 0.32
43 21 0.27
44 30 0.38
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (43 bp):
TGGTCTTACATGTAAATCATAATCGATGCCAATGTCCTAGACA
Found at i:108388710 original size:41 final size:41
Alignment explanation
Indices: 108388664--108388746 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
108388654 GACATGGGCT
108388664 TGGTAGATTACTAAACAACGATTACAAAAACATAGAAATTA
1 TGGTAGATTACTAAACAACGATTACAAAAACATAGAAATTA
*
108388705 TGGTAGATTACTAAACAACGATTACAAAAACGTAGAAATTA
1 TGGTAGATTACTAAACAACGATTACAAAAACATAGAAATTA
108388746 T
1 T
108388747 CAAAAACCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.25
Consensus pattern (41 bp):
TGGTAGATTACTAAACAACGATTACAAAAACATAGAAATTA
Found at i:108403501 original size:15 final size:15
Alignment explanation
Indices: 108403481--108403516 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
108403471 GGGTTTCGAA
108403481 ACCACTATTTTTGGT
1 ACCACTATTTTTGGT
108403496 ACCACTATTTTTGGT
1 ACCACTATTTTTGGT
*
108403511 GCCACT
1 ACCACT
108403517 GAAAAATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (15 bp):
ACCACTATTTTTGGT
Found at i:108407822 original size:18 final size:18
Alignment explanation
Indices: 108407799--108407835 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
108407789 ATGACTACTT
108407799 ATGCTTAAAATAAATGAA
1 ATGCTTAAAATAAATGAA
108407817 ATGCTTAAAATAAATGAA
1 ATGCTTAAAATAAATGAA
108407835 A
1 A
108407836 GTGTAGCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (18 bp):
ATGCTTAAAATAAATGAA
Found at i:108408915 original size:23 final size:22
Alignment explanation
Indices: 108408889--108408938 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
108408879 ACAAGTCTTT
* *
108408889 ATGGACAGTTTTGGGCACCTCTA
1 ATGGACAGGTTT-GCCACCTCTA
*
108408912 ATGGA-TGGTTTGCCACCTCTA
1 ATGGACAGGTTTGCCACCTCTA
108408933 ATGGAC
1 ATGGAC
108408939 GATTATCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 14 0.61
22 4 0.17
23 5 0.22
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (22 bp):
ATGGACAGGTTTGCCACCTCTA
Found at i:108421417 original size:12 final size:13
Alignment explanation
Indices: 108421400--108421428 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
108421390 GTAATTTAAA
108421400 TTTTATT-CTAAT
1 TTTTATTACTAAT
108421412 TTTTATTACTAAT
1 TTTTATTACTAAT
108421425 TTTT
1 TTTT
108421429 CTTTTTCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTACTAAT
Found at i:108434551 original size:45 final size:45
Alignment explanation
Indices: 108434487--108434616 Score: 165
Period size: 45 Copynumber: 2.9 Consensus size: 45
108434477 GTTGTACAGT
* *
108434487 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATACTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAGAC
* * *
108434532 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAGAC
* * * *
108434577 ATTTTTCAGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGA
108434617 ATAAATTCGG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 12 0.16
44 14 0.18
45 51 0.66
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAGAC
Found at i:108446992 original size:28 final size:28
Alignment explanation
Indices: 108446950--108447041 Score: 121
Period size: 28 Copynumber: 3.3 Consensus size: 28
108446940 CATGTCATTG
*
108446950 GCCCGTGTCCTTCACACGGCCACGACAC
1 GCCCGTGTCCTTCACACGGCCATGACAC
* *
108446978 GCCCGTGTCCCTCACACTGCCATGACAC
1 GCCCGTGTCCTTCACACGGCCATGACAC
* * *
108447006 ACCCGTATCCTTCACACGGCCATGACAT
1 GCCCGTGTCCTTCACACGGCCATGACAC
*
108447034 GTCCGTGT
1 GCCCGTGT
108447042 TCTAGCCCGT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.18, C:0.42, G:0.20, T:0.20
Consensus pattern (28 bp):
GCCCGTGTCCTTCACACGGCCATGACAC
Found at i:108448067 original size:47 final size:47
Alignment explanation
Indices: 108447994--108448168 Score: 164
Period size: 47 Copynumber: 3.7 Consensus size: 47
108447984 TAAAGTTCCA
* *
108447994 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATATCTCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCG
* *
108448041 ATGCCATGTCCCAGACATGGTATTACACT-GACT-ATTATCTCGTAG-CTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCA-TATCTC-AAGTC-G
* * *
108448089 ATG-CATATCCCAGACAT-GTCTTACACTAGCTCTTGTCTCAA-TACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGT--CG
* * *
108448135 ATACTATTTCCCAGACATGGTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
108448169 TCGTAATGTG
Statistics
Matches: 106, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
45 1 0.01
46 21 0.20
47 63 0.59
48 21 0.20
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCG
Found at i:108448194 original size:47 final size:45
Alignment explanation
Indices: 108448088--108448214 Score: 123
Period size: 47 Copynumber: 2.7 Consensus size: 45
108448078 TCTCGTAGCT
*
108448088 GATGCATATCCCAGACATGTCTTACACTAGCTCTTGTCTCAATACC
1 GATGCATATCCCAGACATGTCTTACACTAGCTCTCG-CTCAATACC
* * *
108448134 GATACTATTTCCCAGACATGGTCTTACACTAGCTCTCG-T-AATGTGGCC
1 GATGC-ATATCCCAGACAT-GTCTTACACTAGCTCTCGCTCAA--T-ACC
* * *
108448182 GATGCATGTCCCAAACATGTCTTATACTAGCTC
1 GATGCATATCCCAGACATGTCTTACACTAGCTC
108448215 ACAAACAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
45 2 0.03
46 19 0.28
47 24 0.35
48 23 0.34
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (45 bp):
GATGCATATCCCAGACATGTCTTACACTAGCTCTCGCTCAATACC
Found at i:108451500 original size:50 final size:50
Alignment explanation
Indices: 108451420--108451520 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
108451410 AGTAATAACC
* *
108451420 TTCACGCAAACCAAGTAACCTAATCCAAACAACCTGTGACTCAATACCAT
1 TTCACGCAAACCAAGTAACCTAATCCAAACAACATGCGACTCAATACCAT
* *
108451470 TTCAGGCAAACCAGGTAACCTAATCCAAACAACATGCGACTCAATACCAT
1 TTCACGCAAACCAAGTAACCTAATCCAAACAACATGCGACTCAATACCAT
108451520 T
1 T
108451521 CTAACTTGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.20
Consensus pattern (50 bp):
TTCACGCAAACCAAGTAACCTAATCCAAACAACATGCGACTCAATACCAT
Found at i:108453355 original size:24 final size:24
Alignment explanation
Indices: 108453325--108453379 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
108453315 TTAATTTTCA
*
108453325 TAATATA-AATTCACCATAATTAGT
1 TAATATATAATT-ACCATAATTAAT
*
108453349 TAATATATAATTATCATAATTAAT
1 TAATATATAATTACCATAATTAAT
108453373 TAATATA
1 TAATATA
108453380 GGCTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (24 bp):
TAATATATAATTACCATAATTAAT
Found at i:108468516 original size:21 final size:20
Alignment explanation
Indices: 108468490--108468562 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
108468480 ACATATATGT
108468490 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
108468511 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
108468533 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
108468553 GTAACAATAT
1 ATAATAATAT
108468563 TAGTAATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.24
21 27 0.60
22 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:108468534 original size:16 final size:15
Alignment explanation
Indices: 108468505--108468547 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
108468495 AATGATGAAA
108468505 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
108468519 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
108468535 ATAATAATAAATA
1 ATAATAATAAATA
108468548 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:108469700 original size:15 final size:15
Alignment explanation
Indices: 108469680--108469709 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108469670 ATTTGTGTAA
*
108469680 TGGCTGTTAGTTTAG
1 TGGCTGGTAGTTTAG
108469695 TGGCTGGTAGTTTAG
1 TGGCTGGTAGTTTAG
108469710 GTATTGGGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.07, G:0.37, T:0.43
Consensus pattern (15 bp):
TGGCTGGTAGTTTAG
Found at i:108470560 original size:72 final size:72
Alignment explanation
Indices: 108470409--108470660 Score: 391
Period size: 72 Copynumber: 3.5 Consensus size: 72
108470399 ACATGTGAAC
* *
108470409 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
108470473 CAGCGTGTCC
63 CAACGTGTCT
* *
108470483 CGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCA-AAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
108470547 ACGTGTCT
65 ACGTGTCT
108470555 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
108470620 TGTGTCT
66 CGTGTCT
108470627 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
108470661 TTCTTTCAAA
Statistics
Matches: 166, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
71 2 0.01
72 130 0.78
73 5 0.03
74 29 0.17
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:108470740 original size:87 final size:86
Alignment explanation
Indices: 108470593--108470837 Score: 287
Period size: 87 Copynumber: 2.8 Consensus size: 86
108470583 AGTTGAATTT
* * * **
108470593 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTC-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
108470658 TGA-TTCTTTCAAAAACATAATAA
65 TGATTTCTTTCAAAAACA-AA-AA
* *
108470681 TGAAAACAGAAATGGAAAATACCTCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 TGAAAACAGAAATTGAAAATACCTCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
108470746 GATTTTTTTGAAAAACAGAAA
66 GATTTCTTTCAAAAACAAAAA
* **
108470767 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCT---CGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
108470831 GAGTTGA
61 GAGTTGA
108470838 AATTAAAACA
Statistics
Matches: 136, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
86 7 0.05
87 51 0.38
88 36 0.26
90 42 0.31
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (86 bp):
TGAAAACAGAAATTGAAAATACCTCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTCTTTCAAAAACAAAAA
Found at i:108471111 original size:130 final size:124
Alignment explanation
Indices: 108470803--108471160 Score: 362
Period size: 130 Copynumber: 2.8 Consensus size: 124
108470793 GGCGTGTGTC
* * *
108470803 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--AATTAAAACACAAAAATTGAAAATACCT
1 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTAAAA-ACAGAAATTGAAAATACCT
* * * *****
108470866 CAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTTGGAAAAGTAGAAAT
65 CAGCGTG-ACCGAGGCTCAACTCACCTCTCGCAATATGAACTGAAAAAAAAAAGTAGAAAT
* * * * * * *
108470927 -TAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACC
1 CT-GAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTATTTAAAAACAGAAATTGAAAATACC
* * * * *
108470991 TCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAAAAAAATACCACAGTGTGTA
64 TCAGCGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAACTGAAAAAAA-A--A-AGT-AGAA
108471056 AT
123 AT
*
108471058 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAATACCTC
1 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTAAAAACAGAAATTGAAAATACCTC
108471123 AGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
66 AGC--GTG-ACCGAGGCTCAACTCACCTCTCGCAATAT
108471161 AAGTTGATTT
Statistics
Matches: 189, Mismatches: 31, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
123 1 0.01
124 1 0.01
125 30 0.16
126 54 0.29
127 5 0.03
129 1 0.01
130 59 0.31
131 6 0.03
132 30 0.16
133 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (124 bp):
CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTAAAAACAGAAATTGAAAATACCTC
AGCGTGACCGAGGCTCAACTCACCTCTCGCAATATGAACTGAAAAAAAAAAGTAGAAAT
Found at i:108471331 original size:147 final size:147
Alignment explanation
Indices: 108471058--108471410 Score: 464
Period size: 148 Copynumber: 2.4 Consensus size: 147
108471048 AGTGTGTAAT
* * *
108471058 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAATACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAAATACCTC
108471123 AGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATT
65 AGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATT
108471188 GAAAATACCTCAAC-TGTC
129 GAAAATACCTCAACGTGTC
* ** * *
108471206 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
* ** * *
108471271 GC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAAT
66 GCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTTGAA-AACAGAAAT
* *
108471334 TGAAATTACCTCAGCGTGTC
128 TGAAAATACCTCAACGTGTC
* *
108471354 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
108471411 GGCTTAACTC
Statistics
Matches: 178, Mismatches: 22, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
144 2 0.01
145 33 0.19
146 9 0.05
147 60 0.34
148 74 0.42
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (147 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGA
AAATACCTCAACGTGTC
Found at i:108471357 original size:76 final size:74
Alignment explanation
Indices: 108471058--108471392 Score: 446
Period size: 76 Copynumber: 4.5 Consensus size: 74
108471048 AGTGTGTAAT
* *
108471058 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTAAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
*
108471122 CAGCATGTGAAC
66 CAGC--GTG-TC
*
108471134 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
*
108471198 CAAC-TGTC
66 CAGCGTGTC
* ** * * *
108471206 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
108471269 CAGCGTGTC
66 CAGCGTGTC
** * *
108471278 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAA-AACAGAAATTGAAAATAC
108471343 CTCAGCGTGTC
64 CTCAGCGTGTC
*
108471354 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
108471393 GAAAAACAAA
Statistics
Matches: 234, Mismatches: 18, Indels: 15
0.88 0.07 0.06
Matches are distributed among these distances:
71 29 0.12
72 38 0.16
73 33 0.14
75 41 0.18
76 93 0.40
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:108471555 original size:68 final size:70
Alignment explanation
Indices: 108471410--108471582 Score: 219
Period size: 68 Copynumber: 2.5 Consensus size: 70
108471400 AAAAATTAAA
* * * * **
108471410 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
108471474 CCCCG
66 CCCCG
*
108471479 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAA-A-AAATTAAAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
* **
108471542 TCTTG
66 CCCCG
108471547 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
108471583 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
67 1 0.01
68 55 0.60
69 27 0.29
70 9 0.10
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:108482047 original size:18 final size:19
Alignment explanation
Indices: 108482024--108482066 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
108482014 ACATATATGT
108482024 ATAATAAT-GATGAAAAT-A
1 ATAATAATAG-TGAAAATAA
108482042 ATAATAATAGTGAAAATAA
1 ATAATAATAGTGAAAATAA
108482061 ATAATA
1 ATAATA
108482067 TAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATAATAATAGTGAAAATAA
Found at i:108482074 original size:15 final size:17
Alignment explanation
Indices: 108482038--108482078 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
108482028 TAATGATGAA
108482038 AATAAT-AATAATAGTG
1 AATAATAAATAATAGTG
108482054 AA-AATAAATAATA-T-
1 AATAATAAATAATAGTG
108482068 AATAATAAATA
1 AATAATAAATA
108482079 TAATAGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAATAAATAATAGTG
Found at i:108482574 original size:20 final size:18
Alignment explanation
Indices: 108482544--108482598 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
108482534 AAAGAGAAAA
108482544 AAAAAGA-AGAGGAGGGAG
1 AAAAAGAGAGAGGAGGG-G
108482562 AGAAAAGAGAGA-GAGGGG
1 A-AAAAGAGAGAGGAGGGG
*
108482580 AAAGAAGAGAGGGGAGGGG
1 AAA-AAGAGAGAGGAGGGG
108482599 GAGCTCCGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 2 0.06
18 10 0.31
19 17 0.53
20 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (18 bp):
AAAAAGAGAGAGGAGGGG
Found at i:108482587 original size:18 final size:17
Alignment explanation
Indices: 108482546--108482595 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
108482536 AGAGAAAAAA
108482546 AAAGAAGAG-GAGGGAG
1 AAAGAAGAGAGAGGGAG
*
108482562 AGAA-AAGAGAGAGAGGGG
1 A-AAGAAGAGAGAG-GGAG
108482580 AAAGAAGAGAG-GGGAG
1 AAAGAAGAGAGAGGGAG
108482596 GGGGAGCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 9 0.32
17 8 0.29
18 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (17 bp):
AAAGAAGAGAGAGGGAG
Found at i:108482590 original size:14 final size:15
Alignment explanation
Indices: 108482565--108482594 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
108482555 GAGGGAGAGA
108482565 AAAGAGAGAGAGGGG
1 AAAGAGAGAGAGGGG
108482580 AAAGA-AGAGAGGGG
1 AAAGAGAGAGAGGGG
108482594 A
1 A
108482595 GGGGGAGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (15 bp):
AAAGAGAGAGAGGGG
Found at i:108482728 original size:22 final size:23
Alignment explanation
Indices: 108482701--108482748 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
108482691 AACTCTAATT
* * *
108482701 TTTTTATTTTTTA-TTTCTTATA
1 TTTTTATATTATATTTTCGTATA
108482723 TTTTTATATTATATTTTCGTATA
1 TTTTTATATTATATTTTCGTATA
108482746 TTT
1 TTT
108482749 GTCATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTATATTATATTTTCGTATA
Found at i:108488418 original size:3 final size:3
Alignment explanation
Indices: 108488412--108488437 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
108488402 CTACTACTAC
108488412 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
108488438 GGAACAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:108493300 original size:16 final size:17
Alignment explanation
Indices: 108493279--108493310 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
108493269 TAGGTGTTGT
108493279 TTAT-AAATTTATTTTA
1 TTATAAAATTTATTTTA
108493295 TTATAAAATTTATTTT
1 TTATAAAATTTATTTT
108493311 TTAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATAAAATTTATTTTA
Found at i:108509233 original size:13 final size:13
Alignment explanation
Indices: 108509215--108509239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108509205 TTGCTAAAAC
108509215 GCTTTTATCTTTA
1 GCTTTTATCTTTA
108509228 GCTTTTATCTTT
1 GCTTTTATCTTT
108509240 CTATTTAGAA
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:0.12, C:0.16, G:0.08, T:0.64
Consensus pattern (13 bp):
GCTTTTATCTTTA
Found at i:108512900 original size:174 final size:176
Alignment explanation
Indices: 108512600--108512951 Score: 627
Period size: 174 Copynumber: 2.0 Consensus size: 176
108512590 AGACAAGGTG
108512600 TGGAAAACATCTCCCCTCTCACAGTCTCTTGCATGCATGACACATTTAGACATAAAGATGCACGA
1 TGGAAAACATCTCCCCTCT-ACAGTCTCTTGCATGCATGACACATTTAGACATAAAGATGCACGA
* * *
108512665 AAACATGGATTACTGTGCATGCAATTGATATGAAAAATTGATATTGATGATCTGATTGCTGCATT
65 AAACATGGATTACCGTGCACGCAATCGATATGAAAAATTGATATTGATGATCTGATTGCTGCATT
108512730 TTCCCAACAGGTTACATAAATAAGAAACCAGAGGCTGCTTACTGGTA
130 TTCCCAACAGGTTACATAAATAAGAAACCAGAGGCTGCTTACTGGTA
*
108512777 TGGAAAACATCTCCCCTCT-CAGTCTCTTGCATG-ATGACACATTTAGACATAAAGATGCATGAA
1 TGGAAAACATCTCCCCTCTACAGTCTCTTGCATGCATGACACATTTAGACATAAAGATGCACGAA
*
108512840 AACATGGATTACCGTGCACGCAATCGATATGAAAAATTGATATTGATGATCTGTTTGCTGCATTT
66 AACATGGATTACCGTGCACGCAATCGATATGAAAAATTGATATTGATGATCTGATTGCTGCATTT
*
108512905 TCCCAACAGGTTACATAAATAAGAAACCAGGGGCTGCTTACTGGTA
131 TCCCAACAGGTTACATAAATAAGAAACCAGAGGCTGCTTACTGGTA
108512951 T
1 T
108512952 TTATCGAAAA
Statistics
Matches: 169, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
174 136 0.80
175 14 0.08
177 19 0.11
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (176 bp):
TGGAAAACATCTCCCCTCTACAGTCTCTTGCATGCATGACACATTTAGACATAAAGATGCACGAA
AACATGGATTACCGTGCACGCAATCGATATGAAAAATTGATATTGATGATCTGATTGCTGCATTT
TCCCAACAGGTTACATAAATAAGAAACCAGAGGCTGCTTACTGGTA
Found at i:108513615 original size:325 final size:325
Alignment explanation
Indices: 108513019--108513672 Score: 1254
Period size: 325 Copynumber: 2.0 Consensus size: 325
108513009 AGCCGGTGGT
108513019 AAGATGTATTAGATCGAAGCTAGCGGTTTAGGTGAATGTTAAGTAGGTCCGACCGTCTTGAGTTT
1 AAGATGTATTAGATCGAAGCTAGCGGTTTAGGTGAATGTTAAGTAGGTCCGACCGTCTTGAGTTT
*
108513084 CTTGTTGTATTGGCCAGACGAGGTAGTGTTAAGTAGGTCTGACCATCTGAGTTTCAAATCCCGAC
66 CTTGTTGTATTGGCCAGACGAGGTAATGTTAAGTAGGTCTGACCATCTGAGTTTCAAATCCCGAC
*
108513149 ATCATTATCCTCTTATTCTCATATTCAAATGCAATGAAGTTCATTAATGTATTTTCTTTTAAAGC
131 ATCATTATCCTCTTATTCTCATATTCAAATGCAATGAAGTTCATTAATATATTTTCTTTTAAAGC
*
108513214 TATAAGTACTTACAAATATCAAAAAAATGAAAAAACAAATAAAAATCTCCGTTGTTGCTTTCTGC
196 TATAAGTACTTACAAATAACAAAAAAATGAAAAAACAAATAAAAATCTCCGTTGTTGCTTTCTGC
*
108513279 AGAAGTGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTA
261 AGAAATGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTA
*
108513344 AAGATGTATTAGATCGAAGCTAGTGGTTTAGGTGAATGTTAAGTAGGTCCGACCGTCTTGAGTTT
1 AAGATGTATTAGATCGAAGCTAGCGGTTTAGGTGAATGTTAAGTAGGTCCGACCGTCTTGAGTTT
*
108513409 CTTGTTGTATTGGCCATACGAGGTAATGTTAAGTAGGTCTGACCATCTGAGTTTCAAATCCCGAC
66 CTTGTTGTATTGGCCAGACGAGGTAATGTTAAGTAGGTCTGACCATCTGAGTTTCAAATCCCGAC
108513474 ATCATTATCCTCTTATTCTCATATTCAAATGCAATGAAGTTCATTAATATATTTTCTTTTAAAGC
131 ATCATTATCCTCTTATTCTCATATTCAAATGCAATGAAGTTCATTAATATATTTTCTTTTAAAGC
108513539 TATAAGTACTTACAAATAACAAAAAAATGAAAAAACAAATAAAAATCTCCGTTGTTGCTTTCTGC
196 TATAAGTACTTACAAATAACAAAAAAATGAAAAAACAAATAAAAATCTCCGTTGTTGCTTTCTGC
108513604 AGAAATGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTA
261 AGAAATGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTA
108513669 AAGA
1 AAGA
108513673 CCAGAGTCCC
Statistics
Matches: 323, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
325 323 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (325 bp):
AAGATGTATTAGATCGAAGCTAGCGGTTTAGGTGAATGTTAAGTAGGTCCGACCGTCTTGAGTTT
CTTGTTGTATTGGCCAGACGAGGTAATGTTAAGTAGGTCTGACCATCTGAGTTTCAAATCCCGAC
ATCATTATCCTCTTATTCTCATATTCAAATGCAATGAAGTTCATTAATATATTTTCTTTTAAAGC
TATAAGTACTTACAAATAACAAAAAAATGAAAAAACAAATAAAAATCTCCGTTGTTGCTTTCTGC
AGAAATGTCTTCATTTACAAAAAGAGAAAACCAATTCAAGTCTCATCGTATATAGGTTCGGCCTA
Found at i:108520217 original size:4 final size:4
Alignment explanation
Indices: 108520208--108520234 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
108520198 ACAATTATAA
108520208 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
108520235 TATCAAACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:108531041 original size:12 final size:12
Alignment explanation
Indices: 108531020--108531059 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
108531010 GGTGATATGA
*
108531020 TGATGATGATGG
1 TGATGATGATGT
*
108531032 TGATGGTGATGT
1 TGATGATGATGT
*
108531044 TGATGTTGATGT
1 TGATGATGATGT
108531056 TGAT
1 TGAT
108531060 AATGGTACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (12 bp):
TGATGATGATGT
Found at i:108531047 original size:18 final size:18
Alignment explanation
Indices: 108531020--108531059 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
108531010 GGTGATATGA
108531020 TGATGATGATGGTGATGG
1 TGATGATGATGGTGATGG
* * *
108531038 TGATGTTGATGTTGATGT
1 TGATGATGATGGTGATGG
108531056 TGAT
1 TGAT
108531060 AATGGTACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (18 bp):
TGATGATGATGGTGATGG
Found at i:108536404 original size:16 final size:16
Alignment explanation
Indices: 108536373--108536422 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
108536363 ATTGTAATTC
**
108536373 CTATCTTTCTGTTTTT
1 CTATCTTTCTAATTTT
108536389 CTATCCTTTC-AATTTT
1 CTAT-CTTTCTAATTTT
*
108536405 CCATCTTTCTAATTTT
1 CTATCTTTCTAATTTT
108536421 CT
1 CT
108536423 TTCCACACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 5 0.18
16 18 0.64
17 5 0.18
ACGTcount: A:0.14, C:0.24, G:0.02, T:0.60
Consensus pattern (16 bp):
CTATCTTTCTAATTTT
Found at i:108537518 original size:22 final size:23
Alignment explanation
Indices: 108537491--108537534 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
108537481 GCAGTATTTC
108537491 TTTTTTAAA-ACGA-AAGTTTTTT
1 TTTTTTAAATACGAGAA-TTTTTT
108537513 TTTTTTAAATACGAGAATTTTT
1 TTTTTTAAATACGAGAATTTTT
108537535 GAAAACACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 9 0.45
24 2 0.10
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (23 bp):
TTTTTTAAATACGAGAATTTTTT
Found at i:108537551 original size:16 final size:15
Alignment explanation
Indices: 108537532--108537579 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
108537522 TACGAGAATT
108537532 TTTGAAAACACGAGAA
1 TTTGAAAACACGA-AA
*
108537548 TTTGTAAACACGAATA
1 TTTGAAAACACGAA-A
*
108537564 TTTTAGAAACACGAAA
1 TTTGA-AAACACGAAA
108537580 ATTTTTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 17 0.63
17 9 0.33
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (15 bp):
TTTGAAAACACGAAA
Found at i:108537660 original size:18 final size:16
Alignment explanation
Indices: 108537639--108537691 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
108537629 AACACGGGAA
108537639 TTTTTAAAACAAGACATT
1 TTTTTAAAACAA-A-ATT
*
108537657 TTTTTGAAACAAAATTT
1 TTTTTAAAACAAAA-TT
*
108537674 TTTCTTAAAAAAAAATT
1 TTT-TTAAAACAAAATT
108537691 T
1 T
108537692 AAATACGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 1 0.03
17 9 0.30
18 20 0.67
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (16 bp):
TTTTTAAAACAAAATT
Found at i:108537673 original size:16 final size:18
Alignment explanation
Indices: 108537639--108537676 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
108537629 AACACGGGAA
108537639 TTTTTAAAACAAGACATT
1 TTTTTAAAACAAGACATT
*
108537657 TTTTTGAAACAA-A-ATT
1 TTTTTAAAACAAGACATT
108537673 TTTT
1 TTTT
108537677 CTTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (18 bp):
TTTTTAAAACAAGACATT
Found at i:108537736 original size:18 final size:17
Alignment explanation
Indices: 108537513--108537961 Score: 144
Period size: 17 Copynumber: 25.1 Consensus size: 17
108537503 AAAGTTTTTT
* * *
108537513 TTTTTTAAATACGAGAA
1 TTTTTAAAACACGAAAA
*
108537530 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
* *
108537548 TTTGT-AAACACGAATA
1 TTTTTAAAACACGAAAA
108537564 -TTTTAGAAACACGAAAA
1 TTTTTA-AAACACGAAAA
* *
108537581 TTTTTGAAAAAAAACGAAAT
1 TTTTT---AAAACACGAAAA
**
108537601 TTTCTTAAAACACGACATTTT
1 TTT-TTAAAACACGA-A--AA
* **
108537622 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAAAA
* **
108537639 TTTTTAAAACAAGACATT
1 TTTTTAAAACACGA-AAA
* *
108537657 TTTTTGAAACA--AAATTT
1 TTTTTAAAACACGAAA--A
108537674 TTTCTTAAAA-A--AAAA
1 TTT-TTAAAACACGAAAA
* *
108537689 --TTT-AAATACGAGAA
1 TTTTTAAAACACGAAAA
108537703 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
108537720 TTTTTAAAACACGGAAATA
1 TTTTTAAAACAC-GAAA-A
*
108537739 TTTTTTTTTTAAAACACGAAATTTTTT
1 -----TTTTTAAAACACGAAA-----A
*
108537766 TTTTTGAAAACAAGAAAA
1 TTTTT-AAAACACGAAAA
* * *
108537784 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAAAA
* *
108537801 TTTTGAAAACACGAAGA
1 TTTTTAAAACACGAAAA
* * *
108537818 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAAAA
**
108537835 TTTTTAAAAGCACGAGGA
1 TTTTTAAAA-CACGAAAA
* *
108537853 TTATTGAAAGCACGAAAA
1 TT-TTTAAAACACGAAAA
* * *
108537871 TTTGTAAAAAACGACAA
1 TTTTTAAAACACGAAAA
* *
108537888 TTTTTGAAATACGAGAAA
1 TTTTTAAAACACGA-AAA
* *
108537906 TTTTTTAAACGCGAAAA
1 TTTTTAAAACACGAAAA
*
108537923 TTTTTTTCAAACACGAAAA
1 --TTTTTAAAACACGAAAA
* *
108537942 CTTTTGAAAACGCGAAAA
1 -TTTTTAAAACACGAAAA
108537960 TT
1 TT
108537962 CGAAAATTTC
Statistics
Matches: 323, Mismatches: 71, Indels: 76
0.69 0.15 0.16
Matches are distributed among these distances:
11 3 0.01
12 3 0.01
13 1 0.00
14 3 0.01
15 4 0.01
16 13 0.04
17 121 0.37
18 93 0.29
19 22 0.07
20 21 0.07
21 7 0.02
22 5 0.02
23 14 0.04
24 12 0.04
27 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:108537747 original size:23 final size:23
Alignment explanation
Indices: 108537720--108537788 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
108537710 AACACGAAAA
108537720 TTTTTAAAACACGGAAATATTTTT
1 TTTTTAAAACAC-GAAATATTTTT
108537744 TTTTTAAAACACGAAAT-TTTTT
1 TTTTTAAAACACGAAATATTTTT
*
108537766 TTTTTGAAAACAAGAAA-ATTTTT
1 TTTTT-AAAACACGAAATATTTTT
108537789 GAAACACTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
22 10 0.24
23 20 0.48
24 12 0.29
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (23 bp):
TTTTTAAAACACGAAATATTTTT
Found at i:108537806 original size:16 final size:16
Alignment explanation
Indices: 108537785--108537838 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
108537775 ACAAGAAAAT
108537785 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
108537801 TTTTGAAAACACGAAGAT
1 TTTTG-AAACAC-TAGAA
108537819 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
108537835 TTTT
1 TTTT
108537839 TAAAAGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:108537895 original size:35 final size:32
Alignment explanation
Indices: 108537767--108537927 Score: 115
Period size: 35 Copynumber: 4.6 Consensus size: 32
108537757 AAATTTTTTT
* *
108537767 TTTTGAAAACAAGAAAATTTTTGAAACACTAGAA
1 TTTT-AAAACACG-AAATTTTTGAAACACGAGAA
*
108537801 TTTTGAAAACACGAAGATTTTTGAAACATGAGAA
1 TTTT-AAAACACGAA-ATTTTTGAAACACGAGAA
* * *
108537835 TTTTTAAAAGCACGAGGATTATTGAAAGCACGAAAA
1 -TTTTAAAA-CACGA-AATTTTTGAAA-CACGAGAA
* *
108537871 TTTGTAAAAAACGACAATTTTTGAAATACGAGAAA
1 TTT-TAAAACACGA-AATTTTTGAAACACGAG-AA
* *
108537906 TTTTTTAAACGCGAAAATTTTT
1 -TTTTAAAACACG-AAATTTTT
108537928 TTCAAACACG
Statistics
Matches: 102, Mismatches: 16, Indels: 17
0.76 0.12 0.13
Matches are distributed among these distances:
33 2 0.02
34 36 0.35
35 49 0.48
36 15 0.15
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (32 bp):
TTTTAAAACACGAAATTTTTGAAACACGAGAA
Found at i:108537929 original size:19 final size:19
Alignment explanation
Indices: 108537906--108537961 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
108537896 ATACGAGAAA
108537906 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
108537924 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
108537942 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
108537961 T
1 T
108537962 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:108538005 original size:18 final size:17
Alignment explanation
Indices: 108537956--108538006 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
108537946 TGAAAACGCG
108537956 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
108537973 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
108537991 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
108538007 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:108538518 original size:8 final size:8
Alignment explanation
Indices: 108538500--108538565 Score: 84
Period size: 7 Copynumber: 8.4 Consensus size: 8
108538490 ATTGAACCCC
108538500 CTTTTTCTT
1 CTTTTT-TT
108538509 CTTTTTTT
1 CTTTTTTT
108538517 C-TTTTTT
1 CTTTTTTT
108538524 C-TTTTTT
1 CTTTTTTT
*
108538531 CCTTTTTT
1 CTTTTTTT
108538539 CTTTTTTT
1 CTTTTTTT
108538547 C-TTTTTT
1 CTTTTTTT
108538554 CTTCTTTTT
1 CTT-TTTTT
108538563 CTT
1 CTT
108538566 CCTTTTTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
7 21 0.40
8 18 0.34
9 14 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:108538527 original size:15 final size:15
Alignment explanation
Indices: 108538502--108538565 Score: 101
Period size: 15 Copynumber: 4.1 Consensus size: 15
108538492 TGAACCCCCT
108538502 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
108538518 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTTC
108538533 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
108538548 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
108538564 TT
1 TT
108538566 CCTTTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
15 33 0.73
16 12 0.27
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:108538574 original size:30 final size:30
Alignment explanation
Indices: 108538506--108538575 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
108538496 CCCCCTTTTT
*
108538506 CTTCTTTTTTTCTTTTTTCTTTTTTCCTTT
1 CTTCTTTTTTTCTTTTTTCTTTTTTCCTTC
* *
108538536 TTTCTTTTTTTCTTTTTTCTTCTTTTTCTTC
1 CTTCTTTTTTTCTTTTTTCTT-TTTTCCTTC
108538567 CTT-TTTTTT
1 CTTCTTTTTT
108538576 CTGCTGGGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 26 0.74
31 9 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (30 bp):
CTTCTTTTTTTCTTTTTTCTTTTTTCCTTC
Done.