Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
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: 5800122
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 26
Found at i:11144 original size:24 final size:25
Alignment explanation
Indices: 11103--11150 Score: 80
Period size: 24 Copynumber: 1.9 Consensus size: 25
11093 AAATTTTAAT
11103 TAAAATAATTATTTTTAAAAAAAAAA
1 TAAAATAA-TATTTTTAAAAAAAAAA
11129 TAAAATAA-ATTTTTAAAAAAAA
1 TAAAATAATATTTTTAAAAAAAA
11151 TTGAGGGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 14 0.64
26 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAATAATATTTTTAAAAAAAAAA
Found at i:14689 original size:17 final size:19
Alignment explanation
Indices: 14657--14696 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
14647 GATACACAAT
14657 TAAATTACTAATAAAAAAA
1 TAAATTACTAATAAAAAAA
*
14676 TAAATTA-T-ATAAAAAAC
1 TAAATTACTAATAAAAAAA
14693 TAAA
1 TAAA
14697 ATTCTAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 1 0.05
19 7 0.35
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAATTACTAATAAAAAAA
Found at i:20996 original size:37 final size:38
Alignment explanation
Indices: 20916--20996 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 38
20906 AACAAGTTGA
*
20916 AAAATATTTATATATTTTCTTTAAAAAAATTAAATTCAT
1 AAAA-ATTTATATATTTTCTTTAAAAAAATTAAAATCAT
*
20955 -AAAATTTATATAATTTT-TTT-ACAAAATTAAAAAT-AT
1 AAAAATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCAT
20991 AAAAAT
1 AAAAAT
20997 ATTTAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
36 9 0.24
37 20 0.54
38 8 0.22
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (38 bp):
AAAAATTTATATATTTTCTTTAAAAAAATTAAAATCAT
Found at i:23370 original size:34 final size:34
Alignment explanation
Indices: 23332--23399 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
23322 TCTCAGTCAC
23332 AGTATGTATTACATACCTTACACAATCAAAGCAA
1 AGTATGTATTACATACCTTACACAATCAAAGCAA
23366 AGTATGTATTACATACCTTACACAATCAAAGCAA
1 AGTATGTATTACATACCTTACACAATCAAAGCAA
23400 TGTTACAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (34 bp):
AGTATGTATTACATACCTTACACAATCAAAGCAA
Found at i:29682 original size:106 final size:106
Alignment explanation
Indices: 29423--31141 Score: 2805
Period size: 106 Copynumber: 16.4 Consensus size: 106
29413 CAGTTAACAC
29423 TTTC-GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * *
29487 ACGACGAAGGGACCGCTGGTTGTCAACGAAC-ATTTATCGA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* *
29527 TTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
*
29592 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
*
29633 TTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
*
29698 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* *
29739 TTTTAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
*
29804 ACGACGAAGGGACCGCTGGTTGTC-A-ATA-AA-----CAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
*
29837 TTTC----CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
29898 ACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
*
29938 TTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
30003 ACGACGAAGGGACCGCTGGTTGTCAACGAAC-ATTTCTCGA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* *
30043 TTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
30108 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* * *
30149 TTTCAGAGCCAATTTCAACTTCTCAACGAAGGATCTT-GACTCTAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
30213 ACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
*
30254 TTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
30319 ACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
30359 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
30424 ACGACGAAGGGACCGCTGGTTGTCAACGAAC-ATTTCTCGA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
*
30464 TTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * *
30529 ACGACGAAGGGACCGCTGGTTGTCAACGAA-TATTTCTCGA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* * *
30569 TTTCAGAGTCAATTTCAACTTCACAATGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * *
30634 ACGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* *
30675 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
30740 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
30781 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * *
30846 ACGACGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* *
30887 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
30952 ACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
30993 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
31058 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAG
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
* * *
31099 TTCCAGAACCAATTTCAACTTCACGAC-AGAGGATATTGGACTC
1 TTTCAGAGCCAATTTCAACTTCACAACGA-AGGATATTGGACTC
31142 GGAACAGTAC
Statistics
Matches: 1520, Mismatches: 76, Indels: 36
0.93 0.05 0.02
Matches are distributed among these distances:
94 79 0.05
95 1 0.00
96 3 0.00
98 6 0.00
101 7 0.00
103 2 0.00
104 6 0.00
105 679 0.45
106 737 0.48
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAA
Found at i:30385 original size:421 final size:423
Alignment explanation
Indices: 29423--31141 Score: 2839
Period size: 421 Copynumber: 4.1 Consensus size: 423
29413 CAGTTAACAC
*
29423 TTTC-GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * * *
29487 ACGACGAAGGGACCGCTGGTTGTCAACGAACATTTATCGATTTCAGAGTCAATTTCAACTTCACA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACA
*
29552 ACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
131 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * *
29617 ACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCCAGACA
196 ACGAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
*
29682 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAG
261 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAG
*
29747 CCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
326 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
29812 GGGACCGCTGGTTGTC-A-ATA-AA-----CAA
391 GGGACCGCTGGTTGTCAACAAACAACTTCCCAA
* *
29837 TTTC----CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
29898 ACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACA
*
29963 ACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
131 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* * *
30028 ACGAAC-ATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACA
196 ACGAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
*
30092 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAG
261 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAG
* * *
30157 CCAATTTCAACTTCTCAACGAAGGATCTT-GACTCTAGACAACGCAAGTTCAACTTCACGACGAA
326 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
30221 GGGACCGCTGGTTGTCAATAAACAATTTCCCAA
391 GGGACCGCTGGTTGTCAACAAACAACTTCCCAA
30254 TTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
30319 ACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACA
30384 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
131 ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
* *
30449 ACGAAC-ATTTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
196 ACGAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
* * * *
30513 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACGAA-TATTTCTCGATTTCAGAG
261 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAG
* * *
30577 TCAATTTCAACTTCACAATGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGAA
326 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
30642 GGGACCGTTGGTTGTCAACAAACAACTTCCCAA
391 GGGACCGCTGGTTGTCAACAAACAACTTCCCAA
*
30675 TTTCAGAGCCAATTTCAACTTCA-CAGCGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTT
1 TTTCAGAGCCAATTTCAACTTCACCA-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* *
30739 CACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCA
65 CACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCA
30804 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
129 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * *
30869 CAA-TAACCAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
194 CAACGAA-CAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
* *
30933 ACAACGCATGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTCAATTTCA
258 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCA
30998 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
323 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
* *
31063 GAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAG
388 GAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAA
* * *
31099 TTCCAGAACCAATTTCAACTTCACGAC-AGAGGATATTGGACTC
1 TTTCAGAGCCAATTTCAACTTCACCACGA-AGGATATTGGACTC
31142 GGAACAGTAC
Statistics
Matches: 1226, Mismatches: 59, Indels: 30
0.93 0.04 0.02
Matches are distributed among these distances:
409 50 0.04
410 143 0.12
411 187 0.15
412 2 0.00
414 4 0.00
417 7 0.01
420 41 0.03
421 450 0.37
422 100 0.08
423 98 0.08
424 143 0.12
425 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (423 bp):
TTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
ACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACA
ACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCA
ACGAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAG
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
GGGACCGCTGGTTGTCAACAAACAACTTCCCAA
Found at i:33796 original size:30 final size:30
Alignment explanation
Indices: 33760--33827 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
33750 TCATTTTTTA
33760 AATATTTTT-GATCAGTTTTTAGCGTATAAT
1 AATATTTTTAG-TCAGTTTTTAGCGTATAAT
* *
33790 AATATTTTTAGTCATTTTTTAGCGTCTAAT
1 AATATTTTTAGTCAGTTTTTAGCGTATAAT
*
33820 AATGTTTT
1 AATATTTT
33828 CGGTCATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 33 0.97
31 1 0.03
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (30 bp):
AATATTTTTAGTCAGTTTTTAGCGTATAAT
Found at i:33838 original size:29 final size:30
Alignment explanation
Indices: 33775--33839 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
33765 TTTTGATCAG
*
33775 TTTTTAGCGTATAATAATATTTTTAGTCAT
1 TTTTTAGCGTATAATAATATTTTCAGTCAT
* * *
33805 TTTTTAGCGTCTAATAATGTTTTCGGTCAT
1 TTTTTAGCGTATAATAATATTTTCAGTCAT
33835 TTTTT
1 TTTTT
33840 CGAAAATCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.09, G:0.12, T:0.55
Consensus pattern (30 bp):
TTTTTAGCGTATAATAATATTTTCAGTCAT
Found at i:33955 original size:24 final size:25
Alignment explanation
Indices: 33909--33955 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
33899 ATGTTTCCGG
*
33909 TCATTCTTTACCGGCTTTTTTATAA
1 TCATTCTTTACCGGATTTTTTATAA
33934 TCATT-TTTACC-GATTTTGTTAT
1 TCATTCTTTACCGGATTTT-TTAT
33956 TATTTATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (25 bp):
TCATTCTTTACCGGATTTTTTATAA
Found at i:36715 original size:27 final size:30
Alignment explanation
Indices: 36650--36717 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
36640 TTTTTTATTC
*
36650 AAGTACTTAAAAGTATTTTTCAGTCAAAAT
1 AAGTACCTAAAAGTATTTTTCAGTCAAAAT
* *
36680 AAGTGCCTAAAATTATTTTT-A-T-AAAAT
1 AAGTACCTAAAAGTATTTTTCAGTCAAAAT
*
36707 ATGTACCTAAA
1 AAGTACCTAAA
36718 TTGTTCAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 14 0.42
28 1 0.03
29 1 0.03
30 17 0.52
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (30 bp):
AAGTACCTAAAAGTATTTTTCAGTCAAAAT
Found at i:39791 original size:25 final size:25
Alignment explanation
Indices: 39763--39811 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
39753 TGTATTGCTT
*
39763 CAATGTAT-ATAATCAATTATTATAA
1 CAAT-TATCATAATCAATTACTATAA
*
39788 CAATTATCATAATCAGTTACTATA
1 CAATTATCATAATCAATTACTATA
39812 TTGGATAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (25 bp):
CAATTATCATAATCAATTACTATAA
Found at i:39793 original size:12 final size:13
Alignment explanation
Indices: 39770--39802 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
39760 CTTCAATGTA
39770 TATAATCAATTAT
1 TATAATCAATTAT
39783 TATAA-CAATTAT
1 TATAATCAATTAT
*
39795 CATAATCA
1 TATAATCA
39803 GTTACTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TATAATCAATTAT
Found at i:42132 original size:9 final size:9
Alignment explanation
Indices: 42118--42202 Score: 78
Period size: 9 Copynumber: 10.0 Consensus size: 9
42108 TTAATAACAG
42118 ATAAATATA
1 ATAAATATA
42127 ATAAATATA
1 ATAAATATA
42136 AT-AATAATA
1 ATAAAT-ATA
42145 AT-AATAATA
1 ATAAAT-ATA
42154 ATAAATAT-
1 ATAAATATA
42162 -TAAATATA
1 ATAAATATA
42170 AT-AATA-A
1 ATAAATATA
*
42177 TTAAAATATA
1 AT-AAATATA
42187 AT-AATA-A
1 ATAAATATA
42194 ATAAATATA
1 ATAAATATA
42203 GTAATTAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
7 12 0.18
8 15 0.23
9 33 0.51
10 5 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAAATATA
Found at i:42139 original size:3 final size:3
Alignment explanation
Indices: 42124--42193 Score: 67
Period size: 3 Copynumber: 23.3 Consensus size: 3
42114 ACAGATAAAT
*
42124 ATA ATA A-A TATA ATA ATA ATA ATA ATA ATA ATAA ATA TTA A-A TATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA
42170 ATA ATA ATTA A-A AT- ATA ATA ATA A
1 ATA ATA A-TA ATA ATA ATA ATA ATA A
42194 ATAAATATAG
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
2 6 0.11
3 43 0.75
4 8 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:42141 original size:12 final size:12
Alignment explanation
Indices: 42124--42207 Score: 74
Period size: 12 Copynumber: 7.4 Consensus size: 12
42114 ACAGATAAAT
42124 ATAATAAATATA
1 ATAATAAATATA
42136 ATAAT-AATAATA
1 ATAATAAAT-ATA
42148 ATAAT-AATA-A
1 ATAATAAATATA
*
42158 ATATTAAATATA
1 ATAATAAATATA
42170 ATAAT-AAT-TA
1 ATAATAAATATA
*
42180 A-AATATA-ATA
1 ATAATAAATATA
42190 ATAAATAAATATA
1 AT-AATAAATATA
*
42203 GTAAT
1 ATAAT
42208 TAAAATAGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
9 3 0.05
10 12 0.20
11 11 0.19
12 29 0.49
13 4 0.07
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (12 bp):
ATAATAAATATA
Found at i:42211 original size:17 final size:16
Alignment explanation
Indices: 42121--42207 Score: 88
Period size: 17 Copynumber: 5.2 Consensus size: 16
42111 ATAACAGATA
42121 AATATAATAAATATAAT
1 AATA-AATAAATATAAT
42138 AAT-AAT-AATAATAAT
1 AATAAATAAAT-ATAAT
42153 AATAAATATTAAATATAAT
1 AAT-AA-A-TAAATATAAT
*
42172 AATAATTAAAATATAAT
1 AATAAAT-AAATATAAT
*
42189 AATAAATAAATATAGT
1 AATAAATAAATATAAT
42205 AAT
1 AAT
42208 TAAAATAGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
14 3 0.05
15 11 0.18
16 12 0.20
17 19 0.32
18 3 0.05
19 9 0.15
20 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (16 bp):
AATAAATAAATATAAT
Found at i:42241 original size:9 final size:9
Alignment explanation
Indices: 42118--42241 Score: 57
Period size: 9 Copynumber: 14.3 Consensus size: 9
42108 TTAATAACAG
*
42118 ATAAATATA
1 ATAATTATA
*
42127 ATAAATATA
1 ATAATTATA
*
42136 ATAATAATA
1 ATAATTATA
*
42145 ATAATAATA
1 ATAATTATA
42154 ATAA--ATA
1 ATAATTATA
* *
42161 TTAAATATA
1 ATAATTATA
*
42170 ATAATAATTA
1 ATAATTA-TA
42180 A-AA-TATA
1 ATAATTATA
42187 ATAA-TA-A
1 ATAATTATA
*
42194 ATAAATATA
1 ATAATTATA
* *
42203 GTAATTAAA
1 ATAATTATA
* *
42212 ATAGATATTTT
1 ATA-AT-TATA
42223 ATAA--ATA
1 ATAATTATA
42230 ATAATTATA
1 ATAATTATA
42239 ATA
1 ATA
42242 TATTTTGTAA
Statistics
Matches: 89, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
7 19 0.21
8 7 0.08
9 53 0.60
10 6 0.07
11 4 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (9 bp):
ATAATTATA
Found at i:42310 original size:14 final size:14
Alignment explanation
Indices: 42278--42328 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
42268 AAATTATATG
* * *
42278 TATAATACATTAAA
1 TATAATATAATAAT
42292 TATAATA-AATAAT
1 TATAATATAATAAT
*
42305 TAATAATATTATAAT
1 T-ATAATATAATAAT
42320 TATAATATA
1 TATAATATA
42329 TTTTGAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 5 0.16
14 20 0.65
15 6 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TATAATATAATAAT
Found at i:43758 original size:15 final size:15
Alignment explanation
Indices: 43734--43769 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
43724 TATGATAATT
*
43734 AAGAAATGAAATGGA
1 AAGAATTGAAATGGA
43749 AAGAATTGAAATGGA
1 AAGAATTGAAATGGA
*
43764 TAGAAT
1 AAGAAT
43770 AGTTATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (15 bp):
AAGAATTGAAATGGA
Found at i:43948 original size:13 final size:12
Alignment explanation
Indices: 43929--44014 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
43919 ATATAGGCAT
43929 GATATGGTGATG
1 GATATGGTGATG
43941 GAATATGGTGAT-
1 G-ATATGGTGATG
*
43953 GATATAGGCG-T-
1 GATAT-GGTGATG
43964 GATAATGGTGATG
1 GAT-ATGGTGATG
43977 GACTATGGTGAT-
1 GA-TATGGTGATG
*
43989 GATATAGGCG-T-
1 GATAT-GGTGATG
44000 GATAATGGTGATG
1 GAT-ATGGTGATG
44013 GA
1 GA
44015 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:43984 original size:36 final size:36
Alignment explanation
Indices: 43911--44015 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
43901 ATTTATAAGT
* * *
43911 TGGTGATAATATAGGCATGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
43946 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
43982 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
44016 AGATTGTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 19 0.29
36 47 0.71
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:46574 original size:19 final size:19
Alignment explanation
Indices: 46535--46574 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46525 CGGTCAACGA
* * *
46535 TTGGGTCGGGTCGGTCGGG
1 TTGGGTCGGGTCAGACCGG
46554 TTGGGTCGGGTCAGACCGG
1 TTGGGTCGGGTCAGACCGG
46573 TT
1 TT
46575 CAGACCGGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.17, G:0.50, T:0.28
Consensus pattern (19 bp):
TTGGGTCGGGTCAGACCGG
Found at i:46592 original size:9 final size:9
Alignment explanation
Indices: 46562--46608 Score: 58
Period size: 10 Copynumber: 5.0 Consensus size: 9
46552 GGTTGGGTCG
*
46562 GGTCAGACC
1 GGTCAAACC
*
46571 GGTTCAGACC
1 GG-TCAAACC
46581 GGTCAAACC
1 GGTCAAACC
46590 GGTCAAAACC
1 GGTC-AAACC
46600 GGTCAAACC
1 GGTCAAACC
46609 AGTTTTCCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 17 0.49
10 18 0.51
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.13
Consensus pattern (9 bp):
GGTCAAACC
Found at i:53790 original size:13 final size:13
Alignment explanation
Indices: 53772--53796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53762 GGTCAAAGGA
53772 GGTCAACGGTCAC
1 GGTCAACGGTCAC
53785 GGTCAACGGTCA
1 GGTCAACGGTCA
53797 ACGATCGGGT
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:0.24, C:0.28, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTCAACGGTCAC
Found at i:53811 original size:5 final size:5
Alignment explanation
Indices: 53801--53872 Score: 76
Period size: 5 Copynumber: 14.4 Consensus size: 5
53791 CGGTCAACGA
* * *
53801 TCGGG TCGGG TCAACGG TCGGG TCAGG TCGGA TCGGG TC-GG TCGGG TCGGG
1 TCGGG TCGGG TC--GGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG
*
53852 TC-GG TCGGG TTGGG TCGGG TC
1 TCGGG TCGGG TCGGG TCGGG TC
53873 AAACCGGTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
4 8 0.15
5 43 0.78
7 4 0.07
ACGTcount: A:0.06, C:0.21, G:0.51, T:0.22
Consensus pattern (5 bp):
TCGGG
Found at i:53814 original size:17 final size:17
Alignment explanation
Indices: 53792--53841 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
53782 CACGGTCAAC
53792 GGTCAACGATCGGGTCG
1 GGTCAACGATCGGGTCG
* *
53809 GGTCAACGGTCGGGTCA
1 GGTCAACGATCGGGTCG
*
53826 GGTC--GGATCGGGTCG
1 GGTCAACGATCGGGTCG
53841 G
1 G
53842 TCGGGTCGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 9 0.32
17 19 0.68
ACGTcount: A:0.14, C:0.22, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGATCGGGTCG
Found at i:53845 original size:14 final size:14
Alignment explanation
Indices: 53816--53869 Score: 81
Period size: 14 Copynumber: 3.8 Consensus size: 14
53806 TCGGGTCAAC
53816 GGTCGGGTCAGGTCG
1 GGTCGGGTC-GGTCG
*
53831 GATCGGGTCGGTCG
1 GGTCGGGTCGGTCG
53845 GGTCGGGTCGGTCG
1 GGTCGGGTCGGTCG
*
53859 GGTTGGGTCGG
1 GGTCGGGTCGG
53870 GTCAAACCGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
14 28 0.78
15 8 0.22
ACGTcount: A:0.04, C:0.19, G:0.56, T:0.22
Consensus pattern (14 bp):
GGTCGGGTCGGTCG
Found at i:53870 original size:19 final size:19
Alignment explanation
Indices: 53801--53872 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 19
53791 CGGTCAACGA
53801 TCGGGTCGGGTCAACGGTCGGG
1 TCGGGTCGGGT---CGGTCGGG
* *
53823 TCAGGTCGGATCGGGTC-GG
1 TCGGGTCGGGTC-GGTCGGG
53842 TCGGGTCGGGTCGGTCGGG
1 TCGGGTCGGGTCGGTCGGG
*
53861 TTGGGTCGGGTC
1 TCGGGTCGGGTC
53873 AAACCGGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 4 0.09
19 26 0.60
20 4 0.09
22 9 0.21
ACGTcount: A:0.06, C:0.21, G:0.51, T:0.22
Consensus pattern (19 bp):
TCGGGTCGGGTCGGTCGGG
Found at i:56934 original size:22 final size:21
Alignment explanation
Indices: 56909--56972 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 21
56899 ATAAAATATA
56909 TATTTTAATTACTATATTTATT
1 TATTTT-ATTACTATATTTATT
* *
56931 TATTATATT-CAATA-TTA-T
1 TATTTTATTACTATATTTATT
* *
56949 TA-ATTATTATTATATTTATT
1 TATTTTATTACTATATTTATT
56969 TATT
1 TATT
56973 ATTAATTTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 9
0.66 0.15 0.19
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 7 0.23
21 3 0.10
22 5 0.16
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATTACTATATTTATT
Found at i:56967 original size:19 final size:19
Alignment explanation
Indices: 56916--56976 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
56906 ATATATTTTA
*
56916 ATTACTATATTTATTTATT
1 ATTATTATATTTATTTATT
*
56935 A-TATTCA-ATATTATTAATT
1 ATTATT-ATAT-TTATTTATT
56954 ATTATTATATTTATTTATT
1 ATTATTATATTTATTTATT
56973 ATTA
1 ATTA
56977 ATTTCAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 5 0.14
19 24 0.69
20 6 0.17
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTATTATATTTATTTATT
Found at i:58974 original size:13 final size:13
Alignment explanation
Indices: 58956--58980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58946 GAGTTGGGAT
58956 ATTGCAGAGGAAG
1 ATTGCAGAGGAAG
58969 ATTGCAGAGGAA
1 ATTGCAGAGGAA
58981 AGGACCTTAC
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:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (13 bp):
ATTGCAGAGGAAG
Found at i:63563 original size:15 final size:15
Alignment explanation
Indices: 63540--63574 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
63530 CTGTAGAACC
63540 ACTACGTCCCAAAGG
1 ACTACGTCCCAAAGG
* *
63555 ACTATGTCCCGAAGG
1 ACTACGTCCCAAAGG
63570 ACTAC
1 ACTAC
63575 AATACCCTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCAAAGG
Found at i:64542 original size:26 final size:27
Alignment explanation
Indices: 64513--64564 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
64503 TCAACTTATC
64513 AACTC-TTTTCCATAATTTCATATAAA
1 AACTCATTTTCCATAATTTCATATAAA
** *
64539 AACTCATTTTCTTTAATTTCTTATAA
1 AACTCATTTTCCATAATTTCATATAA
64565 CTTCTTCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (27 bp):
AACTCATTTTCCATAATTTCATATAAA
Found at i:68520 original size:17 final size:18
Alignment explanation
Indices: 68477--68517 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
68467 AAATTATATT
68477 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
68494 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
68512 ATTAAA
1 AGTAAA
68518 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:69778 original size:20 final size:17
Alignment explanation
Indices: 69753--69797 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
69743 AACCCAATAT
69753 AAAATAAGAATTTAGTTTAA
1 AAAATAA-AATTT--TTTAA
*
69773 AAAATAATATTTTTTAA
1 AAAATAAAATTTTTTAA
69790 AAAATAAA
1 AAAATAAA
69798 TCATTATCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 12 0.52
19 4 0.17
20 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (17 bp):
AAAATAAAATTTTTTAA
Found at i:77159 original size:31 final size:31
Alignment explanation
Indices: 77124--77184 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
77114 CAGTTACGCC
77124 AGGGACCATATTGCAAACAAACTAAATGTTA
1 AGGGACCATATTGCAAACAAACTAAATGTTA
* *
77155 AGGGACCATATTGCAAATAGACTAAATGTT
1 AGGGACCATATTGCAAACAAACTAAATGTT
77185 TGGGGATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.25
Consensus pattern (31 bp):
AGGGACCATATTGCAAACAAACTAAATGTTA
Found at i:78819 original size:31 final size:31
Alignment explanation
Indices: 78784--78861 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
78774 CAGTTATATC
* *
78784 AGGGACCATATTGCAAACAGATTAAATGTTG
1 AGGGATCATATTGCAAACAGACTAAATGTTG
78815 AGGGATCATATTGCAAACAGACTAAATGTTG
1 AGGGATCATATTGCAAACAGACTAAATGTTG
* *
78846 GGGGATTATATTGCAA
1 AGGGATCATATTGCAA
78862 GTTTTAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (31 bp):
AGGGATCATATTGCAAACAGACTAAATGTTG
Found at i:89339 original size:21 final size:21
Alignment explanation
Indices: 89315--89358 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
89305 TGCTGAAAGT
* *
89315 ACTGTAGCAGTGCATCGGTAC
1 ACTGTAGCAATGCATCGATAC
89336 ACTGTAGCAATGCATCGATAC
1 ACTGTAGCAATGCATCGATAC
89357 AC
1 AC
89359 ATTTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
ACTGTAGCAATGCATCGATAC
Found at i:90781 original size:7 final size:7
Alignment explanation
Indices: 90769--90820 Score: 59
Period size: 7 Copynumber: 6.7 Consensus size: 7
90759 ATATTTTATT
90769 ATATTTA
1 ATATTTA
90776 ATATTTA
1 ATATTTA
90783 ATATTTA
1 ATATTTA
90790 ATTTATTTA
1 A--TATTTA
90799 AGTATTTAA
1 A-TATTT-A
90808 ATTATTTA
1 A-TATTTA
90816 ATATT
1 ATATT
90821 GTATTTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
7 19 0.47
8 7 0.17
9 14 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (7 bp):
ATATTTA
Found at i:90796 original size:16 final size:16
Alignment explanation
Indices: 90769--90833 Score: 73
Period size: 16 Copynumber: 4.1 Consensus size: 16
90759 ATATTTTATT
90769 ATATTTAA--TATTTA
1 ATATTTAATTTATTTA
90783 ATATTTAATTTATTTA
1 ATATTTAATTTATTTA
*
90799 AGTATTTAAATTATTTA
1 A-TATTTAATTTATTTA
*
90816 ATATTGT-ATTTAATTA
1 ATATT-TAATTTATTTA
90832 AT
1 AT
90834 TTATTTACAG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
14 8 0.18
16 20 0.45
17 16 0.36
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATATTTAATTTATTTA
Found at i:90798 original size:9 final size:8
Alignment explanation
Indices: 90770--90840 Score: 58
Period size: 9 Copynumber: 8.8 Consensus size: 8
90760 TATTTTATTA
90770 TATTTAA-
1 TATTTAAT
90777 TATTTAA-
1 TATTTAAT
90784 TATTTAATT
1 TATTTAA-T
*
90793 TATTTAAG
1 TATTTAAT
90801 TATTTAAAT
1 TATTT-AAT
90810 TATTTAA-
1 TATTTAAT
*
90817 TATTGTATT
1 TATT-TAAT
*
90826 TAATTAATT
1 TATTTAA-T
90835 TATTTA
1 TATTTA
90841 CAGATATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
7 18 0.35
8 11 0.21
9 23 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (8 bp):
TATTTAAT
Found at i:90806 original size:17 final size:16
Alignment explanation
Indices: 90769--90820 Score: 72
Period size: 17 Copynumber: 3.3 Consensus size: 16
90759 ATATTTTATT
90769 ATATTT-AA-TATTTA
1 ATATTTAAATTATTTA
*
90783 ATATTTAATTTATTTA
1 ATATTTAAATTATTTA
90799 AGTATTTAAATTATTTA
1 A-TATTTAAATTATTTA
90816 ATATT
1 ATATT
90821 GTATTTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 6 0.18
15 1 0.03
16 11 0.33
17 15 0.45
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
ATATTTAAATTATTTA
Found at i:90827 original size:33 final size:31
Alignment explanation
Indices: 90770--90832 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 31
90760 TATTTTATTA
*
90770 TATTTAATATTTAATATTTAATTTATTTAAG
1 TATTTAATATTTAATATTTAATTTAATTAAG
90801 TATTTAAATTATTTAATATTGT-ATTTAATTAA
1 TATTT-AA-TATTTAATATT-TAATTTAATTAA
90833 TTTATTTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 5 0.18
32 2 0.07
33 20 0.71
34 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (31 bp):
TATTTAATATTTAATATTTAATTTAATTAAG
Found at i:92904 original size:3 final size:3
Alignment explanation
Indices: 92896--92938 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
92886 GTAGCTGCTC
* * * *
92896 ACG ACG ACG ACG ACG ACG ACT ACG ACA ACG ACA ACG ATG ACG A
1 ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG ACG A
92939 TGGTGATGAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.40, C:0.30, G:0.26, T:0.05
Consensus pattern (3 bp):
ACG
Found at i:101082 original size:16 final size:16
Alignment explanation
Indices: 101048--101096 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 16
101038 GTTTCTGAGT
101048 GAATTGGAATCTGTGAAG
1 GAATTGGAATC--TGAAG
101066 GAATTGGAATCTGAAG
1 GAATTGGAATCTGAAG
*
101082 GAATTGAAATCTGAA
1 GAATTGGAATCTGAA
101097 TCTGAAACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 19 0.63
18 11 0.37
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.27
Consensus pattern (16 bp):
GAATTGGAATCTGAAG
Found at i:101712 original size:32 final size:32
Alignment explanation
Indices: 101675--101738 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
101665 AAACCCGACT
101675 CCGACCCGAA-CCC-ATTTTTTTAATAAAAAAAC
1 CCGACCC-AATCCCAATTTTTTTAA-AAAAAAAC
*
101707 CCGACCCAATCCCGAATTTTTTTTAAAAAAAA
1 CCGACCCAATCCC-AATTTTTTTAAAAAAAAA
101739 TCCTTCACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 2 0.07
32 10 0.36
33 7 0.25
34 9 0.32
ACGTcount: A:0.41, C:0.27, G:0.06, T:0.27
Consensus pattern (32 bp):
CCGACCCAATCCCAATTTTTTTAAAAAAAAAC
Found at i:102623 original size:27 final size:25
Alignment explanation
Indices: 102593--102642 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
102583 TCATTACTTA
* *
102593 TAAATTATATCAAATTAATCATAATTT
1 TAAATTAAAT-AAATAAATC-TAATTT
102620 TAAATTAAATAAATAAATCTAAT
1 TAAATTAAATAAATAAATCTAAT
102643 CCTCCAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 8 0.38
27 9 0.43
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (25 bp):
TAAATTAAATAAATAAATCTAATTT
Found at i:106777 original size:18 final size:18
Alignment explanation
Indices: 106751--106790 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
106741 CTCTATGTAT
*
106751 TTAATATGTATTTAATTA
1 TTAACATGTATTTAATTA
106769 TTAACATGTATTTAATTA
1 TTAACATGTATTTAATTA
106787 TTAA
1 TTAA
106791 TTATTAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (18 bp):
TTAACATGTATTTAATTA
Found at i:107796 original size:16 final size:16
Alignment explanation
Indices: 107772--107806 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
107762 AAAACAACAC
*
107772 AAAATAATAAAAGATG
1 AAAAAAATAAAAGATG
*
107788 AAAAAAATAAAATATG
1 AAAAAAATAAAAGATG
107804 AAA
1 AAA
107807 CCAAACATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (16 bp):
AAAAAAATAAAAGATG
Found at i:108247 original size:21 final size:21
Alignment explanation
Indices: 108132--108247 Score: 69
Period size: 21 Copynumber: 5.6 Consensus size: 21
108122 GCGAAATAAA
* *
108132 AATCGCAACGCGA-TCTCCAG
1 AATCGCAATGCGATTTTCCAG
* *
108152 AATCGCAAAT-C-AGTTCCCAG
1 AATCGC-AATGCGATTTTCCAG
* **
108172 AATCGCAATGCGATTATGAAG
1 AATCGCAATGCGATTTTCCAG
** *
108193 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATTTTCCAG
* *
108213 AATTTGCATTGCGATTTTCCAG
1 AA-TCGCAATGCGATTTTCCAG
*
108235 AATCGCAACGCGA
1 AATCGCAATGCGA
108248 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 4 0.06
20 21 0.30
21 43 0.61
22 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (21 bp):
AATCGCAATGCGATTTTCCAG
Found at i:108260 original size:20 final size:20
Alignment explanation
Indices: 108235--108502 Score: 144
Period size: 20 Copynumber: 13.5 Consensus size: 20
108225 GATTTTCCAG
*
108235 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
108255 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* *
108275 AATCGCAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * *
108295 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* *
108316 AATCGCAACGCGTATCCGTAAA
1 AATCGCAACGCGAATACG--AA
108338 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
108359 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
108379 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
*
108399 AATTGCAA--CG----CGAA
1 AATCGCAACGCGAATACGAA
* *
108413 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * *
108433 AATCGCAATGCGTAT-CCATA
1 AATCGCAACGCGAATACGA-A
* *
108453 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
108473 AATCGCAATGCGAAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
108493 AATCGCAACG
1 AATCGCAACG
108503 AGATTCTGAC
Statistics
Matches: 194, Mismatches: 37, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
14 10 0.05
16 1 0.01
18 1 0.01
19 4 0.02
20 123 0.63
21 38 0.20
22 16 0.08
23 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:108322 original size:21 final size:21
Alignment explanation
Indices: 108296--108408 Score: 131
Period size: 21 Copynumber: 5.4 Consensus size: 21
108286 GATTCTGACT
108296 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGAGTATCCGTAAA
*
108317 ATCGCAACGCGTATCCGTAAAA
1 ATCGCAACGAGTATCCGT-AAA
** *
108339 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGTAAA
*
108360 ATCGCAACGCGTATCCGT-AA
1 ATCGCAACGAGTATCCGTAAA
* *
108380 ATCGCAACGAGAATACGT-AA
1 ATCGCAACGAGTATCCGTAAA
*
108400 ATTGCAACG
1 ATCGCAACG
108409 CGAAAATCGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
20 27 0.35
21 34 0.44
22 17 0.22
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.18
Consensus pattern (21 bp):
ATCGCAACGAGTATCCGTAAA
Found at i:108455 original size:54 final size:54
Alignment explanation
Indices: 108357--108466 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
108347 GACAATACGT
* * * * *
108357 AAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATTGCAACGCG
1 AAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACATAAATCGCAACGCG
* * * * *
108411 AAAATCGCAACGAGAATACGTAAATCGCAATGCGTATCCATAAATCGCAATGCG
1 AAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACATAAATCGCAACGCG
108465 AA
1 AA
108467 TACGTAAATC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (54 bp):
AAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACATAAATCGCAACGCG
Found at i:108458 original size:74 final size:75
Alignment explanation
Indices: 108336--108486 Score: 232
Period size: 74 Copynumber: 2.0 Consensus size: 75
108326 CGTATCCGTA
*
108336 AAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAA
1 AAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCATAAATCGCAACGAGAATACGTAAA
*
108401 TTGCAACGCG
66 TCGCAACGCG
* * * *
108411 AAAATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCATAAATCGCAATGCGAATACGTAAA
1 AAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCATAAATCGCAACGAGAATACGTAAA
*
108475 TCGCAATGCG
66 TCGCAACGCG
108485 AA
1 AA
108487 TCTGTAAATC
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 49 0.71
75 20 0.29
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.17
Consensus pattern (75 bp):
AAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCATAAATCGCAACGAGAATACGTAAA
TCGCAACGCG
Found at i:108468 original size:40 final size:40
Alignment explanation
Indices: 108296--108505 Score: 225
Period size: 40 Copynumber: 5.3 Consensus size: 40
108286 GATTCTGACT
* * *
108296 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCC--ATAA
* *
108339 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCATAA
*
108380 ATCGCAACGAGAATACGTAAATTGCAACGCG-----A-AA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCATAA
*
108414 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCATAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCATAA
* * * * **
108454 ATCGCAATGCGAATACGTAAATCGCAATGCGAATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCATAA
108494 ATCGCAACGAGA
1 ATCGCAACGAGA
108506 TTCTGACTAT
Statistics
Matches: 144, Mismatches: 17, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
34 31 0.22
39 1 0.01
40 59 0.41
41 19 0.13
43 34 0.24
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCATAA
Found at i:109391 original size:24 final size:24
Alignment explanation
Indices: 109364--109417 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
109354 GTATTCGAAA
109364 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
109388 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
109412 TTTGAT
1 TTTGAT
109418 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:112028 original size:20 final size:19
Alignment explanation
Indices: 111998--112050 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
111988 AATCTTAACG
*
111998 TGAAGATCGCAACGCGAAAA
1 TGAAAATCGCAACGCG-AAA
** *
112018 TGACTATCGCAATGCGAAA
1 TGAAAATCGCAACGCGAAA
112037 TGAAAATCGCAACG
1 TGAAAATCGCAACG
112051 AGAGAATCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.15
Consensus pattern (19 bp):
TGAAAATCGCAACGCGAAA
Found at i:112069 original size:33 final size:33
Alignment explanation
Indices: 112023--112116 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
112013 GAAAATGACT
112023 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
112056 ATCGCAATTCGAAATGAAAATCGCAATGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
112089 ATCACAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
112117 CGAATTTAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:112069 original size:53 final size:52
Alignment explanation
Indices: 111969--112083 Score: 133
Period size: 53 Copynumber: 2.2 Consensus size: 52
111959 GCAACGAGAG
* ** * *
111969 AATCGTAATGCGAAATGAAAATCTTAACGTGAAGATCGCAACGCGAAAATGAC
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAGATCGCAACGCG-AAATGAA
* **
112022 TATCGCAATGCGAAATGAAAATCGCAACGAG-AGAATCGCAATTCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAG-ATCGCAACGCGAAATGAA
112074 AATCGCAATG
1 AATCGCAATG
112084 AGGGAATCAC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
52 17 0.33
53 35 0.67
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.18
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAGATCGCAACGCGAAATGAA
Found at i:112101 original size:86 final size:84
Alignment explanation
Indices: 111929--112120 Score: 206
Period size: 86 Copynumber: 2.2 Consensus size: 84
111919 CAATCATCTT
* * ** * **
111929 AATGTCTATCGCAACGCGGAAATTACTATCGCAACGAGAGAATCGTAATGCGAAATGAAAATCTT
1 AATGACTATCGCAACGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGC
*
111994 AACGTGAAGATCGCAACGCGAA
65 AAC-TGAAGATCACAACGCG-A
* *
112016 AATGACTATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATTCGAAATGAAAATCGCA
1 AATGACTATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
* *
112081 A-TGAGGGAATCACAATGCGA
66 ACTGA-AG-ATCACAACGCGA
**
112101 AATGAAAATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
112121 TTTAGTTTCG
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
84 3 0.03
85 19 0.22
86 51 0.58
87 15 0.17
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (84 bp):
AATGACTATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
ACTGAAGATCACAACGCGA
Found at i:112151 original size:19 final size:19
Alignment explanation
Indices: 112116--112192 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 19
112106 AAATCGCAAC
*
112116 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
112135 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
112154 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
* *
112168 GCGATTTTAATTTCGCATT
1 GCGATTTTAGTTTCGCGTT
112187 GCGATT
1 GCGATT
112193 CTCTCGTTGC
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
14 12 0.24
16 1 0.02
17 1 0.02
18 1 0.02
19 35 0.70
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:112173 original size:33 final size:32
Alignment explanation
Indices: 112131--112224 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 32
112121 TTTAGTTTCG
* * *
112131 CGTTGCGATTTTAGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTA-TTTCGCATTGCGATTCTCT
112164 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTT-ATTTCGCATTGCGATTCTCT
112197 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTT-ATTTCGCATTGCGAT
112225 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 55 0.98
34 1 0.02
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (32 bp):
CGTTGCGATTTTATTTCGCATTGCGATTCTCT
Found at i:112223 original size:19 final size:17
Alignment explanation
Indices: 112116--112224 Score: 68
Period size: 19 Copynumber: 6.3 Consensus size: 17
112106 AAATCGCAAC
*
112116 GCGAATTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGC-TT
112135 GCGATTTTAGTTTCGCGTT
1 GCGATTTTA-TTTCGC-TT
*
112154 GCGA-TTT-TGTCG-TT
1 GCGATTTTATTTCGCTT
112168 GCGATTTTAATTTCGCATT
1 GCGATTTT-ATTTCGC-TT
* *
112187 GCGA--TTCTCTCG-TT
1 GCGATTTTATTTCGCTT
112201 GCGATTTTCATTTCGCATT
1 GCGATTTT-ATTTCGC-TT
112220 GCGAT
1 GCGAT
112225 AGTCATTTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
14 12 0.16
15 3 0.04
16 10 0.14
17 10 0.14
18 3 0.04
19 35 0.48
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (17 bp):
GCGATTTTATTTCGCTT
Found at i:113781 original size:42 final size:41
Alignment explanation
Indices: 113696--113818 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
113686 GTGAATCGGG
* * * *
113696 CTCTTGAATGGTGGGA-GGGACCTCTTCAATGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
113738 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
113780 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
113819 CGAGTCGGCC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:115826 original size:40 final size:39
Alignment explanation
Indices: 115782--115857 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
115772 TCTTTTGGTT
115782 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACACG
1 GAAATGAAAATCGCAACGAGA-AATGAAAATCGCAACACG
** *
115822 GAAATGACTATCGCAACGCGAAATGAAAATCGCAAC
1 GAAATGAAAATCGCAACGAGAAATGAAAATCGCAAC
115858 GAGAGAATCG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.45
40 18 0.55
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.12
Consensus pattern (39 bp):
GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACACG
Found at i:115846 original size:19 final size:19
Alignment explanation
Indices: 115782--115891 Score: 104
Period size: 20 Copynumber: 5.9 Consensus size: 19
115772 TCTTTTGGTT
*
115782 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
115801 GAGAATGAAAATCGCAACAC
1 GA-AATGAAAATCGCAACGC
**
115821 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
115841 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
115858 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
115874 AAAATTAAAATCGCAACG
1 GAAATGAAAATCGCAACG
115892 AGAGAATCGC
Statistics
Matches: 73, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 1 0.01
17 2 0.03
18 1 0.01
19 27 0.37
20 29 0.40
21 2 0.03
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:115873 original size:33 final size:33
Alignment explanation
Indices: 115790--115908 Score: 130
Period size: 33 Copynumber: 3.4 Consensus size: 33
115780 TTGAAATGAA
* *
115790 AATCGCAACGAGAGAATGAAAATCGCAACACGGAAATG
1 AATCGCAACGCGA-AATGAAAATCGC-A-AC-GAGA-G
115828 ACTATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 A--ATCGCAACGCGAAATGAAAATCGCAACGAGAG
* *
115863 AATCGCAACGCAAAATTAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
115896 AATCGCAATGCGA
1 AATCGCAACGCGA
115909 TTTTGGTTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
33 41 0.56
35 2 0.03
36 3 0.04
37 2 0.03
38 2 0.03
39 12 0.16
40 11 0.15
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:115937 original size:19 final size:19
Alignment explanation
Indices: 115904--116010 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 19
115894 AGAATCGCAA
**
115904 TGCGATTTTGGTTTCTCGT
1 TGCGATTTTCATTTCTCGT
115923 TGCGATTTTCATTTCGT-GT
1 TGCGATTTTCATTTC-TCGT
115942 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCTCGT
115956 TGCGATTTTCATTTCTCTCGT
1 TGCGATTTTCA-TT-TCTCGT
**
115977 TGCGATAGTCATTT-TCGTGT
1 TGCGATTTTCATTTCTC--GT
115997 TGCGATTTTCATTT
1 TGCGATTTTCATTT
116011 TCATGTTGCA
Statistics
Matches: 71, Mismatches: 6, Indels: 21
0.72 0.06 0.21
Matches are distributed among these distances:
13 1 0.01
14 9 0.13
16 3 0.04
17 3 0.04
18 2 0.03
19 21 0.30
20 17 0.24
21 15 0.21
ACGTcount: A:0.10, C:0.19, G:0.21, T:0.50
Consensus pattern (19 bp):
TGCGATTTTCATTTCTCGT
Found at i:115973 original size:21 final size:21
Alignment explanation
Indices: 115947--116010 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
115937 CGTGTTGCGA
115947 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
115968 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
115989 TT-TCGT-GTTGCGATTTTCAT
1 TTCTC-TCGTTGCGATTTTCAT
116009 TT
1 TT
116011 TCATGTTGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.11, C:0.20, G:0.17, T:0.52
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:116024 original size:20 final size:19
Alignment explanation
Indices: 115915--116025 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 19
115905 GCGATTTTGG
115915 TTTCTCGTTGCGATTTTCA-
1 TTTCT-GTTGCGATTTTCAT
115934 TTTCGTGTTGCGA--TTC--
1 TTTC-TGTTGCGATTTTCAT
*
115950 TCTC-GTTGCGATTTTCAT
1 TTTCTGTTGCGATTTTCAT
**
115968 TTCTCTCGTTGCGATAGTCAT
1 TT-TCT-GTTGCGATTTTCAT
115989 TTTCGTGTTGCGATTTTCAT
1 TTTC-TGTTGCGATTTTCAT
*
116009 TTTCATGTTGCAATTTT
1 TTTC-TGTTGCGATTTT
116026 AAGTTTAGAA
Statistics
Matches: 75, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
14 7 0.09
16 6 0.08
17 3 0.04
18 1 0.01
19 13 0.17
20 30 0.40
21 15 0.20
ACGTcount: A:0.12, C:0.19, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTCTGTTGCGATTTTCAT
Found at i:116623 original size:21 final size:20
Alignment explanation
Indices: 116589--116862 Score: 350
Period size: 20 Copynumber: 13.4 Consensus size: 20
116579 TTAAAAATAG
*
116589 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACT
* * **
116609 CGTTACGATTTTACGTATTGT
1 CGTTGCGA-TTTACGGATACT
*
116630 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACT
* * *
116650 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACT
*
116670 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACT
* *
116690 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACT
* *
116710 CGTTACGATTTACGGATACA
1 CGTTGCGATTTACGGATACT
116730 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACT
*
116751 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACT
*
116771 CGTTGCGATTTTACGGATACG
1 CGTTGCGA-TTTACGGATACT
116792 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACT
*
116813 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACT
116833 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACT
116854 CGTTGCGAT
1 CGTTGCGAT
116863 AGTCAGAATC
Statistics
Matches: 219, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
20 126 0.58
21 93 0.42
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACT
Found at i:116646 original size:41 final size:41
Alignment explanation
Indices: 116589--116862 Score: 365
Period size: 41 Copynumber: 6.7 Consensus size: 41
116579 TTAAAAATAG
* * *
116589 CGTTGCGATTTACGGATACACGTTACGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACACGTTGCGATTTTACGGATTCT
* * *
116630 CGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACACGTTGCGATTTTACGGATTCT
*
116670 CGTTGCGATTTACGGATACACGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACACGTTGCGATTTTACGGATTCT
* *
116710 CGTTACGATTTACGGATACACGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACACGTTGCGATTTTACGGATTCT
* * *
116751 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACG
1 CGTTGCGATTTACGGATACACGTTGCGATTTTACGGATTCT
* * *
116792 CGTTGCGATTTTACGGATACTCGTTGCGA-TTTACGGATACG
1 CGTTGCGA-TTTACGGATACACGTTGCGATTTTACGGATTCT
*
116833 CGTTGCGATTTTACGGATACTCGTTGCGAT
1 CGTTGCGA-TTTACGGATACACGTTGCGAT
116863 AGTCAGAATC
Statistics
Matches: 217, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
40 76 0.35
41 122 0.56
42 19 0.09
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACACGTTGCGATTTTACGGATTCT
Found at i:116894 original size:20 final size:20
Alignment explanation
Indices: 116871--117007 Score: 91
Period size: 21 Copynumber: 6.7 Consensus size: 20
116861 ATAGTCAGAA
* *
116871 TCGCATTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
116891 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
** * *
116911 TCGCGTTGCGATTATGGAAAA
1 TCGCGTTGCGATT-TTCATAT
**
116932 TCGCAATGCGAATTTGT-ACTA-
1 TCGCGTTGCG-ATTT-TCA-TAT
* *
116953 TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGATT-TTCATAT
*
116974 TCGCGTTGCGATTCTTCATAA
1 TCGCGTTGCGATT-TTCATAT
116995 TCGCGTTGCGATT
1 TCGCGTTGCGATT
117008 CTAGGAACTG
Statistics
Matches: 97, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.01
20 35 0.36
21 57 0.59
22 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:116976 original size:21 final size:21
Alignment explanation
Indices: 116952--117009 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
116942 AATTTGTACT
*
116952 ATCGCATTGCGATTCTTCATA
1 ATCGCGTTGCGATTCTTCATA
116973 ATCGCGTTGCGATTCTTCATA
1 ATCGCGTTGCGATTCTTCATA
116994 ATCGCGTTGCGATTCT
1 ATCGCGTTGCGATTCT
117010 AGGAACTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (21 bp):
ATCGCGTTGCGATTCTTCATA
Found at i:117198 original size:18 final size:17
Alignment explanation
Indices: 117160--117201 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
117150 CTATATATAT
*
117160 ATATATATAATGATAAG
1 ATATATATAATGATAAA
117177 ATATA-ATAATGGTATAAA
1 ATATATATAAT-G-ATAAA
117195 ATATATA
1 ATATATA
117202 CATACATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 6 0.29
18 9 0.43
19 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (17 bp):
ATATATATAATGATAAA
Found at i:117242 original size:15 final size:16
Alignment explanation
Indices: 117214--117254 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
117204 TACATAGATT
*
117214 AAAATACTATAAATAA
1 AAAATAATATAAATAA
117230 AAAATAATA-AAATAA
1 AAAATAATATAAATAA
*
117245 TAAAT-ATATA
1 AAAATAATATA
117255 TGATAACAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 11 0.50
16 8 0.36
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATAATATAAATAA
Found at i:119367 original size:110 final size:110
Alignment explanation
Indices: 119156--119413 Score: 341
Period size: 110 Copynumber: 2.4 Consensus size: 110
119146 GCGTTGTTCC
* * * *
119156 GAGTCTAATATCCTCCGCCGTGAAGTTGAAATT-AGCTCTG---G-AACTGAGAAA-TTGTTTGT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGA-CTCTGAATGAAATTGA-AAAGTTGTTTGT
* *
119215 TGACAGTCAGCTGCCCATTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
64 TGACAATCAGCTGCCCATTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
*
119262 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAAAGTTGTTTGTTG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAAAGTTGTTTGTTG
* *
119327 ACAATTAGTTGCCCATTCGTCGTGAAGTTGAGCTAT-TGTTGTCTT
66 ACAATCAGCTGCCCATTCGTCGTGAAGTTGAGCT-TGTGTTGTCTT
* *
119372 GGGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAA
119414 ATTGGGAAGC
Statistics
Matches: 133, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
106 34 0.26
107 1 0.01
109 4 0.03
110 93 0.70
111 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (110 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAAAGTTGTTTGTTG
ACAATCAGCTGCCCATTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
Found at i:119510 original size:32 final size:32
Alignment explanation
Indices: 119474--119580 Score: 81
Period size: 32 Copynumber: 3.2 Consensus size: 32
119464 TCCATCGTGG
119474 AGTTGAAATCGCGGATGGCCCCTTCGTCATGA
1 AGTTGAAATCGCGGATGGCCCCTTCGTCATGA
** * * * * * *
119506 AGTTG-AGCCCCGAATGGCACGATATCCTCCATCGTGG
1 AGTTGAAATCGCGGATGGC-C-----CCTTCGTCATGA
119543 AGTTGAAATCGCGGATGGCCCCTTCGTCATGA
1 AGTTGAAATCGCGGATGGCCCCTTCGTCATGA
119575 AGTTGA
1 AGTTGA
119581 GCCTTGACTT
Statistics
Matches: 52, Mismatches: 16, Indels: 14
0.63 0.20 0.17
Matches are distributed among these distances:
31 9 0.17
32 20 0.38
37 14 0.27
38 9 0.17
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.24
Consensus pattern (32 bp):
AGTTGAAATCGCGGATGGCCCCTTCGTCATGA
Found at i:119533 original size:69 final size:69
Alignment explanation
Indices: 119422--119583 Score: 315
Period size: 69 Copynumber: 2.3 Consensus size: 69
119412 AAATTGGGAA
*
119422 GCCCCTTCGTCATGAAGTTGAGCTCCGAATGGCACGATATCCTCCATCGTGGAGTTGAAATCGCG
1 GCCCCTTCGTCATGAAGTTGAGCCCCGAATGGCACGATATCCTCCATCGTGGAGTTGAAATCGCG
119487 GATG
66 GATG
119491 GCCCCTTCGTCATGAAGTTGAGCCCCGAATGGCACGATATCCTCCATCGTGGAGTTGAAATCGCG
1 GCCCCTTCGTCATGAAGTTGAGCCCCGAATGGCACGATATCCTCCATCGTGGAGTTGAAATCGCG
119556 GATG
66 GATG
119560 GCCCCTTCGTCATGAAGTTGAGCC
1 GCCCCTTCGTCATGAAGTTGAGCC
119584 TTGACTTGAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 92 1.00
ACGTcount: A:0.21, C:0.28, G:0.27, T:0.24
Consensus pattern (69 bp):
GCCCCTTCGTCATGAAGTTGAGCCCCGAATGGCACGATATCCTCCATCGTGGAGTTGAAATCGCG
GATG
Found at i:120564 original size:7 final size:7
Alignment explanation
Indices: 120552--120616 Score: 60
Period size: 7 Copynumber: 8.7 Consensus size: 7
120542 ACCCACCTTA
120552 TTTTTCT
1 TTTTTCT
120559 TTTTTCT
1 TTTTTCT
*
120566 TTTTTGT
1 TTTTTCT
*
120573 TTTATTATT
1 TTT-TT-CT
120582 TTTTTCT
1 TTTTTCT
120589 CTTTTTCT
1 -TTTTTCT
120597 CTTTTT-T
1 -TTTTTCT
120604 CTTTTTCT
1 -TTTTTCT
120612 TTTTT
1 TTTTT
120617 TCAATTTAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
7 29 0.57
8 18 0.35
9 4 0.08
ACGTcount: A:0.03, C:0.12, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:120569 original size:8 final size:8
Alignment explanation
Indices: 120552--120618 Score: 61
Period size: 8 Copynumber: 8.8 Consensus size: 8
120542 ACCCACCTTA
120552 TTTTTC-T
1 TTTTTCTT
120559 TTTTTC-T
1 TTTTTCTT
*
120566 TTTTTGTT
1 TTTTTCTT
* *
120574 TTATTATT
1 TTTTTCTT
*
120582 TTTTTCTC
1 TTTTTCTT
120590 TTTTTCTCT
1 TTTTTCT-T
120599 TTTTTC--
1 TTTTTCTT
120605 TTTTTCTT
1 TTTTTCTT
120613 TTTTTC
1 TTTTTC
120619 AATTTAGGGC
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.12
7 12 0.24
8 25 0.51
9 6 0.12
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:131175 original size:2 final size:2
Alignment explanation
Indices: 131168--131203 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
131158 TGCGTGTACC
131168 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
131204 ATGATAAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:131233 original size:18 final size:17
Alignment explanation
Indices: 131177--131236 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
131167 CTATATATAT
*
131177 ATATATATATAT-ATATAT
1 ATATATATA-ATGATA-AA
*
131195 ATATATATAATGATAAG
1 ATATATATAATGATAAA
131212 ATATA-ATAATGGTATAAA
1 ATATATATAAT-G-ATAAA
131230 ATATATA
1 ATATATA
131237 CATACATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.14
17 9 0.25
18 21 0.58
19 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
ATATATATAATGATAAA
Found at i:131274 original size:22 final size:22
Alignment explanation
Indices: 131227--131274 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
131217 ATAATGGTAT
* * *
131227 AAAATATATACATACATATATT
1 AAAATATATAAATACATAAATA
131249 AAAATACTATAAATA-ATAAATA
1 AAAATA-TATAAATACATAAATA
131271 AAAA
1 AAAA
131275 AAGAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATATATAAATACATAAATA
Found at i:132538 original size:24 final size:26
Alignment explanation
Indices: 132482--132538 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
132472 ATATACATTG
**
132482 TATATAAATAATATCAACATCATGTA
1 TATATAAATAATATCAACATCATACA
*
132508 TACTATAAATAATATC-ACATTA-ACA
1 TA-TATAAATAATATCAACATCATACA
132533 TATATA
1 TATATA
132539 TGTCATGCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 4 0.15
25 3 0.11
26 7 0.26
27 13 0.48
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (26 bp):
TATATAAATAATATCAACATCATACA
Found at i:138020 original size:2 final size:2
Alignment explanation
Indices: 138013--138041 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
138003 ATTGTTTGAA
138013 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
138042 CTCATTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:138305 original size:2 final size:2
Alignment explanation
Indices: 138292--138326 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
138282 CATATTTAGT
*
138292 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
138327 TATTTCTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:138305 original size:10 final size:10
Alignment explanation
Indices: 138283--138327 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
138273 ATGTAGTAAC
138283 ATATTTAGT-T
1 ATATTTA-TAT
138293 ATATTTATAT
1 ATATTTATAT
*
138303 ATATATATAT
1 ATATTTATAT
*
138313 ATATATATAT
1 ATATTTATAT
138323 ATATT
1 ATATT
138328 ATTTCTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 1 0.03
10 31 0.97
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATATTTATAT
Found at i:150555 original size:27 final size:24
Alignment explanation
Indices: 150525--150575 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
150515 TTTTATTTTG
150525 TTTACAAATTATTATATATATATTATT
1 TTTACAAA-TATTA-ATATA-ATTATT
* *
150552 TTTATATATATTAATATAATTATT
1 TTTACAAATATTAATATAATTATT
150576 ACTATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 5 0.23
26 5 0.23
27 6 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTACAAATATTAATATAATTATT
Found at i:150568 original size:21 final size:22
Alignment explanation
Indices: 150532--150585 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 22
150522 TTGTTTACAA
* *
150532 ATTATTATATA-T-ATATTATT
1 ATTACTATATATTAATATAATT
*
150552 TTTA-TATATATTAATATAATT
1 ATTACTATATATTAATATAATT
150573 ATTACTAT-TATTA
1 ATTACTATATATTA
150586 TTATCTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
20 4 0.14
21 15 0.54
22 3 0.11
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTACTATATATTAATATAATT
Found at i:159957 original size:20 final size:19
Alignment explanation
Indices: 159926--159981 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 19
159916 CTGATCCAAA
159926 AAAAATAACCGAAAACCGAT
1 AAAAA-AACCGAAAACCGAT
* *
159946 CCAAAAAACCGATAACC-A-
1 -AAAAAAACCGAAAACCGAT
159964 AAAAAAACCG-AAACCGAT
1 AAAAAAACCGAAAACCGAT
159982 TTAGTGTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.14
17 10 0.34
19 1 0.03
20 10 0.34
21 4 0.14
ACGTcount: A:0.59, C:0.25, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAAAAACCGAAAACCGAT
Found at i:159961 original size:27 final size:25
Alignment explanation
Indices: 159918--159967 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
159908 AATCCAATCT
*
159918 GATCCAAAAAAAATAACCGAAAACC
1 GATCCAAAAAAAATAACCAAAAACC
*
159943 GATCCAAAAAACCGATAACCAAAAA
1 GATCCAAAAAA--AATAACCAAAAA
159968 AAACCGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
27 10 0.48
ACGTcount: A:0.60, C:0.24, G:0.08, T:0.08
Consensus pattern (25 bp):
GATCCAAAAAAAATAACCAAAAACC
Found at i:164135 original size:105 final size:105
Alignment explanation
Indices: 163870--165241 Score: 1858
Period size: 105 Copynumber: 13.0 Consensus size: 105
163860 ATATCATGCC
* * * * * * *
163870 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAACAATTTTCAA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* *
163935 ATTTCGGAGCCAATTTCAACTTCACAGCGAATGATATT-G
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
163974 AC-CCGAGATAACACAATTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAACAACTTCCC
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCC
* *
164038 AATTTCAGAGCCAATTTTAACTTCACAGCGAAAGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
164079 AGTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAACAACCTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
*
164144 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
164184 ACTCTAGACAACTCAAGTTCAACTTCACGACGAAGAGACCGCTGGTTTTCAACAACAACCTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* * *
164249 ATTTCAGAGCCAATTTTAACTTCACGGAGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
164289 ACTCCAGACAATGCAATTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACCTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* *
164354 ATTTTAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
164394 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCC
* *
164459 AATTTCAGAGCAAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
164500 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACCTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
164565 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
164605 ACTCCAGACAACGCAAGTTCAACTACACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCC
*
164670 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
164711 ACTCCGGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCC
*
164776 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
164817 ACTCAAGACAA--CAAGTTCAACTTCACGATGAAGGGACCGTTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCC
*
164880 AATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * **
164921 ACTCCAGACAACGCAAGTTCAA-TTCACGATGAAAGGACTGCTGGTTTTCAACAAACAACTTCTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCC
* *
164985 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
165026 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCC
165091 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * * * * *
165132 ACTCGAGACAGCACAAGCTCAATTTCATGGCGAAGGGGCGGCTGGCTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCC
** * **
165197 AGGTCCAG-GACCAATTTCAACTTCAC-GACGGGGGATATTGG
65 AATTTCAGAG-CCAATTTCAACTTCACAG-CGAAGGATATTGG
165238 ACTC
1 ACTC
165242 GGAACAATAT
Statistics
Matches: 1136, Mismatches: 118, Indels: 26
0.89 0.09 0.02
Matches are distributed among these distances:
103 1 0.00
104 186 0.16
105 527 0.46
106 422 0.37
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:164536 original size:421 final size:419
Alignment explanation
Indices: 163870--165241 Score: 1921
Period size: 421 Copynumber: 3.3 Consensus size: 419
163860 ATATCATGCC
* * * * * *
163870 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAACAATTTTCAA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAATTTCCCA
* * * *
163935 ATTTCGGAGCCAATTTCAACTTCACAGCGAATGATATT-GAC-CCGAGATAACACAATTTCAACT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAAC-CAAGTTCAACT
* * *
163998 TCACAACGAAGGGACGGTTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCAATTTTAACTTC
129 TCACAACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTC
* * * *
164062 ACAGCGAAAGATATTGGAGTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTG
194 ACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
*
164127 TCAACAACAACCTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGA
259 TCAACAACAACCTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGA
* * * *
164192 CAACTCAAGTTCAACTTCACGACGAAGAGACCGCTGGTTTTCAACAACAACCTCCCAATTTCAGA
324 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGA
*
164257 GCCAATTTTAACTTCACGGAGAAGGATATTGG
389 GCCAATTTCAACTTCAC-GAGAAGGATATTGG
* * * **
164289 ACTCCAGACAATGCAATTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACCTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAATTTCCCA
* *
164354 ATTTTAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC-CAAGTTCAACTT
* *
164419 CACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCAAATTTCAACTTCA
130 CACAACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCA
* *
164484 CAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
195 CAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * *
164549 CAACAACAACCTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGAC
260 CAACAACAACCTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGAC
* *
164614 AACGCAAGTTCAACTACACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGA
325 AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGA
*
164679 GCCAATTTCAACTTCACAACGAAGGATATTGG
389 GCCAATTTCAACTTCACGA-GAAGGATATTGG
*
164711 ACTCCGGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAATTTCCC
* *
164776 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCAAGACAA-CAAGTTCAACTT
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACCAAGTTCAACTT
* * *
164840 CACGATGAAGGGACCGTTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCA
130 CACAACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCA
* * * * *
164905 CAGCAAAGGATATTGGACTCCAGACAACGCAAGTTCAA-TTCACGATGAAAGGACTGCTGGTTTT
195 CAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * *
164969 CAACAAACAACTTCTTAATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGA
260 CAAC-AACAACCTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGA
* * *
165034 CAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCCAATTTCAG
324 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAATTTCAG
*
165099 AGCCAATTTCAACTTCACAGCGAAGGATATTGG
388 AGCCAATTTCAACTTCAC-GAGAAGGATATTGG
* * * * * * * * * *
165132 ACTCGAGACAGCACAAGCTCAATTTCATGGCGAAGGGGCGGCTGGCTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAATTTCCC
** * **
165197 AGGTCCAG-GACCAATTTCAACTTCAC-GACGGGGGATATTGGACTC
65 AATTTCAGAG-CCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
165242 GGAACAATAT
Statistics
Matches: 850, Mismatches: 92, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
419 89 0.10
420 74 0.09
421 535 0.63
422 95 0.11
423 57 0.07
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (419 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAATTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACCAAGTTCAACTTC
ACAACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCAC
AGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
AACAACAACCTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACA
ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGC
CAATTTCAACTTCACGAGAAGGATATTGG
Found at i:164560 original size:211 final size:211
Alignment explanation
Indices: 163870--165241 Score: 1855
Period size: 211 Copynumber: 6.5 Consensus size: 211
163860 ATATCATGCC
* * * * ** * *
163870 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAACAATTTTCAA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACCTCCCA
* * * * *
163935 ATTTCGGAGCCAATTTCAACTTCACAGCGAATGATATT-GAC-CCGAGATAACACAATTTCAACT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACT
* * * *
163998 TCACAACGAAGGGACGGTTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCAATTTTAACTTC
130 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* *
164062 ACAGCGAAAGATATTGG
195 ACAACGAAGGATATTGG
* * * *
164079 AGTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAACAACCTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACCTCCCA
* * *
164144 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACTCAAGTTCAACTT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* * * *
164209 CACGACGAAGAGACCGCTGGTTTTCAAC-AACAACCTCCCAATTTCAGAGCCAATTTTAACTTCA
131 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
*
164273 CGGA-GAAGGATATTGG
196 C-AACGAAGGATATTGG
* *
164289 ACTCCAGACAATGCAATTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACCTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACCTCCCA
* *
164354 ATTTTAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* * *
164419 CACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCAAATTTCAACTTCA
131 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
164484 CAACGAAGGATATTGG
196 CAACGAAGGATATTGG
*
164500 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACCTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACCTCCCA
*
164565 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
*
164630 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCA
131 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
164695 CAACGAAGGATATTGG
196 CAACGAAGGATATTGG
* * **
164711 ACTCCGGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACCTCCC
* *
164776 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCAAGACAA--CAAGTTCAACT
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * * *
164839 TCACGATGAAGGGACCGTTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTC
130 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* *
164904 ACAGCAAAGGATATTGG
195 ACAACGAAGGATATTGG
* * * * * **
164921 ACTCCAGACAACGCAAGTTCAA-TTCACGATGAAAGGACTGCTGGTTTTCAACAAACAACTTCTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACCTCCC
* * *
164985 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * *
165050 TCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTC
130 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
*
165115 ACAGCGAAGGATATTGG
195 ACAACGAAGGATATTGG
* * * * * * * * * * **
165132 ACTCGAGACAGCACAAGCTCAATTTCATGGCGAAGGGGCGGCTGGCTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACCTCCC
** * **
165197 AGGTCCAG-GACCAATTTCAACTTCAC-GACGGGGGATATTGGACTC
65 AATTTCAGAG-CCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
165242 GGAACAATAT
Statistics
Matches: 1048, Mismatches: 103, Indels: 21
0.89 0.09 0.02
Matches are distributed among these distances:
209 173 0.17
210 343 0.33
211 407 0.39
212 125 0.12
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (211 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACCTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
CAACGAAGGATATTGG
Found at i:166794 original size:15 final size:14
Alignment explanation
Indices: 166765--166824 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 14
166755 TTTTGTTTAC
166765 AAATTATTATATAT
1 AAATTATTATATAT
*
166779 AAATTATT-TTTAT
1 AAATTATTATATAT
*
166792 ATA-TATTA-ATAT
1 AAATTATTATATAT
166804 -AATTATTAT-TAT
1 AAATTATTATATAT
*
166816 -TATTATTAT
1 AAATTATTAT
166825 CTTCTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 1 0.03
12 23 0.61
13 6 0.16
14 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AAATTATTATATAT
Found at i:169756 original size:256 final size:259
Alignment explanation
Indices: 169298--169798 Score: 972
Period size: 256 Copynumber: 1.9 Consensus size: 259
169288 TCATGATCGA
169298 CCAAAGGAATTTAAGAGGTTGAGTATTTTAGATTTTAGGGTTTATAGATTGAAATTTAGGGATTT
1 CCAAAGGAATTTAAGAGGTTGAGTATTTTAGATTTTAGGGTTTATAGATTGAAATTTAGGGATTT
169363 GAGAATTTTGGGTTTTGAGATGTTAGTAAAGATCGTGACTAGTCATTGGGTGGTCGACGATGTAT
66 GAGAATTTTGGGTTTTGAGATGTTAGTAAAGATCGTGACTAGTCATTGGGTGGTCGACGATGTAT
169428 AGGTGACTGGTCGCCAGCGAATGGGTAGCCGGAGATGACTAGTGGTTGAAGTAAATGATAACGTT
131 AGGTGACTGGTCGCCAGCGAATGGGTAGCCGGAGATGACTAGTGGTTGAAGTAAATGATAACGTT
*
169493 TATAACGTTAGACACCCGTACTTAGATGAGTCAAAAAATAATTTAGACACCCGTATTTTAATAT
196 TATAACGTTAGACACCCGTACTTAGATGAGTCAAAAAATAATTTAAACACCCGTATTTTAATAT
169557 CCAAAGGAATTTAAGAGGTTGAGTATTTTAGA-TTTAGGG-TT-TAGATTGAAATTTAGGGATTT
1 CCAAAGGAATTTAAGAGGTTGAGTATTTTAGATTTTAGGGTTTATAGATTGAAATTTAGGGATTT
169619 GAGAATTTTGGGTTTTGAGATGTTAGTAAAGATCGTGACTAGTCATTGGGTGGTCGACGATGTAT
66 GAGAATTTTGGGTTTTGAGATGTTAGTAAAGATCGTGACTAGTCATTGGGTGGTCGACGATGTAT
169684 AGGTGACTGGTCGCCAGCGAATGGGTAGCCGGAGATGACTAGTGGTTGAAGTAAATGATAACGTT
131 AGGTGACTGGTCGCCAGCGAATGGGTAGCCGGAGATGACTAGTGGTTGAAGTAAATGATAACGTT
169749 TATAACGTTAGACACCCGTACTTAGATGAGTCAAAAAATAATTTAAACAC
196 TATAACGTTAGACACCCGTACTTAGATGAGTCAAAAAATAATTTAAACAC
169799 TTACTCATGA
Statistics
Matches: 241, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
256 200 0.83
257 2 0.01
258 7 0.03
259 32 0.13
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (259 bp):
CCAAAGGAATTTAAGAGGTTGAGTATTTTAGATTTTAGGGTTTATAGATTGAAATTTAGGGATTT
GAGAATTTTGGGTTTTGAGATGTTAGTAAAGATCGTGACTAGTCATTGGGTGGTCGACGATGTAT
AGGTGACTGGTCGCCAGCGAATGGGTAGCCGGAGATGACTAGTGGTTGAAGTAAATGATAACGTT
TATAACGTTAGACACCCGTACTTAGATGAGTCAAAAAATAATTTAAACACCCGTATTTTAATAT
Found at i:181629 original size:22 final size:22
Alignment explanation
Indices: 181562--181631 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
181552 TTTATATGCA
*
181562 TATTCATTATA-TTTTTTATCT-
1 TATT-ATTATATTTTTTTCTCTC
*
181583 TATT-TTAT-TTATTTTC-CTAC
1 TATTATTATATTTTTTTCTCT-C
*
181603 CATTATTATATTTTTTTCTCTC
1 TATTATTATATTTTTTTCTCTC
181625 TATTATT
1 TATTATT
181632 TATCTATATG
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
18 2 0.05
19 9 0.24
20 3 0.08
21 8 0.21
22 14 0.37
23 2 0.05
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATTATATTTTTTTCTCTC
Found at i:181634 original size:23 final size:24
Alignment explanation
Indices: 181582--181634 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
181572 ATTTTTTATC
181582 TTATTT-TATTTATTTTCCTACCA
1 TTATTTATATTTATTTTCCTACCA
*
181605 TTA-TTATATTT-TTTTCTCT-CTA
1 TTATTTATATTTATTTTC-CTACCA
181627 TTATTTAT
1 TTATTTAT
181635 CTATATGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (24 bp):
TTATTTATATTTATTTTCCTACCA
Found at i:181795 original size:3 final size:3
Alignment explanation
Indices: 181787--181823 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
181777 CTTACTGTTT
*
181787 TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
181824 TATTTCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:181835 original size:10 final size:9
Alignment explanation
Indices: 181805--181942 Score: 50
Period size: 9 Copynumber: 14.7 Consensus size: 9
181795 ATTAGTATTA
181805 TTATTATTA-
1 TTATT-TTAT
181814 TTATTTTAT
1 TTATTTTAT
181823 TTATTTCTAT
1 TTATTT-TAT
*
181833 TTACTTTTTT
1 TTA-TTTTAT
*
181843 TTAATTT-T
1 TTATTTTAT
** *
181851 TTCCTCTAT
1 TTATTTTAT
181860 TTCATTTTTAT
1 TT-A-TTTTAT
**
181871 TT-TTATTCC
1 TTATT-TTAT
181880 TTATTTTAT
1 TTATTTTAT
*
181889 TTTTTTTAT
1 TTATTTTAT
* *
181898 CTTCTTTACAT
1 -TTATTT-TAT
**
181909 TTGCTTTAT
1 TTATTTTAT
181918 TTATTTGTATT
1 TTATTT-TA-T
181929 TTATTTT-T
1 TTATTTTAT
181937 TTATTT
1 TTATTT
181943 ACTTGTTTAT
Statistics
Matches: 97, Mismatches: 20, Indels: 25
0.68 0.14 0.18
Matches are distributed among these distances:
8 17 0.18
9 37 0.38
10 25 0.26
11 18 0.19
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.72
Consensus pattern (9 bp):
TTATTTTAT
Found at i:181844 original size:24 final size:24
Alignment explanation
Indices: 181817--181897 Score: 60
Period size: 25 Copynumber: 3.2 Consensus size: 24
181807 ATTATTATTA
181817 TTTTATTTATTTCTATTTACTTTT
1 TTTTATTTATTTCTATTTACTTTT
*
181841 TTTTAATTTTTTCCTCTATTT-CATTTT
1 TTTT-ATTTATT--TCTATTTAC-TTTT
* *
181868 TATT-TTTATTCCTTATTTTA-TTTT
1 TTTTATTTATTTC-TA-TTTACTTTT
181892 TTTTAT
1 TTTTAT
181898 CTTCTTTACA
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
23 1 0.02
24 13 0.30
25 15 0.34
26 1 0.02
27 14 0.32
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTATTTATTTCTATTTACTTTT
Found at i:181867 original size:25 final size:25
Alignment explanation
Indices: 181839--181893 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
181829 CTATTTACTT
181839 TTTTTTAATTTT-TTCCTCTATTTCA
1 TTTTTTAATTTTATTCCT-TATTTCA
* *
181864 -TTTTTATTTTTATTCCTTATTTTA
1 TTTTTTAATTTTATTCCTTATTTCA
181888 TTTTTT
1 TTTTTT
181894 TTATCTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTTTAATTTTATTCCTTATTTCA
Found at i:184849 original size:14 final size:14
Alignment explanation
Indices: 184832--184895 Score: 59
Period size: 14 Copynumber: 4.8 Consensus size: 14
184822 CAAAAAGAAA
184832 AAAGAGAAAAAAAC
1 AAAGAGAAAAAAAC
184846 -AA-AG--AAAAAC
1 AAAGAGAAAAAAAC
184856 AAAGAGAAAATAAA-
1 AAAGAGAAAA-AAAC
184870 AAAGAGAAACAAAAAC
1 AAAGAG-AA-AAAAAC
184886 AAAG-GAAAAA
1 AAAGAGAAAAA
184896 GTGAAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 17
0.71 0.00 0.29
Matches are distributed among these distances:
10 6 0.14
11 2 0.05
12 4 0.10
13 5 0.12
14 10 0.24
15 9 0.21
16 6 0.14
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.02
Consensus pattern (14 bp):
AAAGAGAAAAAAAC
Found at i:184864 original size:24 final size:25
Alignment explanation
Indices: 184820--184882 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
184810 ATTCAATCAG
184820 AACAAA-AAGAAA-AAAGAGAAAA-A
1 AACAAAGAA-AAACAAAGAGAAAATA
184843 AACAAAGAAAAACAAAGAGAAAATA
1 AACAAAGAAAAACAAAGAGAAAATA
*
184868 AA-AAAGAGAAACAAA
1 AACAAAGAAAAACAAA
184883 AACAAAGGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
23 9 0.25
24 24 0.67
25 3 0.08
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.02
Consensus pattern (25 bp):
AACAAAGAAAAACAAAGAGAAAATA
Found at i:185004 original size:51 final size:51
Alignment explanation
Indices: 184944--185045 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
184934 TTGATTCCAA
184944 TGACGCGTCGAGATTCAAGATTATGAGATTGATCAAGCACAATCATTCTAG
1 TGACGCGTCGAGATTCAAGATTATGAGATTGATCAAGCACAATCATTCTAG
184995 TGACGCGTCGAGATTCAAGATTATGAGATTGATCAAGCACAATCATTCTAG
1 TGACGCGTCGAGATTCAAGATTATGAGATTGATCAAGCACAATCATTCTAG
185046 AATCACTTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (51 bp):
TGACGCGTCGAGATTCAAGATTATGAGATTGATCAAGCACAATCATTCTAG
Found at i:186827 original size:42 final size:41
Alignment explanation
Indices: 186723--186805 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
186713 CGAAGGGGCC
* **
186723 ATCCAC-AGTTTCAACTCCATGACGGAGGATATCGTACCCAT
1 ATCCACGA-TTTCAACTCCACGATAGAGGATATCGTACCCAT
*
186764 ATCCACGATTTCAACTCCACGATAGAGGATATCGTGCCCAT
1 ATCCACGATTTCAACTCCACGATAGAGGATATCGTACCCAT
186805 A
1 A
186806 CATTACGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (41 bp):
ATCCACGATTTCAACTCCACGATAGAGGATATCGTACCCAT
Found at i:187481 original size:84 final size:83
Alignment explanation
Indices: 187336--188129 Score: 809
Period size: 84 Copynumber: 9.5 Consensus size: 83
187326 GATATCGTGT
* * * * *
187336 TCATTTGCAGCATAGCTCAAGGCTAGAAGGGCTATCTGCGACCAAAAGACCTTCGAGTTTGACTA
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGATTA
** * *
187401 CGTTCAGCTCCAAGGCATA
65 CACTCAGCTCAAAGGCACA
* * * * *
187420 TCATTTGTAGCATAACTCAAGCCTAAAAGGGTTATCTGCCACCAAAAGACCTTCGATTTTGATTA
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGATTA
* *
187485 CACTCAGCTTCGAGGGCACA
65 CACTCAGC-TCAAAGGCACA
* * * *
187505 TCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTAC
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
*
187570 GCTCAGCTCAAAGGCACA
66 ACTCAGCTCAAAGGCACA
* * * * * *
187588 TCATTTGCAACATAGCTTAAGTCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGATTTCGATTA
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGATTA
* * *
187653 CACTCAGCTTCGAGGGCATA
65 CACTCAGC-TCAAAGGCACA
** * * * * *
187673 TCATTTATAGAATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAACCTTTGAGTTCGATTAC
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
*
187738 ACTCAGCTCAAAGACACA
66 ACTCAGCTCAAAGGCACA
* * * * * *
187756 TCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCAATTA
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGATTA
*
187821 CACTCAGCTTCAAGGGCACA
65 CACTCAGC-TCAAAGGCACA
* * * * * *
187841 TCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTACTAACAAAGACCTTCGAGTTTGACTAC
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
*
187906 GCTCAGCTCAAAGGCACA
66 ACTCAGCTCAAAGGCACA
* ** * * * *
187924 TCATTTGCAACATAGTTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTCGATTA
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGATTA
* * *
187989 CACTCAGTTTCGAGGGCACA
65 CACTCAG-CTCAAAGGCACA
* * * *
188009 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAGCCAATATA--TTTGAGTTCGACT
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCA-CCAA-AGACCTTCGAGTTCGATT
* * * *
188072 ACGCTCAGCCCCAAGGCGCA
64 ACACTCAGCTCAAAGGCACA
* * * *
188092 TCATTTACAACATAGCTCAAGGCAAGAAGGGTTATCTG
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG
188130 TCAATAAAAT
Statistics
Matches: 585, Mismatches: 116, Indels: 19
0.81 0.16 0.03
Matches are distributed among these distances:
83 165 0.28
84 243 0.42
85 175 0.30
86 2 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (83 bp):
TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTAC
ACTCAGCTCAAAGGCACA
Found at i:187638 original size:168 final size:168
Alignment explanation
Indices: 187336--188129 Score: 1052
Period size: 168 Copynumber: 4.7 Consensus size: 168
187326 GATATCGTGT
* * * * *
187336 TCATTTGCAGCATAGCTCAAGGCTAGAAGGGCTATCTGCGACCAAAAGACCTTCGAGTTTGACTA
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTA
* * * * * * * *
187401 CGTTCAGCTCCAAGGCATATCATTTGTAGCATAACTCAAGCCTAA-AAGGGTTATCTGCC-ACCA
65 CGCTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGTC-AAGAAGGGTTATCTGCCAACC-
* *
187464 AAAGACCTTCGATTTTGATTACACTCAGCTTCGAGGGCACA
128 AAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACA
* *
187505 TCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTAC
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTAC
* *
187570 GCTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGTCTAGAAGGGCTATCTGCCAACCAAA
66 GCTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGTCAAGAAGGGTTATCTGCCAACCAAA
* *
187635 GACCTTCGATTTCGATTACACTCAGCTTCGAGGGCATA
131 GACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACA
** * * * * *
187673 TCATTTATAGAATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAACCTTTGAGTTCGATTAC
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTAC
* * * * *
187738 ACTCAGCTCAAAGACACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAA
66 GCTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGTCAAGAAGGGTTATCTGCCAACCAAA
* *
187803 GACCTTCGAGTTCAATTACACTCAGCTTCAAGGGCACA
131 GACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACA
* * * *
187841 TCATTTGCAGCATAACTTAAGGCTAGAAGGGTTATCTACTAACAAAGACCTTCGAGTTTGACTAC
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTAC
*
187906 GCTCAGCTCAAAGGCACATCATTTGCAACATAGTTTAAGTCAAGAAGGGTTATCTGCCAACCAAA
66 GCTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGTCAAGAAGGGTTATCTGCCAACCAAA
* *
187971 GACCTTCAAGTTCGATTACACTCAGTTTCGAGGGCACA
131 GACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACA
* * * * ** *
188009 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAGCCAATATATTTGAGTTCGACTAC
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTAC
* * * * * *
188074 GCTCAGCCCCAAGGCGCATCATTTACAACATAGCTCAAGGCAAGAAGGGTTATCTG
66 GCTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGTCAAGAAGGGTTATCTG
188130 TCAATAAAAT
Statistics
Matches: 550, Mismatches: 73, Indels: 5
0.88 0.12 0.01
Matches are distributed among these distances:
167 1 0.00
168 509 0.93
169 40 0.07
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (168 bp):
TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGTCAAGAAGGGTTATCTGCCAACCAAA
GACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACA
Found at i:188714 original size:37 final size:37
Alignment explanation
Indices: 188659--188766 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
188649 AACATAACAT
* *
188659 TAGAGTTTTACTAGGATTCAAAATCCTAAAAATAAGA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAAGA
* *
188696 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAAGA
188733 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATA
188767 GGATCCATAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (37 bp):
TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAAGA
Found at i:189472 original size:3 final size:3
Alignment explanation
Indices: 189464--189500 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
189454 CTTACTGTTT
*
189464 TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
189501 TATTTCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:189510 original size:21 final size:20
Alignment explanation
Indices: 189462--189527 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
189452 TACTTACTGT
*
189462 TTTTATTATTATTAGTA-TTA
1 TTTTATTATTATT-TTATTTA
189482 TTATTATTATTATTTTATTTA
1 TT-TTATTATTATTTTATTTA
189503 TTTCTA-T-TTACCTTTTATTTA
1 TTT-TATTATTA--TTTTATTTA
189524 TTTT
1 TTTT
189528 TTTACTCTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
19 3 0.08
20 7 0.17
21 30 0.75
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTATTATTATTTTATTTA
Found at i:189563 original size:19 final size:18
Alignment explanation
Indices: 189520--189568 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
189510 TTACCTTTTA
189520 TTTATTTTTTTACTCTAT
1 TTTATTTTTTTACTCTAT
* *
189538 TTCATTTTTATTCCT-TAT
1 TTTATTTTT-TTACTCTAT
189556 CTTTATTTTTTTA
1 -TTTATTTTTTTA
189569 TCTTCTTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTTTTTACTCTAT
Found at i:189596 original size:19 final size:19
Alignment explanation
Indices: 189523--189596 Score: 50
Period size: 19 Copynumber: 3.9 Consensus size: 19
189513 CCTTTTATTT
189523 ATTTTTTTA-CTCTATTT-C
1 ATTTTTTTATCT-TATTTAC
* *
189541 ATTTTTATT-CCTTATCTT-T
1 ATTTTT-TTATCTTAT-TTAC
*
189560 ATTTTTTTATCTTCTTTAC
1 ATTTTTTTATCTTATTTAC
189579 ATTTGTTTTAT-TTATTTA
1 ATTT-TTTTATCTTATTTA
189597 TTTGTATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
18 13 0.29
19 26 0.58
20 6 0.13
ACGTcount: A:0.18, C:0.12, G:0.01, T:0.69
Consensus pattern (19 bp):
ATTTTTTTATCTTATTTAC
Found at i:189828 original size:20 final size:20
Alignment explanation
Indices: 189803--189843 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
189793 CTTTAAAACT
189803 ATCTAAGGTAAGTAATTGAG
1 ATCTAAGGTAAGTAATTGAG
189823 ATCTAAGGTAAGTAATTGAG
1 ATCTAAGGTAAGTAATTGAG
189843 A
1 A
189844 AATGGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (20 bp):
ATCTAAGGTAAGTAATTGAG
Found at i:195308 original size:22 final size:22
Alignment explanation
Indices: 195273--195333 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
195263 GGGTCTACGC
*
195273 GGTCCTTCGGGACAAATACATA
1 GGTCATTCGGGACAAATACATA
*
195295 GGT-ATTTCGAGACAAATACATA
1 GGTCA-TTCGGGACAAATACATA
195317 GGTCATTCGGGACAAAT
1 GGTCATTCGGGACAAAT
195334 TTTATATGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (22 bp):
GGTCATTCGGGACAAATACATA
Found at i:197877 original size:18 final size:19
Alignment explanation
Indices: 197851--197893 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
197841 AATAAAAGTG
197851 AATAAATGAAAAT-TATTT
1 AATAAATGAAAATGTATTT
* *
197869 AATATATGAATATGTATTT
1 AATAAATGAAAATGTATTT
197888 -ATAAAT
1 AATAAAT
197894 ATTATATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (19 bp):
AATAAATGAAAATGTATTT
Found at i:199733 original size:18 final size:18
Alignment explanation
Indices: 199710--199772 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
199700 TTACTATGTA
199710 TATATTTTTTCTTAATAT
1 TATATTTTTTCTTAATAT
* *
199728 TATATTTTATACGTT-TTA-
1 TATATTTT-TTC-TTAATAT
*
199746 TATATATTTTCTTAATAT
1 TATATTTTTTCTTAATAT
199764 TATATTTTT
1 TATATTTTT
199773 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
16 2 0.06
17 4 0.11
18 23 0.66
19 4 0.11
20 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (18 bp):
TATATTTTTTCTTAATAT
Found at i:199767 original size:16 final size:16
Alignment explanation
Indices: 199716--199771 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
199706 TGTATATATT
199716 TTTTCTTAATATTATA
1 TTTTCTTAATATTATA
*
199732 TTTTATACGTT-TTATATATA
1 -TTT-T-C-TTAATAT-TATA
199752 TTTTCTTAATATTATA
1 TTTTCTTAATATTATA
199768 TTTT
1 TTTT
199772 TATTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
16 10 0.31
17 7 0.22
18 2 0.06
19 7 0.22
20 6 0.19
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTCTTAATATTATA
Found at i:199785 original size:10 final size:10
Alignment explanation
Indices: 199770--199828 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
199760 ATATTATATT
199770 TTTATTTTTA
1 TTTATTTTTA
*
199780 TTTATTTATA
1 TTTATTTTTA
* * *
199790 TATATATATA
1 TTTATTTTTA
199800 TATTATTTTTA
1 T-TTATTTTTA
199811 TTT-TATTTTA
1 TTTAT-TTTTA
199821 TTTATTTT
1 TTTATTTT
199829 ATTATTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 1 0.03
10 31 0.77
11 8 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTTTA
Done.