Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 33 of 240
Found at i:11593922 original size:12 final size:13
Alignment explanation
Indices: 11593896--11593929 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
11593886 ATGCATCCAG
11593896 ATAATTAATAAAT
1 ATAATTAATAAAT
11593909 ATAATTAA-AAAT
1 ATAATTAATAAAT
11593921 ATAATTAAT
1 ATAATTAAT
11593930 TTGACTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATTAATAAAT
Found at i:11593964 original size:26 final size:27
Alignment explanation
Indices: 11593910--11593962 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
11593900 TTAATAAATA
*
11593910 TAATTAAAAATATAATTAATTTGACTT
1 TAATTAAAAATATAATTAATTAGACTT
11593937 TAATTAAAAA-ATAATT-ATTAGACTT
1 TAATTAAAAATATAATTAATTAGACTT
11593962 T
1 T
11593963 TACCGTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 6 0.24
27 10 0.40
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (27 bp):
TAATTAAAAATATAATTAATTAGACTT
Found at i:11594283 original size:22 final size:22
Alignment explanation
Indices: 11594255--11594305 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
11594245 CTCTCTAATC
11594255 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
11594277 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
11594299 CTCTCAA
1 CTCTCAA
11594306 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:11594333 original size:51 final size:51
Alignment explanation
Indices: 11594277--11594388 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
11594267 TTCCAAAATT
11594277 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
* * *
11594328 CTCTCAATTTCCTTCTAAAATTCTCTCAAATCCATATTTAATTTTAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
11594379 CCCTCAATTT
1 CTCTCAATTT
11594389 TATTTTTGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.29, C:0.28, G:0.00, T:0.44
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:11594424 original size:10 final size:10
Alignment explanation
Indices: 11594404--11594454 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
11594394 TTGAAAATAA
11594404 TTTTAAA-TT
1 TTTTAAATTT
*
11594413 TTTTATATTT
1 TTTTAAATTT
**
11594423 TTTTAAAATAA
1 TTTT-AAATTT
11594434 TTTTAAATTT
1 TTTTAAATTT
*
11594444 TTTTATATTT
1 TTTTAAATTT
11594454 T
1 T
11594455 CATCAATGGC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
9 6 0.18
10 20 0.61
11 7 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:11594431 original size:30 final size:31
Alignment explanation
Indices: 11594391--11594454 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
11594381 CTCAATTTTA
11594391 TTTTTGAAAATAATTTTAAA-TTTTTTATAT
1 TTTTTGAAAATAATTTTAAATTTTTTTATAT
*
11594421 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTGAAAATAATTTTAAATTTTTTTATAT
11594452 TTT
1 TTT
11594455 CATCAATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (31 bp):
TTTTTGAAAATAATTTTAAATTTTTTTATAT
Found at i:11596496 original size:21 final size:21
Alignment explanation
Indices: 11596472--11596521 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
11596462 CAGATGTCGA
*
11596472 ACCGGAAGAACCACAATCACC
1 ACCGGAAGAACAACAATCACC
* *
11596493 ACCGGAAGAAGAACAATCGCC
1 ACCGGAAGAACAACAATCACC
*
11596514 GCCGGAAG
1 ACCGGAAG
11596522 CTAGAGGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.32, G:0.24, T:0.04
Consensus pattern (21 bp):
ACCGGAAGAACAACAATCACC
Found at i:11596681 original size:26 final size:25
Alignment explanation
Indices: 11596617--11596686 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
11596607 TTTAAATTTA
* *
11596617 TTATCTGATGGAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* * *
11596642 TTATTTAATATAATAAAATGGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
11596667 TCTATTTGATGTAATTAAAA
1 T-TATTTGATGTAA-TAAAA
11596687 ACCCTAACTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 21 0.58
26 10 0.28
27 5 0.14
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.39
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:11596731 original size:29 final size:29
Alignment explanation
Indices: 11596689--11596807 Score: 130
Period size: 29 Copynumber: 3.9 Consensus size: 29
11596679 AATTAAAAAC
* *
11596689 CCTAACTTGATTAAAAACCCTAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACTCTAA
* *
11596718 CCTAATTTAATTAAAAACCTTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTCTAA
*
11596747 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
1 CCTAATTTAATTAAAAACCCTAAC-T--CT---AA
11596782 CCCTAATTTAATTAAAAACCCTAACT
1 -CCTAATTTAATTAAAAACCCTAACT
11596808 TAATTAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
29 48 0.63
32 1 0.01
35 3 0.04
36 24 0.32
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACTCTAA
Found at i:11596774 original size:18 final size:18
Alignment explanation
Indices: 11596747--11596973 Score: 234
Period size: 18 Copynumber: 12.3 Consensus size: 18
11596737 TTAACCCTAA
*
11596747 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11596765 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
11596783 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11596801 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
11596819 CCTAAC-T--CT---AA-
1 CCTAACTTAATTAAAAAC
*
11596830 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
11596848 CCTAACCTAATTTAATTAAAAGC
1 CCTAA-C----TTAATTAAAAAC
11596871 CCTAACTTAATTAAAAACTCAAAC
1 CCTAACTTAATT---AA---AAAC
*
11596895 CCTAACCTAAATTAAAAAC
1 CCTAA-CTTAATTAAAAAC
11596914 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
11596932 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11596950 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11596968 CCTAAC
1 CCTAAC
11596974 CCTAACCCTA
Statistics
Matches: 177, Mismatches: 13, Indels: 38
0.78 0.06 0.17
Matches are distributed among these distances:
11 5 0.03
12 3 0.02
14 1 0.01
15 1 0.01
17 3 0.02
18 120 0.68
19 9 0.05
21 2 0.01
22 3 0.02
23 16 0.09
24 8 0.05
25 6 0.03
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:11596843 original size:29 final size:28
Alignment explanation
Indices: 11596801--11596857 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
11596791 AATTAAAAAC
11596801 CCTAACTTAATTAAAAACCCTAACTCTAA
1 CCTAACTTAATTAAAAACCCTAAC-CTAA
*
11596830 CCTAATTTAATTAAAAACCCTAACCTAA
1 CCTAACTTAATTAAAAACCCTAACCTAA
11596858 TTTAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (28 bp):
CCTAACTTAATTAAAAACCCTAACCTAA
Found at i:11596996 original size:35 final size:35
Alignment explanation
Indices: 11596950--11597100 Score: 193
Period size: 35 Copynumber: 4.7 Consensus size: 35
11596940 AATTAAAAAC
*
11596950 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
11596985 CCTAATTTAATTAAAAACCCTAACCCTAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
*
11597019 -C----TTAATTAAAAACCCTAACCCTAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
11597049 CCTAATTTAATT--AAA----AA-CCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
11597077 CCTAATTTAATTAAAAACCCTAAC
1 CCTAATTTAATTAAAAACCCTAAC
11597101 TTAATTAAAA
Statistics
Matches: 100, Mismatches: 3, Indels: 26
0.78 0.02 0.20
Matches are distributed among these distances:
28 22 0.22
29 25 0.25
30 7 0.07
31 1 0.01
33 4 0.04
34 7 0.07
35 34 0.34
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (35 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCCTAA
Found at i:11597027 original size:64 final size:63
Alignment explanation
Indices: 11596950--11597100 Score: 275
Period size: 64 Copynumber: 2.4 Consensus size: 63
11596940 AATTAAAAAC
11596950 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAA-CCTAACCCTAA
*
11597014 CCTAACTTAATTAAAAACCCTAACCCTAACTCTAACCTAATTTAATTAAAAACCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCTAACCCTAA
*
11597077 CCTAATTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
11597101 TTAATTAAAA
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
63 34 0.40
64 51 0.60
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (63 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCTAACCCTAA
Found at i:11597053 original size:149 final size:144
Alignment explanation
Indices: 11596689--11596955 Score: 278
Period size: 131 Copynumber: 1.9 Consensus size: 144
11596679 AATTAAAAAC
* * * *
11596689 CCTAACTTGATTAAAAACCCTAACTCTAACCTAATTTAATTAAAAACCTTAACCCTAAC-CTAAT
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAA-TTAATTAAAAACCCTAACCCTAACTCTAA-
*
11596753 TTAATTAAAAACCCTAACTTAATTAAAAACCCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
64 TAAATTAAAAACCCTAAC-TAATTAAAAACCCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
11596818 CCCTAA--CT---CTAA
128 CCCTAACCCTAACCTAA
* *
11596830 CCTAATTTAATTAAAAACCCTAA-CCTAA--T--TTAATTAAAAGCCCTAA-CTTAA-T-TAA-A
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTAATTAAAAACCCTAACCCTAACTCTAATA
* * * *
11596886 AACT-CAAACCCTAACCTAAATTAAAAACCCTAACTTAATTAAAAACCCTAATTTAATTAAAAAC
66 AATTAAAAACCCTAA-CT-AATTAAAAACCCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
11596950 CCTAAC
129 CCTAAC
11596956 TTAATTAAAA
Statistics
Matches: 111, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
130 10 0.09
131 53 0.48
133 3 0.03
134 4 0.04
135 15 0.14
138 1 0.01
140 4 0.04
141 21 0.19
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (144 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTAATTAAAAACCCTAACCCTAACTCTAATA
AATTAAAAACCCTAACTAATTAAAAACCCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCC
TAACCCTAACCTAA
Found at i:11597076 original size:28 final size:29
Alignment explanation
Indices: 11596971--11597100 Score: 190
Period size: 29 Copynumber: 4.3 Consensus size: 29
11596961 TAAAAACCCT
11596971 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
11597000 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
11597029 AACCCTAACCCTAACTCTAACCTAATTTAATTAAA
1 AACCCTAA--C---C-CTAACCTAATTTAATTAAA
11597064 AA-CCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
11597092 AACCCTAAC
1 AACCCTAAC
11597101 TTAATTAAAA
Statistics
Matches: 92, Mismatches: 2, Indels: 14
0.85 0.02 0.13
Matches are distributed among these distances:
28 21 0.23
29 43 0.47
31 1 0.01
32 1 0.01
34 6 0.07
35 20 0.22
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:11597104 original size:18 final size:18
Alignment explanation
Indices: 11597077--11597153 Score: 69
Period size: 18 Copynumber: 4.7 Consensus size: 18
11597067 CTAACCCTAA
*
11597077 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11597095 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* **
11597113 CCAAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
11597124 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
11597142 CCTAACTTAATT
1 CCTAACTTAATT
11597154 TTACTAACCA
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
11 5 0.11
12 2 0.04
14 1 0.02
15 1 0.02
17 2 0.04
18 34 0.76
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:11597134 original size:47 final size:46
Alignment explanation
Indices: 11597049--11597153 Score: 174
Period size: 47 Copynumber: 2.3 Consensus size: 46
11597039 CTAACTCTAA
* * *
11597049 CCTAATTTAATTAAAAACCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCAAACCCTAACCTAACTTAATTAAAAAC
11597095 CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAA-CCAAACCCTAACCTAACTTAATTAAAAAC
11597142 CCTAACTTAATT
1 CCTAACTTAATT
11597154 TTACTAACCA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 16 0.29
47 39 0.71
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.29
Consensus pattern (46 bp):
CCTAACTTAATTAAAAACCAAACCCTAACCTAACTTAATTAAAAAC
Found at i:11597145 original size:23 final size:22
Alignment explanation
Indices: 11597069--11597153 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 22
11597059 TTAAAAACCT
11597069 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAA-TTAATTAAA
* *
11597092 AACCCTAACTTAATTAA-AAACCCA
1 AACCCTAACCTAATTAATTAA---A
11597116 AACCCTAACCTAACTTAATTAAA
1 AACCCTAACCTAA-TTAATTAAA
*
11597139 AACCCTAACTTAATT
1 AACCCTAACCTAATT
11597154 TTACTAACCA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
21 2 0.04
22 6 0.12
23 25 0.48
24 13 0.25
25 4 0.08
26 2 0.04
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (22 bp):
AACCCTAACCTAATTAATTAAA
Found at i:11597200 original size:26 final size:26
Alignment explanation
Indices: 11597164--11597255 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 26
11597154 TTACTAACCA
11597164 TTAACACAATTGTTGGACTTAATAAT
1 TTAACACAATTGTTGGACTTAATAAT
* * * * * *
11597190 TTAACATAATTTGAT-AATTTTACTAACCA
1 TTAACACAA-TTGTTGGA-CTTAATAA--T
11597219 TTAACACAATTGTTGGACTTAATAAT
1 TTAACACAATTGTTGGACTTAATAAT
*
11597245 TTAACATAATT
1 TTAACACAATT
11597256 TGATAATTTT
Statistics
Matches: 48, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
26 19 0.40
27 10 0.21
28 10 0.21
29 9 0.19
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (26 bp):
TTAACACAATTGTTGGACTTAATAAT
Found at i:11597318 original size:18 final size:18
Alignment explanation
Indices: 11597292--11597746 Score: 112
Period size: 18 Copynumber: 23.2 Consensus size: 18
11597282 ATTTTGGAAC
11597292 TTAATAATTTTACATAAT
1 TTAATAATTTTACATAAT
* *
11597310 TTGATAATTTTACCTAAT
1 TTAATAATTTTACATAAT
** ***
11597328 TTAATTAAAATTTT-TTTGGC
1 TTAA-T--AATTTTACATAAT
11597348 TTAATAATTTTACATAAT
1 TTAATAATTTTACATAAT
* *
11597366 TTGATAATTTTACCTAAT
1 TTAATAATTTTACATAAT
***
11597384 TTAATTAAAAATTTT---TGGC
1 TTAA-T---AATTTTACATAAT
11597403 TTAATAATTTTACATAATT
1 TTAATAATTTTACATAA-T
*
11597422 TTACATAATTTTACCTAAT
1 TTA-ATAATTTTACATAAT
** ***
11597441 TTAATTAAAATTTT-TTTGGC
1 TTAA-T--AATTTTACATAAT
11597461 TTAATAATTTTACATAAT
1 TTAATAATTTTACATAAT
* *
11597479 TTGATAATTTTACCTAAT
1 TTAATAATTTTACATAAT
*
11597497 TTAATTAAAAGTTTTTTGGCTTAATAATT
1 TTAA-T--AA---TTTT-AC---ATAA-T
11597526 TTACATAATTTTACATAAT
1 TTA-ATAATTTTACATAAT
* *
11597545 TTGATAATTTTACCTAAT
1 TTAATAATTTTACATAAT
*
11597563 TTAATTAAAATTTTTTGGGCTTAATAATT
1 TTAA-T--AA--TTTT--AC---ATAA-T
*
11597592 TTACATAATTTTACCTAAT
1 TTA-ATAATTTTACATAAT
** ***
11597611 TTAATTAAAATTTT-TTTGGC
1 TTAA-T--AATTTTACATAAT
11597631 TTAATAATTTTACATAATT
1 TTAATAATTTTACATAA-T
*
11597650 TTACATAATTTTATATAAT
1 TTA-ATAATTTTACATAAT
* *
11597669 TTGATAATTTTACCTAAT
1 TTAATAATTTTACATAAT
*** ***
11597687 TTAATTAAATTTTTTTTGGC
1 TTAA-T-AATTTTACATAAT
11597707 TTAATAATTTTACATAAT
1 TTAATAATTTTACATAAT
* *
11597725 TTGATAATTTTACCTAAT
1 TTAATAATTTTACATAAT
11597743 TTAA
1 TTAA
11597747 ATTTAAAAAA
Statistics
Matches: 312, Mismatches: 76, Indels: 98
0.64 0.16 0.20
Matches are distributed among these distances:
15 6 0.02
17 18 0.06
18 123 0.39
19 36 0.12
20 59 0.19
21 22 0.07
22 6 0.02
23 6 0.02
24 8 0.03
25 6 0.02
27 4 0.01
28 6 0.02
29 10 0.03
30 2 0.01
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.51
Consensus pattern (18 bp):
TTAATAATTTTACATAAT
Found at i:11597374 original size:56 final size:56
Alignment explanation
Indices: 11597176--11597650 Score: 536
Period size: 55 Copynumber: 8.4 Consensus size: 56
11597166 AACACAATTG
* ** * *
11597176 TTGGACTTAATAATTTAACATAATTTGATAATTTTA-CTAA--CCATTAACACA-ATTG
1 TTGG-CTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAA-A-ATTTTT
* * *
11597231 TTGGACTTAATAATTTAACATAATTTGATAATTTTA-CTAACCATTAA-CAAAA---TT
1 TTGG-CTTAATAATTTTACATAATTTGATAATTTTACCTAA--TTTAATTAAAATTTTT
11597285 TTGGAACTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTT
1 TTGG--CTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTT
*
11597343 TTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAA-ATTT
1 TTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTT
*
11597398 TTGGCTTAATAATTTTACATAATTTTACATAATTTTACCTAATTTAATTAAAATTTTT
1 TTGGCTTAATAATTTTACATAA-TTT-GATAATTTTACCTAATTTAATTAAAATTTTT
*
11597456 TTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAGTTTT
1 TTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTT
11597512 TTGGCTTAATAATTTTACATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTT
1 TTGGC---------TTA-ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTT
11597577 T
56 T
*
11597578 TGGGCTTAATAATTTTAC--------ATAATTTTACCTAATTTAATTAAAATTTTT
1 TTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTT
11597626 TTGGCTTAATAATTTTACATAATTT
1 TTGGCTTAATAATTTTACATAATTT
11597651 TACATAATTT
Statistics
Matches: 375, Mismatches: 15, Indels: 60
0.83 0.03 0.13
Matches are distributed among these distances:
48 47 0.13
54 9 0.02
55 100 0.27
56 99 0.26
57 32 0.09
58 33 0.09
59 1 0.00
65 3 0.01
66 51 0.14
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (56 bp):
TTGGCTTAATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTT
Found at i:11597384 original size:66 final size:64
Alignment explanation
Indices: 11597305--11597602 Score: 354
Period size: 56 Copynumber: 5.0 Consensus size: 64
11597295 ATAATTTTAC
*
11597305 ATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTG
1 ATAATTTTATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTG
*
11597369 --------ATAATTTTACCTAATTTAATTAAAA-ATTTTTGGCTTAATAATTTTACATAATTT-
1 ATAATTTTATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTG
*
11597423 -T-A---CATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTG
1 ATAATTTTATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTG
*
11597482 --------ATAATTTTACCTAATTTAATTAAAAGTTTTTTGGCTTAATAATTTTACATAATTTTA
1 ATAATTTTATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAA-TTT-
*
11597539 C
64 G
* *
11597540 ATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTGGGCTTAATAATTTTACATAATTT
1 ATAATTTTATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTT
11597603 TACCTAATTT
Statistics
Matches: 213, Mismatches: 6, Indels: 29
0.86 0.02 0.12
Matches are distributed among these distances:
55 28 0.13
56 76 0.36
57 28 0.13
58 28 0.13
65 3 0.01
66 50 0.23
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (64 bp):
ATAATTTTATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTACATAATTTG
Found at i:11597421 original size:10 final size:10
Alignment explanation
Indices: 11597406--11597442 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
11597396 TTTTGGCTTA
11597406 ATAATTTTAC
1 ATAATTTTAC
11597416 ATAATTTTAC
1 ATAATTTTAC
11597426 ATAATTTTAC
1 ATAATTTTAC
*
11597436 CTAATTT
1 ATAATTT
11597443 AATTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:11597535 original size:10 final size:10
Alignment explanation
Indices: 11597520--11597564 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
11597510 TTTTGGCTTA
11597520 ATAATTTTAC
1 ATAATTTTAC
11597530 ATAATTTTAC
1 ATAATTTTAC
*
11597540 ATAA-TTT-G
1 ATAATTTTAC
11597548 ATAATTTTAC
1 ATAATTTTAC
*
11597558 CTAATTT
1 ATAATTT
11597565 AATTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 4 0.13
9 6 0.20
10 20 0.67
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:11597603 original size:66 final size:66
Alignment explanation
Indices: 11597464--11597612 Score: 273
Period size: 66 Copynumber: 2.3 Consensus size: 66
11597454 TTTTGGCTTA
11597464 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAGTTTTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAGTTTTTTGGCTTAATAATTTTA
11597529 C
66 C
11597530 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAA-TTTTTTGGGCTTAATAATTTT
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAGTTTTTT-GGCTTAATAATTTT
11597594 AC
65 AC
*
11597596 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
11597613 AATTAAAATT
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
65 6 0.07
66 75 0.93
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.50
Consensus pattern (66 bp):
ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAGTTTTTTGGCTTAATAATTTTA
C
Found at i:11597607 original size:48 final size:48
Alignment explanation
Indices: 11597548--11597660 Score: 208
Period size: 48 Copynumber: 2.4 Consensus size: 48
11597538 ACATAATTTG
11597548 ATAATTTTACCTAATTTAATTAAAATTTTTTGGGCTTAATAATTTTAC
1 ATAATTTTACCTAATTTAATTAAAATTTTTTGGGCTTAATAATTTTAC
*
11597596 ATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTAC
1 ATAATTTTACCTAATTTAATTAAAATTTTTTGGGCTTAATAATTTTAC
*
11597644 ATAATTTTACATAATTT
1 ATAATTTTACCTAATTT
11597661 TATATAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.51
Consensus pattern (48 bp):
ATAATTTTACCTAATTTAATTAAAATTTTTTGGGCTTAATAATTTTAC
Found at i:11597649 original size:10 final size:10
Alignment explanation
Indices: 11597634--11597688 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
11597624 TTTTGGCTTA
11597634 ATAATTTTAC
1 ATAATTTTAC
11597644 ATAATTTTAC
1 ATAATTTTAC
*
11597654 ATAATTTTAT
1 ATAATTTTAC
*
11597664 ATAA-TTT-G
1 ATAATTTTAC
11597672 ATAATTTTAC
1 ATAATTTTAC
*
11597682 CTAATTT
1 ATAATTT
11597689 AATTAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 4 0.10
9 6 0.15
10 29 0.74
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:11597692 original size:124 final size:126
Alignment explanation
Indices: 11597520--11597791 Score: 397
Period size: 124 Copynumber: 2.1 Consensus size: 126
11597510 TTTTGGCTTA
11597520 ATAATTTTACATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTGGGCTT
1 ATAATTTTACATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTGGGCTT
**
11597585 AATAATTTTAC-ATAATTTTACCTAATTT-AA-TTAAAATTTTTTTGGCTTAATAATTTTAC
66 AATAATTTTACTATAATTTTACCTAATTTAAATTTAAAA-AATTTTGGCTTAATAATTTTAC
* * *
11597644 ATAATTTTACATAATTTTATATAATTTGATAATTTTACCTAATTTAATTAAATTTTTTTTGGCTT
1 ATAATTTTACATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTGGGCTT
11597709 AATAATTTTACATAATTTGATAATTTTACCTAATTTAAATTTAAAAAATTTTGGCTTAATAATTT
66 AATAATTTTAC------T-ATAATTTTACCTAATTTAAATTTAAAAAATTTTGGCTTAATAATTT
11597774 TAC
124 TAC
*
11597777 GTAATTTTACATAAT
1 ATAATTTTACATAAT
11597792 GTTAGATTTG
Statistics
Matches: 132, Mismatches: 6, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
124 73 0.55
132 17 0.13
133 36 0.27
134 6 0.05
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (126 bp):
ATAATTTTACATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTGGGCTT
AATAATTTTACTATAATTTTACCTAATTTAAATTTAAAAAATTTTGGCTTAATAATTTTAC
Found at i:11597724 original size:56 final size:57
Alignment explanation
Indices: 11597654--11597783 Score: 192
Period size: 56 Copynumber: 2.3 Consensus size: 57
11597644 ATAATTTTAC
* ***
11597654 ATAATTTTATATAATTTGATAATTTTACCTAATTT-AA-TTAAATTTTTTTTGGCTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAAATTTAAA-AAATTTTGGCTTA
11597710 ATAATTTTACATAATTTGATAATTTTACCTAATTTAAATTTAAAAAATTTTGGCTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAAATTTAAAAAATTTTGGCTTA
*
11597767 ATAATTTTACGTAATTT
1 ATAATTTTACATAATTT
11597784 TACATAATGT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
56 34 0.51
57 28 0.42
58 5 0.07
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (57 bp):
ATAATTTTACATAATTTGATAATTTTACCTAATTTAAATTTAAAAAATTTTGGCTTA
Found at i:11601199 original size:124 final size:124
Alignment explanation
Indices: 11600900--11601248 Score: 594
Period size: 124 Copynumber: 2.8 Consensus size: 124
11600890 CCCAAACTTG
*
11600900 CTACTGTAGCAAAATCGCATCTACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCATCCACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* * * *
11600965 TAGAAGTGATTTTATACTATTTGCTCAAAAAAGT-TAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
11601023 CTACTGTAGCAAAATCGCATCCACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCATCCACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
11601088 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* * *
11601147 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATTCTGG
1 CTACTGTAGCAAAATCGCATCCACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
11601212 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
11601249 CTCGAAATAA
Statistics
Matches: 214, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
123 94 0.44
124 119 0.56
125 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCATCCACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:11602382 original size:25 final size:25
Alignment explanation
Indices: 11602332--11602386 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11602322 ATTTTTAAAA
* **
11602332 TAAAATACTTTTCATAATTTGTATT
1 TAAAATACTTTTCATAATATAAATT
11602357 TAAAATACTATTTC-TAATATAAATT
1 TAAAATACT-TTTCATAATATAAATT
11602382 TAAAA
1 TAAAA
11602387 CTATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (25 bp):
TAAAATACTTTTCATAATATAAATT
Found at i:11602415 original size:18 final size:18
Alignment explanation
Indices: 11602388--11602423 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11602378 AATTTAAAAC
*
11602388 TATTTAATTAAAATATTT
1 TATTTAATTAAAAAATTT
*
11602406 TATTTTATTAAAAAATTT
1 TATTTAATTAAAAAATTT
11602424 AAGCATCTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTAATTAAAAAATTT
Found at i:11605835 original size:172 final size:172
Alignment explanation
Indices: 11605549--11605892 Score: 679
Period size: 172 Copynumber: 2.0 Consensus size: 172
11605539 GAAGCTAAAG
11605549 GTAGAGGTGATGATGTGATCAACACTAGTTCAGGTAACAAGTTATTTCAGATGTGCTTTATGTAC
1 GTAGAGGTGATGATGTGATCAACACTAGTTCAGGTAACAAGTTATTTCAGATGTGCTTTATGTAC
*
11605614 CTGATATAGATCAGAACTTACTTAGTGTAGGTCAGTTGGTTAAAAAAGGCTATTCATTAGTCTTC
66 CTGATATAGATCAAAACTTACTTAGTGTAGGTCAGTTGGTTAAAAAAGGCTATTCATTAGTCTTC
11605679 AAGTATGGTTCTTGTGTTATTAAAGATTTTCATGGTCAGGAA
131 AAGTATGGTTCTTGTGTTATTAAAGATTTTCATGGTCAGGAA
11605721 GTAGAGGTGATGATGTGATCAACACTAGTTCAGGTAACAAGTTATTTCAGATGTGCTTTATGTAC
1 GTAGAGGTGATGATGTGATCAACACTAGTTCAGGTAACAAGTTATTTCAGATGTGCTTTATGTAC
11605786 CTGATATAGATCAAAACTTACTTAGTGTAGGTCAGTTGGTTAAAAAAGGCTATTCATTAGTCTTC
66 CTGATATAGATCAAAACTTACTTAGTGTAGGTCAGTTGGTTAAAAAAGGCTATTCATTAGTCTTC
11605851 AAGTATGGTTCTTGTGTTATTAAAGATTTTCATGGTCAGGAA
131 AAGTATGGTTCTTGTGTTATTAAAGATTTTCATGGTCAGGAA
11605893 ATAGTCTCAG
Statistics
Matches: 171, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 171 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (172 bp):
GTAGAGGTGATGATGTGATCAACACTAGTTCAGGTAACAAGTTATTTCAGATGTGCTTTATGTAC
CTGATATAGATCAAAACTTACTTAGTGTAGGTCAGTTGGTTAAAAAAGGCTATTCATTAGTCTTC
AAGTATGGTTCTTGTGTTATTAAAGATTTTCATGGTCAGGAA
Found at i:11607571 original size:37 final size:37
Alignment explanation
Indices: 11607507--11607663 Score: 199
Period size: 37 Copynumber: 4.0 Consensus size: 37
11607497 TACGTATGAT
*
11607507 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
11607543 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
11607580 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
11607623 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
11607663 C
1 C
11607664 GAAGCTATCA
Statistics
Matches: 107, Mismatches: 4, Indels: 19
0.82 0.03 0.15
Matches are distributed among these distances:
36 10 0.09
37 54 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 30 0.28
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:11607633 original size:46 final size:46
Alignment explanation
Indices: 11607580--11607946 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
11607570 TAAGTGTAGC
* **
11607580 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
11607626 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
11607672 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11607724 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11607776 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
11607822 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * ** *
11607868 TACTTATCACTTTCCACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
11607920 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11607947 AGTACTCAAA
Statistics
Matches: 289, Mismatches: 19, Indels: 26
0.87 0.06 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 128 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:11607699 original size:52 final size:52
Alignment explanation
Indices: 11607623--11607940 Score: 408
Period size: 52 Copynumber: 6.3 Consensus size: 52
11607613 TAGCTAAAGC
* *
11607623 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11607676 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
11607728 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11607780 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11607826 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * ** *
11607872 TATCACTTTCCACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11607924 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
11607941 ATCAGAAGTA
Statistics
Matches: 237, Mismatches: 18, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
46 83 0.35
47 2 0.01
48 2 0.01
52 132 0.56
53 18 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:11607888 original size:196 final size:196
Alignment explanation
Indices: 11607580--11607932 Score: 589
Period size: 196 Copynumber: 1.8 Consensus size: 196
11607570 TAAGTGTAGC
* * * * * *
11607580 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
*
11607645 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
11607710 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
11607775 T
196 T
*
11607776 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
* *
11607841 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCTCTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
11607906 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
11607933 GTCACTTGAT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 144 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATAACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:11607938 original size:98 final size:97
Alignment explanation
Indices: 11607580--11607946 Score: 483
Period size: 98 Copynumber: 3.7 Consensus size: 97
11607570 TAAGTGTAGC
* * *
11607580 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACT
11607645 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
11607679 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCAC--T----TTG
* *
11607744 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * * *
11607783 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTG
*
11607843 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
11607875 CACTTTCCACTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTT
11607940 GATCAGA
65 GATCAGA
11607947 AGTACTCAAA
Statistics
Matches: 236, Mismatches: 19, Indels: 27
0.84 0.07 0.10
Matches are distributed among these distances:
92 41 0.17
94 1 0.00
96 1 0.00
98 140 0.59
99 7 0.03
100 3 0.01
101 1 0.00
104 42 0.18
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:11612036 original size:25 final size:24
Alignment explanation
Indices: 11611983--11612036 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
11611973 GTTTTTCATT
**
11611983 ATGTTTTTGCTTGCTTTGCTGTTA
1 ATGTTTTTGCTTGCTTTGCTGCCA
11612007 ATGTTTTTGCTTGCTGTTGCTGCCA
1 ATGTTTTTGCTTGCT-TTGCTGCCA
*
11612032 CTGTT
1 ATGTT
11612037 CCAACAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.07, C:0.17, G:0.22, T:0.54
Consensus pattern (24 bp):
ATGTTTTTGCTTGCTTTGCTGCCA
Found at i:11613194 original size:34 final size:32
Alignment explanation
Indices: 11613155--11613232 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 32
11613145 CAGCAAAAGA
11613155 AAAGAACAATACAGAGAACAAAGGAGGAAGAAAC
1 AAAGAACAATACAGAG-ACAAAGGAGGAA-AAAC
* ** *
11613189 AAAGAATAATTTACTTAGGCAAAGGAGGAAAAAC
1 AAAGAACAA--TACAGAGACAAAGGAGGAAAAAC
11613223 AAAGAACAAT
1 AAAGAACAAT
11613233 TTACTTAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
32 1 0.03
34 20 0.54
35 11 0.30
36 5 0.14
ACGTcount: A:0.59, C:0.10, G:0.21, T:0.10
Consensus pattern (32 bp):
AAAGAACAATACAGAGACAAAGGAGGAAAAAC
Found at i:11613234 original size:34 final size:35
Alignment explanation
Indices: 11613173--11613239 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
11613163 ATACAGAGAA
*
11613173 CAAAGGAGGAAGAAACAAAGAATAATTTACTTAGG
1 CAAAGGAGGAAGAAACAAAGAACAATTTACTTAGG
11613208 CAAAGGAGGAA-AAACAAAGAACAATTTACTTA
1 CAAAGGAGGAAGAAACAAAGAACAATTTACTTA
11613240 AGCCTCTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 20 0.65
35 11 0.35
ACGTcount: A:0.54, C:0.10, G:0.19, T:0.16
Consensus pattern (35 bp):
CAAAGGAGGAAGAAACAAAGAACAATTTACTTAGG
Found at i:11613922 original size:21 final size:21
Alignment explanation
Indices: 11613896--11613947 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
11613886 CATTGTTTCT
* *
11613896 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
11613917 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
11613938 AATCTCACCG
1 AATCTCACCG
11613948 TCACCGCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.35, G:0.10, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:11624750 original size:17 final size:17
Alignment explanation
Indices: 11624724--11624759 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
11624714 GTAAAATTAA
11624724 TTTTTTTTAATA-TATT
1 TTTTTTTTAATATTATT
11624740 TTTTGTTTTAATATTATT
1 TTTT-TTTTAATATTATT
11624758 TT
1 TT
11624760 GAATGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTTTTTAATATTATT
Found at i:11637843 original size:59 final size:58
Alignment explanation
Indices: 11637750--11637899 Score: 203
Period size: 59 Copynumber: 2.6 Consensus size: 58
11637740 GTACTTGTGG
* **
11637750 CTTGTGA-TTGCGGTTGCTTTTAGTGCCCAAACAAATTCAATCCTTGACATGCTGGTT
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGCA
* * * *
11637807 CTTGTGACTTGTGGTTTACTTTTGGTGCCAAAACAAATTTAATCCTTGACATGCTGGCA
1 CTTGTGACTTGCGG-TTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGCA
* *
11637866 GTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACA
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACA
11637900 TAGCAACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 49 0.62
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (58 bp):
CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGCA
Found at i:11637994 original size:26 final size:26
Alignment explanation
Indices: 11637941--11637996 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
11637931 AATGTCACAC
* *
11637941 ATTTTGAAGCTTCATTTTCTTTGATT
1 ATTTTGAAGCTTCAATTTCTATGATT
*
11637967 ATTTTGAA-CTTCAATTTCATATGCTT
1 ATTTTGAAGCTTCAATTTC-TATGATT
11637993 ATTT
1 ATTT
11637997 CAGATGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.55
Consensus pattern (26 bp):
ATTTTGAAGCTTCAATTTCTATGATT
Found at i:11638516 original size:120 final size:120
Alignment explanation
Indices: 11638384--11639203 Score: 1428
Period size: 120 Copynumber: 6.8 Consensus size: 120
11638374 GTAGTATTAT
* * *
11638384 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAATTATA
1 ATATATTATGATTTCAGTAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATA
* * * * *
11638448 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
65 TATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
* * * *
11638504 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTACTAAATTATA
1 ATATATTATGATTTCAGTAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATA
* *
11638568 TATTTTTATTAAATTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
65 TATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
* *
11638624 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
11638689 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
11638744 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
*
11638809 AGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
*
11638864 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
11638929 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
11638984 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
*
11639049 AGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
11639104 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
*
11639169 ATTTTAATTAAAATATATTTATTAATAATTATGTT
66 ATTTTAATTAAAATATATTTAATAATAATTATGTT
11639204 TAAATATGAT
Statistics
Matches: 679, Mismatches: 20, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
119 4 0.01
120 675 0.99
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
Found at i:11639186 original size:16 final size:16
Alignment explanation
Indices: 11639152--11639193 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
11639142 ATTATTAAGA
11639152 ATTTTATTAAATTATAT
1 ATTTTATTAAA-TATAT
11639169 ATTTTAATTAAA-ATAT
1 ATTTT-ATTAAATATAT
11639185 A-TTTATTAA
1 ATTTTATTAA
11639194 TAATTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.21
15 3 0.12
16 5 0.21
17 5 0.21
18 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAATATAT
Found at i:11639194 original size:18 final size:18
Alignment explanation
Indices: 11639152--11639186 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11639142 ATTATTAAGA
*
11639152 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
11639169 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
11639187 TTATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:11639456 original size:16 final size:16
Alignment explanation
Indices: 11639422--11639474 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
11639412 GATTAGCTAT
11639422 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
11639439 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11639455 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11639471 TACA
1 TACA
11639475 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 24 0.67
17 12 0.33
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11642434 original size:59 final size:58
Alignment explanation
Indices: 11642341--11642490 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
11642331 GTACTTGTGG
* *
11642341 CTTGTGA-TTGCGGTTGCTTTTAGTGCCTAAACAAATTCAATCCTTGACATGCTGGTT
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
* * * *
11642398 CTTGTGACTTGTGGTTTACTTTTGGTGCCAAAACAAATTTAATCCTTGACATGCTGGTA
1 CTTGTGACTTGCGG-TTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
* *
11642457 GTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACA
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACA
11642491 TAGCAACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (58 bp):
CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
Found at i:11642585 original size:26 final size:26
Alignment explanation
Indices: 11642532--11642587 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
11642522 AATGTCACAC
* *
11642532 ATTTTGAAGCTTCATTTTCTTTGATT
1 ATTTTGAAGCTTCAATTTCTATGATT
*
11642558 ATTTTGAA-CTTCAATTTCATATGCTT
1 ATTTTGAAGCTTCAATTTC-TATGATT
11642584 ATTT
1 ATTT
11642588 CAGATGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.55
Consensus pattern (26 bp):
ATTTTGAAGCTTCAATTTCTATGATT
Found at i:11643114 original size:120 final size:120
Alignment explanation
Indices: 11642977--11643796 Score: 1419
Period size: 120 Copynumber: 6.8 Consensus size: 120
11642967 GTAGTATTAT
* * *
11642977 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAATTATA
1 ATATATTATGATTTCAGTAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATA
* * * * *
11643041 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
65 TATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
* * * *
11643097 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTACTAAATTATA
1 ATATATTATGATTTCAGTAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATA
* *
11643161 TATTTTTATTAAATTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
65 TATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
* *
11643217 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
11643282 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
11643337 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
* *
11643402 AGTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
*
11643457 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
*
11643522 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATT
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
11643577 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
*
11643642 AGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
11643697 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
11643762 ATTTTAATTAAAATATATTTAATAATAATTATGTT
66 ATTTTAATTAAAATATATTTAATAATAATTATGTT
11643797 TAAATATGAT
Statistics
Matches: 676, Mismatches: 23, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
119 4 0.01
120 672 0.99
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
Found at i:11643773 original size:18 final size:17
Alignment explanation
Indices: 11643745--11643779 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11643735 ATTATTAAGA
*
11643745 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11643762 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11643780 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11646873 original size:40 final size:40
Alignment explanation
Indices: 11646820--11646956 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 40
11646810 ATTTTGGATA
* *
11646820 AATTTTTAAAATAAATTGTGATAATTTTCATTTTAAAAAT
1 AATTTATAAAATAAATTGAGATAATTTTCATTTTAAAAAT
* * *
11646860 AATTTATACAATAAATTGGGATAACTTTTGC-TTTTAAAAGT
1 AATTTATAAAATAAATTGAGATAA-TTTT-CATTTTAAAAAT
** *
11646901 AATTT-T-TTA-AAATTCAGATAATTTTCATTTTAAAAAT
1 AATTTATAAAATAAATTGAGATAATTTTCATTTTAAAAAT
*
11646938 AATTTA-AAAATAAACTGAG
1 AATTTATAAAATAAATTGAG
11646957 TTAAATTTGT
Statistics
Matches: 78, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
36 1 0.01
37 18 0.23
38 11 0.14
39 7 0.09
40 22 0.28
41 18 0.23
42 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (40 bp):
AATTTATAAAATAAATTGAGATAATTTTCATTTTAAAAAT
Found at i:11654751 original size:15 final size:15
Alignment explanation
Indices: 11654731--11654767 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
11654721 TATAATTGTA
*
11654731 CAAATATTTGTTATT
1 CAAATATTTGATATT
11654746 CAAATA-TTGATATT
1 CAAATATTTGATATT
11654760 -AAATATTT
1 CAAATATTT
11654768 TTCACTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (15 bp):
CAAATATTTGATATT
Found at i:11658002 original size:29 final size:28
Alignment explanation
Indices: 11657949--11658028 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 28
11657939 TTTAAAGAAA
11657949 TTTTAAAAATTCAGAAAAATATAAAAATAT
1 TTTTAAAAATT-A-AAAAATATAAAAATAT
*
11657979 TTTTAAAAATT-AAAAATCATTAAAATTAT
1 TTTTAAAAATTAAAAAAT-A-TAAAAATAT
*
11658008 TTTAAAAATATTAAAAAATAT
1 TTTTAAAA-ATTAAAAAATAT
11658029 TTTTAATACT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
27 6 0.14
28 1 0.02
29 16 0.36
30 15 0.34
31 6 0.14
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.38
Consensus pattern (28 bp):
TTTTAAAAATTAAAAAATATAAAAATAT
Found at i:11658024 original size:21 final size:21
Alignment explanation
Indices: 11657988--11658031 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11657978 TTTTTAAAAA
*
11657988 TTAAAAATCATTAAAATTATT
1 TTAAAAATCATTAAAAATATT
11658009 TTAAAAAT-ATTAAAAAATATT
1 TTAAAAATCATT-AAAAATATT
11658030 TT
1 TT
11658032 TAATACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAAAATCATTAAAAATATT
Found at i:11662236 original size:16 final size:17
Alignment explanation
Indices: 11662211--11662250 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
11662201 GCCTAAATGC
11662211 CAAA-CCCAAAT-AAAA
1 CAAAGCCCAAATCAAAA
*
11662226 CAAAGCCCAAATCCAAA
1 CAAAGCCCAAATCAAAA
11662243 C-AAGCCCA
1 CAAAGCCCA
11662251 TTACAGCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.55, C:0.35, G:0.05, T:0.05
Consensus pattern (17 bp):
CAAAGCCCAAATCAAAA
Found at i:11684494 original size:44 final size:43
Alignment explanation
Indices: 11684397--11684638 Score: 152
Period size: 44 Copynumber: 5.5 Consensus size: 43
11684387 AAGAATTTCA
* * * * *
11684397 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATT-GAAGCTG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAG
* * *
11684439 GTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAG
1 G--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATC-AG
* * * ***
11684485 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAG
* * * * *
11684527 G-TCTTATTTCCTTGAGATTACAGTGGAACAGACTGAAGAATTTTA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TCAG
* * *
11684572 GATCTTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-CAG
* *
11684616 GATCTTATCTCTCTGAGGTTACA
1 GATCTTATCTCCCTGAGATTACA
11684639 TAGAGTAGAT
Statistics
Matches: 152, Mismatches: 34, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
41 23 0.15
42 6 0.04
43 5 0.03
44 79 0.52
45 7 0.05
46 32 0.21
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAG
Found at i:11685225 original size:16 final size:17
Alignment explanation
Indices: 11685200--11685239 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
11685190 GCCCAAATGC
11685200 CAAA-CCCAAAT-AAAA
1 CAAAGCCCAAATCAAAA
*
11685215 CAAAGCCCAAATCCAAA
1 CAAAGCCCAAATCAAAA
11685232 C-AAGCCCA
1 CAAAGCCCA
11685240 TTACAACAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.55, C:0.35, G:0.05, T:0.05
Consensus pattern (17 bp):
CAAAGCCCAAATCAAAA
Found at i:11695957 original size:23 final size:22
Alignment explanation
Indices: 11695906--11695957 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
11695896 CCTCGTCTTT
*
11695906 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
11695928 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
11695951 TTCTTTT
1 TTCTTTT
11695958 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:11695966 original size:12 final size:12
Alignment explanation
Indices: 11695915--11695969 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
11695905 TTTCTTTTGT
11695915 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
11695928 -TCATTTTC-TC
1 TTCTTTTTCAAC
11695938 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
11695951 TTCTTTTTCAAT
1 TTCTTTTTCAAC
11695963 TTCTTTT
1 TTCTTTT
11695970 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:11695976 original size:17 final size:18
Alignment explanation
Indices: 11695951--11695988 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
11695941 TTTCTTCAAC
* *
11695951 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
11695968 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
11695986 TTC
1 TTC
11695989 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:11700550 original size:2 final size:2
Alignment explanation
Indices: 11700545--11700569 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11700535 GAAAAAACAT
11700545 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
11700570 AGGGAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11705848 original size:18 final size:19
Alignment explanation
Indices: 11705801--11705851 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
11705791 TAGTTTTTGA
* *
11705801 TTTTTATATTATTTTTAAT
1 TTTTTATAATATATTTAAT
* *
11705820 TATTTAAAATATATTT-AT
1 TTTTTATAATATATTTAAT
11705838 TTTTTATAATATAT
1 TTTTTATAATATAT
11705852 AATAAATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTATAATATATTTAAT
Found at i:11705855 original size:25 final size:24
Alignment explanation
Indices: 11705805--11705855 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
11705795 TTTTGATTTT
* *
11705805 TATATTATTTTTAATTATTTAAAA
1 TATATTATTTTTAATAATATAAAA
* *
11705829 TATATTTATTTTTTATAATATATAA
1 TATA-TTATTTTTAATAATATAAAA
11705854 TA
1 TA
11705856 AATATATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATTATTTTTAATAATATAAAA
Found at i:11709176 original size:11 final size:11
Alignment explanation
Indices: 11709160--11709208 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
11709150 CTCTCTTTAT
11709160 ATTTTTTTAGA
1 ATTTTTTTAGA
11709171 ATTTTTTTAGA
1 ATTTTTTTAGA
11709182 A--TTTTT-GA
1 ATTTTTTTAGA
*
11709190 ATTTTTTTTGTA
1 ATTTTTTTAG-A
11709202 ATTTTTT
1 ATTTTTT
11709209 GTTGAGAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 5 0.15
11 13 0.38
12 8 0.24
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (11 bp):
ATTTTTTTAGA
Found at i:11709191 original size:19 final size:21
Alignment explanation
Indices: 11709163--11709207 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
11709153 TCTTTATATT
11709163 TTTTTAGAATTTTTTTAG-AA
1 TTTTTAGAATTTTTTTAGTAA
*
11709183 TTTTT-GAATTTTTTTTGTAA
1 TTTTTAGAATTTTTTTAGTAA
11709203 TTTTT
1 TTTTT
11709208 TGTTGAGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (21 bp):
TTTTTAGAATTTTTTTAGTAA
Found at i:11718771 original size:31 final size:31
Alignment explanation
Indices: 11718736--11718797 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
11718726 TAATGATTGA
11718736 AGATGATATTCCTTGATGATGGGACTAACTT
1 AGATGATATTCCTTGATGATGGGACTAACTT
11718767 AGATGATATTCCTTGATGATGGGACTAACTT
1 AGATGATATTCCTTGATGATGGGACTAACTT
11718798 TATTTCTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (31 bp):
AGATGATATTCCTTGATGATGGGACTAACTT
Found at i:11734941 original size:114 final size:115
Alignment explanation
Indices: 11734816--11735035 Score: 273
Period size: 115 Copynumber: 1.9 Consensus size: 115
11734806 ATTCCATTAA
* * *
11734816 TTTGTGATGCTAATTTAATTTGATATTTTAAATTTT-TTAATTAAATTGAG-GTCTGATTAACTT
1 TTTGTGATGCTAATTTAATTTAATATTTTAAATTTTATTAATT-AATTGAGTATCCGATTAACTT
* * * ** * *
11734879 GTAATGTCAACTTTGTCAAGGGTTTAATATTAGTATTGATATTTTCATAAG
65 GTAATATCAACTCTATCAAAAGTTTAATATTAATATTCATATTTTCATAAG
* * * * *
11734930 TTTGTGATGCTATTTTAATTTAATTTTTTAATTTTTATTAATTGATTTAGTATCCGATTAACTTG
1 TTTGTGATGCTAATTTAATTTAATATTTTAAATTTTATTAATTAATTGAGTATCCGATTAACTTG
*
11734995 TGATATCAACTCTATCAAAAGTTTAATATTAATATTCATAT
66 TAATATCAACTCTATCAAAAGTTTAATATTAATATTCATAT
11735036 AGATACTATT
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
114 37 0.42
115 51 0.58
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (115 bp):
TTTGTGATGCTAATTTAATTTAATATTTTAAATTTTATTAATTAATTGAGTATCCGATTAACTTG
TAATATCAACTCTATCAAAAGTTTAATATTAATATTCATATTTTCATAAG
Found at i:11738289 original size:27 final size:27
Alignment explanation
Indices: 11738251--11738306 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
11738241 CGAAGATTCC
*
11738251 AAGTATCGAATATTGCCTTTATTTAGA
1 AAGTATCGAATATTGCATTTATTTAGA
11738278 AAGTATCGAATATTGCATTTATTTAGA
1 AAGTATCGAATATTGCATTTATTTAGA
11738305 AA
1 AA
11738307 AACTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (27 bp):
AAGTATCGAATATTGCATTTATTTAGA
Found at i:11740503 original size:44 final size:45
Alignment explanation
Indices: 11740411--11740522 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 45
11740401 AAAATCCGCC
* * * **
11740411 ATCTTCGACCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTA
1 ATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATCTGTA
* *
11740455 ATCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGA-CTTGT-
1 ATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATC-TGTA
*
11740499 ATCTTCAACCTGCTCCACTGCAAC
1 ATCTTCAACCTACTCCACTGCAAC
11740523 CGATGGAGGC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 41 0.73
45 15 0.27
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (45 bp):
ATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATCTGTA
Found at i:11740656 original size:87 final size:87
Alignment explanation
Indices: 11740498--11741330 Score: 1256
Period size: 87 Copynumber: 9.6 Consensus size: 87
11740488 ATAAGACTTG
* * * *
11740498 TATCTTCAACCTGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGACCAGCTTCGCTGTT
1 TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTT
* *
11740563 AATGCAGGAAGGCAAGATATGT
66 AATGCAGGAAGGCAAGATCTGC
*
11740585 TGTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTT
1 TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTT
11740650 AATGCAGGAAGGCAAGATCTGC
66 AATGCAGGAAGGCAAGATCTGC
* * *
11740672 TATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTCTTTTCGATCTGCTTCGTTGTT
1 TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTT
11740737 AATGCAGGAAGGCAAGATCTGC
66 AATGCAGGAAGGCAAGATCTGC
* *
11740759 TATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTTGATCTGCTTCGCTGTT
1 TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTT
*
11740824 AATGCAGGAAGGCAAGATCTGT
66 AATGCAGGAAGGCAAGATCTGC
* * * * **
11740846 TGTCTTCAACCAGCTCCGCTACAACCGA-GAGAGGCAAGGTTTGTGTCATCGATCTGCTTCGCTG
1 TATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGTTT-TGTTTTCGATCTGCTTCGCTG
*
11740910 TTAATGCAGGAAGGCAAGATCTGT
64 TTAATGCAGGAAGGCAAGATCTGC
* * * *
11740934 TGTCTTTAACCAGCTCCGCTACAACCGA-GAGAGGCAAGGTTTTGTTTTCGATCTGCTTCGTTGT
1 TATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGT
* **
11740998 TAACGCAGGAAAACAAGATCTGC
65 TAATGCAGGAAGGCAAGATCTGC
* * *
11741021 TATCTTTATCCAGCTCTACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGTTGTT
1 TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTT
*
11741086 AACGCAGGAAGGCAAGATCTGC
66 AATGCAGGAAGGCAAGATCTGC
*
11741108 TATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTT
1 TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTT
11741173 AATGCAGGAAGGCAAGATCTGC
66 AATGCAGGAAGGCAAGATCTGC
* * * * *
11741195 TATCTTTGACTAGCTCCACTGCAACCGATGGAGGCAAGGTTTTCTTTTCGATCTACTTCGTTGTT
1 TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTT
*
11741260 AATGTAGGAAGGCAAGATCTGC
66 AATGCAGGAAGGCAAGATCTGC
* * *
11741282 TATCTTTATCCAGCCCCACTGCAACCGATGGAGGCAAGGTTTTGCTTTC
1 TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
11741331 AATTTTTACT
Statistics
Matches: 687, Mismatches: 56, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
86 1 0.00
87 602 0.88
88 84 0.12
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (87 bp):
TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTT
AATGCAGGAAGGCAAGATCTGC
Found at i:11740925 original size:44 final size:44
Alignment explanation
Indices: 11740529--11740927 Score: 130
Period size: 43 Copynumber: 9.2 Consensus size: 44
11740519 CAACCGATGG
* * *
11740529 AGGCAAGGTTT-TGTTTTCGACCAGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * ** * * * * * *
11740572 AGGCAAGATATGTTGTCTTTAACCAGCTCCACTG-CAA-CCGATGG-
1 AGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTTAATGC-A-GGA
*
11740616 AGGCAAGGTTT-TGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * * * * * * * *
11740659 AGGCAAGATCTGCTATCTTTGACCAGCTCCACTG-CAA-CCGATGG-
1 AGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTTAATGC-A-GGA
* * *
11740703 AGGCAAGGTTT-TCTTTTCGATCTGCTTCGTTGTTAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * * * * * * *
11740746 AGGCAAGATCTGCTATCTT-TATCCAGCTCCACTG-CAA-CCGATGG-
1 AGGCAAGGTTTG-TGTCTTCGAT-CTGCTTCGCTGTTAATGC-A-GGA
* *
11740790 AGGCAAGGTTT-TGTTTTTGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * * * * ** *
11740833 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAA--CCGAGA
1 AGGCAAGGTTTG-TGTCTTCGATCTGCTTCGCTGTTAATGCAG-GA
*
11740876 GAGGCAAGGTTTGTGTCATCGATCTGCTTCGCTGTTAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
11740921 AGGCAAG
1 AGGCAAG
11740928 ATCTGTTGTC
Statistics
Matches: 241, Mismatches: 85, Indels: 59
0.63 0.22 0.15
Matches are distributed among these distances:
42 47 0.20
43 67 0.28
44 62 0.26
45 63 0.26
46 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
Found at i:11740969 original size:44 final size:44
Alignment explanation
Indices: 11740833--11740971 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
11740823 TAATGCAGGA
11740833 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
* * * * * * * ** *
11740877 AGGCAAGGTTTG-TGTCATCGATCTGCTTCGCTGTTAA-TGCAG-G
1 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAACCG-AGAG
*
11740920 AAGGCAAGATCTGTTGTCTTTAACCAGCTCCGCTACAACCGAGAG
1 -AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
11740965 AGGCAAG
1 AGGCAAG
11740972 GTTTTGTTTT
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
43 17 0.25
44 35 0.51
45 16 0.24
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (44 bp):
AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
Found at i:11742539 original size:14 final size:14
Alignment explanation
Indices: 11742520--11742574 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
11742510 TTAGCCTATC
11742520 CATTTTT-ACTCTTT
1 CATTTTTCA-TCTTT
*
11742534 CATTTTTCATTTTT
1 CATTTTTCATCTTT
*
11742548 CATTTTCCAT-TTT
1 CATTTTTCATCTTT
*
11742561 CATTCTTCATCTTT
1 CATTTTTCATCTTT
11742575 TTCTTTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.31
14 23 0.66
15 1 0.03
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.64
Consensus pattern (14 bp):
CATTTTTCATCTTT
Found at i:11742543 original size:7 final size:7
Alignment explanation
Indices: 11742531--11742575 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
11742521 ATTTTTACTC
11742531 TTTCATT
1 TTTCATT
11742538 TTTCATT
1 TTTCATT
11742545 TTTCATT
1 TTTCATT
*
11742552 TTCCA-T
1 TTTCATT
11742558 TTTCATT
1 TTTCATT
*
11742565 CTTCATCT
1 TTTCAT-T
11742573 TTT
1 TTT
11742576 TCTTTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 5 0.16
7 24 0.75
8 3 0.09
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTCATT
Found at i:11742974 original size:6 final size:6
Alignment explanation
Indices: 11742960--11742998 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
11742950 TGATTTCTCT
*
11742960 TTTTG- TTTTTA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
11742999 TTTCTCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:11742980 original size:12 final size:12
Alignment explanation
Indices: 11742931--11742998 Score: 63
Period size: 12 Copynumber: 5.9 Consensus size: 12
11742921 TTCTTTTCAT
11742931 ATTTT-ATTTTG
1 ATTTTGATTTTG
*
11742942 ACTTTGA--TTG
1 ATTTTGATTTTG
**
11742952 ATTTCTCTTTTTG
1 ATTT-TGATTTTG
*
11742965 -TTTTTATTTTG
1 ATTTTGATTTTG
11742976 ATTTTGATTTTG
1 ATTTTGATTTTG
11742988 ATTTTGATTTT
1 ATTTTGATTTT
11742999 TTTCTCTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
10 6 0.13
11 11 0.24
12 25 0.56
13 3 0.07
ACGTcount: A:0.15, C:0.04, G:0.12, T:0.69
Consensus pattern (12 bp):
ATTTTGATTTTG
Found at i:11745579 original size:19 final size:19
Alignment explanation
Indices: 11745555--11745600 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11745545 GTGAAACTCT
*
11745555 AATGCATATG-ATGCAATAG
1 AATGCAAATGCATGCAAT-G
*
11745574 AATGCAAATGCATGGAATG
1 AATGCAAATGCATGCAATG
11745593 AATGCAAA
1 AATGCAAA
11745601 AGAAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGCAATG
Found at i:11749695 original size:17 final size:16
Alignment explanation
Indices: 11749673--11749713 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
11749663 AATTTGACTT
11749673 AAAAAAATTTATAACTC
1 AAAAAAATTTAT-ACTC
*
11749690 AAAAAAAATTATACTC
1 AAAAAAATTTATACTC
11749706 AAAAAAAT
1 AAAAAAAT
11749714 CCCAACTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAAATTTATACTC
Found at i:11758857 original size:24 final size:24
Alignment explanation
Indices: 11758829--11758880 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11758819 TTAGTAAGTC
*
11758829 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATGCT
* *
11758853 AAATATATTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATGCT
11758877 AAAT
1 AAAT
11758881 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATGCT
Found at i:11760539 original size:47 final size:49
Alignment explanation
Indices: 11760415--11760546 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 49
11760405 GGCAATGAGT
* *
11760415 GTGCCAGTGTAAGACCATGTTTGGGATATGGCATCGACACGGATAGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-GATAGAGGA
* * * * * *
11760465 GAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTC-A-AGATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGATAGAGGA
*
11760512 GTGCCAGTGTAAGACCATGTCTGGGACATGACATC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATC
11760547 AGCACCGATA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
47 36 0.51
48 1 0.01
50 33 0.47
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (49 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGATAGAGGA
Found at i:11760700 original size:45 final size:44
Alignment explanation
Indices: 11760644--11760763 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 44
11760634 ATTAATGAAA
*
11760644 ATAAAGGTGATTGCTATGTGCTGATTTCACCGGATACCAATG-GTT
1 ATAAATGTGATTGCTATGTGCTGATTTCACCGG-TACCAATGAG-T
* * *
11760689 ATATAA-GTGATTGCTATGTGTTGAATTCACCCGGTACCATTGAGT
1 ATA-AATGTGATTGCTATGTGCTGATTTCA-CCGGTACCAATGAGT
*
11760734 ATAAATGTGGTTGCTATGTGCTGATTTCAC
1 ATAAATGTGATTGCTATGTGCTGATTTCAC
11760764 TGAGTGCTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
44 3 0.05
45 55 0.85
46 7 0.11
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (44 bp):
ATAAATGTGATTGCTATGTGCTGATTTCACCGGTACCAATGAGT
Found at i:11763764 original size:24 final size:24
Alignment explanation
Indices: 11763736--11763788 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
11763726 TTAGTAAGTC
* *
11763736 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
11763760 AAATATATTATATTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11763784 AAATA
1 AAATA
11763789 TTCTAGAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11764246 original size:33 final size:34
Alignment explanation
Indices: 11764185--11764248 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
11764175 TATAATCCTG
* *
11764185 ATAAAATTTTTAATTATTGTTCAAATGAAATAAA
1 ATAAAATTTATAATTATTCTTCAAATGAAATAAA
11764219 ATAAAATTTATAATT-TTCTTCAAATGAAAT
1 ATAAAATTTATAATTATTCTTCAAATGAAAT
11764249 GAATATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (34 bp):
ATAAAATTTATAATTATTCTTCAAATGAAATAAA
Found at i:11765709 original size:3 final size:3
Alignment explanation
Indices: 11765703--11765733 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11765693 TTCTTCTTCT
11765703 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
11765734 TGCCCTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:11766657 original size:49 final size:47
Alignment explanation
Indices: 11766585--11766679 Score: 145
Period size: 49 Copynumber: 2.0 Consensus size: 47
11766575 TGTATGGTAG
* *
11766585 TTGTTATAATTAGTTATTTCATTACTTTCTTTTTACAGATTATTCTTTA
1 TTGTTATAATTAGTTATTCCATTAC-TT-TTTTCACAGATTATTCTTTA
*
11766634 TTGTTATAATTAGTTATTCCATTACTTTTTTCCCAGATTATTCTTT
1 TTGTTATAATTAGTTATTCCATTACTTTTTTCACAGATTATTCTTT
11766680 CATATAGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 17 0.40
48 2 0.05
49 24 0.56
ACGTcount: A:0.23, C:0.13, G:0.06, T:0.58
Consensus pattern (47 bp):
TTGTTATAATTAGTTATTCCATTACTTTTTTCACAGATTATTCTTTA
Found at i:11775646 original size:12 final size:12
Alignment explanation
Indices: 11775629--11775654 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11775619 AAACTTGGAT
11775629 GAGGATGAGGAA
1 GAGGATGAGGAA
11775641 GAGGATGAGGAA
1 GAGGATGAGGAA
11775653 GA
1 GA
11775655 TCCTTTGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (12 bp):
GAGGATGAGGAA
Found at i:11795554 original size:18 final size:18
Alignment explanation
Indices: 11795531--11795568 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
11795521 TCTAGACATA
11795531 TATATTTTTTAATAATTT
1 TATATTTTTTAATAATTT
*
11795549 TATATTTTTTTATAATTT
1 TATATTTTTTAATAATTT
11795567 TA
1 TA
11795569 AAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATATTTTTTAATAATTT
Found at i:11798697 original size:22 final size:22
Alignment explanation
Indices: 11798662--11798723 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
11798652 AATAAAATGA
*
11798662 AATTTATTTAATTACTATATATT
1 AATTT-TTAAATTACTATATATT
* *
11798685 AATTTTTAAATTATTATATTTT
1 AATTTTTAAATTACTATATATT
* *
11798707 TATTTTTATAATGACTA
1 AATTTTTA-AATTACTA
11798724 AATTTATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (22 bp):
AATTTTTAAATTACTATATATT
Found at i:11800647 original size:21 final size:21
Alignment explanation
Indices: 11800615--11800655 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11800605 AGGCTCGAGG
11800615 GGCCTGTTTTAGACC-ATACAA
1 GGCCTGTTTTAG-CCTATACAA
11800636 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
11800656 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:11807733 original size:2 final size:2
Alignment explanation
Indices: 11807726--11807768 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
11807716 CACTACATAT
11807726 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11807768 T
1 T
11807769 ATGAGAGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11812043 original size:3 final size:3
Alignment explanation
Indices: 11812035--11812065 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11812025 TTTTCTACAT
11812035 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
11812066 GACTCATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:11814210 original size:19 final size:19
Alignment explanation
Indices: 11814186--11814228 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
11814176 AATCTTCAGG
11814186 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
11814205 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
11814224 GATAT
1 GATAT
11814229 GCATTTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:11814238 original size:19 final size:18
Alignment explanation
Indices: 11814197--11814251 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
11814187 ATATACAATC
*
11814197 TTAGATATGATAT-ATAATC
1 TTAGATATGATATGAT--TT
11814216 TTAGATATGATATGCATTT
1 TTAGATATGATATG-ATTT
11814235 TTAGA-A-GATATGATTT
1 TTAGATATGATATGATTT
11814251 T
1 T
11814252 GTAATATTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 5 0.15
17 6 0.18
18 1 0.03
19 19 0.58
21 2 0.06
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (18 bp):
TTAGATATGATATGATTT
Found at i:11814778 original size:25 final size:25
Alignment explanation
Indices: 11814750--11814800 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
11814740 TCTTTTTTCA
11814750 TTTTCT-TTATTTTTTATTAATTAGT
1 TTTTCTATTATTTTTTA-TAATTAGT
* * *
11814775 TTTTTTATTCTTTTTTATATTTAGT
1 TTTTCTATTATTTTTTATAATTAGT
11814800 T
1 T
11814801 ATTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTCTATTATTTTTTATAATTAGT
Found at i:11814899 original size:21 final size:20
Alignment explanation
Indices: 11814874--11814927 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
11814864 ATATAATTAT
11814874 TATTATTATTTATTTATATG
1 TATTATTATTTATTTATATG
* *
11814894 TAATTATTTTTTATCTATATG
1 T-ATTATTATTTATTTATATG
11814915 TA-TA-TATTTATTT
1 TATTATTATTTATTT
11814928 TAGTATACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 2 0.07
20 2 0.07
21 18 0.62
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TATTATTATTTATTTATATG
Found at i:11814918 original size:27 final size:27
Alignment explanation
Indices: 11814867--11814919 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
11814857 TAGTATAATA
*
11814867 TAATTATTATTATTATTTATTTATATG
1 TAATTATTATTATTATTTATGTATATG
11814894 TAATTATT-TT-TTATCTATATGTATAT
1 TAATTATTATTATTAT-T-TATGTATAT
11814920 ATTTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 4 0.17
26 3 0.13
27 16 0.70
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (27 bp):
TAATTATTATTATTATTTATGTATATG
Found at i:11816688 original size:17 final size:17
Alignment explanation
Indices: 11816640--11816688 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
11816630 TCTCCTAACA
* *
11816640 GAGCTCCCATCTTTGGT
1 GAGCTCGCATCTTTGAT
*
11816657 GAGCTCGGA-CATTTGAT
1 GAGCTCGCATC-TTTGAT
11816674 GAGCTCGCATCTTTG
1 GAGCTCGCATCTTTG
11816689 CAATTTGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (17 bp):
GAGCTCGCATCTTTGAT
Found at i:11820636 original size:23 final size:23
Alignment explanation
Indices: 11820610--11820685 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
11820600 ATAAGTGCCA
*
11820610 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGTCGAAGCTAC
* *
11820633 CACTAAAATGTAGTC-ATAGCTAC
1 CACTGATATGTAGTCGA-AGCTAC
11820656 CACTGA-ATTGTAGTCGAAGCTAC
1 CACTGATA-TGTAGTCGAAGCTAC
11820679 CACTGAT
1 CACTGAT
11820686 CAATAATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
22 2 0.04
23 42 0.93
24 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGTCGAAGCTAC
Found at i:11826969 original size:24 final size:24
Alignment explanation
Indices: 11826942--11826996 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
11826932 CTATATGTTA
* *
11826942 CCTTAGTGGCGTATTGTGTTTGGC
1 CCTTAGTGGCGTACTCTGTTTGGC
*
11826966 CCTTA-TGGTGTACTCTGTTTGGC
1 CCTTAGTGGCGTACTCTGTTTGGC
11826989 CCTT-GTGG
1 CCTTAGTGG
11826997 TGAATTATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.07, C:0.20, G:0.31, T:0.42
Consensus pattern (24 bp):
CCTTAGTGGCGTACTCTGTTTGGC
Found at i:11830817 original size:12 final size:12
Alignment explanation
Indices: 11830800--11830830 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11830790 CTCTAGTTTT
11830800 CACACGGCCTAG
1 CACACGGCCTAG
*
11830812 CACACGGCCTGG
1 CACACGGCCTAG
11830824 CACACGG
1 CACACGG
11830831 GCGTGTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:11832498 original size:23 final size:23
Alignment explanation
Indices: 11832468--11832584 Score: 155
Period size: 23 Copynumber: 5.1 Consensus size: 23
11832458 TATTGGTCAC
*
11832468 TGGTAGCTTCAGCTACA-ATTCAG
1 TGGTAGCTTCGGCTACATA-TCAG
* *
11832491 TGGTAGCTACGGCTACATATCAT
1 TGGTAGCTTCGGCTACATATCAG
* *
11832514 TGGTAGCTTCGACTACATTTCAG
1 TGGTAGCTTCGGCTACATATCAG
*
11832537 TGGTAGCTACGGCTACATATCAG
1 TGGTAGCTTCGGCTACATATCAG
*
11832560 TGGTAACTTCGGCTACATATCAG
1 TGGTAGCTTCGGCTACATATCAG
11832583 TG
1 TG
11832585 TGGCACTTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
23 80 0.99
24 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (23 bp):
TGGTAGCTTCGGCTACATATCAG
Found at i:11847087 original size:21 final size:21
Alignment explanation
Indices: 11847050--11847089 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11847040 AAAGTAAAAA
*
11847050 TTATTTACATAATTTTAAATT
1 TTATTTACAAAATTTTAAATT
11847071 TTATTTA-AAAATATTTAAA
1 TTATTTACAAAAT-TTTAAA
11847090 AATGTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATTTACAAAATTTTAAATT
Found at i:11847177 original size:55 final size:51
Alignment explanation
Indices: 11847118--11847279 Score: 134
Period size: 55 Copynumber: 3.1 Consensus size: 51
11847108 GCTTGGAGAT
**
11847118 TTTTGGTAACTACCTTTTACAATTATTTTTAAAATTATTATAATTTTTTAAACAA
1 TTTTGGTAA-TAATTTTTACAATTATTTTTAAAATTATTAT-ATTTTTT--ACAA
* * * *
11847173 TTTTGGTTAATATTTTTTACATTTGTTTTTTTAAAATTATTATA-GTTTTACAA
1 TTTTGG-TAATAATTTTTACA-AT-TATTTTTAAAATTATTATATTTTTTACAA
* * *
11847226 TTTT--TAAATAATTTTTATAATTATTTTTAAGATTATTATGA-TTTTTAAAA
1 TTTTGGT-AATAATTTTTACAATTATTTTTAAAATTATTAT-ATTTTTTACAA
11847276 TTTT
1 TTTT
11847280 TAACAATTCT
Statistics
Matches: 90, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
49 16 0.18
50 14 0.16
51 11 0.12
53 8 0.09
55 19 0.21
56 5 0.06
57 17 0.19
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.57
Consensus pattern (51 bp):
TTTTGGTAATAATTTTTACAATTATTTTTAAAATTATTATATTTTTTACAA
Found at i:11847370 original size:29 final size:30
Alignment explanation
Indices: 11847338--11847418 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
11847328 TAAAAAAATA
*
11847338 AATTTTAAAGTTTTCTAAA-TATTTTTAC-T
1 AATTTTAAA-TTTTCTAAAGAATTTTTACAT
*
11847367 AATTTTTATATTTT-TAAAGAATTTTTACAT
1 AA-TTTTAAATTTTCTAAAGAATTTTTACAT
**
11847397 CTTTTTAAATTTTCTAAA-AATT
1 AATTTTAAATTTTCTAAAGAATT
11847419 ATATATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
28 4 0.09
29 28 0.65
30 11 0.26
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (30 bp):
AATTTTAAATTTTCTAAAGAATTTTTACAT
Found at i:11856552 original size:40 final size:40
Alignment explanation
Indices: 11856508--11856595 Score: 90
Period size: 42 Copynumber: 2.1 Consensus size: 40
11856498 TCGTAGGCTG
* *
11856508 CGTGTCACG-CCGTGTAACTCTCTGACTTGATACACAC-GAC
1 CGTGTCA-GACCGTGTAACTCACAGACTTGATACACACAG-C
* *
11856548 CGTGTTGCAGACTGTGTGACTCACAGACTTGATACACACAGC
1 CGTG-T-CAGACCGTGTAACTCACAGACTTGATACACACAGC
11856590 CGTGTC
1 CGTGTC
11856596 GCAGACCATG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
40 5 0.12
41 3 0.08
42 31 0.77
43 1 0.03
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (40 bp):
CGTGTCAGACCGTGTAACTCACAGACTTGATACACACAGC
Found at i:11856662 original size:29 final size:29
Alignment explanation
Indices: 11856582--11856662 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
11856572 AGACTTGATA
* *
11856582 CACACAGCCGTGTCGCAGACCATGTATGG
1 CACACGGCCGTGTCGCAGACCGTGTATGG
*
11856611 CACACGGCCGTGTCGCAAACCGTGTATGG
1 CACACGGCCGTGTCGCAGACCGTGTATGG
* *
11856640 CACACGGCCGTGTGGCAGCCCGT
1 CACACGGCCGTGTCGCAGACCGT
11856663 CTCCCAGGCT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.16
Consensus pattern (29 bp):
CACACGGCCGTGTCGCAGACCGTGTATGG
Found at i:11870426 original size:106 final size:105
Alignment explanation
Indices: 11870275--11870679 Score: 539
Period size: 106 Copynumber: 3.8 Consensus size: 105
11870265 AAATATACGA
* *
11870275 AAAAAATAAATAATTTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCAAAA
1 AAAAAA-AAAGAATTTTTTTTT-AAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC-AAA
* * *
11870340 TTTTTTTTTATTTTTTTCGTATATTTATTTTTTATTCTGACACG
63 TTTTTTTTT-TTTTTTTCGTATATTTATATCTGATTCTGACACG
* *
11870384 -AAAAAAAAGAATTTTTTTTTAATTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCAAA--T
1 AAAAAAAAAGAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAATTT
*
11870446 TTTTTTATTTTTTCGTATATTTATATCTGATTCTGACACG
66 TTTTTTTTTTTTTCGTATATTTATATCTGATTCTGACACG
*
11870486 AAAAAAAAAGAATTTTTTTTAAAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
1 AAAAAAAAAGAATTTTTTTT--TAAA-TTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAA
11870551 ATTTTTGTTATTTTTTATTT-GTATATTTATATCTGATTCTGACACG
62 ATTTTT-TT-TTTTTT-TTTCGTATATTTATATCTGATTCTGACACG
* * *
11870597 AAAAAAAATAAAAATATATTTTTTAAATTGTACTGGGTGCCGGCCATTGACAAGCCAGCACCAAA
1 -AAAAAAA-AAGAAT-TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAA
11870662 TTTTTTTTTTTGTTTTTC
63 TTTTTTTTTTT-TTTTTC
11870680 TTTTTTTCCT
Statistics
Matches: 265, Mismatches: 16, Indels: 30
0.85 0.05 0.10
Matches are distributed among these distances:
102 30 0.11
103 26 0.10
105 5 0.02
106 67 0.25
107 19 0.07
108 12 0.05
109 7 0.03
110 12 0.05
111 63 0.24
112 13 0.05
113 5 0.02
114 6 0.02
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (105 bp):
AAAAAAAAAGAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAATTT
TTTTTTTTTTTTTCGTATATTTATATCTGATTCTGACACG
Found at i:11874598 original size:12 final size:12
Alignment explanation
Indices: 11874581--11874607 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11874571 AATGGGACCT
11874581 GGAGGGCCGGGA
1 GGAGGGCCGGGA
11874593 GGAGGGCCGGGA
1 GGAGGGCCGGGA
11874605 GGA
1 GGA
11874608 CCTGGTGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.15, G:0.67, T:0.00
Consensus pattern (12 bp):
GGAGGGCCGGGA
Found at i:11874643 original size:30 final size:29
Alignment explanation
Indices: 11874575--11874645 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
11874565 TAGCAAAATG
* *
11874575 GGACCTGGAGGGCCGGGAGGAGGGCCGGGA
1 GGACCTGGTGGACCGGGAGGAGGG-CGGGA
11874605 GGACCTGGTGGACCGGGAGGATGGG-GAGGA
1 GGACCTGGTGGACCGGGAGGA-GGGCG-GGA
11874635 GGACCTGGTGG
1 GGACCTGGTGG
11874646 TTGGGGTCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 1 0.03
30 33 0.89
31 3 0.08
ACGTcount: A:0.17, C:0.17, G:0.58, T:0.08
Consensus pattern (29 bp):
GGACCTGGTGGACCGGGAGGAGGGCGGGA
Found at i:11877680 original size:9 final size:9
Alignment explanation
Indices: 11877661--11877715 Score: 85
Period size: 9 Copynumber: 6.2 Consensus size: 9
11877651 TCGGGTATTT
11877661 TTCGG-TAA
1 TTCGGTTAA
11877669 TTCGGTTAA
1 TTCGGTTAA
11877678 TTCGGTTAA
1 TTCGGTTAA
11877687 TTCGGTTAA
1 TTCGGTTAA
*
11877696 TTCGGGTAA
1 TTCGGTTAA
*
11877705 TTCGGGTAA
1 TTCGGTTAA
11877714 TT
1 TT
11877716 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
8 5 0.11
9 40 0.89
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:11877893 original size:12 final size:12
Alignment explanation
Indices: 11877876--11877900 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11877866 AGTAATTTCG
11877876 GGTCGGTTAACC
1 GGTCGGTTAACC
11877888 GGTCGGTTAACC
1 GGTCGGTTAACC
11877900 G
1 G
11877901 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:11880260 original size:2 final size:2
Alignment explanation
Indices: 11880253--11880289 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11880243 TCAAACCTTT
11880253 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11880290 TCAAAGCAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11887519 original size:37 final size:37
Alignment explanation
Indices: 11887462--11887547 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
11887452 ATAAGTGACA
11887462 AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
1 AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
* * *
11887499 AGTGATAAGTGGTAGTTTTAGCTGCACTTATCTGATC
1 AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
11887536 AGTGATAAGTGA
1 AGTGATAAGTGA
11887548 CAAGTGATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (37 bp):
AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
Found at i:11887557 original size:88 final size:86
Alignment explanation
Indices: 11887412--11887596 Score: 298
Period size: 88 Copynumber: 2.1 Consensus size: 86
11887402 ATCAGTGACA
*
11887412 AGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGTGATAAGTGATAG
1 AGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGTGATAAATGATA-
*
11887477 CTTTAGCTACACTTATCTGATC
65 CCTTAGCTACACTTATCTGATC
* *
11887499 AGTGATAAGTGGTAGTTTTAGCTGCACTTATCTGATCAGTGATAAGTGACAAGTGATAAATGGTA
1 AGTGATAAGTGGTAG-TTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGTGATAAATGATA
11887564 CCTTAGCTACACTTATCTGATC
65 CCTTAGCTACACTTATCTGATC
* *
11887586 GGTGACAAGTG
1 AGTGATAAGTG
11887597 ACAAGTGATA
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 45 0.49
88 46 0.51
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (86 bp):
AGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGTGATAAATGATAC
CTTAGCTACACTTATCTGATC
Found at i:11887579 original size:50 final size:50
Alignment explanation
Indices: 11887499--11887660 Score: 236
Period size: 50 Copynumber: 3.2 Consensus size: 50
11887489 TTATCTGATC
* **
11887499 AGTGATAAGTGGTAGTTTTAGCTGCACTTATCTGATCAGTGATAAGTGACA
1 AGTGATAAATGGTAGCCTTAGCTGCACTTATCTGATCAGTGA-AAGTGACA
* *
11887550 AGTGATAAATGGTA-CCTTAGCTACACTTATCTGATCGGTGACAAGTGACA
1 AGTGATAAATGGTAGCCTTAGCTGCACTTATCTGATCAGTGA-AAGTGACA
* *
11887600 AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGAAAGTGACA
1 AGTGATAAATGGTAGCCTTAGCTGCACTTATCTGATCAGTGAAAGTGACA
11887650 AGTGATAAATG
1 AGTGATAAATG
11887661 TGATCCATGT
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
50 62 0.63
51 37 0.37
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (50 bp):
AGTGATAAATGGTAGCCTTAGCTGCACTTATCTGATCAGTGAAAGTGACA
Found at i:11889310 original size:41 final size:40
Alignment explanation
Indices: 11889260--11889394 Score: 175
Period size: 41 Copynumber: 3.3 Consensus size: 40
11889250 GTAGGTATAT
* *
11889260 TGCCAGTGAATCAATTCAGGCTTAAAGCCTAGTAGGCTAAG
1 TGCCGGTGAATCAA-TCAGGCTTAAAGCCTAGCAGGCTAAG
*
11889301 TGCCGGTGAACTGAATCAGGC-TATAAGCCTAGCAGGCTAAG
1 TGCCGGTGAA-TCAATCAGGCTTA-AAGCCTAGCAGGCTAAG
*
11889342 TGCCGGTG-ATCTGAATCAGGCTTTAAGCCTAGCAGGCTAAG
1 TGCCGGTGAATC--AATCAGGCTTAAAGCCTAGCAGGCTAAG
11889383 TGCCGGTGAATC
1 TGCCGGTGAATC
11889395 TGTCTTATTT
Statistics
Matches: 83, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 72 0.87
42 7 0.08
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
TGCCGGTGAATCAATCAGGCTTAAAGCCTAGCAGGCTAAG
Found at i:11889605 original size:38 final size:38
Alignment explanation
Indices: 11889562--11889641 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
11889552 AATTGTTGGA
* *
11889562 TATATATATGTATGCATTCGACATATGTGAATT-ATAAG
1 TATATATATATATGCATTCGACACATGTG-ATTGATAAG
* * *
11889600 TATATATATATGTGCATTCGGCACATGTGGTTGATAAG
1 TATATATATATATGCATTCGACACATGTGATTGATAAG
11889638 TATA
1 TATA
11889642 ATTATTTGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (38 bp):
TATATATATATATGCATTCGACACATGTGATTGATAAG
Done.