Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1644
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: 134112
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Found at i:5575 original size:31 final size:31
Alignment explanation
Indices: 5537--5599 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
5527 TTCATCATGC
*
5537 AACCTTTAATGTACTGA-TCGTGCAACTCAAA
1 AACCTTTAATGTACTGACT-GCGCAACTCAAA
5568 AACCTTTAATGTACTGACTGCGCAACTCAAA
1 AACCTTTAATGTACTGACTGCGCAACTCAAA
5599 A
1 A
5600 TGAGAAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (31 bp):
AACCTTTAATGTACTGACTGCGCAACTCAAA
Found at i:5818 original size:17 final size:17
Alignment explanation
Indices: 5763--5825 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
5753 TATTTCAATT
**
5763 TTGCTTTGCTTGCTATTG
1 TTGCTTTGC-TGCTGGTG
*
5781 TTG-TTTGCTGTTGGAGTG
1 TTGCTTTGCTGCT-G-GTG
5799 TTGCTTTGCTGCTGGTG
1 TTGCTTTGCTGCTGGTG
5816 TTGCTTTGCT
1 TTGCTTTGCT
5826 ACTAGATTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 3 0.08
17 18 0.47
18 9 0.24
19 8 0.21
ACGTcount: A:0.03, C:0.14, G:0.30, T:0.52
Consensus pattern (17 bp):
TTGCTTTGCTGCTGGTG
Found at i:6290 original size:38 final size:38
Alignment explanation
Indices: 6239--6331 Score: 141
Period size: 38 Copynumber: 2.4 Consensus size: 38
6229 TGCTTCTTGA
* * *
6239 TTGCATCAACTTTAATTTGCATTGTTCATTGTTGCCAT
1 TTGCAGCAACTTTAATTTGCATTCTTCATTGCTGCCAT
* *
6277 TTGCAGCAGCTTTAATTTGCATTCTTCATTGCTGCCGT
1 TTGCAGCAACTTTAATTTGCATTCTTCATTGCTGCCAT
6315 TTGCAGCAACTTTAATT
1 TTGCAGCAACTTTAATT
6332 GTATCTCGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.44
Consensus pattern (38 bp):
TTGCAGCAACTTTAATTTGCATTCTTCATTGCTGCCAT
Found at i:6682 original size:13 final size:13
Alignment explanation
Indices: 6655--6716 Score: 108
Period size: 13 Copynumber: 4.8 Consensus size: 13
6645 ATTAACTAAA
6655 TTTTATTTTTA-T
1 TTTTATTTTTATT
6667 TTTTATTTTTATT
1 TTTTATTTTTATT
6680 TTTTATTTTTATT
1 TTTTATTTTTATT
6693 TTTTATTTTTATAT
1 TTTTATTTTTAT-T
6707 TTTTATTTTT
1 TTTTATTTTT
6717 TAATGTCAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.23
13 26 0.54
14 11 0.23
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:6684 original size:19 final size:19
Alignment explanation
Indices: 6655--6716 Score: 99
Period size: 20 Copynumber: 3.2 Consensus size: 19
6645 ATTAACTAAA
6655 TTTTA-TTTTTATTTTTAT
1 TTTTATTTTTTATTTTTAT
6673 TTTTATTTTTTATTTTTATT
1 TTTTATTTTTTATTTTTA-T
6693 TTTTATTTTTATATTTTTAT
1 TTTTATTTTT-TATTTTTAT
6713 TTTT
1 TTTT
6717 TAATGTCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.12
19 12 0.29
20 16 0.39
21 8 0.20
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTATTTTTTATTTTTAT
Found at i:6718 original size:7 final size:6
Alignment explanation
Indices: 6655--6716 Score: 88
Period size: 6 Copynumber: 9.7 Consensus size: 6
6645 ATTAACTAAA
6655 TTTTAT TTTTAT TTTTAT TTTTATT TTTTAT TTTTATT TTTTATT TTTATAT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTA-T TTTTA-T TTT-TAT
6707 TTTTAT TTTT
1 TTTTAT TTTT
6717 TAATGTCAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
6 30 0.57
7 21 0.40
8 2 0.04
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:7282 original size:42 final size:42
Alignment explanation
Indices: 7247--8106 Score: 564
Period size: 42 Copynumber: 20.5 Consensus size: 42
7237 GTCTCCAATA
* * *
7247 TCAAAGCCGACAGGCAAACTTAAGATGAGGCAGTCTTCAGGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* *
7289 TCAAAGCCGACAGGCAGACTGAA-A-GTAGGAAAGTCTCTAGGG
1 TCAAAGCCGACAGGCAGACTTAAGATG-AGG-AAGTCTCCAGGG
* * * * *
7331 TCAAAGCTGACATGCAGACTTGAGATGAGGTAGTCTCCAAGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
** * * * * * *
7373 TCAAAGTTGATAGGCAGACTGAAGGTAAGAAAGTCTCGAGGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * *
7415 TCAAAGCCGACAAGCAGACTTAAGATGAGGTAGTCTCCAAGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * * * *
7457 TCAAAGCCGACAGGCAAACTAAAGGT-AGAAAAGTCTCTAGGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAG-GAAGTCTCCAGGG
** * *
7499 TCAAAGCCGACACCCAGACTTGAGATGAGGTAGTCTCCAGGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * * * * ** *
7541 TTAAAGCCAACAGGCAGACTAAAGGTAAAAAAGTCTCCAAGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * *
7583 TCAAAGCCGACAAGCAGACTTGAGATGAGGCAGTCTCCAGGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * *
7625 TCAAAGTCGACAGGCAGACTAAAGATG-GAAAGTCTCCAGGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * * * * *
7666 TCAAAGCCGACAAGAAGACTTGAGATGAGGCAGTCTCTAAGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * * * * ** * *
7708 TCAAAGTCGACAAGCAGA-TTGAGGGTAAAAAAATCTCTAGGG
1 TCAAAGCCGACAGGCAGACTT-AAGATGAGGAAGTCTCCAGGG
* * * * * ** *
7750 TCAAAACCGACAGGCAGACTGAAGGTAAGAAAGTCTTTATGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * * * *
7792 TCAAAGCCAACAGGCAGACTTTAGGTGAGGTAGTCTCTAGGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * * * *
7834 TCAAAGCCAATAGGCAGACTTGAGGTGAGGTAA-TCTCTAGGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGG-AAGTCTCCAGGG
* * ** *
7876 TCAAAGCCGACAGGTAGA-TTGAAGGTGAAAAAGTCTCCAAGG
1 TCAAAGCCGACAGGCAGACTT-AAGATGAGGAAGTCTCCAGGG
** * * * * *
7918 TCAAAGCCGATGGGCAGACTTGAGGTTGAGGCAGTCTCTATGG
1 TCAAAGCCGACAGGCAGACTT-AAGATGAGGAAGTCTCCAGGG
* * * * * * * *
7961 TCAAAGTCGATAGGCAGACTGAAGGTAAGAAAGTCTCTAAGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * * * * * * *
8003 TCAAAGCTGATAGGCAGACTGAAGGTAAGAAAGTCTCTAAGG
1 TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
* * * * * * *
8045 TTAAAGCCGACAAGCAAACTTGAGGTTGAGGTAGTCTCCAAGG
1 TCAAAGCCGACAGGCAGACTT-AAGATGAGGAAGTCTCCAGGG
* * *
8088 TCAAATCCGATAGACAGAC
1 TCAAAGCCGACAGGCAGAC
8107 CGAAGGTAGG
Statistics
Matches: 636, Mismatches: 168, Indels: 27
0.77 0.20 0.03
Matches are distributed among these distances:
40 1 0.00
41 46 0.07
42 517 0.81
43 71 0.11
44 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (42 bp):
TCAAAGCCGACAGGCAGACTTAAGATGAGGAAGTCTCCAGGG
Found at i:7305 original size:84 final size:84
Alignment explanation
Indices: 7196--8009 Score: 682
Period size: 84 Copynumber: 9.7 Consensus size: 84
7186 AAGAAAAGAT
* * * *** *
7196 TCTCCTAGGTCAAAGCCAACGGGCAGA-TAAAAAGTAAAAAAGTCTCCAATATCAAAGCCGACAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACT-AAAAGTAAAAAAGTCTCCAGGGTCAAAGCCGACAA
* *
7260 GCAAACTTAAGATGAGGCAG
65 GCAGACTTGAGATGAGGCAG
* * * ** * * *
7280 TCTTCAGGGTCAAAGCCGACAGGCAGACTGAAAGTAGGAAAGTCTCTAGGGTCAAAGCTGACATG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAAGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAG
*
7345 CAGACTTGAGATGAGGTAG
66 CAGACTTGAGATGAGGCAG
** * * * * *
7364 TCTCCAAGGTCAAAGTTGATAGGCAGACTGAAGGTAAGAAAGTCTCGAGGGTCAAAGCCGACAAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAAGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAG
* *
7429 CAGACTTAAGATGAGGTAG
66 CAGACTTGAGATGAGGCAG
* * * * **
7448 TCTCCAAGGTCAAAGCCGACAGGCAAACTAAAGGTAGAAAAGTCTCTAGGGTCAAAGCCGACACC
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAAGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAG
*
7513 CAGACTTGAGATGAGGTAG
66 CAGACTTGAGATGAGGCAG
* * * * *
7532 TCTCCAGGGTTAAAGCCAACAGGCAGACTAAAGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAAGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAG
7597 CAGACTTGAGATGAGGCAG
66 CAGACTTGAGATGAGGCAG
* * **
7616 TCTCCAGGGTCAAAGTCGACAGGCAGACT-AAAG-ATGGAAAGTCTCCAGGGTCAAAGCCGACAA
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAAGTA-AAAAAGTCTCCAGGGTCAAAGCCGACAA
*
7679 GAAGACTTGAGATGAGGCAG
65 GCAGACTTGAGATGAGGCAG
* * * * * ** * * * *
7699 TCTCTAAGGTCAAAGTCGACAAGCAGATTGAGGGTAAAAAAATCTCTAGGGTCAAAACCGACAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAAGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAG
* * **
7764 CAGAC-TGAAGGTAAGAAAG
66 CAGACTTG-AGATGAGGCAG
** * * ** * * *** * * * *
7783 TCTTTATGGTCAAAGCCAACAGGCAGACTTTAGGTGAGGTAGTCTCTAGGGTCAAAGCCAATAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAAGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAG
* * *
7848 CAGACTTGAGGTGAGGTAA
66 CAGACTTGAGATGAGGCAG
* * * * * * * * ***
7867 TCTCTAGGGTCAAAGCCGACAGGTAGATTGAAGGTGAAAAAGTCTCCAAGGTCAAAGCCGATGGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAAGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAG
*
7932 CAGACTTGAGGTTGAGGCAG
66 CAGACTTGA-GATGAGGCAG
* * * * * * * * *
7952 TCTCTATGGTCAAAGTCGATAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGC
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAAGTAAAAAAGTCTCCAGGGTCAAAGC
8010 TGATAGGCAG
Statistics
Matches: 603, Mismatches: 120, Indels: 13
0.82 0.16 0.02
Matches are distributed among these distances:
82 1 0.00
83 74 0.12
84 467 0.77
85 61 0.10
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (84 bp):
TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAAGTAAAAAAGTCTCCAGGGTCAAAGCCGACAAG
CAGACTTGAGATGAGGCAG
Found at i:7432 original size:126 final size:126
Alignment explanation
Indices: 7247--8106 Score: 657
Period size: 126 Copynumber: 6.8 Consensus size: 126
7237 GTCTCCAATA
* * * * ** *
7247 TCAAAGCCGACAGGCAAACTTAAGATGAGGCAGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAA
1 TCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAA
* * * * ** * *
7312 AGT-AGGAAAGTCTCTAGGGTCAAAGCTGACATGCAGACTTGAGATGAGGTAGTCTCCAAGG
66 AGTGAGG-AAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGAAAGTCTCTAGGG
** * * * *
7373 TCAAAGTTGATAGGCAGACTGAAGGTAAGAAAGTCTCGAGGGTCAAAGCCGACAAGCAGACT-TA
1 TCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAA
* * * **
7437 AGATGAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAAACTAAAGGT-AGAAAAGTCTCTAGGG
66 AG-TGAGGAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAG-AAAGTCTCTAGGG
** * * ** * *
7499 TCAAAGCCGACACCCAGACTTG-AGATGAGGTAGTCTCCAGGGTTAAAGCCAACAGGCAGACT-A
1 TCAAAGCCGACAGGCAGAC-TGAAGGTAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA
* ** * * * ** *
7562 AAGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTGAGATGAGGCAGTCTCCAGGG
65 AA-GTGAGGAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGAAAGTCTCTAGGG
* * * * * *
7625 TCAAAGTCGACAGGCAGACTAAAGAT-GGAAAGTCTCCAGGGTCAAAGCCGACAAGAAGACTTGA
1 TCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGA
* * * * * * *
7689 GA-TGAGGCAGTCTCTAAGGTCAAAGTCGACAAGCAGA-TTGAGGGTAAAAAAATCTCTAGGG
65 AAGTGAGGAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGA-GGTGAGAAAGTCTCTAGGG
* ** * * **
7750 TCAAAACCGACAGGCAGACTGAAGGTAAGAAAGTCTTTATGGTCAAAGCCAACAGGCAGACTTTA
1 TCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAA
* * * * * *
7815 GGTGAGGTAGTCTCTAGGGTCAAAGCCAATAGGCAGACTTGAGGTGAGGTAA-TCTCTAGGG
66 AGTGAGGAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAGGTGA-GAAAGTCTCTAGGG
* * * **
7876 TCAAAGCCGACAGGTAGATTGAAGGTGAA-AAAGTCTCCAAGGTCAAAGCCGATGGGCAGACTTG
1 TCAAAGCCGACAGGCAGACTGAAGGT-AAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TG
* * * * * * *
7940 -AGGTTGAGGCAGTCTCTATGGTCAAAGTCGATAGGCAGAC-TGAAGGTAAGAAAGTCTCTAAGG
64 AAAG-TGAGGAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTG-AGGTGAGAAAGTCTCTAGGG
* * * * * * *
8003 TCAAAGCTGATAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTTAAAGCCGACAAGCAAACTTG-
1 TCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGA
* * * * * *
8067 AGGTTGAGGTAGTCTCCAAGGTCAAATCCGATAGACAGAC
65 AAG-TGAGGAAGTCTCTAAGGTCAAAGCCGACAGGCAGAC
8107 CGAAGGTAGG
Statistics
Matches: 580, Mismatches: 134, Indels: 39
0.77 0.18 0.05
Matches are distributed among these distances:
124 4 0.01
125 97 0.17
126 330 0.57
127 149 0.26
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (126 bp):
TCAAAGCCGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAA
AGTGAGGAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTGAGGTGAGAAAGTCTCTAGGG
Found at i:7492 original size:168 final size:168
Alignment explanation
Indices: 7196--8022 Score: 854
Period size: 168 Copynumber: 4.9 Consensus size: 168
7186 AAGAAAAGAT
* * * * * **
7196 TCTCCTAGGTCAAAGCCAACGGGCAGA-TAAAAAGTAAAAAAGTCTCCAATATCAAAGCCGACAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACT-GAAGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAG
* * *
7260 GCAAACTTAAGATGAGGCAGTCTTCAGGGTCAAAGCCGACAGGCAGACTGAAA-GTAGGAAAGTC
65 GCAGACTTAAGATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAAGGTAGAAAAGTC
* *
7324 TCTAGGGTCAAAGCTGACATGCAGACTTGAGATGAGGTAG
129 TCTAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAG
** * * * * *
7364 TCTCCAAGGTCAAAGTTGATAGGCAGACTGAAGGTAAGAAAGTCTCGAGGGTCAAAGCCGACAAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAGG
* * *
7429 CAGACTTAAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAAACTAAAGGTAGAAAAGTCTC
66 CAGACTTAAGATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAAGGTAGAAAAGTCTC
**
7494 TAGGGTCAAAGCCGACACCCAGACTTGAGATGAGGTAG
131 TAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAG
* * * * *
7532 TCTCCAGGGTTAAAGCCAACAGGCAGACTAAAGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAGG
* * * *
7597 CAGACTTGAGATGAGGCAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAAGAT-GGAAAGTCTC
66 CAGACTTAAGATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAAGGTAGAAAAGTCTC
* * * *
7661 CAGGGTCAAAGCCGACAAGAAGACTTGAGATGAGGCAG
131 TAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAG
* * * * * * * * *
7699 TCTCTAAGGTCAAAGTCGACAAGCAGATTGAGGGTAAAAAAATCTCTAGGGTCAAAACCGACAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAGG
* * * ** ** * * ** **
7764 CAGACTGAAGGTAAGAAAGTCTTTATGGTCAAAGCCAACAGGCAGACTTTAGGT-GAGGTAGTCT
66 CAGACTTAAGATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAAGGTAGA-AAAGTCT
* * * *
7828 CTAGGGTCAAAGCCAATAGGCAGACTTGAGGTGAGGTAA
130 CTAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAG
* * * * * **
7867 TCTCTAGGGTCAAAGCCGACAGGTAGATTGAAGGTGAAAAAGTCTCCAAGGTCAAAGCCGATGGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAGG
* * * * * * *
7932 CAGACTTGAGGTTGAGGCAGTCTCTATGGTCAAAGTCGATAGGCAGACTGAAGGTA-AGAAAGTC
66 CAGACTT-AAGATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAAGGTAGA-AAAGTC
* * *
7996 TCTAAGGTCAAAGCTGATAGGCAGACT
129 TCTAGGGTCAAAGCCGACAGGCAGACT
8023 GAAGGTAAGA
Statistics
Matches: 541, Mismatches: 113, Indels: 9
0.82 0.17 0.01
Matches are distributed among these distances:
167 137 0.25
168 337 0.62
169 67 0.12
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (168 bp):
TCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAGG
CAGACTTAAGATGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAAGGTAGAAAAGTCTC
TAGGGTCAAAGCCGACAGGCAGACTTGAGATGAGGTAG
Found at i:8292 original size:44 final size:43
Alignment explanation
Indices: 8227--8370 Score: 155
Period size: 44 Copynumber: 3.3 Consensus size: 43
8217 TGGTTTACCT
* * *
8227 AGGGTGGTAACCACACGTCAAATAGAAAG-GAAGAGGATTTGACC
1 AGGGTGGTAACCACATGTCAAATAGAAAGAGAA-A-AATCTGACC
* * * *
8271 ATGGTGGTAACCAGATGTCAAATCAGAATGAGAAAAATCTGACT
1 AGGGTGGTAACCACATGTCAAAT-AGAAAGAGAAAAATCTGACC
* *
8315 AGGGTGGTAACCACATGTCAAATTAGAATGAGAAAAATCTGACT
1 AGGGTGGTAACCACATGTCAAA-TAGAAAGAGAAAAATCTGACC
*
8359 AGGGTAGTAACC
1 AGGGTGGTAACC
8371 GTATGTCAGG
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
44 77 0.89
45 7 0.08
46 3 0.03
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.20
Consensus pattern (43 bp):
AGGGTGGTAACCACATGTCAAATAGAAAGAGAAAAATCTGACC
Found at i:15361 original size:38 final size:38
Alignment explanation
Indices: 15255--15379 Score: 182
Period size: 38 Copynumber: 3.3 Consensus size: 38
15245 TTGAATTTGC
* *
15255 CTTTAATTTGTATTGTTCATTGCTGTCATTTGCAGCAG
1 CTTTAATTTGCATTGTTCATTGCTGTCGTTTGCAGCAG
15293 CTTTAATTTGCATTGTTCATTGCTGTCGTTTGCAGCAG
1 CTTTAATTTGCATTGTTCATTGCTGTCGTTTGCAGCAG
* * * *
15331 CTTTAATTTGCATTCTTCATTGCTGCCGTTT-TAGTAG
1 CTTTAATTTGCATTGTTCATTGCTGTCGTTTGCAGCAG
15368 CTTTAA-TTGCAT
1 CTTTAATTTGCAT
15380 CTCGTTGATA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
36 6 0.07
37 10 0.12
38 65 0.80
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (38 bp):
CTTTAATTTGCATTGTTCATTGCTGTCGTTTGCAGCAG
Found at i:15690 original size:6 final size:7
Alignment explanation
Indices: 15648--15687 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
15638 TTTAATTAAA
*
15648 TTTTAAT
1 TTTTTAT
*
15655 TTTATTCT
1 TTT-TTAT
15663 TTTTTAT
1 TTTTTAT
15670 TTTTTAT
1 TTTTTAT
15677 TTTTTAT
1 TTTTTAT
15684 TTTT
1 TTTT
15688 ATTATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:17875 original size:46 final size:46
Alignment explanation
Indices: 17774--17883 Score: 139
Period size: 46 Copynumber: 2.4 Consensus size: 46
17764 GGTTAACTAG
*
17774 GAACAAAAAGGGTTTGACTAGGGTAGTAACTAATACAATCAAACAA
1 GAACAAAAAGGGTTTGACTAGGGTAGTAACCAATACAATCAAACAA
* * * * **
17820 GAGCAAAAAGGGTTTGACTAGGGTGGTAACCAATACAGTTAAATGA
1 GAACAAAAAGGGTTTGACTAGGGTAGTAACCAATACAATCAAACAA
**
17866 GAATGAAAAGGGTTTGAC
1 GAACAAAAAGGGTTTGAC
17884 CGGATATAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (46 bp):
GAACAAAAAGGGTTTGACTAGGGTAGTAACCAATACAATCAAACAA
Found at i:18095 original size:35 final size:35
Alignment explanation
Indices: 17897--18114 Score: 170
Period size: 35 Copynumber: 6.3 Consensus size: 35
17887 ATATAGCCAA
* * * ** *
17897 AAAAGAGTTTGACCACATACAACTGAATGATGATG
1 AAAAGAGTTTGACTAGATACAGCCAAACGATGATG
* * *
17932 AAAAGAGTTTAACTAGATACAGTCAAACAATGAT-
1 AAAAGAGTTTGACTAGATACAGCCAAACGATGATG
* * * ** ** *
17966 AAAAGTGTTTGACCAAATGTAGCTGAACAATGATG
1 AAAAGAGTTTGACTAGATACAGCCAAACGATGATG
* * *
18001 AAAAAAGTTTGACCAGATACAGTCAAACGATGATG
1 AAAAGAGTTTGACTAGATACAGCCAAACGATGATG
* * * *
18036 CAAAGAGTTTCACTAGATATAGCCAAACGACGATG
1 AAAAGAGTTTGACTAGATACAGCCAAACGATGATG
* * *
18071 AAAAGAGTTTGACTAAATGCAGCCAAATGATGATGG
1 AAAAGAGTTTGACTAGATACAGCCAAACGATGAT-G
18107 AAAA-AGTT
1 AAAAGAGTT
18115 CCGTGGCACC
Statistics
Matches: 140, Mismatches: 41, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
34 25 0.18
35 110 0.79
36 5 0.04
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.22
Consensus pattern (35 bp):
AAAAGAGTTTGACTAGATACAGCCAAACGATGATG
Found at i:18174 original size:36 final size:36
Alignment explanation
Indices: 18128--18247 Score: 124
Period size: 36 Copynumber: 3.4 Consensus size: 36
18118 TGGCACCTTT
18128 TTTTCAAAGCCCACAAC-TCTGTGGCACTCTTTTTCCC
1 TTTT-AAAGCCCACAACTTC-GTGGCACTCTTTTTCCC
*
18165 TTTTAAAGCCCACAACTTCGTGGCAC-CTTGTT--C
1 TTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCC
* * ** *
18198 TTTTTAAGTCCACAACTTCGTGGCA-TCTTTCACCT
1 TTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCC
18233 TTTCTAAAGCCCACA
1 TTT-TAAAGCCCACA
18248 CAAGTTGGTG
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
33 27 0.39
35 8 0.12
36 28 0.41
37 6 0.09
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.35
Consensus pattern (36 bp):
TTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCC
Found at i:18211 original size:33 final size:32
Alignment explanation
Indices: 18116--18227 Score: 120
Period size: 33 Copynumber: 3.4 Consensus size: 32
18106 GAAAAAGTTC
*
18116 CGTGGCACCTTTT-TTTCAAAGCCCACAAC-T
1 CGTGGCACCTTTTCTTTTAAAGCCCACAACTT
18146 CTGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTT
1 C-GTGGCAC-C-TTTT--CTTTTAAAGCCCACAACTT
* *
18183 CGTGGCACCTTGTTCTTTTTAAGTCCACAACTT
1 CGTGGCACCTT-TTCTTTTAAAGCCCACAACTT
*
18216 CGTGGCATCTTT
1 CGTGGCACCTTT
18228 CACCTTTTCT
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
30 1 0.01
31 7 0.10
32 2 0.03
33 31 0.44
34 2 0.03
35 3 0.04
36 22 0.31
37 2 0.03
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.37
Consensus pattern (32 bp):
CGTGGCACCTTTTCTTTTAAAGCCCACAACTT
Found at i:18235 original size:34 final size:33
Alignment explanation
Indices: 18116--18247 Score: 112
Period size: 33 Copynumber: 3.9 Consensus size: 33
18106 GAAAAAGTTC
18116 CGTGGCACCTTT---TTTTCAAAGCCCACAAC-T
1 CGTGGCACCTTTCCCTTTT-AAAGCCCACAACTT
18146 CTGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTT
1 C-GTGGCAC-C--TTTCCCTTTTAAAGCCCACAACTT
* * *
18183 CGTGGCACCTTGT-TCTTTTTAAGTCCACAACTT
1 CGTGGCACCTT-TCCCTTTTAAAGCCCACAACTT
*
18216 CGTGGCATCTTTCACCTTTTCTAAAGCCCACA
1 CGTGGCACCTTTC-CC-TTT-TAAAGCCCACA
18248 CAAGTTGGTG
Statistics
Matches: 82, Mismatches: 7, Indels: 20
0.75 0.06 0.18
Matches are distributed among these distances:
30 1 0.01
31 7 0.09
32 2 0.02
33 29 0.35
34 5 0.06
35 4 0.05
36 28 0.34
37 6 0.07
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (33 bp):
CGTGGCACCTTTCCCTTTTAAAGCCCACAACTT
Found at i:18241 original size:69 final size:67
Alignment explanation
Indices: 18116--18247 Score: 160
Period size: 69 Copynumber: 1.9 Consensus size: 67
18106 GAAAAAGTTC
**
18116 CGTGGCACCTTTTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTAAAGCCCACAAC
1 CGTGGCACCTTTTTTTCAAAGCCCACAACTCTGTGGCACTCTTTCACCCTTTTAAAGCCCACAAC
18181 TT
66 TT
** * *
18183 CGTGGCACCTTGTTCTTTTTAAGTCCACAACT-TCGTGGCA-TCTTTCACCTTTTCTAAAGCCCA
1 CGTGGCACCTT-TT-TTTCAAAGCCCACAACTCT-GTGGCACTCTTTCACCCTTT-TAAAGCCCA
18246 CA
62 CA
18248 CAAGTTGGTG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
67 11 0.20
68 13 0.24
69 31 0.56
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (67 bp):
CGTGGCACCTTTTTTTCAAAGCCCACAACTCTGTGGCACTCTTTCACCCTTTTAAAGCCCACAAC
TT
Found at i:18377 original size:43 final size:43
Alignment explanation
Indices: 18314--18583 Score: 333
Period size: 43 Copynumber: 6.0 Consensus size: 43
18304 GCACCTTCTT
*
18314 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
18357 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
18404 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
18449 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC-A---C
*
18496 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
18541 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
18584 ATTTTCCATC
Statistics
Matches: 196, Mismatches: 19, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
43 115 0.59
44 1 0.01
45 2 0.01
47 2 0.01
48 1 0.01
49 75 0.38
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:18425 original size:92 final size:92
Alignment explanation
Indices: 18263--18640 Score: 621
Period size: 92 Copynumber: 4.1 Consensus size: 92
18253 TGGTGGCAAC
18263 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
*
18328 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGACA
18356 CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
18421 AGCTGGCCTTGAATCAGCACATTGACA
66 AGCTGGCCTTGAATCAGCACATTGACA
* *
18448 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
*
18513 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGACA
* * * * * *
18540 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CTTCTTTAAGTCCAA
18605 TGTAGCTGGCCTTGAATCAGCACATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGACA
18635 TCCTTT
1 -CCTTT
18641 TTCTCATCTT
Statistics
Matches: 270, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
92 217 0.80
93 4 0.01
94 2 0.01
95 42 0.16
96 5 0.02
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (92 bp):
CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGACA
Found at i:18790 original size:52 final size:55
Alignment explanation
Indices: 18711--19283 Score: 464
Period size: 52 Copynumber: 9.9 Consensus size: 55
18701 TTTCTCATCT
18711 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACA-CC-TTTTC
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTC
* * *
18764 -CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTC
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTC
* * * * *
18818 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--T
18883 C
55 C
* *
18884 TTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCA-CC-TTTTC
1 -TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTC
* * * *
18938 -CGTCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTC
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTC
* * * * *
18992 TCATCTTTAAGCCCAATATTGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--T
19057 C
55 C
*
19058 TTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC
1 -TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTC
* * * *
19112 -CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGTACATTGACATCCTTTTTC
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTC
* * * * *
19166 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCAT
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--T
19231 C
55 C
* * *
19232 TTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTTT
1 -TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTT
19284 ATCTTTAAGT
Statistics
Matches: 418, Mismatches: 57, Indels: 85
0.75 0.10 0.15
Matches are distributed among these distances:
52 121 0.29
53 6 0.01
54 19 0.05
55 97 0.23
56 5 0.01
57 7 0.02
58 6 0.01
59 3 0.01
60 3 0.01
61 12 0.03
62 3 0.01
63 9 0.02
64 6 0.01
66 9 0.02
67 112 0.27
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (55 bp):
TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTC
Found at i:18831 original size:174 final size:174
Alignment explanation
Indices: 18541--19436 Score: 1414
Period size: 174 Copynumber: 5.2 Consensus size: 174
18531 ACATTGGCAC
* *
18541 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
18606 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
66 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
18671 GTGAATCAGA-ATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 GTGAATCA-ACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
*
18715 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
18780 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
66 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
18845 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
* *
18889 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCCGTCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
*
18954 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATTGTTGGCC
66 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
19019 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
19063 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
*
19128 GTAGCTGGCCTTGAATCAGTACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
66 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
19193 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
* * *
19237 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
* * * * * * * *** *
19299 ATCGCTAGCCGT-ATAT-TG-GCTTTTTTATCCTTTTTCTCATCTTCGAA-CCCAATATCGTTGG
66 GTAGCTGGCCTTGA-ATCAGCACATTGACATCCTTTTTCTCATCTT-TAAGCCCAATATCGTTGG
* * * * *
19360 CCGTGAATCAACGTATTGGTCCT-TTTATCACTCTTCATCCTCATCAT
129 CCGTGAATCAACATATTGG-CATCTTTATCACTTTTC-TCATCTTCAT
* * * *
19407 CTTTAAGTCCAGTGTGGCAGGCCTTGAATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATC
19437 TACACAGTGG
Statistics
Matches: 684, Mismatches: 33, Indels: 14
0.94 0.05 0.02
Matches are distributed among these distances:
169 64 0.09
170 41 0.06
171 24 0.04
173 4 0.01
174 551 0.81
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (174 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
Found at i:20200 original size:52 final size:52
Alignment explanation
Indices: 20144--20272 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
20134 CACTGATCTT
*
20144 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
20196 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
20248 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
20273 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:23547 original size:13 final size:13
Alignment explanation
Indices: 23529--23555 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23519 CACCAAGATC
23529 ATGTATCGATACA
1 ATGTATCGATACA
23542 ATGTATCGATACA
1 ATGTATCGATACA
23555 A
1 A
23556 AGCAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:31577 original size:22 final size:24
Alignment explanation
Indices: 31547--31591 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
31537 CCTCTGAATC
*
31547 TCTTCAAGA-ATTATACCCCAAAT
1 TCTTCAAGAGATTATAACCCAAAT
*
31570 TCTT-AAGAGATTGTAACCCAAA
1 TCTTCAAGAGATTATAACCCAAA
31592 ATTGAATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (24 bp):
TCTTCAAGAGATTATAACCCAAAT
Found at i:32513 original size:21 final size:21
Alignment explanation
Indices: 32489--32540 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
32479 TTTTCATCTG
* * *
32489 ATTTTATTTATTTATTTATTT
1 ATTTTATTTATTGATTGATTA
*
32510 ATTTTATTGATTGATTGATTA
1 ATTTTATTTATTGATTGATTA
*
32531 ATTTTTTTTA
1 ATTTTATTTA
32541 CGCGTAGTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (21 bp):
ATTTTATTTATTGATTGATTA
Found at i:43551 original size:19 final size:19
Alignment explanation
Indices: 43527--43570 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
43517 ATCCATTTCT
43527 TTTATTTATTTATTAGGAA
1 TTTATTTATTTATTAGGAA
43546 TTTATTTATTTATTAGGAA
1 TTTATTTATTTATTAGGAA
43565 TTTATT
1 TTTATT
43571 ATTATTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (19 bp):
TTTATTTATTTATTAGGAA
Found at i:45559 original size:19 final size:21
Alignment explanation
Indices: 45537--45575 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45527 ATATAATCGA
45537 ATAAATC-T-AATATAAAATT
1 ATAAATCTTGAATATAAAATT
45556 ATAAATCTTGAATATAAAAT
1 ATAAATCTTGAATATAAAAT
45576 CTCAAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (21 bp):
ATAAATCTTGAATATAAAATT
Found at i:45858 original size:2 final size:2
Alignment explanation
Indices: 45851--45876 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45841 CTAGTCTTAA
45851 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
45877 GGGTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48404 original size:5 final size:5
Alignment explanation
Indices: 48394--48418 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48384 AGGACAGTTG
48394 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
48419 ATGCTCTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:49255 original size:24 final size:24
Alignment explanation
Indices: 49202--49255 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
49192 TAATCAACAA
* *
49202 TAAAAAATTATAAATATTTTAATT
1 TAAAAATTTATAAATATTATAATT
*
49226 T-TAAATTTATTAAATATTAT-ATT
1 TAAAAATTTA-TAAATATTATAATT
49249 TAAAAAT
1 TAAAAAT
49256 AATTATAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAAAATTTATAAATATTATAATT
Found at i:51729 original size:13 final size:13
Alignment explanation
Indices: 51694--51733 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
51684 TCATTGTTAG
51694 TAGTATAATTAAT
1 TAGTATAATTAAT
*
51707 TACT-TAATTAAT
1 TAGTATAATTAAT
51719 TAGTATAATTAAT
1 TAGTATAATTAAT
51732 TA
1 TA
51734 ATTCTGGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (13 bp):
TAGTATAATTAAT
Found at i:53020 original size:20 final size:20
Alignment explanation
Indices: 52997--53034 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52987 GTGTTAGGAT
52997 AATTTAATTTATT-ATTATAA
1 AATTTAA-TTATTCATTATAA
*
53017 AATTTTATTATTCATTAT
1 AATTTAATTATTCATTAT
53035 TTTTCCCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTTAATTATTCATTATAA
Found at i:55208 original size:58 final size:58
Alignment explanation
Indices: 55137--55281 Score: 143
Period size: 58 Copynumber: 2.5 Consensus size: 58
55127 AAAAATCCCA
* * * * *
55137 AAAACATTG-CAAATTATTAAAAT-AACCTTAAAATGTATGAAATTGCATGAATGGCCCT
1 AAAACA-TGACAAATTACTAAAATGAACCAT-AAATGTATAAAATTACATAAATGGCCCT
** * ** *
55195 AAGTCATGACAAATGACTAAAATGATGCATAAATGTATAAAATTACATAAATGGTCCT
1 AAAACATGACAAATTACTAAAATGAACCATAAATGTATAAAATTACATAAATGGCCCT
*
55253 AAAACATGACAAATTACGAAAATG-ACCAT
1 AAAACATGACAAATTACTAAAATGAACCAT
55282 TGTAGACACC
Statistics
Matches: 68, Mismatches: 17, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
57 5 0.07
58 60 0.88
59 3 0.04
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (58 bp):
AAAACATGACAAATTACTAAAATGAACCATAAATGTATAAAATTACATAAATGGCCCT
Found at i:55685 original size:13 final size:13
Alignment explanation
Indices: 55667--55691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55657 ATTGCTCAAA
55667 TGTATCGATACAT
1 TGTATCGATACAT
55680 TGTATCGATACA
1 TGTATCGATACA
55692 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55740 original size:52 final size:52
Alignment explanation
Indices: 55700--55828 Score: 170
Period size: 52 Copynumber: 2.5 Consensus size: 52
55690 CACTGATCTT
* *
55700 TGTATTGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATACAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
* * * *
55752 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACA-TTTCATAG
1 TGTATCGATACATACAGGAAAATTTGCCCAGATGTATCGATACACTATGA-AA
* *
55804 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATACAGGAAAATTT
55829 TCATATTTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 3 0.04
52 66 0.96
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATACAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:58998 original size:58 final size:57
Alignment explanation
Indices: 58927--59036 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 57
58917 GAAAATGCAT
** * * *
58927 AAATGGTCCTAAAACATGGCTAATTATTGAAATAACCCTAAAATGCATAAAATTATAA
1 AAATGGTCCTAAAACATAACAAATTACTAAAATAA-CCTAAAATGCATAAAATTATAA
* * *
58985 AAATGGTCTTAAAACATAACAAATTACTAAAATGACCTAAAATGCATGAAAT
1 AAATGGTCCTAAAACATAACAAATTACTAAAATAACCTAAAATGCATAAAAT
59037 GACAAAAAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 16 0.36
58 28 0.64
ACGTcount: A:0.50, C:0.14, G:0.10, T:0.26
Consensus pattern (57 bp):
AAATGGTCCTAAAACATAACAAATTACTAAAATAACCTAAAATGCATAAAATTATAA
Found at i:59169 original size:57 final size:59
Alignment explanation
Indices: 59022--59169 Score: 135
Period size: 59 Copynumber: 2.5 Consensus size: 59
59012 TAAAATGACC
* * * * **
59022 TAAAATGCATGAAATGACA-AAAAAGT-TTCTAGATTATAAAAAATGATTTTCACTATTTT
1 TAAAATACATGAAATGACAGAATAA-TCTT-TAAATCATAAAAAATGATTTTCACTATACT
* *
59081 TAAAATACATGAACTGACAGAATAATTTTTAAATCATAAAAAATGATTTAT-A-TATACT
1 TAAAATACATGAAATGACAGAATAATCTTTAAATCATAAAAAATGATTT-TCACTATACT
* * *
59139 T-AAATGCATGAAATGACATATTAATCTTTAA
1 TAAAATACATGAAATGACAGAATAATCTTTAA
59170 TATGTATGAA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
57 25 0.34
58 5 0.07
59 37 0.50
60 7 0.09
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (59 bp):
TAAAATACATGAAATGACAGAATAATCTTTAAATCATAAAAAATGATTTTCACTATACT
Found at i:60855 original size:20 final size:21
Alignment explanation
Indices: 60830--60881 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
60820 TTCTACAATT
60830 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
60850 TGTATCGATACATTCTTGAAA
1 TGTATCGATACATAAGTGAAA
60871 TGTATCGATAC
1 TGTATCGATAC
60882 TGGACCATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:68242 original size:2 final size:2
Alignment explanation
Indices: 68237--68271 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
68227 AAAAAATTTA
68237 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68272 CCGATAATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:75256 original size:140 final size:140
Alignment explanation
Indices: 74999--75278 Score: 515
Period size: 140 Copynumber: 2.0 Consensus size: 140
74989 ATTGAAATAG
* *
74999 ATCGATCAAAATAGAAGATGGGTTTGGTCATGCAATAGTATTTTATGAATACGTTGGCTTAAAAA
1 ATCGATCAAAATAGAAGATGAGTTTGGTCATACAATAGTATTTTATGAATACGTTGGCTTAAAAA
*
75064 ATAAATCTAAGTTAAAGAGGTATTTGTGTGAAGATAATGAAGAAAACAATTTAAATTTATTTGAT
66 ATAAATATAAGTTAAAGAGGTATTTGTGTGAAGATAATGAAGAAAACAATTTAAATTTATTTGAT
75129 TTGTTATTAT
131 TTGTTATTAT
75139 ATCGATCAAAATAGAAGATGAGTTTGGTCATACAATAGTATTTTATGAATACGTTGGCTTAAAAA
1 ATCGATCAAAATAGAAGATGAGTTTGGTCATACAATAGTATTTTATGAATACGTTGGCTTAAAAA
* *
75204 ATAAATATAAGTTGAAGAGGTATTTGTGTGAAGATAATGAAGAAAACCATTTAAATTTATTTGAT
66 ATAAATATAAGTTAAAGAGGTATTTGTGTGAAGATAATGAAGAAAACAATTTAAATTTATTTGAT
75269 TTGTTATTAT
131 TTGTTATTAT
75279 GGTGAAAAGT
Statistics
Matches: 135, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 135 1.00
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (140 bp):
ATCGATCAAAATAGAAGATGAGTTTGGTCATACAATAGTATTTTATGAATACGTTGGCTTAAAAA
ATAAATATAAGTTAAAGAGGTATTTGTGTGAAGATAATGAAGAAAACAATTTAAATTTATTTGAT
TTGTTATTAT
Found at i:82446 original size:2 final size:2
Alignment explanation
Indices: 82433--82467 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
82423 GATAACTTCA
* *
82433 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
82468 CGCACCACTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88401 original size:273 final size:273
Alignment explanation
Indices: 87909--91467 Score: 7052
Period size: 273 Copynumber: 13.0 Consensus size: 273
87899 TTTTTTCCAA
87909 AAATAATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGA
1 AAAT-ATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGA
87974 AGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATA
65 AGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATA
88039 TAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATA
130 TAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATA
88104 AATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATT
195 AATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATT
88169 TTGTATAAGTATAT
260 TTGTATAAGTATAT
88183 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
88248 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
88313 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
*
88378 ATTTATTTCAATGGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
88443 TGTATAAGTATAT
261 TGTATAAGTATAT
88456 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
*
88521 GTTAAAAAAAAAAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
88586 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
88651 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
88716 TGTATAAGTATAT
261 TGTATAAGTATAT
88729 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
88794 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
88859 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
88924 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
88989 TGTATAAGTATAT
261 TGTATAAGTATAT
89002 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
89067 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
89132 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
89197 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
89262 TGTATAAGTATAT
261 TGTATAAGTATAT
89275 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
89340 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
89405 AGGTAATTAACTGCATGAAATGTT-AAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
89469 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
89534 TGTATAAGTATAT
261 TGTATAAGTATAT
89547 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
89612 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
89677 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
89742 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
89807 TGTATAAGTATAT
261 TGTATAAGTATAT
89820 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
89885 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
89950 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
*
90015 ATTTATTTCAATGGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
90080 TGTATAAGTATAT
261 TGTATAAGTATAT
90093 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
90158 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
90223 AGGTAATTAACTGCATGAAATGTT-AAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
90287 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
90352 TGTATAAGTATAT
261 TGTATAAGTATAT
90365 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
90430 GTTAAAAAAAA-AATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
90494 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
90559 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
90624 TGTATAAGTATAT
261 TGTATAAGTATAT
90637 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
90702 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
90767 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
90832 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
90897 TGTATAAGTATAT
261 TGTATAAGTATAT
90910 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
90975 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
91040 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
91105 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
91170 TGTATAAGTATAT
261 TGTATAAGTATAT
91183 AAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGA
1 -AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGA
91248 AGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATA
65 AGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATA
91313 TAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATA
130 TAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATA
91378 AATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATT
195 AATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATT
91443 TTGTATAAGTATAT
260 TTGTATAAGTATAT
91457 AAATATAAATA
1 AAATATAAATA
91468 TAGATATAGA
Statistics
Matches: 3275, Mismatches: 6, Indels: 9
1.00 0.00 0.00
Matches are distributed among these distances:
271 77 0.02
272 659 0.20
273 2262 0.69
274 277 0.08
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (273 bp):
AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
TGTATAAGTATAT
Found at i:89694 original size:818 final size:819
Alignment explanation
Indices: 87909--91467 Score: 7052
Period size: 818 Copynumber: 4.3 Consensus size: 819
87899 TTTTTTCCAA
87909 AAATAATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGA
1 AAAT-ATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGA
87974 AGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATA
65 AGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATA
88039 TAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATA
130 TAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATA
88104 AATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATT
195 AATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATT
88169 TTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAA
260 TTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAA
88234 TGGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTT
325 TGGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTT
88299 TAATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTT
390 TAATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTT
88364 TGTGTCTCTAATAAATTTATTTCAATGGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGAT
455 TGTGTCTCTAATAAATTTATTTCAATGGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGAT
88429 TCAGTTAAGCATTTTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAA
520 TCAGTTAAGCATTTTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAA
*
88494 AATATATGCACAATGGTTGAGTAGGAAGTTAAAAAAAAAAATAATGATTTGAGTGGTTGAAAAAA
585 AATATATGCACAATGGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAA
88559 CTGTATATATTTTTAATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATA
650 CTGTATATATTTTTAATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATA
88624 TATCCTTAAATTTTGTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTT
715 TATCCTTAAATTTTGTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTT
88689 AGGGTCACTTGATTCAGTTAAGCATTTTGTATAAGTATAT
780 AGGGTCACTTGATTCAGTTAAGCATTTTGTATAAGTATAT
88729 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
88794 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
88859 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
88924 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
88989 TGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAAT
261 TGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAAT
89054 GGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTT
326 GGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTT
89119 AATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTT
391 AATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTT
*
89184 GTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATT
456 GTGTCTCTAATAAATTTATTTCAATGGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATT
89249 CAGTTAAGCATTTTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAA
521 CAGTTAAGCATTTTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAA
89314 ATATATGCACAATGGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAAC
586 ATATATGCACAATGGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAAC
89379 TGTATATATTTTTAATAAATTTATATAGGTAATTAACTGCATGAAATGTT-AAAAAAATACATAT
651 TGTATATATTTTTAATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATAT
89443 ATCCTTAAATTTTGTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTA
716 ATCCTTAAATTTTGTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTA
89508 GGGTCACTTGATTCAGTTAAGCATTTTGTATAAGTATAT
781 GGGTCACTTGATTCAGTTAAGCATTTTGTATAAGTATAT
89547 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
89612 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
89677 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
89742 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
89807 TGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAAT
261 TGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAAT
89872 GGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTT
326 GGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTT
89937 AATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTT
391 AATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTT
90002 GTGTCTCTAATAAATTTATTTCAATGGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATT
456 GTGTCTCTAATAAATTTATTTCAATGGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATT
90067 CAGTTAAGCATTTTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAA
521 CAGTTAAGCATTTTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAA
90132 ATATATGCACAATGGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAAC
586 ATATATGCACAATGGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAAC
90197 TGTATATATTTTTAATAAATTTATATAGGTAATTAACTGCATGAAATGTT-AAAAAAATACATAT
651 TGTATATATTTTTAATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATAT
90261 ATCCTTAAATTTTGTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTA
716 ATCCTTAAATTTTGTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTA
90326 GGGTCACTTGATTCAGTTAAGCATTTTGTATAAGTATAT
781 GGGTCACTTGATTCAGTTAAGCATTTTGTATAAGTATAT
90365 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
1 AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
90430 GTTAAAAAAAA-AATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
66 GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
90494 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
131 AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
90559 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
196 ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
90624 TGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAAT
261 TGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAAT
90689 GGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTT
326 GGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTT
90754 AATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTT
391 AATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTT
*
90819 GTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATT
456 GTGTCTCTAATAAATTTATTTCAATGGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATT
90884 CAGTTAAGCATTTTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAA
521 CAGTTAAGCATTTTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAA
90949 ATATATGCACAATGGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAAC
586 ATATATGCACAATGGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAAC
91014 TGTATATATTTTTAATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATAT
651 TGTATATATTTTTAATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATAT
91079 ATCCTTAAATTTTGTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTA
716 ATCCTTAAATTTTGTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTA
91144 GGGTCACTTGATTCAGTTAAGCATTTTGTATAAGTATAT
781 GGGTCACTTGATTCAGTTAAGCATTTTGTATAAGTATAT
91183 AAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGA
1 -AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGA
91248 AGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATA
65 AGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATA
91313 TAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATA
130 TAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATA
91378 AATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATT
195 AATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATT
91443 TTGTATAAGTATATAAATATAAATA
260 TTGTATAAGTATATAAATATAAATA
91468 TAGATATAGA
Statistics
Matches: 2732, Mismatches: 4, Indels: 6
1.00 0.00 0.00
Matches are distributed among these distances:
817 622 0.23
818 1129 0.41
819 770 0.28
820 211 0.08
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (819 bp):
AAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAATGGTTGAGTAGGAA
GTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTTAATAAATTTATAT
AGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTTGTGTCTCTAATAA
ATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATTCAGTTAAGCATTT
TGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAAATATATGCACAAT
GGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAACTGTATATATTTTT
AATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATATATCCTTAAATTTT
GTGTCTCTAATAAATTTATTTCAATGGTTTTTTTTATAAATTTACCAAGTTAGGGTCACTTGATT
CAGTTAAGCATTTTGTATAAGTATATAAATATAAATAGATAAATAACAAAAGGTAAAAGTTAAAA
ATATATGCACAATGGTTGAGTAGGAAGTTAAAAAAAATAATAATGATTTGAGTGGTTGAAAAAAC
TGTATATATTTTTAATAAATTTATATAGGTAATTAACTGCATGAAATGTTAAAAAAAATACATAT
ATCCTTAAATTTTGTGTCTCTAATAAATTTATTTCAATTGTTTTTTTTATAAATTTACCAAGTTA
GGGTCACTTGATTCAGTTAAGCATTTTGTATAAGTATAT
Found at i:92690 original size:2 final size:2
Alignment explanation
Indices: 92683--92709 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
92673 TTTTGCACTA
92683 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
92710 ACAGATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96135 original size:2 final size:2
Alignment explanation
Indices: 96122--96151 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
96112 ATGCATGCAC
*
96122 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96152 CTTCATGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:98121 original size:15 final size:16
Alignment explanation
Indices: 98090--98136 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 16
98080 GTGATATATA
*
98090 TAAATAACTTAATTTTT
1 TAAATAA-TTAAATTTT
98107 TAAA-AATTAAA-TTT
1 TAAATAATTAAATTTT
98121 TAAATAATCTAAATTT
1 TAAATAAT-TAAATTT
98137 AATTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.27
15 7 0.27
16 6 0.23
17 6 0.23
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATAATTAAATTTT
Found at i:98142 original size:5 final size:5
Alignment explanation
Indices: 98132--98158 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
98122 AAATAATCTA
98132 AATTT AATTT AATTT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT AATTT AA
98159 ATTATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:107861 original size:16 final size:16
Alignment explanation
Indices: 107840--107887 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
107830 AAACTTAATA
107840 AATCAAAATTTAAAAT
1 AATCAAAATTTAAAAT
*
107856 AATCAAAAATTAAAAT
1 AATCAAAATTTAAAAT
107872 AA-CTAAAATTTAAAAT
1 AATC-AAAATTTAAAAT
107888 TAAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 1 0.03
16 28 0.97
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AATCAAAATTTAAAAT
Found at i:107889 original size:22 final size:22
Alignment explanation
Indices: 107861--107910 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
107851 AAAATAATCA
107861 AAAATTAAAATAACTAAAATTT
1 AAAATTAAAATAACTAAAATTT
* *
107883 AAAATTAAAATTATTAAAATTT
1 AAAATTAAAATAACTAAAATTT
107905 AAAATT
1 AAAATT
107911 TTAAAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTAAAATAACTAAAATTT
Found at i:107918 original size:16 final size:15
Alignment explanation
Indices: 107875--107916 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
107865 TTAAAATAAC
107875 TAAAA-TTTAAAA-T
1 TAAAATTTTAAAATT
107888 TAAAATTATTAAAATT
1 TAAAATT-TTAAAATT
107904 TAAAATTTTAAAA
1 TAAAATTTTAAAA
107917 ATACTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.19
14 1 0.04
15 12 0.46
16 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAATTTTAAAATT
Found at i:110144 original size:32 final size:32
Alignment explanation
Indices: 110066--110191 Score: 132
Period size: 32 Copynumber: 3.8 Consensus size: 32
110056 TTCGTATTCG
110066 TATTTATAAATTTGATAAATA-TAAATTAGATATAAT
1 TATTTATAAATTTGATAAATATTAAA-T--A-A-AAT
110102 TATTTATAAATTTGATAAATATTAAATAAAAT
1 TATTTATAAATTTGATAAATATTAAATAAAAT
* * *
110134 TATTTGTAAATTTGATAAATATTAGATATAAT
1 TATTTATAAATTTGATAAATATTAAATAAAAT
*
110166 TACTTT-TAAATTTAAT-AATCATTAAA
1 TA-TTTATAAATTTGATAAAT-ATTAAA
110192 AAGTTTTTGT
Statistics
Matches: 82, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
31 3 0.04
32 48 0.59
33 4 0.05
34 1 0.01
36 22 0.27
37 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (32 bp):
TATTTATAAATTTGATAAATATTAAATAAAAT
Found at i:110178 original size:64 final size:67
Alignment explanation
Indices: 110066--110191 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 67
110056 TTCGTATTCG
*
110066 TATTTATAAATTTGATAAATATAAATTAGATATAATTATTTATAAATTTGATAAAT-ATTAAATA
1 TATTTATAAATTTGATAAATAT-AATTAGATATAATTATTTATAAATTTAAT-AATCATTAAATA
110130 AAAT
64 AAAT
*
110134 TATTTGTAAATTTGAT-AA-AT-ATTAGATATAATTACTTT-TAAATTTAATAATCATTAAA
1 TATTTATAAATTTGATAAATATAATTAGATATAATTA-TTTATAAATTTAATAATCATTAAA
110192 AAGTTTTTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
63 3 0.06
64 29 0.54
65 3 0.06
66 2 0.04
67 2 0.04
68 15 0.28
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (67 bp):
TATTTATAAATTTGATAAATATAATTAGATATAATTATTTATAAATTTAATAATCATTAAATAAA
AT
Found at i:111803 original size:18 final size:17
Alignment explanation
Indices: 111770--111803 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
111760 TTTGACGTTA
*
111770 TATTTTAATTATTTATT
1 TATTTTAATTAATTATT
111787 TATTTTAAATTAATTAT
1 TATTTT-AATTAATTAT
111804 AATTAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTAATTAATTATT
Found at i:111902 original size:24 final size:26
Alignment explanation
Indices: 111870--111918 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
111860 ACTTAAATTA
111870 TTATTTAAA-TAA-TATAAAATATTT
1 TTATTTAAATTAATTATAAAATATTT
111894 TTATTTAAATTTAATTATAAAATAT
1 TTATTTAAA-TTAATTATAAAATAT
111919 ATGAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
26 3 0.14
27 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTATTTAAATTAATTATAAAATATTT
Found at i:112868 original size:2 final size:2
Alignment explanation
Indices: 112861--112891 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
112851 TTATTTTCTT
112861 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
112892 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:114783 original size:20 final size:20
Alignment explanation
Indices: 114754--114791 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
114744 TTTAAAAAAA
*
114754 TTAAATAAAAATAATAAATT
1 TTAAAAAAAAATAATAAATT
*
114774 TTAAAAAAAATTAATAAA
1 TTAAAAAAAAATAATAAA
114792 AAATATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAAAAAAAAATAATAAATT
Found at i:114783 original size:30 final size:29
Alignment explanation
Indices: 114747--114808 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
114737 TTCAATATTT
114747 AAAAAAATTAA-ATAAAAATAATAAATTTTA
1 AAAAAAATTAATA-AAAAAT-ATAAATTTTA
*
114777 AAAAAAATTAATAAAAAATATAATTTTTA
1 AAAAAAATTAATAAAAAATATAAATTTTA
114806 AAA
1 AAA
114809 GTTGACTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 12 0.40
30 17 0.57
31 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (29 bp):
AAAAAAATTAATAAAAAATATAAATTTTA
Found at i:115322 original size:89 final size:91
Alignment explanation
Indices: 115083--115350 Score: 301
Period size: 89 Copynumber: 3.0 Consensus size: 91
115073 ATAGATTTAA
** * * *
115083 TATTCAAAAG-ATCGATTTTTTCAAT-AAGAACCAGTCTCTTAATGCATACAAGCTAAATTTTTT
1 TATTCAAAAGAATTAATTTTTTCAATAAAG-ATCAATCTCTTAATGCATACAAGCTGAA-TTTTT
*
115146 ATTTTGAAAAATTAAGAGATTATCTCTT
64 ATTTCGAAAAATTAAGAGATTATCTCTT
* * * *
115174 TATTTAAAAGATTTATTTTTTTCAATAAAGATCAATCTCTTAATGCATACAAGGTGAATTTTTAT
1 TATTCAAAAGAATTAATTTTTTCAATAAAGATCAATCTCTTAATGCATACAAGCTGAATTTTTAT
* * * *
115239 TTCGAAAGATTAATATATTATTTCTT
66 TTCGAAAAATTAAGAGATTATCTCTT
* * * *
115265 TATTCAAAA-AATTAATTTTTT-AATAAAGATTAATTTTTTAATGCATACAAGTTGAATTTTTAT
1 TATTCAAAAGAATTAATTTTTTCAATAAAGATCAATCTCTTAATGCATACAAGCTGAATTTTTAT
* * *
115328 TGCAAAAAATTAAGAAATTATCT
66 TTCGAAAAATTAAGAGATTATCT
115351 TTTTTTTAAG
Statistics
Matches: 148, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
89 55 0.37
90 10 0.07
91 45 0.30
92 35 0.24
93 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (91 bp):
TATTCAAAAGAATTAATTTTTTCAATAAAGATCAATCTCTTAATGCATACAAGCTGAATTTTTAT
TTCGAAAAATTAAGAGATTATCTCTT
Found at i:116235 original size:6 final size:7
Alignment explanation
Indices: 116211--116249 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
116201 TTATTTTAAT
116211 AAATATA
1 AAATATA
116218 AAATATA
1 AAATATA
*
116225 AAAAATTA
1 AAATA-TA
116233 AAATATA
1 AAATATA
116240 AAATATA
1 AAATATA
116247 AAA
1 AAA
116250 AATTTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATATA
Found at i:116236 original size:15 final size:16
Alignment explanation
Indices: 116211--116252 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
116201 TTATTTTAAT
116211 AAATATAAAATATAAA
1 AAATATAAAATATAAA
116227 AAAT-TAAAATATAAA
1 AAATATAAAATATAAA
* *
116242 ATATAAAAAAT
1 AAATATAAAAT
116253 TTTATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATATAAAATATAAA
Found at i:116236 original size:22 final size:22
Alignment explanation
Indices: 116211--116253 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
116201 TTATTTTAAT
116211 AAATATAAAATATAAAAAATTA
1 AAATATAAAATATAAAAAATTA
116233 AAATATAAAATATAAAAAATT
1 AAATATAAAATATAAAAAATT
116254 TTATATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATATAAAATATAAAAAATTA
Found at i:116274 original size:36 final size:34
Alignment explanation
Indices: 116233--116299 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
116223 TAAAAAATTA
116233 AAATATAAAATATAAAAAATTTTATATTTATTAAAC
1 AAATAT-AAA-ATAAAAAATTTTATATTTATTAAAC
* *
116269 AAATATAAACTAACAAATTTTATATTTATTA
1 AAATATAAAATAAAAAATTTTATATTTATTA
116300 TTAAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 20 0.69
35 3 0.10
36 6 0.21
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (34 bp):
AAATATAAAATAAAAAATTTTATATTTATTAAAC
Found at i:116308 original size:22 final size:22
Alignment explanation
Indices: 116283--116330 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
116273 ATAAACTAAC
116283 AAATTTTATATTTATTATTAAA
1 AAATTTTATATTTATTATTAAA
*
116305 AAATTTTATATTTATTATTAAT
1 AAATTTTATATTTATTATTAAA
116327 AAAT
1 AAAT
116331 ATAAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AAATTTTATATTTATTATTAAA
Found at i:121231 original size:15 final size:15
Alignment explanation
Indices: 121211--121254 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
121201 AAATTTAATA
121211 AAATATATTTTTATT
1 AAATATATTTTTATT
121226 AAATAT-TTTTATATT
1 AAATATATTTT-TATT
121241 AATATAATATTTTT
1 AA-AT-ATATTTTT
121255 TAATATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.16
15 12 0.48
16 2 0.08
17 3 0.12
18 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AAATATATTTTTATT
Found at i:121278 original size:20 final size:19
Alignment explanation
Indices: 121248--121287 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
121238 ATTAATATAA
121248 TATTTTTTAATATTAAAAG
1 TATTTTTTAATATTAAAAG
*
121267 TATTTATTTAATATTTAAAG
1 TATTT-TTTAATATTAAAAG
121287 T
1 T
121288 TAATTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TATTTTTTAATATTAAAAG
Found at i:121298 original size:21 final size:20
Alignment explanation
Indices: 121254--121298 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
121244 ATAATATTTT
* *
121254 TTAATATTAAAAGTATTTAT
1 TTAATATTAAAAGTAATTAA
*
121274 TTAATATTTAAAGTTAATTAA
1 TTAATATTAAAAG-TAATTAA
121295 TTAA
1 TTAA
121299 ACTAACTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
TTAATATTAAAAGTAATTAA
Found at i:128371 original size:88 final size:87
Alignment explanation
Indices: 128224--128391 Score: 282
Period size: 88 Copynumber: 1.9 Consensus size: 87
128214 ATAGAGCATG
128224 GAGATAATCACCACATTGTTAATCTTATTAGTTTAAATACACATGTAAGGCATGGAAATTAAATG
1 GAGATAATCACCACATTGTTAATCTTATTAGTTTAAATACACATGTAAGGCATGGAAATTAAATG
*
128289 GTATTCCATGCCCTCGAGCACA
66 GTAATCCATGCCCTCGAGCACA
* * * *
128311 GAGATAATCACCACATTGTTAATTTTAATTAGTTTAAATGCACATGTAGGGCTTGGAAATTAAAT
1 GAGATAATCACCACATTGTTAATCTT-ATTAGTTTAAATACACATGTAAGGCATGGAAATTAAAT
128376 GGTAATCCATGCCCTC
65 GGTAATCCATGCCCTC
128392 ATGCAATTTC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 25 0.33
88 50 0.67
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (87 bp):
GAGATAATCACCACATTGTTAATCTTATTAGTTTAAATACACATGTAAGGCATGGAAATTAAATG
GTAATCCATGCCCTCGAGCACA
Found at i:131925 original size:20 final size:20
Alignment explanation
Indices: 131900--131973 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
131890 TTTTAACTAG
* *
131900 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTATGA
* *
131920 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTATGA
* *
131940 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTTATGA
131960 ATGTATCGATACAT
1 ATGTATCGATACAT
131974 CTGAGTAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTATGA
Found at i:132990 original size:18 final size:20
Alignment explanation
Indices: 132950--132993 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
132940 TATTTAAATT
132950 TATT-ATAAAAATATATAAA
1 TATTAATAAAAATATATAAA
*
132969 TATTAATAAAAA-A-ATAAC
1 TATTAATAAAAATATATAAA
132987 TATTAAT
1 TATTAAT
132994 GGTATGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 5 0.22
20 7 0.30
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TATTAATAAAAATATATAAA
Found at i:134008 original size:27 final size:27
Alignment explanation
Indices: 133959--134024 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
133949 AAAACGGAGC
* *
133959 TGGAGTATCCTCTCGAAGGAATGATGT
1 TGGAGTATCCCCTCGAAGGAATGAGGT
* *
133986 TGGAGTATCCCCTCAGAA-TAATGGGGT
1 TGGAGTATCCCCTC-GAAGGAATGAGGT
*
134013 TGGACTATCCCC
1 TGGAGTATCCCC
134025 AAAGATGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 30 0.91
28 3 0.09
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (27 bp):
TGGAGTATCCCCTCGAAGGAATGAGGT
Done.